Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold389
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: 982648
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 7
Found at i:7596 original size:19 final size:19
Alignment explanation
Indices: 7572--7621 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
7562 ATCGATATAA
*
7572 TGTATCGATGCATAAGTGT
1 TGTATCGATACATAAGTGT
*
7591 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
7610 TGTATCGATACA
1 TGTATCGATACA
7622 ATGTATCGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:7669 original size:13 final size:13
Alignment explanation
Indices: 7651--7677 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7641 CTGCCAAGGA
7651 AATGTATCGATAC
1 AATGTATCGATAC
7664 AATGTATCGATAC
1 AATGTATCGATAC
7677 A
1 A
7678 TTGATCTTTT
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):
AATGTATCGATAC
Found at i:10846 original size:18 final size:17
Alignment explanation
Indices: 10816--10857 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 17
10806 ACGTTACGAC
10816 AACAAAAAAAACAAAGA
1 AACAAAAAAAACAAAGA
10833 AACAAAACAAAACAAAGA
1 AACAAAA-AAAACAAAGA
10851 AA-AAAAA
1 AACAAAAA
10858 GAGAGAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.04
17 11 0.46
18 12 0.50
ACGTcount: A:0.83, C:0.12, G:0.05, T:0.00
Consensus pattern (17 bp):
AACAAAAAAAACAAAGA
Found at i:12355 original size:61 final size:61
Alignment explanation
Indices: 11936--12404 Score: 529
Period size: 62 Copynumber: 7.7 Consensus size: 61
11926 TCTCTCTTTT
* * * * * *
11936 CACCCTTTCGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAACGCCCACACAAATTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGG
** *
11997 CATTTTTCTAGTCCTCAAAGAGCAGAACGCCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTT-TAGTCCTCAAAGAGCAGGACGCCTTTTT-CTTTTAAAGCCCACACAAGTTGGTGG
* * * *
12060 CACC-TTCAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGCTT-GTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAG-TTGGTGG
* *
12120 CACC-TTCAGTCCTTAAAGAGCAGGACG-CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTT-CTTTTAAAGCCCACACAAGTTGGTGG
* * * *
12180 CACCCTTGAGTCC-CTAAAGAGCAGGACGTCTTTTTCTTTTCAAAGCCCACACATGTTGGTGG
1 CACCTTTTAGTCCTC-AAAGAGCAGGACGCCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGG
* * * * * *
12242 CACCTCTTCGTCCTCAAAAAGCATGACGCCTTTTTCCTTTCAAAGCCCACACGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTT-CTTTTAAAGCCCACACAAGTTGGTGG
* *
12304 CACCTTTTAGTCCTTAAAGAGCAGGAC-ACTTTTTCTTTTCAAAGCCCACACGAA-TTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT-AAAGCCCACAC-AAGTTGGTGG
* * * *
12365 CACTTTTTAGTCTTCAAAGAGCAGGACACCTTTTCCTTTT
1 CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT
12405 CTCCTTTGCC
Statistics
Matches: 348, Mismatches: 46, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
59 7 0.02
60 78 0.22
61 102 0.29
62 130 0.37
63 31 0.09
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (61 bp):
CACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:12503 original size:82 final size:84
Alignment explanation
Indices: 12372--12556 Score: 230
Period size: 82 Copynumber: 2.2 Consensus size: 84
12362 TGGCACTTTT
* * ** * * * * *
12372 TAGTCTTCAAAGAGCAGGACACCTTTTCCTTTTCTCCTTTGCCCTCAAAGAGTAGGATATATTTC
1 TAGTCCTCAAAGAGCATGATTCATTTTCCTTTTCTCCTTTGCCCTCAAAGAGCAGGACACACTTC
12437 ATTTCCTTCTTTTCCCTT-
66 ATTTCCTTCTTTTCCCTTC
* * * *
12455 TTGTCCTCAAAGAGCATGATTCATTTTTCTTTT-TCCTTTGTCCTCAAAGAGCAGGACGCACTTC
1 TAGTCCTCAAAGAGCATGATTCATTTTCCTTTTCTCCTTTGCCCTCAAAGAGCAGGACACACTTC
12519 ATTTCCTTCTTTTCCCTTC
66 ATTTCCTTCTTTTCCCTTC
*
12538 TAGTTCTCAAAGAGCATGA
1 TAGTCCTCAAAGAGCATGA
12557 CGCACTTCAT
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
82 43 0.50
83 43 0.50
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.40
Consensus pattern (84 bp):
TAGTCCTCAAAGAGCATGATTCATTTTCCTTTTCTCCTTTGCCCTCAAAGAGCAGGACACACTTC
ATTTCCTTCTTTTCCCTTC
Found at i:12549 original size:46 final size:45
Alignment explanation
Indices: 12434--12768 Score: 259
Period size: 46 Copynumber: 7.9 Consensus size: 45
12424 TAGGATATAT
* *
12434 TTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGC---ATG-A-
1 TTCATTTCCTTCTTTTCCCTTTAGTCCTCAAAGAGCAGGACGCAC
*
12474 TTCATTT--TTCTTTTTCCTTT-GTCCTCAAAGAGCAGGACGCAC
1 TTCATTTCCTTCTTTTCCCTTTAGTCCTCAAAGAGCAGGACGCAC
* *
12516 TTCATTTCCTTCTTTTCCCTTCTAGTTCTCAAAGAGCATGACGCAC
1 TTCATTTCCTTCTTTTCCCTT-TAGTCCTCAAAGAGCAGGACGCAC
*
12562 TTCATTTCCTTCTTTTCCCTTCTAGTTCTCAAAGAGCAGGACGCAC
1 TTCATTTCCTTCTTTTCCCTT-TAGTCCTCAAAGAGCAGGACGCAC
* * * * * * *
12608 TTTA-TT-CTTCTTTTTCCTTT-GTCCTTAAAAAGTAGGACACAT
1 TTCATTTCCTTCTTTTCCCTTTAGTCCTCAAAGAGCAGGACGCAC
* * * * *
12650 TTAATTTCC-T-TTTT-CCTTT-GT-CTCCAAAGGGCATGATGCAT
1 TTCATTTCCTTCTTTTCCCTTTAGTCCT-CAAAGAGCAGGACGCAC
* * *
12691 TTTATTTCCTT-TTTT-CCTTT-GTCCTCAAGGAGCAGGAC-CTAT
1 TTCATTTCCTTCTTTTCCCTTTAGTCCTCAAAGAGCAGGACGC-AC
* *
12733 TTCA-TT-CTCCTTTT-CC-TTAATCCTCAAAGAGCAGGA
1 TTCATTTCCTTCTTTTCCCTTTAGTCCTCAAAGAGCAGGA
12769 TGCTCCCTTC
Statistics
Matches: 247, Mismatches: 31, Indels: 33
0.79 0.10 0.11
Matches are distributed among these distances:
37 13 0.05
38 12 0.05
40 15 0.06
41 50 0.20
42 56 0.23
43 6 0.02
44 24 0.10
45 3 0.01
46 68 0.28
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.42
Consensus pattern (45 bp):
TTCATTTCCTTCTTTTCCCTTTAGTCCTCAAAGAGCAGGACGCAC
Found at i:12593 original size:92 final size:82
Alignment explanation
Indices: 12370--12632 Score: 244
Period size: 83 Copynumber: 3.1 Consensus size: 82
12360 GGTGGCACTT
* * ** * * * * *** *
12370 TTTAGTCTTCAAAGAGCAGGACACCTTTTCCTTTTCTCCTTTGCCCTCAAAGAGTAGGATATATT
1 TTTAGTCCTCAAAGAGCATGATTCATTTTTCTTTTC-CCTTTGTCCTCAAAGAGCAGGACGCACT
12435 TCATTTCCTTCTTTTCCC
65 TCATTTCCTTCTTTTCCC
* *
12453 TTTTGTCCTCAAAGAGCATGATTCATTTTTCTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTT
1 TTTAGTCCTCAAAGAGCATGATTCATTTTTCTTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTT
12518 CATTTCCTTCTTTTCCC
66 CATTTCCTTCTTTTCCC
* *
12535 TTCTAGTTCTCAAAGAGCATGACGCACTTCATTTCCTTCTTTTCCCTTCTAGTTCTCAAAGAGCA
1 TT-TAGTCCTCAAAGAGCAT---G-A-TTCATTT--TTCTTTTCCCTT-T-GTCCTCAAAGAGCA
* *
12600 GGACGCACTTTA-TT-CTTCTTTTTCC
56 GGACGCACTTCATTTCCTTCTTTTCCC
12625 TTT-GTCCT
1 TTTAGTCCT
12633 TAAAAAGTAG
Statistics
Matches: 149, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
82 42 0.28
83 43 0.29
86 1 0.01
87 1 0.01
88 11 0.07
89 1 0.01
90 23 0.15
91 3 0.02
92 24 0.16
ACGTcount: A:0.19, C:0.27, G:0.12, T:0.42
Consensus pattern (82 bp):
TTTAGTCCTCAAAGAGCATGATTCATTTTTCTTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTT
CATTTCCTTCTTTTCCC
Found at i:12761 original size:83 final size:83
Alignment explanation
Indices: 12417--12771 Score: 190
Period size: 83 Copynumber: 4.2 Consensus size: 83
12407 CCTTTGCCCT
* ** * * * **
12417 CAAAGAGTAGGATATATTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCATGATTCA-TT-
1 CAAAGAGCAGGATGCATTTTATTTCCTT-TTTT-CC-TTTGTCCTCAAAAAGCAGGACACATTTA
**
12480 -TTT-CTTTTTCCTTTGTC-C
63 ATTTCCTTTTTCCTTAATCTC
* * * * * * * *
12498 TCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCCCTTCTAGTTCTCAAAGAGCATGACGCACT
1 -CAAAGAGCAGGATGCATTTTATTTCCTT-TTTT-CCTT-T-GTCCTCAAAAAGCAGGACACATT
* *
12563 TCATTTCCTTCTTTTCCCTTCTAGT-TC
61 TAATTTCC-T-TTTT-CC-T-TAATCTC
* * * * *
12590 TCAAAGAGCAGGACGCACTTTA-TTCTTCTTTTTCCTTTGTCCTTAAAAAGTAGGACACATTTAA
1 -CAAAGAGCAGGATGCATTTTATTTCCT-TTTTTCCTTTGTCCTCAAAAAGCAGGACACATTTAA
**
12654 TTTCCTTTTTCCTTTGTCTC
64 TTTCCTTTTTCCTTAATCTC
* * ** *
12674 CAAAGGGCATGATGCATTTTATTTCCTTTTTTCCTTTGTCCTCAAGGAGCAGGAC-CTATTTCAT
1 CAAAGAGCAGGATGCATTTTATTTCCTTTTTTCCTTTGTCCTCAAAAAGCAGGACAC-ATTTAAT
12738 TCTCC-TTTTCCTTAATC-C
65 T-TCCTTTTTCCTTAATCTC
12756 TCAAAGAGCAGGATGC
1 -CAAAGAGCAGGATGC
12772 TCCCTTCCTT
Statistics
Matches: 221, Mismatches: 34, Indels: 35
0.76 0.12 0.12
Matches are distributed among these distances:
81 2 0.01
82 34 0.15
83 92 0.42
84 12 0.05
85 2 0.01
86 7 0.03
87 2 0.01
88 24 0.11
89 5 0.02
90 6 0.03
91 9 0.04
92 26 0.12
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (83 bp):
CAAAGAGCAGGATGCATTTTATTTCCTTTTTTCCTTTGTCCTCAAAAAGCAGGACACATTTAATT
TCCTTTTTCCTTAATCTC
Found at i:13397 original size:20 final size:20
Alignment explanation
Indices: 13372--13443 Score: 108
Period size: 20 Copynumber: 3.6 Consensus size: 20
13362 TCACAATTTA
13372 TATCGATACATTATTCATTG
1 TATCGATACATTATTCATTG
*
13392 TATCGATACATTGTTCATTG
1 TATCGATACATTATTCATTG
* * *
13412 TATCAATACATTTTTCAATG
1 TATCGATACATTATTCATTG
13432 TATCGATACATT
1 TATCGATACATT
13444 CAGGCATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (20 bp):
TATCGATACATTATTCATTG
Found at i:15829 original size:79 final size:78
Alignment explanation
Indices: 15738--16199 Score: 421
Period size: 79 Copynumber: 5.9 Consensus size: 78
15728 TTTTCATCTC
* * * *
15738 GGGGATACTCCAA-CCCTAGTTTTATTTCCAAAACATCAATTTTTCATAATCGAGGATACTCTAA
1 GGGGATACTCCAACCCCGA-TTTTATTTCCAAAACACCGATTTTTCATAATCGAGGATACTCCAA
15802 TCCCGTTATTTTCGA
65 -CCCGTTATTTTCGA
* * * * * ** * *
15817 GGGGATACTCCAAACCTGACTTTATTTCTAAAATATTGATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCGATTTTTCATAATCGAGGATACTCCAAC
* *
15882 CCTGTTATTTTGGC
66 CC-GTTATTTTCGA
* ** * * * * * * *
15896 GGGGACACTCCAACCCCGACCTTATTTCTAAAGCATCAATTTTCCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCGATTTTTCATAATCGAGGATACTCCAA-
*
15961 CCCGTTATTTTTGA
65 CCCGTTATTTTCGA
* * *
15975 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCGA-TTCTCTATAAT-AAGGGATACTCCA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCGATTTTTC-ATAATCGA-GGATACTCCA
*
16038 ACCTTGTTATTTTCGA
64 ACC-CGTTATTTTCGA
* * * *
16054 GGAGATACTTCAACCCCGATTTTATTTTCAAAACACCGA-TTCTCTATAATC-AGGGATACTCCA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCGATTTTTC-ATAATCGA-GGATACTCCA
**
16117 ACCTTATTATTTTCGA
64 ACC-CGTTATTTTCGA
* * * * * *
16133 GGAGATACTTCAACCTCGATTTTATTTCCAGAACACCGATTTTCCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCGATTTTTCATAATCGAGGATACTCCAAC
16198 CC
66 CC
16200 CGTTGTTATC
Statistics
Matches: 326, Mismatches: 48, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
78 8 0.02
79 309 0.95
80 9 0.03
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.32
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCGATTTTTCATAATCGAGGATACTCCAAC
CCGTTATTTTCGA
Found at i:21062 original size:165 final size:166
Alignment explanation
Indices: 20639--21072 Score: 522
Period size: 168 Copynumber: 2.6 Consensus size: 166
20629 ATCACCATTT
* ** * * * *
20639 AATCTGTTTTGAAATTTTCATTTATTTTCATTAGTTTTTCAATTTTTCCTTAAAATT-TCTTTTT
1 AATCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTTT-ATTTTTTTCTTAAAATTCTC-TTAT
** ** *
20703 TTCCAAAAAACTAAGTTTTCTATTCTATAAATGTTTTTCGAGGGGGTTTTTCTTGGTTCAAAGTT
64 TTCTGAAAAACCGAGTTTT-TATTCTATAAATGTTTTTCGAAGGGGTTTTTCTTGGTTCAAAGTT
* *
20768 TTTAATATTCATCGAATATCATCATTTTAAATCATAATA
128 TTTAATATTCATCAAATATCACCATTTTAAATCATAATA
* * *
20807 AATCAGTTTTGAAAAATTCATTTATTTTCATGAGTTTTTCATTTTTTTTTTGAAATTCTCTTATT
1 AATCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTTT-ATTTTTTTCTTAAAATTCTCTTATT
*
20872 TCTGAAAAACCGAGTTTTCATTCTATAAATGTTTTT-GAAGGGGTTTTTCTTGGTTCAAA-TTTT
65 TCTGAAAAACCGAGTTTTTATTCTATAAATGTTTTTCGAAGGGGTTTTTCTTGGTTCAAAGTTTT
*
20935 TCAATATTCATCAAATATCACCA-TTTAAATCATATTA
130 T-AATATTCATCAAATATCACCATTTTAAATCATAATA
* *
20972 AATTAGTTTTGAAAAATTCATTTA-TTTCATAAGTTTTT-TTCCTTTTTCTTAAAATTTTGC-TA
1 AATCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTTTATT--TTTTTCTTAAAATTCT-CTTA
* **
21034 TTTTTGAAAAATTGAGGTTTTTATTCTATAAATGTTTTT
63 TTTCTGAAAAACCGA-GTTTTTATTCTATAAATGTTTTT
21073 AGGATGATTT
Statistics
Matches: 233, Mismatches: 27, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
162 2 0.01
164 40 0.17
165 64 0.27
166 41 0.18
167 17 0.07
168 67 0.29
169 2 0.01
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (166 bp):
AATCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTTTATTTTTTTCTTAAAATTCTCTTATTT
CTGAAAAACCGAGTTTTTATTCTATAAATGTTTTTCGAAGGGGTTTTTCTTGGTTCAAAGTTTTT
AATATTCATCAAATATCACCATTTTAAATCATAATA
Found at i:21086 original size:165 final size:161
Alignment explanation
Indices: 20470--21184 Score: 529
Period size: 165 Copynumber: 4.3 Consensus size: 161
20460 TTTAGTTACC
* * * ** *
20470 ATTAAATTAGTTTTGAGAAATTCATTT-TTTCCATGAATTTTTTATTTTCTT-TTGGAATTCCTT
1 ATTAAATTAGTTTTGAAAAATTCATTTATTT-CATG-AGTTTTTATTTTTTTCTTAAAATT-CTC
* * * * * *
20533 TTATTT-TGGAAATA-CGAAG-TTTTCTTCTTCATAAATTTTTTTG-GAAGGATTTTCATCGGAT
63 TTATTTCT-GAAAAACCG-AGTTTTTATTC-T-ATAAATGTTTTTGAG-GGGTTTTTC-TTGG-T
* * * * * *
20594 TAAAATTTTTAAAATTCATCAAATATTATTATCT-AATCACC
121 TCAAATTTTTAATATTCATCAAATATCATCATTTAAATCA-T
* ** * * *
20635 ATTTAATCT-GTTTTGAAATTTTCATTTATTTTCATTAGTTTTTCAATTTTTCCTTAAAATT-TC
1 ATTAAAT-TAGTTTTGAAAAATTCATTTA-TTTCATGAGTTTTT-ATTTTTTTCTTAAAATTCTC
* ** **
20698 TTTTTTTCCAAAAAACTAAGTTTTCTATTCTATAAATGTTTTTCGAGGGGGTTTTTCTTGGTTCA
63 -TTATTTCTGAAAAACCGAGTTTT-TATTCTATAAATGTTTTT-GA-GGGGTTTTTCTTGGTTCA
*
20763 AAGTTTTTAATATTCATCGAATATCATCATTTTAAATCAT
124 AA-TTTTTAATATTCATCAAATATCATCA-TTTAAATCAT
* * * *
20803 AATAAATCAGTTTTGAAAAATTCATTTATTTTCATGAGTTTTTCATTTTTTTTTTGAAATTCTCT
1 ATTAAATTAGTTTTGAAAAATTCATTTA-TTTCATGAGTTTTT-ATTTTTTTCTTAAAATTCTCT
*
20868 TATTTCTGAAAAACCGAGTTTTCATTCTATAAATGTTTTTGAAGGGGTTTTTCTTGGTTCAAATT
64 TATTTCTGAAAAACCGAGTTTTTATTCTATAAATGTTTTTG-AGGGGTTTTTCTTGGTTCAAATT
*
20933 TTTCAATATTCATCAAATATCACCATTTAAATCAT
128 TTT-AATATTCATCAAATATCATCATTTAAATCAT
* *
20968 ATTAAATTAGTTTTGAAAAATTCATTTATTTCATAAGTTTTT-TTCCTTTTTCTTAAAATTTTGC
1 ATTAAATTAGTTTTGAAAAATTCATTTATTTCATGAGTTTTTATT--TTTTTCTTAAAATTCT-C
* ** * ** *
21032 -TATTTTTGAAAAATTGAGGTTTTTATTCTATAAATGTTTTT-AGGATGATTTTTCTCAGTCTAA
63 TTATTTCTGAAAAACCGA-GTTTTTATTCTATAAATGTTTTTGAGG--GGTTTTTCTTGGT-TCA
* ** * * **
21095 AATTTTT-ATATTTCATCTAATATTGTCATTGAATTCCC
124 AATTTTTAATA-TTCATCAAATATCATCATTTAAATCAT
** * *
21133 ATTAAATTAGTTTCAAAAAATTCAATTTATTTTATGAGTTTTGAATTTTTTT
1 ATTAAATTAGTTTTGAAAAATTC-ATTTATTTCATGAGTTTT-TATTTTTTT
21185 GTGTTTATTA
Statistics
Matches: 444, Mismatches: 75, Indels: 61
0.77 0.13 0.11
Matches are distributed among these distances:
162 2 0.00
163 3 0.01
164 43 0.10
165 142 0.32
166 106 0.24
167 57 0.13
168 83 0.19
169 8 0.02
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (161 bp):
ATTAAATTAGTTTTGAAAAATTCATTTATTTCATGAGTTTTTATTTTTTTCTTAAAATTCTCTTA
TTTCTGAAAAACCGAGTTTTTATTCTATAAATGTTTTTGAGGGGTTTTTCTTGGTTCAAATTTTT
AATATTCATCAAATATCATCATTTAAATCAT
Found at i:21688 original size:9 final size:9
Alignment explanation
Indices: 21674--21756 Score: 76
Period size: 10 Copynumber: 8.7 Consensus size: 9
21664 AAAGTGGAGA
21674 AAAAAAAAG
1 AAAAAAAAG
21683 AAAAAAAAAG
1 -AAAAAAAAG
21693 AAAGAAAAAAG
1 -AA-AAAAAAG
*
21704 AAAGAAAAAA
1 AAA-AAAAAG
21714 AAAAAGAAAG
1 AAAAA-AAAG
*
21724 AAAAGAAAG
1 AAAAAAAAG
*
21733 AAAAAAGAG
1 AAAAAAAAG
* *
21742 AGAAAATAG
1 AAAAAAAAG
21751 AAAAAA
1 AAAAAA
21757 CAAACTAAAC
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
9 26 0.42
10 29 0.47
11 7 0.11
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:21689 original size:11 final size:11
Alignment explanation
Indices: 21673--21756 Score: 80
Period size: 11 Copynumber: 7.5 Consensus size: 11
21663 CAAAGTGGAG
21673 AAAAAAAAAG-
1 AAAAAAAAAGA
21683 AAAAAAAAAGA
1 AAAAAAAAAGA
*
21694 AAGAAAAAAGA
1 AAAAAAAAAGA
*
21705 AAGAAAAAAAAA
1 AA-AAAAAAAGA
21717 AAGAAAGAAAAGA
1 AA-AAA-AAAAGA
*
21730 AAGAAAAAAGA
1 AAAAAAAAAGA
* * *
21741 GAGAAAATAGA
1 AAAAAAAAAGA
21752 AAAAA
1 AAAAA
21757 CAAACTAAAC
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
10 10 0.16
11 30 0.48
12 15 0.24
13 7 0.11
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.01
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:21692 original size:25 final size:25
Alignment explanation
Indices: 21671--21738 Score: 97
Period size: 24 Copynumber: 2.8 Consensus size: 25
21661 AACAAAGTGG
21671 AGAAAAAA-AAAGAAAAAAAAAGAA
1 AGAAAAAAGAAAGAAAAAAAAAGAA
21695 AGAAAAAAGAAAG-AAAAAAAA-AA
1 AGAAAAAAGAAAGAAAAAAAAAGAA
21718 AGAAAGAAAAGAAAGAAAAAA
1 AG-AA-AAAAGAAAGAAAAAA
21739 GAGAGAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
23 4 0.10
24 18 0.45
25 13 0.32
26 5 0.12
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (25 bp):
AGAAAAAAGAAAGAAAAAAAAAGAA
Found at i:21700 original size:20 final size:19
Alignment explanation
Indices: 21671--21747 Score: 88
Period size: 20 Copynumber: 4.1 Consensus size: 19
21661 AACAAAGTGG
*
21671 AGAAAAAAAAAGAAAAAAAA
1 AGAAAAAAAAAG-AAAGAAA
21691 AGAAAGAAAAAAGAAAG--A
1 AGAAA-AAAAAAGAAAGAAA
21709 A-AAAAAAAAAGAAAGAAA
1 AGAAAAAAAAAGAAAGAAA
*
21727 AGAAAGAAAAAAGAGAGAAA
1 AGAAA-AAAAAAGAAAGAAA
21747 A
1 A
21748 TAGAAAAAAC
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
16 11 0.22
17 3 0.06
18 4 0.08
19 3 0.06
20 22 0.44
21 7 0.14
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AGAAAAAAAAAGAAAGAAA
Found at i:21728 original size:36 final size:37
Alignment explanation
Indices: 21673--21756 Score: 125
Period size: 36 Copynumber: 2.2 Consensus size: 37
21663 CAAAGTGGAG
21673 AAAAAAAAAGAAAAAAAAAGAAAGAAAAAAGAAAGAA
1 AAAAAAAAAGAAAAAAAAAGAAAGAAAAAAGAAAGAA
* *
21710 AAAAAAAAAG-AAAGAAAAGAAAGAAAAAAGAGAGAA
1 AAAAAAAAAGAAAAAAAAAGAAAGAAAAAAGAAAGAA
21746 AATAGAAAAAA
1 AA-A-AAAAAA
21757 CAAACTAAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 26 0.60
37 11 0.26
38 6 0.14
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.01
Consensus pattern (37 bp):
AAAAAAAAAGAAAAAAAAAGAAAGAAAAAAGAAAGAA
Found at i:21756 original size:1 final size:1
Alignment explanation
Indices: 21673--21738 Score: 51
Period size: 1 Copynumber: 66.0 Consensus size: 1
21663 CAAAGTGGAG
* * * * * * * * *
21673 AAAAAAAAAGAAAAAAAAAGAAAGAAAAAAGAAAGAAAAAAAAAAAGAAAGAAAAGAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
21738 A
1 A
21739 GAGAGAAAAT
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (1 bp):
A
Found at i:22908 original size:142 final size:142
Alignment explanation
Indices: 22645--22909 Score: 379
Period size: 142 Copynumber: 1.9 Consensus size: 142
22635 TTATTTTATC
* *
22645 ATTAAATAAAAATTATTAACTTAATTTTTCAAGACTCCTAATATTCCTATAGTTTTCTATAAGGG
1 ATTAAATAAAAATTATTAACTTAATTTCTCAAGACTCCTAATATTCCTATAGTTTTCTATAAGAG
*
22710 TATAAAAATCTTCAAAACCTTTCATATCTTTTCGGTTCTCCATTAAGGTTCAAAATGAATATTCT
66 TATAAAAATCTTCAAAACCTTTCATATCTTTTCGGTTCTCCATTAAGGTACAAAATGAATATTCT
22775 TAAAAATTAAAA
131 TAAAAATTAAAA
* * * *
22787 ATTAAATAAAAATTATTATCTTAATTTCTCAAGATTTCTAATATTCCTATGGTTTGTC-ATAAGA
1 ATTAAATAAAAATTATTAACTTAATTTCTCAAGACTCCTAATATTCCTATAGTTT-TCTATAAGA
* * * * * * * *
22851 GTATAGAAATTTTTAAAACTTTTCGTATCTTTTCGGTTTTTCATTAAGGTACGAAATGA
65 GTATAAAAATCTTCAAAACCTTTCATATCTTTTCGGTTCTCCATTAAGGTACAAAATGA
22910 GATTTTAGAA
Statistics
Matches: 107, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
142 105 0.98
143 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (142 bp):
ATTAAATAAAAATTATTAACTTAATTTCTCAAGACTCCTAATATTCCTATAGTTTTCTATAAGAG
TATAAAAATCTTCAAAACCTTTCATATCTTTTCGGTTCTCCATTAAGGTACAAAATGAATATTCT
TAAAAATTAAAA
Found at i:23935 original size:20 final size:20
Alignment explanation
Indices: 23891--23948 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
23881 ATTTCAACGA
***
23891 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATATTTT
*
23911 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATATTTT
23931 TTTGTATCGATACA-ATTT
1 TTTGTATCGATACATATTT
23949 AAGCTACTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (20 bp):
TTTGTATCGATACATATTTT
Found at i:24005 original size:13 final size:13
Alignment explanation
Indices: 23987--24011 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23977 ATCACTTAAA
23987 TGTATCGATACAT
1 TGTATCGATACAT
24000 TGTATCGATACA
1 TGTATCGATACA
24012 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:24076 original size:52 final size:52
Alignment explanation
Indices: 24020--24148 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
24010 CACTGATCTT
*
24020 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
* **
24072 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
24124 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
24149 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
Found at i:27620 original size:22 final size:22
Alignment explanation
Indices: 27595--27638 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
27585 AATAATAAGA
27595 TACCCTTCTCGAAATAAAAATC
1 TACCCTTCTCGAAATAAAAATC
*
27617 TACCCTTTTCGAAATAAAAATC
1 TACCCTTCTCGAAATAAAAATC
27639 GAGAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.25, G:0.05, T:0.30
Consensus pattern (22 bp):
TACCCTTCTCGAAATAAAAATC
Found at i:27647 original size:22 final size:22
Alignment explanation
Indices: 27603--27647 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
27593 GATACCCTTC
* **
27603 TCGAAATAAAAATCTACCCTTT
1 TCGAAATAAAAATCGACAATTT
*
27625 TCGAAATAAAAATCGAGAATTT
1 TCGAAATAAAAATCGACAATTT
27647 T
1 T
27648 TATAATTTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (22 bp):
TCGAAATAAAAATCGACAATTT
Found at i:31548 original size:20 final size:20
Alignment explanation
Indices: 31525--31597 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
31515 ACAATTCAAA
31525 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*
31545 GTATCGATACATGAAAATG--AT
1 GTATCGATACATG---TTGCAAT
31566 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
31586 GTATCGATACAT
1 GTATCGATACAT
31598 AAAAAAGATG
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
20 27 0.59
21 15 0.33
23 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:31569 original size:21 final size:21
Alignment explanation
Indices: 31543--31618 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
31533 ACATGTTGCA
31543 ATGTATCGATACATGAAAATG
1 ATGTATCGATACATGAAAATG
*
31564 ATGTATCGATACATG---TTG
1 ATGTATCGATACATGAAAATG
* *
31582 CAATGTATCGATACATAAAAAAG
1 --ATGTATCGATACATGAAAATG
31605 ATGTATCGATACAT
1 ATGTATCGATACAT
31619 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
18 2 0.04
20 14 0.30
21 29 0.63
23 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAATG
Found at i:31576 original size:41 final size:41
Alignment explanation
Indices: 31525--31618 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
31515 ACAATTCAAA
* *
31525 GTATCGATACATGTTGCAATGTATCGATACATGAAAATGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
31566 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
31607 GTATCGATACAT
1 GTATCGATACAT
31619 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:31675 original size:13 final size:13
Alignment explanation
Indices: 31657--31682 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31647 TACAGCAAGT
31657 ATGTATCGATACA
1 ATGTATCGATACA
31670 ATGTATCGATACA
1 ATGTATCGATACA
31683 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:35271 original size:13 final size:12
Alignment explanation
Indices: 35253--35295 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
35243 TTTTTGGCTA
35253 AAAAAACAAAAG
1 AAAAAACAAAAG
*
35265 CAAAAAAAAAAAG
1 -AAAAAACAAAAG
*
35278 AAAAAACAATAG
1 AAAAAACAAAAG
35290 AAAAAA
1 AAAAAA
35296 GAGAACCAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 16 0.59
13 11 0.41
ACGTcount: A:0.84, C:0.07, G:0.07, T:0.02
Consensus pattern (12 bp):
AAAAAACAAAAG
Found at i:36541 original size:65 final size:62
Alignment explanation
Indices: 36409--36999 Score: 176
Period size: 68 Copynumber: 9.0 Consensus size: 62
36399 CCTTTTATTA
* * *
36409 TTTTTAGTCCTT-AAAGAGCAGGACACTTTTTTTTCAAAGCCCATATAAGCTGGTGGCACTTC
1 TTTTTAGT-CTTCAAAGAGTAGGACACTTTTTTTTCAAAGCCCACACAAGCTGGTGGCACTTC
* * *
36471 ATTTTAGTCTTCAAAGAGTAGGACACCTTTCTCTTTTCAAAGTCCACACAAGTTGGTGGCAC-TC
1 TTTTTAGTCTTCAAAGAGTAGGACA-CTTT-T-TTTTCAAAGCCCACACAAGCTGGTGGCACTTC
* * ** * * *
36535 TTTTTTAGTCCTCAAATAGTAGGACGTTTTTTTTATAAAAAAAAAGCCTACACATA-CTTGTGGC
1 -TTTTTAGTCTTCAAAGAGTAGGACACTTTTTTT-T-----CAAAGCCCACACA-AGCTGGTGGC
*
36599 TC-TC
58 ACTTC
* ** * * * *
36603 TTTTCTAGTCCTCAAAGAGTAGGATGCTTTTCTTTTTTAAAACCCACACAAGTTGGGGGCACCTA
1 TTTT-TAGTCTTCAAAGAGTAGGACAC-TTT-TTTTTCAAAGCCCACACAAGCTGGTGGCA-C--
36668 TTAAC
60 TT--C
* ** * * ** ** * *
36673 TTTTTAGTCCTCAAAGAGCTA-GACGTTTTTTCTTTTTTAAAGCTCGTATTAGTTGATGGCTCAT
1 TTTTTAGTCTTCAAAGAG-TAGGAC--ACTTT-TTTTTCAAAGCCCACACAAGCTGGTGG--CA-
*
36737 TTTATCC
59 -CT-T-C
* ** * *
36744 TTTTTAGTCTTTAAAGAGTAGGATGTCTTTTTTTT-AAAGCCTACACAAGCTGGTGACAC-TC
1 TTTTTAGTCTTCAAAGAGTAGGA-CACTTTTTTTTCAAAGCCCACACAAGCTGGTGGCACTTC
* * * ** * * *
36805 TTTTTTGGTCCTCAAAGAGTA-GATAGCTTTTCTTTTTTAAGCCTACATAAGTTGGTGGCACCTT
1 -TTTTTAGTCTTCAAAGAGTAGGACA-CTTTT-TTTTCAAAGCCCACACAAGCTGGTGGCA-C--
36869 TTAAC
60 TT--C
* * * ** * * *
36874 TTTTTAGTCCTCAAAGAGCAAGATGCTTTTACTTTTTTAAAGCCCACACAAGCTAGTAGCAC--C
1 TTTTTAGTCTTCAAAGAGTAGGACAC-TTT--TTTTTCAAAGCCCACACAAGCTGGTGGCACTTC
* * * * * *
36937 TTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCATATAAGCTGGTGGCACTT
1 TTTTTAGTCTTCAAAGAGTAGGAC-ACTTTTT-TTTCAAAGCCCACACAAGCTGGTGGCACTT
37000 TTTATCCCTT
Statistics
Matches: 400, Mismatches: 80, Indels: 96
0.69 0.14 0.17
Matches are distributed among these distances:
61 13 0.03
62 68 0.17
63 52 0.13
64 23 0.06
65 47 0.12
66 2 0.00
67 5 0.01
68 70 0.17
69 34 0.09
70 62 0.16
71 21 0.05
72 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (62 bp):
TTTTTAGTCTTCAAAGAGTAGGACACTTTTTTTTCAAAGCCCACACAAGCTGGTGGCACTTC
Found at i:36686 original size:69 final size:68
Alignment explanation
Indices: 36602--37066 Score: 300
Period size: 70 Copynumber: 6.9 Consensus size: 68
36592 TTGTGGCTCT
* *
36602 CTTTTCTAGTCCTCAAAGAGTAGGATGCTTTTCTTTTTTAAAACCCACACAAGTTGGGGGCACCT
1 CTTTT-TAGTCCTCAAAGAGTA-GATGCTTTTCTTTTTTAAAGCCCACACAAGTTGGTGGCACCT
*
36667 ATTAA
64 TTTAA
* * * ** ** * * *
36672 CTTTTTAGTCCTCAAAGAGCTAGACGTTTTTTCTTTTTTAAAGCTCGTATTAGTTGATGGCTCAT
1 CTTTTTAGTCCTCAAAGAG-TAGATG-CTTTTCTTTTTTAAAGCCCACACAAGTTGGTGGCACCT
*
36737 TTTATC
64 TTTA-A
* * * * * *
36743 CTTTTTAGTCTTTAAAGAGTAGGATG-TCTT-TTTTTTAAAGCCTACACAAGCTGGTGACA-C-T
1 CTTTTTAGTCCTCAAAGAGTA-GATGCTTTTCTTTTTTAAAGCCCACACAAGTTGGTGGCACCTT
*
36804 CT--
65 TTAA
* * *
36806 -TTTTTGGTCCTCAAAGAGTAGATAGCTTTTCTTTTTT-AAGCCTACATAAGTTGGTGGCACCTT
1 CTTTTTAGTCCTCAAAGAGTAGAT-GCTTTTCTTTTTTAAAGCCCACACAAGTTGGTGGCACCTT
36869 TTAA
65 TTAA
* * * *
36873 CTTTTTAGTCCTCAAAGAGCAAGATGCTTTTACTTTTTTAAAGCCCACACAAGCTAGTAGCA-C-
1 CTTTTTAGTCCTCAAAGAG-TAGATGCTTTT-CTTTTTTAAAGCCCACACAAGTTGGTGGCACCT
36936 -----
64 TTTAA
* * * * * * *
36936 CTTTTTAGTCCTCAAAGAGCAGGACGCCTTTT-TCTTTTAAAGCCCATATAAGCTGGTGGCACTT
1 CTTTTTAGTCCTCAAAGAGTA-GATG-CTTTTCTTTTTTAAAGCCCACACAAGTTGGTGGCACCT
*
37000 TTTATC
64 TTTA-A
* * ** *
37006 CCTTTT-GTCCTCAAAGAGCAAGAAT-CTTTTTCTTTTTTAGGGCCCACATAAGTTGGTGGCA
1 CTTTTTAGTCCTCAAAGAG-TAG-ATGC-TTTTCTTTTTTAAAGCCCACACAAGTTGGTGGCA
37067 TCTATCTACT
Statistics
Matches: 305, Mismatches: 61, Indels: 58
0.72 0.14 0.14
Matches are distributed among these distances:
61 3 0.01
62 43 0.14
63 44 0.14
64 12 0.04
65 2 0.01
66 2 0.01
68 43 0.14
69 49 0.16
70 87 0.29
71 20 0.07
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (68 bp):
CTTTTTAGTCCTCAAAGAGTAGATGCTTTTCTTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
TAA
Found at i:36822 original size:62 final size:63
Alignment explanation
Indices: 36744--37002 Score: 183
Period size: 63 Copynumber: 4.0 Consensus size: 63
36734 CATTTTATCC
* * * *
36744 TTTTTAGTCTTTAAAGAGTAGGATGTC-TTTTTTTTAAAGCCTACACAAGCTGGTGACACTCT
1 TTTTTAGTCCTCAAAGAGCAGGATGTCTTTTTTTTTAAAGCCCACACAAGCTGGTGACACTCT
* * * * * * *
36806 TTTTTGGTCCTCAAAGAGTA-GATAG-CTTTTCTTTTTTAAGCCTACATAAGTTGGTGGCACCTT
1 TTTTTAGTCCTCAAAGAGCAGGAT-GTCTTTT-TTTTTAAAGCCCACACAAGCTGGTGACA-C-T
*
36869 TT
62 CT
* *
36871 AACTTTTTAGTCCTCAAAGAGCAAGATG-CTTTTACTTTTTTAAAGCCCACACAAGCTAGT-AGC
1 ---TTTTTAGTCCTCAAAGAGCAGGATGTC-TTT--TTTTTTAAAGCCCACACAAGCTGGTGA-C
36934 AC-C-
59 ACTCT
* * * * *
36937 TTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCATATAAGCTGGTGGCACT-T
1 TTTTTAGTCCTCAAAGAGCAGGATGTCTTTTT-TTTTAAAGCCCACACAAGCTGGTGACACTCT
37000 TTT
1 TTT
37003 ATCCCTTTTG
Statistics
Matches: 156, Mismatches: 23, Indels: 35
0.73 0.11 0.16
Matches are distributed among these distances:
61 6 0.04
62 44 0.28
63 53 0.34
64 2 0.01
65 2 0.01
68 20 0.13
69 7 0.04
70 21 0.13
71 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (63 bp):
TTTTTAGTCCTCAAAGAGCAGGATGTCTTTTTTTTTAAAGCCCACACAAGCTGGTGACACTCT
Found at i:36851 original size:63 final size:65
Alignment explanation
Indices: 36773--37044 Score: 193
Period size: 63 Copynumber: 4.1 Consensus size: 65
36763 AGGATGTCTT
* *
36773 TTTTTTAAAGCCTACACAAGCTGGTGACACTCTTTTTTGGTCCTCAAAGAG-TAGATAGCTTTT-
1 TTTTTTAAAGCCTACACAAGCTGGTGACACTCTTTTTTAGTCCTCAAAGAGCAAGAT-GCTTTTA
36836 C
65 C
* * * *
36837 TTTTTT-AAGCCTACATAAGTTGGTGGCACCTTTTAACTTTTTAGTCCTCAAAGAGCAAGATGCT
1 TTTTTTAAAGCCTACACAAGCTGGTGACA-C-TCT---TTTTTAGTCCTCAAAGAGCAAGATGCT
36901 TTTAC
61 TTTAC
* * * *
36906 TTTTTTAAAGCCCACACAAGCTAGT-AGCAC-C-TTTTTAGTCCTCAAAGAGCAGGACGCCTTTT
1 TTTTTTAAAGCCTACACAAGCTGGTGA-CACTCTTTTTTAGTCCTCAAAGAGCAAGATG-CTTTT
36968 --
64 AC
* * * * * * *
36968 TCTTTTAAAGCCCATATAAGCTGGTGGCACTTTTTATCCCTTTTGTCCTCAAAGAGCAAGAAT-C
1 TTTTTTAAAGCCTACACAAGCTGGTGACAC-TCTT-T---TTTAGTCCTCAAAGAGCAAG-ATGC
*
37032 TTTTTC
60 TTTTAC
37038 TTTTTTA
1 TTTTTTA
37045 GGGCCCACAT
Statistics
Matches: 163, Mismatches: 24, Indels: 36
0.73 0.11 0.16
Matches are distributed among these distances:
62 24 0.15
63 42 0.26
64 12 0.07
65 3 0.02
66 1 0.01
68 28 0.17
69 30 0.18
70 23 0.14
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (65 bp):
TTTTTTAAAGCCTACACAAGCTGGTGACACTCTTTTTTAGTCCTCAAAGAGCAAGATGCTTTTAC
Found at i:36910 original size:133 final size:132
Alignment explanation
Indices: 36773--37053 Score: 322
Period size: 132 Copynumber: 2.1 Consensus size: 132
36763 AGGATGTCTT
* * * *
36773 TTTTTTAAAGCCTACACAAGCTGGT-GACACTCTTTTTTGGTCCTCAAAGAGTA-GATAG-C-TT
1 TTTTTTAAAGCCCACACAAGCTAGTAG-CAC-C-TTTTTAGTCCTCAAAGAGCAGGA-AGCCTTT
* * * *
36834 TTCTTTTTTAAGCCTACATAAGTTGGTGGCACCTTTTA-ACTTTTTAGTCCTCAAAGAGCAAG-A
62 TTC-TTTTAAAGCCCACATAAGCTGGTGGCACCTTTTATACCTTTT-GTCCTCAAAGAGCAAGAA
36897 TGCTTTTAC
125 T-CTTTTAC
*
36906 TTTTTTAAAGCCCACACAAGCTAGTAGCACCTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCT
1 TTTTTTAAAGCCCACACAAGCTAGTAGCACCTTTTTAGTCCTCAAAGAGCAGGAAGCCTTTTTCT
* * *
36971 TTTAAAGCCCATATAAGCTGGTGGCACTTTTTATCCCTTTTGTCCTCAAAGAGCAAGAATCTTTT
66 TTTAAAGCCCACATAAGCTGGTGGCACCTTTTATACCTTTTGTCCTCAAAGAGCAAGAATCTTTT
*
37036 TC
131 AC
**
37038 TTTTTTAGGGCCCACA
1 TTTTTTAAAGCCCACA
37054 TAAGTTGGTG
Statistics
Matches: 127, Mismatches: 15, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
131 19 0.15
132 69 0.54
133 38 0.30
134 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (132 bp):
TTTTTTAAAGCCCACACAAGCTAGTAGCACCTTTTTAGTCCTCAAAGAGCAGGAAGCCTTTTTCT
TTTAAAGCCCACATAAGCTGGTGGCACCTTTTATACCTTTTGTCCTCAAAGAGCAAGAATCTTTT
AC
Found at i:37780 original size:21 final size:20
Alignment explanation
Indices: 37727--37782 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
37717 TTTTGACCCA
* *
37727 AATGTAGCGATACATTCTTC
1 AATGTATCGATACATGCTTC
** *
37747 AAAATATCAATACATGCTTAC
1 AATGTATCGATACATGCTT-C
37768 AATGTATCGATACAT
1 AATGTATCGATACAT
37783 TTCTCATTGT
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATGCTTC
Found at i:40115 original size:13 final size:13
Alignment explanation
Indices: 40097--40121 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40087 CATAAAGTGT
40097 TGTATCGATACAA
1 TGTATCGATACAA
40110 TGTATCGATACA
1 TGTATCGATACA
40122 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:40137 original size:32 final size:33
Alignment explanation
Indices: 40077--40145 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
40067 TTCAACGATT
40077 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
40110 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
40142 TGTA
1 TGTA
40146 AGCTACTACC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 22 0.63
33 13 0.37
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:40201 original size:13 final size:13
Alignment explanation
Indices: 40183--40207 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40173 ATTACTCAAA
40183 TGTATCGATACAT
1 TGTATCGATACAT
40196 TGTATCGATACA
1 TGTATCGATACA
40208 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:40260 original size:52 final size:52
Alignment explanation
Indices: 40216--40344 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
40206 CACTGATCTT
*
40216 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
40268 TGTATCGATACATACAGGAAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
40320 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
40345 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:53018 original size:20 final size:19
Alignment explanation
Indices: 52991--53067 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 19
52981 AAAAAAAGAC
52991 AAAATGTATCGATACATTG
1 AAAATGTATCGATACATTG
* *
53010 AAGAATGTATCGATATATTC
1 AA-AATGTATCGATACATTG
*
53030 ATACATGTATCGATACATTG
1 A-AAATGTATCGATACATTG
*
53050 AAAAATGTATCAATACAT
1 -AAAATGTATCGATACAT
53068 CTGGGTAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.04
20 44 0.92
21 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (19 bp):
AAAATGTATCGATACATTG
Found at i:53086 original size:31 final size:31
Alignment explanation
Indices: 53050--53109 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
53040 CGATACATTG
53050 AAAAATGTATCAATACATCTGGGTAAAAAGA
1 AAAAATGTATCAATACATCTGGGTAAAAAGA
* *
53081 AAAAATGTATCGATATATCTGGGTAAAAA
1 AAAAATGTATCAATACATCTGGGTAAAAA
53110 TGTGACTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.50, C:0.08, G:0.17, T:0.25
Consensus pattern (31 bp):
AAAAATGTATCAATACATCTGGGTAAAAAGA
Found at i:53786 original size:16 final size:16
Alignment explanation
Indices: 53765--53797 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
53755 ACTTTTGGTT
*
53765 CTTTGCTTGTACTTAA
1 CTTTGCTTGCACTTAA
53781 CTTTGCTTGCACTTAA
1 CTTTGCTTGCACTTAA
53797 C
1 C
53798 CTTTATGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.24, G:0.12, T:0.45
Consensus pattern (16 bp):
CTTTGCTTGCACTTAA
Found at i:56158 original size:5 final size:5
Alignment explanation
Indices: 56148--56180 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
56138 TTTTTAAAAT
56148 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
56181 GTTTTTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:56510 original size:12 final size:12
Alignment explanation
Indices: 56495--56528 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
56485 AGTAAGAGAA
56495 AAAAAAAGAAAG
1 AAAAAAAGAAAG
*
56507 -AAAAAAGAGAG
1 AAAAAAAGAAAG
56518 AAAAAAAGAAA
1 AAAAAAAGAAA
56529 AATCAAGGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:56512 original size:11 final size:11
Alignment explanation
Indices: 56491--56528 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
56481 GGCAAGTAAG
56491 AGAAA-AAAAA
1 AGAAAGAAAAA
56501 AGAAAGAAAAA
1 AGAAAGAAAAA
*
56512 AGAGAGAAAAAA
1 AGAAAG-AAAAA
56524 AGAAA
1 AGAAA
56529 AATCAAGGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 5 0.21
11 10 0.42
12 9 0.38
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AGAAAGAAAAA
Found at i:57257 original size:20 final size:20
Alignment explanation
Indices: 57232--57287 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
57222 ACTGCCAAGG
57232 AAATGTATCGATACATAAGT
1 AAATGTATCGATACATAAGT
*
57252 AAATGTATCGATACATTAGT
1 AAATGTATCGATACATAAGT
57272 AAATGTATCGATACAT
1 AAATGTATCGATACAT
57288 GCTTACAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (20 bp):
AAATGTATCGATACATAAGT
Found at i:57281 original size:40 final size:42
Alignment explanation
Indices: 57232--57310 Score: 117
Period size: 40 Copynumber: 1.9 Consensus size: 42
57222 ACTGCCAAGG
57232 AAATGTATCGATACATAAGTA-AA-TGTATCGATACATTAGT
1 AAATGTATCGATACATAAGTACAATTGTATCGATACATTAGT
***
57272 AAATGTATCGATACATGCTTACAATTGTATCGATACATT
1 AAATGTATCGATACATAAGTACAATTGTATCGATACATT
57311 TCTCATTGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 18 0.53
41 2 0.06
42 14 0.41
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (42 bp):
AAATGTATCGATACATAAGTACAATTGTATCGATACATTAGT
Found at i:60434 original size:13 final size:13
Alignment explanation
Indices: 60416--60441 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60406 CAATTTTTTG
60416 TGTATCGATACAT
1 TGTATCGATACAT
60429 TGTATCGATACAT
1 TGTATCGATACAT
60442 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:60506 original size:21 final size:21
Alignment explanation
Indices: 60480--60555 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
60470 CTGCCAAGAA
*
60480 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
60501 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
60521 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
60542 ATGTATCGATACAT
1 ATGTATCGATACAT
60556 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:60526 original size:20 final size:20
Alignment explanation
Indices: 60501--60573 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
60491 CATCTTTTTT
60501 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
60521 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
60542 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
60562 ATGTATCGATAC
1 ATGTATCGATAC
60574 TTTAAATTGT
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:60537 original size:41 final size:41
Alignment explanation
Indices: 60480--60573 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
60470 CTGCCAAGAA
*
60480 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
60521 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
60562 ATGTATCGATAC
1 ATGTATCGATAC
60574 TTTAAATTGT
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:62418 original size:13 final size:13
Alignment explanation
Indices: 62400--62424 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62390 ACTGAAGCAA
62400 TGTATCGATACAT
1 TGTATCGATACAT
62413 TGTATCGATACA
1 TGTATCGATACA
62425 ATCTGGAAAA
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:66204 original size:21 final size:21
Alignment explanation
Indices: 66178--66253 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
66168 CTGCCAAGAA
*
66178 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
66199 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
66219 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
66240 ATGTATCGATACAT
1 ATGTATCGATACAT
66254 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:66224 original size:20 final size:20
Alignment explanation
Indices: 66199--66271 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
66189 CATCTTTTTT
66199 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
66219 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
66240 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
66260 ATGTATCGATAC
1 ATGTATCGATAC
66272 TTTAAATTGT
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:66235 original size:41 final size:41
Alignment explanation
Indices: 66178--66271 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
66168 CTGCCAAGAA
*
66178 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
66219 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
66260 ATGTATCGATAC
1 ATGTATCGATAC
66272 TTTAAATTGT
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:66841 original size:51 final size:51
Alignment explanation
Indices: 66751--66867 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 51
66741 TTCCGGAGGA
* * * * **
66751 GATACTTCAACCCCGGTTTTATTTCTAAAGTATCAATTTTTCAGCATCGGG
1 GATACTCCAACCCCGATTTTATTTCTAAAGTAACAATTTTTCACCATCAAG
* *
66802 GATACTCCAACCCCGATTTTATTTCCTAAA-TAACGATTTTTTACCATCAAG
1 GATACTCCAACCCCGATTTTATTT-CTAAAGTAACAATTTTTCACCATCAAG
66853 GATACTCCAACCCCG
1 GATACTCCAACCCCG
66868 TTATTTCCGA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 52 0.91
52 5 0.09
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GATACTCCAACCCCGATTTTATTTCTAAAGTAACAATTTTTCACCATCAAG
Found at i:66933 original size:78 final size:78
Alignment explanation
Indices: 66799--67024 Score: 245
Period size: 78 Copynumber: 2.9 Consensus size: 78
66789 TTTCAGCATC
* * * * *
66799 GGGGATACTCCAACCCCGATTTTATTTCCTAAATAACGATTTTTTACCATCAAGGATACTCCAAC
1 GGGGATACTCCAA-CCCAAGTTTATTTCCAAAATAACAATTTTTCACCATCAAGGATACTCCAAC
66864 CCCGTTATTTCCGA
65 CCCGTTATTTCCGA
* * * **
66878 GGGGATACTCTAACCCAAGTTTGTTTCCAAAATATCAATTTTTCACCATTTAGGATACTCCAACC
1 GGGGATACTCCAACCCAAGTTTATTTCCAAAATAACAATTTTTCACCATCAAGGATACTCCAACC
*
66943 CTGTTATTTCCGA
66 CCGTTATTTCCGA
* * * * *** * * *
66956 GGGGATACTCCAACCCCGATTTTATTTCTAAAGTATTGATTTTTCACCATCGAGGATATTTCAAC
1 GGGGATACTCCAA-CCCAAGTTTATTTCCAAAATAACAATTTTTCACCATCAAGGATACTCCAAC
67021 CCCG
65 CCCG
67025 ATTTTATTTT
Statistics
Matches: 122, Mismatches: 24, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
78 67 0.55
79 55 0.45
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (78 bp):
GGGGATACTCCAACCCAAGTTTATTTCCAAAATAACAATTTTTCACCATCAAGGATACTCCAACC
CCGTTATTTCCGA
Found at i:67000 original size:208 final size:208
Alignment explanation
Indices: 66635--67436 Score: 829
Period size: 208 Copynumber: 3.9 Consensus size: 208
66625 TCACAATCTC
* * *
66635 ACCATCAAGGATACTCCAACCCCATTATTTCTAAAGGAATACTCCAACCTCGATTTTATTTTCAA
1 ACCATCAAGGATACTCCAACCCCATTATTTCTAAGGGAATACTCCAACCCCGATTTTATTTCCAA
* * * * * * * *
66700 AATATTAATTTTTCGCCATCGGGGACACTCCAATCCTGTTA-TTCCGGAGGAGATACTTCAACCC
66 AATATCAATTTTTCACCATCGAGGATACTCCAACCCTATTATTTCC-GAGGGGATACTCCAACCC
* * *
66764 CGGTTTTATTTCTAAAGTATCAATTTTTCAGCATCGGGGATACTCCAACCCCGATTTTATTTCCT
130 CGATTTTATTTCTAAAGTATCAATTTTTCACCATCGAGGATACTCCAACCCCGATTTTATTTCC-
*
66829 AAATAACGATTTTTT
194 AAATAACGATTTTTA
* ** * * * * *
66844 ACCATCAAGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCTAA-CCCAAGTTTGTTTCCAA
1 ACCATCAAGGATACTCCAACCCCATTATTTCTAAGGGAATACTCCAACCCCGATTTTATTTCCAA
** *
66908 AATATCAATTTTTCACCATTTAGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCCC
66 AATATCAATTTTTCACCATCGAGGATACTCCAACCCTATTATTTCCGAGGGGATACTCCAACCCC
** * * *
66973 GATTTTATTTCTAAAGTATTGATTTTTCACCATCGAGGATATTTCAACCCCGATTTTATTTTCAA
131 GATTTTATTTCTAAAGTATCAATTTTTCACCATCGAGGATACTCCAACCCCGATTTTATTTCCAA
* *
67038 AGTATCGA-TTTTC
196 A-TAACGATTTTTA
** * * *
67051 ACCATCGGGGATACTCCAACCCCATTATTTTTGCAGGG-ATACTCCAACCCCGATTTTATTTCTA
1 ACCATCAAGGATACTCCAACCCCATTATTTCT-AAGGGAATACTCCAACCCCGATTTTATTTCCA
* * * * * * **
67115 AAATATCGATTTTTCACCATC-AGGGATACTCTAACCCCATTATTTTCGAAGGGATACTTCAATT
65 AAATATCAATTTTTCACCATCGA-GGATACTCCAACCCTATTATTTCCGAGGGGATACTCCAACC
* * **
67179 CCGATTTTATTTCCAAA-TATCAATTTTTCACCATCGAGGATAATCCAACCCCTTTTTTATTTCC
129 CCGATTTTATTTCTAAAGTATCAATTTTTCACCATCGAGGATACTCCAACCCCGATTTTATTTCC
* *
67243 AAAAAATCGATTTGTA
194 AAATAA-CGATTTTTA
* * * * *
67259 ACCATC-GGAGATACTGCAACCCCGTTATTTCTAAGGGAATACTCCAACCCCGACTTTATTTTCA
1 ACCATCAAG-GATACTCCAACCCCATTATTTCTAAGGGAATACTCCAACCCCGATTTTATTTCCA
* * **
67323 AGATATCAATTTTTCA-CATCGGGGATACTCCAA-CCTCATTACTTT-TAAGGGGATACTCCAAC
65 AAATATCAATTTTTCACCATCGAGGATACTCCAACCCT-ATTA-TTTCCGAGGGGATACTCCAAC
* * * *
67385 CTCGATTTTATTT-TCAAAATATCGATTTTTCACCAT-TAGGGATACT-CAACCC
128 CCCGATTTTATTTCT-AAAGTATCAATTTTTCACCATCGA-GGATACTCCAACCC
67437 TGTTATTTCC
Statistics
Matches: 492, Mismatches: 86, Indels: 32
0.81 0.14 0.05
Matches are distributed among these distances:
206 3 0.01
207 146 0.30
208 298 0.61
209 45 0.09
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (208 bp):
ACCATCAAGGATACTCCAACCCCATTATTTCTAAGGGAATACTCCAACCCCGATTTTATTTCCAA
AATATCAATTTTTCACCATCGAGGATACTCCAACCCTATTATTTCCGAGGGGATACTCCAACCCC
GATTTTATTTCTAAAGTATCAATTTTTCACCATCGAGGATACTCCAACCCCGATTTTATTTCCAA
ATAACGATTTTTA
Found at i:67071 original size:50 final size:51
Alignment explanation
Indices: 66956--67073 Score: 177
Period size: 51 Copynumber: 2.3 Consensus size: 51
66946 TTATTTCCGA
*
66956 GGGGATACTCCAACCCCGATTTTATTTCTAAAGTATTGATTTTTCACCATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAGTATCGATTTTTCACCATC
* * *
67007 GAGGATATTTCAACCCCGATTTTATTT-TCAAAGTATCGA-TTTTCACCATC
1 GGGGATACTCCAACCCCGATTTTATTTCT-AAAGTATCGATTTTTCACCATC
67057 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
67074 ATTATTTTTG
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
50 26 0.44
51 33 0.56
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAGTATCGATTTTTCACCATC
Found at i:67099 original size:78 final size:78
Alignment explanation
Indices: 67017--67230 Score: 295
Period size: 79 Copynumber: 2.7 Consensus size: 78
67007 GAGGATATTT
67017 CAACCCCGATTTTATTTTCAAAGTATCGA-TTTTCACCATCGGGGATACTCCAACCCCATTATTT
1 CAACCCCGATTTTATTTTCAAA-TATCGATTTTTCACCATCGGGGATACTCCAACCCCATTATTT
* *
67081 TTGCAGGGATACTC
65 TCGAAGGGATACTC
* * *
67095 CAACCCCGATTTTATTTCTAAAATATCGATTTTTCACCATCAGGGATACTCTAACCCCATTATTT
1 CAACCCCGATTTTATTT-TCAAATATCGATTTTTCACCATCGGGGATACTCCAACCCCATTATTT
*
67160 TCGAAGGGATACTT
65 TCGAAGGGATACTC
** * * * *
67174 CAATTCCGATTTTATTTCCAAATATCAATTTTTCACCATCGAGGATAATCCAACCCC
1 CAACCCCGATTTTATTTTCAAATATCGATTTTTCACCATCGGGGATACTCCAACCCC
67231 TTTTTTATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
78 56 0.47
79 63 0.53
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (78 bp):
CAACCCCGATTTTATTTTCAAATATCGATTTTTCACCATCGGGGATACTCCAACCCCATTATTTT
CGAAGGGATACTC
Found at i:67152 original size:129 final size:129
Alignment explanation
Indices: 66879--67153 Score: 342
Period size: 129 Copynumber: 2.1 Consensus size: 129
66869 TATTTCCGAG
* **
66879 GGGATACTCTAA-CCCAAGTTTGTTTCCAAAATATCAATTTTTCACCATTTAGGATACTCCAACC
1 GGGATACTCTAACCCCAAGTTTATTTCCAAAATATCAATTTTTCACCATCGAGGATACTCCAACC
** * *
66943 CTGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAGTATTGATTTTTCACCATC
66 CCATTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACCATC
* * * * * * *
67007 GAGGATA-TTTCAACCCCGATTTTATTTTCAAAGTATCGA-TTTTCACCATCGGGGATACTCCAA
1 G-GGATACTCT-AACCCCAAGTTTATTTCCAAAATATCAATTTTTCACCATCGAGGATACTCCAA
**
67070 CCCCATTATTTTTGCA-GGGATACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACCA
64 CCCCATTATTTCCG-AGGGGATACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACCA
67134 TC
128 TC
67136 AGGGATACTCTAACCCCA
1 -GGGATACTCTAACCCCA
67154 TTATTTTCGA
Statistics
Matches: 123, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
128 3 0.02
129 97 0.79
130 23 0.19
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.35
Consensus pattern (129 bp):
GGGATACTCTAACCCCAAGTTTATTTCCAAAATATCAATTTTTCACCATCGAGGATACTCCAACC
CCATTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACCATC
Found at i:67220 original size:129 final size:129
Alignment explanation
Indices: 67087--67357 Score: 343
Period size: 129 Copynumber: 2.1 Consensus size: 129
67077 ATTTTTGCAG
* * * *
67087 GGATACTCCAACCCCGATTTTATTTCTAAAATATCGATTTTTCACCATCAGG-GATACT-CTAAC
1 GGATACTCCAACCCCGATTTTATTTCCAAAAAATCGATTTGTAACCATC-GGAGATACTGC-AAC
* ** *
67150 CCCATTATTTTCGAAGGG-ATACTTCAATTCCGATTTTATTTCCAA-ATATCAATTTTTCACCAT
64 CCCATTA-TTTCGAAGGGAATACTCCAACCCCGACTTTATTTCCAAGATATCAATTTTTCA-CAT
67213 CGA
127 CGA
* **
67216 GGATAATCCAACCCCTTTTTTATTTCCAAAAAATCGATTTGTAACCATCGGAGATACTGCAACCC
1 GGATACTCCAACCCCGATTTTATTTCCAAAAAATCGATTTGTAACCATCGGAGATACTGCAACCC
* * * *
67281 CGTTATTTCTAAGGGAATACTCCAACCCCGACTTTATTTTCAAGATATCAATTTTTCACATCGG
66 CATTATTTCGAAGGGAATACTCCAACCCCGACTTTATTTCCAAGATATCAATTTTTCACATCGA
67345 GGATACTCCAACC
1 GGATACTCCAACC
67358 TCATTACTTT
Statistics
Matches: 122, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
128 11 0.09
129 96 0.79
130 15 0.12
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (129 bp):
GGATACTCCAACCCCGATTTTATTTCCAAAAAATCGATTTGTAACCATCGGAGATACTGCAACCC
CATTATTTCGAAGGGAATACTCCAACCCCGACTTTATTTCCAAGATATCAATTTTTCACATCGA
Found at i:67357 original size:78 final size:78
Alignment explanation
Indices: 67233--67522 Score: 336
Period size: 78 Copynumber: 3.7 Consensus size: 78
67223 CCAACCCCTT
* * * * *
67233 TTTTATTTCCAAAAAATCGATTTGTAACCATC-GGAGATACTGCAACCCCGTTATTTCTAAGGGA
1 TTTTATTTTCAAAATATCGATTTTTCACCATCAGG-GATACT-CAACCCCGTTATTTCTAAGGGG
*
67297 ATACTCCAACCCCGA
64 ATACTCCAACCTCGA
* * * * * *
67312 CTTTATTTTCAAGATATCAATTTTTCA-CATCGGGGATACTCCAACCTCATTACTTT-TAAGGGG
1 TTTTATTTTCAAAATATCGATTTTTCACCATCAGGGATACT-CAACCCCGTTA-TTTCTAAGGGG
67375 ATACTCCAACCTCGA
64 ATACTCCAACCTCGA
* * *
67390 TTTTATTTTCAAAATATCGATTTTTCACCATTAGGGATACTCAACCCTGTTATTTCCAAGGGGAT
1 TTTTATTTTCAAAATATCGATTTTTCACCATCAGGGATACTCAACCCCGTTATTTCTAAGGGGAT
* *
67455 ACTCCAACCTTGG
66 ACTCCAACCTCGA
* *
67468 TTTTATTTTCAAAATATTGATTTTTCACCATCAGGGATACTTCAA-CCTGTTATTT
1 TTTTATTTTCAAAATATCGATTTTTCACCATCAGGGATAC-TCAACCCCGTTATTT
67523 TCTCCAAAAT
Statistics
Matches: 181, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
77 3 0.02
78 138 0.76
79 40 0.22
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (78 bp):
TTTTATTTTCAAAATATCGATTTTTCACCATCAGGGATACTCAACCCCGTTATTTCTAAGGGGAT
ACTCCAACCTCGA
Found at i:67429 original size:157 final size:157
Alignment explanation
Indices: 67233--67515 Score: 381
Period size: 156 Copynumber: 1.8 Consensus size: 157
67223 CCAACCCCTT
* *
67233 TTTTATTTCCAAAAAATCGATTTGTAACCATCGGAGATACTGCAACCCCGTTATTTCTAAGGGAA
1 TTTTATTTCCAAAAAATCGATTTGTAACCATAGGAGATACT-CAACCCCGTTATTTCCAAGGGAA
* *
67298 TACTCCAACCCCGACTTTATTTTCAAGATATCAATTTTTCA-CATCGGGGATACTCCAACCTCAT
65 TACTCCAACCCCGACTTTATTTTCAAAATATCAATTTTTCACCATCAGGGATACTCCAACCTCAT
67362 TACTTTTAAGGGGATACTCCAACCTCGA
130 TACTTTTAAGGGGATACTCCAACCTCGA
* * * * * *
67390 TTTTATTTTCAAAATATCGATTTTTCACCATTAGG-GATACTCAACCCTGTTATTTCCAAGGGGA
1 TTTTATTTCCAAAAAATCGATTTGTAACCA-TAGGAGATACTCAACCCCGTTATTTCCAAGGGAA
** ** ** *
67454 TACTCCAACCTTGGTTTTATTTTCAAAATATTGATTTTTCACCATCAGGGATACTTCAACCT
65 TACTCCAACCCCGACTTTATTTTCAAAATATCAATTTTTCACCATCAGGGATACTCCAACCT
67516 GTTATTTTCT
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
156 54 0.50
157 50 0.47
158 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (157 bp):
TTTTATTTCCAAAAAATCGATTTGTAACCATAGGAGATACTCAACCCCGTTATTTCCAAGGGAAT
ACTCCAACCCCGACTTTATTTTCAAAATATCAATTTTTCACCATCAGGGATACTCCAACCTCATT
ACTTTTAAGGGGATACTCCAACCTCGA
Found at i:80264 original size:20 final size:20
Alignment explanation
Indices: 80220--80315 Score: 57
Period size: 20 Copynumber: 4.7 Consensus size: 20
80210 TTCTACAATT
* *
80220 TGTATTGATATAAATAGTAAA
1 TGTATTGATACAAACA-TAAA
*
80241 TGTATTGATACAAACATGAA
1 TGTATTGATACAAACATAAA
* * * ** *
80261 TGTATCGATGCATATGTGAA
1 TGTATTGATACAAACATAAA
* ** *
80281 TGTATCGATACATGCCTAAAA
1 TGTATTGATACAAACAT-AAA
80302 TGTATTGATACAAA
1 TGTATTGATACAAA
80316 ATCACCAGGC
Statistics
Matches: 58, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
20 31 0.53
21 27 0.47
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (20 bp):
TGTATTGATACAAACATAAA
Found at i:80394 original size:20 final size:20
Alignment explanation
Indices: 80366--80416 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
80356 TTACAATTGA
*
80366 ATCGATACATTTCTTATTAT
1 ATCGATACATTTCTCATTAT
* *
80386 ATTGATACATTTCTCATTGT
1 ATCGATACATTTCTCATTAT
80406 ATCGATACATT
1 ATCGATACATT
80417 CTGGGTTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (20 bp):
ATCGATACATTTCTCATTAT
Found at i:82127 original size:21 final size:21
Alignment explanation
Indices: 82081--82129 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
82071 TGAACTTGAA
*
82081 AATTATTTTAAAATATTAAAT
1 AATTTTTTTAAAATATTAAAT
* *
82102 AATTTTTTTCAAATTTTATAAT
1 AATTTTTTTAAAATATTA-AAT
82124 -ATTTTT
1 AATTTTT
82130 CCTTAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
AATTTTTTTAAAATATTAAAT
Found at i:82911 original size:79 final size:79
Alignment explanation
Indices: 82805--82957 Score: 236
Period size: 79 Copynumber: 1.9 Consensus size: 79
82795 ATTGATTTTT
* * * *
82805 TTTTCATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTTGAAGGG
1 TTTTCATTTCCAAAATATCAATATTTCACCAGCGAGGATACTCC-ACCCCGTTATTTTCGAAGGG
82870 ATACTCCAACTATGG
65 ATACTCCAACTATGG
* *
82885 TTTT-ATTTCCTAAATATCAATATTTCACCAGCGAGGATACTCCACCTCGTTATTTTCGAAGGGA
1 TTTTCATTTCCAAAATATCAATATTTCACCAGCGAGGATACTCCACCCCGTTATTTTCGAAGGGA
82949 TACTCCAAC
66 TACTCCAAC
82958 CCCGTTATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
78 28 0.42
79 35 0.52
80 4 0.06
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (79 bp):
TTTTCATTTCCAAAATATCAATATTTCACCAGCGAGGATACTCCACCCCGTTATTTTCGAAGGGA
TACTCCAACTATGG
Found at i:83027 original size:78 final size:78
Alignment explanation
Indices: 82945--83204 Score: 326
Period size: 78 Copynumber: 3.3 Consensus size: 78
82935 TATTTTCGAA
* * *
82945 GGGATACTCCAACCCCGTTATTTTT-TAGGGATATTCTAACC-CTGGTTTTATTTCTAAAATATC
1 GGGATACTCCAACCCCATTATTTTTGAAGGGATACTCTAACCTC-GGTTTTATTT-TAAAATATC
83008 GATTTTTCACCATCG
64 GATTTTTCACCATCG
* * * *
83023 GGGATACTCCAACCCCATTATTTTTGAAGGGATACTCCAACCTCGATTTTATTTTCAAATATCAA
1 GGGATACTCCAACCCCATTATTTTTGAAGGGATACTCTAACCTCGGTTTTATTTTAAAATATCGA
* *
83088 TTTTTCACCAACT
66 TTTTTCACCATCG
* * * ** *
83101 GGGATACTGCAATCCCTTTATTTTTGAAAAGATACTCTAACCTCGGTTTTATTTTCAAAATAACG
1 GGGATACTCCAACCCCATTATTTTTGAAGGGATACTCTAACCTCGGTTTTATTTT-AAAATATCG
83166 ATTTTTCACCATCG
65 ATTTTTCACCATCG
* *
83180 AGGAGACTCCAACCCCATTATTTTT
1 GGGATACTCCAACCCCATTATTTTT
83205 TCTAAAATAT
Statistics
Matches: 153, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
78 92 0.60
79 60 0.39
80 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (78 bp):
GGGATACTCCAACCCCATTATTTTTGAAGGGATACTCTAACCTCGGTTTTATTTTAAAATATCGA
TTTTTCACCATCG
Found at i:83028 original size:105 final size:107
Alignment explanation
Indices: 82839--83064 Score: 314
Period size: 106 Copynumber: 2.1 Consensus size: 107
82829 TTCACCATCG
*
82839 GGGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACTATGGTTTTATTTCCTAAATATCA
1 GGGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCATGGTTTTATTTCCTAAATATCA
* *
82904 ATATTTCACCAGCGAGGATACTCC-ACCTCGTTATTTTCGAA
66 ATATTTCACCAGCGAGGATACTCCAACCCCATTATTTTCGAA
* * * *
82945 GGGATACTCCAACCCCGTTATTTTT-TAGGGATATTCTAACCCTGGTTTTATTT-CTAAAATATC
1 GGGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCATGGTTTTATTTCCT-AAATATC
* * * * *
83008 GATTTTTCACCATCGGGGATACTCCAACCCCATTATTTTTGAA
65 AATATTTCACCAGCGAGGATACTCCAACCCCATTATTTTCGAA
83051 GGGATACTCCAACC
1 GGGATACTCCAACC
83065 TCGATTTTAT
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
104 2 0.02
105 51 0.48
106 53 0.50
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.35
Consensus pattern (107 bp):
GGGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCATGGTTTTATTTCCTAAATATCA
ATATTTCACCAGCGAGGATACTCCAACCCCATTATTTTCGAA
Found at i:83137 original size:184 final size:185
Alignment explanation
Indices: 82805--83142 Score: 479
Period size: 184 Copynumber: 1.8 Consensus size: 185
82795 ATTGATTTTT
*
82805 TTTTCATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCGTTATTTTTGAAGGG
1 TTTTCATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCATTATTTTTGAAGGG
* * * *
82870 ATACTCCAACTATGGTTTTATTTCCTAAATATCAATATTTCACCAGCGAGGATACTCCACCTCGT
66 ATACTCCAACTACGATTTTATTTCCTAAATATCAATATTTCACCAACGAGGATACTCAACCTCGT
**
82935 TATTTTCGAAGGGATACTCCAACCCCGTTATTTTTTAGGGATATTCTAACCCTGG
131 TATTTTCGAAAAGATACTCCAACCCCGTTATTTTTTAGGGATATTCTAACCCTGG
* *
82990 TTTT-ATTTCTAAAATATCGATTTTTCACCATCGGGGATACTCCAACCCCATTATTTTTGAAGGG
1 TTTTCATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCATTATTTTTGAAGGG
* *
83054 ATACTCCAACCT-CGATTTTATTTTC-AAATATCAATTTTTCACCAACTG-GGATACTGCAATCC
66 ATACTCCAA-CTACGATTTTATTTCCTAAATATCAATATTTCACCAAC-GAGGATACT-CAA-CC
* * *
83116 -CTTTATTTTTGAAAAGATACTCTAACC
127 TCGTTATTTTCGAAAAGATACTCCAACC
83143 TCGGTTTTAT
Statistics
Matches: 135, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
183 26 0.19
184 101 0.75
185 8 0.06
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (185 bp):
TTTTCATTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCATTATTTTTGAAGGG
ATACTCCAACTACGATTTTATTTCCTAAATATCAATATTTCACCAACGAGGATACTCAACCTCGT
TATTTTCGAAAAGATACTCCAACCCCGTTATTTTTTAGGGATATTCTAACCCTGG
Found at i:85345 original size:13 final size:13
Alignment explanation
Indices: 85327--85352 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85317 TACACCAAGT
85327 ATGTATCGATACA
1 ATGTATCGATACA
85340 ATGTATCGATACA
1 ATGTATCGATACA
85353 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:85350 original size:32 final size:33
Alignment explanation
Indices: 85309--85372 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
85299 TAGCCAAACT
**
85309 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
85341 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
85373 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:87607 original size:21 final size:21
Alignment explanation
Indices: 87574--87623 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
87564 TTGCAAGTTG
*
87574 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
87596 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
87617 AAATAAA
1 AAATAAA
87624 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:89440 original size:15 final size:15
Alignment explanation
Indices: 89420--89450 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
89410 TAAAAATGTC
*
89420 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
89435 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
89450 C
1 C
89451 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:91509 original size:45 final size:45
Alignment explanation
Indices: 91444--91550 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
91434 AAATGTCCAA
* * *
91444 AATGTATTGATACATGTTTCTGTGTATCGATACATCTGGA-AATTC
1 AATGTATCGATACATTTTTCTGTGTATCGATACAT-TGGACAATAC
* *
91489 AATGTATCGATACATTTTTCTTTGTATCGATACATTGTATCAATAC
1 AATGTATCGATACATTTTTCTGTGTATCGATACATTGGA-CAATAC
*
91535 ATTGTATCGATACATT
1 AATGTATCGATACATT
91551 GTATTGATAC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
44 3 0.06
45 32 0.59
46 19 0.35
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (45 bp):
AATGTATCGATACATTTTTCTGTGTATCGATACATTGGACAATAC
Found at i:91528 original size:13 final size:13
Alignment explanation
Indices: 91510--91572 Score: 108
Period size: 13 Copynumber: 4.8 Consensus size: 13
91500 ACATTTTTCT
91510 TTGTATCGATACA
1 TTGTATCGATACA
*
91523 TTGTATCAATACA
1 TTGTATCGATACA
91536 TTGTATCGATACA
1 TTGTATCGATACA
*
91549 TTGTATTGATACA
1 TTGTATCGATACA
91562 TTGTATCGATA
1 TTGTATCGATA
91573 TAGGTTGATT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:91738 original size:20 final size:20
Alignment explanation
Indices: 91695--91740 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
91685 AAATCTTTTG
91695 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
91716 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
91736 CAAAA
1 CAAAA
91741 CCAGCGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:94132 original size:13 final size:13
Alignment explanation
Indices: 94114--94139 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94104 TACACCAAGT
94114 ATGTATCGATACA
1 ATGTATCGATACA
94127 ATGTATCGATACA
1 ATGTATCGATACA
94140 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:94137 original size:32 final size:33
Alignment explanation
Indices: 94096--94159 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
94086 TAGCCAAACT
**
94096 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
94128 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
94160 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:95104 original size:20 final size:21
Alignment explanation
Indices: 95066--95106 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
95056 TATGATTAAA
95066 TGTTTTTCAAGCATAAAAATAC
1 TGTTTTTCAAG-ATAAAAATAC
95088 TGTTTTTCAAG-TAAAAATA
1 TGTTTTTCAAGATAAAAATA
95107 ACTTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (21 bp):
TGTTTTTCAAGATAAAAATAC
Found at i:95243 original size:13 final size:13
Alignment explanation
Indices: 95225--95249 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95215 ATATTGCTTA
95225 GTATCGATACATT
1 GTATCGATACATT
95238 GTATCGATACAT
1 GTATCGATACAT
95250 GTTCTTGGTA
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):
GTATCGATACATT
Found at i:95266 original size:32 final size:33
Alignment explanation
Indices: 95204--95267 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
95194 CACACTCAGA
95204 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATTGCTTAGTATCGATACAT
* *
95237 TGTATCGATACATGTT-CTTGGTATCGATACA
1 TGTATCGATACATATTGCTTAGTATCGATACA
95268 CACTGAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTAGTATCGATACAT
Found at i:95336 original size:13 final size:13
Alignment explanation
Indices: 95318--95378 Score: 68
Period size: 13 Copynumber: 4.7 Consensus size: 13
95308 CTCACTCAGT
95318 ATCGATACAATGC
1 ATCGATACAATGC
*
95331 ATCGATACAATGT
1 ATCGATACAATGC
* * *
95344 ATCAATACAGTCC
1 ATCGATACAATGC
* *
95357 ATCAATACAATGT
1 ATCGATACAATGC
95370 ATCGATACA
1 ATCGATACA
95379 TGGTAAAATG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.26
Consensus pattern (13 bp):
ATCGATACAATGC
Found at i:95352 original size:26 final size:26
Alignment explanation
Indices: 95316--95378 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
95306 AACTCACTCA
* *
95316 GTATCGATACAATGCATCGATACAAT
1 GTATCGATACAATCCATCAATACAAT
* *
95342 GTATCAATACAGTCCATCAATACAAT
1 GTATCGATACAATCCATCAATACAAT
95368 GTATCGATACA
1 GTATCGATACA
95379 TGGTAAAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.27
Consensus pattern (26 bp):
GTATCGATACAATCCATCAATACAAT
Found at i:99008 original size:14 final size:14
Alignment explanation
Indices: 98978--99013 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
98968 ATAAATTCAA
98978 AAAATATAAAAATT
1 AAAATATAAAAATT
98992 AAAAT-TAAAAATGT
1 AAAATATAAAAAT-T
99006 AAAATATA
1 AAAATATA
99014 TACAATCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 7 0.35
14 11 0.55
15 2 0.10
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:99410 original size:21 final size:23
Alignment explanation
Indices: 99386--99436 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
99376 GACTTTTTCT
*
99386 TTTTCTCTGAGTC-TTT-CTCAG
1 TTTTCTCTGAATCTTTTCCTCAG
*
99407 TTTTCCCTGAATCTTTTCCTCAG
1 TTTTCTCTGAATCTTTTCCTCAG
99430 TTCTTCT
1 TT-TTCT
99437 TGGTTTCTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 11 0.46
22 3 0.12
23 7 0.29
24 3 0.12
ACGTcount: A:0.10, C:0.27, G:0.10, T:0.53
Consensus pattern (23 bp):
TTTTCTCTGAATCTTTTCCTCAG
Found at i:100521 original size:52 final size:52
Alignment explanation
Indices: 100465--100573 Score: 218
Period size: 52 Copynumber: 2.1 Consensus size: 52
100455 TGGAGATAGA
100465 ATATAAGTAAGAAGAATAAGGAAGGATGGTAGAGAAGAAAAGGAGGTGGTGC
1 ATATAAGTAAGAAGAATAAGGAAGGATGGTAGAGAAGAAAAGGAGGTGGTGC
100517 ATATAAGTAAGAAGAATAAGGAAGGATGGTAGAGAAGAAAAGGAGGTGGTGC
1 ATATAAGTAAGAAGAATAAGGAAGGATGGTAGAGAAGAAAAGGAGGTGGTGC
100569 ATATA
1 ATATA
100574 GATCAGGAAG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 57 1.00
ACGTcount: A:0.47, C:0.02, G:0.35, T:0.17
Consensus pattern (52 bp):
ATATAAGTAAGAAGAATAAGGAAGGATGGTAGAGAAGAAAAGGAGGTGGTGC
Found at i:100575 original size:26 final size:26
Alignment explanation
Indices: 100494--100575 Score: 73
Period size: 23 Copynumber: 3.2 Consensus size: 26
100484 GGAAGGATGG
100494 TAGAGAAGAAAAGGAGGTGGTGCATA
1 TAGAGAAGAAAAGGAGGTGGTGCATA
* * *
100520 TAAGTAAGAAGAATAAGGAAG-GATG---G
1 T-AG--AGAAGAA-AAGGAGGTGGTGCATA
100546 TAGAGAAGAAAAGGAGGTGGTGCATA
1 TAGAGAAGAAAAGGAGGTGGTGCATA
100572 TAGA
1 TAGA
100576 TCAGGAAGCC
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
22 6 0.14
23 10 0.24
25 2 0.05
26 6 0.14
27 2 0.05
29 10 0.24
30 6 0.14
ACGTcount: A:0.45, C:0.02, G:0.37, T:0.16
Consensus pattern (26 bp):
TAGAGAAGAAAAGGAGGTGGTGCATA
Found at i:103958 original size:70 final size:70
Alignment explanation
Indices: 103845--103985 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
103835 AAAGAAGTGC
103845 TTATTAAAGCTATGCTATGTGCTATACCAGTGTATGCTATGAACTGTTTTAAACTTCCAAGAAAA
1 TTATTAAAGCTATGCTATGTGCTATACCAGTGTATGCTATGAACTGTTTTAAACTTCCAAGAAAA
103910 CTATG
66 CTATG
103915 TTATTAAAGCTATGCTATGTGCTATACCAGTGTATGCTATGAACTGTTTTAAACTTCCAAGAAAA
1 TTATTAAAGCTATGCTATGTGCTATACCAGTGTATGCTATGAACTGTTTTAAACTTCCAAGAAAA
103980 CTATG
66 CTATG
103985 T
1 T
103986 GATGAATTAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (70 bp):
TTATTAAAGCTATGCTATGTGCTATACCAGTGTATGCTATGAACTGTTTTAAACTTCCAAGAAAA
CTATG
Found at i:105817 original size:2 final size:2
Alignment explanation
Indices: 105812--105842 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
105802 TCAAACATAA
*
105812 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
105843 AAGAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:107275 original size:3 final size:3
Alignment explanation
Indices: 107267--107303 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
107257 ATAGTACAAA
107267 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
107304 TGAGCTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:119711 original size:131 final size:131
Alignment explanation
Indices: 119477--119870 Score: 725
Period size: 131 Copynumber: 3.0 Consensus size: 131
119467 TTGATTTTTC
*
119477 ATTCATTTAAAGAGGAAAAATATTTTTCAATGAAAACTTTCATCAAAAGTACTATTTCAATTTTA
1 ATTCATTTAAAGAGGAAAAATATTTTTCAATGAAAACTTTCATCAAAAATACTATTTCAATTTTA
* * *
119542 TTAGTAATAGAATTTCAAAGGTTTTTTTATCCGAAAATCCTCAATGATATTTTTGATGGATTAAT
66 TTAGTAATAGAATTTCAAAGGCTTTTTTATCCAAAAATCCTCAAGGATATTTTTGATGGATTAAT
119607 T
131 T
* *
119608 ATTCATTTAAAGAGGAAAAATATTTTTCAATAAAAACTTTCATCAAAAATACTATTTTAATTTTA
1 ATTCATTTAAAGAGGAAAAATATTTTTCAATGAAAACTTTCATCAAAAATACTATTTCAATTTTA
*
119673 TTAGTAATAGAATTTCAAAGGCATTTTTATCCAAAAATCCTCAAGGATATTTTTGATGGATTAAT
66 TTAGTAATAGAATTTCAAAGGCTTTTTTATCCAAAAATCCTCAAGGATATTTTTGATGGATTAAT
119738 T
131 T
119739 ATTCATTTAAAGAGGAAAAATATTTTTCAATGAAAACTTTCATCAAAAATACTATTTCAATTTTA
1 ATTCATTTAAAGAGGAAAAATATTTTTCAATGAAAACTTTCATCAAAAATACTATTTCAATTTTA
119804 TTAGTAATAGAATTTCAAAGGCTTTTTTATCCAAAAATCCTCAAGGATATTTTTGATGGATTAAT
66 TTAGTAATAGAATTTCAAAGGCTTTTTTATCCAAAAATCCTCAAGGATATTTTTGATGGATTAAT
119869 T
131 T
119870 A
1 A
119871 ACAACGAAAT
Statistics
Matches: 253, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
131 253 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (131 bp):
ATTCATTTAAAGAGGAAAAATATTTTTCAATGAAAACTTTCATCAAAAATACTATTTCAATTTTA
TTAGTAATAGAATTTCAAAGGCTTTTTTATCCAAAAATCCTCAAGGATATTTTTGATGGATTAAT
T
Found at i:120435 original size:11 final size:11
Alignment explanation
Indices: 120407--120437 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
120397 CACTCCCCTC
*
120407 TTCTTTCTTTT
1 TTCTTTTTTTT
120418 TTCTTTTTTTT
1 TTCTTTTTTTT
120429 TTCTTTTTT
1 TTCTTTTTT
120438 CTCGTTTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:120809 original size:35 final size:35
Alignment explanation
Indices: 120741--120818 Score: 90
Period size: 35 Copynumber: 2.2 Consensus size: 35
120731 CTAATAAAAT
*
120741 TATATATTAATTTTTTTTCTAGTTTATATTTTTAG
1 TATATATTAATTTTTTTTCTAGTTTATAATTTTAG
120776 TATATA-TAA-TTTTTTTCTA-TTTAGGGTAATTTTAG
1 TATATATTAATTTTTTTTCTAGTTTA---TAATTTTAG
*
120811 TATCTATT
1 TATATATT
120819 TTTATACGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
32 4 0.11
33 10 0.27
34 3 0.08
35 19 0.51
36 1 0.03
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.62
Consensus pattern (35 bp):
TATATATTAATTTTTTTTCTAGTTTATAATTTTAG
Found at i:121646 original size:2 final size:2
Alignment explanation
Indices: 121641--121674 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
121631 ATATCGCTAT
121641 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
121675 ATTTCTAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:126718 original size:41 final size:41
Alignment explanation
Indices: 126661--126742 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
126651 ATTTAAGTAG
126661 AAATGATTTAATCTCAATGAATATGTATTTCGTAATATTTA
1 AAATGATTTAATCTCAATGAATATGTATTTCGTAATATTTA
126702 AAATGATTTAATCTCAATGAATATGTATTTCGTAATATTTA
1 AAATGATTTAATCTCAATGAATATGTATTTCGTAATATTTA
126743 TCATGTCATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (41 bp):
AAATGATTTAATCTCAATGAATATGTATTTCGTAATATTTA
Found at i:131555 original size:20 final size:20
Alignment explanation
Indices: 131530--131579 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
131520 GAAGCAATGT
*
131530 ATCGATACAAT-TCATCATGC
1 ATCGATACAATGT-ACCATGC
*
131550 ATCGATACAATGTACCATGT
1 ATCGATACAATGTACCATGC
131570 ATCGATACAA
1 ATCGATACAA
131580 ACAGTGATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (20 bp):
ATCGATACAATGTACCATGC
Found at i:131656 original size:19 final size:19
Alignment explanation
Indices: 131608--131663 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
131598 CTGCCAGTTT
**
131608 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
131628 CATATATCGATACAATGAA
1 CATGTATCGATACAATGAA
131647 CATGTATCGATACAATG
1 CATGTATCGATACAATG
131664 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:131666 original size:13 final size:13
Alignment explanation
Indices: 131648--131674 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
131638 TACAATGAAC
131648 ATGTATCGATACA
1 ATGTATCGATACA
131661 ATGTATCGATACA
1 ATGTATCGATACA
131674 A
1 A
131675 AGCATAATGT
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:131690 original size:33 final size:32
Alignment explanation
Indices: 131632--131693 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
131622 ATTGTCCATA
*
131632 TATCGATACAATGAACATGTATCGATACAATG
1 TATCGATACAAAGAACATGTATCGATACAATG
131664 TATCGATACAAAGCATA-ATGTATCGATACA
1 TATCGATACAAAG-A-ACATGTATCGATACA
131694 TCTGGGTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 12 0.44
33 14 0.52
34 1 0.04
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (32 bp):
TATCGATACAAAGAACATGTATCGATACAATG
Found at i:136285 original size:13 final size:13
Alignment explanation
Indices: 136267--136293 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
136257 CAAAGATCAG
136267 TGTATCGATACAT
1 TGTATCGATACAT
136280 TGTATCGATACAT
1 TGTATCGATACAT
136293 T
1 T
136294 TGAGTAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:136382 original size:32 final size:32
Alignment explanation
Indices: 136336--136406 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
136326 AGCTTCGTAG
* *
136336 CGATACATTGTATCGATACAGCACTTATGTAT
1 CGATACATTATATCGATACAACACTTATGTAT
136368 CGATACATTATATCGATACAACACTTATGTAT
1 CGATACATTATATCGATACAACACTTATGTAT
136400 CGATACA
1 CGATACA
136407 ATTTTGGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTATATCGATACAACACTTATGTAT
Found at i:136407 original size:19 final size:19
Alignment explanation
Indices: 136344--136407 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
136334 AGCGATACAT
*
136344 TGTATCGATACAGCACTTA
1 TGTATCGATACAACACTTA
136363 TGTATCGAT---ACA-TTA
1 TGTATCGATACAACACTTA
136378 --TATCGATACAACACTTA
1 TGTATCGATACAACACTTA
136395 TGTATCGATACAA
1 TGTATCGATACAA
136408 TTTTGGTTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 7 0.18
15 3 0.08
16 5 0.13
17 3 0.08
19 20 0.53
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:137393 original size:13 final size:13
Alignment explanation
Indices: 137375--137399 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
137365 ATTACTCAAA
137375 TGTATCGATACAT
1 TGTATCGATACAT
137388 TGTATCGATACA
1 TGTATCGATACA
137400 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:137452 original size:52 final size:52
Alignment explanation
Indices: 137408--137744 Score: 602
Period size: 52 Copynumber: 6.5 Consensus size: 52
137398 CACTGATCTT
*
137408 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
137460 TGTATCGATACATGTAGGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
137512 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTACGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
137564 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
137616 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
137668 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
137720 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
137745 TCATATTTCG
Statistics
Matches: 271, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 271 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:141159 original size:101 final size:98
Alignment explanation
Indices: 140933--141558 Score: 656
Period size: 92 Copynumber: 6.4 Consensus size: 98
140923 AAGATGAGAA
* * * * * *
140933 AAAGGATGTCAATGTGCTGATTCACGGTCAGCGACATTTAGACTTGAAGATGAGAAGAATGCCAA
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCGACA-TTGGACTT-AA-A-GACAAG-GTGCCAA
* * **
140998 TGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATG
60 TATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATG
* * * * *
141038 ACGAAGGCGCCAATATGCTGATTCAAGGCCAGCGATACTGGACTTAAAGATGAAGGTGCCAATAT
1 A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA-CAAGGTGCCAATAT
*
141103 GTTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
63 GCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * * * * *
141139 ACAAAGGCGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGGTGCCAATGT
1 --AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA-CAAGGTGCCAATAT
*
141204 GCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG
63 GCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* *
141240 -AAGGTACCAATGTGCTGATTCAAGGCCAGCGACATTAGTAC-TAAAGACAAAGGTGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGAC-AAGGTGCCAATATG
* *
141303 CTGGTTCAAGGCCAGCGATATTGGAC-T-----T-
64 CTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* *
141331 AAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGACACAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACA-AGGTGCCAATATGC
* *
141396 TGATTCAAGGCCAGCGATATTAGAC-T-----T-
65 TGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * * *
141423 AAAGGTGCCAATGTGCTGATTCAAGGCTAACGACATTGGTCTTAAAGACAAGGTGCCAATACGCT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGGTGCCAATATGCT
* *
141488 TATTCAAGGCCAGCGATATTGGACTTAAAGATG
66 GATTCAAGGCCAGCGACATTGGACTTAAAGATG
141521 -AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
141559 GTTTAAAAGA
Statistics
Matches: 460, Mismatches: 44, Indels: 42
0.84 0.08 0.08
Matches are distributed among these distances:
91 39 0.08
92 129 0.28
97 38 0.08
98 73 0.16
99 3 0.01
101 104 0.23
102 31 0.07
103 6 0.01
104 2 0.00
105 7 0.02
106 24 0.05
107 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (98 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGGTGCCAATATGCT
GATTCAAGGCCAGCGACATTGGACTTAAAGATG
Found at i:141565 original size:49 final size:49
Alignment explanation
Indices: 140942--141558 Score: 652
Period size: 49 Copynumber: 12.6 Consensus size: 49
140932 AAAAGGATGT
* * * * *
140942 CAATGTGCTGATTCACGGTCAGCGACATTTAGACTTGAAGATGAGAAGAATGC
1 CAATGTGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGAT--GAAG-GTGC
* ** *
140995 CAATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGAT---GAAGGTGC
* * *
141048 CAATATGCTGATTCAAGGCCAGCGATACTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
141097 CAATATGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * *
141149 CAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
141198 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTAC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* **
141247 CAATGTGCTGATTCAAGGCCAGCGACATTAGTAC-TAAAGACAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGAAGGTGC
* * *
141296 CAATATGCTGGTTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
141339 CAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGA-CACAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-AGGTGC
* * *
141388 CAATATGCTGATTCAAGGCCAGCGATATTAGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
141431 CAATGTGCTGATTCAAGGCTAACGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
** * *
141479 CAATACGCTTATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
141528 CAATGTGCTGATTCAAGGCCAGCGACATTGG
1 CAATGTGCTGATTCAAGGCCAGCGACATTGG
141559 GTTTAAAAGA
Statistics
Matches: 477, Mismatches: 68, Indels: 42
0.81 0.12 0.07
Matches are distributed among these distances:
43 72 0.15
44 1 0.00
45 2 0.00
47 2 0.00
48 44 0.09
49 234 0.49
50 2 0.00
52 57 0.12
53 59 0.12
54 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:141670 original size:27 final size:27
Alignment explanation
Indices: 141638--141690 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
141628 AGGAGAAAGA
141638 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACAGAGTTGTGGACTTAAAAGGG
*
141665 TGCCACGGAGTTGTGGACTTAAAAGG
1 TGCCACAGAGTTGTGGACTTAAAAGG
141691 AAAAAAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.23
Consensus pattern (27 bp):
TGCCACAGAGTTGTGGACTTAAAAGGG
Found at i:141726 original size:37 final size:35
Alignment explanation
Indices: 141664--141998 Score: 279
Period size: 37 Copynumber: 9.6 Consensus size: 35
141654 ACTTAAAAGG
* *
141664 GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAAAA
1 GTGCCACGGAGTTGTGGGCTTTAAAAAG-AAAAAAA
* * *
141699 GTGCCACGGAGTTATGGACTTTAAAAAG-AAAAAG
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAAA
* *
141733 GTGCCACGAAGTTGTGGGCTTTGAAGAAA-AGAAAAAG
1 GTGCCACGGAGTTGTGGGCTTT-AA-AAAGA-AAAAAA
*
141770 GTGCCACGAAGTTGTGGGCTTTGAAGAAAAGAAAAAAA
1 GTGCCACGGAGTTGTGGGCTTT--A-AAAAGAAAAAAA
*
141808 -TGCCACGGAGTTGTGGGC-TT-AAAAG------G
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAAA
* * * *
141834 GTGCCACGGAGTTATGGAC-TTAAAAGGGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTTAAAA-AGAAAAAAA
* *
141869 GTGCCACGGAGTTGTGGACTTTAAAAAG-AAAAAG
1 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAAA
*
141903 GTGCCACGGAGTTGTGGGCTTTGAAGAAA-AGAAAAA
1 GTGCCACGGAGTTGTGGGCTTT-AA-AAAGAAAAAAA
*
141939 GATGCCACGGAGTTGTGGGCTTTGAAGAAA-AGAAAAAG
1 G-TGCCACGGAGTTGTGGGCTTT-AA-AAAGA-AAAAAA
141977 GTGCCACGGAGTTGTGGGCTTT
1 GTGCCACGGAGTTGTGGGCTTT
141999 GGAAAGAGAT
Statistics
Matches: 254, Mismatches: 23, Indels: 44
0.79 0.07 0.14
Matches are distributed among these distances:
27 18 0.07
28 3 0.01
29 1 0.00
32 5 0.02
34 49 0.19
35 41 0.16
36 26 0.10
37 95 0.37
38 14 0.06
39 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.32, T:0.20
Consensus pattern (35 bp):
GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAAA
Found at i:141836 original size:170 final size:170
Alignment explanation
Indices: 141637--141997 Score: 623
Period size: 170 Copynumber: 2.1 Consensus size: 170
141627 AAGGAGAAAG
* * *
141637 ATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAAAGTG
1 ATGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAAAAGTG
141702 CCACGGAGTTATGGACTTTAAAAAGAAAAAGGTGCCACGAAGTTGTGGGCTTTGAAGAAAAGAAA
66 CCACGGAGTTATGGACTTTAAAAAGAAAAAGGTGCCACGAAGTTGTGGGCTTTGAAGAAAAGAAA
*
141767 AAGGTGCCACGAAGTTGTGGGCTTTGAAGAAAAGAAAAAA
131 AAGATGCCACGAAGTTGTGGGCTTTGAAGAAAAGAAAAAA
* *
141807 ATGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGGAAAAAGAGTG
1 ATGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAAAAGTG
* *
141872 CCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGAAA
66 CCACGGAGTTATGGACTTTAAAAAGAAAAAGGTGCCACGAAGTTGTGGGCTTTGAAGAAAAGAAA
* *
141937 AAGATGCCACGGAGTTGTGGGCTTTGAAGAAAAGAAAAAG
131 AAGATGCCACGAAGTTGTGGGCTTTGAAGAAAAGAAAAAA
*
141977 GTGCCACGGAGTTGTGGGCTT
1 ATGCCACGGAGTTGTGGGCTT
141998 TGGAAAGAGA
Statistics
Matches: 180, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
170 180 1.00
ACGTcount: A:0.36, C:0.12, G:0.32, T:0.20
Consensus pattern (170 bp):
ATGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAAAAGTG
CCACGGAGTTATGGACTTTAAAAAGAAAAAGGTGCCACGAAGTTGTGGGCTTTGAAGAAAAGAAA
AAGATGCCACGAAGTTGTGGGCTTTGAAGAAAAGAAAAAA
Found at i:141839 original size:27 final size:27
Alignment explanation
Indices: 141808--141861 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
141798 AAGAAAAAAA
* *
141808 TGCCACGGAGTTGTGGGCTTAAAAGGG
1 TGCCACGGAGTTATGGACTTAAAAGGG
141835 TGCCACGGAGTTATGGACTTAAAAGGG
1 TGCCACGGAGTTATGGACTTAAAAGGG
141862 AAAAAGAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.15, G:0.37, T:0.22
Consensus pattern (27 bp):
TGCCACGGAGTTATGGACTTAAAAGGG
Found at i:141933 original size:133 final size:134
Alignment explanation
Indices: 141699--141960 Score: 431
Period size: 133 Copynumber: 2.0 Consensus size: 134
141689 GGAAAAAAAA
*
141699 GTGCCACGGAGTTATGGACTTTAAAAAGAAAAAGGTGCCACGAAGTTGTGGGCTTTGAAGAAAAG
1 GTGCCACGGAGTTATGGACTTTAAAAAGAAAAAGGTGCCACGAAGTTGTGGACTTT-AAGAAAAG
141764 AAAAAGGTGCCACGAAGTTGTGGGCTTTGAAGAAAAGAAAAAAATGCCACGGAGTTGTGGGCTTA
65 AAAAAGGTGCCACGAAGTTGTGGGCTTTGAAGAAAAGAAAAAAATGCCACGGAGTTGTGGGCTTA
141829 AAAGG
130 AAAGG
* *
141834 GTGCCACGGAGTTATGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGACTTT-A-AAAA
1 GTGCCACGGAGTTATGGACTTTAAAA-AGAAAAAG-GTGCCACGAAGTTGTGGACTTTAAGAAAA
* *
141896 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGAAAAAGATGCCACGGAGTTGTGGGCTT
64 GAAAAAGGTGCCACGAAGTTGTGGGCTTTGAAGAAAAGAAAAAAATGCCACGGAGTTGTGGGCTT
141961 TGAAGAAAAG
Statistics
Matches: 120, Mismatches: 5, Indels: 6
0.92 0.04 0.05
Matches are distributed among these distances:
133 67 0.56
134 7 0.06
135 26 0.22
136 20 0.17
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.20
Consensus pattern (134 bp):
GTGCCACGGAGTTATGGACTTTAAAAAGAAAAAGGTGCCACGAAGTTGTGGACTTTAAGAAAAGA
AAAAGGTGCCACGAAGTTGTGGGCTTTGAAGAAAAGAAAAAAATGCCACGGAGTTGTGGGCTTAA
AAGG
Found at i:143410 original size:7 final size:7
Alignment explanation
Indices: 143372--143412 Score: 55
Period size: 7 Copynumber: 5.6 Consensus size: 7
143362 TGGTTGTTTG
143372 TTTTGTT
1 TTTTGTT
*
143379 GTTTGTTT
1 TTTTG-TT
143387 TTTTGTTT
1 TTTTG-TT
143395 TTTTGTT
1 TTTTGTT
143402 TTTTGTT
1 TTTTGTT
143409 TTTT
1 TTTT
143413 TCTGTTTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
7 17 0.55
8 14 0.45
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (7 bp):
TTTTGTT
Found at i:143411 original size:16 final size:17
Alignment explanation
Indices: 143347--143421 Score: 82
Period size: 16 Copynumber: 4.3 Consensus size: 17
143337 TACACTCCTT
143347 TTTTTTGTGTTTTTTTGG
1 TTTTTTGTGTTTTTTT-G
* *
143365 TTGTTTGTTTTGTTGTTTG
1 TTTTTTGTGTT-TT-TTTG
143384 TTTTTT-TGTTTTTTTG
1 TTTTTTGTGTTTTTTTG
143400 TTTTTTGT-TTTTTTCTG
1 TTTTTTGTGTTTTTT-TG
143417 TTTTT
1 TTTTT
143422 CTTTTTCATC
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
16 16 0.33
17 10 0.20
18 12 0.24
19 8 0.16
20 3 0.06
ACGTcount: A:0.00, C:0.01, G:0.17, T:0.81
Consensus pattern (17 bp):
TTTTTTGTGTTTTTTTG
Found at i:143413 original size:8 final size:8
Alignment explanation
Indices: 143365--143427 Score: 67
Period size: 8 Copynumber: 8.0 Consensus size: 8
143355 GTTTTTTTGG
143365 TTGTTTGTT
1 TTGTTT-TT
*
143374 TTG-TTGT
1 TTGTTTTT
143381 TTGTTTTT
1 TTGTTTTT
143389 TTGTTTTT
1 TTGTTTTT
143397 TTG-TTTT
1 TTGTTTTT
143404 TTGTTTTT
1 TTGTTTTT
* *
143412 TTCTGTTT
1 TTGTTTTT
*
143420 TTCTTTTT
1 TTGTTTTT
143428 CATCATTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
7 11 0.23
8 33 0.70
9 3 0.06
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.83
Consensus pattern (8 bp):
TTGTTTTT
Found at i:143420 original size:15 final size:14
Alignment explanation
Indices: 143345--143420 Score: 55
Period size: 15 Copynumber: 4.9 Consensus size: 14
143335 TTTACACTCC
*
143345 TTTTTTTTGTGTTTT
1 TTTTTTTTGT-TTTG
143360 TTTGGTTGTTTGTTTTG
1 TTT--TT-TTTGTTTTG
143377 TTGTTTGTTT-TTTTG
1 TT-TTT-TTTGTTTTG
*
143392 TTTTTTTGTTTTTTG
1 TTTTTTT-TGTTTTG
143407 TTTTTTTCTGTTTT
1 TTTTTTT-TGTTTT
143421 TCTTTTTCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
13 2 0.04
14 4 0.08
15 27 0.52
16 6 0.12
17 7 0.13
18 6 0.12
ACGTcount: A:0.00, C:0.01, G:0.17, T:0.82
Consensus pattern (14 bp):
TTTTTTTTGTTTTG
Found at i:143420 original size:23 final size:23
Alignment explanation
Indices: 143372--143427 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
143362 TGGTTGTTTG
* * *
143372 TTTTGTTGTTTGTTTTTTTGTTT
1 TTTTGTTTTTTGTTTTTTTCTGT
143395 TTTTGTTTTTTGTTTTTTTCTGT
1 TTTTGTTTTTTGTTTTTTTCTGT
*
143418 TTTTCTTTTT
1 TTTTGTTTTT
143428 CATCATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (23 bp):
TTTTGTTTTTTGTTTTTTTCTGT
Found at i:143426 original size:15 final size:15
Alignment explanation
Indices: 143380--143427 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
143370 TGTTTTGTTG
*
143380 TTTGTTTTTTTGTTTT
1 TTTG-TTTTTTCTTTT
*
143396 TTTGTTTTTTGTTTT
1 TTTGTTTTTTCTTTT
*
143411 TTTCTGTTTTTCTTTT
1 TTTGT-TTTTTCTTTT
143427 T
1 T
143428 CATCATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 15 0.52
16 14 0.48
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.85
Consensus pattern (15 bp):
TTTGTTTTTTCTTTT
Found at i:146775 original size:20 final size:21
Alignment explanation
Indices: 146750--146789 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
146740 TTTGTTGGTG
*
146750 ATTTTGATG-AAAAATGAAGT
1 ATTTTGAAGTAAAAATGAAGT
146770 ATTTTGAAGTAAAAATGAAG
1 ATTTTGAAGTAAAAATGAAG
146790 AAATTTGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (21 bp):
ATTTTGAAGTAAAAATGAAGT
Done.