Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2879421
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 64274 characters in sequence are not A, C, G, or T
File 10 of 17
Found at i:1611795 original size:13 final size:13
Alignment explanation
Indices: 1611777--1611814 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1611767 CATTTTTCTT
1611777 TGTATCGATACAA
1 TGTATCGATACAA
*
1611790 TGTATCGATACAC
1 TGTATCGATACAA
1611803 TGTATCGATACA
1 TGTATCGATACA
1611815 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1614403 original size:32 final size:33
Alignment explanation
Indices: 1614362--1614426 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
1614352 TAGCCAAACT
*
1614362 TGTATCGATACAC-AAAATATGTGTCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
1614394 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
1614427 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 13 0.43
34 17 0.57
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:1620000 original size:1 final size:1
Alignment explanation
Indices: 1619996--1620070 Score: 60
Period size: 1 Copynumber: 75.0 Consensus size: 1
1619986 ATTCTTTTTT
* * * * * * * * *
1619996 AAAAAAACACAAAAAAACAAAAAAAAACAAAAAAACAAAAAAAACAAAAAAACAAAGAAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
1620061 GAAAAAAAAA
1 AAAAAAAAAA
1620071 GAAGAATCTG
Statistics
Matches: 54, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:1620019 original size:18 final size:17
Alignment explanation
Indices: 1619996--1620057 Score: 97
Period size: 17 Copynumber: 3.5 Consensus size: 17
1619986 ATTCTTTTTT
1619996 AAAAAAACACAAAAAAAC
1 AAAAAAA-ACAAAAAAAC
1620014 AAAAAAAAACAAAAAAAC
1 -AAAAAAAACAAAAAAAC
1620032 AAAAAAAACAAAAAAAC
1 AAAAAAAACAAAAAAAC
1620049 AAAGAAAAA
1 AAA-AAAAA
1620058 AGAGAAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
17 20 0.48
18 15 0.36
19 7 0.17
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAAAAAACAAAAAAAC
Found at i:1620056 original size:9 final size:8
Alignment explanation
Indices: 1619997--1620056 Score: 75
Period size: 8 Copynumber: 6.9 Consensus size: 8
1619987 TTCTTTTTTA
1619997 AAAAAACAC
1 AAAAAA-AC
1620006 AAAAAAAC
1 AAAAAAAC
1620014 AAAAAAAAAC
1 --AAAAAAAC
1620024 AAAAAAAC
1 AAAAAAAC
1620032 AAAAAAAAC
1 -AAAAAAAC
1620041 AAAAAAAC
1 AAAAAAAC
1620049 AAAGAAAA
1 AAA-AAAA
1620057 AAGAGAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
8 21 0.45
9 18 0.38
10 8 0.17
ACGTcount: A:0.87, C:0.12, G:0.02, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:1620068 original size:10 final size:9
Alignment explanation
Indices: 1619996--1620057 Score: 83
Period size: 9 Copynumber: 6.8 Consensus size: 9
1619986 ATTCTTTTTT
1619996 AAAAAAACA
1 AAAAAAACA
1620005 CAAAAAAACA
1 -AAAAAAACA
1620015 AAAAAAA-A
1 AAAAAAACA
1620023 CAAAAAAACA
1 -AAAAAAACA
1620033 AAAAAAAC-
1 AAAAAAACA
1620041 AAAAAAACA
1 AAAAAAACA
1620050 AAGAAAAA
1 AA-AAAAA
1620058 AGAGAAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
8 9 0.19
9 24 0.50
10 15 0.31
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:1620073 original size:10 final size:10
Alignment explanation
Indices: 1619996--1620069 Score: 77
Period size: 10 Copynumber: 7.7 Consensus size: 10
1619986 ATTCTTTTTT
*
1619996 AAAAAAACAC
1 AAAAAAACAA
1620006 AAAAAAACAA
1 AAAAAAACAA
1620016 AAAAAAAC--
1 AAAAAAACAA
1620024 AAAAAAAC-A
1 AAAAAAACAA
1620033 AAAAAAAC--
1 AAAAAAACAA
1620041 AAAAAAACAA
1 AAAAAAACAA
*
1620051 AGAAAAAAGAGA
1 A-AAAAAACA-A
1620063 AAAAAAA
1 AAAAAAA
1620070 AGAAGAATCT
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
8 16 0.28
9 8 0.14
10 18 0.32
11 13 0.23
12 2 0.04
ACGTcount: A:0.86, C:0.09, G:0.04, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:1621202 original size:55 final size:54
Alignment explanation
Indices: 1621136--1621570 Score: 352
Period size: 55 Copynumber: 7.4 Consensus size: 54
1621126 CCTTTCACCC
* * *
1621136 TTCAGTCCTCAAAGAGCAAGATGCCTTTCAAAACCCACACAAGTTGGTGGCACCT
1 TTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TT
* * *
1621191 TTCAGTCCTCAAAGAGTAGGACT-CCTTTTAAAGCCCACACGAGTTGGTGGCATT
1 TTCAGTCCTCAAAGAGCAGGA-TGCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * * ** *
1621245 TTCTGATCTTCAAAGAGCAAGACACCTTTTCTTTTTAAAAAAGCCCACACAGGTTGGTGGCATT
1 TTCAG-TCCTCAAAGAGCAGGATGCC-TTTC--------AAAGCCCACACAAGTTGGTGGCATT
*
1621309 TTCCAGTCCTCAAAGAGCAGGATGCCTCTT-AAAGTCCACACAAGTTGGTGGCATT
1 TT-CAGTCCTCAAAGAGCAGGATGCCT-TTCAAAGCCCACACAAGTTGGTGGCATT
* *
1621364 TTCCAGTCCTCAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTAGGTGGCATT
1 TT-CAGTCCTCAAAGAGCAGGATGC-----C-TTTCAAAGCCCACACAAGTTGGTGGCATT
* *
1621425 TTCTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTCAAAGCCTACACAAGTTGGTGGCATT
1 TTC-AGTCCTCAAAGAGCAGGATG-C----CTTTCAAAGCCCACACAAGTTGGTGGCATT
* * *
1621485 TTCCAGTCCTCAAAGAGCAGGACGTCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACT
1 TT-CAGTCCTCAAAGAGCAGGA-----T-GCCTTTCAAAGCCCACACAAGTTGGTGGCATT
*
1621546 TCCTAGTCCTCAAAGAGCAGGATGC
1 TTC-AGTCCTCAAAGAGCAGGATGC
1621571 TCTCTCCTTT
Statistics
Matches: 314, Mismatches: 35, Indels: 62
0.76 0.09 0.15
Matches are distributed among these distances:
54 5 0.02
55 108 0.34
56 5 0.02
60 52 0.17
61 96 0.31
62 1 0.00
63 1 0.00
64 43 0.14
65 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (54 bp):
TTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATT
Found at i:1621380 original size:119 final size:115
Alignment explanation
Indices: 1621160--1621575 Score: 457
Period size: 119 Copynumber: 3.5 Consensus size: 115
1621150 AGCAAGATGC
* * * *
1621160 CTTTCAAAA-CCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGTAGGACT-CCTTTTAA
1 CTTTTAAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA-TGCCTCTTAA
* * * * *
1621222 AGCCCACACGAGTTGGTGGCATTTT-CTGATCTTCAAAGAGCAAGACACCTTTT
64 AG-CCACACAAGTTGGTGGCATTTTCCAG-TCCTCAAAGAGCAGGACGCCTTTT
*
1621275 CTTTTTAAAAAAGCCCACACAGGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTCTTA
1 C-TTTT--AAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTCTTA
* * *
1621340 AAGTCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGATGCTTTTT
63 AAG-CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
1621394 CTTTTCAAAGCCCACACAAGTAGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCTTT
1 CTTTTAAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCC---TC-TT
* *
1621459 CAAAGCCTACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGTCTTCTC
62 -AAAGCC-ACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTT-TT
*
1621516 CTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGATGCTCTCT
1 CTTTTAAAAGCCCACACAAGTTGGTGGCATTTTCC-AGTCCTCAAAGAGCAGGATGC-CTCT
1621576 CCTTTCGCCT
Statistics
Matches: 257, Mismatches: 28, Indels: 29
0.82 0.09 0.09
Matches are distributed among these distances:
115 1 0.00
116 50 0.19
118 13 0.05
119 89 0.35
120 9 0.04
121 88 0.34
122 7 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (115 bp):
CTTTTAAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTCTTAAAG
CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:1621392 original size:27 final size:27
Alignment explanation
Indices: 1621307--1621392 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
1621297 GTTGGTGGCA
*
1621307 TTTTCCAGTCCTCAAAGAGCAGGATGCC
1 TTTTCCAGTCCTCAAAGAGTAGGATG-C
* ** * * *
1621335 TCTTAAAGTCCACACA-AGTTGG-TGGC
1 TTTTCCAGTCCTCAAAGAGTAGGAT-GC
1621361 ATTTTCCAGTCCTCAAAGAGTAGGATGC
1 -TTTTCCAGTCCTCAAAGAGTAGGATGC
1621389 TTTT
1 TTTT
1621393 TCTTTTCAAA
Statistics
Matches: 41, Mismatches: 13, Indels: 9
0.65 0.21 0.14
Matches are distributed among these distances:
26 2 0.05
27 20 0.49
28 18 0.44
29 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (27 bp):
TTTTCCAGTCCTCAAAGAGTAGGATGC
Found at i:1621439 original size:61 final size:60
Alignment explanation
Indices: 1621160--1621567 Score: 419
Period size: 61 Copynumber: 6.9 Consensus size: 60
1621150 AGCAAGATGC
* * * * *
1621160 CTTTCAAAACCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGTAGGA--C---TC
1 CTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGCTTTTT
* * * * * *
1621215 CTTTTAAAGCCCACACGAGTTGGTGGCATTTT-CTGATCTTCAAAGAGCAAGACACCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG-TCCTCAAAGAGCAGGACGCTTTTT
* *
1621275 CTTTTTAAAAAAGCCCACACAGGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGC-----
1 C-TTTT---AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTTT
* * * *
1621334 CTCTTAAAGTCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGATGCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTTT
* * *
1621394 CTTTTCAAAGCCCACACAAGTAGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
1 CTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTTT
* * * *
1621455 CTTTCAAAGCCTACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGTCTTCTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG-CTTTTT
*
1621516 CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGA
1 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC-AGTCCTCAAAGAGCAGGA
1621568 TGCTCTCTCC
Statistics
Matches: 297, Mismatches: 37, Indels: 32
0.81 0.10 0.09
Matches are distributed among these distances:
54 5 0.02
55 85 0.29
57 1 0.00
58 3 0.01
59 1 0.00
60 56 0.19
61 104 0.35
64 40 0.13
65 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (60 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTTT
Found at i:1621527 original size:121 final size:116
Alignment explanation
Indices: 1621159--1621567 Score: 470
Period size: 121 Copynumber: 3.5 Consensus size: 116
1621149 GAGCAAGATG
* * *
1621159 CCTTTCAAAA-CCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGTAGGACTCCT-TTTA
1 CCTTTTAAAAGCCCACACAAGTTGGTGGCA-CTTTCTAGTCCTCAAAGAGCAGGACGCCTCTTTA
* * * * *
1621221 AAGCCCACACGAGTTGGTGGCATTTT-CTGATCTTCAAAGAGCAAGACACCTTTT
65 AAG-CCACACAAGTTGGTGGCATTTTCCAG-TCCTCAAAGAGCAGGAC-GCTTTT
* * * * *
1621275 CTTTTTAAAAAAGCCCACACAGGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTC-TT
1 CCTTTT--AAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGCCTCTTT
* *
1621339 AAAGTCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGATGCTTTT
64 AAAG-CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTT
* * * *
1621393 TCTTTTCAAAGCCCACACAAGTAGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCTT
1 CCTTTTAAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGCC---TCTT
*
1621458 TCAAAGCCTACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGTCTTCT
63 T-AAAGCC-ACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG-CTTTT
*
1621515 CCTTTT-AAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGA
1 CCTTTTAAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGA
1621568 TGCTCTCTCC
Statistics
Matches: 251, Mismatches: 29, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
116 51 0.20
118 17 0.07
119 80 0.32
120 6 0.02
121 88 0.35
122 9 0.04
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (116 bp):
CCTTTTAAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGCCTCTTTAA
AGCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCTTTT
Found at i:1621702 original size:60 final size:61
Alignment explanation
Indices: 1621590--1621843 Score: 310
Period size: 61 Copynumber: 4.3 Consensus size: 61
1621580 TCGCCTTTTT
**
1621590 GTCCTCAAAGAGCAGGATG-----CCTTTT-AAAGCCCACACAAGCCGGTGGCACTTTT-A
1 GTCCTCAAAGAGCAGGATGCCTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
1621644 GTCCTCAAAGAGCAGGATGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCA
1 GTCCTCAAAGAGCAGGATGCCTT-TCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
* * * *
1621705 GTCTTCAAAGAGCAGGATG-CTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCA
1 GTCCTCAAAGAGCAGGATGCCTTTCCTTTT-CAAAGCCCACACAAGTTGGTGGCACTTTTCA
* ** * * *
1621766 GTCCTCAAAGGGCAGGACACCTTTTCTTTTCAAAGCCCACACGAGTTGGTAGCACTTTTCA
1 GTCCTCAAAGAGCAGGATGCCTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
*
1621827 GTCCTCAAAGAGTAGGA
1 GTCCTCAAAGAGCAGGA
1621844 CACACTTCCT
Statistics
Matches: 172, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
54 19 0.11
59 6 0.03
60 35 0.20
61 104 0.60
62 8 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (61 bp):
GTCCTCAAAGAGCAGGATGCCTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
Found at i:1621716 original size:154 final size:157
Alignment explanation
Indices: 1621430--1621725 Score: 440
Period size: 154 Copynumber: 1.9 Consensus size: 157
1621420 GCATTTTCTA
* **
1621430 GTCCTCAAAGAGCAGGACGCCTTTTCTTTCAAAGCCTACACAAGTTGGTGGCATTTTCCAGTCCT
1 GTCCTCAAAGAGCAGGACGCC--TTCTTTCAAAGCCCACACAAGCCGGTGGCATTTT-CAGTCCT
*
1621495 CAAAGAGCAGGACGTCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAA
63 CAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAA
1621560 GAGCAGGATGCTCTCTCCTTTCGCCTTTTT
128 GAGCAGGATGCTCTCTCCTTTCGCCTTTTT
*
1621590 GTCCTCAAAGAGCAGGATGCC-T-TTT-AAAGCCCACACAAGCCGGTGGCACTTTT-AGTCCTCA
1 GTCCTCAAAGAGCAGGACGCCTTCTTTCAAAGCCCACACAAGCCGGTGGCA-TTTTCAGTCCTCA
* * *
1621651 AAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-TTCAGTCTTCAAAG
65 AAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT-AGTCCTCAAAG
1621715 AGCAGGATGCT
129 AGCAGGATGCT
1621726 TTCTTTTTGC
Statistics
Matches: 126, Mismatches: 8, Indels: 10
0.88 0.06 0.07
Matches are distributed among these distances:
153 1 0.01
154 77 0.61
155 20 0.16
156 7 0.06
157 1 0.01
160 20 0.16
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (157 bp):
GTCCTCAAAGAGCAGGACGCCTTCTTTCAAAGCCCACACAAGCCGGTGGCATTTTCAGTCCTCAA
AGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAG
CAGGATGCTCTCTCCTTTCGCCTTTTT
Found at i:1621771 original size:215 final size:216
Alignment explanation
Indices: 1621394--1621782 Score: 592
Period size: 215 Copynumber: 1.8 Consensus size: 216
1621384 GATGCTTTTT
* * *
1621394 CTTTTCAAAGCCCACACAAGTAGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCTTT
1 CTTTTCAAAGCCCACACAAGCAGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGCCTTTCCTTT
*
1621459 CAAAGCCTACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGTCTTCTCCTTTTAAA
66 CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGTCTTCTCCTTTTAAA
1621524 GCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGATGCTCTCTCCTTTCGCCTTTT
131 GCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGATGCTCTCTCCTTTCGCCTTTT
1621589 TGTCCTCAAAGAGCAGGATGC
196 TGTCCTCAAAGAGCAGGATGC
* *
1621610 CTTTT-AAAGCCCACACAAGCCGGTGGCACTTT-TAGTCCTCAAAGAGCAGGATGCCTTCTCCTT
1 CTTTTCAAAGCCCACACAAGCAGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGCCTT-TCCTT
* * * *
1621673 TTAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCTTCAAAGAGCAGGATG-CTT-TCTTTTTG
65 TCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGTCTTCTCCTTTT-
*
1621735 CAAAGCCCACACAAGTTGGTGGCACCTTCC-AGTCCTCAAAGGGCAGGA
128 -AAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGA
1621783 CACCTTTTCT
Statistics
Matches: 157, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
213 6 0.04
214 27 0.17
215 110 0.70
216 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (216 bp):
CTTTTCAAAGCCCACACAAGCAGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGCCTTTCCTTT
CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGTCTTCTCCTTTTAAA
GCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGATGCTCTCTCCTTTCGCCTTTT
TGTCCTCAAAGAGCAGGATGC
Found at i:1621807 original size:276 final size:275
Alignment explanation
Indices: 1621314--1621843 Score: 748
Period size: 276 Copynumber: 1.9 Consensus size: 275
1621304 GCATTTTCCA
* **
1621314 GTCCTCAAAGAGCAGGATGCCTCTTAAAGTCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAG
1 GTCCTCAAAGAGCAGGATGCCTCTTAAAGCCCACACAAGCCGGTGGCATTTT-CAGTCCTCAAAG
* * *
1621379 AGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTAGGTGGCATTTTCTAGTCCTCAAAGAGCA
65 AGCAGGATGCTTCTCCTTTTCAAAGCCCACACAAGTAGGTGGCATTTTCTAGTCCTCAAAGAGCA
* ** *
1621444 GGACGCCTTTTCTTTCAAAGCCTACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
130 GGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACA
* *
1621509 TCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC-CTAGTCCTCAAAGAGCAGGATGCTC
195 CCTTCTCCTTTTAAAGCCCACACAAGTTGGTAGCACTTCTC-AGTCCTCAAAGAGCAGGATGCTC
1621573 TCTCCTTTCGCCTTTTT
259 TCTCCTTTCGCCTTTTT
*
1621590 GTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCCGGTGGCACTTTT-AGTCCTCAAAG
1 GTCCTCAAAGAGCAGGATGCCTCTTAAAGCCCACACAAGCCGGTGGCA-TTTTCAGTCCTCAAAG
* *
1621654 AGCAGGATGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCTTCAAAGAG
65 AGCAGGATG-CTTCTCCTTTTCAAAGCCCACACAAGTAGGTGGCA-TTTTCTAGTCCTCAAAGAG
* * *
1621717 CAGGATG-CTTTCTTTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGGGCAG
128 CAGGACGCCTTT-TCTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAG
* * * *
1621781 GACACCTT-TTCTTTTCAAAGCCCACACGAGTTGGTAGCACTTTTCAGTCCTCAAAGAGTAGGA
191 GACACCTTCTCCTTTT-AAAGCCCACACAAGTTGGTAGCACTTCTCAGTCCTCAAAGAGCAGGA
1621844 CACACTTCCT
Statistics
Matches: 225, Mismatches: 22, Indels: 14
0.86 0.08 0.05
Matches are distributed among these distances:
274 4 0.02
275 69 0.31
276 147 0.65
277 5 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (275 bp):
GTCCTCAAAGAGCAGGATGCCTCTTAAAGCCCACACAAGCCGGTGGCATTTTCAGTCCTCAAAGA
GCAGGATGCTTCTCCTTTTCAAAGCCCACACAAGTAGGTGGCATTTTCTAGTCCTCAAAGAGCAG
GACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACAC
CTTCTCCTTTTAAAGCCCACACAAGTTGGTAGCACTTCTCAGTCCTCAAAGAGCAGGATGCTCTC
TCCTTTCGCCTTTTT
Found at i:1622736 original size:13 final size:13
Alignment explanation
Indices: 1622718--1622742 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1622708 GCCAAGGAAA
1622718 TGTATCGATACAT
1 TGTATCGATACAT
1622731 TGTATCGATACA
1 TGTATCGATACA
1622743 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1625070 original size:51 final size:51
Alignment explanation
Indices: 1625015--1625198 Score: 190
Period size: 51 Copynumber: 3.6 Consensus size: 51
1625005 TAAGTTTCTC
* * * * *
1625015 AATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACGCT
1 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACA
** * *
1625066 AATTTTCCACAATTAGGGATACTCCAACCCCGATTTTATTT-TCAAACCACC
1 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCT-AAAACACA
** * * *
1625117 AATTTTCCTTTAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAACACA
1 AATTTTCC-ACAATCGGGGATACTCCAACCCCGATTTTATTT-CTAAAACACA
* *
1625170 AATTTTTCACAATCGGGGATACTCTAACC
1 AATTTTCCACAATCGGGGATACTCCAACC
1625199 TCGTTAATCA
Statistics
Matches: 108, Mismatches: 21, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
50 1 0.01
51 49 0.45
52 45 0.42
53 13 0.12
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (51 bp):
AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACA
Found at i:1625153 original size:52 final size:52
Alignment explanation
Indices: 1625015--1625198 Score: 192
Period size: 52 Copynumber: 3.6 Consensus size: 52
1625005 TAAGTTTCTC
* * * * * *
1625015 AATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACGCT
1 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACA
** * *
1625066 AATTTTCCACAATTAGGGATACTCCAACCCCGATTTTATTTTC-AAACCACC
1 AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACA
** * * *
1625117 AATTTTCCTTTAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAACACA
1 AATTTTCC-ACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACA
* *
1625170 AATTTTTCACAATCGGGGATACTCTAACC
1 AATTTTCCACAATCGGGGATACTCCAACC
1625199 TCGTTAATCA
Statistics
Matches: 109, Mismatches: 21, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
51 46 0.42
52 50 0.46
53 13 0.12
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (52 bp):
AATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACA
Found at i:1625383 original size:79 final size:80
Alignment explanation
Indices: 1625208--1625383 Score: 246
Period size: 79 Copynumber: 2.2 Consensus size: 80
1625198 CTCGTTAATC
* * *
1625208 ATCGGCGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCCGATTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCATTATTCTCGAGGGGATACTCCAACCCCCGATTTTATTTCTAAAA
* * * *
1625273 CATCAATTTTTCATA
66 CACCAATTCTCCACA
* * *
1625288 ATCGGGGATACTCCAACCCCATTATTCTCGAGGGGATACTCGAA-CCCTGGTTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCATTATTCTCGAGGGGATACTCCAACCCCCGATTTTATTTCTAAAA
1625352 CACCAATTCTCCACA
66 CACCAATTCTCCACA
*
1625367 ATCGGGGATATTCCAAC
1 ATCGGGGATACTCCAAC
1625384 TCTGATTTTA
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 45 0.53
80 40 0.47
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (80 bp):
ATCGGGGATACTCCAACCCCATTATTCTCGAGGGGATACTCCAACCCCCGATTTTATTTCTAAAA
CACCAATTCTCCACA
Found at i:1625418 original size:51 final size:51
Alignment explanation
Indices: 1625319--1625435 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
1625309 TTATTCTCGA
* *
1625319 GGGGATACTCGAACCCTGGTTTTATTTCTAAAACACCAATTCTCCACAATC
1 GGGGATACTCCAACCCTGATTTTATTTCTAAAACACCAATTCTCCACAATC
* * * * * *
1625370 GGGGATATTCCAACTCTGATTTTATTTCTAAAACACTAGTTTTTCACAATC
1 GGGGATACTCCAACCCTGATTTTATTTCTAAAACACCAATTCTCCACAATC
**
1625421 GAAGATACTCCAACC
1 GGGGATACTCCAACC
1625436 TCGTTATTTC
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCTGATTTTATTTCTAAAACACCAATTCTCCACAATC
Found at i:1625538 original size:237 final size:237
Alignment explanation
Indices: 1625081--1625617 Score: 704
Period size: 237 Copynumber: 2.3 Consensus size: 237
1625071 TCCACAATTA
* * * *
1625081 GGGATACTCCAACCCCGATTTTATTTTCAAACCACCAATTTTCCTTTAATCGGGGATACTCTAAC
1 GGGATACTCCAACCCCGGTTTTATTTT-AAAACACCAATTTTCC-ATAATCGGGGATACTCCAAC
** *
1625146 TCCGATTTTATTTCCAAAAACACAAATTTTTCACAATCGGGGATACTCTAACCTCGTTAATCATC
64 TCCGATTTTATTTCCAAAAACACAAATTTTTCACAATCGAAGATACTCCAACCTCGTTAATCATC
** * *
1625211 GGCGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCCGATTTTATTTCTAAAACAT
129 GGCGATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAACCCCCGACTTTATTTCCAAAACAT
* *
1625276 CAATTTTTCATAATCGGGGATACTCCAACCCCATTA-TTCTCGAG
194 CAATTTCTCATAATCGGGAATACTCCAACCCCATTATTTCT-GAG
* * * * *
1625320 GGGATACTCGAACCCTGGTTTTATTTCTAAAACACCAATTCTCCACAATCGGGGATATTCCAACT
1 GGGATACTCCAACCCCGGTTTTATTT-TAAAACACCAATTTTCCATAATCGGGGATACTCCAACT
* * * * *
1625385 CTGATTTTATTT-CTAAAACACTAGTTTTTCACAATCGAAGATACTCCAACCTCGTTATTTCATC
65 CCGATTTTATTTCCAAAAACACAAATTTTTCACAATCGAAGATACTCCAACCTCGTTA-ATCATC
* *
1625449 GTG-GATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAA-CCCCGGCTTTATTTCCAAAATA
129 G-GCGATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAACCCCCGACTTTATTTCCAAAACA
* *
1625512 TTAATTTCTCATAATCGGGAATACTCCAACCCCGTTATTTCTGAG
193 TCAATTTCTCATAATCGGGAATACTCCAACCCCATTATTTCTGAG
* * * *
1625557 GGGATACTCTAACCCCAGTTTTATTTATAAAACATCAATTTTTCATAATCGGGGATACTCC
1 GGGATACTCCAACCCCGGTTTTATTT-TAAAACACCAATTTTCCATAATCGGGGATACTCC
1625618 CATCCTATTA
Statistics
Matches: 258, Mismatches: 36, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
237 145 0.56
238 74 0.29
239 38 0.15
240 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (237 bp):
GGGATACTCCAACCCCGGTTTTATTTTAAAACACCAATTTTCCATAATCGGGGATACTCCAACTC
CGATTTTATTTCCAAAAACACAAATTTTTCACAATCGAAGATACTCCAACCTCGTTAATCATCGG
CGATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAACCCCCGACTTTATTTCCAAAACATCA
ATTTCTCATAATCGGGAATACTCCAACCCCATTATTTCTGAG
Found at i:1625558 original size:79 final size:78
Alignment explanation
Indices: 1625446--1625699 Score: 307
Period size: 79 Copynumber: 3.3 Consensus size: 78
1625436 TCGTTATTTC
* * * *
1625446 ATCGTGGATACTCCAACCCCGTTACCTTC-GAGGGGATACTCCAACCCCGGCTTTATTTCCAAAA
1 ATCGGGGATACTCCAACCCCGTTA-TTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
*
1625510 TATTAATTTCTCATA
65 CATTAATTT-TCATA
* * * *
1625525 ATCGGGAATACTCCAACCCCGTTATTTCTGAGGGGATACTCTAACCCCAGTTTTATTTATAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
*
1625590 ATCAATTTTTCATA
66 ATTAA-TTTTCATA
* * ** * *
1625604 ATCGGGGATACTCCCATCCTATTATTTTTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
*
1625669 ATTAATTTT--TC
66 ATTAATTTTCATA
1625680 ATCGGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
1625700 AGCTTTATTT
Statistics
Matches: 148, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
76 18 0.12
78 7 0.05
79 120 0.81
80 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (78 bp):
ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
ATTAATTTTCATA
Found at i:1625696 original size:48 final size:51
Alignment explanation
Indices: 1625635--1625749 Score: 148
Period size: 48 Copynumber: 2.3 Consensus size: 51
1625625 TTATTTTTGA
* * *
1625635 GGGGATACTCCAACCCC-GATTTTATTTCTAAAACATTAAT-T-T-TTCATC
1 GGGGATACTCCAACCCCAG-CTTTATTTCTAAAACATTAATATCTCATAATC
*
1625683 GGGGATACTCCAACCCCAGCTTTATTTCTAAAATATTAATATCTCATAATC
1 GGGGATACTCCAACCCCAGCTTTATTTCTAAAACATTAATATCTCATAATC
*
1625734 GAGGATACTCCAACCC
1 GGGGATACTCCAACCC
1625750 TGTTATTTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
48 36 0.62
49 2 0.03
50 1 0.02
51 19 0.33
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAGCTTTATTTCTAAAACATTAATATCTCATAATC
Found at i:1625730 original size:127 final size:129
Alignment explanation
Indices: 1625556--1625860 Score: 355
Period size: 127 Copynumber: 2.4 Consensus size: 129
1625546 TTATTTCTGA
* * * * * * * *
1625556 GGGGATACTCTAACCCCAGTTTTATTTATAAAACATCAATTTTTCATAATCGGGGATACTCCCAT
1 GGGGATACTCCAACCCCAGTTTTATTTCTAAAATATTAATTTCTCATAATCGAGGATACTCCAAC
* *
1625621 CCTATTATTTTTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACATTAATTTTT-C-ATC
66 CCTATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTACAATC
* *
1625683 GGGGATACTCCAACCCCAGCTTTATTTCTAAAATATTAATATCTCATAATCGAGGATACTCCAAC
1 GGGGATACTCCAACCCCAGTTTTATTTCTAAAATATTAATTTCTCATAATCGAGGATACTCCAAC
* * * * * * * * *
1625748 CCTGTTATTTTCGAGGGGATATTTCAATCCTGATTTTATTTTTAAATCATCGATTTTTCACAATT
66 CCTATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTT-ACAATC
* *
1625813 GGGGATACTCCAACCCC-GTTATTATCTCCAAAATATTAAATTTCTCAT
1 GGGGATACTCCAACCCCAGTT-TTATTTCTAAAATATT-AATTTCTCAT
1625861 CGGGAGATGT
Statistics
Matches: 148, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
127 103 0.70
129 3 0.02
130 33 0.22
131 9 0.06
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (129 bp):
GGGGATACTCCAACCCCAGTTTTATTTCTAAAATATTAATTTCTCATAATCGAGGATACTCCAAC
CCTATTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTACAATC
Found at i:1629847 original size:20 final size:19
Alignment explanation
Indices: 1629771--1629845 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
1629761 AAGTACCCAG
1629771 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTT-A
* * *
1629791 ATGTATTGATACATGTATGA
1 ATGTATCGATACAT-TTTTA
*
1629811 ATATATCGATACATTCTTTA
1 ATGTATCGATACATT-TTTA
1629831 ATGTATCGATACATT
1 ATGTATCGATACATT
1629846 CTGTCTTTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.93
21 2 0.04
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (19 bp):
ATGTATCGATACATTTTTA
Found at i:1633495 original size:42 final size:42
Alignment explanation
Indices: 1633425--1635384 Score: 971
Period size: 42 Copynumber: 46.5 Consensus size: 42
1633415 TACCCTCAAA
* * * **
1633425 TCTGCTTGTCGACTTTGACCCTAAAGACTTCTTTACCTTTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
* * * * *
1633467 TCTACCTGTCAGCTTTGACATTGGAGACTTTTTTACCCTTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
* * ** * * *
1633509 TTTGCCTATCAACTTTGACCTTAGAGACATCCTTACCTTTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
* * * * * *
1633551 TCTGCCTATTGGCTTTGACCCTAGAGACTTCCTCT-CCTTCAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTT-CTTTACCTTTAG
* * ** * **
1633593 TCCGCCTATCTACTTTGACCCTAAAGACTTCTTTACCCTTTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTA-CCTTTAG
* * * *
1633636 TTTGCCTGTTGACTTTGACCTTAGAGACTTCTTTACCTTTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
* * * * *
1633678 TCTGCTTGTCGACTTTGATCTTGAAGACTTCTTCA-CTTTCAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTT-AG
* * * * *
1633720 TCTGCTTGTTGGCTTTGACTTTGGAGACTTCTTCACCCTTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
* * * * * * *
1633762 TTTGCCTATTGGCTTTTACCTTAGAGACTTCCTAACCTTTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
* * * * * *
1633804 TTTG-ATGTTGGCTTTGACCTTGGAGACTTCCTCACCTTCAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
* * **
1633845 TCTACCTATCGGCTTTGACCTTGGAGACTTCTTTACCCTCAAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTA-CCTTTAG
* ** * * * * *
1633888 TTTGCCTGTCGATTTTAACCTTGAAGACTTCCTCA-CTTTAAA
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTT-AG
* * * * *
1633930 TCTCCCTGTTGACTTTGACCTTAGAGACAT-TTTACCTTTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
* * * * * *
1633971 TTTCCCTATCGGCTTTGACCCTAGAGACTT-TTTGACCTTTAA
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTT-ACCTTTAG
* * * * * *
1634013 TATGCTTGTTGGCTTTGACCTTGGAGACTTCCTCA-CTTTCAA
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTT-AG
* * * ** * * **
1634055 TCTACTTATCAACTTTGACCTTAGAGACTTCCTTACCCTCAAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTA-CCTTTAG
* * * *
1634098 TCTGCCTATTGG--TTAACCTTGGAGGCTT-TCTTACCTTTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCT-TTACCTTTAG
* * * * *
1634138 TTTGCCTGTTGGCTTTGACCATGGAGAGTTTTTTACCTTATTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACC-T-TTAG
* * ** **
1634182 TTTACCTGTCGGCTTTGACCTTATAGACTT-TCTTACCCTCAAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCT-TTA-CCTTTAG
* * ** **
1634225 TTTGCGTGTCAACTTTGACCTTATAGACTT-TCTTACCTTTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCT-TTACCTTTAG
* * * * * * * *
1634267 TCTGCCTATCGGCTTTGTCCCTAGAGACTTCTTGACATTCAA
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
* * * * *
1634309 TCTGCCTAG-CGGTTTTGACCATGGAGACTT-TCTCACCTTCAT
1 TCTGCCT-GTCGGCTTTGACCTTGGAGACTTCT-TTACCTTTAG
* ** * * * **
1634351 TCTGCCTCTTAGCTTTGACCTTAGAGATTTCCTTACCCTCAAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTA-CCTTTAG
* * * * * *
1634394 TCTGCTTGTCAGCTTTGACCCTAGAGACTTCTTCACCTTTAT
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
* * * *
1634436 TCTGCCTATCAGCTTTGACCTTAGAGACTT-TCTTATCTTTTTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCT-TTA-C-CTTTAG
* * * * * **
1634480 TCTGCCTATCGGTTTTGACCCTAGAGA-TTTTCTTACCCTCAAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCT-TTA-CCTTTAG
* ** * *
1634523 TCTGCCTCTTAGCTTTGACCTTGGAGACTTCCTCACCTTTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
** * * * *
1634565 TCTGTTTGTTGGCTTTGACCTTGGAGACTTCCTCACCTTCAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
* ** * * * * *
1634607 TTTGTTTGTCGGCTTTGACCCTGAAAACTT-TCTCACCTTCAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCT-TTACCTTTAG
* * * * * *
1634649 TCTGCTTGTCGACTTTGACCCT-GAGACTTCTTGACCTTCAA
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
* ** * * * * * *
1634690 TCTGTCTGTCTACTTTAACCATGGAGACTTCCTCACCTTCAA
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
* ** * * * * *
1634732 TCTGCCTATCGATTTTGACCCTAGACACTTCCTCACCTTTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
* * * * * * *
1634774 TTTGCTTATCGACTTTGACCCTAGAGACTTCTTGACCTTTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
* *
1634816 TCTGCCTGTTGGCTTTGACCTTGGAGACTTCTTTACCTTCAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
* * * * * * *
1634858 TCTACCTATTGGCTTTGACCCTAGAGACTTCCTTACCCTTAAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTA-CCTTTAG
* * *
1634901 TCTACCTGTCGGTTTTGACCTTGGAGACTTCTTCT-CCTTCAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTT-TACCTTTAG
* * * * * *
1634943 TATGCC-ATCGGCTTTGACCCTGAAGACTTCTTCACTTTTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
* ** * * *
1634984 TGTGCCTGTTAGCTTTGACCCTGGAGACTTCCTGACCTTTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
* * * *
1635026 TCTGCCTGTTGGCTTTGACCTTGGAGACTTCTTCACTTTTAA
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
* * * * * * **
1635068 TCTACTTATCGACTTTGACTTTGGAGACTTCCTTACCCTCAAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTA-CCTTTAG
* * *
1635111 TCTGCTTGTCGACTTTTACCTTGGAGACTT-TCTTACCTTTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCT-TTACCTTTAG
* * * * * *
1635153 TTTGCCTGTTGGCTTTGATCGTAGAGACTT-TCTTACTTTCTTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCT-TTAC-CT-TTAG
* * * **
1635197 TTTGCCTGTCGGCTTTGACCCTAGAGACTT-TCTTACCCTAAAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCT-TTA-CCTTTAG
* * * * * * * * *
1635240 TCTACTTGTCGACTTTGACCCT-AAAAGCTTCCTTACCTTCAT
1 TCTGCCTGTCGGCTTTGACCTTGGAGA-CTTCTTTACCTTTAG
* * * * * *
1635282 TCTGCCTATCGGCTTTCACCCTAGAAACTTCTTTACTTTTAG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
** * * * *
1635324 TCTGCCTGTCAACTTTGACCTTAGAGACTTCTTAATCTTTAA
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
* *
1635366 TTTGCCTGTCGACTTTGAC
1 TCTGCCTGTCGGCTTTGAC
1635385 TTTTACTAAT
Statistics
Matches: 1490, Mismatches: 380, Indels: 96
0.76 0.19 0.05
Matches are distributed among these distances:
40 15 0.01
41 156 0.10
42 936 0.63
43 272 0.18
44 108 0.07
45 3 0.00
ACGTcount: A:0.18, C:0.26, G:0.16, T:0.40
Consensus pattern (42 bp):
TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTTAG
Found at i:1634645 original size:298 final size:295
Alignment explanation
Indices: 1633934--1635384 Score: 783
Period size: 298 Copynumber: 4.9 Consensus size: 295
1633924 TTTAAATCTC
* * * *
1633934 CCTGTT-GACTTTGACCTTAGAGACATT--TTACCTTTAGTTTCCCTATCGGCTTTGACCCTAGA
1 CCTGTTAG-CTTTGACCTTGGAGAC-TTCCTTACCTTTAGTCTGCCTATTGGCTTTGACCCTAGA
** * * * * * * * * * * * * *
1633996 GACTTTTTGACCTTTAATATG-CTTGTTGGCTTTGACCTTGGAGACTTCCTCACTTTCAATCTAC
64 GACTTCCTCACATTCAATCTGCCTAG-CGGCTTTGACCATGAAAACTTTCTCACCTTCAGTCTGC
* * * * * *
1634060 TTATCA-ACTTTGACCTTAGAGACTTCCTTACCCTCAAGTCTGCCTAT-TG-GTTAACCTTGGAG
128 TTGT-AGACTTTGACCTTAGAGACTTCCTTACCCTCAAGTCTGCTTGTCAGCTTTAACCATGGAG
* * * * * * *
1634122 GCTTTCTT-ACCTTTAGTT-TGCCTGTTGGCTTTGACCATGGAGAGTTTTTTACCTTATTAGTTT
192 AC-TTCTTCACCTTTA-TTCTGCCT-ATCGCTTTGACCATAGAGACTTTCTTA-CTTTTTAGTTT
* * * * *
1634185 ACCTGTCGGCTTTGACCTTATAGACTTTCTTACCCTCAAGTTTG
253 GCCTATCGGCTTTGACCCTAGAGA-TTTCTTACCCTCAAGTCTG
* * * ** * * *
1634229 CGTGTCAACTTTGACCTTATAGACTTTCTTACCTTTAGTCTGCCTATCGGCTTTGTCCCTAGAGA
1 CCTGTTAGCTTTGACCTTGGAGACTTCCTTACCTTTAGTCTGCCTATTGGCTTTGACCCTAGAGA
* * * * * *
1634294 CTTCTTGACATTCAATCTGCCTAGCGGTTTTGACCATGGAGACTTTCTCACCTTCATTCTGCCTC
66 CTTCCTCACATTCAATCTGCCTAGCGGCTTTGACCATGAAAACTTTCTCACCTTCAGTCTG-CT-
* * * *
1634359 T-TAG-CTTTGACCTTAGAGATTTCCTTACCCTCAAGTCTGCTTGTCAGCTTTGACCCTAGAGAC
129 TGTAGACTTTGACCTTAGAGACTTCCTTACCCTCAAGTCTGCTTGTCAGCTTTAACCATGGAGAC
* *
1634422 TTCTTCACCTTTATTCTGCCTATCAGCTTTGACCTTAGAGACTTTCTTATCTTTTTAGTCTGCCT
194 TTCTTCACCTTTATTCTGCCTATC-GCTTTGACCATAGAGACTTTCTTA-CTTTTTAGTTTGCCT
*
1634487 ATCGGTTTTGACCCTAGAGATTTTCTTACCCTCAAGTCTG
257 ATCGGCTTTGACCCTAGAGA-TTTCTTACCCTCAAGTCTG
* * ** * * *
1634527 CCTCTTAGCTTTGACCTTGGAGACTTCCTCACCTTTAGTCTGTTTGTTGGCTTTGACCTTGGAGA
1 CCTGTTAGCTTTGACCTTGGAGACTTCCTTACCTTTAGTCTGCCTATTGGCTTTGACCCTAGAGA
* * * * * *
1634592 CTTCCTCACCTTCAGTTTG-TTTGTCGGCTTTGACCCTGAAAACTTTCTCACCTTCAGTCTGCTT
66 CTTCCTCACATTCAATCTGCCTAG-CGGCTTTGACCATGAAAACTTTCTCACCTTCAGTCTGCTT
* * *
1634656 GTCGACTTTGACCCT-GAGACTT-CTTGACCTTCAA-TCTG-TCTGTCTA-CTTTAACCATGGAG
130 GTAGACTTTGACCTTAGAGACTTCCTT-ACCCTCAAGTCTGCT-TGTC-AGCTTTAACCATGGAG
* * * * * * * * * *
1634716 ACTTCCTCACCTTCAATCTGCCTATCGATTTTGACCCTAGACACTTCCTCAC-CTTTAGTTTGCT
192 ACTTCTTCACCTTTATTCTGCCTATCG-CTTTGACCATAGAGACTTTCTTACTTTTTAGTTTGCC
* * **
1634780 TATCGACTTTGACCCTAGAGACTTCTTGA-CCTTTAGTCTG
256 TATCGGCTTTGACCCTAGAGATTTCTT-ACCCTCAAGTCTG
* * * *
1634820 CCTGTTGGCTTTGACCTTGGAGACTTCTTTACCTTCAGTCTACCTATTGGCTTTGACCCTAGAGA
1 CCTGTTAGCTTTGACCTTGGAGACTTCCTTACCTTTAGTCTGCCTATTGGCTTTGACCCTAGAGA
* * * * * * * * *
1634885 CTTCCTTACCCTT-AAGTCTACCT-GTCGGTTTTGACCTTGGAGAC-TTCTTCTCCTTCAGTATG
66 CTTCCTCA-CATTCAA-TCTGCCTAG-CGGCTTTGACCATGAAAACTTTC-TCACCTTCAGTCTG
** * * * * ** * * * * *
1634947 C-CATCGGCTTTGACCCT-GAAGACTT-CTT-CACTTTTAGTGTGCCTGTTAGCTTTGACCCTGG
127 CTTGTAGACTTTGACCTTAG-AGACTTCCTTAC-CCTCAAGTCTGCTTGTCAGCTTTAACCATGG
* * * * * * * * *
1635008 AGACTTCCTGACCTTTAGTCTGCCTGTTGGCTTTGACCTTGGAGAC-TTCTTCAC-TTTTAATCT
190 AGACTTCTTCACCTTTATTCTGCCT-ATCGCTTTGACCATAGAGACTTTCTT-ACTTTTTAGTTT
* * * ** * *
1635071 ACTTATCGACTTTGACTTTGGAGACTTCCTTACCCTCAAGTCTG
253 GCCTATCGGCTTTGACCCTAGAGA-TTTCTTACCCTCAAGTCTG
* * * * * * * *
1635115 CTTG-TCGACTTTTACCTTGGAGACTTTCTTACCTTTAGTTTGCCTGTTGGCTTTGATCGTAGAG
1 CCTGTTAG-CTTTGACCTTGGAGACTTCCTTACCTTTAGTCTGCCTATTGGCTTTGACCCTAGAG
* * * * * * * * **
1635179 ACTTTCTTACTTTCTTAGTTTGCCT-GTCGGCTTTGACCCT-AGAGACTTTCTTACCCTAAAGTC
65 ACTTCCTCACATTC--AATCTGCCTAG-CGGCTTTGACCATGA-AAACTTTCTCA-CCTTCAGTC
* * * * * * * * * * * *
1635242 TACTTGTCGACTTTGACCCTA-AAAGCTTCCTTACCTTC-ATTCTGCCTATCGGCTTTCACCCTA
125 TGCTTGTAGACTTTGACCTTAGAGA-CTTCCTTACCCTCAAGTCTGCTTGTCAGCTTTAACCATG
* * * * * * * * * *
1635305 GAAACTTCTTTACTTTTAGTCTGCCTGTCAACTTTGACCTTAGAGAC-TTCTTAATCTTTAATTT
189 GAGACTTCTTCACCTTTATTCTGCCTATC-GCTTTGACCATAGAGACTTTCTTACTTTTTAGTTT
* *
1635369 GCCTGTCGACTTTGAC
253 GCCTATCGGCTTTGAC
1635385 TTTTACTAAT
Statistics
Matches: 910, Mismatches: 199, Indels: 91
0.76 0.17 0.08
Matches are distributed among these distances:
292 1 0.00
293 101 0.11
294 160 0.18
295 96 0.11
296 204 0.22
297 51 0.06
298 290 0.32
299 6 0.01
300 1 0.00
ACGTcount: A:0.18, C:0.26, G:0.16, T:0.40
Consensus pattern (295 bp):
CCTGTTAGCTTTGACCTTGGAGACTTCCTTACCTTTAGTCTGCCTATTGGCTTTGACCCTAGAGA
CTTCCTCACATTCAATCTGCCTAGCGGCTTTGACCATGAAAACTTTCTCACCTTCAGTCTGCTTG
TAGACTTTGACCTTAGAGACTTCCTTACCCTCAAGTCTGCTTGTCAGCTTTAACCATGGAGACTT
CTTCACCTTTATTCTGCCTATCGCTTTGACCATAGAGACTTTCTTACTTTTTAGTTTGCCTATCG
GCTTTGACCCTAGAGATTTCTTACCCTCAAGTCTG
Found at i:1634957 original size:126 final size:127
Alignment explanation
Indices: 1633425--1635356 Score: 1082
Period size: 127 Copynumber: 15.3 Consensus size: 127
1633415 TACCCTCAAA
* * * ** * * * * ** *
1633425 TCTGCTTGTCGACTTTGACCCTAAAGACTTCTTTACCTTTAGTCTACCTGTCAGCTTTGACATTG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTCAGTCTGCCTATCGGCTTTGACCCTA
** * * ** *
1633490 GAGACTTTTTTACCCTT-AGTTTGCCTATCAACTTTGACCTTAGAGACATCCTT-ACCTTTAG
66 GAGACTTCCTTACCCTTAAGTCTGCCTGTCGGCTTTGACCTTAGAGAC-TTCTTCACCTTTAG
* * * * * * **
1633551 TCTGCCTATTGGCTTTGACCCTAGAGACTTCCTCT-CCTTCAGTCCGCCTATCTACTTTGACCCT
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTT-CTTTACCTTCAGTCTGCCTATCGGCTTTGACCCT
* * * * * * *
1633615 AAAGACTTCTTTACCCTTTAGTTTGCCTGTTGACTTTGACCTTAGAGACTTCTTTACCTTTAG
65 AGAGACTTCCTTACCCTTAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCTTCACCTTTAG
* * * * * * * * * ** *
1633678 TCTGCTTGTCGACTTTGATCTTGAAGACTTCTTCACTTTCAGTCTGCTTGTTGGCTTTGACTTTG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTCAGTCTGCCTATCGGCTTTGACCCTA
* * * * * *
1633743 GAGACTT-CTTCACCCTT-AGTTTGCCTATTGGCTTTTACCTTAGAGACTTCCTAACCTTTAG
66 GAGACTTCCTT-ACCCTTAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCTTCACCTTTAG
* * * * * * * *
1633804 TTTG-ATGTTGGCTTTGACCTTGGAGACTTCCTCACCTTCAGTCTACCTATCGGCTTTGACCTTG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTCAGTCTGCCTATCGGCTTTGACCCTA
* * * ** * * *
1633868 GAGACTTCTTTACCCTCAAGTTTGCCTGTCGATTTTAACCTT-GAAGACTTCCTCA-CTTTAAA
66 GAGACTTCCTTACCCTTAAGTCTGCCTGTCGGCTTTGACCTTAG-AGACTTCTTCACCTTT-AG
* * * * * * * *
1633930 TCTCCCTGTTGACTTTGACCTTAGAGACAT-TTTACCTTTAGTTTCCCTATCGGCTTTGACCCTA
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTCAGTCTGCCTATCGGCTTTGACCCTA
* * * * * * * *
1633994 GAGACTT-TTTGACCTTTAA-TATGCTTGTTGGCTTTGACCTTGGAGACTTCCTCA-CTTTCAA
66 GAGACTTCCTT-ACCCTTAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCTTCACCTTT-AG
* * * ** * * * * * *
1634055 TCTACTTATCAACTTTGACCTTAGAGACTTCCTTACCCTCAAGTCTGCCTATTGG--TTAACCTT
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTC-AGTCTGCCTATCGGCTTTGACCCT
* * * * * * * * * * *
1634118 GGAGGCTTTCTTA-CCTTTAGTTTGCCTGTTGGCTTTGACCATGGAGAGTTTTTTACCTTATTAG
65 AGAGACTTCCTTACCCTTAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCTTCACC-T-TTAG
* * ** * * * * ** *
1634182 TTTACCTGTCGGCTTTGACCTTATAGACTT-TCTTACCCTCAAGTTTGCGTGTCAACTTTGACCT
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCT-TTACCTTC-AGTCTGCCTATCGGCTTTGACCC
* * * * * * * * * *
1634246 TATAGACTTTCTTA-CCTTTAGTCTGCCTATCGGCTTTGTCCCTAGAGACTTCTTGACATTCAA
64 TAGAGACTTCCTTACCCTTAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCTTCACCTTTAG
* * * * * ** *
1634309 TCTGCCTAG-CGGTTTTGACCATGGAGACTT-TCTCACCTTCATTCTGCCTCTTAGCTTTGACCT
1 TCTGCCT-GTCGGCTTTGACCTTGGAGACTTCT-TTACCTTCAGTCTGCCTATCGGCTTTGACCC
* * * * * *
1634372 TAGAGATTTCCTTACCCTCAAGTCTGCTTGTCAGCTTTGACCCTAGAGACTTCTTCACCTTTAT
64 TAGAGACTTCCTTACCCTTAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCTTCACCTTTAG
* * * * * *
1634436 TCTGCCTATCAGCTTTGACCTTAGAGACTT-TCTTATCTTTTTAGTCTGCCTATCGGTTTTGACC
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCT-TTA-C-CTTCAGTCTGCCTATCGGCTTTGACC
* * * * ** * *
1634500 CTAGAGATTTTCTTACCCTCAAGTCTGCCTCTTAGCTTTGACCTTGGAGACTTCCTCACCTTTAG
63 CTAGAGACTTCCTTACCCTTAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCTTCACCTTTAG
** * * * * ** *
1634565 TCTGTTTGTTGGCTTTGACCTTGGAGACTTCCTCACCTTCAGTTTGTTTGTCGGCTTTGACCCT-
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTCAGTCTGCCTATCGGCTTTGACCCTA
* * * * * * * * * *
1634629 GAAAACTTTCTCA-CCTTCAGTCTGCTTGTCGACTTTGACCCT-GAGACTTCTTGACCTTCAA
66 G-AGACTTCCTTACCCTTAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCTTCACCTTTAG
* ** * * * * * **
1634690 TCTGTCTGTCTACTTTAACCATGGAGACTTCCTCACCTTCAATCTGCCTATCGATTTTGACCCTA
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTCAGTCTGCCTATCGGCTTTGACCCTA
* * * * * * * * *
1634755 GACACTTCCTCA-CCTTTAGTTTGCTTATCGACTTTGACCCTAGAGACTTCTTGACCTTTAG
66 GAGACTTCCTTACCCTTAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCTTCACCTTTAG
* * *
1634816 TCTGCCTGTTGGCTTTGACCTTGGAGACTTCTTTACCTTCAGTCTACCTATTGGCTTTGACCCTA
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTCAGTCTGCCTATCGGCTTTGACCCTA
* * * * *
1634881 GAGACTTCCTTACCCTTAAGTCTACCTGTCGGTTTTGACCTTGGAGACTTCTTCTCCTTCAG
66 GAGACTTCCTTACCCTTAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCTTCACCTTTAG
* * * * * * * * * ** *
1634943 TATGCC-ATCGGCTTTGACCCTGAAGACTTCTTCACTTTTAGTGTGCCTGTTAGCTTTGACCCTG
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTCAGTCTGCCTATCGGCTTTGACCCTA
* * * * * *
1635007 GAGACTTCCTGA-CCTTTAGTCTGCCTGTTGGCTTTGACCTTGGAGACTTCTTCACTTTTAA
66 GAGACTTCCTTACCCTTAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCTTCACCTTTAG
* * * * * * * * * * * *
1635068 TCTACTTATCGACTTTGACTTTGGAGACTTCCTTACCCTCAAGTCTGCTTGTCGACTTTTACCTT
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTC-AGTCTGCCTATCGGCTTTGACCCT
* * * * * * * *
1635133 GGAGACTTTCTTA-CCTTTAGTTTGCCTGTTGGCTTTGATCGTAGAGACTTTCTT-ACTTTCTTA
65 AGAGACTTCCTTACCCTTAAGTCTGCCTGTCGGCTTTGACCTTAGAGAC-TTCTTCAC-CT-TTA
1635196 G
127 G
* * * ** * * * *
1635197 TTTGCCTGTCGGCTTTGACCCTAGAGACTT-TCTTACCCTAAAGTCTACTTGTCGACTTTGACCC
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCT-TTA-CCTTCAGTCTGCCTATCGGCTTTGACCC
* * * * * * * * *
1635261 TA-AAAGCTTCCTTA-CCTTCATTCTGCCTATCGGCTTTCACCCTAGAAACTTCTTTACTTTTAG
64 TAGAGA-CTTCCTTACCCTTAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCTTCACCTTTAG
** *
1635324 TCTGCCTGTCAACTTTGACCTTAGAGACTTCTT
1 TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTT
1635357 AATCTTTAAT
Statistics
Matches: 1411, Mismatches: 353, Indels: 83
0.76 0.19 0.04
Matches are distributed among these distances:
124 4 0.00
125 311 0.22
126 406 0.29
127 429 0.30
128 23 0.02
129 236 0.17
130 2 0.00
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.40
Consensus pattern (127 bp):
TCTGCCTGTCGGCTTTGACCTTGGAGACTTCTTTACCTTCAGTCTGCCTATCGGCTTTGACCCTA
GAGACTTCCTTACCCTTAAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTCTTCACCTTTAG
Found at i:1635318 original size:129 final size:127
Alignment explanation
Indices: 1635091--1635357 Score: 290
Period size: 129 Copynumber: 2.1 Consensus size: 127
1635081 TTTGACTTTG
* * * * *** * *
1635091 GAGACTTCCTTACCCTCAAGTCTGCTTGTCGACTTTTACCTTGGAGACTTTCTTACCTTTAGTTT
1 GAGACTTTCTTACCCTAAAGTCTACTTGTCGACTTTGACCTAAAAGACTTCCTTACCTTCAGTTT
* * * * * * * **
1635156 GCCTGTTGGCTTTGATCGTAGAGACTTTCTTACTTTCTTAGTTTGCCTGTCGGCTTTGACCCTA
66 GCCTATCGGCTTTCACCCTAGAAACTTTCTTAC-TT-TTAGTCTGCCTGTCAACTTTGACCCTA
1635220 GAGACTTTCTTACCCTAAAGTCTACTTGTCGACTTTGACCCTAAAAG-CTTCCTTACCTTCA-TT
1 GAGACTTTCTTACCCTAAAGTCTACTTGTCGACTTTGA-CCTAAAAGACTTCCTTACCTTCAGTT
*
1635283 CTGCCTATCGGCTTTCACCCTAGAAAC-TTCTTTACTTTTAGTCTGCCTGTCAACTTTGACCTTA
65 -TGCCTATCGGCTTTCACCCTAGAAACTTTC-TTACTTTTAGTCTGCCTGTCAACTTTGACCCTA
1635347 GAGAC-TTCTTA
1 GAGACTTTCTTA
1635358 ATCTTTAATT
Statistics
Matches: 116, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
126 6 0.05
127 28 0.24
128 7 0.06
129 70 0.60
130 5 0.04
ACGTcount: A:0.18, C:0.27, G:0.15, T:0.40
Consensus pattern (127 bp):
GAGACTTTCTTACCCTAAAGTCTACTTGTCGACTTTGACCTAAAAGACTTCCTTACCTTCAGTTT
GCCTATCGGCTTTCACCCTAGAAACTTTCTTACTTTTAGTCTGCCTGTCAACTTTGACCCTA
Found at i:1635951 original size:48 final size:48
Alignment explanation
Indices: 1635877--1636081 Score: 167
Period size: 48 Copynumber: 4.3 Consensus size: 48
1635867 ACTGTATTTA
*
1635877 GTCAAACTCTTTTCTTCTCTTA--TTTGATTGAATTGGTGTTGGGGCCTG
1 GTCAAACTCTTTTCTTC-C-TACGTTTGATTGAATTGGTGTTAGGGCCTG
* * *
1635925 GTCAAACTCTTTTCTTCCTACGTTTGACTGTATTGGTGTTAGGGCTTG
1 GTCAAACTCTTTTCTTCCTACGTTTGATTGAATTGGTGTTAGGGCCTG
*** *
1635973 GTCAAACTCAAATCATCCCT-CGTTTGATT-ATATTGGTGTTAGGGCCTG
1 GTCAAACTCTTTTC-TTCCTACGTTTGATTGA-ATTGGTGTTAGGGCCTG
* * *
1636021 GTTAAACTCAAATTTTC--CCT-CGTTTGACTATG--TTAGTGTTAAGGCCTG
1 GTCAAACTC---TTTTCTTCCTACGTTTGA-T-TGAATTGGTGTTAGGGCCTG
1636069 GTCAAACTCTTTT
1 GTCAAACTCTTTT
1636082 TCATTCCTTG
Statistics
Matches: 129, Mismatches: 18, Indels: 23
0.76 0.11 0.14
Matches are distributed among these distances:
45 4 0.03
46 2 0.02
47 1 0.01
48 114 0.88
49 5 0.04
50 1 0.01
51 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.41
Consensus pattern (48 bp):
GTCAAACTCTTTTCTTCCTACGTTTGATTGAATTGGTGTTAGGGCCTG
Found at i:1636045 original size:96 final size:95
Alignment explanation
Indices: 1635899--1636077 Score: 229
Period size: 96 Copynumber: 1.9 Consensus size: 95
1635889 TCTTCTCTTA
* * *
1635899 TTTGATTGAATTGGTGTTGGGGCCTGGTCAAACTCTTTTCTTCCTACGTTTGACTGTATTGGTGT
1 TTTGATTGAATTGGTGTTAGGGCCTGGTCAAACTCTTTTC-TCCTACGTTTGACTATATTAGTGT
* *
1635964 TAGGGCTTGGTCAAACTCAAATCATCCCTCG
65 TAAGGCCTGGTCAAACTCAAATCATCCCTCG
* *
1635995 TTTGATT-ATATTGGTGTTAGGGCCTGGTTAAACTCAAATTTTC-CCT-CGTTTGACTATGTTAG
1 TTTGATTGA-ATTGGTGTTAGGGCCTGGTCAAACTC---TTTTCTCCTACGTTTGACTATATTAG
1636057 TGTTAAGGCCTGGTCAAACTC
62 TGTTAAGGCCTGGTCAAACTC
1636078 TTTTTCATTC
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
95 1 0.01
96 63 0.88
97 3 0.04
99 5 0.07
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (95 bp):
TTTGATTGAATTGGTGTTAGGGCCTGGTCAAACTCTTTTCTCCTACGTTTGACTATATTAGTGTT
AAGGCCTGGTCAAACTCAAATCATCCCTCG
Found at i:1636273 original size:44 final size:44
Alignment explanation
Indices: 1636140--1636273 Score: 121
Period size: 44 Copynumber: 3.1 Consensus size: 44
1636130 AATTTCGGTC
* *
1636140 TGACGTATGGTTACCACCC-AGTTATATTCTTT-TTATTCTGATT
1 TGACGTATGGTTACCACCCTAGTTAAATT-TTTCTTATTCTAATT
* * * * ** **
1636183 TGACGTATGGTTACTACCCTGGTCAAATCTACCTCT-TTCTTGTT
1 TGACGTATGGTTACCACCCTAGTTAAATTTTTCT-TATTCTAATT
* *
1636227 TGACGTATGGTTACCACCCTAATTAGATTTTTCTTATTCTAATT
1 TGACGTATGGTTACCACCCTAGTTAAATTTTTCTTATTCTAATT
1636271 TGA
1 TGA
1636274 TGTAAGATTT
Statistics
Matches: 68, Mismatches: 19, Indels: 7
0.72 0.20 0.07
Matches are distributed among these distances:
43 20 0.29
44 47 0.69
45 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (44 bp):
TGACGTATGGTTACCACCCTAGTTAAATTTTTCTTATTCTAATT
Found at i:1636512 original size:43 final size:42
Alignment explanation
Indices: 1636440--1638956 Score: 959
Period size: 42 Copynumber: 59.5 Consensus size: 42
1636430 AACCCTTCTA
* * *
1636440 ACTTTCTTACCTTTAAATCTGCCTATCGACTTTGACCCTAAAG
1 ACTTTTTTACCTTT-AGTCTGCCTATCGACTTTGACCCTAGAG
* * * ** *
1636483 ACTTTTTTTACCTTTTGTCTACCTGTCGACTTTGACATTGGAG
1 AC-TTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
* * * *
1636526 AC-TTTTTACCCTTAGTCTGCCTATCGACTTTGAGCTTGGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
* ** *
1636567 ACATCCTTACCTTTAGTTTGCCTATCGACTTTGACCCTAGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
* * *
1636609 ACTTCTTCACCTTTAGTCTGCCTATCTACTTTGACCCTAGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
* * * *
1636651 ACTTCTTTAACCTTTAGTCTGCCTGTTGACTTTGACCCTAGAA
1 ACTT-TTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
* * ** * * **
1636694 ACTTCTTCATTTTTAGTCTGCTTATCGGCTTTGACTTTAGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
** * * * * *
1636736 ACTTCCTCACCCTTAATCTACCTATCGGCTTTGACCCT-GCAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAG-AG
* ** * * * *
1636778 ACTTTCTTACCCTCAAGTCTGCTTGTCGGCTTTGACCCT-GTAA
1 ACTTTTTTA-CCTTTAGTCTGCCTATCGACTTTGACCCTAG-AG
* * * * * **
1636821 ACTTTCTCACCTTCAATCTGCCTGTCGGTTTTGACCCTAGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
* * * * * * *
1636863 ACTTCTTGACCTTCAATCTGCTTGTCGGCTTTGACCCTAGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
* * * * * * ** *
1636905 ACTTTCTCACCTTCATTTTGCCTCTTAACTTTGACCCTAAAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
** * *
1636947 A-TTTTCTTACTCTCAAGTTTG-CT-TGCTGGCTTTGACCCTAGAG
1 ACTTTT-TTAC-CTTTAGTCTGCCTAT-C-GACTTTGACCCTAGAG
** * * * * * * *
1636990 ACTTCCTCACTTTTATTTTTCCTATC-AGCTTTAACCTTAGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGA-CTTTGACCCTAGAG
* * * *
1637032 ACTTTCTCAGCTTCATAGTCTGCCTATCGATTTTGACCCTAGAG
1 ACTTTTTTACCTT--TAGTCTGCCTATCGACTTTGACCCTAGAG
* ** * * * *
1637076 ACTTTCTTACCCTCAAGTCTGCCTCTCGGCTTTGACCTTGGAG
1 ACTTTTTTA-CCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
** * * * * *
1637119 ACTTCCTCACCTTTAGTTTGTCTGTCGACTTTGACCAT-GAAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAG-AG
** * * * * * * *
1637161 ACTTCCTTACCTTCAGTTTGCTTGTCGACTTTGACCTTGGAA
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
* * * * * *
1637203 ACTTTCTTACCTTCAATCTGCTTGTTGACTTTGACCCT-GAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
* * * * ** * * * * *
1637244 ACTTATTGACCTTCAATCTATCTGTTGGCTTTGACCATGGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
** * * * *
1637286 ACTTCCTCACCTTTAGTCTGCCTGT-TAGCTTTGACCCTAGAC
1 ACTTTTTTACCTTTAGTCTGCCTATCGA-CTTTGACCCTAGAG
** * * * *
1637328 ACTTCCTCACCTTTAGTTTGCCTGTC-AGCTTTGACCCTGGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGA-CTTTGACCCTAGAG
* * * * * * * *
1637370 ACTTCTTAACCTTTAGTCTGCCTGTTGGCTTTAACCTTGGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
** * * * **
1637412 ACTTCCTCACCTTCAGTCTACCTATCGGTTTTGACCCTAGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
** ** * *
1637454 ACTTCCTTACCCTCAAGTTTGCCTATCGACTTTAACCCTAGAG
1 ACTTTTTTA-CCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
* * * * * * * *
1637497 ACTTCATCT-CCTTCAGTATGTC-GTCGGCTTTGA-CCTTGAAG
1 ACTT-TTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAG-AG
* * * * * *
1637538 ACTTTCTCACTTTTAGTTTGCATGTC-AGCTTTGACCCTAGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGA-CTTTGACCCTAGAG
** * * * * *
1637580 ACTTCCTGACCTTTAGTCTGCCTATTGGCTTTGACCTTGGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
** * * * * * ** * *
1637622 ACTTCCTCACCTTCAGTCTACTTATTGGTTTTGACCTTGGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
** ** * * * * * *
1637664 ACTTCCTTACCCTCAAGTCTGCCTGTTGGCTTTTACCTTGGAG
1 ACTTTTTTA-CCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
* * * * * * * *
1637707 ACTTTCTTACCCTTAGTTTGCCTGTTGGCTTTGACCTTGGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
* * * * * * * *
1637749 ACTTTCTTACCTTAAAGTCTACTTATCGGCTTT-AACCTTGAAA
1 ACTTTTTTACCTT-TAGTCTGCCTATCGACTTTGACCCTAG-AG
** * * * *
1637792 ACTTCCTCACCTTCAGTCTGCCTGTC-AGCTTTGACCCTGGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGA-CTTTGACCCTAGAG
** * * *
1637834 ACTTCCTCA-CTTTCAGTCTGCCTATCGGCTTTGACCTTAGAG
1 ACTTTTTTACCTTT-AGTCTGCCTATCGACTTTGACCCTAGAG
* ** * * * * *
1637876 ACTTCTAGACCTTCAATCTACCTATCGACTTTGACCTTGGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
* * * * ** *
1637918 ACTTTCTCACCTTCAGTTTGCCTATCGACTTTGACTTTAAAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
** ** * *
1637960 ACTTCCTTACCCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAG
1 ACTTTTTTA-CCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
* * * * * * *
1638003 ACTTCTTTACCTTTAGTTTACCTGTCAACTTTGACCCTGGAT
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
* * *
1638045 ACTTTCTTACCTTCTTAGTCTGCCTGTCGACTTTGACCCTGGAG
1 ACTTTTTTACC-T-TTAGTCTGCCTATCGACTTTGACCCTAGAG
* * * * * *
1638089 ACTTTTTTACCTTCAAGTTTGCTTGTCGGCTTTGACCATAGAG
1 ACTTTTTTACCTT-TAGTCTGCCTATCGACTTTGACCCTAGAG
* * * *
1638132 A-TTTCCTCACCTTTAGTTTGCCTATCGGCTTTGACCCTAGAG
1 ACTTT-TTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
** * * * * *
1638174 ACTTCCTTACCTTCAAGTTTGCTTGTCGGCTTTGACCCTAGAG
1 ACTTTTTTACCTT-TAGTCTGCCTATCGACTTTGACCCTAGAG
* ** * * * *
1638217 ACTTTCTTACGCTCAAGTCTGCCTGTTGGCTTTGACCTTAGAG
1 ACTTTTTTAC-CTTTAGTCTGCCTATCGACTTTGACCCTAGAG
** * * * *
1638260 ACTTCCTTATCTTCAAGTCTGCCTAT-TAGCTTTGACCTTAGAG
1 ACTTTTTTACCTT-TAGTCTGCCTATCGA-CTTTGACCCTAGAG
* * *
1638303 ACTTCTTTACCTTTAGTCTGTCTATC-AGCTTTGACCTTAGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGA-CTTTGACCCTAGAG
* * * *
1638345 ACTTTCTTACCTTTAGTCTACCTGTCGACTTTGACCTTAGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
* ** * * * *
1638387 ACTTCTTTATTTTTAGTCTACTTATCGGCTTTGATCCTAGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
* * ** * * ** * *
1638429 ATTTTCTTTCCCTCAAGTCTGTCTGTCGACTTTGACTTTAAAA
1 ACTTT-TTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
** * * *
1638472 ACTTCCTTACCTTTAGTTTGCCTCTCGACTTTGA-CCTTGAAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAG-AG
* * * * * *
1638514 ACTTCTTTACTCTCT-GTTTGCC-AGTCAACTTTGACCTTGGAG
1 ACTTTTTTAC-CTTTAGTCTGCCTA-TCGACTTTGACCCTAGAG
* * * * * * * * *
1638556 GCTTCTTTACCCTTAGTCTACTTGT-TAGCTTTGACCTTGGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGA-CTTTGACCCTAGAG
* * * * *
1638598 ACTTCTTTACCTTTAGTCTGTCTATCAATTTTGACCCTGGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
** * * *
1638640 ACTTTTTTTTCTTTAGTCTGCCTGTC-AGCTTTGACCCTGGAA
1 ACTTTTTTACCTTTAGTCTGCCTATCGA-CTTTGACCCTAGAG
** * * * * *
1638682 ACTTCCTTACCCTTAGTTTGCCTATTGACTTTGACCCTATAA
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
* ** * * ** *
1638724 ACTTTCTTACCCTCAAGTCTACCTATC-AGCTTTAACGTTGGAG
1 ACTTTTTTA-CCTTTAGTCTGCCTATCGA-CTTTGACCCTAGAG
* * *
1638767 ACTTCTTTACCTTTAGTCTGCCTGTCGACTTTAACCCT-GTAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAG-AG
* * * * * * * *
1638809 ACTTCTTTACCTTTAGTTTGTCTGTCGGCCTAGACCCTGGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
** * * * ** *
1638851 ACTTCCTTACCTTTAGTTTGCCTATTGGCTTTGACATTGGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
* * * * * * *
1638893 ACCTTTTCACCTTTAGTCTACTTGTCGGCTTTGACCCTTGAG
1 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
* *
1638935 ACTTTTTCACCTTTAGTTTGCC
1 ACTTTTTTACCTTTAGTCTGCC
1638957 CGTCGGCTTT
Statistics
Matches: 1922, Mismatches: 484, Indels: 137
0.76 0.19 0.05
Matches are distributed among these distances:
40 4 0.00
41 104 0.05
42 1244 0.65
43 485 0.25
44 82 0.04
45 3 0.00
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.39
Consensus pattern (42 bp):
ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGACCCTAGAG
Found at i:1636628 original size:84 final size:83
Alignment explanation
Indices: 1636443--1638967 Score: 1289
Period size: 84 Copynumber: 29.9 Consensus size: 83
1636433 CCTTCTAACT
* * ** ** * *
1636443 TTCTTACCTTTAAATCTGCCTATCGACTTTGACCCTAAAGACTTTTTTTACCTTTTGTCTACCTG
1 TTCTTACCTTT-AGTCTGCCTGTCGACTTTGACCCTGGAGAC-TTCCTTACCTTTAGTCTGCCTG
** *
1636508 TCGACTTTGACATTGGAGAC
64 TCGACTTTGACCCTAGAGAC
* * * * * * * *
1636528 TTTTTACCCTTAGTCTGCCTATCGACTTTGAGCTTGGAGACATCCTTACCTTTAGTTTGCCTATC
1 TTCTTACCTTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCCTGTC
1636593 GACTTTGACCCTAGAGAC
66 GACTTTGACCCTAGAGAC
* * * *
1636611 TTCTTCACCTTTAGTCTGCCTATCTACTTTGACCCTAGAGACTTCTTTAACCTTTAGTCTGCCTG
1 TTCTT-ACCTTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCTT-ACCTTTAGTCTGCCTG
* *
1636676 TTGACTTTGACCCTAGAAAC
64 TCGACTTTGACCCTAGAGAC
** * * * ** * * * * * *
1636696 TTCTTCATTTTTAGTCTGCTTATCGGCTTTGACTTTAGAGACTTCCTCACCCTTAATCTACCTAT
1 TTCTT-ACCTTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCCTGT
*
1636761 CGGCTTTGACCCT-GCAGAC
65 CGACTTTGACCCTAG-AGAC
** * * * * * * * *
1636780 TTTCTTACCCTCAAGTCTGCTTGTCGGCTTTGACCCTGTAAACTTTCTCACCTTCAATCTGCCTG
1 -TTCTTA-CCTTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCCTG
**
1636845 TCGGTTTTGACCCTAGAGAC
64 TCGACTTTGACCCTAGAGAC
* * * * * * * * * * *
1636865 TTCTTGACCTTCAATCTGCTTGTCGGCTTTGACCCTAGAGACTTTCTCACCTTCATTTTGCCTCT
1 TTCTT-ACCTTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCCTGT
** * *
1636930 TAACTTTGACCCTAAAGATT
65 CGACTTTGACCCTAGAGA-C
** * * * * * * * * * *
1636950 TTCTTACTCTCAAGTTTGCTTG-CTGGCTTTGACCCTAGAGACTTCCTCACTTTTATTTTTCCTA
1 TTCTTAC-CTTTAGTCTGCCTGTC-GACTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCCTG
* *
1637014 TC-AGCTTTAACCTTAGAGAC
64 TCGA-CTTTGACCCTAGAGAC
* * * * * * **
1637034 TTTCTCAGCTTCATAGTCTGCCTATCGATTTTGACCCTAGAGACTTTCTTACCCTCAAGTCTGCC
1 -TTCTTACCTT--TAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCTTA-CCTTTAGTCTGCC
* * * *
1637099 TCTCGGCTTTGACCTTGGAGAC
62 TGTCGACTTTGACCCTAGAGAC
* * * * * * * *
1637121 TTCCTCACCTTTAGTTTGTCTGTCGACTTTGACCATGAAGACTTCCTTACCTTCAGTTTGCTTGT
1 TT-CTTACCTTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCCTGT
* * *
1637186 CGACTTTGACCTTGGAAAC
65 CGACTTTGACCCTAGAGAC
* * * * * * * **
1637205 TTTCTTACCTTCAATCTGCTTGTTGACTTTGACCCT-GAGACTT-ATTGACCTTCAATCTATCTG
1 -TTCTTACCTTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCTT-ACCTTTAGTCTGCCTG
* * * *
1637268 TTGGCTTTGACCATGGAGAC
64 TCGACTTTGACCCTAGAGAC
* * * * * *
1637288 TTCCTCACCTTTAGTCTGCCTGT-TAGCTTTGACCCTAGACACTTCCTCACCTTTAGTTTGCCTG
1 TT-CTTACCTTTAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCCTG
*
1637352 TC-AGCTTTGACCCTGGAGAC
64 TCGA-CTTTGACCCTAGAGAC
* * * * * * * *
1637372 TTCTTAACCTTTAGTCTGCCTGTTGGCTTTAACCTTGGAGACTTCCTCACCTTCAGTCTACCTAT
1 TTCTT-ACCTTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCCTGT
**
1637437 CGGTTTTGACCCTAGAGAC
65 CGACTTTGACCCTAGAGAC
** * * * * * * * *
1637456 TTCCTTACCCTCAAGTTTGCCTATCGACTTTAACCCTAGAGACTTCATCT-CCTTCAGTATGTC-
1 TT-CTTA-CCTTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCT-TACCTTTAGTCTGCCT
* *
1637519 GTCGGCTTTGA-CCTTGAAGAC
63 GTCGACTTTGACCCTAG-AGAC
* * * * * * *
1637540 TTTCTCACTTTTAGTTTGCATGTC-AGCTTTGACCCTAGAGACTTCCTGACCTTTAGTCTGCCTA
1 -TTCTTACCTTTAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCCTG
* * * *
1637604 TTGGCTTTGACCTTGGAGAC
64 TCGACTTTGACCCTAGAGAC
* * * * * * ** * **
1637624 TTCCTCACCTTCAGTCTACTTATTGGTTTTGACCTTGGAGACTTCCTTACCCTCAAGTCTGCCTG
1 TT-CTTACCTTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCTTA-CCTTTAGTCTGCCTG
* * * * *
1637689 TTGGCTTTTACCTTGGAGAC
64 TCGACTTTGACCCTAGAGAC
* * * * * * * * * *
1637709 TTTCTTACCCTTAGTTTGCCTGTTGGCTTTGACCTTGGAGACTTTCTTACCTTAAAGTCTACTTA
1 -TTCTTACCTTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCTTACCTT-TAGTCTGCCTG
* * * *
1637774 TCGGCTTT-AACCTTGAAAAC
64 TCGACTTTGACCCTAG-AGAC
* * *
1637794 TTCCTCACCTTCAGTCTGCCTGTC-AGCTTTGACCCTGGAGACTTCCTCA-CTTTCAGTCTGCCT
1 TT-CTTACCTTTAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCCTTACCTTT-AGTCTGCCT
* * *
1637857 ATCGGCTTTGACCTTAGAGAC
63 GTCGACTTTGACCCTAGAGAC
* * * * * * * * * * *
1637878 TTCTAGACCTTCAATCTACCTATCGACTTTGACCTTGGAGACTTTCTCACCTTCAGTTTGCCTAT
1 TTCT-TACCTTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCCTGT
** *
1637943 CGACTTTGACTTTAAAGAC
65 CGACTTTGACCCTAGAGAC
** * * * * *
1637962 TTCCTTACCCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTTACCTTTAGTTTACCTG
1 TT-CTTA-CCTTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCCTG
* * *
1638027 TCAACTTTGACCCTGGATAC
64 TCGACTTTGACCCTAGAGAC
** * * *
1638047 TTTCTTACCTTCTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTTTTTACCTTCAAGTTTGCT
1 -TTCTTACC-T-TTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCTTACCTT-TAGTCTGCC
* * *
1638112 TGTCGGCTTTGACCATAGAGAT
62 TGTCGACTTTGACCCTAGAGAC
* * * * * * * *
1638134 TTCCTCACCTTTAGTTTGCCTATCGGCTTTGACCCTAGAGACTTCCTTACCTTCAAGTTTGCTTG
1 TT-CTTACCTTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCTTACCTT-TAGTCTGCCTG
*
1638199 TCGGCTTTGACCCTAGAGAC
64 TCGACTTTGACCCTAGAGAC
** * * * * * *
1638219 TTTCTTACGCTCAAGTCTGCCTGTTGGCTTTGACCTTAGAGACTTCCTTATCTTCAAGTCTGCCT
1 -TTCTTAC-CTTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCTTACCTT-TAGTCTGCCT
* * *
1638284 AT-TAGCTTTGACCTTAGAGAC
63 GTCGA-CTTTGACCCTAGAGAC
* * * * * *
1638305 TTCTTTACCTTTAGTCTGTCTATC-AGCTTTGACCTTAGAGACTTTCTTACCTTTAGTCTACCTG
1 TTC-TTACCTTTAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCCTG
*
1638369 TCGACTTTGACCTTAGAGAC
64 TCGACTTTGACCCTAGAGAC
** * * * * * * * * * ** *
1638389 TTCTTTATTTTTAGTCTACTTATCGGCTTTGATCCTAGAGATTTTCTTTCCCTCAAGTCTGTCTG
1 TTC-TTACCTTTAGTCTGCCTGTCGACTTTGACCCTGGAGA-CTTCCTTACCTTTAGTCTGCCTG
** * *
1638454 TCGACTTTGACTTTAAAAAC
64 TCGACTTTGACCCTAGAGAC
* * * * * * * *
1638474 TTCCTTACCTTTAGTTTGCCTCTCGACTTTGACCTTGAAGACTTCTTTACTCTCT-GTTTGCCAG
1 TT-CTTACCTTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCTTAC-CTTTAGTCTGCCTG
* * * *
1638538 TCAACTTTGACCTTGGAGGC
64 TCGACTTTGACCCTAGAGAC
* * * * * * * *
1638558 TTCTTTACCCTTAGTCTACTTGT-TAGCTTTGACCTTGGAGACTTCTTTACCTTTAGTCTGTCTA
1 TTC-TTACCTTTAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCCTG
* * *
1638622 TCAATTTTGACCCTGGAGAC
64 TCGACTTTGACCCTAGAGAC
* ** * * * *
1638642 TTTTTTTTCTTTAGTCTGCCTGTC-AGCTTTGACCCTGGAAACTTCCTTACCCTTAGTTTGCCTA
1 -TTCTTACCTTTAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCCTG
* * *
1638706 TTGACTTTGACCCTATAAAC
64 TCGACTTTGACCCTAGAGAC
** * * * ** *
1638726 TTTCTTACCCTCAAGTCTACCTATC-AGCTTTAACGTTGGAGACTTCTTTACCTTTAGTCTGCCT
1 -TTCTTA-CCTTTAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCCT
*
1638790 GTCGACTTTAACCCT-GTAGAC
63 GTCGACTTTGACCCTAG-AGAC
* * * * * * *
1638811 TTCTTTACCTTTAGTTTGTCTGTCGGCCTAGACCCTGGAGACTTCCTTACCTTTAGTTTGCCTAT
1 TTC-TTACCTTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCCTGT
* * ** *
1638876 TGGCTTTGACATTGGAGACC
65 CGACTTTGACCCTAGAGA-C
* * * * * * *
1638896 TT-TTCACCTTTAGTCTACTTGTCGGCTTTGACCCTTGAGACTT-TTTCACCTTTAGTTTGCCCG
1 TTCTT-ACCTTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCTT-ACCTTTAGTCTGCCTG
*
1638959 TCGGCTTTG
64 TCGACTTTG
1638968 GCTCGGGAGA
Statistics
Matches: 1896, Mismatches: 464, Indels: 161
0.75 0.18 0.06
Matches are distributed among these distances:
82 6 0.00
83 156 0.08
84 798 0.42
85 731 0.39
86 146 0.08
87 59 0.03
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.39
Consensus pattern (83 bp):
TTCTTACCTTTAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCCTTACCTTTAGTCTGCCTGTC
GACTTTGACCCTAGAGAC
Found at i:1636683 original size:127 final size:126
Alignment explanation
Indices: 1636440--1638967 Score: 1417
Period size: 127 Copynumber: 19.9 Consensus size: 126
1636430 AACCCTTCTA
* * * * * * *
1636440 ACTTTCTTACCTTTAAATCTGCCTATCGACTTTGACCCTAAAGACTTTTTTTACCTTTTGTCTAC
1 ACTTTCTTACCTTT-AGTCTGCCTATCGGCTTTGACCCTAGAGAC-TTCTTCACCTTTAGTCTGC
* ** * * * * *
1636505 CTGTCGACTTTGACATTGGAGACTT-TTTACCCTTAGTCTGCCTATCGACTTTGAGCTTGGAG
64 CTATCGACTTTGACCCTGGAGACTTCTTTACCTTTAGTCTGCCTGTCGACTTTGACCCTAGAG
* * * *
1636567 ACATCCTTACCTTTAGTTTGCCTATCGACTTTGACCCTAGAGACTTCTTCACCTTTAGTCTGCCT
1 ACTTTCTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCTTCACCTTTAGTCTGCCT
* * * *
1636632 ATCTACTTTGACCCTAGAGACTTCTTTAACCTTTAGTCTGCCTGTTGACTTTGACCCTAGAA
66 ATCGACTTTGACCCTGGAGACTTCTTT-ACCTTTAGTCTGCCTGTCGACTTTGACCCTAGAG
** * ** * * * *
1636694 AC-TTCTTCATTTTTAGTCTGCTTATCGGCTTTGACTTTAGAGACTTCCTCACCCTTAATCTACC
1 ACTTTCTT-ACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCTTCACCTTTAGTCTGCC
* * ** * * *
1636758 TATCGGCTTTGACCCTGCAGACTT-TCTTACCCTCAAGTCTGCTTGTCGGCTTTGACCCT-GTAA
65 TATCGACTTTGACCCTGGAGACTTCT-TTA-CCTTTAGTCTGCCTGTCGACTTTGACCCTAG-AG
* * * * * * * * *
1636821 ACTTTCTCACCTTCAATCTGCCTGTCGGTTTTGACCCTAGAGACTTCTTGACCTTCAATCTGCTT
1 ACTTTCTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCTTCACCTTTAGTCTGCCT
* * * * * * * * ** *
1636886 GTCGGCTTTGACCCTAGAGACTT-TCTCACCTTCATTTTGCCTCTTAACTTTGACCCTAAAG
66 ATCGACTTTGACCCTGGAGACTTCT-TTACCTTTAGTCTGCCTGTCGACTTTGACCCTAGAG
* ** * * * * * *
1636947 ATTTTCTTACTCTCAAGTTTG-CT-TGCTGGCTTTGACCCTAGAGACTTCCTCACTTTTATTTTT
1 ACTTTCTTAC-CTTTAGTCTGCCTAT-C-GGCTTTGACCCTAGAGACTTCTTCACCTTTAGTCTG
* * * * * * *
1637010 CCTATC-AGCTTTAACCTTAGAGACTT-TCTCAGCTTCATAGTCTGCCTATCGATTTTGACCCTA
63 CCTATCGA-CTTTGACCCTGGAGACTTCT-TTACCTT--TAGTCTGCCTGTCGACTTTGACCCTA
1637073 GAG
124 GAG
** * * * * * *
1637076 ACTTTCTTACCCTCAAGTCTGCCTCTCGGCTTTGACCTTGGAGACTTCCTCACCTTTAGTTTGTC
1 ACTTTCTTA-CCTTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCTTCACCTTTAGTCTGCC
* * * * * * * * * *
1637141 TGTCGACTTTGACCATGAAGACTTCCTTACCTTCAGTTTGCTTGTCGACTTTGACCTTGGAA
65 TATCGACTTTGACCCTGGAGACTTCTTTACCTTTAGTCTGCCTGTCGACTTTGACCCTAGAG
* * * * * * * * * * **
1637203 ACTTTCTTACCTTCAATCTGCTTGTTGACTTTGACCCT-GAGACTTATTGACCTTCAATCTATCT
1 ACTTTCTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCTTCACCTTTAGTCTGCCT
* * * * * * * *
1637267 GTTGGCTTTGACCATGGAGACTTCCTCACCTTTAGTCTGCCTGT-TAGCTTTGACCCTAGAC
66 ATCGACTTTGACCCTGGAGACTTCTTTACCTTTAGTCTGCCTGTCGA-CTTTGACCCTAGAG
* * * * * * *
1637328 ACTTCCTCACCTTTAGTTTGCCTGTCAGCTTTGACCCTGGAGACTTCTTAACCTTTAGTCTGCCT
1 ACTTTCTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCTTCACCTTTAGTCTGCCT
* * * * * * * * * * **
1637393 GTTGGCTTTAACCTTGGAGACTTCCTCACCTTCAGTCTACCTATCGGTTTTGACCCTAGAG
66 ATCGACTTTGACCCTGGAGACTTCTTTACCTTTAGTCTGCCTGTCGACTTTGACCCTAGAG
* ** * * * * * * * *
1637454 ACTTCCTTACCCTCAAGTTTGCCTATCGACTTTAACCCTAGAGACTTCATCTCCTTCAGTATGTC
1 ACTTTCTTA-CCTTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCTTCACCTTTAGTCTGCC
* * * * * * * *
1637519 -GTCGGCTTTGACCTTGAAGACTT-TCTCACTTTTAGTTTGCATGTC-AGCTTTGACCCTAGAG
65 TATCGACTTTGACCCTGGAGACTTCT-TTACCTTTAGTCTGCCTGTCGA-CTTTGACCCTAGAG
* * * * * * * * *
1637580 ACTTCCTGACCTTTAGTCTGCCTATTGGCTTTGACCTTGGAGACTTCCTCACCTTCAGTCTACTT
1 ACTTTCTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCTTCACCTTTAGTCTGCCT
* ** * * ** * * * * *
1637645 ATTGGTTTTGACCTTGGAGACTTCCTTACCCTCAAGTCTGCCTGTTGGCTTTTACCTTGGAG
66 ATCGACTTTGACCCTGGAGACTTCTTTA-CCTTTAGTCTGCCTGTCGACTTTGACCCTAGAG
* * * * * * * *
1637707 ACTTTCTTACCCTTAGTTTGCCTGTTGGCTTTGACCTTGGAGACTTTCTT-ACCTTAAAGTCTAC
1 ACTTTCTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAGAC-TTCTTCACCTT-TAGTCTGC
* * * * * * * * * *
1637771 TTATCGGCTTTAACCTTGAAAACTTCCTCACCTTCAGTCTGCCTGTC-AGCTTTGACCCTGGAG
64 CTATCGACTTTGACCCTGGAGACTTCTTTACCTTTAGTCTGCCTGTCGA-CTTTGACCCTAGAG
* * * ** * * *
1637834 ACTTCCTCA-CTTTCAGTCTGCCTATCGGCTTTGACCTTAGAGACTTCTAGACCTTCAATCTACC
1 ACTTTCTTACCTTT-AGTCTGCCTATCGGCTTTGACCCTAGAGACTTCTTCACCTTTAGTCTGCC
* * * * * ** *
1637898 TATCGACTTTGACCTTGGAGACTT-TCTCACCTTCAGTTTGCCTATCGACTTTGACTTTAAAG
65 TATCGACTTTGACCCTGGAGACTTCT-TTACCTTTAGTCTGCCTGTCGACTTTGACCCTAGAG
* ** * * * *
1637960 ACTTCCTTACCCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTTACCTTTAGTTTACC
1 ACTTTCTTA-CCTTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCTTCACCTTTAGTCTGCC
* * * *
1638025 TGTCAACTTTGACCCTGGATACTT-TCTTACCTTCTTAGTCTGCCTGTCGACTTTGACCCTGGAG
65 TATCGACTTTGACCCTGGAGACTTCT-TTACC-T-TTAGTCTGCCTGTCGACTTTGACCCTAGAG
* * * * * * * * *
1638089 ACTTTTTTACCTTCAAGTTTGCTTGTCGGCTTTGACCATAGAGATTTCCTCACCTTTAGTTTGCC
1 ACTTTCTTACCTT-TAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCTTCACCTTTAGTCTGCC
* * * * * * *
1638154 TATCGGCTTTGACCCTAGAGACTTCCTTACCTTCAAGTTTGCTTGTCGGCTTTGACCCTAGAG
65 TATCGACTTTGACCCTGGAGACTTCTTTACCTT-TAGTCTGCCTGTCGACTTTGACCCTAGAG
** * * * * *
1638217 ACTTTCTTACGCTCAAGTCTGCCTGTTGGCTTTGACCTTAGAGACTTCCTT-ATCTTCAAGTCTG
1 ACTTTCTTAC-CTTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTT-CTTCACCTT-TAGTCTG
* * * * * *
1638281 CCTAT-TAGCTTTGACCTTAGAGACTTCTTTACCTTTAGTCTGTCTATC-AGCTTTGACCTTAGA
63 CCTATCGA-CTTTGACCCTGGAGACTTCTTTACCTTTAGTCTGCCTGTCGA-CTTTGACCCTAGA
1638344 G
126 G
* * * * * ** * *
1638345 ACTTTCTTACCTTTAGTCTACCTGTCGACTTTGACCTTAGAGACTTCTTTATTTTTAGTCTACTT
1 ACTTTCTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCTTCACCTTTAGTCTGCCT
* * * * * ** * ** * *
1638410 ATCGGCTTTGATCCTAGAGATTTTCTTTCCCTCAAGTCTGTCTGTCGACTTTGACTTTAAAA
66 ATCGACTTTGACCCTGGAGA-CTTCTTTACCTTTAGTCTGCCTGTCGACTTTGACCCTAGAG
* * * * * * * *
1638472 ACTTCCTTACCTTTAGTTTGCCTCTCGACTTTGA-CCTTGAAGACTTCTTTACTCTCT-GTTTGC
1 ACTTTCTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAG-AGACTTCTTCAC-CTTTAGTCTGC
* * * * * * * * *
1638535 C-AGTCAACTTTGACCTTGGAGGCTTCTTTACCCTTAGTCTACTTGT-TAGCTTTGACCTTGGAG
64 CTA-TCGACTTTGACCCTGGAGACTTCTTTACCTTTAGTCTGCCTGTCGA-CTTTGACCCTAGAG
* *** * * ***
1638598 AC-TTCTTTACCTTTAGTCTGTCTATCAATTTTGACCCTGGAGACTTTTTTTTCTTTAGTCTGCC
1 ACTTTC-TTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCTTCACCTTTAGTCTGCC
* * * * * * * * *
1638662 TGTC-AGCTTTGACCCTGGAAACTTCCTTACCCTTAGTTTGCCTATTGACTTTGACCCTATAA
65 TATCGA-CTTTGACCCTGGAGACTTCTTTACCTTTAGTCTGCCTGTCGACTTTGACCCTAGAG
** * * * ** * *
1638724 ACTTTCTTACCCTCAAGTCTACCTATCAGCTTTAACGTTGGAGACTTCTTTACCTTTAGTCTGCC
1 ACTTTCTTA-CCTTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCTTCACCTTTAGTCTGCC
* * * * * * * * *
1638789 TGTCGACTTTAACCCTGTAGACTTCTTTACCTTTAGTTTGTCTGTCGGCCTAGACCCTGGAG
65 TATCGACTTTGACCCTGGAGACTTCTTTACCTTTAGTCTGCCTGTCGACTTTGACCCTAGAG
* * * ** * * *
1638851 ACTTCCTTACCTTTAGTTTGCCTATTGGCTTTGACATTGGAGACCTT-TTCACCTTTAGTCTACT
1 ACTTTCTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAGA-CTTCTTCACCTTTAGTCTGCC
* * * * * *
1638915 TGTCGGCTTTGACCCTTGAGACTT-TTTCACCTTTAGTTTGCCCGTCGGCTTTG
65 TATCGACTTTGACCCTGGAGACTTCTTT-ACCTTTAGTCTGCCTGTCGACTTTG
1638968 GCTCGGGAGA
Statistics
Matches: 1872, Mismatches: 462, Indels: 135
0.76 0.19 0.05
Matches are distributed among these distances:
124 1 0.00
125 183 0.10
126 538 0.29
127 769 0.41
128 146 0.08
129 229 0.12
130 5 0.00
131 1 0.00
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.39
Consensus pattern (126 bp):
ACTTTCTTACCTTTAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCTTCACCTTTAGTCTGCCT
ATCGACTTTGACCCTGGAGACTTCTTTACCTTTAGTCTGCCTGTCGACTTTGACCCTAGAG
Found at i:1638825 original size:169 final size:166
Alignment explanation
Indices: 1636440--1638885 Score: 1121
Period size: 169 Copynumber: 14.5 Consensus size: 166
1636430 AACCCTTCTA
* * * * ** * * *
1636440 ACTTTCTTACCTTTAAATCTGCCTATC-GACTTTGACCCTAAAGACTTTTTTTACCTTTTGTCTA
1 ACTTCCTTACCTTT-AGTCTGCCTGTCAG-CTTTGACCCTAGAGAC-TTCCTTACCTTTAGTTTG
* ** * * * * *
1636504 CCTGTCGACTTTGACATTGGAGACTTTTTACCCT-TAGTCTGCCTATCGACTTTGAGCTTGGAGA
63 CCTATCGACTTTGACCCTAGAGACTTCTTACCCTCAAGTCTACCTATCG-CTTTGACCTTGGAGA
* * * * *
1636568 CATCCTTACCTTTAGTTTGCCTATCGACTTTGACCCTAGAG
127 CTTCTTTACCTTAAGTCTGCCTATCGACTTTGA-CCTTGAG
* * *
1636609 ACTT-CTTCACCTTTAGTCTGCCTATCTA-CTTTGACCCTAGAGACTTCTTTAACCTTTAGTCTG
1 ACTTCCTT-ACCTTTAGTCTGCCTGTC-AGCTTTGACCCTAGAGACTTCCTT-ACCTTTAGTTTG
* * * ** ** * * * *
1636672 CCTGTTGACTTTGACCCTAGAAACTTCTT-CATTTTTAGTCTGCTTATCGGCTTTGACTTTAGAG
63 CCTATCGACTTTGACCCTAGAGACTTCTTAC-CCTCAAGTCTACCTATC-GCTTTGACCTTGGAG
* * * * *
1636736 ACTTCCTCACCCTTAA-TCTACCTATCGGCTTTGACCCTGCAG
126 ACTTCTTTA-CCTTAAGTCTGCCTATCGACTTTGACCTTG-AG
* ** * * * * * * * *
1636778 ACTTTCTTACCCTCAAGTCTGCTTGTCGGCTTTGACCCT-GTAAACTTTCTCACCTTCAATCTGC
1 ACTTCCTTA-CCTTTAGTCTGCCTGTCAGCTTTGACCCTAG-AGACTTCCTTACCTTTAGTTTGC
* ** * * * * * *
1636842 CTGTCGGTTTTGACCCTAGAGACTTCTTGACCTTCAA-TCTGCTTGTCGGCTTTGACCCTAGAGA
64 CTATCGACTTTGACCCTAGAGACTTCTT-ACCCTCAAGTCTACCTATC-GCTTTGACCTTGGAGA
* * * * * ** **
1636906 CTT-TCTCACCTTCATTTTGCCTCTTAACTTTGACCCTAAAG
127 CTTCT-TTACCTTAAGTCTGCCTATCGACTTTGA-CCTTGAG
* * ** * * * * * * *
1636947 ATTTTCTTACTCTCAAGTTTGCTTG-CTGGCTTTGACCCTAGAGACTTCCTCACTTTTATTTTTC
1 ACTTCCTTAC-CTTTAGTCTGCCTGTC-AGCTTTGACCCTAGAGACTTCCTTACCTTTAGTTTGC
* * * * * * * * *
1637011 CTATC-AGCTTTAACCTTAGAGACTTTCTCAGCTTCATAGTCTGCCTATCGATTTTGACCCTAGA
64 CTATCGA-CTTTGACCCTAGAGAC-TTCTTACCCTCA-AGTCTACCTATCG-CTTTGACCTTGGA
* * *
1637075 GACTT-TCTTACCCTCAAGTCTGCCTCTCGGCTTTGACCTTGGAG
125 GACTTCT-TTA-CCTTAAGTCTGCCTATCGACTTTGACCTT-GAG
* * * * *
1637119 ACTTCCTCACCTTTAGTTTGTCTGTC-GACTTTGACCAT-GAAGACTTCCTTACCTTCAGTTTGC
1 ACTTCCTTACCTTTAGTCTGCCTGTCAG-CTTTGACCCTAG-AGACTTCCTTACCTTTAGTTTGC
* * * * * * * * * * *
1637182 TTGTCGACTTTGACCTTGGAAACTTTCTTACCTTCAA-TCTGCTTGTTGACTTTGACCCT-GAGA
64 CTATCGACTTTGACCCTAGAGAC-TTCTTACCCTCAAGTCTACCTATCG-CTTTGACCTTGGAGA
* * ** * * * *
1637245 CTTATTGACCTTCAA-TCTATCTGTTGGCTTTGACCATGGAG
127 CTTCTTTACCTT-AAGTCTGCCTATCGACTTTGACC-TTGAG
* * * *
1637286 ACTTCCTCACCTTTAGTCTGCCTGTTAGCTTTGACCCTAGACACTTCCTCACCTTTAGTTTGCCT
1 ACTTCCTTACCTTTAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTCCTTACCTTTAGTTTGCCT
* * * ** * * * *
1637351 GTC-AGCTTTGACCCTGGAGACTTCTTAACCTTTAGTCTGCCTGTTGGCTTTAACCTTGGAGACT
66 ATCGA-CTTTGACCCTAGAGACTTCTTACCCTCAAGTCTACCT-ATCGCTTTGACCTTGGAGACT
* * * * ** *
1637415 TCCTCACCTTCAGTCTACCTATCGGTTTTGACCCTAGAG
129 TCTTTACCTTAAGTCTGCCTATCGACTTTGA-CCTTGAG
** * * * * * *
1637454 ACTTCCTTACCCTCAAGTTTGCCTATC-GACTTTAACCCTAGAGACTTCATCT-CCTTCAGTATG
1 ACTTCCTTA-CCTTTAGTCTGCCTGTCAG-CTTTGACCCTAGAGACTTCCT-TACCTTTAGTTTG
* * * * * * ** * * * * * *
1637517 TC-GTCGGCTTTGA-CCTTGAAGACTTTCTCA-CTTTTAGTTTGCATGTCAGCTTTGACCCTAGA
63 CCTATCGACTTTGACCCTAG-AGAC-TTCTTACCCTCAAGTCTACCTATC-GCTTTGACCTTGGA
* * * * *
1637579 GACTTCCTGACCTTTAGTCTGCCTATTGGCTTTGACCTTGGAG
125 GACTTCTTTACCTTAAGTCTGCCTATCGACTTTGACCTT-GAG
* * * * * ** * * * ** *
1637622 ACTTCCTCACCTTCAGTCTACTTATTGGTTTTGACCTTGGAGACTTCCTTACCCTCAAGTCTGCC
1 ACTTCCTTACCTTTAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTCCTTA-CCTTTAGTTTGCC
* * * * * * * * * * *
1637687 TGTTGGCTTTTACCTTGGAGACTTTCTTACCCT-TAGTTTGCCTGTTGGCTTTGACCTTGGAGAC
65 TATCGACTTTGACCCTAGAGAC-TTCTTACCCTCAAGTCTACCT-ATCGCTTTGACCTTGGAGAC
* * * * *
1637751 TT-TCTTACCTTAAAGTCTACTTATCGGCTTTAACCTTGAAA
128 TTCT-TTACCTT-AAGTCTGCCTATCGACTTTGACCTTG-AG
* * * * *
1637792 ACTTCCTCACCTTCAGTCTGCCTGTCAGCTTTGACCCTGGAGACTTCCTCA-CTTTCAGTCTGCC
1 ACTTCCTTACCTTTAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTCCTTACCTTT-AGTTTGCC
* * * *
1637856 TATCGGCTTTGACCTTAGAGACTTCTAGACCTTCAA-TCTACCTATCGACTTTGACCTTGGAGAC
65 TATCGACTTTGACCCTAGAGACTTCT-TACCCTCAAGTCTACCTATCG-CTTTGACCTTGGAGAC
* * * * *
1637920 TT-TCTCACCTTCAGTTTGCCTATCGACTTTGACTTTAAAG
128 TTCT-TTACCTTAAGTCTGCCTATCGACTTTGACCTT-GAG
** * * *
1637960 ACTTCCTTACCCTCAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTTACCTTTAGTTTACC
1 ACTTCCTTA-CCTTTAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTCCTTACCTTTAGTTTGCC
* * * * * * * * *
1638025 TGTCAACTTTGACCCTGGATACTTTCTTACCTTCTTAGTCTGCCTGTCGACTTTGACCCTGGAGA
65 TATCGACTTTGACCCTAGAGAC-TTCTTACCCTC-AAGTCTACCTATCG-CTTTGACCTTGGAGA
* * * * * *
1638090 CTTTTTTACCTTCAAGTTTGCTTGTCGGCTTTGACCATAGAG
127 CTTCTTTACCTT-AAGTCTGCCTATCGACTTTGACC-TTGAG
* * * * * * *
1638132 ATTTCCTCACCTTTAGTTTGCCTATCGGCTTTGACCCTAGAGACTTCCTTACCTTCAAGTTTGCT
1 ACTTCCTTACCTTTAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTCCTTACCTT-TAGTTTGCC
* * * * * * *
1638197 TGTCGGCTTTGACCCTAGAGACTTTCTTACGCTCAAGTCTGCCTGTTGGCTTTGACCTTAGAGAC
65 TATCGACTTTGACCCTAGAGAC-TTCTTACCCTCAAGTCTACCT-ATCGCTTTGACCTTGGAGAC
* * *
1638262 TTCCTTATCTTCAAGTCTGCCTAT-TAGCTTTGACCTTAGAG
128 TTCTTTACCTT-AAGTCTGCCTATCGA-CTTTGACCTT-GAG
* * * * * * *
1638303 ACTTCTTTACCTTTAGTCTGTCTATCAGCTTTGACCTTAGAGACTTTCTTACCTTTAGTCTACCT
1 ACTTCCTTACCTTTAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTCCTTACCTTTAGTTTGCCT
* * ** ** * *
1638368 GTCGACTTTGACCTTAGAGACTTCTTTA-TTTTTAGTCTACTTATCGGCTTTGATCC-TAGAGAT
66 ATCGACTTTGACCCTAGAGACTTC-TTACCCTCAAGTCTACCTATC-GCTTTGA-CCTTGGAGA-
* * * * * * * *
1638431 TTTCTTTCCCTCAAGTCTGTCTGTCGACTTTGACTTTAAAA
127 CTTCTTTACCTTAAGTCTGCCTATCGACTTTGACCTT-GAG
* * * * *
1638472 ACTTCCTTACCTTTAGTTTGCCTCTC-GACTTTGA-CCTTGAAGACTTCTTTACTCTCT-GTTTG
1 ACTTCCTTACCTTTAGTCTGCCTGTCAG-CTTTGACCCTAG-AGACTTCCTTAC-CTTTAGTTTG
* * * * * * * *
1638534 CC-AGTCAACTTTGACCTTGGAGGCTTCTTTACCCT-TAGTCTACTTGTTAGCTTTGACCTTGGA
63 CCTA-TCGACTTTGACCCTAGAGACTTC-TTACCCTCAAGTCTACCT-ATCGCTTTGACCTTGGA
* * * * *
1638597 GACTTCTTTACCTTTAGTCTGTCTATCAATTTTGACCCTGGAG
125 GACTTCTTTACCTTAAGTCTGCCTATCGACTTTGA-CCTTGAG
** ** * * *
1638640 ACTTTTTTTTCTTTAGTCTGCCTGTCAGCTTTGACCCTGGAAACTTCCTTACCCTTAGTTTGCCT
1 ACTTCCTTACCTTTAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTCCTTACCTTTAGTTTGCCT
* * * * *
1638705 ATTGACTTTGACCCTATAAACTTTCTTACCCTCAAGTCTACCTATCAGCTTTAACGTTGGAGACT
66 ATCGACTTTGACCCTAGAGAC-TTCTTACCCTCAAGTCTACCTATC-GCTTTGACCTTGGAGACT
* * * *
1638770 TCTTTACCTTTAGTCTGCCTGTCGACTTTAACCCTGTAG
129 TCTTTACCTTAAGTCTGCCTATCGACTTTGACCTTG-AG
* * * * * * *
1638809 ACTTCTTTACCTTTAGTTTGTCTGTCGGCCTAGACCCTGGAGACTTCCTTACCTTTAGTTTGCCT
1 ACTTCCTTACCTTTAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTCCTTACCTTTAGTTTGCCT
* *
1638874 ATTGGCTTTGAC
66 ATCGACTTTGAC
1638886 ATTGGAGACC
Statistics
Matches: 1773, Mismatches: 405, Indels: 198
0.75 0.17 0.08
Matches are distributed among these distances:
166 11 0.01
167 150 0.08
168 351 0.20
169 720 0.41
170 177 0.10
171 270 0.15
172 93 0.05
173 1 0.00
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.39
Consensus pattern (166 bp):
ACTTCCTTACCTTTAGTCTGCCTGTCAGCTTTGACCCTAGAGACTTCCTTACCTTTAGTTTGCCT
ATCGACTTTGACCCTAGAGACTTCTTACCCTCAAGTCTACCTATCGCTTTGACCTTGGAGACTTC
TTTACCTTAAGTCTGCCTATCGACTTTGACCTTGAG
Found at i:1639526 original size:8 final size:8
Alignment explanation
Indices: 1639510--1639564 Score: 60
Period size: 8 Copynumber: 6.8 Consensus size: 8
1639500 ATTTGACATT
*
1639510 AATAAAAA
1 AATATAAA
1639518 AATATAAA
1 AATATAAA
1639526 AATATAAA
1 AATATAAA
1639534 AATA-AGAA
1 AATATA-AA
1639542 AATA-AGAA
1 AATATA-AA
1639550 AATATAAAA
1 AATAT-AAA
1639559 AATATA
1 AATATA
1639565 TACATAAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
7 1 0.02
8 34 0.79
9 7 0.16
10 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (8 bp):
AATATAAA
Found at i:1639543 original size:24 final size:24
Alignment explanation
Indices: 1639510--1639559 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
1639500 ATTTGACATT
1639510 AATAAAAAAATATA-AAAATATAAA
1 AATAAAAAAATA-AGAAAATATAAA
*
1639534 AATAAGAAAATAAGAAAATATAAA
1 AATAAAAAAATAAGAAAATATAAA
1639558 AA
1 AA
1639560 ATATATACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (24 bp):
AATAAAAAAATAAGAAAATATAAA
Found at i:1639944 original size:14 final size:12
Alignment explanation
Indices: 1639913--1639957 Score: 72
Period size: 12 Copynumber: 3.6 Consensus size: 12
1639903 TAGTTGAGAT
1639913 GCAATGAAGAAA
1 GCAATGAAGAAA
1639925 GCAATGAAGCAAA
1 GCAATGAAG-AAA
1639938 TGCAATGAAGAAA
1 -GCAATGAAGAAA
1639951 GCAATGA
1 GCAATGA
1639958 CAATAGCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 16 0.52
13 6 0.19
14 9 0.29
ACGTcount: A:0.53, C:0.11, G:0.24, T:0.11
Consensus pattern (12 bp):
GCAATGAAGAAA
Found at i:1642537 original size:79 final size:79
Alignment explanation
Indices: 1642428--1642813 Score: 454
Period size: 79 Copynumber: 4.9 Consensus size: 79
1642418 AACGGGATTA
* * *
1642428 GAGTA-CCCTCTCGGAAATAATGGGATTGGAGTATCCCTGATGGTGGAAAATCGATATTTTAGAA
1 GAGTATCCC-CTCAGAAATAATGGGGTTGGAGTATCCCTGATGGTGGAAAATCAATATTTTAGAA
1642492 ATAAAACCGGGGTTG
65 ATAAAACCGGGGTTG
* * * * * *
1642507 GAGTATCCCCTTAGAAGTAATGGGGCTGGAGTATCCCTGATGGTGAAAAATTAATATTTTGGAAA
1 GAGTATCCCCTCAGAAATAATGGGGTTGGAGTATCCCTGATGGTGGAAAATCAATATTTTAGAAA
**
1642572 TAAAAATGGGGTTG
66 TAAAACCGGGGTTG
* * * * *
1642586 GAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCCGATGGTGAAAAATTAATATTTTAAAAA
1 GAGTATCCCCTCAGAAATAATGGGGTTGGAGTATCCCTGATGGTGGAAAATCAATATTTTAGAAA
* *
1642651 TAGAACCGAGGTTG
66 TAAAACCGGGGTTG
* * *
1642665 GAGTATCTCCTCAGAAATAATGGGGTTAGAGTATACCC-GATGGT-GAAAATCAGTATTTTAGAA
1 GAGTATCCCCTCAGAAATAATGGGGTTGGAGTAT-CCCTGATGGTGGAAAATCAATATTTTAGAA
* *
1642728 ATAAAACAGGGGTTA
65 ATAAAACCGGGGTTG
* * * * * ** *
1642743 GAATATCTCCTCAGAAATAACGGGGTTGGAGTATCACTCATGGTGGAAAATCGGTGTTTTAGAAA
1 GAGTATCCCCTCAGAAATAATGGGGTTGGAGTATCCCTGATGGTGGAAAATCAATATTTTAGAAA
1642808 TAAAAC
66 TAAAAC
1642814 ATTAATGAAA
Statistics
Matches: 263, Mismatches: 40, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
77 2 0.01
78 62 0.24
79 193 0.73
80 6 0.02
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (79 bp):
GAGTATCCCCTCAGAAATAATGGGGTTGGAGTATCCCTGATGGTGGAAAATCAATATTTTAGAAA
TAAAACCGGGGTTG
Found at i:1644075 original size:9 final size:9
Alignment explanation
Indices: 1644060--1644090 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
1644050 CATTTTTATG
1644060 AAAAGAAAA
1 AAAAGAAAA
*
1644069 GAAAGAAAA
1 AAAAGAAAA
1644078 AAAAGAAAA
1 AAAAGAAAA
1644087 AAAA
1 AAAA
1644091 AGTGCATGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:1644083 original size:13 final size:13
Alignment explanation
Indices: 1644059--1644091 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
1644049 ACATTTTTAT
1644059 GAAAAGAAAAGAAA
1 GAAAA-AAAAGAAA
1644073 GAAAAAAAAGAAA
1 GAAAAAAAAGAAA
1644086 -AAAAAA
1 GAAAAAA
1644092 GTGCATGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 8 0.42
14 5 0.26
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
GAAAAAAAAGAAA
Found at i:1646230 original size:42 final size:42
Alignment explanation
Indices: 1646102--1646298 Score: 173
Period size: 42 Copynumber: 4.6 Consensus size: 42
1646092 TCCATACTTC
* * **
1646102 TTGAGGATAAAGG-GAAAAGGAGATGAAA-TGCATTTTGCTCT
1 TTGAGGACAAAGGAGAAAAGGAAAT-AAAGTGCATCCTGCTCT
* * **
1646143 TTGAGGACAAAGGGAAGAAAAGGAAATGAAGTACATCCTATTCT
1 TTGAGGACAAA-GG-AGAAAAGGAAATAAAGTGCATCCTGCTCT
* **
1646187 TTGAGGATAAAGGAGAAAAGGAAATAAAGTGTGTCCTGCTCT
1 TTGAGGACAAAGGAGAAAAGGAAATAAAGTGCATCCTGCTCT
* * **
1646229 TTGAGGACAAAGGAGAAAAAAAAGAAATGAAGTGCGCCCTGCTCT
1 TTGAGGACAAAGGAG---AAAAGGAAATAAAGTGCATCCTGCTCT
* *
1646274 TTGAAGACAAAGGAAAAAAGGAAAT
1 TTGAGGACAAAGGAGAAAAGGAAAT
1646299 GAGGAAAGTG
Statistics
Matches: 126, Mismatches: 23, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
41 10 0.08
42 48 0.38
43 4 0.03
44 28 0.22
45 36 0.29
ACGTcount: A:0.43, C:0.10, G:0.27, T:0.20
Consensus pattern (42 bp):
TTGAGGACAAAGGAGAAAAGGAAATAAAGTGCATCCTGCTCT
Found at i:1646271 original size:45 final size:45
Alignment explanation
Indices: 1646137--1646300 Score: 180
Period size: 42 Copynumber: 3.8 Consensus size: 45
1646127 AAATGCATTT
* * *
1646137 TGCTCTTTGAGGACAAAGG-GAAGAAAAGGAAATGAAGTACATCC
1 TGCTCTTTGAGGACAAAGGAGAAAAAAAGGAAATGAAGTGCGTCC
** * * *
1646181 TATTCTTTGAGGATAAAGGAG---AAAAGGAAATAAAGTGTGTCC
1 TGCTCTTTGAGGACAAAGGAGAAAAAAAGGAAATGAAGTGCGTCC
* *
1646223 TGCTCTTTGAGGACAAAGGAGAAAAAAAAGAAATGAAGTGCGCCC
1 TGCTCTTTGAGGACAAAGGAGAAAAAAAGGAAATGAAGTGCGTCC
*
1646268 TGCTCTTTGAAGACAAA-G-G-AAAAAAGGAAATGA
1 TGCTCTTTGAGGACAAAGGAGAAAAAAAGGAAATGA
1646301 GGAAAGTGCC
Statistics
Matches: 100, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 48 0.48
43 1 0.01
44 17 0.17
45 34 0.34
ACGTcount: A:0.43, C:0.12, G:0.26, T:0.20
Consensus pattern (45 bp):
TGCTCTTTGAGGACAAAGGAGAAAAAAAGGAAATGAAGTGCGTCC
Found at i:1646293 original size:87 final size:86
Alignment explanation
Indices: 1646137--1646298 Score: 225
Period size: 87 Copynumber: 1.9 Consensus size: 86
1646127 AAATGCATTT
* * * * * * *
1646137 TGCTCTTTGAGGACAAAGGGAAGAAAAGGAAATGAAGTACATCCTATTCTTTGAGGATAAAGGAG
1 TGCTCTTTGAGGACAAAGGGAAAAAAAAGAAATGAAGTACACCCTACTCTTTGAAGACAAAGGAA
1646202 AAAAGGAAATAAAGTGTGTCC
66 AAAAGGAAATAAAGTGTGTCC
* * *
1646223 TGCTCTTTGAGGACAAAGGAGAAAAAAAAGAAATGAAGTGCGCCCTGCTCTTTGAAGACAAAGGA
1 TGCTCTTTGAGGACAAAGG-GAAAAAAAAGAAATGAAGTACACCCTACTCTTTGAAGACAAAGGA
1646288 AAAAAGGAAAT
65 AAAAAGGAAAT
1646299 GAGGAAAGTG
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
86 19 0.29
87 46 0.71
ACGTcount: A:0.43, C:0.12, G:0.26, T:0.20
Consensus pattern (86 bp):
TGCTCTTTGAGGACAAAGGGAAAAAAAAGAAATGAAGTACACCCTACTCTTTGAAGACAAAGGAA
AAAAGGAAATAAAGTGTGTCC
Found at i:1646544 original size:124 final size:123
Alignment explanation
Indices: 1646312--1646600 Score: 339
Period size: 124 Copynumber: 2.3 Consensus size: 123
1646302 GAAAGTGCCT
* *
1646312 TGCTCTTT-AAGGACTAAAAGGTGCCACCAACTCGTATAGGCTTTAAAAAGAAAAAAGGCGTCTT
1 TGCTCTTTGAA-GACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAAAGGCGTCTT
* * * * * *
1646376 GCTTTTTAAAGACTAAAAGGTGTCACCAACGCATATGGGCTTTAAAGAGAGAAAGGCGTCC
64 GCTCTTTGAAGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAA-AGAGAAAGGCGTCC
* * * * * *
1646437 TGCT-TCTTGAAGATTAAAAGTTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAGGGCATCCTG
1 TGCTCT-TTGAAGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCTTG
* * *
1646501 CTCCTTGAAGACTAAAAGGTGCCACCAACTCGTGTAGGCTTTAAAAGAGAAAGGCATCC
65 CTCTTTGAAGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAGAAAGGCGTCC
* * **
1646560 TGCTCTTTGAGGATTAAAAGGTTTCACCAACTCGTGTGGGC
1 TGCTCTTTGAAGACTAAAAGGTGCCACCAACTCGTGTGGGC
1646601 CTTTTCTTAC
Statistics
Matches: 139, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
123 47 0.34
124 50 0.36
125 40 0.29
126 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (123 bp):
TGCTCTTTGAAGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCTTGC
TCTTTGAAGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAGAAAGGCGTCC
Found at i:1646578 original size:61 final size:61
Alignment explanation
Indices: 1646312--1646596 Score: 297
Period size: 62 Copynumber: 4.6 Consensus size: 61
1646302 GAAAGTGCCT
* * * *
1646312 TGCTCTTT-AAGGACTAAAAGGTGCCACCAACTCGTATAGGCTTTAAAAAGAAAAAAGGCGTCT
1 TGCTCTTTGAA-GACTAAAAGGTGCCACCAACTCGTGTAGGCTTT-AAAAG-AGAAAGGCATCC
* * * * * * * *
1646375 TGCTTTTTAAAGACTAAAAGGTGTCACCAACGCATATGGGCTTTAAAGAGAGAAAGGCGTCC
1 TGCTCTTTGAAGACTAAAAGGTGCCACCAACTCGTGTAGGCTTTAAA-AGAGAAAGGCATCC
* * * *
1646437 TGCT-TCTTGAAGATTAAAAGTTGCCACCAACTCATGTGGGCTTTAAAA-AGAAAAGGGCATCC
1 TGCTCT-TTGAAGACTAAAAGGTGCCACCAACTCGTGTAGGCTTTAAAAGAG-AAA-GGCATCC
*
1646499 TGCTCCTTGAAGACTAAAAGGTGCCACCAACTCGTGTAGGCTTTAAAAGAGAAAGGCATCC
1 TGCTCTTTGAAGACTAAAAGGTGCCACCAACTCGTGTAGGCTTTAAAAGAGAAAGGCATCC
* * **
1646560 TGCTCTTTGAGGATTAAAAGGTTTCACCAACTCGTGT
1 TGCTCTTTGAAGACTAAAAGGTGCCACCAACTCGTGT
1646597 GGGCCTTTTC
Statistics
Matches: 191, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
60 2 0.01
61 44 0.23
62 103 0.54
63 40 0.21
64 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (61 bp):
TGCTCTTTGAAGACTAAAAGGTGCCACCAACTCGTGTAGGCTTTAAAAGAGAAAGGCATCC
Found at i:1646701 original size:109 final size:109
Alignment explanation
Indices: 1646505--1646709 Score: 297
Period size: 109 Copynumber: 1.9 Consensus size: 109
1646495 ATCCTGCTCC
* *
1646505 TTGAAGACTAAAAGGTGCCACCAACTCGTGTAGGCTTTAAAAGAGAAAGGCATCCTGCTCTTTGA
1 TTGAAGACTAAAAGGTGCCACCAACTCATGTAGGCTTTAAAAGAAAAAGGCATCCTGCTCTTTGA
* ** *
1646570 GGATTAAAAGGTTTCACCAACTCGTGTGGGCCTTTTCTTACTTT
66 GGACTAAAAGGTGCCACAAACTCGTGTGGGCCTTTTCTTACTTT
*
1646614 TTGAAGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGAAAAAAGCGC-T-CTGCTCTTT
1 TTGAAGACTAAAAGGTGCCACCAACTCATGTAGGCTTTAAAAG-AAAAAG-GCATCCTGCTCTTT
* *
1646677 GAGTACTACAAGGTGCCACAAACTCGTGTGGGC
64 GAGGACTAAAAGGTGCCACAAACTCGTGTGGGC
1646710 TTTAAAAGAA
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
109 77 0.91
110 6 0.07
111 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (109 bp):
TTGAAGACTAAAAGGTGCCACCAACTCATGTAGGCTTTAAAAGAAAAAGGCATCCTGCTCTTTGA
GGACTAAAAGGTGCCACAAACTCGTGTGGGCCTTTTCTTACTTT
Found at i:1646741 original size:170 final size:171
Alignment explanation
Indices: 1646443--1646749 Score: 458
Period size: 170 Copynumber: 1.8 Consensus size: 171
1646433 GTCCTGCTTC
* * * *
1646443 TTGAAGATTAAAAGTTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAGGGCATCCTGCTCCTTG
1 TTGAAGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAAAAAAAGCGCATCCTGCTCCTTG
* *
1646508 AAGACTAAAAGGTGCCACCAACTCGTGTAGGCTTTAAAAGAGAAAGGCATCCTGCTCTTTGAGGA
66 AAGACTAAAAGGTGCCACAAACTCGTGTAGGCTTTAAAAGAAAAAGGCATCCTGCTCTTTGAGGA
*
1646573 TTAAAAGGTTTCACCAACTCGTGTGGGCCTTTTCTTACTTT
131 CTAAAAGGTTTCACCAACTCGTGTGGGCCTTTTCTTACTTT
*
1646614 TTGAAGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAGAAAAAAGCGC-T-CTGCTCTTT
1 TTGAAGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAA-AAAAAAGCGCATCCTGCTCCTT
* * * * *
1646677 G-AGTACTACAAGGTGCCACAAACTCGTGTGGGCTTTAAAAGAAAAAGGCGTCTTGCTTTTTGAG
65 GAAG-ACTAAAAGGTGCCACAAACTCGTGTAGGCTTTAAAAGAAAAAGGCATCCTGCTCTTTGAG
1646741 GACTAAAAG
129 GACTAAAAG
1646750 TTGCCACTAA
Statistics
Matches: 121, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
169 2 0.02
170 70 0.58
171 41 0.34
172 8 0.07
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (171 bp):
TTGAAGACTAAAAGGTGCCACCAACTCATGTGGGCTTTAAAAAAAAAAGCGCATCCTGCTCCTTG
AAGACTAAAAGGTGCCACAAACTCGTGTAGGCTTTAAAAGAAAAAGGCATCCTGCTCTTTGAGGA
CTAAAAGGTTTCACCAACTCGTGTGGGCCTTTTCTTACTTT
Found at i:1646825 original size:62 final size:62
Alignment explanation
Indices: 1646613--1647489 Score: 868
Period size: 62 Copynumber: 14.3 Consensus size: 62
1646603 TTTCTTACTT
* * * *
1646613 TTTGAAGACTAAAAGGTGCCACCAACTCATGTGGGCTTT-AAAAGAAAAAAGCGCTCTGCTC
1 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTTCTGCTC
* * * *
1646674 TTTGAGTACTACAAGGTGCCACAAACTCGTGTGGGCTTT-AAAAGAAAAAGGCG-TCTTGCTT
1 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTTC-TGCTC
* * * ** * *
1646735 TTTGAGGACTAAAAGTTGCCACTAACTCGTATGGGCTTTAAAAAGAAAAATACGTTCGGCAC
1 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTTCTGCTC
* * * * *
1646797 TTTGAGGACTAAAGGGTACCA-TAGACTCGTGTGGGCTTTGAGAAGAAAAAGGCG-TCTTGCTC
1 TTTGAGGACTAAAAGGTGCCACCA-ACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTTC-TGCTC
* * * * * * *
1646859 TTTGAGGACTAAAGGGTGCCACTAACTCTTATGGGCTTT-AAAAGAGAAAGGCGTCCTGTTC
1 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTTCTGCTC
* * * * *
1646920 TTTGAGAAATAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAAGGC-ATCTTGCTC
1 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTTC-TGCTC
* * * *
1646982 TTTGAGGACTAAAAGGTGCCACCAACTCGTATGGGCTTTGAAAAGAAAAAGGCGTCCTGTTC
1 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTTCTGCTC
* * * * * * *
1647044 TTTAAGGACT-AAAGAGTGCCACTAATTCGTATGGGCTTTGAAAAGAAAAATGCG-TCATTCTC
1 TTTGAGGACTAAAAG-GTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTTC-TGCTC
* ** * * *
1647106 TTTGAAGACTAAAAGGTGCCACCAACTC-TGTGGGCTTTGGAAAGAAAAAAGTG-TCATTCTC
1 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTTC-TGCTC
* * *
1647167 TTTGAGGACTAAATGGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGTGTTCGGCTC
1 TTTGAGGACTAAA-AGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTTCTGCTC
** * * * *
1647230 TTCAAGGACTAAAAGTTGCCACCAACTCATGTGGGCTTTAAAAAGGAAAAGGCGTCCTGCTC
1 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTTCTGCTC
* * * *
1647292 TTTGAGGACTAAAAGTTGCCACCAACTCGTGTGGGCTTTAAAAAG--AAAGGCATCCTTCTC
1 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTTCTGCTC
* * * * * *
1647352 TTTAAGGACTAAATGGTGCCCCCAACTCGTGTGGGCTTTAAAAAG-GAAAGAC-ATCTTGCTC
1 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTTC-TGCTC
* * * * * * * *
1647413 TTTGAGTACTAAAATGTGCCACCAACTTGTGTAGGCTTTAAAAAG-GAAAGGTGTCCTACTC
1 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTTCTGCTC
*
1647474 TTTGTGGACTAAAAGG
1 TTTGAGGACTAAAAGG
1647490 CTAAAAAGGG
Statistics
Matches: 685, Mismatches: 112, Indels: 38
0.82 0.13 0.05
Matches are distributed among these distances:
60 57 0.08
61 255 0.37
62 326 0.48
63 45 0.07
64 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (62 bp):
TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTTCTGCTC
Found at i:1646987 original size:185 final size:184
Alignment explanation
Indices: 1646613--1647489 Score: 859
Period size: 185 Copynumber: 4.8 Consensus size: 184
1646603 TTTCTTACTT
* * * *
1646613 TTTGAAGACTAAAAGGTGCCACCAACTCATGTGGGCTTT-AAAAGAAAAAAGCG-CTCTGCTCTT
1 TTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCT-TGCTCTT
* * * * *
1646676 TGAGTACTACAAGGTGCCACAAACTCGTGTGGGCTTTAAAAGAAAAAGGCGTCTTGCTT-TTTGA
65 TGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAGAAAGGCGTCCTG-TTCTTTGA
* * * * * ** * ** *
1646740 GGACTAAAAGTTGCCACTAACTCGTATGGGCTTTAAAAAGAAAAATACGTTCGGCAC
129 GAACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAAGGC-ATCTTCTC
* * * *
1646797 TTTGAGGACTAAAGGGTACCA-TAGACTCGTGTGGGCTTTGAGAAGAAAAAGGCGTCTTGCTCTT
1 TTTGAGGACTAAAGGGTGCCACCA-ACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCTTGCTCTT
* * * *
1646861 TGAGGACTAAAGGGTGCCACTAACTCTTATGGGCTTTAAAAGAGAAAGGCGTCCTGTTCTTTGAG
65 TGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAGAAAGGCGTCCTGTTCTTTGAG
* *
1646926 AAATAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAAGGCATCTTGCTC
130 AACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAAGGCATCTT-CTC
* * * * *
1646982 TTTGAGGACTAAAAGGTGCCACCAACTCGTATGGGCTTTGAAAAGAAAAAGGCGTCCTGTTCTTT
1 TTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCTTGCTCTTT
* * * * * * *
1647047 AAGGACT-AAAGAGTGCCACTAATTCGTATGGGCTTTGAAAAGAAAAATGCGTCAT-TCTCTTTG
66 GAGGACTAAAAG-GTGCCACCAACTCGTGTGGGCTTT-AAAAGAGAAAGGCGTCCTGT-TCTTTG
* *
1647110 A-AGACTAAAAGGTGCCACCAACTC-TGTGGGCTTTGGAAAGAAAAAAGTG--TCATTCTC
128 AGA-ACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGGAAAAAG-GCATC-TTCTC
* *
1647167 TTTGAGGACTAAATGGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGTGT-TCGGCTCT
1 TTTGAGGACTAAA-GGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCT-TGCTCT
** * * *
1647231 TCAAGGACTAAAAGTTGCCACCAACTCATGTGGGCTTTAAAA-AGGAAAAGGCGTCCTGCTCTTT
64 TTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGA-G-AAAGGCGTCCTGTTCTTT
* * *
1647295 GAGGACTAAAAGTTGCCACCAACTCGTGTGGGCTTTAAAA--AGAAAGGCATCCTTCTC
127 GAGAACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAAGGCAT-CTTCTC
* * * * * *
1647352 TTTAAGGACTAAATGGTGCCCCCAACTCGTGTGGGCTTTAAAAAG-GAAAGACATCTTGCTCTTT
1 TTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCTTGCTCTTT
* * * * * ** *
1647416 GAGTACTAAAATGTGCCACCAACTTGTGTAGGCTTTAAAA-AGGAAAGGTGTCCTACTCTTTGTG
66 GAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGA-GAAAGGCGTCCTGTTCTTTGAG
*
1647480 GACTAAAAGG
130 AACTAAAAGG
1647490 CTAAAAAGGG
Statistics
Matches: 581, Mismatches: 87, Indels: 52
0.81 0.12 0.07
Matches are distributed among these distances:
182 27 0.05
183 49 0.08
184 76 0.13
185 249 0.43
186 165 0.28
187 15 0.03
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (184 bp):
TTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCTTGCTCTTT
GAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAGAAAGGCGTCCTGTTCTTTGAGA
ACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAAGGCATCTTCTC
Found at i:1653760 original size:51 final size:50
Alignment explanation
Indices: 1653666--1653780 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 50
1653656 GAAAATAATG
* * * *
1653666 GGATTAGAGTATCCTTGATGTGAAAAATTAATATTTTAAAAATAGAACCGA
1 GGATTGGAGTATCCTTGATGTGAAAAATCAATATTTGAAAAATAAAACC-A
* * * *
1653717 GG-TTGGAGTATCCTTGATGGTGAAAAATCATTGTTTGAGAAATAAAATCA
1 GGATTGGAGTATCCTTGAT-GTGAAAAATCAATATTTGAAAAATAAAACCA
1653767 GGATTGGAGTATCC
1 GGATTGGAGTATCC
1653781 CCTCAAAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
50 18 0.33
51 36 0.67
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.31
Consensus pattern (50 bp):
GGATTGGAGTATCCTTGATGTGAAAAATCAATATTTGAAAAATAAAACCA
Found at i:1653806 original size:79 final size:79
Alignment explanation
Indices: 1653716--1653893 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 79
1653706 AATAGAACCG
** * * * * *
1653716 AGGTTGGAGTATCCTTGATGGTGAAAAATCATTG-TTTGAGAAATAAAATCAGGA-TTGGAGTAT
1 AGGTTGGAGTATCCCCGATGGTAAAAAATCAGTGTTTTG-GAAATAAAAT-AGAATTTAGAATAT
1653779 CCCCTCAAAAATAACA
64 CCCCTCAAAAATAACA
* *
1653795 AGGTTGGAGTATCCCCGATGGTAAAAAATCGGTGTTTTGGAAATAAAATTGAATTTAGAATATCC
1 AGGTTGGAGTATCCCCGATGGTAAAAAATCAGTGTTTTGGAAATAAAATAGAATTTAGAATATCC
**
1653860 CCTCAAAAATAATG
66 CCTCAAAAATAACA
*
1653874 GGGTTGGAGTATCCCCGATG
1 AGGTTGGAGTATCCCCGATG
1653894 ATGGAAAATC
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
78 2 0.02
79 79 0.93
80 4 0.05
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (79 bp):
AGGTTGGAGTATCCCCGATGGTAAAAAATCAGTGTTTTGGAAATAAAATAGAATTTAGAATATCC
CCTCAAAAATAACA
Found at i:1653902 original size:79 final size:79
Alignment explanation
Indices: 1653776--1653921 Score: 211
Period size: 79 Copynumber: 1.8 Consensus size: 79
1653766 AGGATTGGAG
* * * *
1653776 TATCCCCTCAAAAATAACAAGGTTGGAGTATCCCCGATGGTAAAAAATCGGTGTTTTGGAAATAA
1 TATCCCCTCAAAAATAACAAGGTTGGAGTATCCCCGATGATAAAAAATCGGTATTCTAGAAATAA
1653841 AATTGAATTTAGAA
66 AATTGAATTTAGAA
*** **
1653855 TATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATGATGGAAAATCGGTATTCTAGAAATAA
1 TATCCCCTCAAAAATAACAAGGTTGGAGTATCCCCGATGATAAAAAATCGGTATTCTAGAAATAA
1653920 AA
66 AA
1653922 CATTAATGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
79 58 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (79 bp):
TATCCCCTCAAAAATAACAAGGTTGGAGTATCCCCGATGATAAAAAATCGGTATTCTAGAAATAA
AATTGAATTTAGAA
Found at i:1659314 original size:22 final size:23
Alignment explanation
Indices: 1659283--1659334 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
1659273 TTATATATTT
1659283 TTTAAAATTTAATC-TTTATTAA-
1 TTTAAAATTT-ATCTTTTATTAAG
* *
1659305 TTTAATATTTTTCTTTTATTAAG
1 TTTAAAATTTATCTTTTATTAAG
1659328 TTTAAAA
1 TTTAAAA
1659335 ATATAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 17 0.68
23 6 0.24
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTAAAATTTATCTTTTATTAAG
Found at i:1660730 original size:24 final size:24
Alignment explanation
Indices: 1660702--1660757 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
1660692 AAAATGTTTA
1660702 AAAATAA-CCCTAACATAA-TTAAAT
1 AAAATAAGCCC-AA-ATAAGTTAAAT
*
1660726 AAAATAAGCCCAAATAAGTTAATT
1 AAAATAAGCCCAAATAAGTTAAAT
1660750 AAAA-AAGC
1 AAAATAAGC
1660758 ACGTAGGACT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 8 0.28
24 18 0.62
25 3 0.10
ACGTcount: A:0.59, C:0.14, G:0.05, T:0.21
Consensus pattern (24 bp):
AAAATAAGCCCAAATAAGTTAAAT
Found at i:1661675 original size:107 final size:107
Alignment explanation
Indices: 1661511--1661713 Score: 259
Period size: 107 Copynumber: 1.9 Consensus size: 107
1661501 AGAGGGTTTT
* * * *
1661511 GAAATATCTTTAAGAAAGGCTTTGAAAGTTTTTAATGAAACATCCTTAAAATAGGCTTTATAAG-
1 GAAATATCTTCAAGAAAAGCTTTGAAAGTTTTTAATGAAACATCCTTAAAAGAGGCTTTAGAAGC
**
1661575 TTTTTGATGAAATGTCTTCAAGAGAAGG-TTTGTAGGTTTTGTC
66 TTTTT-ATGAAACATCTTCAAGA-AAGGCTTTGTAGGTTTTGTC
* * * * *
1661618 GAAATATCTTCAAGAAAAGTTTTGAAAGTTTTTAATGAAATAT-TTTCAAGAGAGGCTTTGGAAG
1 GAAATATCTTCAAGAAAAGCTTTGAAAGTTTTTAATGAAACATCCTT-AAAAGAGGCTTTAGAAG
1661682 CTTTTTATGAAACATCTTCAAGAAAGGCTTTG
65 CTTTTTATGAAACATCTTCAAGAAAGGCTTTG
1661714 GAAGTTTTTG
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
106 6 0.07
107 71 0.87
108 5 0.06
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (107 bp):
GAAATATCTTCAAGAAAAGCTTTGAAAGTTTTTAATGAAACATCCTTAAAAGAGGCTTTAGAAGC
TTTTTATGAAACATCTTCAAGAAAGGCTTTGTAGGTTTTGTC
Found at i:1661779 original size:143 final size:143
Alignment explanation
Indices: 1661510--1661900 Score: 386
Period size: 143 Copynumber: 2.7 Consensus size: 143
1661500 TAGAGGGTTT
* **
1661510 TGAAATATCTTT-AAGAAAGGCTTTGAAAGTTTTTAATGAAACATCCTT-AA-AATAGGCTTTAT
1 TGAAATAT-TTTCAAGAGAGGCTTTGAAAGTTTTTAATGAAACAT-CTTCAAGAA-AGGCTTTGG
* * * * * *
1661572 AAGTTTTTGATGAAA-TGTCTTCAAGAGAAGGTTTGTAGGTTTTGTCGAAATATCTTCAAGAAAA
63 AAGTTTTTGATAAAATTTTC-TCAAGAGAAGCTTTGAAAGTTTTGTCGAAACATCTTCAAGAAAA
*
1661636 GT-TTTGAAAGTTTTTAA
127 GTCCTTGAAAG-TTTTAA
*
1661653 TGAAATATTTTCAAGAGAGGCTTTGGAAGCTTTTT-ATGAAACATCTTCAAGAAAGGCTTTGGAA
1 TGAAATATTTTCAAGAGAGGCTTTGAAAG-TTTTTAATGAAACATCTTCAAGAAAGGCTTTGGAA
* * * *
1661717 GTTTTTGATAAAATTTTCTCAATAGACGTTTTGAAAGTTTTCG-CTGAAGCATCTTCAA-AAAAG
65 GTTTTTGATAAAATTTTCTCAAGAGAAGCTTTGAAAGTTTT-GTC-GAAACATCTTCAAGAAAAG
*
1661780 TCCTTGAAAGTTTTGA
128 TCCTTGAAAGTTTTAA
* * ** * * **
1661796 TGGAACATCCTCAAGAGAGGTTTTGAAAGTTTTTGATGAAATGTCTTCAAGAGAAGGC-TTGGAA
1 TGAAATATTTTCAAGAGAGGCTTTGAAAGTTTTTAATGAAACATCTTCAAGA-AAGGCTTTGGAA
* * * *
1661860 GTTTTTGACAAAATATCCTCAAGAGAGGCTTTGAAAGTTTT
65 GTTTTTGATAAAATTTTCTCAAGAGAAGCTTTGAAAGTTTT
1661901 TTTTATGAAA
Statistics
Matches: 209, Mismatches: 29, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
142 11 0.05
143 164 0.78
144 34 0.16
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (143 bp):
TGAAATATTTTCAAGAGAGGCTTTGAAAGTTTTTAATGAAACATCTTCAAGAAAGGCTTTGGAAG
TTTTTGATAAAATTTTCTCAAGAGAAGCTTTGAAAGTTTTGTCGAAACATCTTCAAGAAAAGTCC
TTGAAAGTTTTAA
Found at i:1661846 original size:36 final size:36
Alignment explanation
Indices: 1661510--1661965 Score: 318
Period size: 36 Copynumber: 12.7 Consensus size: 36
1661500 TAGAGGGTTT
* * *
1661510 TGAAATATCTTTAAGAAAGGCTTTGAAAGTTTTTAA
1 TGAAATATCTTCAAGAGAGGCTTTGAAAGTTTTTGA
* * *
1661546 TGAAACATCCTT-AAAATAGGCTTT-ATAAGTTTTTGA
1 TGAAATAT-CTTCAAGAGAGGCTTTGA-AAGTTTTTGA
* * *
1661582 TGAAATGTCTTCAAGAGAAGG-TTTG-TAGGTTTTG-
1 TGAAATATCTTCAAGAG-AGGCTTTGAAAGTTTTTGA
* * * *
1661616 TCGAAATATCTTCAAGAAAAGTTTTGAAAGTTTTTAA
1 T-GAAATATCTTCAAGAGAGGCTTTGAAAGTTTTTGA
* *
1661653 TGAAATATTTTCAAGAGAGGCTTTGGAAGCTTTTT-A
1 TGAAATATCTTCAAGAGAGGCTTTGAAAG-TTTTTGA
* * *
1661689 TGAAACATCTTCAAGAAAGGCTTTGGAAGTTTTTGA
1 TGAAATATCTTCAAGAGAGGCTTTGAAAGTTTTTGA
* * * * * * *
1661725 TAAAAT-TTTCTCAATAGACGTTTTGAAAGTTTTCGC
1 TGAAATATCT-TCAAGAGAGGCTTTGAAAGTTTTTGA
** * * * *
1661761 TGAAGCATCTTCAAAAAAGTCCTTGAAAG-TTTTGA
1 TGAAATATCTTCAAGAGAGGCTTTGAAAGTTTTTGA
* * * *
1661796 TGGAACATCCTCAAGAGAGGTTTTGAAAGTTTTTGA
1 TGAAATATCTTCAAGAGAGGCTTTGAAAGTTTTTGA
* *
1661832 TGAAATGTCTTCAAGAGAAGGC-TTGGAAGTTTTTGA
1 TGAAATATCTTCAAGAG-AGGCTTTGAAAGTTTTTGA
** * *
1661868 CAAAATATCCTCAAGAGAGGCTTTGAAAGTTTTTTTTA
1 TGAAATATCTTCAAGAGAGGCTTTGAAAG--TTTTTGA
* * * * *
1661906 TGAAATGTCTTTAAAAGAGGTTTTTAAAGTTTTTGA
1 TGAAATATCTTCAAGAGAGGCTTTGAAAGTTTTTGA
* * * *
1661942 CGAAGTATCCTCAAAAGAGGCTTT
1 TGAAATATCTTCAAGAGAGGCTTT
1661966 TTTTGTGAAA
Statistics
Matches: 321, Mismatches: 81, Indels: 36
0.73 0.18 0.08
Matches are distributed among these distances:
34 3 0.01
35 65 0.20
36 209 0.65
37 17 0.05
38 27 0.08
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (36 bp):
TGAAATATCTTCAAGAGAGGCTTTGAAAGTTTTTGA
Found at i:1665009 original size:156 final size:155
Alignment explanation
Indices: 1663922--1665014 Score: 831
Period size: 156 Copynumber: 7.0 Consensus size: 155
1663912 AGCACCCGAT
* * * * * * *
1663922 ACCCTTAAAGGACTTATAAAGGACTATAAAAGGGATGAACCCATCCTAAA-GACCCACTTTTGGC
1 ACCC-TAAAGGACTTA-AAAAGACTA-GAAATGGATGAACCTATCCTAAATG-CCCACCTTCGAC
* * * * * * * * *
1663986 ATAAAAG-TGGCCTCTGTGATAACCTAGGACTTGATTTTAA-AAAATTACCAAAATGCTCCTA-G
62 ATAAAAGCAGACC-CGGTGACAGCCTAAGACTTGGTTCTAAGAAAATTA-CAAAATGCCCCTACG
*
1664048 AGAGTACACCTTCGACGTAAAAGTATCCC-AGCA
125 -G-GTATACCTTCGACGTAAAAGTA-CCCTAGCA
* * * *
1664081 ACCCTAAAGGACTTTAAAAGACTCATAAAAAGGATGAACCTATCCTAAATGCCGACCTTCGACAT
1 ACCCTAAAGGACTTAAAAAGACT-A-GAAATGGATGAACCTATCCTAAATGCCCACCTTCGACAT
* * * ** * * *
1664146 AAAAGC-GAGCCTGATGAC-GACCT-AGGCGTTGGTTCT-AGAAAATTATGAAATGTCCCAACGA
64 AAAAGCAGA-CCCGGTGACAG-CCTAAGAC-TTGGTTCTAAGAAAATTACAAAATGCCCCTACGG
* * *
1664207 GTATACCTTTGACGTAAAAGTATCCCCA-TA
126 GTATACCTTCGACGTAAAAGTA-CCCTAGCA
* * * *
1664237 ACCCTAAAGGACTTAGAAATACTAGAAATGGTGATGAACCTATCCTAAATGCCCACATTCGGCAT
1 ACCCTAAAGGACTTAAAAAGACTAGAAAT-G-GATGAACCTATCCTAAATGCCCACCTTCGACAT
* * * * * * * ** *
1664302 AAAAGCGGACCTGGTGACAACCTAGGACTCGGTTCTAGGAAAAATTATGAAAATATCCCTACGAG
64 AAAAGCAGACCCGGTGACAGCCTAAGACTTGGTTCTAAG-AAAATTA-CAAAATGCCCCTACGGG
* *
1664367 TATACCTTCAACGTAAAAGTATCCCGA-CA
127 TATACCTTCGACGTAAAAGTA-CCCTAGCA
* * * * * *
1664396 ACCCTAAAGGACTT-AAAAGACTAGAAACGATGATGATCCTATTCTAAATGCTCACCTTCAATAT
1 ACCCTAAAGGACTTAAAAAGACTAGAAATG--GATGAACCTATCCTAAATGCCCACCTTCGACAT
* * * * * * *
1664460 AAAAGCAGGCCCAGTGACAACCTAAGACTCGGTTTTAGGAAAAATTACAAAAATGCTCCTA-GGG
64 AAAAGCAGACCCGGTGACAGCCTAAGACTTGGTTCTAAG-AAAATTAC-AAAATGCCCCTACGGG
* * * * **
1664524 GATACCTTCGATGCT-AAAGTATCTTAATA
127 TATACCTTCGACG-TAAAAGTACCCTAGCA
* * * *
1664553 CCCCTAAAGGACTTAAAAAGGCTAGACATAGGATGAACTTATCCTAAATGCCCACCTTCGACATA
1 ACCCTAAAGGACTTAAAAAGACTAGAAAT-GGATGAACCTATCCTAAATGCCCACCTTCGACATA
* * * * ** *
1664618 AAAGCAAACCTGGTGACAGCCTAAGAC-TCGTTCTAAG-AAAGTACGAAAATGCCTTTATGGGTA
65 AAAGCAGACCCGGTGACAGCCTAAGACTTGGTTCTAAGAAAATTAC-AAAATGCCCCTACGGGTA
* *
1664681 TACCTTCGACGTAAAAGTA-GCTCGGCA
129 TACCTTCGACGTAAAAGTACCCT-AGCA
* * * *
1664708 TCCCTAAAGGACTTAAAAAGACTAGAAATGCAATGAACCTATCCTACATGCCCACCTTCAACATA
1 ACCCTAAAGGACTTAAAAAGACTAGAAATG-GATGAACCTATCCTAAATGCCCACCTTCGACATA
* * * * * * **
1664773 AAAGC-GAACCCGGTGACAGCCTAGGACTCGGTTATGAG-CAAGTACAAAAATGCCCCTATAGGT
65 AAAGCAG-ACCCGGTGACAGCCTAAGACTTGGTTCTAAGAAAATTAC-AAAATGCCCCTACGGGT
1664836 ATACCTTCGACGTAAAAGTACCCTAGCA
128 ATACCTTCGACGTAAAAGTACCCTAGCA
* *
1664864 ACCCTAAAGGACTTAAAAAGACTAGAAATGCGATGAACCTATCCTAAATGCCCACCTTCGGCTTA
1 ACCCTAAAGGACTTAAAAAGACTAGAAATG-GATGAACCTATCCTAAATGCCCACCTTCGACATA
* * * *
1664929 AAAGTAGACCCAGTGATAGCCTAAGACTTGGTTCTAAGAAAATTAACAAAATGCCCCTA-GGGGA
65 AAAGCAGACCCGGTGACAGCCTAAGACTTGGTTCTAAGAAAATT-ACAAAATGCCCCTACGGGTA
** * *
1664993 TATGTTCAACGCAAAAGTACCC
129 TACCTTCGACGTAAAAGTACCC
1665015 GATACCCCTA
Statistics
Matches: 751, Mismatches: 150, Indels: 69
0.77 0.15 0.07
Matches are distributed among these distances:
154 21 0.03
155 102 0.14
156 265 0.35
157 125 0.17
158 178 0.24
159 60 0.08
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (155 bp):
ACCCTAAAGGACTTAAAAAGACTAGAAATGGATGAACCTATCCTAAATGCCCACCTTCGACATAA
AAGCAGACCCGGTGACAGCCTAAGACTTGGTTCTAAGAAAATTACAAAATGCCCCTACGGGTATA
CCTTCGACGTAAAAGTACCCTAGCA
Found at i:1665037 original size:156 final size:157
Alignment explanation
Indices: 1664026--1664987 Score: 871
Period size: 156 Copynumber: 6.1 Consensus size: 157
1664016 TTGATTTTAA
* * *
1664026 AAAATTACCAAAATGCTCCTA-GAGAGTACACCTTCGACGTAAAAGTATCCC-AGCAACCCTAAA
1 AAAATTACAAAAATGCCCCTATG-G-GTATACCTTCGACGTAAAAGTATCCCGA-CAACCCTAAA
* * * *
1664089 GGACTTTAAAAGACTCATAAAAAG-GATGAACCTATCCTAAATGCCGACCTTCGACATAAAAGC-
63 GGACTTAAAAAGACT-A-GAAATGCGATGAACCTATCCTAAATGCCCACCTTCGACATAAAAGCA
* * * *
1664152 GAGCCTGATGAC-GACCT-AGGCGTTGGTTCT-AG
126 GA-CCCGGTGACAG-CCTAAGAC-TCGGTTCTAAG
** * * * * * * *
1664184 AAAATTA-TGAAATGTCCCAACGAGTATACCTTTGACGTAAAAGTATCCCCATAACCCTAAAGGA
1 AAAATTACAAAAATGCCCCTATGGGTATACCTTCGACGTAAAAGTATCCCGACAACCCTAAAGGA
* * * * * *
1664248 CTTAGAAATACTAGAAATGGTGATGAACCTATCCTAAATGCCCACATTCGGCATAAAAGCGGACC
66 CTTAAAAAGACTAGAAAT-GCGATGAACCTATCCTAAATGCCCACCTTCGACATAAAAGCAGACC
* * * *
1664313 TGGTGACAACCTAGGACTCGGTTCTAGG
130 CGGTGACAGCCTAAGACTCGGTTCTAAG
** ** * * *
1664341 AAAAATTATGAAAATATCCCTACGAGTATACCTTCAACGTAAAAGTATCCCGACAACCCTAAAGG
1 -AAAATTACAAAAATGCCCCTATGGGTATACCTTCGACGTAAAAGTATCCCGACAACCCTAAAGG
* * * * * * * *
1664406 ACTT-AAAAGACTAGAAACGATGATGATCCTATTCTAAATGCTCACCTTCAATATAAAAGCAGGC
65 ACTTAAAAAGACTAGAAATG-CGATGAACCTATCCTAAATGCCCACCTTCGACATAAAAGCAGAC
* * * *
1664470 CCAGTGACAACCTAAGACTCGGTTTTAGG
129 CCGGTGACAGCCTAAGACTCGGTTCTAAG
* * * *** * *
1664499 AAAAATTACAAAAATGCTCCTA-GGGGATACCTTCGATGCT-AAAGTATCTTAATACCCCTAAAG
1 -AAAATTACAAAAATGCCCCTATGGGTATACCTTCGACG-TAAAAGTATCCCGACAACCCTAAAG
* * * *
1664562 GACTTAAAAAGGCTAGACATAG-GATGAACTTATCCTAAATGCCCACCTTCGACATAAAAGCAAA
64 GACTTAAAAAGACTAGAAAT-GCGATGAACCTATCCTAAATGCCCACCTTCGACATAAAAGCAGA
*
1664626 CCTGGTGACAGCCTAAGACTC-GTTCTAAG
128 CCCGGTGACAGCCTAAGACTCGGTTCTAAG
* * ** * * * *
1664655 -AAAGTACGAAAATGCCTTTATGGGTATACCTTCGACGTAAAAGTAGCTCGGCATCCCTAAAGGA
1 AAAATTACAAAAATGCCCCTATGGGTATACCTTCGACGTAAAAGTATCCCGACAACCCTAAAGGA
* * *
1664719 CTTAAAAAGACTAGAAATGCAATGAACCTATCCTACATGCCCACCTTCAACATAAAAGC-GAACC
66 CTTAAAAAGACTAGAAATGCGATGAACCTATCCTAAATGCCCACCTTCGACATAAAAGCAG-ACC
* * *
1664783 CGGTGACAGCCTAGGACTCGGTTATGAG
130 CGGTGACAGCCTAAGACTCGGTTCTAAG
* * * *
1664811 -CAAGTACAAAAATGCCCCTATAGGTATACCTTCGACGTAAAAGTA-CCCTAGCAACCCTAAAGG
1 AAAATTACAAAAATGCCCCTATGGGTATACCTTCGACGTAAAAGTATCCCGA-CAACCCTAAAGG
* * *
1664874 ACTTAAAAAGACTAGAAATGCGATGAACCTATCCTAAATGCCCACCTTCGGCTTAAAAGTAGACC
65 ACTTAAAAAGACTAGAAATGCGATGAACCTATCCTAAATGCCCACCTTCGACATAAAAGCAGACC
* * *
1664939 CAGTGATAGCCTAAGACTTGGTTCTAAG
130 CGGTGACAGCCTAAGACTCGGTTCTAAG
1664967 AAAATTA-ACAAAATGCCCCTA
1 AAAATTACA-AAAATGCCCCTA
1664988 GGGGATATGT
Statistics
Matches: 657, Mismatches: 124, Indels: 47
0.79 0.15 0.06
Matches are distributed among these distances:
154 20 0.03
155 108 0.16
156 242 0.37
157 119 0.18
158 115 0.18
159 53 0.08
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.22
Consensus pattern (157 bp):
AAAATTACAAAAATGCCCCTATGGGTATACCTTCGACGTAAAAGTATCCCGACAACCCTAAAGGA
CTTAAAAAGACTAGAAATGCGATGAACCTATCCTAAATGCCCACCTTCGACATAAAAGCAGACCC
GGTGACAGCCTAAGACTCGGTTCTAAG
Found at i:1666343 original size:84 final size:84
Alignment explanation
Indices: 1666202--1666358 Score: 246
Period size: 84 Copynumber: 1.9 Consensus size: 84
1666192 TTGAAAACTA
* * *
1666202 AGCTGACAAGCCACCAAGGAGAGATGGGGTTTATCAGGGACTGAGCCGTCATGTAAATAATGGAT
1 AGCTGACAAGCCACCAAGGAGAGATGGGGTTCATCAGGGACTGAGCCGACATCTAAATAATGGAT
1666267 GAAAGTTAACTGGAGACTG
66 GAAAGTTAACTGGAGACTG
1666286 AGCTGACAAGCCACCAAGGAGAGATGGGGTTCA-CTAGGGACTGAGCCGACGA-CTAAATAATGG
1 AGCTGACAAGCCACCAAGGAGAGATGGGGTTCATC-AGGGACTGAGCCGAC-ATCTAAATAATGG
*
1666349 ATGAAGGTTA
64 ATGAAAGTTA
1666359 TTTCTTGAGA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
83 1 0.01
84 65 0.97
85 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.18
Consensus pattern (84 bp):
AGCTGACAAGCCACCAAGGAGAGATGGGGTTCATCAGGGACTGAGCCGACATCTAAATAATGGAT
GAAAGTTAACTGGAGACTG
Found at i:1666480 original size:42 final size:42
Alignment explanation
Indices: 1666434--1666633 Score: 172
Period size: 42 Copynumber: 4.7 Consensus size: 42
1666424 GCAGACGGTG
1666434 GATGAAGAAGTCT-CTCGGGTCTAAGCCGATGAGCAAACGAAA
1 GATGAAGAAGTCTCCT-GGGTCTAAGCCGATGAGCAAACGAAA
* **
1666476 GATGAAGAAGTCTCCTGGGTCTAAGCCGATGGGCAAAC-AGTT
1 GATGAAGAAGTCTCCTGGGTCTAAGCCGATGAGCAAACGA-AA
* ** * * * * * * **
1666518 GATAAAGGAAGTCTCCCAAGAT-TGAGCCGACGGGTAGATAAAA
1 GATGAA-GAAGTCT-CCTGGGTCTAAGCCGATGAGCAAACGAAA
* * * **
1666561 AATGAAAAATTCTCCCAGGTCTAAGCCGATGAGCAAACGAAA
1 GATGAAGAAGTCTCCTGGGTCTAAGCCGATGAGCAAACGAAA
1666603 GATGAAGAAGTCTCCTGGGTCTAAGCCGATG
1 GATGAAGAAGTCTCCTGGGTCTAAGCCGATG
1666634 GGCAGACAGT
Statistics
Matches: 120, Mismatches: 32, Indels: 12
0.73 0.20 0.07
Matches are distributed among these distances:
41 6 0.05
42 84 0.70
43 25 0.21
44 5 0.04
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (42 bp):
GATGAAGAAGTCTCCTGGGTCTAAGCCGATGAGCAAACGAAA
Found at i:1666715 original size:42 final size:42
Alignment explanation
Indices: 1666435--1666722 Score: 152
Period size: 42 Copynumber: 6.8 Consensus size: 42
1666425 CAGACGGTGG
* * * * * * *
1666435 ATGAAGAAGTCTCTCGGGTCTAAGCCGATGAGCAAACGAAAG
1 ATGAAAAAGTCTCCCAGGTCTAAGCCGATGGGCAGACAAAAA
* ** * ****
1666477 ATGAAGAAGTCTCCTGGGTCTAAGCCGATGGGCAAACAGTTG
1 ATGAAAAAGTCTCCCAGGTCTAAGCCGATGGGCAGACAAAAA
* * * * *
1666519 AT-AAAGGAAGTCTCCCAAGAT-TGAGCCGACGGGTAGATAAAAA
1 ATGAAA--AAGTCTCCC-AGGTCTAAGCCGATGGGCAGACAAAAA
* * * * *
1666562 ATGAAAAATTCTCCCAGGTCTAAGCCGATGAGCAAACGAAAG
1 ATGAAAAAGTCTCCCAGGTCTAAGCCGATGGGCAGACAAAAA
* ** ****
1666604 ATGAAGAAGTCTCCTGGGTCTAAGCCGATGGGCAGACAGTTG
1 ATGAAAAAGTCTCCCAGGTCTAAGCCGATGGGCAGACAAAAA
* * *
1666646 AT-AAAGGAAGTCTCCCAAGAT-TGAGCCGATGGGTAGACAAAAA
1 ATGAAA--AAGTCTCCC-AGGTCTAAGCCGATGGGCAGACAAAAA
* * *
1666689 ATGAAAAATTCTCCCAGGTTTAAGCCGACGGGCA
1 ATGAAAAAGTCTCCCAGGTCTAAGCCGATGGGCA
1666723 AATGGTTGAT
Statistics
Matches: 181, Mismatches: 55, Indels: 20
0.71 0.21 0.08
Matches are distributed among these distances:
41 10 0.06
42 112 0.62
43 49 0.27
44 10 0.06
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.18
Consensus pattern (42 bp):
ATGAAAAAGTCTCCCAGGTCTAAGCCGATGGGCAGACAAAAA
Found at i:1666724 original size:127 final size:127
Alignment explanation
Indices: 1666451--1666716 Score: 496
Period size: 127 Copynumber: 2.1 Consensus size: 127
1666441 AAGTCTCTCG
1666451 GGTCTAAGCCGATGAGCAAACGAAAGATGAAGAAGTCTCCTGGGTCTAAGCCGATGGGCAAACAG
1 GGTCTAAGCCGATGAGCAAACGAAAGATGAAGAAGTCTCCTGGGTCTAAGCCGATGGGCAAACAG
*
1666516 TTGATAAAGGAAGTCTCCCAAGATTGAGCCGACGGGTAGATAAAAAATGAAAAATTCTCCCA
66 TTGATAAAGGAAGTCTCCCAAGATTGAGCCGACGGGTAGACAAAAAATGAAAAATTCTCCCA
*
1666578 GGTCTAAGCCGATGAGCAAACGAAAGATGAAGAAGTCTCCTGGGTCTAAGCCGATGGGCAGACAG
1 GGTCTAAGCCGATGAGCAAACGAAAGATGAAGAAGTCTCCTGGGTCTAAGCCGATGGGCAAACAG
*
1666643 TTGATAAAGGAAGTCTCCCAAGATTGAGCCGATGGGTAGACAAAAAATGAAAAATTCTCCCA
66 TTGATAAAGGAAGTCTCCCAAGATTGAGCCGACGGGTAGACAAAAAATGAAAAATTCTCCCA
*
1666705 GGTTTAAGCCGA
1 GGTCTAAGCCGA
1666717 CGGGCAAATG
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
127 135 1.00
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.18
Consensus pattern (127 bp):
GGTCTAAGCCGATGAGCAAACGAAAGATGAAGAAGTCTCCTGGGTCTAAGCCGATGGGCAAACAG
TTGATAAAGGAAGTCTCCCAAGATTGAGCCGACGGGTAGACAAAAAATGAAAAATTCTCCCA
Found at i:1666738 original size:127 final size:127
Alignment explanation
Indices: 1666451--1666847 Score: 467
Period size: 127 Copynumber: 3.1 Consensus size: 127
1666441 AAGTCTCTCG
* * *
1666451 GGTCTAAGCCGATGAGCAAACGAAAGATGAAGAAGTCTCCTGGGTCTAAGCCGATGGGCAAACAG
1 GGTCTAAGCCGACGAGCAAACGAAAGATAAAGAAGTCTCCTGGGTCTAAGCCGATGGGCAGACAG
*
1666516 TTGATAAAGGAAGTCTCCCAAGATTGAGCCGACGGGTAGATAAAAAATGAAAAATTCTCCCA
66 TTGATAAAGGAAGTCTCCCAAGATTGAGCCGACGGGTAGACAAAAAATGAAAAATTCTCCCA
* *
1666578 GGTCTAAGCCGATGAGCAAACGAAAGATGAAGAAGTCTCCTGGGTCTAAGCCGATGGGCAGACAG
1 GGTCTAAGCCGACGAGCAAACGAAAGATAAAGAAGTCTCCTGGGTCTAAGCCGATGGGCAGACAG
*
1666643 TTGATAAAGGAAGTCTCCCAAGATTGAGCCGATGGGTAGACAAAAAATGAAAAATTCTCCCA
66 TTGATAAAGGAAGTCTCCCAAGATTGAGCCGACGGGTAGACAAAAAATGAAAAATTCTCCCA
* * * *** * * *
1666705 GGTTTAAGCCGACGGGCAAATGGTTGATAAAGAAAGTCT-CTCGAGTTTAAGCCGATGGGTAGAC
1 GGTCTAAGCCGACGAGCAAACGAAAGATAAAG-AAGTCTCCT-GGGTCTAAGCCGATGGGCAGAC
* * * * * * * * * * * * ***
1666769 GGTGGATGAA-GAAGTCT-TCTAGGTCTAAGCCGACAGGCAGACGAAAGATGAAAAAGTCTTTTA
64 AGTTGATAAAGGAAGTCTCCCAAGAT-TGAGCCGACGGGTAGACAAAAAATGAAAAATTCTCCCA
1666832 GGTCTAAGCCGACGAG
1 GGTCTAAGCCGACGAG
1666848 TAGACGGTGG
Statistics
Matches: 235, Mismatches: 32, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
126 4 0.02
127 199 0.85
128 32 0.14
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (127 bp):
GGTCTAAGCCGACGAGCAAACGAAAGATAAAGAAGTCTCCTGGGTCTAAGCCGATGGGCAGACAG
TTGATAAAGGAAGTCTCCCAAGATTGAGCCGACGGGTAGACAAAAAATGAAAAATTCTCCCA
Found at i:1666781 original size:43 final size:43
Alignment explanation
Indices: 1666704--1666890 Score: 168
Period size: 42 Copynumber: 4.4 Consensus size: 43
1666694 AAATTCTCCC
* * * * *
1666704 AGGTTTAAGCCGACGGGCAAATGGTTGATAAAGAAAGTC-TCT
1 AGGTCTAAGCCGACGGGCAGACGGTGGATGAAGAAAGTCTTCT
* * * *
1666746 CGAGTTTAAGCCGATGGGTAGACGGTGGATGAAG-AAGTCTTCT
1 AG-GTCTAAGCCGACGGGCAGACGGTGGATGAAGAAAGTCTTCT
* *** *
1666789 AGGTCTAAGCCGACAGGCAGACGAAAGATGAA-AAAGTCTTTT
1 AGGTCTAAGCCGACGGGCAGACGGTGGATGAAGAAAGTCTTCT
* * *
1666831 AGGTCTAAGCCGACGAGTAGACGGTGGATGAAG-AA-TCTCCT
1 AGGTCTAAGCCGACGGGCAGACGGTGGATGAAGAAAGTCTTCT
*
1666872 AGGTCTAAGCTGACGGGCA
1 AGGTCTAAGCCGACGGGCA
1666891 AATGGTTAGT
Statistics
Matches: 114, Mismatches: 27, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
41 20 0.18
42 65 0.57
43 29 0.25
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (43 bp):
AGGTCTAAGCCGACGGGCAGACGGTGGATGAAGAAAGTCTTCT
Found at i:1666981 original size:42 final size:42
Alignment explanation
Indices: 1666931--1667050 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 42
1666921 GAGCTAATGG
*
1666931 GCAAACAATGGATGAAGAAGTCTCTTGGGTCTAAGTCGACAA
1 GCAAACAATGGATGAAGAAGTCTCTTGGGTCTAAGACGACAA
* * * * * * * *
1666973 GTAGACAATTGATAGAGGAAGTCTCTTGAGACTGAGACGACGA
1 GCAAACAATGGAT-GAAGAAGTCTCTTGGGTCTAAGACGACAA
* *
1667016 GCAAACTATGGATGAAGAAGTCTCCTGGGTCTAAG
1 GCAAACAATGGATGAAGAAGTCTCTTGGGTCTAAG
1667051 CCGTGGGCAA
Statistics
Matches: 59, Mismatches: 18, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (42 bp):
GCAAACAATGGATGAAGAAGTCTCTTGGGTCTAAGACGACAA
Found at i:1667332 original size:507 final size:507
Alignment explanation
Indices: 1666622--1667685 Score: 1544
Period size: 507 Copynumber: 2.1 Consensus size: 507
1666612 GTCTCCTGGG
*
1666622 TCTAAGCCGATGGGCAGACAGTTGATAAAGGAAGTCTCCCAAGATTGAGCCGATGGGTAGACAAA
1 TCTAAGCCGATGGGCAGACAGTTGATAAAGGAAGTCTCCCAAGATTGAGCCGACGGGTAGACAAA
* * *
1666687 AAATGAAAAATTCTCCCAGGTTTAAGCCGACGGGCAAATGGTTGATAAAGAAAGTCTCTCGAGTT
66 AAATGAAAAATTCTCCCAGGTCTAAGCCGACGGGCAAATGGTTGATAAAAAAAGTCTCTCGAGTC
* * * * *
1666752 TAAGCCGATGGGTAGACGGTGGATGAAGAAGTCTTCTAGGTCTAAGCCGACAGGCAGACGAAAGA
131 TAAACCAATGGGCAGACAGTGGATGAAGAAGTCTTCTAGGTCTAAGCCGACAAGCAGACGAAAGA
* * *
1666817 TGAAAAAGTCTTTTAGGTCTAAGCCGACGAGTAGACGGTGGATGAAGAATCTCCTAGGTCTAAGC
196 TGAAAAAGTC-TCTAGGTCTAAGCCGACGAGCAGACGATGGATGAAGAATCTCCTAGGTCTAAGC
* **
1666882 TGACGGGCAAATGGTTAGTAAAAGAAATATCCCAGGATTGAGCTAATGGGCAAACAATGGATGAA
260 CGACGGGCAAATGGTTAACAAAAGAAATATCCCAGGATTGAGCTAATGGGCAAACAATGGATGAA
* * *
1666947 GAAGTCTCTTGGGTCTAAGTCGACAAGTAGACAATTGATAGAGGAAGTCTCTTGAGACTGAGAC-
325 GAAGTCTCTTGGGTCTAAGCCGACAAGCAGACAATTGATAGAGGAAGTCTCTCGAGACTGAG-CT
* * *
1667011 GACGAGCAAACTATGGATGAAGAAGTCTCCTGGGTCTAAGCC-GTGGGCAAACGATTGATAAAGG
389 GACGAGCAAACTATGGATGAAGAAGTCTCCCGAGTCTAAGCCAATGGGCAAACGATTGATAAAGG
* *
1667075 AAGTCTCCCAAGACTGAGTCGATAGGTAGACAATGAATAAAAAAGCCTTCCAGC
454 AAGTCTCCCAAGACAGAGTCAATAGGTAGACAATGAATAAAAAAGCCTTCCAGC
* * *
1667129 TCTAAGCTGATGGGCAGAGAGTTGATAAAGGAAGTCTCCCGAGATTGAGCCGACGGGTAGACAAA
1 TCTAAGCCGATGGGCAGACAGTTGATAAAGGAAGTCTCCCAAGATTGAGCCGACGGGTAGACAAA
* * * *
1667194 AAATGAAAAATTCTCCCAGGTCTAAGCTGACGGGTAGATGGTTGATAAAAAAAGTTTCTCGAGTC
66 AAATGAAAAATTCTCCCAGGTCTAAGCCGACGGGCAAATGGTTGATAAAAAAAGTCTCTCGAGTC
1667259 TAAACCAATGGGCAGACAGTGGATGAAGAAGTCTTCTAGGTCTAAGCCGACAAGCAGACGAAAGA
131 TAAACCAATGGGCAGACAGTGGATGAAGAAGTCTTCTAGGTCTAAGCCGACAAGCAGACGAAAGA
* * *
1667324 TGAAAAAGTCTCTCGGTCTAAGTCGACGGGCAGACGATGGATGAAGAATCTCCTAGGTCTAAGCC
196 TGAAAAAGTCTCTAGGTCTAAGCCGACGAGCAGACGATGGATGAAGAATCTCCTAGGTCTAAGCC
* * * *
1667389 GACGGGCAGATGGTTAACAAAGGAAATATCCTAGGATTGAGCTTATGGGCAAACAATGGATGAAG
261 GACGGGCAAATGGTTAACAAAAGAAATATCCCAGGATTGAGCTAATGGGCAAACAATGGATGAAG
**
1667454 AAGTCTCTTGGGTCTAAGCCGACAAGCAGATGATTGATAGAGGAAGTCTCTCGAGACTGAGCTGA
326 AAGTCTCTTGGGTCTAAGCCGACAAGCAGACAATTGATAGAGGAAGTCTCTCGAGACTGAGCTGA
* * * *
1667519 TGAGCAGACTATGGATGAAGAAGTCTCCCGAGTCTAAGCCAATGGGTAGACGATTGATAAAGGAA
391 CGAGCAAACTATGGATGAAGAAGTCTCCCGAGTCTAAGCCAATGGGCAAACGATTGATAAAGGAA
* ** * ** * * *
1667584 GTCTCTCGGGACAGAGTCAATAGGTAGACAATGGATGGAAAAGTC-TCTCGGA
456 GTCTCCCAAGACAGAGTCAATAGGTAGACAATGAATAAAAAAGCCTTC-CAGC
* * * *
1667636 TCTAAGCCAACGGGCAGA-TGATTGATAAAGGAAGTC-CCTCAAGACTGAGC
1 TCTAAGCCGATGGGCAGACAG-TTGATAAAGGAAGTCTCC-CAAGATTGAGC
1667686 TGATGGACAA
Statistics
Matches: 494, Mismatches: 58, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
505 1 0.00
506 206 0.42
507 287 0.58
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (507 bp):
TCTAAGCCGATGGGCAGACAGTTGATAAAGGAAGTCTCCCAAGATTGAGCCGACGGGTAGACAAA
AAATGAAAAATTCTCCCAGGTCTAAGCCGACGGGCAAATGGTTGATAAAAAAAGTCTCTCGAGTC
TAAACCAATGGGCAGACAGTGGATGAAGAAGTCTTCTAGGTCTAAGCCGACAAGCAGACGAAAGA
TGAAAAAGTCTCTAGGTCTAAGCCGACGAGCAGACGATGGATGAAGAATCTCCTAGGTCTAAGCC
GACGGGCAAATGGTTAACAAAAGAAATATCCCAGGATTGAGCTAATGGGCAAACAATGGATGAAG
AAGTCTCTTGGGTCTAAGCCGACAAGCAGACAATTGATAGAGGAAGTCTCTCGAGACTGAGCTGA
CGAGCAAACTATGGATGAAGAAGTCTCCCGAGTCTAAGCCAATGGGCAAACGATTGATAAAGGAA
GTCTCCCAAGACAGAGTCAATAGGTAGACAATGAATAAAAAAGCCTTCCAGC
Found at i:1667357 original size:41 final size:41
Alignment explanation
Indices: 1667280--1667398 Score: 150
Period size: 41 Copynumber: 2.9 Consensus size: 41
1667270 GCAGACAGTG
**
1667280 GATGAAGAAGTCTTCTAGGTCTAAGCCGACAAGCAGACGAAA
1 GATGAAGAAGTC-TCTAGGTCTAAGCCGACGGGCAGACGAAA
* * * **
1667322 GATGAAAAAGTCTCTCGGTCTAAGTCGACGGGCAGACGATG
1 GATGAAGAAGTCTCTAGGTCTAAGCCGACGGGCAGACGAAA
1667363 GATGAAGAA-TCTCCTAGGTCTAAGCCGACGGGCAGA
1 GATGAAGAAGTCT-CTAGGTCTAAGCCGACGGGCAGA
1667399 TGGTTAACAA
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
40 3 0.05
41 52 0.79
42 11 0.17
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.18
Consensus pattern (41 bp):
GATGAAGAAGTCTCTAGGTCTAAGCCGACGGGCAGACGAAA
Found at i:1667525 original size:43 final size:43
Alignment explanation
Indices: 1667478--1667681 Score: 114
Period size: 42 Copynumber: 4.8 Consensus size: 43
1667468 TAAGCCGACA
* **
1667478 AGCAGATGATTGATAGAGGAAGTCTCTCGAGACTGAGCTGATG
1 AGCAGATGATTGATAGAGGAAGTCTCTCGAGACTAAGCCAATG
* * * *
1667521 AGCAGACT-ATGGAT-GAAGAAGTCTCCCGAGTCTAAGCCAATG
1 AGCAGA-TGATTGATAGAGGAAGTCTCTCGAGACTAAGCCAATG
* * * * * *
1667563 GGTAGACGATTGATAAAGGAAGTCTCTCGGGAC-AGAGTCAAT-
1 AGCAGATGATTGATAGAGGAAGTCTCTCGAGACTA-AGCCAATG
* ** * * * *
1667605 AGGTAGACAATGGATGGA-AAAGTCTCTCG-GATCTAAGCCAACG
1 A-GCAGATGATTGATAGAGGAAGTCTCTCGAGA-CTAAGCCAATG
* * * *
1667648 GGCAGATGATTGATAAAGGAAGTCCCTCAAGACT
1 AGCAGATGATTGATAGAGGAAGTCTCTCGAGACT
1667682 GAGCTGATGG
Statistics
Matches: 116, Mismatches: 35, Indels: 20
0.68 0.20 0.12
Matches are distributed among these distances:
41 2 0.02
42 58 0.50
43 53 0.46
44 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (43 bp):
AGCAGATGATTGATAGAGGAAGTCTCTCGAGACTAAGCCAATG
Found at i:1667589 original size:85 final size:85
Alignment explanation
Indices: 1666603--1667728 Score: 458
Period size: 85 Copynumber: 13.3 Consensus size: 85
1666593 GCAAACGAAA
* * * * * *
1666603 GATGAAGAAGTCTCCTGGGTCTAAGCCGATGGGCAGAC-AGTTGATAAAGGAAGTCTCCCAAGAT
1 GATGAAGAAGTCTCCCGAGTCTAAGCCGACGGGCAGACGA-TTGATAAAGGAAGTCTCTCGAGAC
* * * **
1666667 TGAGCCGATGGGTAGACAAAA
65 TGAGCTGATGAGCAGACAATG
* * * * * * * * **
1666688 AATGAAAAATTCTCCC-AGGTTTAAGCCGACGGGCAAATGGTTGATAAAGAAAGTCTCTCGAGTT
1 GATGAAGAAGTCTCCCGA-GTCTAAGCCGACGGGCAGACGATTGATAAAGGAAGTCTCTCGAGAC
* * * * **
1666752 TAAGCCGATGGGTAGACGGTG
65 TGAGCTGATGAGCAGACAATG
* * * ** **
1666773 GATGAAGAAGTCT-TCTAGGTCTAAGCCGACAGGCAGACGAAAGATGAAA--AAGTCT-TTTAGG
1 GATGAAGAAGTCTCCCGA-GTCTAAGCCGACGGGCAGACGATTGAT-AAAGGAAGTCTCTCGA-G
* * * * * **
1666834 TCTAAGCCGACGAGTAGACGGTG
63 ACTGAGCTGATGAGCAGACAATG
* * * * * * * * *
1666857 GATGAAGAA-TCT-CCTAGGTCTAAGCTGACGGGCAAATGGTT-AGTAAAAGAAATATC-CCAGG
1 GATGAAGAAGTCTCCCGA-GTCTAAGCCGACGGGCAGACGATTGA-TAAAGGAAGTCTCTCGA-G
* * * *
1666918 ATTGAGCTAATGGGCAAACAATG
63 ACTGAGCTGATGAGCAGACAATG
** * * ** * * * *
1666941 GATGAAGAAGTCTCTTGGGTCTAAGTCGACAAGTAGACAATTGATAGAGGAAGTCTCTTGAGACT
1 GATGAAGAAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGATAAAGGAAGTCTCTCGAGACT
* * *
1667006 GAGAC-GACGAGCAAACTATG
66 GAG-CTGATGAGCAGACAATG
* * * * * *
1667026 GATGAAGAAGTCTCCTGGGTCTAAGCCG-TGGGCAAACGATTGATAAAGGAAGTCTCCCAAGACT
1 GATGAAGAAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGATAAAGGAAGTCTCTCGAGACT
*
1667090 GAG-TCGAT-AGGTAGACAATG
66 GAGCT-GATGA-GCAGACAATG
* * * * * * * *
1667110 AATAAAAAAGCCTTCC-AGCTCTAAGCTGATGGGCAGA-GAGTTGATAAAGGAAGTCTCCCGAGA
1 GATGAAGAAGTCTCCCGAG-TCTAAGCCGACGGGCAGACGA-TTGATAAAGGAAGTCTCTCGAGA
* * * * * **
1667173 TTGAGCCGACGGGTAGACAAAA
64 CTGAGCTGATGAGCAGACAATG
* * * * * * * ** * *
1667195 AATGAAAAATTCTCCC-AGGTCTAAGCTGACGGGTAGATGGTTGATAAAAAAAGTTTCTCGAGTC
1 GATGAAGAAGTCTCCCGA-GTCTAAGCCGACGGGCAGACGATTGATAAAGGAAGTCTCTCGAGAC
* * ** * *
1667259 TAAACCAATGGGCAGACAGTG
65 TGAGCTGATGAGCAGACAATG
* * ** ** *
1667280 GATGAAGAAGTCT-TCTAGGTCTAAGCCGACAAGCAGACGAAAGATGAAA--AAGTCTCTCG-GT
1 GATGAAGAAGTCTCCCGA-GTCTAAGCCGACGGGCAGACGATTGAT-AAAGGAAGTCTCTCGAGA
* * * *
1667341 CTAAG-TCGACGGGCAGACGATG
64 CTGAGCT-GATGAGCAGACAATG
* * * * * * * *
1667363 GATGAAGAA-TCT-CCTAGGTCTAAGCCGACGGGCAGATGGTTAACAAAGGAAATATC-CTAGGA
1 GATGAAGAAGTCTCCCGA-GTCTAAGCCGACGGGCAGACGATTGATAAAGGAAGTCTCTCGA-GA
* * * *
1667425 TTGAGCTTATGGGCAAACAATG
64 CTGAGCTGATGAGCAGACAATG
** * ** * *
1667447 GATGAAGAAGTCTCTTGGGTCTAAGCCGACAAGCAGATGATTGATAGAGGAAGTCTCTCGAGACT
1 GATGAAGAAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGATAAAGGAAGTCTCTCGAGACT
*
1667512 GAGCTGATGAGCAGACTATG
66 GAGCTGATGAGCAGACAATG
* * * * *
1667532 GATGAAGAAGTCTCCCGAGTCTAAGCCAATGGGTAGACGATTGATAAAGGAAGTCTCTCGGGACA
1 GATGAAGAAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGATAAAGGAAGTCTCTCGAGACT
* *
1667597 GAG-TCAAT-AGGTAGACAATG
66 GAGCT-GATGA-GCAGACAATG
* * * * *
1667617 GATGGAA-AAGTCTCTCG-GATCTAAGCCAACGGGCAGATGATTGATAAAGGAAGTCCCTCAAGA
1 GAT-GAAGAAGTCTCCCGAG-TCTAAGCCGACGGGCAGACGATTGATAAAGGAAGTCTCTCGAGA
*
1667680 CTGAGCTGATG-GACAAACAATG
64 CTGAGCTGATGAG-CAGACAATG
* *
1667702 AATGAAGAAGTCTCCCGGGTCTAAGCC
1 GATGAAGAAGTCTCCCGAGTCTAAGCC
1667729 AATGAGTAGT
Statistics
Matches: 778, Mismatches: 219, Indels: 88
0.72 0.20 0.08
Matches are distributed among these distances:
81 3 0.00
82 31 0.04
83 60 0.08
84 164 0.21
85 502 0.65
86 18 0.02
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (85 bp):
GATGAAGAAGTCTCCCGAGTCTAAGCCGACGGGCAGACGATTGATAAAGGAAGTCTCTCGAGACT
GAGCTGATGAGCAGACAATG
Found at i:1667630 original size:170 final size:170
Alignment explanation
Indices: 1666930--1667737 Score: 525
Period size: 170 Copynumber: 4.8 Consensus size: 170
1666920 TGAGCTAATG
* * * *
1666930 GGCAAACAATGGATGAAGAAGTCTCTTGGGTCTAAGTCGACAAGTAGACAATTGATAGAGGAAGT
1 GGCAGACAATGGATGAAGAAGTCTCTTGGGTCTAAGCCGACAAGCAGACGATTGATAGAGGAAGT
* * * * * *
1666995 CTCTTGAGACTGAGAC-GACGAGCAAACTATGGATGAAGAAGTCTCCTGGGTCTAAGCC-GTGGG
66 CTCTCGAGACTGAG-CTGACGAGCAGACAATGGATGAAGAAGTCTCCCGAGTCTAAGCCAATGGG
* * * * *
1667058 CAAACGATTGATAAAGGAAGTCTCCCAAGACTGAGTCGATA
130 TAGACGATTGATAAAGGAAGTCTCTCAAGACAGAGTCAATA
* * * * * * * *** *
1667099 GGTAGACAATGAATAAAAAAG-C-CTTCCAGCTCTAAGCTGATGGGCAGA-GAGTTGATAAAGGA
1 GGCAGACAATGGATGAAGAAGTCTCTT--GGGTCTAAGCCGACAAGCAGACGA-TTGATAGAGGA
* * * * * *** * * ** *
1667161 AGTCTCCCGAGATTGAGCCGACGGGTAGACAAAAAATGAAAAATTCTCCC-AGGTCTAAGCTGAC
63 AGTCTCTCGAGACTGAGCTGACGAGCAGACAATGGATGAAGAAGTCTCCCGA-GTCTAAGCCAAT
* * ** * * * ** *
1667225 GGGTAGATGGTTGATAAAAAAAGTTTCTCGAGTCTA-AACCAATG
127 GGGTAGACGATTGATAAAGGAAGTCTCTCAAGAC-AGAGTCAATA
* * ** **
1667269 GGCAGACAGTGGATGAAGAAGTCT-TCTAGGTCTAAGCCGACAAGCAGACGAAAGAT-GAAAAAG
1 GGCAGACAATGGATGAAGAAGTCTCT-TGGGTCTAAGCCGACAAGCAGACGATTGATAGAGGAAG
* * * * * * *
1667332 TCTCTCG-GTCTAAG-TCGACGGGCAGACGATGGATGAAGAA-TCT-CCTAGGTCTAAGCCGACG
65 TCTCTCGAGACTGAGCT-GACGAGCAGACAATGGATGAAGAAGTCTCCCGA-GTCTAAGCCAATG
* * * * * * * * ** * *
1667393 GGCAGATGGTTAACAAAGGAAATATC-CTAGGATTGAG-CTTATG
128 GGTAGACGATTGATAAAGGAAGTCTCTC-AAGACAGAGTC-AATA
* *
1667436 GGCAAACAATGGATGAAGAAGTCTCTTGGGTCTAAGCCGACAAGCAGATGATTGATAGAGGAAGT
1 GGCAGACAATGGATGAAGAAGTCTCTTGGGTCTAAGCCGACAAGCAGACGATTGATAGAGGAAGT
* *
1667501 CTCTCGAGACTGAGCTGATGAGCAGACTATGGATGAAGAAGTCTCCCGAGTCTAAGCCAATGGGT
66 CTCTCGAGACTGAGCTGACGAGCAGACAATGGATGAAGAAGTCTCCCGAGTCTAAGCCAATGGGT
**
1667566 AGACGATTGATAAAGGAAGTCTCTCGGGACAGAGTCAATA
131 AGACGATTGATAAAGGAAGTCTCTCAAGACAGAGTCAATA
* * * * ** * *
1667606 GGTAGACAATGGATGGAA-AAGTCTCTCGGATCTAAGCCAACGGGCAGATGATTGATAAAGGAAG
1 GGCAGACAATGGAT-GAAGAAGTCTCTTGGGTCTAAGCCGACAAGCAGACGATTGATAGAGGAAG
* * * * * * *
1667670 TCCCTCAAGACTGAGCTGATG-GACAAACAATGAATGAAGAAGTCTCCCGGGTCTAAGCCAATGA
65 TCTCTCGAGACTGAGCTGACGAG-CAGACAATGGATGAAGAAGTCTCCCGAGTCTAAGCCAATGG
1667734 GTAG
129 GTAG
1667738 TCGTAAGATG
Statistics
Matches: 482, Mismatches: 131, Indels: 51
0.73 0.20 0.08
Matches are distributed among these distances:
166 4 0.01
167 92 0.19
168 38 0.08
169 119 0.25
170 216 0.45
171 12 0.02
172 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.20
Consensus pattern (170 bp):
GGCAGACAATGGATGAAGAAGTCTCTTGGGTCTAAGCCGACAAGCAGACGATTGATAGAGGAAGT
CTCTCGAGACTGAGCTGACGAGCAGACAATGGATGAAGAAGTCTCCCGAGTCTAAGCCAATGGGT
AGACGATTGATAAAGGAAGTCTCTCAAGACAGAGTCAATA
Found at i:1667800 original size:170 final size:170
Alignment explanation
Indices: 1667436--1667801 Score: 402
Period size: 170 Copynumber: 2.2 Consensus size: 170
1667426 TGAGCTTATG
* * * * * *
1667436 GGCAAACAATGGAT-GAAGAAGTCTCTTGGGTCTAAGCCGACAAGCAGATGATTGATAGAGGAAG
1 GGCAGACAATGGATAAAAGAAGTCTCTCGGATCTAAGCCAACAAGCAGATGATTGATAAAGGAAG
* * * * * *
1667500 TCTCTCGAGACTGAGCTGATGAGCAGACTATGGATGAAGAAGTCTCCCGAGTCTAAGCCAATGGG
66 TCCCTCAAGACTGAGCTGATGAGCAAACAATGAATGAAGAAGTCTCCCGAGTCTAAGCCAATGAG
*
1667565 TAGACGATTGATAAAGGAAGTCTCTCGGGACAGAGTCAATA
131 TAGACGATAGATAAA-GAAGTCTCTCGGGACAGAGTCAATA
* ** **
1667606 GGTAGACAATGGATGGAA-AAGTCTCTCGGATCTAAGCCAACGGGCAGATGATTGATAAAGGAAG
1 GGCAGACAATGGATAAAAGAAGTCTCTCGGATCTAAGCCAACAAGCAGATGATTGATAAAGGAAG
*
1667670 TCCCTCAAGACTGAGCTGATG-GACAAACAATGAATGAAGAAGTCTCCCGGGTCTAAGCCAATGA
66 TCCCTCAAGACTGAGCTGATGAG-CAAACAATGAATGAAGAAGTCTCCCGAGTCTAAGCCAATGA
* * * * *
1667734 GTAGTCG-TAAGATGAAA-AAGTCTCTTGGGTCTA-AGTCGATG
130 GTAGACGAT-AGAT-AAAGAAGTCTCTCGGGAC-AGAGTCAATA
** *
1667775 GGCAGACGGTTGATAAAAGAAGTCTCT
1 GGCAGACAATGGATAAAAGAAGTCTCT
1667802 TGGGACTGAG
Statistics
Matches: 163, Mismatches: 27, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
169 32 0.20
170 125 0.77
171 6 0.04
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (170 bp):
GGCAGACAATGGATAAAAGAAGTCTCTCGGATCTAAGCCAACAAGCAGATGATTGATAAAGGAAG
TCCCTCAAGACTGAGCTGATGAGCAAACAATGAATGAAGAAGTCTCCCGAGTCTAAGCCAATGAG
TAGACGATAGATAAAGAAGTCTCTCGGGACAGAGTCAATA
Found at i:1667809 original size:127 final size:127
Alignment explanation
Indices: 1667617--1667852 Score: 285
Period size: 127 Copynumber: 1.9 Consensus size: 127
1667607 GTAGACAATG
* * *
1667617 GATGGAAAAGTCTCTCGGATCTAAGCCAACGGGCAGATGATTGATAAAGGAAGTCCCTCAAGACT
1 GATGAAAAAGTCTCTCGGATCTAAGCCAACGGGCAGACGATTGATAAAAGAAGTCCCTCAAGACT
*
1667682 GAGCTGA-TGGACAAACAATGAATGAAGAAGTCTCCCGGGTCTAAGCCAATGAGTAGTCGTAA
66 GAGCTGACAGG-CAAACAATGAATGAAGAAGTCTCCCGGGTCTAAGCCAATGAGTAGTCGTAA
* * * * * * * ***
1667744 GATGAAAAAGTCTCTTGGGTCTAAGTCGATGGGCAGACGGTTGATAAAAGAAGTCTCTTGGGACT
1 GATGAAAAAGTCTCTCGGATCTAAGCCAACGGGCAGACGATTGATAAAAGAAGTCCCTCAAGACT
* ** * *
1667809 GAGCTGACAGGTAAATGATGGATGAAGAAGTCTTCCGGGTCTAA
66 GAGCTGACAGGCAAACAATGAATGAAGAAGTCTCCCGGGTCTAA
1667853 ACCGCCAAGC
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
127 87 0.98
128 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.22
Consensus pattern (127 bp):
GATGAAAAAGTCTCTCGGATCTAAGCCAACGGGCAGACGATTGATAAAAGAAGTCCCTCAAGACT
GAGCTGACAGGCAAACAATGAATGAAGAAGTCTCCCGGGTCTAAGCCAATGAGTAGTCGTAA
Found at i:1667905 original size:43 final size:43
Alignment explanation
Indices: 1667847--1667930 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
1667837 AGTCTTCCGG
* * *
1667847 GTCTAAACCGCCAAGC-AGACGATTGATAAAGGAAGTCTCCCTA
1 GTCTAAACCGACAAGCTA-ACGATTAATAAAGGAAATCTCCCTA
* *
1667890 GTCTAAGCCGACAAGCTAACGGTTAATAAAGGAAATCTCCC
1 GTCTAAACCGACAAGCTAACGATTAATAAAGGAAATCTCCC
1667931 GCAAGCAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 34 0.97
44 1 0.03
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (43 bp):
GTCTAAACCGACAAGCTAACGATTAATAAAGGAAATCTCCCTA
Found at i:1668105 original size:42 final size:42
Alignment explanation
Indices: 1668057--1668143 Score: 102
Period size: 42 Copynumber: 2.1 Consensus size: 42
1668047 AAGACTGAGT
*** * *
1668057 CGATGGGCAGAGGGTGGATGAAAAAGTCTTGCAGGTCTAAGC
1 CGATGGGCAGAGGAAAGATAAAAAAGTCTTCCAGGTCTAAGC
* * *
1668099 CGATGGGTAGATGAAAGATAAAAAAGTCTTCCGGGTCTAAGC
1 CGATGGGCAGAGGAAAGATAAAAAAGTCTTCCAGGTCTAAGC
1668141 CGA
1 CGA
1668144 CAGGTAGACG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.32, C:0.15, G:0.33, T:0.20
Consensus pattern (42 bp):
CGATGGGCAGAGGAAAGATAAAAAAGTCTTCCAGGTCTAAGC
Found at i:1668395 original size:44 final size:45
Alignment explanation
Indices: 1668283--1668397 Score: 166
Period size: 43 Copynumber: 2.6 Consensus size: 45
1668273 CGGGCAAACA
* *
1668283 AAGGGT-AAAGAAGTCTCCAAGGTCAAA-ACTGACAGGCAGACTT
1 AAGGGTGAAGGAAGTCTCCAAGGTCAAAGACTAACAGGCAGACTT
*
1668326 AAGGGTG-AGGAAGTCTCCAAGGTCAAAGA-TAATAGGCAGACTT
1 AAGGGTGAAGGAAGTCTCCAAGGTCAAAGACTAACAGGCAGACTT
*
1668369 AAGGGTGAAGGAAGTCTCCAGGGTCAAAG
1 AAGGGTGAAGGAAGTCTCCAAGGTCAAAG
1668398 CCGACAAAGA
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
43 44 0.68
44 21 0.32
ACGTcount: A:0.37, C:0.16, G:0.30, T:0.17
Consensus pattern (45 bp):
AAGGGTGAAGGAAGTCTCCAAGGTCAAAGACTAACAGGCAGACTT
Found at i:1668630 original size:48 final size:48
Alignment explanation
Indices: 1668527--1668632 Score: 151
Period size: 48 Copynumber: 2.2 Consensus size: 48
1668517 GGGAAAAAAG
* * * *
1668527 AAAGTTTGACTAGGCCCTAACACCAATACAGTCAAACGAGGGATGGAT
1 AAAGTTTGACTAAGCCCTAACACCAATACAGTCAAACAAGGGATAGAA
*
1668575 AGAGTTTGACTAAGCCCTAACACCAATACAGTCAAACAAGGGA-AGAA
1 AAAGTTTGACTAAGCCCTAACACCAATACAGTCAAACAAGGGATAGAA
1668622 AAATGTTTGAC
1 AAA-GTTTGAC
1668633 CGGATACAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
47 4 0.08
48 47 0.92
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.19
Consensus pattern (48 bp):
AAAGTTTGACTAAGCCCTAACACCAATACAGTCAAACAAGGGATAGAA
Found at i:1668653 original size:36 final size:36
Alignment explanation
Indices: 1668600--1668683 Score: 107
Period size: 36 Copynumber: 2.3 Consensus size: 36
1668590 CCTAACACCA
1668600 ATACAGTCAAACAAGGGAAGAAAA-ATGTTTGACCGG
1 ATACAGTCAAACAAGGGAAGAAAAGA-GTTTGACCGG
* * * **
1668636 ATACAGTCAATCGAGGGATGAAAAGAGTTTGATTGG
1 ATACAGTCAAACAAGGGAAGAAAAGAGTTTGACCGG
1668672 ATACAGTCAAAC
1 ATACAGTCAAAC
1668684 GGTGGTGGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
36 40 0.98
37 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (36 bp):
ATACAGTCAAACAAGGGAAGAAAAGAGTTTGACCGG
Found at i:1674560 original size:159 final size:156
Alignment explanation
Indices: 1674069--1675132 Score: 1004
Period size: 155 Copynumber: 6.8 Consensus size: 156
1674059 CTTGATACCA
* * * *
1674069 CTAAAGGACTTAAAAAGGACTATAAAAGAGATGAACCTATCCTAAA-GACCCACTTTTGGCATAA
1 CTAAAGGACTTAAAAA-GACTATAAATGGGATGAACCTATCCTAAATG-CCCACCTTCGGCATAA
* * * * *
1674133 AAGCGCACTCGGTGATAACCTAA-AGCTCGATTTTA-AAAAATTACCAAAATGCCCCTAGGGGGT
64 AAGCGGACCCGGTGATAACCTAAGA-CTCG-TTCTAGAAAAATTACAAAAATGCCCCTA-TGGGT
* *
1674196 ATAGCTTCGACGTAAAAGTATC-CTAGCAACC
126 ATACCTTCGACGTAAAAGTATCTC-GGCAACC
* * * *
1674227 CTAAAGGACTTAGAAAGACTCATAAAAGGGATGAGCCTATCCTAAATGCCCACCTTCGACATAAA
1 CTAAAGGACTTAAAAAGACT-ATAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAA
* * * ** * * * * *
1674292 AGTGGACCCGATGATGACCTAAGTGTTGGTTCT-TAAAAATTACAAAAATGTCCCTACGAGTATA
65 AGCGGACCCGGTGATAACCTAAG-ACTCGTTCTAGAAAAATTACAAAAATGCCCCTATGGGTATA
1674356 CCTTCGACGTAAAAGTATCTCGGCAACC
129 CCTTCGACGTAAAAGTATCTCGGCAACC
* *
1674384 CTAAAGGACTTAGAAAGACTAGAAATGGTGATGAACCTATCCTAAATGCCCACCTTCGGCATAAA
1 CTAAAGGACTTAAAAAGACTATAAATGG-GATGAACCTATCCTAAATGCCCACCTTCGGCATAAA
** * ** * * * *
1674449 AGCGGACTTGGTGACAACCTAAGACTCGATTCTAGGAAAAATTATGAAAATGTCCTTACGAGTAT
65 AGCGGACCCGGTGATAACCTAAGACTCG-TTCTA-GAAAAATTACAAAAATGCCCCTATGGGTAT
* *
1674514 ACCTTCGACGTAAAAATATCTCGGCAAGC
128 ACCTTCGACGTAAAAGTATCTCGGCAACC
* * * * **
1674543 CTAAAGGACTTAAAAAGACTATAAACGGTGATGAACCTATCCTAAACGCTCATCTTCAACATAAA
1 CTAAAGGACTTAAAAAGACTATAAATGG-GATGAACCTATCCTAAATGCCCACCTTCGGCATAAA
** ** *
1674608 AGCAGG-CCTAGTGATAACCTAAGACTCGGTTCTAAGAAAAATTATGAAAATACCCCTATGGG-A
65 AGC-GGACCCGGTGATAACCTAAGACTC-GTTCT-AGAAAAATTACAAAAATGCCCCTATGGGTA
** * * *
1674671 TACCTTCGATTTGAAAGTATC-CTTG-TACC
127 TACCTTCGACGTAAAAGTATCTC-GGCAACC
* * * *
1674700 CTTAAAGGACTTAAAAAGGCTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGTATAAA
1 C-TAAAGGACTTAAAAAGACTATAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAA
*** * * * * *
1674765 AGTAAACCCGGTGATAGCCTAAGACTCGTTCTA-AGAAAGTACAAAAATGTCTCTATGGGTATAC
65 AGCGGACCCGGTGATAACCTAAGACTCGTTCTAGAAAAATTACAAAAATGCCCCTATGGGTATAC
* * *
1674829 CTTTGACGTAAAAGTAGCTTGGCAACC
130 CTTCGACGTAAAAGTATCTCGGCAACC
* ** *
1674856 CTAAAGGACTTAAAAAGACTAGAAATGCAATGAACCTATCCTAAATGCCCACCTTCGACATAAAA
1 CTAAAGGACTTAAAAAGACTATAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAA
* * * ** *
1674921 ACGGACCCGGTGATAACCTAGGACTTCGTTAT-GAGCAAGTACAAAAATGCCCCTATGGGTATAC
66 GCGGACCCGGTGATAACCTAAGAC-TCGTTCTAGAAAAATTACAAAAATGCCCCTATGGGTATAC
*
1674985 CTTCGACGTAAAAGTA-CCCGGCAACC
130 CTTCGACGTAAAAGTATCTCGGCAACC
* * * * *
1675011 CTAAAGGACTTAAAAAGGCTATAAAT-GCAGTAAACCTATCCTAAATGCCCACCTTTGGCTTAAA
1 CTAAAGGACTTAAAAAGACTATAAATGGGA-TGAACCTATCCTAAATGCCCACCTTCGGCATAAA
* * * * * * * *
1675075 AGTGGACCCGATGACAGCCTAGGACTTGGTTCTA-AGAAAATTACCAAAATGCCTCTAT
65 AGCGGACCCGGTGATAACCTAAGAC-TCGTTCTAGA-AAAATTACAAAAATGCCCCTAT
1675133 ATGTTCGACG
Statistics
Matches: 750, Mismatches: 132, Indels: 50
0.80 0.14 0.05
Matches are distributed among these distances:
154 20 0.03
155 184 0.25
156 83 0.11
157 163 0.22
158 136 0.18
159 160 0.21
160 4 0.01
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (156 bp):
CTAAAGGACTTAAAAAGACTATAAATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAA
GCGGACCCGGTGATAACCTAAGACTCGTTCTAGAAAAATTACAAAAATGCCCCTATGGGTATACC
TTCGACGTAAAAGTATCTCGGCAACC
Found at i:1674735 original size:316 final size:310
Alignment explanation
Indices: 1674069--1675125 Score: 1033
Period size: 316 Copynumber: 3.4 Consensus size: 310
1674059 CTTGATACCA
* * * *
1674069 CTAAAGGACTTAAAAAGGACTATAAAAGAGATGAACCTATCCTAAA-GACCCACTTTTGGCATAA
1 CTAAAGGACTTAAAAAGG-CTAGAAAAGGGATGAACCTATCCTAAATG-CCCACCTTCGGCATAA
* * * * * *
1674133 AAGCGCACTCGGTGATAACCTAA-AGCTCGATTTTAAAAAATTACCAAAATGCCCCTAGGGGGTA
64 AAGCGGACTCGGTGATAACCTAAGA-CTCGATTCTAAAAAATTACAAAAATGTCCTTA-CGGGTA
* * *
1674197 TAGCTTCGACGTAAAAGTATC-CTAGCAACCCTAAAGGACTTAGAAAGACTCATAAAAGGGATGA
127 TACCTTCGACGTAAAAGTATCTC-GGCAACCCTAAAGGACTTAAAAAGACT-AT-AAAGGGATGA
* * * * ** *
1674261 GCCTATCCTAAATGCCCACCTTCGACATAAAAGTGGACCCGATGATGACCTAAGTGTTGGTTCT-
189 ACCTATCCTAAATGCCCACCTTCGACATAAAAGCGGACCAG-TGATAACCTAAGACTCGGTTCTA
* * * *
1674325 TAAAAATTACAAAAATGTCCCTACGAGTATACCTTCGACGTAAAAGTAT-CTCGGCAACC
253 GAAAAATTACAAAAATGCCCCTATG-GGATACCTTCGACGTAAAAGTATCCT-GGCAACC
* * *
1674384 CTAAAGGACTTAGAAAGACTAGAAATGGTGATGAACCTATCCTAAATGCCCACCTTCGGCATAAA
1 CTAAAGGACTTAAAAAGGCTAGAAAAGG-GATGAACCTATCCTAAATGCCCACCTTCGGCATAAA
* * ** *
1674449 AGCGGACTTGGTGACAACCTAAGACTCGATTCTAGGAAAAATTATGAAAATGTCCTTACGAGTAT
65 AGCGGACTCGGTGATAACCTAAGACTCGATTCTA--AAAAATTACAAAAATGTCCTTACGGGTAT
* *
1674514 ACCTTCGACGTAAAAATATCTCGGCAAGCCTAAAGGACTTAAAAAGACTATAAACGGTGATGAAC
128 ACCTTCGACGTAAAAGTATCTCGGCAACCCTAAAGGACTTAAAAAGACTATAAA-GG-GATGAAC
* * * *
1674579 CTATCCTAAACGCTCATCTTCAACATAAAAGCAGG-CCTAGTGATAACCTAAGACTCGGTTCTAA
191 CTATCCTAAATGCCCACCTTCGACATAAAAGC-GGACC-AGTGATAACCTAAGACTCGGTTCT-A
** * ** * * *
1674643 GAAAAATTATGAAAATACCCCTATGGGATACCTTCGATTTGAAAGTATCCTTG-TACC
253 GAAAAATTACAAAAATGCCCCTATGGGATACCTTCGACGTAAAAGTATCCTGGCAACC
*
1674700 CTTAAAGGACTTAAAAAGGCTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGTATAAA
1 C-TAAAGGACTTAAAAAGGCTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAA
*** * * * * *
1674765 AGTAAACCCGGTGATAGCCTAAGACTCG-TTCTAAGAAAGTACAAAAATGT-CTCTATGGGTATA
65 AGCGGACTCGGTGATAACCTAAGACTCGATTCTAAAAAATTACAAAAATGTCCT-TACGGGTATA
* * * * **
1674828 CCTTTGACGTAAAAGTAGCTTGGCAACCCTAAAGGACTTAAAAAGACTAGAAATGCAATGAACCT
129 CCTTCGACGTAAAAGTATCTCGGCAACCCTAAAGGACTTAAAAAGACTATAAA-GGGATGAACCT
* * * * *
1674893 ATCCTAAATGCCCACCTTCGACATAAAAACGGACCCGGTGATAACCTAGGACTTC-GTTAT-GAG
193 ATCCTAAATGCCCACCTTCGACATAAAAGCGGA-CCAGTGATAACCTAAGAC-TCGGTTCTAGAA
* * *
1674956 CAAGTACAAAAATGCCCCTATGGGTATACCTTCGACGTAAAAGTA-CCCGGCAACC
256 AAATTACAAAAATGCCCCTATGGG-ATACCTTCGACGTAAAAGTATCCTGGCAACC
* * * * * *
1675011 CTAAAGGACTTAAAAAGGCTA-TAAATGCAGTAAACCTATCCTAAATGCCCACCTTTGGCTTAAA
1 CTAAAGGACTTAAAAAGGCTAGAAAAGGGA-TGAACCTATCCTAAATGCCCACCTTCGGCATAAA
* * * * * * * * *
1675075 AGTGGACCCGATGACAGCCTAGGACTTGGTTCTAAGAAAATTACCAAAATG
65 AGCGGACTCGGTGATAACCTAAGACTCGATTCTAA-AAAATTACAAAAATG
1675126 CCTCTATATG
Statistics
Matches: 612, Mismatches: 107, Indels: 49
0.80 0.14 0.06
Matches are distributed among these distances:
309 5 0.01
310 96 0.16
311 29 0.05
312 65 0.11
313 73 0.12
314 10 0.02
315 85 0.14
316 162 0.26
317 66 0.11
318 21 0.03
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (310 bp):
CTAAAGGACTTAAAAAGGCTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAA
GCGGACTCGGTGATAACCTAAGACTCGATTCTAAAAAATTACAAAAATGTCCTTACGGGTATACC
TTCGACGTAAAAGTATCTCGGCAACCCTAAAGGACTTAAAAAGACTATAAAGGGATGAACCTATC
CTAAATGCCCACCTTCGACATAAAAGCGGACCAGTGATAACCTAAGACTCGGTTCTAGAAAAATT
ACAAAAATGCCCCTATGGGATACCTTCGACGTAAAAGTATCCTGGCAACC
Found at i:1676624 original size:19 final size:19
Alignment explanation
Indices: 1676600--1676636 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1676590 TAAATTTTGT
1676600 ACCAAATGATTTT-TGATTC
1 ACCAAATG-TTTTCTGATTC
1676619 ACCAAATGTTTTCTGATT
1 ACCAAATGTTTTCTGATT
1676637 AAGTATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (19 bp):
ACCAAATGTTTTCTGATTC
Found at i:1676905 original size:13 final size:13
Alignment explanation
Indices: 1676887--1676912 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1676877 TACACAAAGT
1676887 ATGTATCGATACA
1 ATGTATCGATACA
1676900 ATGTATCGATACA
1 ATGTATCGATACA
1676913 TGAAAAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1676910 original size:32 final size:32
Alignment explanation
Indices: 1676869--1677029 Score: 91
Period size: 32 Copynumber: 5.0 Consensus size: 32
1676859 TAGCCAAACT
1676869 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGTATGTATCGATACAA
*
1676901 TGTATCGATACATGAAAAAG-ATGTATCGATAC-A
1 TGTATCGATAC---ACAAAGTATGTATCGATACAA
* ** *** * * * *
1676934 TGTCATTGGGAT-TTCTTGGTA-GTAGCCAAAC-T
1 TGT-A-T-CGATACACAAAGTATGTATCGATACAA
*
1676966 TGTATCGATACACAAAGTATGTATCAATACAA
1 TGTATCGATACACAAAGTATGTATCGATACAA
*
1676998 TGTATCGATACACCATAA-AATGTATCGATACA
1 TGTATCGATACA-CA-AAGTATGTATCGATACA
1677030 TTGGCTTGTA
Statistics
Matches: 93, Mismatches: 24, Indels: 23
0.66 0.17 0.16
Matches are distributed among these distances:
29 3 0.03
30 5 0.05
31 8 0.09
32 34 0.37
33 19 0.20
34 15 0.16
35 6 0.06
36 3 0.03
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.30
Consensus pattern (32 bp):
TGTATCGATACACAAAGTATGTATCGATACAA
Found at i:1676970 original size:97 final size:97
Alignment explanation
Indices: 1676804--1677030 Score: 393
Period size: 97 Copynumber: 2.4 Consensus size: 97
1676794 CATGTTGCAT
*
1676804 TGTATTGATACATGAAAAAGATGTATCGATACATGTCATTGGGATTTCTTGGCAGTAGCCAAACT
1 TGTATCGATACATGAAAAAGATGTATCGATACATGTCATTGGGATTTCTTGGCAGTAGCCAAACT
*
1676869 TGTATCGATACACAAAGTATGTATCGATACAA
66 TGTATCGATACACAAAGTATGTATCAATACAA
*
1676901 TGTATCGATACATGAAAAAGATGTATCGATACATGTCATTGGGATTTCTTGGTAGTAGCCAAACT
1 TGTATCGATACATGAAAAAGATGTATCGATACATGTCATTGGGATTTCTTGGCAGTAGCCAAACT
1676966 TGTATCGATACACAAAGTATGTATCAATACAA
66 TGTATCGATACACAAAGTATGTATCAATACAA
** *
1676998 TGTATCGATACACCATAAA-ATGTATCGATACAT
1 TGTATCGATACATGAAAAAGATGTATCGATACAT
1677031 TGGCTTGTAA
Statistics
Matches: 124, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
96 14 0.11
97 110 0.89
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (97 bp):
TGTATCGATACATGAAAAAGATGTATCGATACATGTCATTGGGATTTCTTGGCAGTAGCCAAACT
TGTATCGATACACAAAGTATGTATCAATACAA
Found at i:1681114 original size:15 final size:15
Alignment explanation
Indices: 1681096--1681125 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1681086 CCAAATTGAG
1681096 GAAGCTCAAAATGAA
1 GAAGCTCAAAATGAA
*
1681111 GAAGCTCCAAATGAA
1 GAAGCTCAAAATGAA
1681126 ATTGATGAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.17, G:0.20, T:0.13
Consensus pattern (15 bp):
GAAGCTCAAAATGAA
Found at i:1681121 original size:16 final size:16
Alignment explanation
Indices: 1681085--1681125 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
1681075 GATAAGAATG
* *
1681085 TCCAAATTGAGGAAGC
1 TCCAAAATGAAGAAGC
1681101 T-CAAAATGAAGAAGC
1 TCCAAAATGAAGAAGC
1681116 TCC-AAATGAA
1 TCCAAAATGAA
1681126 ATTGATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (16 bp):
TCCAAAATGAAGAAGC
Found at i:1683211 original size:13 final size:13
Alignment explanation
Indices: 1683193--1683231 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1683183 ACATCATTCT
1683193 TTGTATCGATACA
1 TTGTATCGATACA
1683206 TTGTATCGATACA
1 TTGTATCGATACA
*
1683219 CTGTATCGATACA
1 TTGTATCGATACA
1683232 AGGGAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1685793 original size:13 final size:13
Alignment explanation
Indices: 1685775--1685800 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1685765 TACACAAAGT
1685775 ATGTATCGATACA
1 ATGTATCGATACA
1685788 ATGTATCGATACA
1 ATGTATCGATACA
1685801 TGAAAAAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1685858 original size:97 final size:97
Alignment explanation
Indices: 1685692--1685898 Score: 396
Period size: 97 Copynumber: 2.1 Consensus size: 97
1685682 CATGTTGCAT
*
1685692 TGTATCGATACATGAAAAAGATGTATCGATACATGTTATTGGGATTTCTTGGCAGTAGCCAAACT
1 TGTATCGATACATGAAAAAGATGTATCGATACATGTCATTGGGATTTCTTGGCAGTAGCCAAACT
1685757 TGTATCGATACACAAAGTATGTATCGATACAA
66 TGTATCGATACACAAAGTATGTATCGATACAA
*
1685789 TGTATCGATACATGAAAAAGATGTATCGATACATGTCATTGGGATTTCTTGGCAGTAGCTAAACT
1 TGTATCGATACATGAAAAAGATGTATCGATACATGTCATTGGGATTTCTTGGCAGTAGCCAAACT
1685854 TGTATCGATACACAAAGTATGTATCGATACAA
66 TGTATCGATACACAAAGTATGTATCGATACAA
1685886 TGTATCGATACAT
1 TGTATCGATACAT
1685899 TGGCTTGTAA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 108 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.31
Consensus pattern (97 bp):
TGTATCGATACATGAAAAAGATGTATCGATACATGTCATTGGGATTTCTTGGCAGTAGCCAAACT
TGTATCGATACACAAAGTATGTATCGATACAA
Found at i:1685890 original size:13 final size:13
Alignment explanation
Indices: 1685872--1685897 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1685862 TACACAAAGT
1685872 ATGTATCGATACA
1 ATGTATCGATACA
1685885 ATGTATCGATACA
1 ATGTATCGATACA
1685898 TTGGCTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1687040 original size:23 final size:23
Alignment explanation
Indices: 1687014--1687073 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
1687004 TTTCACTCTA
1687014 TTTTCTCCCTTTTTTTT-TCTTT
1 TTTTCTCCCTTTTTTTTGTCTTT
**
1687036 CTTTTCT-TTTTTTTTTTGTCTTT
1 -TTTTCTCCCTTTTTTTTGTCTTT
1687059 TCTTTCTCCCTTTTT
1 T-TTTCTCCCTTTTT
1687074 CAGCTGAACC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
22 9 0.30
23 16 0.53
24 5 0.17
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.77
Consensus pattern (23 bp):
TTTTCTCCCTTTTTTTTGTCTTT
Found at i:1687046 original size:19 final size:19
Alignment explanation
Indices: 1687022--1687063 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
1687012 TATTTTCTCC
1687022 CTTTTTTTTTCTT-TCTTTT
1 CTTTTTTTTT-TTGTCTTTT
1687041 CTTTTTTTTTTTGTCTTTT
1 CTTTTTTTTTTTGTCTTTT
1687060 CTTT
1 CTTT
1687064 CTCCCTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.83
Consensus pattern (19 bp):
CTTTTTTTTTTTGTCTTTT
Found at i:1687924 original size:166 final size:165
Alignment explanation
Indices: 1687700--1688161 Score: 486
Period size: 166 Copynumber: 2.9 Consensus size: 165
1687690 AAAATAGGGA
* * * *
1687700 TTTCAAAGAAAAATTCAAAAACGCATGAAAATAAAAGAATTTTTGAAAACTGAATTAATATG-AA
1 TTTC-AAGAAAAAATAAAAAACGCATGAAAATAAAAGAATTTTTAAAAACTAAATTAATATGAAA
* *
1687764 TAAAATGATGATGTTTTATGAATTTCAAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAATTT
65 T-AAATAATGATGTTTGATGAATTTCAAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAATTT
** * *
1687829 TTGGAGTAGAAAATACCGTATTT-AGGAAAAAAGG-AAG
129 ACGAAGTAGAAAACACCGTATTTCA-G-AAAAAGGAAAG
** ** *
1687866 TTTCAAGGAAAAAATAAAAAACTTATGAAAATGGATGAATTTTTAAAAACTAAATTAATATGAAA
1 TTTCAA-GAAAAAATAAAAAACGCATGAAAATAAAAGAATTTTTAAAAACTAAATTAATATGAAA
* * *
1687931 TAAATAATGATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTTGAAACAATTTA
65 TAAATAATGATGTTTGATGAATTTCAAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAATTTA
*
1687996 CGAAGTAGAAAACATCGTATTTCAGAAAAAGGAAAG
130 CGAAGTAGAAAACACCGTATTTCAGAAAAAGGAAAG
* * * **
1688032 TTTCAAGAAAAAAT-AAAAA---ATG--AAT----GAATTTTTGAACACTGAATTAATATGGCAT
1 TTTCAAGAAAAAATAAAAAACGCATGAAAATAAAAGAATTTTTAAAAACTAAATTAATATGAAAT
* * * ** * *
1688087 AAATAATGATATTTGATGAATTTTAAAAATTAAAAATTAATAAAAATCCTCC-C-AAAAAATTCA
66 AAATAATGATGTTTGATGAATTTCAAAAATTGAAAACCAAGAAAAATCC-CCTCGAAAAAATTTA
1688150 CGAAGTAGAAAA
130 CGAAGTAGAAAA
1688162 ATCTCGTAAT
Statistics
Matches: 259, Mismatches: 32, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
154 20 0.08
155 69 0.27
156 2 0.01
159 3 0.01
161 3 0.01
164 5 0.02
165 17 0.07
166 136 0.53
167 4 0.02
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.27
Consensus pattern (165 bp):
TTTCAAGAAAAAATAAAAAACGCATGAAAATAAAAGAATTTTTAAAAACTAAATTAATATGAAAT
AAATAATGATGTTTGATGAATTTCAAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAATTTAC
GAAGTAGAAAACACCGTATTTCAGAAAAAGGAAAG
Found at i:1697964 original size:15 final size:13
Alignment explanation
Indices: 1697941--1697979 Score: 60
Period size: 15 Copynumber: 2.8 Consensus size: 13
1697931 ATTAACCTAG
1697941 TAATTAAATAAAA
1 TAATTAAATAAAA
1697954 TAAACTTAAATAAAA
1 T-AA-TTAAATAAAA
1697969 TAATTAAATAA
1 TAATTAAATAA
1697980 GTACGTGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATTAAATAAAA
Found at i:1702382 original size:13 final size:13
Alignment explanation
Indices: 1702364--1702390 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1702354 CAATTTTTTG
1702364 TGTATCGATACAT
1 TGTATCGATACAT
1702377 TGTATCGATACAT
1 TGTATCGATACAT
1702390 T
1 T
1702391 CTTGCTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1702405 original size:32 final size:33
Alignment explanation
Indices: 1702344--1702407 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
1702334 TACAAGCCAA
*
1702344 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTTCTTGTGTATCGATACAT
1702377 TGTATCGATAC-A-TTCTTGCTGTATCGATACA
1 TGTATCGATACAATTTCTTG-TGTATCGATACA
1702408 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 5 0.17
32 13 0.45
33 11 0.38
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATTTCTTGTGTATCGATACAT
Found at i:1702474 original size:20 final size:20
Alignment explanation
Indices: 1702449--1702521 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1702439 CAACTTTTTT
1702449 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1702469 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1702490 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1702510 ATGTATCGATAC
1 ATGTATCGATAC
1702522 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1702487 original size:41 final size:41
Alignment explanation
Indices: 1702428--1702521 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
1702418 CTGCCAAGAA
*
1702428 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
1702469 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
1702510 ATGTATCGATAC
1 ATGTATCGATAC
1702522 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:1702503 original size:21 final size:21
Alignment explanation
Indices: 1702428--1702503 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
1702418 CTGCCAAGAA
* *
1702428 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1702449 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1702469 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1702490 ATGTATCGATACAT
1 ATGTATCGATACAT
1702504 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1704982 original size:13 final size:13
Alignment explanation
Indices: 1704964--1705001 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1704954 ATAATCACCC
1704964 TGTATCGATACAG
1 TGTATCGATACAG
*
1704977 TGTATCGATACAT
1 TGTATCGATACAG
1704990 TGTATCGATACA
1 TGTATCGATACA
1705002 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1705015 original size:20 final size:20
Alignment explanation
Indices: 1704990--1705066 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
1704980 ATCGATACAT
1704990 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
* *
1705010 TGTATCGATACATAGAATTTCCAGA
1 TGTATCGATACAAAGAA-----AAA
* *
1705035 TGTATCGATACACAGAAACA
1 TGTATCGATACAAAGAAAAA
1705055 TGTATCGATACA
1 TGTATCGATACA
1705067 TTTTGGACAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
20 30 0.62
25 18 0.38
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:1707095 original size:15 final size:15
Alignment explanation
Indices: 1707075--1707105 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1707065 ATTTCGTTTG
*
1707075 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1707090 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1707105 G
1 G
1707106 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1711185 original size:13 final size:13
Alignment explanation
Indices: 1711167--1711193 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1711157 CAATTTTTTG
1711167 TGTATCGATACAT
1 TGTATCGATACAT
1711180 TGTATCGATACAT
1 TGTATCGATACAT
1711193 T
1 T
1711194 CTTGCTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1711208 original size:32 final size:33
Alignment explanation
Indices: 1711147--1711210 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
1711137 TACAAGCCAA
*
1711147 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTTCTTGTGTATCGATACAT
1711180 TGTATCGATAC-A-TTCTTGCTGTATCGATACA
1 TGTATCGATACAATTTCTTG-TGTATCGATACA
1711211 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 5 0.17
32 13 0.45
33 11 0.38
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATTTCTTGTGTATCGATACAT
Found at i:1711277 original size:20 final size:20
Alignment explanation
Indices: 1711252--1711324 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1711242 CAACTTTTTT
1711252 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1711272 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1711293 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1711313 ATGTATCGATAC
1 ATGTATCGATAC
1711325 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1711290 original size:41 final size:41
Alignment explanation
Indices: 1711231--1711324 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
1711221 CTGCCAAGAA
*
1711231 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
1711272 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
1711313 ATGTATCGATAC
1 ATGTATCGATAC
1711325 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:1711306 original size:21 final size:21
Alignment explanation
Indices: 1711231--1711306 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
1711221 CTGCCAAGAA
* *
1711231 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1711252 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1711272 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1711293 ATGTATCGATACAT
1 ATGTATCGATACAT
1711307 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1713244 original size:29 final size:28
Alignment explanation
Indices: 1713210--1713354 Score: 69
Period size: 29 Copynumber: 5.0 Consensus size: 28
1713200 GATCTAAAGA
1713210 TTTTTATGTAATTTTATGTATGTTGGGG
1 TTTTTATGTAATTTTATGTATGTTGGGG
* * * * * *
1713238 TTATTTAGGTTATTTTCCATG-ATCTAGAGA
1 TT-TTTATGTAATTTT--ATGTATGTTGGGG
* * * *
1713268 CTTTTATGCAAATTTATGTATTTTGGGG
1 TTTTTATGTAATTTTATGTATGTTGGGG
* * *
1713296 TTATTTAGGTAATTTTCCATG-ATGTAGGGA
1 TT-TTTATGTAATTTT--ATGTATGTTGGGG
* * * *
1713326 TTTTTGTGTAACTTTCTGTATGTTTGGG
1 TTTTTATGTAATTTTATGTATGTTGGGG
1713354 T
1 T
1713355 CATGTAGGTC
Statistics
Matches: 80, Mismatches: 29, Indels: 16
0.64 0.23 0.13
Matches are distributed among these distances:
27 5 0.06
28 15 0.19
29 40 0.50
30 14 0.17
31 6 0.08
ACGTcount: A:0.21, C:0.06, G:0.22, T:0.51
Consensus pattern (28 bp):
TTTTTATGTAATTTTATGTATGTTGGGG
Found at i:1713259 original size:58 final size:57
Alignment explanation
Indices: 1713123--1713531 Score: 333
Period size: 58 Copynumber: 7.1 Consensus size: 57
1713113 GCATTTTTAT
* * * * * *
1713123 GTCATTTAGATCATTTTTCATGATTTAG-GAACTTTTATATAATTTTATGT-TATTGAT
1 GTCATTTAGGTCATTTTCCATGATCTAGAG-ACTTTTATGTAATTTTATGTATGTTG-G
* * *
1713180 GCCA-TTAGGTCATTTTCCATGATCTAAAGATTTTTATGTAATTTTATGTATGTTGGG
1 GTCATTTAGGTCATTTTCCATGATCTAGAGACTTTTATGTAATTTTATGTATGTT-GG
* * * * *
1713237 GTTATTTAGGTTATTTTCCATGATCTAGAGACTTTTATGCAAATTTATGTATTTTGGG
1 GTCATTTAGGTCATTTTCCATGATCTAGAGACTTTTATGTAATTTTATGTATGTT-GG
* * * * * * * *
1713295 GTTATTTAGGTAATTTTCCATGATGTAGGGATTTTTGTGTAACTTTCTGTATGTTTGG
1 GTCATTTAGGTCATTTTCCATGATCTAGAGACTTTTATGTAATTTTATGTATG-TTGG
* ** * * * * *
1713353 GTCATGTAGGTCATTTTTTAAGATCTAGA-ACTTTTATGCAATTTTATTTATGATAG
1 GTCATTTAGGTCATTTTCCATGATCTAGAGACTTTTATGTAATTTTATGTATGTTGG
* * * ** * *
1713409 GTTATTTATGTCATTTTCAAAAATCTAGAGACTTTTAT-TCAATTTCATGTATAATTGG
1 GTCATTTAGGTCATTTTCCATGATCTAGAGACTTTTATGT-AATTTTATGTAT-GTTGG
* ** * *
1713467 GTCATTTAGGTTATTTTTTATTATCGAGAGACTTTTATGTAATTTTATGTATGTTTGG
1 GTCATTTAGGTCATTTTCCATGATCTAGAGACTTTTATGTAATTTTATGTATG-TTGG
1713525 GTCATTT
1 GTCATTT
1713532 TTTATAATCT
Statistics
Matches: 278, Mismatches: 64, Indels: 19
0.77 0.18 0.05
Matches are distributed among these distances:
56 62 0.22
57 44 0.16
58 169 0.61
59 3 0.01
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.49
Consensus pattern (57 bp):
GTCATTTAGGTCATTTTCCATGATCTAGAGACTTTTATGTAATTTTATGTATGTTGG
Found at i:1713476 original size:172 final size:173
Alignment explanation
Indices: 1713211--1713529 Score: 394
Period size: 172 Copynumber: 1.8 Consensus size: 173
1713201 ATCTAAAGAT
* * * * * **
1713211 TTTTATGTAATTTTATGTATGTTGGGGTTATTTAGGTTATTTTCCATGATCTAGAGACTTTTATG
1 TTTTATGCAATTTTATGTATGATGAGGTTATTTAGGTCATTTTCAAAAATCTAGAGACTTTTATG
* * * * *
1713276 CAAATTTATGTATTTTGGGGTTATTTAGGTAATTTTCCATGAT-GTAGGGATTTTTGTGTAACTT
66 CAAATTTATGTATATTGGGGTCATTTAGGTAATTTTCCATGATCG-AGAGACTTTTATGTAACTT
*
1713340 TCTGTATGTTTGGGTCATGTAGGTCATTTTTTAAGATCTAGAAC
130 TATGTATGTTTGGGTCATGTAGGTCATTTTTTAAGATCTAGAAC
* * *
1713384 TTTTATGCAATTTTATTTATGAT-AGGTTATTTATGTCATTTTCAAAAATCTAGAGACTTTTATT
1 TTTTATGCAATTTTATGTATGATGAGGTTATTTAGGTCATTTTCAAAAATCTAGAGACTTTTATG
* ** * *
1713448 C-AATTTCATGTATAATT-GGGTCATTTAGGTTATTTTTTATTATCGAGAGACTTTTATGTAATT
66 CAAATTT-ATGTAT-ATTGGGGTCATTTAGGTAATTTTCCATGATCGAGAGACTTTTATGTAACT
1713511 TTATGTATGTTTGGGTCAT
129 TTATGTATGTTTGGGTCAT
1713530 TTTTTATAAT
Statistics
Matches: 122, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
171 5 0.04
172 94 0.77
173 23 0.19
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.50
Consensus pattern (173 bp):
TTTTATGCAATTTTATGTATGATGAGGTTATTTAGGTCATTTTCAAAAATCTAGAGACTTTTATG
CAAATTTATGTATATTGGGGTCATTTAGGTAATTTTCCATGATCGAGAGACTTTTATGTAACTTT
ATGTATGTTTGGGTCATGTAGGTCATTTTTTAAGATCTAGAAC
Found at i:1715459 original size:114 final size:116
Alignment explanation
Indices: 1715257--1715482 Score: 350
Period size: 115 Copynumber: 2.0 Consensus size: 116
1715247 TCCCAAAATT
*
1715257 GAAAATTTTAACATTTTAAAAGACAAAGTTCTTTTTTTAAAAAAAGGATTTTTAAAAATGAAAAT
1 GAAAATTTTAACATTTTAAAAGAAAAAGTTCTTTTTTT-AAAAAAGGATTTTTAAAAATGAAAAT
* *
1715322 AAAAGAATTGTATGACAAATATAT-TTTTT-TCTTAAGCCTTGATTTGAATC
65 AAAAGAATTGTACGACAAATATATATTTTTATCTTAAACCTTGATTTGAATC
* * *
1715372 GAAATTTTTAACATTTTAAAAGAAAAAGTTCTTTTTTT-TAAAAGGATTTTTAAAATATGCAAAT
1 GAAAATTTTAACATTTTAAAAGAAAAAGTTCTTTTTTTAAAAAAGGATTTTTAAAA-ATGAAAAT
*
1715436 AAAGGAATTGTACGACAAATATATATTTTTATCTTAAACCTTGATTT
65 AAAAGAATTGTACGACAAATATATATTTTTATCTTAAACCTTGATTT
1715483 AAGTCTAAGG
Statistics
Matches: 101, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
113 16 0.16
114 29 0.29
115 41 0.41
116 15 0.15
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (116 bp):
GAAAATTTTAACATTTTAAAAGAAAAAGTTCTTTTTTTAAAAAAGGATTTTTAAAAATGAAAATA
AAAGAATTGTACGACAAATATATATTTTTATCTTAAACCTTGATTTGAATC
Found at i:1718794 original size:73 final size:72
Alignment explanation
Indices: 1718674--1719280 Score: 334
Period size: 73 Copynumber: 8.7 Consensus size: 72
1718664 AAGCGCCCTA
* * * *
1718674 CTCTTTGATGACTAAAAGTA-AGTAGGTGCCACTAGCTTGTGTGGGCTTTAAAGTAAGTAAGAAA
1 CTCTTTGAGGACTAAAGGTAGA-TAGGTGCCACTAGCTTGTGTAGGCTTTAAGGTAAGTAAG-AA
*
1718738 AATATCTTG
64 AACATCTTG
* *
1718747 CTCTTTGAGGACTAAAGGTAGATAGCTGCCACTAGCTTGTGTAGGCTTTAAGGTAGGTAAG----
1 CTCTTTGAGGACTAAAGGTAGATAGGTGCCACTAGCTTGTGTAGGCTTTAAGGTAAGTAAGAAAA
**
1718808 CGCCTTG
66 CATCTTG
* * * *
1718815 CTCTTTGAAGACTAAGGGTAGGTAGGTGCCACTAGCTTGTGTAGGCTTTGAGGTAAGTAAGAAAA
1 CTCTTTGAGGACTAAAGGTAGATAGGTGCCACTAGCTTGTGTAGGCTTTAAGGTAAGTAAGAAAA
* *
1718880 GCATCCTA
66 -CATCTTG
* * * * * * *
1718888 CTCTCTAAGGACTGAAGGTAGATAGGTGCCACCAGCTTGTGTAGGGTTTAAGGT-AG---GTACA
1 CTCTTTGAGGACTAAAGGTAGATAGGTGCCACTAGCTTGTGTAGGCTTTAAGGTAAGTAAGAAAA
1718949 CATCTTG
66 CATCTTG
* * * * * * * * * * * * *
1718956 TTATTTGAAGATTGAGGGTAAACAAGTGCCACCAACTTATGT-GAGCTTTGAGGTAAGTAAGAAA
1 CTCTTTGAGGACTAAAGGTAGATAGGTGCCACTAGCTTGTGTAG-GCTTTAAGGTAAGTAAGAAA
*
1719020 ATCATTTTG
65 A-CATCTTG
* * * * * * *
1719029 CTCTTTGAGGACTGAAGGTAGATAGATGCCA-TCAACTTATGTGGGCTTTAAAGTACGTAAG---
1 CTCTTTGAGGACTAAAGGTAGATAGGTGCCACT-AGCTTGTGTAGGCTTTAAGGTAAGTAAGAAA
1719090 -CATCTTG
65 ACATCTTG
* ** * * * * * *
1719097 CTCTATGAGGA-TTGAGGTAGGTAGGTGCCACCAACTTGTAT-GGCTTT---G-AAGTAGGTAAA
1 CTCTTTGAGGACTAAAGGTAGATAGGTGCCACTAGCTTGTGTAGGCTTTAAGGTAAGTAAGAAAA
** *
1719156 TGTCCTG
66 CATCTTG
* * * * * *
1719163 CTCTTTGAGGACTAAA-GTAGGTAAGTGCTACCAACTTGTGTAGGCTTT---G-AAGTAGGTAAA
1 CTCTTTGAGGACTAAAGGTAGATAGGTGCCACTAGCTTGTGTAGGCTTTAAGGTAAGTAAG-AAA
*
1719223 A-GTCTTG
65 ACATCTTG
* * * * * * *
1719230 CTTTTTGAGGACT-GAGATAGGTAGGTGCTACTAGCTTGTGTCGACTTTAAG
1 CTCTTTGAGGACTAAAGGTAGATAGGTGCCACTAGCTTGTGTAGGCTTTAAG
1719281 ATGGGCAAAT
Statistics
Matches: 416, Mismatches: 92, Indels: 55
0.74 0.16 0.10
Matches are distributed among these distances:
62 5 0.01
63 1 0.00
66 43 0.10
67 82 0.20
68 121 0.29
69 5 0.01
72 5 0.01
73 152 0.37
74 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (72 bp):
CTCTTTGAGGACTAAAGGTAGATAGGTGCCACTAGCTTGTGTAGGCTTTAAGGTAAGTAAGAAAA
CATCTTG
Found at i:1718840 original size:141 final size:139
Alignment explanation
Indices: 1718695--1719396 Score: 525
Period size: 141 Copynumber: 5.1 Consensus size: 139
1718685 CTAAAAGTAA
* *
1718695 GTAGGTGCCACTAGCTTGTGTGGGCTTTAAAGTAAGTAAGAAAAATATCTTGCTCTTTGAGGACT
1 GTAGGTGCCACTAGCTTGTGTGGGCTTTAAGGTAAGTAAGAAAAATATCCTGCTCTTTGAGGACT
* * *
1718760 AAAGGTAGATAGCTGCCACTAGCTTGTGTAGGCTTTAAGGTAGGTAAGCGCCTTGCTCTTTGAAG
66 AAAGGTAGATAG-TGCCACCAACTTGTGTAGGCTTTAAGGTAGGTAAGCGTCTTGCTCTTTGAAG
*
1718825 ACTAAGGGTAG
130 ACTGA-GGTAG
* * ** * * *
1718836 GTAGGTGCCACTAGCTTGTGTAGGCTTTGAGGTAAGTAAGAAAAGCATCCTACTCTCTAAGGACT
1 GTAGGTGCCACTAGCTTGTGTGGGCTTTAAGGTAAGTAAGAAAAATATCCTGCTCTTTGAGGACT
* * * * * *
1718901 GAAGGTAGATAGGTGCCACCAGCTTGTGTAGGGTTTAAGGTAGGTACA-CATCTTGTTATTTGAA
66 AAAGGTAGATA-GTGCCACCAACTTGTGTAGGCTTTAAGGTAGGTA-AGCGTCTTGCTCTTTGAA
* *
1718965 GATTGAGGGTAA
129 GACTGA-GGTAG
** * * * * * * **
1718977 ACAAGTGCCACCAACTTATGTGAGCTTTGAGGTAAGTAAG-AAAATCATTTTGCTCTTTGAGGAC
1 GTAGGTGCCACTAGCTTGTGTGGGCTTTAAGGTAAGTAAGAAAAAT-ATCCTGCTCTTTGAGGAC
* * * * * * * * *
1719041 TGAAGGTAGATAGATGCCATCAACTTATGTGGGCTTTAAAGTACGTAAGCATCTTGCTCTATGAG
65 TAAAGGTAGATAG-TGCCACCAACTTGTGTAGGCTTTAAGGTAGGTAAGCGTCTTGCTCTTTGAA
*
1719106 GATTGAGGTAG
129 GACTGAGGTAG
* * * ** *
1719117 GTAGGTGCCACCAACTTGTAT-GGCTTT---G-AAGT-AGGTAAATGTCCTGCTCTTTGAGGACT
1 GTAGGTGCCACTAGCTTGTGTGGGCTTTAAGGTAAGTAAGAAAAATATCCTGCTCTTTGAGGACT
* * ** * *
1719176 AAA-GTAGGTAAGTGCTACCAACTTGTGTAGGCTTTGAA-GTAGGTAAAAGTCTTGCTTTTTGAG
66 AAAGGTAGAT-AGTGCCACCAACTTGTGTAGGCTTT-AAGGTAGGTAAGCGTCTTGCTCTTTGAA
*
1719239 GACTGAGATAG
129 GACTGAGGTAG
* * * * ** * *
1719250 GTAGGTGCTACTAGCTTGTGTCGACTTTAA-G--A-T-GGGCAAATGTCCTGCTCTTTGAGGATT
1 GTAGGTGCCACTAGCTTGTGTGGGCTTTAAGGTAAGTAAGAAAAATATCCTGCTCTTTGAGGACT
* * * * * * * * * **
1719310 GAAGGTAGGTAATTGCCACCAAGTTATGTAGGCTTTGAGATGGGTAAGTGTCTTGCTCTTTGGGG
66 AAAGGTAGAT-AGTGCCACCAACTTGTGTAGGCTTTAAGGTAGGTAAGCGTCTTGCTCTTTGAAG
*
1719375 ACTGAAGGTAC
130 ACTG-AGGTAG
*
1719386 CTAGGTGCCAC
1 GTAGGTGCCAC
1719397 CAACTTGTAT
Statistics
Matches: 453, Mismatches: 94, Indels: 33
0.78 0.16 0.06
Matches are distributed among these distances:
133 69 0.15
134 57 0.13
135 61 0.13
136 15 0.03
139 5 0.01
140 25 0.06
141 219 0.48
142 2 0.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (139 bp):
GTAGGTGCCACTAGCTTGTGTGGGCTTTAAGGTAAGTAAGAAAAATATCCTGCTCTTTGAGGACT
AAAGGTAGATAGTGCCACCAACTTGTGTAGGCTTTAAGGTAGGTAAGCGTCTTGCTCTTTGAAGA
CTGAGGTAG
Found at i:1719229 original size:133 final size:135
Alignment explanation
Indices: 1719027--1719548 Score: 425
Period size: 135 Copynumber: 3.9 Consensus size: 135
1719017 AAAATCATTT
* * * * * *
1719027 TGCTCTTTGAGGACTGAAGGTAGAT-AGATGCCATCAACTTATGTGGGCTTTAAAGTACGTAAGC
1 TGCTCTTTGAGGACTGAAGGTAGGTAAG-TGCCACCAACTTATGTAGGCTTTGAAGTAGGTAA-A
* * *
1719091 A-TCTTGCTCTATGAGGATTGAGGTAGGTAGGTGCCACCAACTTGTAT-GGCTTTGAAG-TAGGT
64 AGTCTTGCTCTTTGAGGACTGAGGTAGGTAGGTGCCACCAACTTGTATAGGCTTT-AAGATAGGC
1719153 AAATGTCC
128 AAATGTCC
* * *
1719161 TGCTCTTTGAGGACT-AAAGTAGGTAAGTGCTACCAACTTGTGTAGGCTTTGAAGTAGGTAAAAG
1 TGCTCTTTGAGGACTGAAGGTAGGTAAGTGCCACCAACTTATGTAGGCTTTGAAGTAGGTAAAAG
* * * * * * * * *
1719225 TCTTGCTTTTTGAGGACTGAGATAGGTAGGTGCTACTAGCTTGTGTCGACTTTAAGATGGGCAAA
66 TCTTGCTCTTTGAGGACTGAGGTAGGTAGGTGCCACCAACTTGTATAGGCTTTAAGATAGGCAAA
1719290 TGTCC
131 TGTCC
* * * * **
1719295 TGCTCTTTGAGGATTGAAGGTAGGTAATTGCCACCAAGTTATGTAGGCTTTG-AGATGGGTAAGT
1 TGCTCTTTGAGGACTGAAGGTAGGTAAGTGCCACCAACTTATGTAGGCTTTGAAG-TAGGTAAAA
* ** * *
1719359 GTCTTGCTCTTTGGGGACTGAAGGTACCTAGGTGCCACCAACTTGTATAGGCTTTTAGAT-GAGT
65 GTCTTGCTCTTTGAGGACTG-AGGTAGGTAGGTGCCACCAACTTGTATAGGCTTTAAGATAG-GC
*** *
1719423 AAGCATCT
128 AAATGTCC
* * * * * * * * * *
1719431 TACTCTTTAAAGACTGAA-GTAGGCATGTGCCACCAACTTGTTTAGGCTTCG-AGATGGGTAAGT
1 TGCTCTTTGAGGACTGAAGGTAGGTAAGTGCCACCAACTTATGTAGGCTTTGAAG-TAGGTAA-A
* * * * ** *
1719494 A-TCCTACTCTTTGAGAACTAAGGTAGGTAAATGCCACCAGCTTGTATAGGCTTTA
64 AGTCTTGCTCTTTGAGGACTGAGGTAGGTAGGTGCCACCAACTTGTATAGGCTTTA
1719549 TGGTAGGTAA
Statistics
Matches: 309, Mismatches: 70, Indels: 18
0.78 0.18 0.05
Matches are distributed among these distances:
132 1 0.00
133 76 0.25
134 78 0.25
135 106 0.34
136 48 0.16
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (135 bp):
TGCTCTTTGAGGACTGAAGGTAGGTAAGTGCCACCAACTTATGTAGGCTTTGAAGTAGGTAAAAG
TCTTGCTCTTTGAGGACTGAGGTAGGTAGGTGCCACCAACTTGTATAGGCTTTAAGATAGGCAAA
TGTCC
Found at i:1719258 original size:67 final size:68
Alignment explanation
Indices: 1718674--1719565 Score: 457
Period size: 68 Copynumber: 13.0 Consensus size: 68
1718664 AAGCGCCCTA
* * * * * * * **
1718674 CTCTTTGATGACTAAAAGTAAGTAGGTGCCACTAGCTTGTGTGGGCTTTAAAGTAAGTAAGAAAA
1 CTCTTTGAGGACTGAAGGTAGGTAGGTGCCACCAACTTGTGTAGGCTTT---G-AAGT-AGGTAA
*
1718739 ATATCTTG
61 ATGTCTTG
* * * * * ** *
1718747 CTCTTTGAGGACTAAAGGTAGATAGCTGCCACTAGCTTGTGTAGGCTTT-AAGGTAGGTAAGCGC
1 CTCTTTGAGGACTGAAGGTAGGTAGGTGCCACCAACTTGTGTAGGCTTTGAA-GTAGGTAAATGT
1718811 CTTG
65 CTTG
* * * * *
1718815 CTCTTTGAAGACT-AAGGGTAGGTAGGTGCCACTAGCTTGTGTAGGCTTTGAGGTAAGTAAGAAA
1 CTCTTTGAGGACTGAA-GGTAGGTAGGTGCCACCAACTTGTGTAGGCTTTGAAGTAGGT---AAA
* * *
1718879 AGCATCCTA
62 TG--TCTTG
* * * * * * **
1718888 CTCTCTAAGGACTGAAGGTAGATAGGTGCCACCAGCTTGTGTAGGGTTT-AAGGTAGGTACACAT
1 CTCTTTGAGGACTGAAGGTAGGTAGGTGCCACCAACTTGTGTAGGCTTTGAA-GTAGGTAAATGT
1718952 CTTG
65 CTTG
* * * * * *** * * * *
1718956 TTATTTGAAGATTGAGGGTAAACAAGTGCCACCAACTTATGT-GAGCTTTGAGGTAAGTAAGAAA
1 CTCTTTGAGGACTGAAGGTAGGTAGGTGCCACCAACTTGTGTAG-GCTTT---G-AAGTAGGTAA
* *
1719020 ATCATTTTG
61 AT-GTCTTG
* * * * * * * ***
1719029 CTCTTTGAGGACTGAAGGTAGATAGATGCCATCAACTTATGTGGGCTTTAAAGTACGTAAGCATC
1 CTCTTTGAGGACTGAAGGTAGGTAGGTGCCACCAACTTGTGTAGGCTTTGAAGTAGGTAAATGTC
1719094 TTG
66 TTG
* * *
1719097 CTCTATGAGGATTG-AGGTAGGTAGGTGCCACCAACTTGTAT-GGCTTTGAAGTAGGTAAATGTC
1 CTCTTTGAGGACTGAAGGTAGGTAGGTGCCACCAACTTGTGTAGGCTTTGAAGTAGGTAAATGTC
*
1719160 CTG
66 TTG
* * * *
1719163 CTCTTTGAGGACT-AAAGTAGGTAAGTGCTACCAACTTGTGTAGGCTTTGAAGTAGGTAAAAGTC
1 CTCTTTGAGGACTGAAGGTAGGTAGGTGCCACCAACTTGTGTAGGCTTTGAAGTAGGTAAATGTC
1719227 TTG
66 TTG
* * * * * * * * *
1719230 CTTTTTGAGGACTG-AGATAGGTAGGTGCTACTAGCTTGTGTCGACTTT-AAGATGGGCAAATGT
1 CTCTTTGAGGACTGAAGGTAGGTAGGTGCCACCAACTTGTGTAGGCTTTGAAG-TAGGTAAATGT
*
1719293 CCTG
65 CTTG
* ** * * * *
1719297 CTCTTTGAGGATTGAAGGTAGGTAATTGCCACCAAGTTATGTAGGCTTTG-AGATGGGTAAGTGT
1 CTCTTTGAGGACTGAAGGTAGGTAGGTGCCACCAACTTGTGTAGGCTTTGAAG-TAGGTAAATGT
1719361 CTTG
65 CTTG
* ** * * ***
1719365 CTCTTTGGGGACTGAAGGTACCTAGGTGCCACCAACTTGTATAGGCTTT-TAG-ATGAGTAAGCA
1 CTCTTTGAGGACTGAAGGTAGGTAGGTGCCACCAACTTGTGTAGGCTTTGAAGTA-G-GTAAATG
*
1719428 TCTTA
64 TCTTG
* * * * * * * * *
1719433 CTCTTTAAAGACTGAA-GTAGGCATGTGCCACCAACTTGTTTAGGCTTCG-AGATGGGTAAGTAT
1 CTCTTTGAGGACTGAAGGTAGGTAGGTGCCACCAACTTGTGTAGGCTTTGAAG-TAGGTAAATGT
* *
1719496 CCTA
65 CTTG
* ** * * * *
1719500 CTCTTTGAGAACT-AAGGTAGGTAAATGCCACCAGCTTGTATAGGCTTT-ATGGTAGGTAAGTGT
1 CTCTTTGAGGACTGAAGGTAGGTAGGTGCCACCAACTTGTGTAGGCTTTGA-AGTAGGTAAATGT
1719563 CTT
65 CTT
1719566 ATTCTTCACA
Statistics
Matches: 631, Mismatches: 155, Indels: 72
0.74 0.18 0.08
Matches are distributed among these distances:
66 58 0.09
67 196 0.31
68 217 0.34
69 11 0.02
70 2 0.00
71 3 0.00
72 7 0.01
73 134 0.21
74 3 0.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (68 bp):
CTCTTTGAGGACTGAAGGTAGGTAGGTGCCACCAACTTGTGTAGGCTTTGAAGTAGGTAAATGTC
TTG
Found at i:1725939 original size:13 final size:13
Alignment explanation
Indices: 1725921--1725946 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1725911 ATATTTTTTA
1725921 TGTATCGATACAT
1 TGTATCGATACAT
1725934 TGTATCGATACAT
1 TGTATCGATACAT
1725947 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1725962 original size:32 final size:33
Alignment explanation
Indices: 1725900--1725964 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
1725890 TACAAGCCAA
1725900 TGTATCGATACATATTTTTTATGTATCGATACAT
1 TGTATCGATACATA-TTTTTATGTATCGATACAT
*
1725934 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTATGTATCGATACA
1725965 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 16 0.53
34 14 0.47
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTATGTATCGATACAT
Done.