Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold118
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: 1286304
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 7 of 8
Found at i:1012124 original size:94 final size:95
Alignment explanation
Indices: 1011878--1012354 Score: 260
Period size: 94 Copynumber: 5.1 Consensus size: 95
1011868 TTAAGGGGGG
* * * * * *
1011878 AAGAGTTTGACCAAGTCCTAACGCCAATAAAGTTAGACAAAGGTG-AAAAGAGTTTGGCCAGGTC
1 AAGAGTTTGACCAAGTTCTAATGCCAATATAGTTAAAC-AAGGTGAAAAAAAGTTTGACCAGGTC
* *
1011942 CTAAAGCCAATACAATCAAATGAGGGTGAGG
65 CTAAAGCCAATACAATCAAACGAGGGTGAGA
* * * * * * *
1011973 AA-AGTTTGACC-AGTTCTTAATACCAAAATAGTCAAACGA-TTGAGAGAAAAGTATGACCAGGT
1 AAGAGTTTGACCAAGTTC-TAATGCCAATATAGTTAAACAAGGTGA-AAAAAAGTTTGACCAGGT
*
1012035 CCTAATGCCAATACAATCAAACGA-GGTGA-A
64 CCTAAAGCCAATACAATCAAACGAGGGTGAGA
* * ** *
1012065 AAGAGCTTGGCCAAGTTCTAATGCCAATATAGTTAAACAAGGTGAAAAAAATGTTTGACCATTTT
1 AAGAGTTTGACCAAGTTCTAATGCCAATATAGTTAAACAAGGTGAAAAAAA-GTTTGACCAGGTC
* * * * * * *
1012130 TTAATGTCAATATAGTCAAA-GAATGGTAAGA
65 CTAAAGCCAATACAATCAAACG-AGGGTGAGA
* *** * * * * * * * * * * **
1012161 AA-AGTTTAACTGGGTCCAAACGCTAATACAATCAAATAATAGTG-AAGAAAGTTTGACCAAATC
1 AAGAGTTTGACCAAGTTCTAATGCCAATATAGTTAAACAA-GGTGAAAAAAAGTTTGACCAGGTC
* * * *
1012224 CTAACTGCCAATATAGTCAAAC-AAGGTGA-A
65 CTAA-AGCCAATACAATCAAACGAGGGTGAGA
* * * ** * *
1012254 AAGAGTTTAACCAGGTCCTAACACCAATATAGTCAAGCAAGGTG-AAAAAAGTTTGACCAGGTCC
1 AAGAGTTTGACCAAGTTCTAATGCCAATATAGTTAAACAAGGTGAAAAAAAGTTTGACCAGGTCC
* * * *
1012318 TAATGCTAATACAATCAAACAATGGTGA-A
66 TAAAGCCAATACAATCAAACGAGGGTGAGA
*
1012347 AAAAGTTT
1 AAGAGTTT
1012355 AACTAGATGC
Statistics
Matches: 293, Mismatches: 74, Indels: 32
0.73 0.19 0.08
Matches are distributed among these distances:
92 18 0.06
93 81 0.28
94 139 0.47
95 49 0.17
96 6 0.02
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (95 bp):
AAGAGTTTGACCAAGTTCTAATGCCAATATAGTTAAACAAGGTGAAAAAAAGTTTGACCAGGTCC
TAAAGCCAATACAATCAAACGAGGGTGAGA
Found at i:1014709 original size:13 final size:13
Alignment explanation
Indices: 1014691--1014716 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1014681 CAATTTTTTG
1014691 TGTATCGATACAT
1 TGTATCGATACAT
1014704 TGTATCGATACAT
1 TGTATCGATACAT
1014717 ACTTGCTGTA
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:1014781 original size:21 final size:21
Alignment explanation
Indices: 1014755--1014830 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1014745 CTGCCAAGAA
*
1014755 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1014776 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1014796 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1014817 ATGTATCGATACAT
1 ATGTATCGATACAT
1014831 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1014801 original size:20 final size:20
Alignment explanation
Indices: 1014776--1014848 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1014766 CATCTTTTTT
1014776 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1014796 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1014817 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1014837 ATGTATCGATAC
1 ATGTATCGATAC
1014849 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:1014812 original size:41 final size:41
Alignment explanation
Indices: 1014755--1014848 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1014745 CTGCCAAGAA
*
1014755 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1014796 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1014837 ATGTATCGATAC
1 ATGTATCGATAC
1014849 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1017281 original size:13 final size:13
Alignment explanation
Indices: 1017263--1017301 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1017253 ATAATCACCC
*
1017263 TGTATCGATACAG
1 TGTATCGATACAA
1017276 TGTATCGATACAA
1 TGTATCGATACAA
1017289 TGTATCGATACAA
1 TGTATCGATACAA
1017302 AGAAAAATGT
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:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1017312 original size:20 final size:20
Alignment explanation
Indices: 1017287--1017325 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1017277 GTATCGATAC
1017287 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1017307 AATGTATCGATACATAGAA
1 AATGTATCGATACAAAGAA
1017326 TTTCCAGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.23
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1019408 original size:15 final size:15
Alignment explanation
Indices: 1019372--1019409 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
1019362 TACATCAATT
* *
1019372 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
1019387 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
1019402 TCATTTTG
1 TCATTTTG
1019410 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:1023441 original size:13 final size:13
Alignment explanation
Indices: 1023423--1023448 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1023413 CAATTTTTTG
1023423 TGTATCGATACAT
1 TGTATCGATACAT
1023436 TGTATCGATACAT
1 TGTATCGATACAT
1023449 ACTTGCTGTA
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:1023513 original size:21 final size:21
Alignment explanation
Indices: 1023487--1023562 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1023477 CTGCCAAGAA
*
1023487 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1023508 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1023528 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1023549 ATGTATCGATACAT
1 ATGTATCGATACAT
1023563 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1023533 original size:20 final size:20
Alignment explanation
Indices: 1023508--1023580 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1023498 CATCTTTTTT
1023508 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1023528 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1023549 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1023569 ATGTATCGATAC
1 ATGTATCGATAC
1023581 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:1023544 original size:41 final size:41
Alignment explanation
Indices: 1023487--1023580 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1023477 CTGCCAAGAA
*
1023487 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1023528 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1023569 ATGTATCGATAC
1 ATGTATCGATAC
1023581 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1024369 original size:16 final size:16
Alignment explanation
Indices: 1024331--1024388 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
1024321 TTATCTCCAC
1024331 TTTTCTTTTTCATTTCAT
1 TTTTC-TTTTC-TTTCAT
1024349 GTTTT-TTCTTCTTTCAT
1 -TTTTCTT-TTCTTTCAT
1024366 TTTTCTTTTCTTTC--
1 TTTTCTTTTCTTTCAT
1024380 TTTTCTTTT
1 TTTTCTTTT
1024389 TTTTAGAGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
14 9 0.24
16 11 0.30
17 10 0.27
18 3 0.08
19 4 0.11
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.76
Consensus pattern (16 bp):
TTTTCTTTTCTTTCAT
Found at i:1024389 original size:20 final size:19
Alignment explanation
Indices: 1024330--1024382 Score: 54
Period size: 22 Copynumber: 2.6 Consensus size: 19
1024320 ATTATCTCCA
1024330 CTTTTCTT-TTTCATTTCATGT
1 CTTTTCTTCTTTCATTT--T-T
*
1024351 TTTTTCTTCTTTCATTTTT
1 CTTTTCTTCTTTCATTTTT
1024370 CTTTTCTTTCTTT
1 CTTTTC-TTCTTT
1024383 TCTTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 6 0.21
20 7 0.25
21 7 0.25
22 8 0.29
ACGTcount: A:0.06, C:0.19, G:0.02, T:0.74
Consensus pattern (19 bp):
CTTTTCTTCTTTCATTTTT
Found at i:1030744 original size:166 final size:166
Alignment explanation
Indices: 1030430--1030753 Score: 417
Period size: 166 Copynumber: 2.0 Consensus size: 166
1030420 TTTTAAAGAA
* ** * *
1030430 AAAATCCAAAACTCATGAAAATGAATGAATTTTTTTAAATTGATTTAATATGAAATAAATAATAA
1 AAAATCCAAAACCCATGAAAATGAATGAATTTTTGAAAACTGATTTAATATAAAATAAATAATAA
* * ** * *
1030495 TATTTGATGGATTTTAAAAATTAGAACCAAGAAAAATCCTCATGAAATAAATTACAGGAGTAGAA
66 TATTTGATGGATTTTAAAAATTAAAACCAAGAAAAATCCACACCAAATAAATTACAGAAGAAGAA
*
1030560 AACTCCTTTTTCGAAAATAGGA-GAATTTCAAGGAG
131 AACTCATTTTTCGAAAATAGGAGGAATTTCAAGGAG
1030595 AAAATCCAAAAACCCATGAAAATGAATGAATTTTTGAAAACTGATTTAATATAAAATAAATAATA
1 AAAATCC-AAAACCCATGAAAATGAATGAATTTTTGAAAACTGATTTAATATAAAATAAATAATA
* **
1030660 ATATTTTATGGATTTTAAAAATTAAAAATTAAGAAAAATCCAC-CCAAA-AAATTTAC-GAAGAA
65 ATATTTGATGGATTTTAAAAATT-AAAACCAAGAAAAATCCACACCAAATAAA-TTACAGAAGAA
1030722 GAAAA-TCATGTGATTT-GAAAATAGGAGGAATT
128 GAAAACTCAT-T--TTTCGAAAATAGGAGGAATT
1030754 CAGAAAGAAA
Statistics
Matches: 137, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
164 3 0.02
165 20 0.15
166 91 0.66
167 23 0.17
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (166 bp):
AAAATCCAAAACCCATGAAAATGAATGAATTTTTGAAAACTGATTTAATATAAAATAAATAATAA
TATTTGATGGATTTTAAAAATTAAAACCAAGAAAAATCCACACCAAATAAATTACAGAAGAAGAA
AACTCATTTTTCGAAAATAGGAGGAATTTCAAGGAG
Found at i:1032751 original size:58 final size:58
Alignment explanation
Indices: 1032606--1032740 Score: 234
Period size: 58 Copynumber: 2.3 Consensus size: 58
1032596 AAAATCAATG
* *
1032606 TAGCTAGCCATGTTGTAAGTCCAGCGAAGTTTGGCCACAGAGAAAGAAAAGCCCAACA
1 TAGCTAGCCATGTTGTAAGTCCAACGAAGTTGGGCCACAGAGAAAGAAAAGCCCAACA
* *
1032664 TAGCTAGCCATGTTGTAAGTCCAACGAAGTTGGGCCATAGAGAAAGAAAAGCCTAACA
1 TAGCTAGCCATGTTGTAAGTCCAACGAAGTTGGGCCACAGAGAAAGAAAAGCCCAACA
1032722 TAGCTAGCCATGTTGTAAG
1 TAGCTAGCCATGTTGTAAG
1032741 CCTAATGAAG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 73 1.00
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (58 bp):
TAGCTAGCCATGTTGTAAGTCCAACGAAGTTGGGCCACAGAGAAAGAAAAGCCCAACA
Found at i:1033214 original size:52 final size:51
Alignment explanation
Indices: 1033117--1033256 Score: 160
Period size: 52 Copynumber: 2.7 Consensus size: 51
1033107 TCTAGAAAGG
* * *
1033117 AAATGTATCGATACATTTTTCATTGTATTGATACAATCTTGGTTTTTGACCC
1 AAATGTATAGATACA-TTTTCATTGTATCGATACATTCTTGGTTTTTGACCC
*
1033169 AAA-GATATTA-ATACATTTTCCATTGTATCGATACATTC-TGAGTTTTTGACCT
1 AAATG-TA-TAGATACATTTT-CATTGTATCGATACATTCTTG-GTTTTTGACCC
*
1033221 AAATGTATAGATACATTCTTCAATGTATCGATACAT
1 AAATGTATAGATACATT-TTCATTGTATCGATACAT
1033257 GTAGGCAATT
Statistics
Matches: 76, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
51 9 0.12
52 63 0.83
53 4 0.05
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.41
Consensus pattern (51 bp):
AAATGTATAGATACATTTTCATTGTATCGATACATTCTTGGTTTTTGACCC
Found at i:1033899 original size:6 final size:6
Alignment explanation
Indices: 1033888--1033914 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1033878 AAAATTAAAT
1033888 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
1033915 AAATAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:1034004 original size:19 final size:18
Alignment explanation
Indices: 1033979--1034075 Score: 97
Period size: 19 Copynumber: 5.8 Consensus size: 18
1033969 ATTTCAGCGA
1033979 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1033997 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1034013 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1034029 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1034045 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1034061 TTTTGTATCGATACA
1 -TTTGTATCGATACA
1034076 ATGTATCGCT
Statistics
Matches: 66, Mismatches: 0, Indels: 25
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
18 1 0.02
19 35 0.53
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1034017 original size:32 final size:32
Alignment explanation
Indices: 1033981--1034083 Score: 197
Period size: 32 Copynumber: 3.2 Consensus size: 32
1033971 TTCAGCGATT
1033981 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1034013 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1034045 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1034077 TGTATCG
1 TGTATCG
1034084 CTAGGAAGCT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1034018 original size:13 final size:13
Alignment explanation
Indices: 1034000--1034056 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1033990 ACATAAGTGT
1034000 TGTATCGATACAA
1 TGTATCGATACAA
1034013 TGTATCGATACATAA
1 TGTATCGATAC--AA
1034028 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1034045 TGTATCGATACA
1 TGTATCGATACA
1034057 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1034151 original size:21 final size:21
Alignment explanation
Indices: 1034107--1034163 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
1034097 GCCAAGGAAA
*
1034107 TGTATCGATACAT-TTTTCTG
1 TGTATCGATACATCTATTCTG
*
1034127 TGTATCGATACATCTATTCTT
1 TGTATCGATACATCTATTCTG
1034148 TGTATCGATACATCTA
1 TGTATCGATACATCTA
1034164 GGAAGTTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 13 0.38
21 21 0.62
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.46
Consensus pattern (21 bp):
TGTATCGATACATCTATTCTG
Found at i:1036626 original size:53 final size:51
Alignment explanation
Indices: 1036493--1036626 Score: 135
Period size: 51 Copynumber: 2.6 Consensus size: 51
1036483 GTTGAGTTTC
* * * * * * *
1036493 CCAATTCTTCGCAATCGGGGATATTCCATCTCTGATTTTATTTTCAAAATA
1 CCAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACA
* * *
1036544 CTAA-TTTTCTATAATCGGGGATACCCCAACTCCGATTTTATTTCCAAAAAACA
1 CCAATTTTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC--AAAACA
*
1036597 CCAATTTTTCACAATCGGGGTTACTCCAAC
1 CCAATTTTTCACAATCGGGGATACTCCAAC
1036627 CCCGTTATTT
Statistics
Matches: 65, Mismatches: 14, Indels: 6
0.76 0.16 0.07
Matches are distributed among these distances:
50 4 0.06
51 31 0.48
53 25 0.38
54 5 0.08
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (51 bp):
CCAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACA
Found at i:1036784 original size:52 final size:53
Alignment explanation
Indices: 1036687--1036862 Score: 171
Period size: 52 Copynumber: 3.4 Consensus size: 53
1036677 GATTTCTCAT
* * * * *
1036687 AATCGGGGATACTCCAACCCCGATTTTA-TTGCTAAAATACTAATTTTTCCAC
1 AATCGAGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCCAC
* * **
1036739 AATCGGGGATACTCCAACCCC-AGTTTTATTTTC-AAAACACCAA-TTTTCCTTT
1 AATCGAGGATACTCCAACCCCGA-TTTTATTTCCAAAAACACCAATTTTTCC-AC
* * * * *
1036791 AATCAAGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCATTTTTTTCAC
1 AATCGAGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCCAC
*
1036844 AATTGAGGATACTCCAACC
1 AATCGAGGATACTCCAACC
1036863 TCGTATTCAT
Statistics
Matches: 100, Mismatches: 18, Indels: 11
0.78 0.14 0.09
Matches are distributed among these distances:
51 7 0.07
52 60 0.60
53 28 0.28
54 5 0.05
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.32
Consensus pattern (53 bp):
AATCGAGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCCAC
Found at i:1038491 original size:20 final size:21
Alignment explanation
Indices: 1038466--1038504 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1038456 TCTTAACAGC
1038466 CCATGTT-CATGCATTTTATG
1 CCATGTTCCATGCATTTTATG
1038486 CCATGTTCCATGCATTTTA
1 CCATGTTCCATGCATTTTA
1038505 ACATATCCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.44
Consensus pattern (21 bp):
CCATGTTCCATGCATTTTATG
Found at i:1042169 original size:19 final size:20
Alignment explanation
Indices: 1042125--1042174 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
1042115 AGACCCAGAT
1042125 GTATCGATACATATTGCTTA
1 GTATCGATACATATTGCTTA
* *
1042145 GTATCGATACATGTT-CTTG
1 GTATCGATACATATTGCTTA
1042164 GTATCGATACA
1 GTATCGATACA
1042175 CAGCGAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (20 bp):
GTATCGATACATATTGCTTA
Found at i:1045091 original size:13 final size:13
Alignment explanation
Indices: 1045073--1045099 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1045063 ACATCATGCT
1045073 TTGTATCGATACA
1 TTGTATCGATACA
1045086 TTGTATCGATACA
1 TTGTATCGATACA
1045099 T
1 T
1045100 GAAACTGGCA
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):
TTGTATCGATACA
Found at i:1047408 original size:186 final size:186
Alignment explanation
Indices: 1047094--1047446 Score: 706
Period size: 186 Copynumber: 1.9 Consensus size: 186
1047084 GAAGAATTAC
1047094 AAGATGCTTTTGAAGCATTAGCATTAGAATTTGAAACCATGAACCTAAGACATAAAAAGAAAATT
1 AAGATGCTTTTGAAGCATTAGCATTAGAATTTGAAACCATGAACCTAAGACATAAAAAGAAAATT
1047159 TTAAAATTAAAGGAAGAAAATAAATCAAAATTTGTTGAGAATGAAATCCTTTAAAAGAAAATTGT
66 TTAAAATTAAAGGAAGAAAATAAATCAAAATTTGTTGAGAATGAAATCCTTTAAAAGAAAATTGT
1047224 CGAACTAGAAAAACAAACTCTCTTTAAACTAAATGATAATGAAATCCTTTAAACTA
131 CGAACTAGAAAAACAAACTCTCTTTAAACTAAATGATAATGAAATCCTTTAAACTA
1047280 AAGATGCTTTTGAAGCATTAGCATTAGAATTTGAAACCATGAACCTAAGACATAAAAAGAAAATT
1 AAGATGCTTTTGAAGCATTAGCATTAGAATTTGAAACCATGAACCTAAGACATAAAAAGAAAATT
1047345 TTAAAATTAAAGGAAGAAAATAAATCAAAATTTGTTGAGAATGAAATCCTTTAAAAGAAAATTGT
66 TTAAAATTAAAGGAAGAAAATAAATCAAAATTTGTTGAGAATGAAATCCTTTAAAAGAAAATTGT
1047410 CGAACTAGAAAAACAAACTCTCTTTAAACTAAATGAT
131 CGAACTAGAAAAACAAACTCTCTTTAAACTAAATGAT
1047447 GAAAATAAAT
Statistics
Matches: 167, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
186 167 1.00
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (186 bp):
AAGATGCTTTTGAAGCATTAGCATTAGAATTTGAAACCATGAACCTAAGACATAAAAAGAAAATT
TTAAAATTAAAGGAAGAAAATAAATCAAAATTTGTTGAGAATGAAATCCTTTAAAAGAAAATTGT
CGAACTAGAAAAACAAACTCTCTTTAAACTAAATGATAATGAAATCCTTTAAACTA
Found at i:1051045 original size:87 final size:87
Alignment explanation
Indices: 1050899--1051073 Score: 323
Period size: 87 Copynumber: 2.0 Consensus size: 87
1050889 ACCAAAAATC
* *
1050899 TGGTACAACACTCTAGGACTAAGTACATTGAAATTAGACATCACTTTATTAGAGAACATGTGCAA
1 TGGTACAACACTCTAAGACTAAGCACATTGAAATTAGACATCACTTTATTAGAGAACATGTGCAA
1050964 AAAAGGGATGTTGTAATAGAAT
66 AAAAGGGATGTTGTAATAGAAT
1050986 TGGTACAACACTCTAAGACTAAGCACATTGAAATTAGACATCACTTTATTAGAGAACATGTGCAA
1 TGGTACAACACTCTAAGACTAAGCACATTGAAATTAGACATCACTTTATTAGAGAACATGTGCAA
*
1051051 AAAGGGGATGTTGTAATAGAAT
66 AAAAGGGATGTTGTAATAGAAT
1051073 T
1 T
1051074 TGTAGATACC
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.27
Consensus pattern (87 bp):
TGGTACAACACTCTAAGACTAAGCACATTGAAATTAGACATCACTTTATTAGAGAACATGTGCAA
AAAAGGGATGTTGTAATAGAAT
Found at i:1054076 original size:24 final size:23
Alignment explanation
Indices: 1054049--1054099 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
1054039 CTATAAATTT
* * *
1054049 GAGACTCCAACAACTAAACATCAA
1 GAGAATCCAACAA-GAAACACCAA
*
1054073 GAGAATCCATCAAGAAACACCAA
1 GAGAATCCAACAAGAAACACCAA
1054096 GAGA
1 GAGA
1054100 TCAAAGCATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.51, C:0.25, G:0.14, T:0.10
Consensus pattern (23 bp):
GAGAATCCAACAAGAAACACCAA
Found at i:1055651 original size:106 final size:106
Alignment explanation
Indices: 1055466--1055672 Score: 306
Period size: 106 Copynumber: 2.0 Consensus size: 106
1055456 CATGTAAGGT
** * *
1055466 GGTTGTTTGGAGGCTAAGGCTACCTGTATTTTGAAAATGCTAACTTGCCCTTTAGTGGGTTATTA
1 GGTTGTTTGGAGGCTAAGGCTACCTACATTCTGAAAATGCTAACTTGCCCTTTAGTAGGTTATTA
* * *
1055531 ATTTTCAAGAAAATGACTTTTGGCTTTTTGAAAATTATGGC
66 ATTCTCAAGAAAATGACTTATGGCCTTTTGAAAATTATGGC
* * * *
1055572 GGTTGTTTGGAGGTTGAGGCTACCTACATTCTGAAAATGCTGACTTGTCCTTTAGTAGGTTATTA
1 GGTTGTTTGGAGGCTAAGGCTACCTACATTCTGAAAATGCTAACTTGCCCTTTAGTAGGTTATTA
*
1055637 ATTCTCAAGAAAATGACTTATGGCCTTTTGCAAATT
66 ATTCTCAAGAAAATGACTTATGGCCTTTTGAAAATT
1055673 TGGTTTTGAA
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
106 89 1.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.39
Consensus pattern (106 bp):
GGTTGTTTGGAGGCTAAGGCTACCTACATTCTGAAAATGCTAACTTGCCCTTTAGTAGGTTATTA
ATTCTCAAGAAAATGACTTATGGCCTTTTGAAAATTATGGC
Found at i:1055903 original size:20 final size:20
Alignment explanation
Indices: 1055878--1055950 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
1055868 AAAACCCAGA
**
1055878 ATGTATCGATACATTTAAGT
1 ATGTATCGATACATTTACCT
* * *
1055898 ATGTATTGATACATTCACTT
1 ATGTATCGATACATTTACCT
*
1055918 GTGTATCGATACA-TTACCT
1 ATGTATCGATACATTTACCT
1055937 ATTGTATCGATACA
1 A-TGTATCGATACA
1055951 AATTGTAAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
19 4 0.09
20 39 0.91
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTACCT
Found at i:1056651 original size:61 final size:61
Alignment explanation
Indices: 1056544--1057315 Score: 570
Period size: 61 Copynumber: 12.3 Consensus size: 61
1056534 AAATACGTCT
* * * *
1056544 TGCTCTTTGAGGACTAAAAAGGAGTGCCACCAACATGTGTGAGCTTTAAAAGGAAAAGGCATCA
1 TGCTCTTTGAGGACT-AAAA-G-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCC
* * *
1056608 TGCTCTTTCAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAGAAGTGTGC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG-GCA---TCC
* * ** * ** * * * * *
1056673 TGCTCTATG-GGCATTAGGAGATGCCATTAGCTTGTGTGAGCTTTATAAAAAAAAAGACATCT
1 TGCTCTTTGAGG-ACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA-AAAGAAAAAGGCATCC
* * * * **
1056735 TGCTCTTTAAGGACTCAAAGGTGCCACCAGCTTGTGTGGGCTTTAAGAGAAAAAGAAAAATGTCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG--GCA--TCC
* * * * ** *
1056800 TACTCTTTAAGGACTAAAAGGCG-CACCAACTTGTGTGGCCTTTAAAAGAAAAAAGAAAGGGTCT
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAAAG---GCATCC
* ** * *
1056864 TGCTCTTTGAAGACTAAAAGGTGCCATTAACTTGTGT-GGCTTTGAAAA-AAAAAGACGTCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGGCATCC
* * * * * * *
1056924 TACTCTTTGAGGACTAAAAGATGCCACTAGCTTGTGTAGGCTTTTAAAG-GAAAGTG--TCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG-GCATCC
* * * * *
1056983 TGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTATGGACTTTAAAAGGAAAATGCATCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCC
* * * * * **
1057044 TGCTTTTTAAGGGCTAGAAATGTGCCACCAAGCTTGTGTGGGCTTTAAAAGAAAAAAAGTGTCC
1 TGCTCTTTGAGGACTA-AAAGGTGCCACCAA-CTTGTGTGGGCTTTAAAAG-AAAAAGGCATCC
* * * * * * * *
1057108 TGCTCTTTGAAGATTAAAAGGTACCACCAACTTGTGT-GGCCTTAAAAAAGAAAAGACGTCT
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA-AAAAGGCATCC
* * *
1057169 TGCTCTTTGAGGACTAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAGCAGCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG----GCATCC
* ** * ** *
1057234 TGCTCTTTGAGGACTAAGACCTGCCACCAACTTATGTTAGCTTTAAAAGGAAAAGGCATCC
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCC
*
1057295 TACTCTTTGAGGACTAAAAGG
1 TGCTCTTTGAGGACTAAAAGG
1057316 ATAAAAGGTT
Statistics
Matches: 556, Mismatches: 122, Indels: 63
0.75 0.16 0.09
Matches are distributed among these distances:
59 44 0.08
60 46 0.08
61 138 0.25
62 66 0.12
63 43 0.08
64 83 0.15
65 125 0.22
66 11 0.02
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.26
Consensus pattern (61 bp):
TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCC
Found at i:1056831 original size:191 final size:184
Alignment explanation
Indices: 1056546--1057036 Score: 490
Period size: 191 Copynumber: 2.6 Consensus size: 184
1056536 ATACGTCTTG
* * * * * * *
1056546 CTCTTTGAGGACTAAAAAGGAGTGCCACCAACATGTGT-GAGCTTTAAAAGGAAAAGGCATCATG
1 CTCTTTAAGGACT-AAAA-GA-TGCCACCAGCTTGTGTAG-GCTTTTAAAGGAAAATG--TCCTA
* * *
1056610 CTCTTTCAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAAAGAGAAGTGTGC-
60 CTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGACTTTAAAAGAAAAAAGA-AAGGGT-CT
* * ** * * * *
1056673 TGCTCTATG-GGCATTAGGAGATGCCATTAGCTTGTGTGAGCTTTATAAAAAAAAAGACATCTTG
123 TGCTCTATGAAG-ACTAAAAGATGCCATTAACTTGTGTG-GCTTT-GAAAAAAAAAGACATCCTA
* * *
1056737 CTCTTTAAGGACTCAAAGGTGCCACCAGCTTGTGTGGGC-TTTAAGAGAAAAAGAAAAATGTCCT
1 CTCTTTAAGGACTAAAAGATGCCACCAGCTTGTGTAGGCTTTTAA-AG-----G-AAAATGTCCT
* *
1056801 ACTCTTTAAGGACTAAAAGGCG-CACCAACTTGTGTGGCCTTTAAAAGAAAAAAGAAAGGGTCTT
59 ACTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGACTTTAAAAGAAAAAAGAAAGGGTCTT
* * *
1056865 GCTCTTTGAAGACTAAAAGGTGCCATTAACTTGTGTGGCTTTGAAAAAAAAAGACGTCCTA
124 GCTCTATGAAGACTAAAAGATGCCATTAACTTGTGTGGCTTTGAAAAAAAAAGACATCCTA
* * * *
1056926 CTCTTTGAGGACTAAAAGATGCCACTAGCTTGTGTAGGCTTTTAAAGGAAAGTGTCCTGCTCTTT
1 CTCTTTAAGGACTAAAAGATGCCACCAGCTTGTGTAGGCTTTTAAAGGAAAATGTCCTACTCTTT
* *
1056991 AAGGACTAAAAGGTGCCACCAACTTGTATGGACTTTAAAAGGAAAA
66 AAGGACTAAAAGGTGCCACCAACTTGTGTGGACTTTAAAAGAAAAA
1057037 TGCATCCTGC
Statistics
Matches: 252, Mismatches: 35, Indels: 33
0.79 0.11 0.10
Matches are distributed among these distances:
183 29 0.12
184 28 0.11
187 4 0.02
188 18 0.07
189 53 0.21
190 14 0.06
191 70 0.28
192 30 0.12
193 1 0.00
194 5 0.02
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (184 bp):
CTCTTTAAGGACTAAAAGATGCCACCAGCTTGTGTAGGCTTTTAAAGGAAAATGTCCTACTCTTT
AAGGACTAAAAGGTGCCACCAACTTGTGTGGACTTTAAAAGAAAAAAGAAAGGGTCTTGCTCTAT
GAAGACTAAAAGATGCCATTAACTTGTGTGGCTTTGAAAAAAAAAGACATCCTA
Found at i:1057115 original size:125 final size:122
Alignment explanation
Indices: 1056701--1057314 Score: 477
Period size: 125 Copynumber: 4.9 Consensus size: 122
1056691 AGATGCCATT
* * ** * * *
1056701 AGCTTGTGTGAGCTTTATAA-AAAAAAAGACATCTTGCTCTTTAAGGACTCAAAGGTGCCACCAG
1 AGCTTGTGTGGGCTTTAAAAGAAAAAAAG-TGTCCTGCTCTTTAAGGACTAAAAGGTGCCACCAA
* *
1056765 CTTGTGTGGGCTTTAAGAGAAAAAGAAAAATG--TCCTACTCTTTAAGGACTAAAAG-GCGCACC
65 CTTGTGTGGACTTT------AAAAGGAAAATGCATCCTACTCTTTAAGGACTAAAAGTGC-CA-C
1056827 A
122 A
* * * *
1056828 A-CTTGTGTGGCCTTTAAAAGAAAAAAGAAAGGGTCTTGCTCTTTGAA-GACTAAAAGGTGCCAT
1 AGCTTGTGTGGGCTTTAAAAG--AAAA-AAAGTGTCCTGCTCTTT-AAGGACTAAAAGGTGCCAC
* * * * *
1056891 TAACTTGTGTGG-CTTTGAAAA--AAAAAGACGTCCTACTCTTTGAGGACTAAAAGATGCCACT
62 CAACTTGTGTGGACTTT-AAAAGGAAAATG-CATCCTACTCTTTAAGGACTAAAAG-TGCCACA
* * *
1056952 AGCTTGTGTAGGCTTTTAAAG---GAAAGTGTCCTGCTCTTTAAGGACTAAAAGGTGCCACCAAC
1 AGCTTGTGTGGGCTTTAAAAGAAAAAAAGTGTCCTGCTCTTTAAGGACTAAAAGGTGCCACCAAC
* * * *
1057014 TTGTATGGACTTTAAAAGGAAAATGCATCCTGCTTTTTAAGGGCTAGAAATGTGCCACCA
66 TTGTGTGGACTTTAAAAGGAAAATGCATCCTACTCTTTAAGGACTA-AAA-GTGCCA-CA
* *
1057074 AGCTTGTGTGGGCTTTAAAAGAAAAAAAGTGTCCTGCTCTTTGAA-GATTAAAAGGTACCACCAA
1 AGCTTGTGTGGGCTTTAAAAGAAAAAAAGTGTCCTGCTCTTT-AAGGACTAAAAGGTGCCACCAA
* * * * * * * *
1057138 CTTGTGTGGCCTTAAAAAAGAAAA-GACGTCTTGCTCTTTGAGGACTAAAAGGTGCCACT
65 CTTGTGTGGACTTTAAAAGGAAAATG-CATCCTACTCTTTAAGGACTAAAA-GTGCCACA
* * * **
1057197 AGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAGCAG-CCTGCTCTTTGAGGACTAAGACCTGCCAC
1 AGCTTGTGTGGGCTTTAAAAG--AAA-AAAAG-TGTCCTGCTCTTTAAGGACTAAAAGGTGCCAC
* * * *
1057261 CAACTTATGT-TAGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAAG
62 CAACTTGTGTGGA-CTTTAAAAGGAAAATGCATCCTACTCTTTAAGGACTAAAAG
1057315 GATAAAAGGT
Statistics
Matches: 397, Mismatches: 60, Indels: 62
0.76 0.12 0.12
Matches are distributed among these distances:
118 2 0.01
119 44 0.11
120 20 0.05
121 18 0.05
122 21 0.05
123 26 0.07
124 34 0.09
125 93 0.23
126 87 0.22
127 3 0.01
128 4 0.01
129 39 0.10
130 6 0.02
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (122 bp):
AGCTTGTGTGGGCTTTAAAAGAAAAAAAGTGTCCTGCTCTTTAAGGACTAAAAGGTGCCACCAAC
TTGTGTGGACTTTAAAAGGAAAATGCATCCTACTCTTTAAGGACTAAAAGTGCCACA
Found at i:1057259 original size:65 final size:65
Alignment explanation
Indices: 1056429--1057315 Score: 551
Period size: 65 Copynumber: 14.0 Consensus size: 65
1056419 TGAAGTAGAT
* * * * * *
1056429 AGGTGCCACTAACTTGTGTAGGCTTT--AAG--AAA-AAAGGATTCTTGCACTTTGAGGACTAAA
1 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGAGTCCTGCTCTTTGAGGACT--A
1056489 AA
64 AA
* * *
1056491 AGAGTGCCA-CAACTTATGTGGGCTTTTAAAAAGAAAAAAGAAAAAATACGTCTTGCTCTTTGAG
1 AG-GTGCCACCAACTTGTGTGGGC-TTT-AAAAG-AAAAAG--AAAAGA-GTCCTGCTCTTTGAG
1056555 GACTAAAA
59 GACT-AAA
* * * * *
1056563 AGGAGTGCCACCAACATGTGTGAGCTTTAAAAGGAAAAG----GCA-TCATGCTCTTTCAGGACT
1 A-G-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAG-AGTCCTGCTCTTTGAGGACT
1056623 AAA
63 AAA
* * * * * *
1056626 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAGAAGTGTGCTGCTCTATG-GGCATTAG
1 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGAGTCCTGCTCTTTGAGG-ACTAA
*
1056690 G
65 A
* ** * * * * * * * *
1056691 AGATGCCATTAGCTTGTGTGAGCTTTATAA-AAAAA-AAGACA-TCTTGCTCTTTAAGGACTCAA
1 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGAGTCCTGCTCTTTGAGGACTAAA
* * * *
1056753 AGGTGCCACCAGCTTGTGTGGGCTTTAAGAGAAAAAGAAAA-ATGTCCTACTCTTTAAGGACTAA
1 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGA-GTCCTGCTCTTTGAGGACTAA
1056817 A
65 A
* * * * *
1056818 AGGCG-CACCAACTTGTGTGGCCTTTAAAAGAAAAA-AGAAAGGGTCTTGCTCTTTGAAGACTAA
1 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGA-AAAGAGTCCTGCTCTTTGAGGACTAA
1056881 A
65 A
** *
1056882 AGGTGCCATTAACTTGTGT-GGCTTT----GAAAAA-AAAAGACGTCCTACTCTTTGAGGACTAA
1 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGA-GTCCTGCTCTTTGAGGACTAA
1056941 A
65 A
* * * * * * *
1056942 AGATGCCACTAGCTTGTGTAGGCTTTTAAAG-----G-AAAGTGTCCTGCTCTTTAAGGACTAAA
1 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGAGTCCTGCTCTTTGAGGACTAAA
* * * * *
1057001 AGGTGCCACCAACTTGTATGGACTTTAAAAG-----GAAAATGCA-TCCTGCTTTTTAAGGGCTA
1 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAA-G-AGTCCTGCTCTTTGAGGACTA
1057060 GAA
64 -AA
* * * *
1057063 ATGTGCCACCAAGCTTGTGTGGGCTTTAAAAG--AAA-AAAAGTGTCCTGCTCTTTGAAGATTAA
1 AGGTGCCACCAA-CTTGTGTGGGCTTTAAAAGAAAAAGAAAAGAGTCCTGCTCTTTGAGGACTAA
1057125 A
65 A
* * *
1057126 AGGTACCACCAACTTGTGT-GGCCTT---A-AAAAAGAAAAGACGTCTTGCTCTTTGAGGACTAA
1 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGA-GTCCTGCTCTTTGAGGACTAA
1057186 A
65 A
* *
1057187 AGGTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAAAGAAAAGCAG-CCTGCTCTTTGAGGACTAA
1 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAG-AGTCCTGCTCTTTGAGGACTAA
*
1057251 G
65 A
** * ** * *
1057252 ACCTGCCACCAACTTATGTTAGCTTTAAAAGGAAAAG----GCA-TCCTACTCTTTGAGGACTAA
1 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAG-AGTCCTGCTCTTTGAGGACTAA
1057312 A
65 A
1057313 AGG
1 AGG
1057316 ATAAAAGGTT
Statistics
Matches: 649, Mismatches: 120, Indels: 113
0.74 0.14 0.13
Matches are distributed among these distances:
58 1 0.00
59 52 0.08
60 54 0.08
61 118 0.18
62 73 0.11
63 53 0.08
64 98 0.15
65 122 0.19
66 16 0.02
67 1 0.00
69 3 0.00
71 5 0.01
72 14 0.02
73 28 0.04
74 11 0.02
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (65 bp):
AGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGAAAAGAGTCCTGCTCTTTGAGGACTAAA
Found at i:1057261 original size:126 final size:125
Alignment explanation
Indices: 1056524--1057315 Score: 555
Period size: 126 Copynumber: 6.3 Consensus size: 125
1056514 TTTTAAAAAG
* * * * * *
1056524 AAAAAAGAAAAAATACGTCTTGCTCTTTGAGGACTAAAAAGGAGTGCCACCAACATGTGTGAGCT
1 AAAAAAG--AAAAGACGTCCTGCTCTTTGAGGACT-AAAA-G-GTGCCACTAGCTTGTGTGGGCT
* * * * *
1056589 TTAAAAG---GAAAAGGCA-TCATGCTCTTTCAGGACTAAAAGGTGCCACCAACTTGTGTGGGCT
61 TTAAAAGAAAAAAAAAG-AGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGT-GGCC
1056650 TT
124 TT
* * * * ** * * *
1056652 AAAAGAA-AAAGAGAAGTGTGCTGCTCTATG-GGCATTAGGAGATGCCATTAGCTTGTGTGAGCT
1 AAAA-AAGAAA-AG-A-CGTCCTGCTCTTTGAGG-ACTAAAAGGTGCCACTAGCTTGTGTGGGCT
* * * * * * * *
1056715 TTATAA-AAAAAAAGACA-TCTTGCTCTTTAAGGACTCAAAGGTGCCACCAGCTTGTGTGGGCTT
61 TTAAAAGAAAAAAAAAGAGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGT-GGCCT
1056778 T
125 T
* * * * * * *
1056779 AAGAGAAAAAGAAAA-ATGTCCTACTCTTTAAGGACTAAAAGGCG-CACCAACTTGTGTGGCCTT
1 ---A-AAAAAGAAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACTAGCTTGTGTGGGCTT
* * * ** *
1056842 TAAAAGAAAAAAGAAAGGGTCTTGCTCTTTGAAGACTAAAAGGTGCCATTAACTTGTGTGGCTTT
62 TAAAAGAAAAAA-AAAGAGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGCCTT
* * * * *
1056907 GAAAAA-AAAAGACGTCCTACTCTTTGAGGACTAAAAGATGCCACTAGCTTGTGTAGGCTTTTAA
1 AAAAAAGAAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAA
* * * * *
1056971 AG-----GAAAGTGTCCTGCTCTTTAAGGACTAAAAGGTGCCACCAACTTGTATGGACTT
66 AGAAAAAAAAAGAGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGCCTT
* * * * * * * *
1057026 TAAAAGGAAAATG-CATCCTGCTTTTTAAGGGCTAGAAATGTGCCACCAAGCTTGTGTGGGCTTT
1 AAAAAAGAAAA-GACGTCCTGCTCTTTGAGGACTA-AAAGGTGCCA-CTAGCTTGTGTGGGCTTT
* * * *
1057090 AAAAG--AAAAAAAGTGTCCTGCTCTTTGAAGATTAAAAGGTACCACCAACTTGTGTGGCCTT
63 AAAAGAAAAAAAAAGAGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGCCTT
*
1057151 AAAAAAGAAAAGACGTCTTGCTCTTTGAGGACTAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAA
1 AAAAAAGAAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAA
* ** * *
1057216 AGAAAAAGAAAAGCAG-CCTGCTCTTTGAGGACTAAGACCTGCCACCAACTTATGTTAG-CTT
66 AGAAAAA-AAAAG-AGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTG-TGGCCTT
* * * * *
1057277 TAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAAAAGG
1 AAAAAAGAAAAGACGTCCTGCTCTTTGAGGACTAAAAGG
1057316 ATAAAAGGTT
Statistics
Matches: 523, Mismatches: 109, Indels: 66
0.75 0.16 0.09
Matches are distributed among these distances:
119 47 0.09
120 20 0.04
121 9 0.02
122 20 0.04
123 26 0.05
124 40 0.08
125 94 0.18
126 115 0.22
127 71 0.14
128 23 0.04
129 48 0.09
130 4 0.01
131 6 0.01
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (125 bp):
AAAAAAGAAAAGACGTCCTGCTCTTTGAGGACTAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAA
AGAAAAAAAAAGAGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGCCTT
Found at i:1057784 original size:19 final size:19
Alignment explanation
Indices: 1057756--1057798 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
1057746 CGTGAAACAA
*
1057756 TGTTCTTGAAAAGTTTAAT
1 TGTTCGTGAAAAGTTTAAT
1057775 TGTTCGTGAAAAGTTTAAT
1 TGTTCGTGAAAAGTTTAAT
1057794 TGTTC
1 TGTTC
1057799 CCAACAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.47
Consensus pattern (19 bp):
TGTTCGTGAAAAGTTTAAT
Found at i:1058587 original size:13 final size:13
Alignment explanation
Indices: 1058569--1058599 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1058559 ACTTTTCACT
1058569 ATGTATCGATACA
1 ATGTATCGATACA
1058582 ATGTATCGATACA
1 ATGTATCGATACA
1058595 ATGTA
1 ATGTA
1058600 CCATGTATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1077903 original size:79 final size:78
Alignment explanation
Indices: 1077679--1078296 Score: 413
Period size: 78 Copynumber: 7.9 Consensus size: 78
1077669 AACGGGGTCA
* * * * * *
1077679 GAGTATCCCTTCGAAAATGATG-GGTTGGAGTATTCTTGATGGTG-AATAA-TCGATATTTT-GA
1 GAGTATCCCCTCGAAAATAACGAGGTTAGAGTA-TCCTCATGGTGTAA-AATTCGATATTTTAG-
1077740 AAATGAAAATG-GGCTTG
63 AAAT-AAAATGAGG-TTG
* * * * * *
1077757 GAGTATCCCCTCAAAAATAATGGGGTT-G-GCTATCTTCGATAGTGAAAAATT-GATATTTTAGA
1 GAGTATCCCCTCGAAAATAACGAGGTTAGAG-TATCCTC-ATGGTGTAAAATTCGATATTTTAGA
1077819 AATAAAAATG-GGTTG
64 AAT-AAAATGAGGTTG
*
1077834 GAGTATCTCCTCGAAAATAACGAGGTTAGAGTATCCTCATTGGTGTAAAATTCGATATTTTAGAA
1 GAGTATCCCCTCGAAAATAACGAGGTTAGAGTATCCTCA-TGGTGTAAAATTCGATATTTTAGAA
* *
1077899 ATAAAACGAGGATG
65 ATAAAATGAGGTTG
* * *
1077913 GAGTATCCCCTCGAAAATAACGAGGTTAGAGTATCCTCGTTGGTGTCAAATTCAATATTTTAGAA
1 GAGTATCCCCTCGAAAATAACGAGGTTAGAGTATCCTC-ATGGTGTAAAATTCGATATTTTAGAA
*
1077978 ATAAAACGAGGTTG
65 ATAAAATGAGGTTG
* * * * **
1077992 GAGTATCCCTTCGAAAATAA-TAGGGTTGGAGTATCC-CAATGGT-TAAAAATTCAATATTTCGG
1 GAGTATCCCCTCGAAAATAACGA-GGTTAGAGTATCCTC-ATGGTGT-AAAATTCGATATTTTAG
*
1078054 AAATAAAACGAGGTTG
63 AAATAAAATGAGGTTG
*
1078070 TG-GTATCCCCT-TAGAAATAAC-AGGGTT-GAAGTAT-CTCCGATGGTG-AAAA-TCGATA-TT
1 -GAGTATCCCCTCGA-AAATAACGA-GGTTAG-AGTATCCT-C-ATGGTGTAAAATTCGATATTT
* *
1078127 TGGATATAAAATCGAGGTTG
60 TAGAAATAAAAT-GAGGTTG
**** * * * * * * *
1078147 GAGTATTTTTTAGAAAAT--TGGGGTTGGAGTATCCCCAATGGTG-AAAATTTTGATATTTTGGA
1 GAGTATCCCCTCGAAAATAACGAGGTTAGAGTATCCTC-ATGGTGTAAAA-TTCGATATTTTAGA
* *
1078209 AATAAAAATGGGGTTA
64 AAT-AAAATGAGGTTG
* * **
1078225 GA-TAATCCCCTCGAAAATAACGAGGTTAGAGTATCCTCGATGGTGAAAAAATAAATATTTT-GA
1 GAGT-ATCCCCTCGAAAATAACGAGGTTAGAGTATCCTC-ATGGTGTAAAATTCGATATTTTAG-
1078288 AAATAAAAT
63 AAATAAAAT
1078297 AAAATAATTA
Statistics
Matches: 443, Mismatches: 61, Indels: 71
0.77 0.11 0.12
Matches are distributed among these distances:
75 20 0.05
76 14 0.03
77 63 0.14
78 161 0.36
79 149 0.34
80 32 0.07
81 4 0.01
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (78 bp):
GAGTATCCCCTCGAAAATAACGAGGTTAGAGTATCCTCATGGTGTAAAATTCGATATTTTAGAAA
TAAAATGAGGTTG
Found at i:1078188 original size:75 final size:75
Alignment explanation
Indices: 1077829--1078194 Score: 263
Period size: 79 Copynumber: 4.7 Consensus size: 75
1077819 AATAAAAATG
* * * * * *
1077829 GGTTGGAGTATCTCC-TCGAAAATAACGAGGTTAGAGTATCCTCATTGGTGTAAAATTCGATATT
1 GGTTGGAGTATC-CCTTAGAAAATTA-G-GGTTGGAGTATCCCCAATGGTG-AAAA-TCAATATT
**
1077893 TTAGAAATAAAACGA
61 TCGGAAATAAAACGA
* * * * * * ** *
1077908 GGATGGAGTATCCCCTCGAAAATAACGAGGTTAGAGTATCCTCGTTGGTGTCAAATTCAATATTT
1 GGTTGGAGTATCCCTTAGAAAATTA-G-GGTTGGAGTATCCCCAATGGTG--AAAATCAATATTT
**
1077973 TAGAAATAAAACGA
62 CGGAAATAAAACGA
* *
1077987 GGTTGGAGTATCCCTTCGAAAATAATAGGGTTGGAGTAT-CCCAATGGTTAAAAATTCAATATTT
1 GGTTGGAGTATCCCTTAGAAAAT--TAGGGTTGGAGTATCCCCAATGG-TGAAAA-TCAATATTT
1078051 CGGAAATAAAACGA
62 CGGAAATAAAACGA
** * * * *
1078065 GGTTGTG-GTATCCCCTTAGAAATAACAGGGTTGAAGTATCTCCGATGGTGAAAATCGATATTT-
1 GGTTG-GAGTAT-CCCTTAGAAA-ATTAGGGTTGGAGTATCCCCAATGGTGAAAATCAATATTTC
*
1078128 GGATATAAAATCGA
63 GGAAATAAAA-CGA
*** *
1078142 GGTTGGAGTATTTTTTAGAAAATTGGGGTTGGAGTATCCCCAATGGTGAAAAT
1 GGTTGGAGTATCCCTTAGAAAATTAGGGTTGGAGTATCCCCAATGGTGAAAAT
1078195 TTTGATATTT
Statistics
Matches: 241, Mismatches: 34, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
75 26 0.11
76 17 0.07
77 23 0.10
78 54 0.22
79 115 0.48
80 5 0.02
81 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (75 bp):
GGTTGGAGTATCCCTTAGAAAATTAGGGTTGGAGTATCCCCAATGGTGAAAATCAATATTTCGGA
AATAAAACGA
Found at i:1078233 original size:155 final size:153
Alignment explanation
Indices: 1077679--1078273 Score: 414
Period size: 157 Copynumber: 3.8 Consensus size: 153
1077669 AACGGGGTCA
* *** * * * *
1077679 GAGTATCCCTTCGAAAATGAT-GGGTTGGAGTATTCTTGATGGTGAATAA-TCGATATTTTGAAA
1 GAGTATCCCTTAGAAAAT-ATAGGGTTGGAGTA-TCCCAATGGTGAAAAATTCAATATTTCGGAA
* * * * *
1077742 ATGAAAATG-GGCTTG-GAGTATCCCCTCA-AAAATAATGGGGTT-G-GCTATCTTCGATAGTGA
64 AT-AAAACGAGG-TTGAGA-TATCCCCT-AGAAAATAACGAGGTTAGAG-TATCCTCGATGGTG-
* * * *
1077802 AAAATTGATATTTTAGAAATAAAAATG-GGTTG
123 AAAATCGATA-TTTGGATAT-AAAACGAGGTTG
* * * * * **
1077834 GAGTATCTCC-TCGAAAATA-ACGAGGTTAGAGTATCCTCATTGGTGTAAAATTCGATATTTTAG
1 GAGTATC-CCTTAGAAAATATA-G-GGTTGGAGTATCC-CAATGGTGAAAAATTCAATATTTCGG
* * *
1077897 AAATAAAACGAGGATG-GAGTATCCCCTCGAAAATAACGAGGTTAGAGTATCCTCGTTGGTGTCA
62 AAATAAAACGAGGTTGAGA-TATCCCCTAGAAAATAACGAGGTTAGAGTATCCTCGATGGTG--A
* * * *
1077961 AATTCAATATTTTAGAAATAAAACGAGGTTG
124 AAATCGATA-TTTGGATATAAAACGAGGTTG
* *
1077992 GAGTATCCCTTCGAAAATAATAGGGTTGGAGTATCCCAATGGTTAAAAATTCAATATTTCGGAAA
1 GAGTATCCCTTAGAAAAT-ATAGGGTTGGAGTATCCCAATGGTGAAAAATTCAATATTTCGGAAA
* *
1078057 TAAAACGAGGTTGTGGTATCCCCTTAG-AAATAAC-AGGGTT-GAAGTAT-CTCCGATGGTGAAA
65 TAAAACGAGGTTGAGATATCCCC-TAGAAAATAACGA-GGTTAG-AGTATCCT-CGATGGTGAAA
1078118 ATCGATATTTGGATATAAAATCGAGGTTG
126 ATCGATATTTGGATATAAAA-CGAGGTTG
*** * * ** *
1078147 GAGTATTTTTTAGAAAAT-TGGGGTTGGAGTATCCCCAATGGTGAAAATTTTGATATTTTGGAAA
1 GAGTATCCCTTAGAAAATATAGGGTTGGAGTAT-CCCAATGGTGAAAAATTCAATATTTCGGAAA
* * *
1078211 TAAAAATGGGGTT-AGATAATCCCCTCGAAAATAACGAGGTTAGAGTATCCTCGATGGTGAAAA
65 T-AAAACGAGGTTGAGAT-ATCCCCTAGAAAATAACGAGGTTAGAGTATCCTCGATGGTGAAAA
1078274 AATAAATATT
Statistics
Matches: 360, Mismatches: 52, Indels: 56
0.77 0.11 0.12
Matches are distributed among these distances:
153 13 0.04
154 43 0.12
155 91 0.25
156 57 0.16
157 100 0.28
158 53 0.15
159 2 0.01
160 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (153 bp):
GAGTATCCCTTAGAAAATATAGGGTTGGAGTATCCCAATGGTGAAAAATTCAATATTTCGGAAAT
AAAACGAGGTTGAGATATCCCCTAGAAAATAACGAGGTTAGAGTATCCTCGATGGTGAAAATCGA
TATTTGGATATAAAACGAGGTTG
Found at i:1080787 original size:20 final size:19
Alignment explanation
Indices: 1080735--1080789 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
1080725 ACAATGAGAA
1080735 ATGTATCAATACATTTAGT
1 ATGTATCAATACATTTAGT
* * *
1080754 AGGTATCGATACATTTACTT
1 ATGTATCAATACATTTA-GT
*
1080774 ATGTCTCAATACATTT
1 ATGTATCAATACATTT
1080790 CCTTTTCAGA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.42
Consensus pattern (19 bp):
ATGTATCAATACATTTAGT
Found at i:1080859 original size:20 final size:20
Alignment explanation
Indices: 1080836--1080882 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1080826 TTTCAGGAAA
1080836 GTATCGATACATTCACCTA-T
1 GTATCGATACATT-ACCTATT
* *
1080856 GTATCAATACATTACTTATT
1 GTATCGATACATTACCTATT
1080876 GTATCGA
1 GTATCGA
1080883 CACAAATTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (20 bp):
GTATCGATACATTACCTATT
Found at i:1082975 original size:13 final size:13
Alignment explanation
Indices: 1082957--1082983 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1082947 ACATTTGTCC
1082957 ATGTATCGATACA
1 ATGTATCGATACA
1082970 ATGTATCGATACA
1 ATGTATCGATACA
1082983 A
1 A
1082984 AGCAGCATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1091670 original size:33 final size:33
Alignment explanation
Indices: 1091628--1091692 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1091618 TACAAGCAAT
1091628 GTATAGATACATT-T-CTTCATGTATCGATACAAC
1 GTATAGATACATTGTAC--CATGTATCGATACAAC
*
1091661 GTATCGATACATTGTACCATGTATCGATACAA
1 GTATAGATACATTGTACCATGTATCGATACAA
1091693 ATAGTGATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (33 bp):
GTATAGATACATTGTACCATGTATCGATACAAC
Found at i:1091765 original size:19 final size:20
Alignment explanation
Indices: 1091721--1091771 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
1091711 CTGCCAGTTT
* **
1091721 CATGTATCGATACATTTGTC
1 CATGTATCGATACATATGAA
1091741 CATGTATCGATACA-ATGAA
1 CATGTATCGATACATATGAA
1091760 CATGTATCGATA
1 CATGTATCGATA
1091772 TAATATATCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACATATGAA
Found at i:1094885 original size:33 final size:33
Alignment explanation
Indices: 1094848--1094914 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1094838 TTCAACGATC
1094848 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1094881 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1094914 T
1 T
1094915 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1094886 original size:13 final size:13
Alignment explanation
Indices: 1094868--1094892 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1094858 CATAAAATGT
1094868 TGTATCGATACAA
1 TGTATCGATACAA
1094881 TGTATCGATACA
1 TGTATCGATACA
1094893 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1095047 original size:52 final size:52
Alignment explanation
Indices: 1094991--1095111 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1094981 CACTGATCTT
*
1094991 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1095043 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1095095 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1095112 TAACTCTTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1098352 original size:21 final size:21
Alignment explanation
Indices: 1098327--1098369 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1098317 CATGTCAGGA
1098327 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
1098348 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
1098369 G
1 G
1098370 TCATTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (21 bp):
GCATCTCGTCATGCAATGAAT
Found at i:1103374 original size:30 final size:31
Alignment explanation
Indices: 1103338--1103419 Score: 121
Period size: 30 Copynumber: 2.7 Consensus size: 31
1103328 ATACCTTTTT
1103338 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
*
1103368 AAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* * *
1103399 AAAGCCCACAACTCTGTGGCA
1 AAAGTCCACGACTCAGTGGCA
1103420 CACTTTTTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 27 0.57
31 20 0.43
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTTC
Found at i:1103441 original size:35 final size:35
Alignment explanation
Indices: 1103396--1103600 Score: 311
Period size: 35 Copynumber: 5.7 Consensus size: 35
1103386 GCATTTTTTC
1103396 TTCAAAGCCCACAACTCTGTGGCACACTTTTTCTT
1 TTCAAAGCCCACAACTCTGTGGCACACTTTTTCTT
* * *
1103431 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
1 TTCAAAGCCCACAACTCTGTGGCACACTTTTT--CTT
1103468 TTCAAAGCCCACAACTCTGTGGCACACTTTTTCTT
1 TTCAAAGCCCACAACTCTGTGGCACACTTTTTCTT
*
1103503 TTCAAAGCCCACAACTCTGTGGCACTCTTTTTTCCCTT
1 TTCAAAGCCCACAACTCTGTGGCACAC-TTTTT--CTT
1103541 TTCAAAGCCCACAACTCTGTGGCACACTTTTTCTT
1 TTCAAAGCCCACAACTCTGTGGCACACTTTTTCTT
* *
1103576 TTTAAAGCCCACAACTCCGTGGCAC
1 TTCAAAGCCCACAACTCTGTGGCAC
1103601 TCCCACAACT
Statistics
Matches: 155, Mismatches: 10, Indels: 10
0.89 0.06 0.06
Matches are distributed among these distances:
35 84 0.54
36 5 0.03
37 37 0.24
38 29 0.19
ACGTcount: A:0.22, C:0.33, G:0.12, T:0.33
Consensus pattern (35 bp):
TTCAAAGCCCACAACTCTGTGGCACACTTTTTCTT
Found at i:1103498 original size:72 final size:73
Alignment explanation
Indices: 1103396--1103602 Score: 389
Period size: 73 Copynumber: 2.8 Consensus size: 73
1103386 GCATTTTTTC
1103396 TTCAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTC-TT
1 TTCAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
1103460 TTTCCCTT
66 TTTCCCTT
* *
1103468 TTCAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTT
1 TTCAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
1103533 TTTCCCTT
66 TTTCCCTT
1103541 TTCAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTC
1 TTCAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTC
1103603 CCACAACTCC
Statistics
Matches: 130, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
72 60 0.46
73 70 0.54
ACGTcount: A:0.22, C:0.33, G:0.12, T:0.33
Consensus pattern (73 bp):
TTCAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
TTTCCCTT
Found at i:1103607 original size:19 final size:19
Alignment explanation
Indices: 1103583--1103619 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1103573 CTTTTTAAAG
1103583 CCCACAACTCCGTGGCACT
1 CCCACAACTCCGTGGCACT
1103602 CCCACAACTCCGTGGCAC
1 CCCACAACTCCGTGGCAC
1103620 CTTCTTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.49, G:0.16, T:0.14
Consensus pattern (19 bp):
CCCACAACTCCGTGGCACT
Found at i:1103640 original size:54 final size:54
Alignment explanation
Indices: 1103548--1103716 Score: 148
Period size: 54 Copynumber: 3.0 Consensus size: 54
1103538 CTTTTCAAAG
* * *
1103548 CCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACT
1 CCCACAACTCCGTGGCACACTTTTTCCTTCTAAAGCCCACAACTCCGTGGCACT
*
1103602 CCCACAACTCCGTGGCAC-CTTCTTTTCCTTCT-ATGCCCACAACTCCGTGGCACCCTTTT
1 CCCACAACTCCGTGGCACAC-T-TTTTCCTTCTAAAGCCCACAACTCCGTGGCA--C---T
* * * *
1103661 AAGTCCACGACTCCGTGGCACTC-TTTTCCTT-TAAAGCCCACAACTACGTGGCACT
1 ---CCCACAACTCCGTGGCACACTTTTTCCTTCTAAAGCCCACAACTCCGTGGCACT
1103716 C
1 C
1103717 TTTTCCTTCT
Statistics
Matches: 94, Mismatches: 9, Indels: 26
0.73 0.07 0.20
Matches are distributed among these distances:
53 1 0.01
54 37 0.39
55 9 0.10
56 1 0.01
58 1 0.01
59 2 0.02
60 26 0.28
62 16 0.17
63 1 0.01
ACGTcount: A:0.20, C:0.38, G:0.14, T:0.28
Consensus pattern (54 bp):
CCCACAACTCCGTGGCACACTTTTTCCTTCTAAAGCCCACAACTCCGTGGCACT
Found at i:1103692 original size:33 final size:33
Alignment explanation
Indices: 1103602--1103858 Score: 251
Period size: 33 Copynumber: 7.7 Consensus size: 33
1103592 CCGTGGCACT
* *
1103602 CCCACAACTCCGTGGCACCTTCTTTTCCTTCTATG
1 CCCACAACTCCGTGGCA-C-TCTTTTCCTTTTAAG
1103637 CCCACAACTCCGTGGCA--C----CCTTTTAAG
1 CCCACAACTCCGTGGCACTCTTTTCCTTTTAAG
* * *
1103664 TCCACGACTCCGTGGCACTCTTTTCCTTTAAAG
1 CCCACAACTCCGTGGCACTCTTTTCCTTTTAAG
* *
1103697 CCCACAACTACGTGGCACTCTTTTCCTTCTAAG
1 CCCACAACTCCGTGGCACTCTTTTCCTTTTAAG
*
1103730 CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAG
1 CCCACAACTCCGTGGCACTC-TTTTCCTTTTAAG
1103764 CCCACAACTCCGTGGCACTCTTTTTTTTTCCTTTTTAAAG
1 CCCACAACTCCGTGGCACTC-----TTTTCC-TTTT-AAG
*
1103804 CCCACAACTCTGTGGCAC-CTTGTTCCTTTTAAG
1 CCCACAACTCCGTGGCACTCTT-TTCCTTTTAAG
* * *
1103837 TCCACAACTTCGTGACA-TCTTT
1 CCCACAACTCCGTGGCACTCTTT
1103859 CACCCTCTCT
Statistics
Matches: 190, Mismatches: 17, Indels: 33
0.79 0.07 0.14
Matches are distributed among these distances:
27 22 0.12
29 1 0.01
31 1 0.01
32 1 0.01
33 74 0.39
34 39 0.21
35 21 0.11
38 7 0.04
39 4 0.02
40 20 0.11
ACGTcount: A:0.19, C:0.35, G:0.12, T:0.33
Consensus pattern (33 bp):
CCCACAACTCCGTGGCACTCTTTTCCTTTTAAG
Found at i:1103902 original size:34 final size:31
Alignment explanation
Indices: 1103860--1103999 Score: 180
Period size: 34 Copynumber: 4.5 Consensus size: 31
1103850 GACATCTTTC
1103860 ACCCTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 ACCCTCTC-AAAGCCCACACAAGTCGGTGGC-A
*
1103893 ACCCTTCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCC-TCTC-AAAGCCCACACAAGTCGGTGGCA
* *
1103926 ACCCCCTCAAAGCCCACACAAGTTGGTGGCA
1 ACCCTCTCAAAGCCCACACAAGTCGGTGGCA
1103957 A-CC-C-CAAAGCCCACACAAGTCGGTGGCA
1 ACCCTCTCAAAGCCCACACAAGTCGGTGGCA
*
1103985 ACCC-CTCTAAGCCCA
1 ACCCTCTCAAAGCCCA
1104000 ATATAGCTGG
Statistics
Matches: 100, Mismatches: 4, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
28 24 0.24
29 4 0.04
30 10 0.10
31 24 0.24
32 3 0.03
33 9 0.09
34 26 0.26
ACGTcount: A:0.29, C:0.39, G:0.18, T:0.14
Consensus pattern (31 bp):
ACCCTCTCAAAGCCCACACAAGTCGGTGGCA
Found at i:1104110 original size:49 final size:49
Alignment explanation
Indices: 1103992--1105168 Score: 1733
Period size: 49 Copynumber: 23.7 Consensus size: 49
1103982 GCAACCCCTC
* *
1103992 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
1104044 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1104093 TAAGTCCAAAATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
1104145 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1104194 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1104243 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1104292 TAAGTCCAATATCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1104341 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
1104393 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1104442 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1104491 TAAGTCCAATATAGCTGGCCTTGAATTAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
1104543 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1104592 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1104641 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1104690 TAAGTCCAATATCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1104739 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
1104791 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1104840 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1104889 TAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1104938 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1104987 TAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1105036 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1105085 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTT
* *
1105137 TAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCAC
1105169 GTTGACATCC
Statistics
Matches: 1019, Mismatches: 91, Indels: 30
0.89 0.08 0.03
Matches are distributed among these distances:
49 754 0.74
50 10 0.01
51 10 0.01
52 245 0.24
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1104272 original size:150 final size:147
Alignment explanation
Indices: 1103992--1105168 Score: 1733
Period size: 150 Copynumber: 7.9 Consensus size: 147
1103982 GCAACCCCTC
* * *
1103992 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATATA
* *
1104057 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAAATAGCTGGCCTTGAATCAG
63 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
*
1104122 CATATTGGCACCTTTTCCATCTT
128 CACATTGGCACC--TT-CATCTT
* * *
1104145 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
* * * *
1104210 GGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
1104275 ATTGGCACCTTCATCTT
131 ATTGGCACCTTCATCTT
* *
1104292 TAAGTCCAATATCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
* * *
1104357 GGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAG
66 GGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
1104422 CACATTGGCACCTTCATCTT
128 CACATTGGCACCTTCATCTT
*
1104442 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
* * * *
1104507 GGCCTTGAATTAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAG
66 GGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
1104572 CACATTGGCACCTTCATCTT
128 CACATTGGCACCTTCATCTT
* * * *
1104592 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
* * *
1104657 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGACTCAGCAC
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
1104722 ATTGGCACCTTCATCTT
131 ATTGGCACCTTCATCTT
* *
1104739 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATATA
* *
1104804 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
63 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
1104869 CACATTGGCACCTTCATCTT
128 CACATTGGCACCTTCATCTT
* * * * *
1104889 TAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
* * * *
1104954 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAGTATCGCTGGCCTTGAATCAGCAT
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
*
1105019 ATTGGCATCTTCATCTT
131 ATTGGCACCTTCATCTT
* * *
1105036 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
* * * *
1105101 GGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAG
66 GGCCTTGAATCAGCACATTGGCAC--CTT-CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
1105166 CAC
128 CAC
1105169 GTTGACATCC
Statistics
Matches: 963, Mismatches: 52, Indels: 21
0.93 0.05 0.02
Matches are distributed among these distances:
147 364 0.38
148 6 0.01
149 6 0.01
150 548 0.57
151 2 0.00
153 37 0.04
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (147 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCT
GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
ATTGGCACCTTCATCTT
Found at i:1104393 original size:199 final size:197
Alignment explanation
Indices: 1103992--1105234 Score: 1853
Period size: 199 Copynumber: 6.2 Consensus size: 197
1103982 GCAACCCCTC
* * *
1103992 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTA
*
1104057 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAAATAGCTGGCCTTGAATCAG
63 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
*
1104122 CATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCT
128 CATATTGGCACC--TTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCT
1104187 TCATCTT
191 TCATCTT
1104194 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
* * *
1104259 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGACTCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
* *
1104324 ATTGGCACCTT-CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCC
131 ATTGGCACCTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-C
1104388 ATCTT
193 ATCTT
* * * * * * *
1104393 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
* *
1104458 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATTAGCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
*
1104523 ATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCA
131 ATTGGCACC--TTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCA
1104588 TCTT
194 TCTT
1104592 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
* * *
1104657 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGACTCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
* *
1104722 ATTGGCACCTT-CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCC
131 ATTGGCACCTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-C
1104786 ATCTT
193 ATCTT
* * * * * * *
1104791 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
* * *
1104856 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAGTATCGCTGGCCTTGAATCAGCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
* *
1104921 ATTGGCATCTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATC
131 ATTGGCACCTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1104985 TT
196 TT
*
1104987 TAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
*
1105052 GGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
* * * *
1105117 ATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTT
131 ATTGGCAC--CTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC---
1105182 TTCTCATCTT
190 -T-TCATCTT
* * * *
1105192 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1105235 TATCACTCTT
Statistics
Matches: 945, Mismatches: 78, Indels: 33
0.89 0.07 0.03
Matches are distributed among these distances:
196 219 0.23
197 6 0.01
198 6 0.01
199 578 0.61
200 7 0.01
201 2 0.00
202 81 0.09
204 1 0.00
205 45 0.05
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (197 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
ATTGGCACCTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
TT
Found at i:1104480 original size:248 final size:250
Alignment explanation
Indices: 1103992--1105230 Score: 1985
Period size: 248 Copynumber: 5.0 Consensus size: 250
1103982 GCAACCCCTC
*
1103992 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTTCCATCTTTAAGTCCAATGTA
*
1104057 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAAAATAGCTGGCCTTGAATCAG
65 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
1104122 CATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCT
130 CATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCT
* *
1104187 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
195 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
1104243 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACC-TT-CATCTTTAAGTCCAATATCG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCCATCTTTAAGTCCAATGTAG
1104306 CTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
66 CTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
1104371 ATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
131 ATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1104436 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
196 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1104491 TAAGTCCAATATAGCTGGCCTTGAATTAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTTCCATCTTTAAGTCCAATGTA
*
1104556 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
65 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
*
1104621 CATATTGGCA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCT
130 CATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCT
*
1104683 TCATCTTTAAGTCCAATATCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
195 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1104739 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTTCCATCTTTAAGTCCAATGTA
*
1104804 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAG
65 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
* * * * * * *
1104869 CACATTGGCACC--TT-CATCTTTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCATCT
130 CATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCT
* * *
1104931 TCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
195 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1104987 TAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTGGCATC-TT-CATCTTTAAGTCCAATGTAG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCCATCTTTAAGTCCAATGTAG
*
1105050 CTGGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
66 CTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
* * * * *
1105115 ATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCT
131 ATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CC-
* * * * *
1105180 TTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCA
194 ---T-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
1105231 TCTTTATCAC
Statistics
Matches: 923, Mismatches: 51, Indels: 25
0.92 0.05 0.03
Matches are distributed among these distances:
245 92 0.10
246 2 0.00
247 2 0.00
248 652 0.71
249 6 0.01
250 2 0.00
251 128 0.14
253 1 0.00
254 38 0.04
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (250 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCCATCTTTAAGTCCAATGTAG
CTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
ATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1105372 original size:171 final size:171
Alignment explanation
Indices: 1105082--1105476 Score: 682
Period size: 171 Copynumber: 2.3 Consensus size: 171
1105072 GCACCTTCAC
*
1105082 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTTCAAT
1105147 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
63 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
1105212 ATGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
128 ATGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
* * *
1105256 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGAATATTGGCATCTTCATCTTTAAGTTCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
*
1105321 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATG
66 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
* *
1105386 AATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
131 AATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
* *
1105427 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1105477 ATCTCTAAAA
Statistics
Matches: 210, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
171 168 0.80
172 5 0.02
174 37 0.18
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (171 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
AATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
Found at i:1106312 original size:33 final size:33
Alignment explanation
Indices: 1106275--1106341 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1106265 TTCAACGATC
1106275 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1106308 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1106341 T
1 T
1106342 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1106313 original size:13 final size:13
Alignment explanation
Indices: 1106295--1106319 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1106285 CATAAAATGT
1106295 TGTATCGATACAA
1 TGTATCGATACAA
1106308 TGTATCGATACA
1 TGTATCGATACA
1106320 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1106403 original size:13 final size:13
Alignment explanation
Indices: 1106385--1106409 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1106375 ATTACTCACA
1106385 TGTATCGATACAT
1 TGTATCGATACAT
1106398 TGTATCGATACA
1 TGTATCGATACA
1106410 CTGATCTTTG
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:1106474 original size:52 final size:52
Alignment explanation
Indices: 1106418--1106538 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1106408 CACTGATCTT
*
1106418 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1106470 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1106522 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1106539 TAACTCTTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1112847 original size:168 final size:164
Alignment explanation
Indices: 1112655--1112987 Score: 429
Period size: 168 Copynumber: 2.0 Consensus size: 164
1112645 TGAAATAAAT
1112655 TTAAATTTCAAAAATGAATTAATGGG-AGTTCAACAACAATATTAGATACATTCTAAAAA-TTTT
1 TTAAATTTCAAAAATGAATTAATGGGAAGTTC-ACAACAATATTAGATACATTCTAAAAATTTTT
* * *
1112718 AGACCAAAGAAAATCCCCCCGAAAATACTTATGGATTAGAAAACTTAATTTTTTGGGAAAAAAGG
65 A-ACCAAAGAAAATCCCCCCGAAAATACTTATGGATGAGAAAACTCAATTTTTCGGG-AAAAAGG
*
1112783 AAATTTCAAAGAAAAAAATCCAAAATTCATGAAAATGAA
128 -AATTTCAAAG-AAAAAATCCAAAACTCATGAAAATGAA
* * ** * * *
1112822 TTAAACTTTCAAAAGT-AATTTAATGGGAATTTCATGACATTATTAGATATATTTTAAAAATTTT
1 TTAAA-TTTCAAAAATGAA-TTAATGGGAAGTTCACAACAATATTAGATACATTCTAAAAATTTT
* * ** * *
1112886 TAACCAAAGAAAATCTCCCCGAAAATATTTATGGATGAGAAAACTCGGTTTTTCGGGAGAAAGGG
64 TAACCAAAGAAAATCCCCCCGAAAATACTTATGGATGAGAAAACTCAATTTTTCGGGAAAAAGGA
1112951 ATTTCAAAGAAAAAATCCAAAACTCATGAAAATGAA
129 ATTTCAAAGAAAAAATCCAAAACTCATGAAAATGAA
1112987 T
1 T
1112988 GAATTTTTTT
Statistics
Matches: 145, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
165 27 0.19
166 9 0.06
167 13 0.09
168 87 0.60
169 9 0.06
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (164 bp):
TTAAATTTCAAAAATGAATTAATGGGAAGTTCACAACAATATTAGATACATTCTAAAAATTTTTA
ACCAAAGAAAATCCCCCCGAAAATACTTATGGATGAGAAAACTCAATTTTTCGGGAAAAAGGAAT
TTCAAAGAAAAAATCCAAAACTCATGAAAATGAA
Found at i:1113146 original size:165 final size:166
Alignment explanation
Indices: 1112951--1113296 Score: 425
Period size: 165 Copynumber: 2.1 Consensus size: 166
1112941 GGAGAAAGGG
* * * ** *
1112951 ATTTCAAAGAAAAAATCCAAAACTCATGAAAATGAATGAATTTTTTTAAATTGATTTAATATAAA
1 ATTTCAAAGAAAAAATCCAAAACCCATGAAAATGAATAAAATTTTGAAAAGTGATTTAATATAAA
* * * *
1113016 ATAAATAATAATATTTGATTGATTTTTAAAA-TT-AAAACCAAGAATAATCCCCATGAAATAAA-
66 ATAAATAATAATATTTGATGGA-TTTTAAAATTTAAAAACCAAGAAAAATCCCCA-CAAAAAAAT
*
1113078 TTACGGAGTAGAAAA-CTCCGT-TTTTGAAAATAAGA-GA
129 TTACGGAGAAGAAAATCT-CGTATTTT-AAAATAAGAGGA
* *
1113115 ATTTCAAGGAGAAAATCCAAAAACCCATGAAAATGAATAAAATTTTGAAAAGTGATTTAATATAA
1 ATTTCAAAGAAAAAATCC-AAAACCCATGAAAATGAATAAAATTTTGAAAAGTGATTTAATATAA
* ** *
1113180 AATAAATAATAATATTTTATGGATTTTAAAATTTAAAAATTAAGAAAAATCCTCACAAAAAAATT
65 AATAAATAATAATATTTGATGGATTTTAAAATTTAAAAACCAAGAAAAATCCCCACAAAAAAATT
1113245 TACGGAGAAGAAAATCTCGTAATTTTAAAATAAGAGGA
130 TACGGAGAAGAAAATCTCGT-ATTTTAAAATAAGAGGA
*
1113283 ATTTAGAAAGAAAA
1 ATTT-CAAAGAAAA
1113297 TCAATAATTC
Statistics
Matches: 153, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
164 24 0.16
165 69 0.45
166 33 0.22
167 11 0.07
168 10 0.07
169 6 0.04
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (166 bp):
ATTTCAAAGAAAAAATCCAAAACCCATGAAAATGAATAAAATTTTGAAAAGTGATTTAATATAAA
ATAAATAATAATATTTGATGGATTTTAAAATTTAAAAACCAAGAAAAATCCCCACAAAAAAATTT
ACGGAGAAGAAAATCTCGTATTTTAAAATAAGAGGA
Found at i:1115285 original size:58 final size:58
Alignment explanation
Indices: 1115144--1115285 Score: 223
Period size: 58 Copynumber: 2.4 Consensus size: 58
1115134 TCGATGTAGG
* * *
1115144 TAGCCATGTTGTAAGTCCAGTGAAGTTTGGCCATAGAGAAAGAAAAGCCCAACATAGC
1 TAGCCATGTTGTAAGTCCAATGAAGTTGGGCCACAGAGAAAGAAAAGCCCAACATAGC
* *
1115202 TAGCCATGTTGTAAGTCCAACGAAGTTGGGCCACAGAGAAAGAAAAGCCTAACATAGC
1 TAGCCATGTTGTAAGTCCAATGAAGTTGGGCCACAGAGAAAGAAAAGCCCAACATAGC
1115260 TAGCCATGTTGTAAG-CCTAATGAAGT
1 TAGCCATGTTGTAAGTCC-AATGAAGT
1115286 AAGCCTATAA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
57 2 0.03
58 75 0.97
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (58 bp):
TAGCCATGTTGTAAGTCCAATGAAGTTGGGCCACAGAGAAAGAAAAGCCCAACATAGC
Found at i:1118200 original size:13 final size:13
Alignment explanation
Indices: 1118182--1118207 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1118172 CAATTTTTTG
1118182 TGTATCGATACAT
1 TGTATCGATACAT
1118195 TGTATCGATACAT
1 TGTATCGATACAT
1118208 ACTTGCTGTA
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:1120598 original size:21 final size:21
Alignment explanation
Indices: 1120574--1120620 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1120564 TTTGATGCTG
1120574 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
1120594 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
1120615 ATTTTG
1 ATTTTG
1120621 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:1120759 original size:13 final size:13
Alignment explanation
Indices: 1120741--1120779 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1120731 ATAATCACCC
*
1120741 TGTATCGATACAG
1 TGTATCGATACAA
1120754 TGTATCGATACAA
1 TGTATCGATACAA
1120767 TGTATCGATACAA
1 TGTATCGATACAA
1120780 AGAAAAATGT
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:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1120790 original size:20 final size:20
Alignment explanation
Indices: 1120765--1120843 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
1120755 GTATCGATAC
1120765 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1120785 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
1120810 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
1120830 CATGTATCGATACA
1 AATGTATCGATACA
1120844 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1122871 original size:15 final size:15
Alignment explanation
Indices: 1122851--1122881 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1122841 ATTTTGTTTG
*
1122851 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1122866 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1122881 G
1 G
1122882 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:1124714 original size:21 final size:21
Alignment explanation
Indices: 1124685--1124729 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1124675 AAGTTTTCAT
*
1124685 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1124705 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1124727 TTT
1 TTT
1124730 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1125431 original size:13 final size:13
Alignment explanation
Indices: 1125413--1125438 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1125403 CAATTTTTTG
1125413 TGTATCGATACAT
1 TGTATCGATACAT
1125426 TGTATCGATACAT
1 TGTATCGATACAT
1125439 ACTTGCTGTA
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:1127200 original size:51 final size:51
Alignment explanation
Indices: 1127140--1127242 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
1127130 ATAAACCAAA
1127140 ATAGAAGAGACTAATATTGAGTCAAAACATAGCTAATAAAGTACTAATTTT
1 ATAGAAGAGACTAATATTGAGTCAAAACATAGCTAATAAAGTACTAATTTT
1127191 ATAGAAGAGACTAATATTGAGTCAAAACATAGCTAATAAAGTACTAATTTT
1 ATAGAAGAGACTAATATTGAGTCAAAACATAGCTAATAAAGTACTAATTTT
1127242 A
1 A
1127243 GGCGTCGTGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.29
Consensus pattern (51 bp):
ATAGAAGAGACTAATATTGAGTCAAAACATAGCTAATAAAGTACTAATTTT
Found at i:1128467 original size:19 final size:18
Alignment explanation
Indices: 1128407--1128504 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
1128397 ATTTCAACGA
1128407 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
1128426 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
*
1128442 --CGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1128458 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1128474 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1128490 TTTTGTATCGATACA
1 -TTTGTATCGATACA
1128505 ATGTAAGCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
19 23 0.36
20 12 0.19
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1128479 original size:13 final size:13
Alignment explanation
Indices: 1128461--1128485 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1128451 ACATAAGTGT
1128461 TGTATCGATACAA
1 TGTATCGATACAA
1128474 TGTATCGATACA
1 TGTATCGATACA
1128486 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1128506 original size:32 final size:32
Alignment explanation
Indices: 1128409--1128509 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
1128399 TTCAACGATT
1128409 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
*
1128442 CGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1128474 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1128506 TGTA
1 TGTA
1128510 AGCTATTGCC
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 53 0.82
33 12 0.18
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1128565 original size:13 final size:13
Alignment explanation
Indices: 1128547--1128571 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1128537 ATTACTCAAA
1128547 TGTATCGATACAT
1 TGTATCGATACAT
1128560 TGTATCGATACA
1 TGTATCGATACA
1128572 CTGATCTTTG
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:1128615 original size:86 final size:84
Alignment explanation
Indices: 1128461--1128644 Score: 212
Period size: 86 Copynumber: 2.2 Consensus size: 84
1128451 ACATAAGTGT
* * *
1128461 TGTATCGATACAATGTATCGATACATAAGTTTTGTATCGATACAATGTAAGCTATTGCCAAAAAA
1 TGTATCGATACATTGTATCGATACATAAGTTTTGTATCGATACAATGCAAGCAATTGCC-AAAAA
* *
1128526 TGTATCGATACATTACTCAAA
65 TGTATCGATACACTA-TAAAA
* * *
1128547 TGTATCGATACATTGTATCGATACACTGA-TCTTTGTATCGATAC-ATGCAGGCAAGTTTGCC-T
1 TGTATCGATACATTGTATCGATACA-TAAGT-TTTGTATCGATACAATGCAAGCAA--TTGCCAA
*
1128609 AGATGTATCGATACACTATAAAA
62 AAATGTATCGATACACTATAAAA
1128632 TGTATCGATACAT
1 TGTATCGATACAT
1128645 GCAGGCAAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
85 17 0.20
86 48 0.56
87 15 0.18
88 5 0.06
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (84 bp):
TGTATCGATACATTGTATCGATACATAAGTTTTGTATCGATACAATGCAAGCAATTGCCAAAAAT
GTATCGATACACTATAAAA
Found at i:1128624 original size:52 final size:52
Alignment explanation
Indices: 1128580--1128812 Score: 394
Period size: 52 Copynumber: 4.5 Consensus size: 52
1128570 CACTGATCTT
* *
1128580 TGTATCGATACATGCAGGCAAGTTTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1128632 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1128684 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * * * *
1128736 TGTATTGATACATGCAGGCAAATTTGCCCAAATATATCGATGCACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1128788 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1128813 TCATATTTCG
Statistics
Matches: 171, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 171 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1135371 original size:20 final size:19
Alignment explanation
Indices: 1135346--1135434 Score: 81
Period size: 20 Copynumber: 4.5 Consensus size: 19
1135336 CCTTGAAAGG
1135346 ATCGATACATATCCAGATGT
1 ATCGATACATATCCA-ATGT
* **
1135366 ATCGATACATCATGCTTTGT
1 ATCGATACAT-ATCCAATGT
* * *
1135386 ATCGATACATGTTCATTGT
1 ATCGATACATATCCAATGT
1135405 ATCGATACATA-CACAATTGT
1 ATCGATACATATC-CAA-TGT
1135425 ATCGATACAT
1 ATCGATACAT
1135435 GAAACTGGCA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
19 18 0.32
20 36 0.63
21 3 0.05
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (19 bp):
ATCGATACATATCCAATGT
Found at i:1140103 original size:20 final size:20
Alignment explanation
Indices: 1140078--1140202 Score: 108
Period size: 20 Copynumber: 5.7 Consensus size: 20
1140068 TTCTAACTAG
1140078 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
1140098 ATGTATCGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
1140129 ATGTATCGATACATT-AAAGA
1 ATGTATCGATACATTGAAA-A
* * *
1140149 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
1140169 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
1140189 ATGTATCGATACAT
1 ATGTATCGATACAT
1140203 CTGGTACTTT
Statistics
Matches: 88, Mismatches: 5, Indels: 24
0.75 0.04 0.21
Matches are distributed among these distances:
20 63 0.72
21 4 0.05
22 1 0.01
23 1 0.01
28 1 0.01
29 1 0.01
30 2 0.02
31 15 0.17
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:1141078 original size:38 final size:38
Alignment explanation
Indices: 1141029--1141152 Score: 116
Period size: 38 Copynumber: 3.4 Consensus size: 38
1141019 GTTTCTACCG
*
1141029 ACTTGCGTGGGCTTTTCTTTAAAAAAAAGGTGCCACTA
1 ACTTGTGTGGGCTTTTCTTTAAAAAAAAGGTGCCACTA
* * * * **
1141067 ACTTATGTGGG-----CTTT-GAAAAGAGTTGCCACCG
1 ACTTGTGTGGGCTTTTCTTTAAAAAAAAGGTGCCACTA
* * *
1141099 ACTCGTGTGGGCTTTTTTTTAAAAAAAAAGTGCCACTA
1 ACTTGTGTGGGCTTTTCTTTAAAAAAAAGGTGCCACTA
1141137 ACTTGTGTGGGCTTTT
1 ACTTGTGTGGGCTTTT
1141153 AAAAGAGTTG
Statistics
Matches: 63, Mismatches: 17, Indels: 12
0.68 0.18 0.13
Matches are distributed among these distances:
32 21 0.33
33 4 0.06
37 3 0.05
38 35 0.56
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (38 bp):
ACTTGTGTGGGCTTTTCTTTAAAAAAAAGGTGCCACTA
Found at i:1141122 original size:70 final size:70
Alignment explanation
Indices: 1141009--1141181 Score: 265
Period size: 70 Copynumber: 2.5 Consensus size: 70
1140999 ACAGTGGTGA
* * * * * *
1141009 TTTGAAAAGGGTTTCTACCGACTTGCGTGGGCTTTTCTTTAAAAAAAAGGTGCCACTAACTTATG
1 TTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTTCTTTAAAAAAAAAGTGCCACTAACTTATG
1141074 TGGGC
66 TGGGC
* *
1141079 TTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTTTTTTAAAAAAAAAGTGCCACTAACTTGTG
1 TTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTTCTTTAAAAAAAAAGTGCCACTAACTTATG
1141144 TGGGC
66 TGGGC
*
1141149 TTTTAAAAGAGTTGCCACCGACTCGTGTGGGCT
1 TTTGAAAAGAGTTGCCACCGACTCGTGTGGGCT
1141182 CTGAAAAGAG
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 94 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (70 bp):
TTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTTCTTTAAAAAAAAAGTGCCACTAACTTATG
TGGGC
Found at i:1141210 original size:30 final size:32
Alignment explanation
Indices: 1141141--1141222 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
1141131 CCACTAACTT
* *
1141141 GTGTGGGCTTTTAAAAGAGTTGCCACCGACTC
1 GTGTGGGCTTTGAAAAGAGTTACCACCGACTC
* *
1141173 GTGTGGGCTCTGAAAAGAGTTACCACTG-C-C
1 GTGTGGGCTTTGAAAAGAGTTACCACCGACTC
*
1141203 TTGTGGGCTTTGAAAAGAGT
1 GTGTGGGCTTTGAAAAGAGT
1141223 GCCACTAACT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
30 19 0.43
31 1 0.02
32 24 0.55
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (32 bp):
GTGTGGGCTTTGAAAAGAGTTACCACCGACTC
Found at i:1141290 original size:28 final size:28
Alignment explanation
Indices: 1141195--1141764 Score: 584
Period size: 28 Copynumber: 19.8 Consensus size: 28
1141185 AAAAGAGTTA
* *
1141195 CCACTGCCTTGTGGGCTTTGAAAAGAGTG
1 CCACTGACTTGTGGGCTTTG-AAAGGGTG
* * * *
1141224 CCACTAACTTATAGGCTTTGAATAGAGTG
1 CCACTGACTTGTGGGCTTTGAA-AGGGTG
* * *
1141253 CCACTAACTTATAGGCTTTGAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
*
1141281 CCACTGACTTGTGGGCTTTGAAAAGAGTG
1 CCACTGACTTGTGGGCTTTG-AAAGGGTG
* ** *
1141310 CCATTGACTTGTCAGCTTTGAAAGAGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
1141338 CCACTGACTTGTGGGCTTTGAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* *
1141366 CCACTGACTTGTGGTCTTTGAAATGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* * * *
1141394 CCATTAACTTATGGGCTTTGAAAAGAGTG
1 CCACTGACTTGTGGGCTTTG-AAAGGGTG
*
1141423 CCACTGACTTATGGGCTTTGAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* * *
1141451 CCACTGACTTGTGGGTTTTAAAAAGAGTG
1 CCACTGACTTGTGGGCTTT-GAAAGGGTG
*
1141480 CCACTGACTTATGGGCTTTGAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
* * * * * *
1141508 CCAATGACTTATGGGCTCTAAAACGATG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
*
1141536 CCACTGACTTGTGGGCTTTGAAAAGAGTG
1 CCACTGACTTGTGGGCTTTG-AAAGGGTG
* * *
1141565 CCACTAACTTGTAGGCTTTAAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
1141593 CCACTGACTTGTGGGCTTTGAAAGGGTTGAAAGGGTG
1 CCACTGACTTGTGGGC--T-------TTGAAAGGGTG
* * * *
1141630 CCACTAACTCGTGGGCTTTAAAAAGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
*
1141658 CCACTGACTTGTGGGCTTTGAAA-GATG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
*
1141685 CCACTAACTTACGTGGGCTTTGAAAGGGTG
1 CCACTGACTT--GTGGGCTTTGAAAGGGTG
* * *
1141715 CCACTGACTTGTGGACTTTAAAAAGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGGTG
1141743 CCACTGACTTGTGGGCTTTGAA
1 CCACTGACTTGTGGGCTTTGAA
1141765 GAGATGAACG
Statistics
Matches: 454, Mismatches: 70, Indels: 35
0.81 0.13 0.06
Matches are distributed among these distances:
27 12 0.03
28 253 0.56
29 151 0.33
30 13 0.03
35 1 0.00
37 24 0.05
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (28 bp):
CCACTGACTTGTGGGCTTTGAAAGGGTG
Found at i:1141300 original size:57 final size:57
Alignment explanation
Indices: 1141174--1141764 Score: 629
Period size: 57 Copynumber: 10.2 Consensus size: 57
1141164 CACCGACTCG
* * * *
1141174 TGTGGGCTCTGAAAAGAGTTACCACTGCCTTGTGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACT
* * * * * * *
1141233 TATAGGCTTTGAATAGAGTGCCACTAACTTATAGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* ** * *
1141290 TGTGGGCTTTGAAAAGAGTGCCATTGACTTGTCAGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* * * *
1141347 TGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGTCTTTGAAATGGTGCCATTAACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* * *
1141403 TATGGGCTTTGAAAAGAGTGCCACTGACTTATGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* * * * *
1141460 TGTGGGTTTTAAAAAGAGTGCCACTGACTTATGGGCTTTGAAAGGGTGCCAATGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* * *
1141517 TATGGGCTCT-AAAACGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAA-GAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACT
* *
1141574 TGTAGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTTGAAAGGGTGCCACTAAC
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC--T-------TTGAAAGGGTGCCACTAAC
1141638 T
57 T
* * *
1141639 CGTGGGCTTTAAAAAG-GTGCCACTGACTTGTGGGCTTTGAAA-GATGCCACTAACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* * * * *
1141694 TACGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGACTTTAAAAAGGTGCCACTGACT
1 T--GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
1141752 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
1141765 GAGATGAACG
Statistics
Matches: 452, Mismatches: 61, Indels: 40
0.82 0.11 0.07
Matches are distributed among these distances:
55 12 0.03
56 92 0.20
57 252 0.56
58 29 0.06
59 15 0.03
63 1 0.00
65 43 0.10
66 8 0.02
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (57 bp):
TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
Found at i:1141372 original size:85 final size:85
Alignment explanation
Indices: 1141122--1141764 Score: 682
Period size: 85 Copynumber: 7.4 Consensus size: 85
1141112 TTTTTTTAAA
* * * * *
1141122 AAAAAAGTGCCACTAACTTGTGTGGGCTTTTAAAAGAGTTGCCACCGACTCGTGTGGGCTCTGAA
1 AAAAGAGTGCCACTGAC-T-TGTGGGC-TTTGAAAGAG-TGCCACTGACT--TGTGGGCTTTG-A
* * *
1141187 AAGAGTTACCACTGCCTTGTGGGCTTTG
59 AAG-GGTGCCACTGACTTGTGGGCTTTG
* * * * * *
1141215 AAAAGAGTGCCACTAACTTATAGGCTTTGAATAGAGTGCCACTAACTTATAGGCTTTGAAAGGGT
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAA-AGAGTGCCACTGACTTGTGGGCTTTGAAAGGGT
1141280 GCCACTGACTTGTGGGCTTTG
65 GCCACTGACTTGTGGGCTTTG
* **
1141301 AAAAGAGTGCCATTGACTTGTCAGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTG
*
1141366 CCACTGACTTGTGGTCTTTG
66 CCACTGACTTGTGGGCTTTG
* * * * *
1141386 AAATG-GTGCCATTAACTTATGGGCTTTGAAAAGAGTGCCACTGACTTATGGGCTTTGAAAGGGT
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGT
* *
1141450 GCCACTGACTTGTGGGTTTTA
65 GCCACTGACTTGTGGGCTTTG
* * * * * * * *
1141471 AAAAGAGTGCCACTGACTTATGGGCTTTGAAAGGGTGCCAATGACTTATGGGCTCTAAAACGATG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTG
1141536 CCACTGACTTGTGGGCTTTG
66 CCACTGACTTGTGGGCTTTG
* * * *
1141556 AAAAGAGTGCCACTAACTTGTAGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTT
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGC--T-------TT
* * *
1141621 GAAAGGGTGCCACTAACTCGTGGGCTTTA
57 GAAAGGGTGCCACTGACTTGTGGGCTTTG
*
1141650 AAAAG-GTGCCACTGACTTGTGGGCTTTGAAAGA-TGCCACTAACTTACGTGGGCTTTGAAAGGG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTT--GTGGGCTTTGAAAGGG
* *
1141713 TGCCACTGACTTGTGGACTTTA
64 TGCCACTGACTTGTGGGCTTTG
1141735 AAAAG-GTGCCACTGACTTGTGGGCTTTGAA
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAA
1141765 GAGATGAACG
Statistics
Matches: 474, Mismatches: 62, Indels: 36
0.83 0.11 0.06
Matches are distributed among these distances:
84 19 0.04
85 263 0.55
86 68 0.14
87 5 0.01
88 8 0.02
90 14 0.03
91 9 0.02
92 13 0.03
93 40 0.08
94 35 0.07
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (85 bp):
AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTG
CCACTGACTTGTGGGCTTTG
Found at i:1141658 original size:65 final size:65
Alignment explanation
Indices: 1141557--1141681 Score: 214
Period size: 65 Copynumber: 1.9 Consensus size: 65
1141547 TGGGCTTTGA
* *
1141557 AAAGAGTGCCACTAACTTGTAGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTTG
1 AAAGAGTGCCACTAACTCGTAGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTTG
* *
1141622 AAAGGGTGCCACTAACTCGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTTGAAAG
1 AAAGAGTGCCACTAACTCGTAGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTTGAAAG
1141682 ATGCCACTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (65 bp):
AAAGAGTGCCACTAACTCGTAGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTTG
Found at i:1141660 original size:122 final size:121
Alignment explanation
Indices: 1141497--1141733 Score: 350
Period size: 122 Copynumber: 1.9 Consensus size: 121
1141487 CTTATGGGCT
* * *
1141497 TTGAAAGGGTGCCAATGACTTATGGGCTCTAAAACGATGCCACTGACTTGTGGGCTTTGAAAAGA
1 TTGAAAGGGTGCCAATAACTCATGGGCTCTAAAAAGATGCCACTGACTTGTGGGCTTTG-AAAGA
*
1141562 GTGCCACTAACTT-GTAGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGG
65 -TGCCACTAACTTAGTAGGCTTTAAAAGGGTGCCACTGACTTGTGGACTTTGAAAGGG
* * * *
1141619 TTGAAAGGGTGCCACTAACTCGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGAT
1 TTGAAAGGGTGCCAATAACTCATGGGCTCTAAAAAGATGCCACTGACTTGTGGGCTTTGAAAGAT
* *
1141684 GCCACTAACTTACGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGACTTT
66 GCCACTAACTTA-GTAGGCTTTAAAAGGGTGCCACTGACTTGTGGACTTT
1141734 AAAAAGGTGC
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
120 12 0.12
121 5 0.05
122 86 0.83
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (121 bp):
TTGAAAGGGTGCCAATAACTCATGGGCTCTAAAAAGATGCCACTGACTTGTGGGCTTTGAAAGAT
GCCACTAACTTAGTAGGCTTTAAAAGGGTGCCACTGACTTGTGGACTTTGAAAGGG
Found at i:1141716 original size:150 final size:150
Alignment explanation
Indices: 1141472--1141764 Score: 412
Period size: 150 Copynumber: 2.0 Consensus size: 150
1141462 TGGGTTTTAA
* * * *
1141472 AAAGAGTGCCACTGACTTATGGGCTTTGAAAGGGTGCCAATGACTTATGGGCTCTAAAACGATGC
1 AAAGAGTGCCACTAACTCATGGGCTTTAAAAAGGTGCCAATGACTTATGGGCTCTAAAACGATGC
* *
1141537 CACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTAGG-CTTTAAAAGGGTGCCACTGAC
66 CACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGT-GGACTTTAAAAAGGTGCCACTGAC
1141601 TTGTGGGCTTTGAAAGGGTTG
130 TTGTGGGCTTTGAAAGGGTTG
* * * * * *
1141622 AAAGGGTGCCACTAACTCGTGGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTTGAAA-GATGC
1 AAAGAGTGCCACTAACTCATGGGCTTTAAAAAGGTGCCAATGACTTATGGGCTCTAAAACGATGC
* *
1141686 CACTAACTTACGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGACTTTAAAAAGGTGCCACTGA
66 CACTAACTT--GTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGACTTTAAAAAGGTGCCACTGA
1141750 CTTGTGGGCTTTGAA
129 CTTGTGGGCTTTGAA
1141765 GAGATGAACG
Statistics
Matches: 126, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
149 15 0.12
150 101 0.80
151 10 0.08
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (150 bp):
AAAGAGTGCCACTAACTCATGGGCTTTAAAAAGGTGCCAATGACTTATGGGCTCTAAAACGATGC
CACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGACTTTAAAAAGGTGCCACTGACT
TGTGGGCTTTGAAAGGGTTG
Found at i:1143010 original size:1 final size:1
Alignment explanation
Indices: 1143006--1143076 Score: 52
Period size: 1 Copynumber: 71.0 Consensus size: 1
1142996 TTTTTATTGG
* * ** * * * * * *
1143006 TTTTTTTTGTTTTTTTATTTTTCGTTTATTTTTGTTTTTTTCTATTTTTTTGTTTTTTTTTATTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1143071 TTTTTT
1 TTTTTT
1143077 GGGTATAAAA
Statistics
Matches: 51, Mismatches: 19, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.86
Consensus pattern (1 bp):
T
Found at i:1143024 original size:28 final size:27
Alignment explanation
Indices: 1142993--1143074 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 27
1142983 ATTTTTTTCC
1142993 TATTTTTTATTGGTTTTTTTTGTTTTTT
1 TATTTTTT-TTGGTTTTTTTTGTTTTTT
*
1143021 TA---TTTTTCGTTTATTTTTGTTTTTT
1 TATTTTTTTTGGTTT-TTTTTGTTTTTT
* * *
1143046 TCTATTTTTTTGTTTTTTTTTATTTTTT
1 TAT-TTTTTTTGGTTTTTTTTGTTTTTT
1143074 T
1 T
1143075 TTGGGTATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
24 6 0.14
25 16 0.36
28 14 0.32
29 8 0.18
ACGTcount: A:0.07, C:0.02, G:0.07, T:0.83
Consensus pattern (27 bp):
TATTTTTTTTGGTTTTTTTTGTTTTTT
Found at i:1143027 original size:18 final size:18
Alignment explanation
Indices: 1142996--1143074 Score: 81
Period size: 18 Copynumber: 4.4 Consensus size: 18
1142986 TTTTTCCTAT
* *
1142996 TTTTTATTGGTTTTTTTTG
1 TTTTT-TTGTTTTTTTTTA
* *
1143015 TTTTTTTATTTTTCGTTTA
1 TTTTTTTGTTTTT-TTTTA
*
1143034 --TTTTTGTTTTTTTCTA
1 TTTTTTTGTTTTTTTTTA
1143050 TTTTTTTGTTTTTTTTTA
1 TTTTTTTGTTTTTTTTTA
1143068 TTTTTTT
1 TTTTTTT
1143075 TTGGGTATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
16 3 0.06
17 10 0.20
18 28 0.57
19 8 0.16
ACGTcount: A:0.06, C:0.03, G:0.08, T:0.84
Consensus pattern (18 bp):
TTTTTTTGTTTTTTTTTA
Found at i:1143053 original size:10 final size:9
Alignment explanation
Indices: 1142982--1143075 Score: 61
Period size: 9 Copynumber: 10.1 Consensus size: 9
1142972 GACCCCTTTC
1142982 TATTTTTTT
1 TATTTTTTT
1142991 CCTATTTTTTAT
1 --TATTTTTT-T
*
1143003 TGGTTTTTTT
1 T-ATTTTTTT
*
1143013 T-GTTTTTT
1 TATTTTTTT
1143021 TATTTTTCGTT
1 TATTTTT--TT
*
1143032 TA-TTTTTG
1 TATTTTTTT
*
1143040 T-TTTTTTC
1 TATTTTTTT
1143048 TATTTTTTT
1 TATTTTTTT
1143057 GT-TTTTTTT
1 -TATTTTTTT
1143066 TATTTTTTT
1 TATTTTTTT
1143075 T
1 T
1143076 TGGGTATAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 20
0.72 0.06 0.21
Matches are distributed among these distances:
8 16 0.24
9 25 0.37
10 8 0.12
11 18 0.26
12 1 0.01
ACGTcount: A:0.07, C:0.04, G:0.06, T:0.82
Consensus pattern (9 bp):
TATTTTTTT
Found at i:1143076 original size:10 final size:10
Alignment explanation
Indices: 1142995--1143076 Score: 58
Period size: 10 Copynumber: 7.6 Consensus size: 10
1142985 TTTTTTCCTA
1142995 TTTTTTATTGGT
1 TTTTTTATT--T
*
1143007 TTTTTT-TGT
1 TTTTTTATTT
1143016 TTTTTTATTT
1 TTTTTTATTT
*
1143026 TTCGTTTATTTT
1 TT-TTTTA-TTT
*
1143038 TGTTTTTTTCTAT
1 T-TTTTTAT-T-T
*
1143051 TTTTTTGTTT
1 TTTTTTATTT
1143061 TTTTTTATTT
1 TTTTTTATTT
1143071 TTTTTT
1 TTTTTT
1143077 GGGTATAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
9 7 0.12
10 20 0.35
11 7 0.12
12 20 0.35
13 3 0.05
ACGTcount: A:0.06, C:0.02, G:0.07, T:0.84
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:1156765 original size:20 final size:20
Alignment explanation
Indices: 1156720--1156757 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1156710 AAAAAGACAA
*
1156720 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTCAAG
1156740 AATGTATCGATACATTCA
1 AATGTATCGATACATTCA
1156758 TACATGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTCAAG
Found at i:1161696 original size:13 final size:13
Alignment explanation
Indices: 1161678--1161702 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1161668 GTACAAGTGT
1161678 TGTATCGATACAA
1 TGTATCGATACAA
1161691 TGTATCGATACA
1 TGTATCGATACA
1161703 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1161717 original size:32 final size:29
Alignment explanation
Indices: 1161660--1161729 Score: 104
Period size: 32 Copynumber: 2.3 Consensus size: 29
1161650 ACAAACAGTA
1161660 AATGTATCGTACAAGTGTTGTATCGATAC
1 AATGTATCGTACAAGTGTTGTATCGATAC
*
1161689 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCG-TAC--AAGTGTTGTATCGATAC
1161721 AATGTATCG
1 AATGTATCG
1161730 CTACGAAGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
29 9 0.24
30 3 0.08
32 25 0.68
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.36
Consensus pattern (29 bp):
AATGTATCGTACAAGTGTTGTATCGATAC
Found at i:1161776 original size:20 final size:20
Alignment explanation
Indices: 1161751--1161818 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
1161741 CTGCCAAGGA
1161751 AATGTATCGATACATTACTC
1 AATGTATCGATACATTACTC
1161771 AATGTATCG----A-TA--C
1 AATGTATCGATACATTACTC
1161784 -ATGTATCGATACATTACTC
1 AATGTATCGATACATTACTC
1161803 AATGTATCGATACATT
1 AATGTATCGATACATT
1161819 GTATCGATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 16
0.71 0.00 0.29
Matches are distributed among these distances:
12 8 0.20
13 1 0.03
15 2 0.05
16 2 0.05
17 2 0.05
19 1 0.03
20 24 0.60
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTACTC
Found at i:1161789 original size:12 final size:12
Alignment explanation
Indices: 1161772--1161831 Score: 67
Period size: 12 Copynumber: 5.2 Consensus size: 12
1161762 ACATTACTCA
1161772 ATGTATCGATAC
1 ATGTATCGATAC
1161784 ATGTATCGATAC
1 ATGTATCGATAC
1161796 AT-TA-C--T-C
1 ATGTATCGATAC
1161803 AATGTATCGATAC
1 -ATGTATCGATAC
1161816 ATTGTATCGATAC
1 A-TGTATCGATAC
1161829 ATG
1 ATG
1161832 ATCTTGTATC
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
7 1 0.02
8 3 0.07
9 2 0.05
10 2 0.05
11 2 0.05
12 18 0.44
13 13 0.32
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:1161793 original size:32 final size:32
Alignment explanation
Indices: 1161752--1161848 Score: 153
Period size: 32 Copynumber: 3.1 Consensus size: 32
1161742 TGCCAAGGAA
1161752 ATGTATCGATACATTACTCAATGTATCGATAC
1 ATGTATCGATACATTACTCAATGTATCGATAC
1161784 ATGTATCGATACATTACTCAATGTATCGATAC
1 ATGTATCGATACATTACTCAATGTATCGATAC
* *
1161816 ATTGTATCGATACATGA-TC-TTGTATCGATAC
1 A-TGTATCGATACATTACTCAATGTATCGATAC
1161847 AT
1 AT
1161849 TTGGGAAATT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
30 1 0.02
31 12 0.19
32 35 0.56
33 14 0.23
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (32 bp):
ATGTATCGATACATTACTCAATGTATCGATAC
Found at i:1175767 original size:14 final size:13
Alignment explanation
Indices: 1175744--1175847 Score: 83
Period size: 12 Copynumber: 8.1 Consensus size: 13
1175734 GGCGTCCTCC
*
1175744 ACAAAAAAAAACAA
1 ACAAACAAAAA-AA
1175758 ACAAACAAAAAAA
1 ACAAACAAAAAAA
*
1175771 AGAAGA-AAAAAAA
1 ACAA-ACAAAAAAA
*
1175784 ACAAA-ACAAAAA
1 ACAAACAAAAAAA
* *
1175796 A-AAAGAGAAAAA
1 ACAAACAAAAAAA
1175808 ACAAAACAAAAAAAA
1 AC-AAAC-AAAAAAA
1175823 ACAAAC-AAAAAA
1 ACAAACAAAAAAA
*
1175835 AC-AACAACAAAA
1 ACAAACAAAAAAA
1175847 A
1 A
1175848 GGGTCCGGAT
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
11 6 0.08
12 29 0.38
13 15 0.20
14 18 0.24
15 8 0.11
ACGTcount: A:0.84, C:0.12, G:0.04, T:0.00
Consensus pattern (13 bp):
ACAAACAAAAAAA
Found at i:1175782 original size:30 final size:28
Alignment explanation
Indices: 1175746--1175845 Score: 105
Period size: 30 Copynumber: 3.5 Consensus size: 28
1175736 CGTCCTCCAC
1175746 AAAAAAAAACAAACAAACAAAAAAAAGAA
1 AAAAAAAAACAAACAAA-AAAAAAAAGAA
*
1175775 GAAAAAAAAACAAAACAAAAAAAAAGAGAA
1 -AAAAAAAAAC-AAACAAAAAAAAAAAGAA
*
1175805 AAAACAAAACAAA-AAAAAACAAACAA-AA
1 AAAAAAAAACAAACAAAAAA-AAA-AAGAA
* *
1175833 AAACAACAACAAA
1 AAAAAAAAACAAA
1175846 AAGGGTCCGG
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
27 6 0.10
28 18 0.30
29 10 0.16
30 20 0.33
31 7 0.11
ACGTcount: A:0.84, C:0.12, G:0.04, T:0.00
Consensus pattern (28 bp):
AAAAAAAAACAAACAAAAAAAAAAAGAA
Found at i:1175790 original size:27 final size:26
Alignment explanation
Indices: 1175749--1175847 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 26
1175739 CCTCCACAAA
1175749 AAAAAACAAAC-AAACAAAAAAAAGAAG
1 AAAAAA-AAACAAAACAAAAAAAA-AAG
1175776 AAAAAAAAACAAAAC-AAAAAAAAAG
1 AAAAAAAAACAAAACAAAAAAAAAAG
*
1175801 -AGAAAAAACAAAACAAAAAAAAACA-
1 AAAAAAAAACAAAACAAAAAAAAA-AG
1175826 AACAAAAAAACAACAACAAAAA
1 AA-AAAAAAACAA-AACAAAAA
1175848 GGGTCCGGAT
Statistics
Matches: 64, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
24 13 0.20
25 11 0.17
26 13 0.20
27 19 0.30
28 8 0.12
ACGTcount: A:0.84, C:0.12, G:0.04, T:0.00
Consensus pattern (26 bp):
AAAAAAAAACAAAACAAAAAAAAAAG
Found at i:1175847 original size:1 final size:1
Alignment explanation
Indices: 1175746--1175835 Score: 63
Period size: 1 Copynumber: 90.0 Consensus size: 1
1175736 CGTCCTCCAC
* * * * * * * * * *
1175746 AAAAAAAAACAAACAAACAAAAAAAAGAAGAAAAAAAAACAAAACAAAAAAAAAGAGAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
1175811 AAACAAAAAAAAACAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
1175836 CAACAACAAA
Statistics
Matches: 63, Mismatches: 26, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.86, C:0.10, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:1177261 original size:28 final size:28
Alignment explanation
Indices: 1177228--1177391 Score: 204
Period size: 28 Copynumber: 5.8 Consensus size: 28
1177218 CATCTTTTCC
1177228 AAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
1177256 AAAGCCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAAC-CTTCA
*
1177285 AAAGCCCACAAGTTAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
*
1177313 AAAGCCCACAAGTCAGTGGCACCCTTTTTC-
1 AAAGCCCACAAGTCAGTGGCAACC---TTCA
* *
1177343 AAAGCCCACAAATCAGTGGCAACCTTTA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* *
1177371 AAAGCCTACAAGTTAGTGGCA
1 AAAGCCCACAAGTCAGTGGCA
1177392 TCTTTTTTCT
Statistics
Matches: 116, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.02
28 65 0.56
29 24 0.21
30 22 0.19
31 3 0.03
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.20
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:1177303 original size:57 final size:57
Alignment explanation
Indices: 1177214--1177397 Score: 296
Period size: 57 Copynumber: 3.2 Consensus size: 57
1177204 TTCGTTGGTT
1177214 GTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCA
1 GTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCA
*
1177271 GTGGCATCTTTTCCAAAGCCCACAAGTTAGTGGCAACCTTCAAAAGCCCACAAGTCA
1 GTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCA
* * * * * *
1177328 GTGGCACCCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTTAAAAGCCTACAAGTTA
1 GTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCA
1177386 GTGGCATCTTTT
1 GTGGCATCTTTT
1177398 TTCTTTTTAA
Statistics
Matches: 117, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
57 67 0.57
58 50 0.43
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (57 bp):
GTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCA
Found at i:1177476 original size:33 final size:32
Alignment explanation
Indices: 1177396--1177678 Score: 263
Period size: 33 Copynumber: 9.1 Consensus size: 32
1177386 GTGGCATCTT
* * * *
1177396 TTTTCTTTTTAAGTCCACGACTCTGTGTCACCC
1 TTTTCCTTTTAAGTCCACAACTCCGTGGCA-CC
*
1177429 TTTCCCCTTTTAAGTCCACAACTCCGTGGCACC
1 TTT-TCCTTTTAAGTCCACAACTCCGTGGCACC
*
1177462 TTGTTCCTTTTAAGTCCACAACTTCGTGGCA-C
1 TT-TTCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1177494 ----CCTTTGAAGTCCACAACTCCGTGGCATCT
1 TTTTCCTTTTAAGTCCACAACTCCGTGGCA-CC
1177523 TTTTCCTTTTAAGTCCACAACTCCGTGGCATCC
1 TTTTCCTTTTAAGTCCACAACTCCGTGGCA-CC
* *
1177556 TTTTCCTTTTAAGTCCCCAACTCTGTGGCA-C
1 TTTTCCTTTTAAGTCCACAACTCCGTGGCACC
*
1177587 ----CCTTTTAAGCCCACAACTCCGTGGCACTC
1 TTTTCCTTTTAAGTCCACAACTCCGTGGCAC-C
* ***
1177616 TTTTTCCTTTTAAGTCCACGACTATATGGCA-C
1 -TTTTCCTTTTAAGTCCACAACTCCGTGGCACC
1177648 ----CCTTTTAAGTCCACAACTCCGTGGCACC
1 TTTTCCTTTTAAGTCCACAACTCCGTGGCACC
1177676 TTT
1 TTT
1177679 AAGTCCAATA
Statistics
Matches: 205, Mismatches: 26, Indels: 40
0.76 0.10 0.15
Matches are distributed among these distances:
27 69 0.34
28 1 0.00
29 1 0.00
31 1 0.00
32 2 0.01
33 87 0.42
34 44 0.21
ACGTcount: A:0.19, C:0.33, G:0.13, T:0.35
Consensus pattern (32 bp):
TTTTCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1177529 original size:60 final size:60
Alignment explanation
Indices: 1177433--1177558 Score: 207
Period size: 60 Copynumber: 2.1 Consensus size: 60
1177423 TCACCCTTTC
* *
1177433 CCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTTCGTGGCA
1 CCCTTTGAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA
* *
1177493 CCCTTTGAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
1 CCCTTTGAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA
*
1177553 TCCTTT
1 CCCTTT
1177559 TCCTTTTAAG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.19, C:0.33, G:0.14, T:0.33
Consensus pattern (60 bp):
CCCTTTGAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA
Found at i:1177538 original size:93 final size:92
Alignment explanation
Indices: 1177403--1177685 Score: 348
Period size: 93 Copynumber: 3.1 Consensus size: 92
1177393 CTTTTTTCTT
* * * * **
1177403 TTTAAGTCCACGACTCTGTGTCACCCTTTCCCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTC
1 TTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTT-TTC
1177468 CTTTTAAGTCCACAACTTCGTGGCACCC
65 CTTTTAAGTCCACAACTTCGTGGCACCC
1177496 TTTGAAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT
1 TTT-AAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTT
*
1177560 CCTTTTAAGTCCCCAAC-TCTGTGGCACCC
64 CCTTTTAAGTCCACAACTTC-GTGGCACCC
* * ***
1177589 TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACGACTATATGGCA-C----C
1 -TTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTC
*
1177649 CTTTTAAGTCCACAACTCCGTGGCA-CC
65 CTTTTAAGTCCACAACTTCGTGGCACCC
1177676 TTTAAGTCCA
1 TTTAAGTCCA
1177686 ATATCGTTGG
Statistics
Matches: 169, Mismatches: 15, Indels: 19
0.83 0.07 0.09
Matches are distributed among these distances:
86 9 0.05
87 2 0.01
88 22 0.13
89 1 0.01
92 3 0.02
93 79 0.47
94 53 0.31
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.33
Consensus pattern (92 bp):
TTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCC
TTTTAAGTCCACAACTTCGTGGCACCC
Found at i:1177651 original size:61 final size:61
Alignment explanation
Indices: 1177527--1177678 Score: 236
Period size: 61 Copynumber: 2.5 Consensus size: 61
1177517 GCATCTTTTT
* * * *
1177527 CCTTTTAAGTCCACAACTCCGTGGCA-TCCTTTTCCTTTTAAGTCCCCAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTATATGGCAC
* *
1177587 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACGACTATATGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTATATGGCAC
1177648 CCTTTTAAGTCCACAACTCCGTGGCAC-CTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACTCTTT
1177679 AAGTCCAATA
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
60 29 0.35
61 55 0.65
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (61 bp):
CCTTTTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTATATGGCAC
Found at i:1177685 original size:25 final size:27
Alignment explanation
Indices: 1177621--1177685 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
1177611 CACTCTTTTT
* *
1177621 CCTTTTAAGTCCACGACTATATGGCAC
1 CCTTTTAAGTCCACAACTACATGGCAC
* *
1177648 CCTTTTAAGTCCACAACTCCGTGGCA-
1 CCTTTTAAGTCCACAACTACATGGCAC
1177674 CC-TTTAAGTCCA
1 CCTTTTAAGTCCA
1177686 ATATCGTTGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 10 0.29
26 2 0.06
27 22 0.65
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTACATGGCAC
Found at i:1177840 original size:43 final size:43
Alignment explanation
Indices: 1177775--1178413 Score: 143
Period size: 49 Copynumber: 13.1 Consensus size: 43
1177765 CCTTAACCAT
* * **
1177775 CTTTAAGACCAATGTCGTTGGCCTTGAATCAGTGCATTGGCAC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* *
1177818 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * **
1177861 CTTTACCCTCTTGAGTCCAATATTGCTGGCCTTGAATCAGCGTATTGGCACCCTTCTC
1 CTTTA--------AGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA-------C
* *
1177919 ATCTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACGTTGGCA-
1 --C-TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * * * *
1177964 C---AAGTCCAATATCGCTGACCTTGACTCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATT---G-----G-CAC
* * *
1178013 CTTTAAAACCAATGTCGCTGGCCATGAATCAGCACATTGGCATCTTC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA----C
* ** * *
1178060 ATCTTTAAGTCCGGTATCGCTGGCCTTGAATCAGCATATTGGCGCC
1 --CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGC-AC
*
1178106 TTTGTCATTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTC
1 -----C---TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA----C
* ** * *
1178161 ATCTTTAAGTCCGGTATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCAT
1 --CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATT---G-----G-CAC
* * *
1178215 CTTTAAAACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA----C
* * * * *
1178262 ATCTTTAAGTCCAATATCGTTGGCCTTGAATTAGCATATTAACGCCTTCATC
1 --CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATT---G---GCA-C
* *
1178314 ATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
1 --CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA-C
* * * *
1178360 TTCATCCTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCAT
1 --C-T--TTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
1178408 CTTTAA
1 CTTTAA
1178414 CATTTCTAAG
Statistics
Matches: 443, Mismatches: 81, Indels: 144
0.66 0.12 0.22
Matches are distributed among these distances:
39 28 0.06
42 1 0.00
43 51 0.12
44 2 0.00
45 1 0.00
46 7 0.02
47 2 0.00
48 2 0.00
49 138 0.31
51 35 0.08
52 133 0.30
53 31 0.07
55 3 0.01
57 1 0.00
58 3 0.01
60 1 0.00
61 4 0.01
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (43 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:1177952 original size:53 final size:51
Alignment explanation
Indices: 1177819--1178458 Score: 395
Period size: 52 Copynumber: 12.8 Consensus size: 51
1177809 CATTGGCACC
1177819 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCCT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCCT
* * * * *
1177870 CTTGAGTCCAATATTGCTGGCCTTGAATCAGCGTATTGGCACCCTTCT-CATCT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTT-TAC-CCT
* * **
1177923 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACGTTGG---C---A--C-
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCCT
* * * ** *
1177965 ---AAGTCCAATATCGCTGACCTTGACTCAGCATATTGGCGCCTTTGTCAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCCT
** * * * * * *
1178013 CTTTAAAACCAATGTCGCTGGCCATGAATCAGCACATTGGCATCTTCA-TC-
1 -TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCCT
** * * **
1178063 TTTAAGTCCGGTATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-ACCCT
* * * * * *
1178115 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCA-TC-
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCCT
** * *** *
1178164 TTTAAGTCCGGTATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCCT
** * * * * *
1178215 CTTTAAAACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCA-TC-
1 -TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCCT
* * ** * * * *
1178265 TTTAAGTCCAATATCGTTGGCCTTGAATTAGCATATTAACGCCTTCATCAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCCT
** * * * *
1178316 CTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCC-
1 -TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCCT
* * * *
1178367 -TTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCCT
* * * * ** *
1178417 TTCTAAGCCCAATGTTGCTAGCCTTGTCTCAGCACATTGGCA
1 TT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1178459 TTCTTCTTCA
Statistics
Matches: 442, Mismatches: 118, Indels: 57
0.72 0.19 0.09
Matches are distributed among these distances:
39 30 0.07
42 1 0.00
43 1 0.00
49 153 0.35
51 38 0.09
52 185 0.42
53 34 0.08
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (51 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCCT
Found at i:1178081 original size:49 final size:49
Alignment explanation
Indices: 1177965--1178534 Score: 453
Period size: 52 Copynumber: 11.3 Consensus size: 49
1177955 ACGTTGGCAC
* * * * *
1177965 AAGTCCAATATCGCTGACCTTGACTCAGCATATTGGCGCCTTTGTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATT-G-GCATCT-TCATCTTT
** * *
1178017 AAAACCAATGTCGCTGGCCATGAATCAGCACATTGGCATCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
** * * * *
1178066 AAGTCCGGTATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATTTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATT-G-GCATCT-TCATCTTT
* *
1178118 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
** * * *
1178167 AAGTCCGGTATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATT-G-G-CATCTTCATCTTT
** * * *
1178219 AAAACCAATGTCACTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
* * * * * *
1178268 AAGTCCAATATCGTTGGCCTTGAATTAGCATATTAACGCCTTCATCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATT---GGCATCTTCATCTTT
** * * *
1178320 AAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCCTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
* *
1178369 AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACAT-TTCT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATC-TT--CATCTT-T
* * * * ** * *
1178421 AAGCCCAATGTTGCTAGCCTTGTCTCAGCACATTGGCA--TTCTTCTTC
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
* * * * *
1178468 AAGTCTAATGTCGCTGGCCTTGAATTAGCACATTGTCATTCTTCGTATCTTC
1 AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-TCTTC--ATCTTT
* *
1178520 GAGCCCAATATCGCT
1 AAGTCCAATATCGCT
1178535 AGCCGCATAT
Statistics
Matches: 403, Mismatches: 96, Indels: 38
0.75 0.18 0.07
Matches are distributed among these distances:
47 32 0.08
48 2 0.00
49 154 0.38
50 16 0.04
51 9 0.02
52 190 0.47
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (49 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTT
Done.