Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 108 of 228
Found at i:31490607 original size:43 final size:43
Alignment explanation
Indices: 31490546--31490645 Score: 200
Period size: 43 Copynumber: 2.3 Consensus size: 43
31490536 ATTTCAAGCC
31490546 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCT
1 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCT
31490589 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCT
1 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCT
31490632 CGCACACTTAGTGC
1 CGCACACTTAGTGC
31490646 TGAAAACCAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (43 bp):
CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCT
Found at i:31504274 original size:12 final size:12
Alignment explanation
Indices: 31504257--31504282 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31504247 CATTCCGAAG
31504257 TATATATATACA
1 TATATATATACA
31504269 TATATATATACA
1 TATATATATACA
31504281 TA
1 TA
31504283 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:31504795 original size:27 final size:27
Alignment explanation
Indices: 31504764--31504941 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31504754 TAAATTGTAC
31504764 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31504791 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31504817 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31504845 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
31504873 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31504900 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31504927 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31504942 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31504878 original size:82 final size:81
Alignment explanation
Indices: 31504765--31504920 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31504755 AAATTGTACA
* *
31504765 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
31504829 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
31504846 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
31504911 TGCGAGTTGA
65 TGCGAATTGA
31504921 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31504932 original size:82 final size:81
Alignment explanation
Indices: 31504761--31504941 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
31504751 GATTAAATTG
* *
31504761 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
31504826 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
31504842 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
31504906 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
31504924 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
31504942 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31508613 original size:11 final size:11
Alignment explanation
Indices: 31508588--31508622 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
31508578 AACTTTATTA
31508588 TCTTTTATGTTT
1 TCTTTTAT-TTT
31508600 TCTTTTATTTT
1 TCTTTTATTTT
31508611 TCTTTTATTTT
1 TCTTTTATTTT
31508622 T
1 T
31508623 ATCTTGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.80
Consensus pattern (11 bp):
TCTTTTATTTT
Found at i:31509663 original size:39 final size:39
Alignment explanation
Indices: 31509620--31509738 Score: 229
Period size: 39 Copynumber: 3.1 Consensus size: 39
31509610 TCATAATTTA
*
31509620 TCCTGGTTTAGAAAGTGAGGTTGAAAGATAGGTGAGTAT
1 TCCTGGTTTAGAAAGCGAGGTTGAAAGATAGGTGAGTAT
31509659 TCCTGGTTTAGAAAGCGAGGTTGAAAGATAGGTGAGTAT
1 TCCTGGTTTAGAAAGCGAGGTTGAAAGATAGGTGAGTAT
31509698 TCCTGGTTTAGAAAGCGAGGTTGAAAGATAGGTGAGTAT
1 TCCTGGTTTAGAAAGCGAGGTTGAAAGATAGGTGAGTAT
31509737 TC
1 TC
31509739 ATTGATTAAT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.30, C:0.08, G:0.33, T:0.29
Consensus pattern (39 bp):
TCCTGGTTTAGAAAGCGAGGTTGAAAGATAGGTGAGTAT
Found at i:31513039 original size:27 final size:27
Alignment explanation
Indices: 31513008--31513070 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 27
31512998 TTAGAGTGTG
31513008 CCACAAAGGCATTCC-CTTCATAGATCA
1 CCACAAAGGC-TTCCTCTTCATAGATCA
* *
31513035 CCACAAATGCTTCCTTTTTCATAGATCA
1 CCACAAAGGCTTCC-TCTTCATAGATCA
31513063 CCACAAAG
1 CCACAAAG
31513071 ACATCCTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 4 0.13
27 9 0.29
28 18 0.58
ACGTcount: A:0.33, C:0.32, G:0.10, T:0.25
Consensus pattern (27 bp):
CCACAAAGGCTTCCTCTTCATAGATCA
Found at i:31513077 original size:28 final size:28
Alignment explanation
Indices: 31513024--31513080 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
31513014 AGGCATTCCC
*
31513024 TTCATAGATCACCACAAATGCTTCCTTT
1 TTCATAGATCACCACAAATGCATCCTTT
31513052 TTCATAGATCACCACAAA-GACATCCTTT
1 TTCATAGATCACCACAAATG-CATCCTTT
31513080 T
1 T
31513081 CCAGCATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 1 0.04
28 26 0.96
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (28 bp):
TTCATAGATCACCACAAATGCATCCTTT
Found at i:31516547 original size:101 final size:102
Alignment explanation
Indices: 31516432--31516654 Score: 249
Period size: 101 Copynumber: 2.2 Consensus size: 102
31516422 GCATGGACTG
* ** *
31516432 TGTGTAGGCCACTATGTGAAAGTGAAAG-TGAT-GGTCACGTGTGTAGTACTATGTGTAGGCTAC
1 TGTGTAGGCTACTATGTGAAACAGAAAGCT--TCGATCACGTGTGTAGTACTATGTGTAGGCTAC
*
31516495 TACGTGTA-CTAGA-A-TGATAGGTCGCATGTGTAGTACAA
64 TACGTGTATC-AGATAGTGAT-GGTCACATGTGTAGTACAA
* * * * * *
31516533 TGTGTAAGCTACTATGCGTACCAGATAGCTTCGATCACGTGTGTAGTACTATGTTTAGGCTACTA
1 TGTGTAGGCTACTATGTGAAACAGAAAGCTTCGATCACGTGTGTAGTACTATGTGTAGGCTACTA
* *
31516598 CGTGTATCGGATAGTGATGGTCACATGTGTAGTACTA
66 CGTGTATCAGATAGTGATGGTCACATGTGTAGTACAA
*
31516635 TGTGCAGGCTACTATGTGAA
1 TGTGTAGGCTACTATGTGAA
31516655 CCGGTATCAT
Statistics
Matches: 100, Mismatches: 17, Indels: 9
0.79 0.13 0.07
Matches are distributed among these distances:
100 1 0.01
101 59 0.59
102 36 0.36
103 4 0.04
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (102 bp):
TGTGTAGGCTACTATGTGAAACAGAAAGCTTCGATCACGTGTGTAGTACTATGTGTAGGCTACTA
CGTGTATCAGATAGTGATGGTCACATGTGTAGTACAA
Found at i:31516595 original size:51 final size:49
Alignment explanation
Indices: 31516463--31516648 Score: 185
Period size: 51 Copynumber: 3.7 Consensus size: 49
31516453 GTGAAAGTGA
* *
31516463 TGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACTAGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATA-G-T
* * * * * *
31516513 AGGTCGCATGTGTAGTACAATGTGTAAGCTACTATGCGTACCAGATAGCT
1 TGGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATAG-T
* * * * *
31516563 TCGATCACGTGTGTAGTACTATGTTTAGGCTACTACGTGTATCGGATAGT
1 T-GGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATAGT
*
31516613 GATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 --TGGTCACATGTGTAGTACTATGTGTAGGCTACTA
31516649 TGTGAACCGG
Statistics
Matches: 108, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
50 40 0.37
51 67 0.62
52 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGATAGT
Found at i:31516898 original size:16 final size:16
Alignment explanation
Indices: 31516877--31516908 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31516867 TGATTGAAAG
*
31516877 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
31516893 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
31516909 GCGACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:31528338 original size:91 final size:91
Alignment explanation
Indices: 31528224--31528521 Score: 542
Period size: 91 Copynumber: 3.3 Consensus size: 91
31528214 TTGATTTTAG
* *
31528224 TAAATTCATATAAGAATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
31528289 TTTGATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
31528315 TAAATTCATATAAGAAAATTTATTACCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
31528380 TTTAATATTAATTATTTAAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
31528406 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
31528471 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
31528497 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
31528522 GTAATAATTA
Statistics
Matches: 199, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 199 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TTTAATATTAATTATTTTAAATTATA
Found at i:31528613 original size:59 final size:58
Alignment explanation
Indices: 31528548--31528856 Score: 197
Period size: 59 Copynumber: 5.2 Consensus size: 58
31528538 ATTTTATTAA
31528548 ATCATATATTTTAATTAAAATATATTTAATAATAATTGTTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATAATAATTGTTT-AAATTATATTTTATAGT
* * * * * * * *
31528607 GTCATATATTATGAGTTTAGTAAAT-TCATATAAGAATTA-TGATT--ATTAAGAATTTTATTA-
1 ATCATATATT-TTA-ATTA--AAATAT-ATTTAATAATAATTGTTTAAATT-A-TATTTTA-TAG
*
31528667 A
58 T
*
31528668 ATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATAATAATTGTTT-AAATTATATTTTATAGT
* * ** * * * *
31528727 ATCATATATTATGATTTTAGTAAAT-TCATAAAAGAAT-ATTGATT--ATTAAGAATTTTATTAA
1 ATCATATATT-TTA-ATTA--AAATAT-ATTTAATAATAATTGTTTAAATT-A-TATTTTA-TAG
*
31528788 A
58 T
*
31528789 AT-ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATAATAATTGT-TTAAATTATATTTTATAGT
31528847 ATCATATATT
1 ATCATATATT
31528857 ATGATTTGAG
Statistics
Matches: 183, Mismatches: 39, Indels: 56
0.66 0.14 0.20
Matches are distributed among these distances:
57 24 0.13
58 14 0.08
59 52 0.28
60 12 0.07
61 40 0.22
62 17 0.09
63 24 0.13
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (58 bp):
ATCATATATTTTAATTAAAATATATTTAATAATAATTGTTTAAATTATATTTTATAGT
Found at i:31528814 original size:16 final size:17
Alignment explanation
Indices: 31528778--31528812 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
31528768 ATTATTAAGA
31528778 ATTTTATTAAAATATAT
1 ATTTTATTAAAATATAT
31528795 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
31528813 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:31528937 original size:15 final size:15
Alignment explanation
Indices: 31528902--31528943 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
31528892 TTAAGAATTT
*
31528902 TATTAAATTAT-ATA
1 TATTTAATTATAATA
31528916 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
31528930 TATTTAATAATAAT
1 TATTTAATTATAAT
31528944 TATGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:31528952 original size:120 final size:119
Alignment explanation
Indices: 31528537--31528946 Score: 700
Period size: 120 Copynumber: 3.4 Consensus size: 119
31528527 AATTATTTTA
*
31528537 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTGTTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
*
31528602 ATAGTGTCATATATTATGAGTTTAGTAAATTCATATAAGAAT-TATGATTATTAAG
66 ATAGTATCATATATTATGA-TTTAGTAAATTCATATAAGAATAT-TGATTATTAAG
31528657 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
*
31528722 ATAGTATCATATATTATGATTTTAGTAAATTCATAAAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGA-TTTAGTAAATTCATATAAGAATATTGATTATTAAG
31528777 AATTTTATTAAAAT-ATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATT
1 AATTTTATT-AAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATATT
31528840 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
64 TTATAGTATCATATATTATGATTT-AGTAAATTCATATAAGAATATTGATTATTAAG
* *
31528897 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT
31528947 GTTAAAATAT
Statistics
Matches: 279, Mismatches: 6, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
119 7 0.03
120 265 0.95
121 7 0.03
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (119 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
ATAGTATCATATATTATGATTTAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:31529156 original size:16 final size:16
Alignment explanation
Indices: 31529132--31529164 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
31529122 TTGATTTGCT
*
31529132 ATTATGCCTCTATTCC
1 ATTACGCCTCTATTCC
31529148 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
31529164 A
1 A
31529165 ATACAGCGAA
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:0.21, C:0.33, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:31553361 original size:30 final size:29
Alignment explanation
Indices: 31553327--31553399 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 29
31553317 TGATCATCAG
* *
31553327 CATCCCTTTTCATAATTTGATAGCCGAAGT
1 CATCCCTTTTCATAA-TCGATAGCCGAAGC
*
31553357 CATCCCTTTTCATGATCGATAGCCGAAGC
1 CATCCCTTTTCATAATCGATAGCCGAAGC
31553386 CATCCCTTTTCATA
1 CATCCCTTTTCATA
31553400 GTTCAATGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 25 0.64
30 14 0.36
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (29 bp):
CATCCCTTTTCATAATCGATAGCCGAAGC
Found at i:31553389 original size:29 final size:30
Alignment explanation
Indices: 31553207--31553399 Score: 124
Period size: 30 Copynumber: 6.5 Consensus size: 30
31553197 ATGGTTAACA
* * * *
31553207 CATCTCTTTTCTTTATTCGATAGCCGAGGC
1 CATCCCTTTTCATAATTCGATAGCCGAAGC
* * *
31553237 TATCCCTTTTCGTAATTCGATAGCCAAAGC
1 CATCCCTTTTCATAATTCGATAGCCGAAGC
* * * ** *
31553267 TATCCCTTTTCATAATTTGATGGTTGTCA-C
1 CATCCCTTTTCATAATTCGATAGCCG-AAGC
** * * ***
31553297 CAT-CCTATTTCATGGTTCAATGATCATCAG-
1 CATCCCT-TTTCATAATTCGAT-AGCCGAAGC
* *
31553327 CATCCCTTTTCATAATTTGATAGCCGAAGT
1 CATCCCTTTTCATAATTCGATAGCCGAAGC
*
31553357 CATCCCTTTTCATGA-TCGATAGCCGAAGC
1 CATCCCTTTTCATAATTCGATAGCCGAAGC
31553386 CATCCCTTTTCATA
1 CATCCCTTTTCATA
31553400 GTTCAATGGT
Statistics
Matches: 122, Mismatches: 35, Indels: 13
0.72 0.21 0.08
Matches are distributed among these distances:
29 32 0.26
30 86 0.70
31 4 0.03
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.37
Consensus pattern (30 bp):
CATCCCTTTTCATAATTCGATAGCCGAAGC
Found at i:31553425 original size:29 final size:29
Alignment explanation
Indices: 31553385--31553460 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
31553375 ATAGCCGAAG
*
31553385 CCATCCCTTTTCATAGTTCAATGGTCATCA
1 CCATCCCTTTTCATAATT-AATGGTCATCA
* * **
31553415 CCATCCCTTTCCATAATTTATGGTTGTCA
1 CCATCCCTTTTCATAATTAATGGTCATCA
31553444 CCATCCCTTTTCATAAT
1 CCATCCCTTTTCATAAT
31553461 CGATAGACAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 24 0.60
30 16 0.40
ACGTcount: A:0.22, C:0.30, G:0.08, T:0.39
Consensus pattern (29 bp):
CCATCCCTTTTCATAATTAATGGTCATCA
Found at i:31574486 original size:20 final size:21
Alignment explanation
Indices: 31574458--31574496 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
31574448 TGTAAACTTA
31574458 AGTGCTTAAATT-ATATTTTT
1 AGTGCTTAAATTGATATTTTT
*
31574478 AGTGGTTAAATTGATATTT
1 AGTGCTTAAATTGATATTT
31574497 AGGCTTGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (21 bp):
AGTGCTTAAATTGATATTTTT
Found at i:31578131 original size:28 final size:28
Alignment explanation
Indices: 31578098--31578239 Score: 133
Period size: 28 Copynumber: 5.1 Consensus size: 28
31578088 AGGCATTCCC
*
31578098 TTCATAGATTGCCATAAATGCTTCCTTT
1 TTCATAGATTGCCATAAAGGCTTCCTTT
* *
31578126 TTCATAGATTTCCATAAAGGCTTCCATT
1 TTCATAGATTGCCATAAAGGCTTCCTTT
* * *
31578154 TTCATAAATCT-CTACAAAGGCTTCCTTT
1 TTCATAGAT-TGCCATAAAGGCTTCCTTT
* *** *
31578182 TTCATAAACCACCACAAAGGCTTCCTTT
1 TTCATAGATTGCCATAAAGGCTTCCTTT
* * * *
31578210 TTAAGAGATCGCCATGAAGGCTTCCTTT
1 TTCATAGATTGCCATAAAGGCTTCCTTT
31578238 TT
1 TT
31578240 TGGCGTTTTT
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
28 94 0.99
29 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.37
Consensus pattern (28 bp):
TTCATAGATTGCCATAAAGGCTTCCTTT
Found at i:31578159 original size:56 final size:56
Alignment explanation
Indices: 31578081--31578239 Score: 144
Period size: 56 Copynumber: 2.9 Consensus size: 56
31578071 TTTAAAGTGT
* * * **
31578081 ACCACAAAGGCATTCC--CTTCATAGATTGCCATAAATGCTTCCTTTTTCATAGATT
1 ACCACAAAGGC-TTCCATTTTCATAGATTGCCATAAAGGCTTCCTTTTTCATAAACC
* * * * *
31578136 TCCATAAAGGCTTCCATTTTCATAAATCT-CTACAAAGGCTTCCTTTTTCATAAACC
1 ACCACAAAGGCTTCCATTTTCATAGAT-TGCCATAAAGGCTTCCTTTTTCATAAACC
* * * * *
31578192 ACCACAAAGGCTTCCTTTTTAAGAGATCGCCATGAAGGCTTCCTTTTT
1 ACCACAAAGGCTTCCATTTTCATAGATTGCCATAAAGGCTTCCTTTTT
31578240 TGGCGTTTTT
Statistics
Matches: 80, Mismatches: 20, Indels: 7
0.75 0.19 0.07
Matches are distributed among these distances:
54 4 0.05
55 9 0.11
56 66 0.82
57 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (56 bp):
ACCACAAAGGCTTCCATTTTCATAGATTGCCATAAAGGCTTCCTTTTTCATAAACC
Found at i:31581381 original size:22 final size:21
Alignment explanation
Indices: 31581356--31581404 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
31581346 AAGTCATGTA
31581356 ATTTATCAAACCCAATAA-ATAT
1 ATTTATCAAACCCAA-AATAT-T
* *
31581378 ATTTATTATACCCAAAATATT
1 ATTTATCAAACCCAAAATATT
31581399 ATTTAT
1 ATTTAT
31581405 TTATTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTTATCAAACCCAAAATATT
Found at i:31584083 original size:3 final size:3
Alignment explanation
Indices: 31584077--31584101 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
31584067 TTAACAATAA
31584077 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
31584102 CTTTTCTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:31587973 original size:24 final size:24
Alignment explanation
Indices: 31587934--31588031 Score: 88
Period size: 24 Copynumber: 3.9 Consensus size: 24
31587924 TTAGTTTATC
* * *
31587934 TAATATAAATTCACCATAATCAAT
1 TAATATATATTAACCATAATTAAT
*
31587958 TAATATATATTAACCATAATTAGT
1 TAATATATATTAACCATAATTAAT
* *
31587982 TCACATAATATAATTAATCATAATTACT
1 T-A-AT-ATAT-ATTAACCATAATTAAT
* *
31588010 TAATATATATTTACTATAATTA
1 TAATATATATTAACCATAATTA
31588032 GTTTACATAT
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
24 32 0.52
25 5 0.08
26 4 0.07
27 5 0.08
28 15 0.25
ACGTcount: A:0.47, C:0.11, G:0.01, T:0.41
Consensus pattern (24 bp):
TAATATATATTAACCATAATTAAT
Found at i:31588003 original size:28 final size:27
Alignment explanation
Indices: 31587958--31588040 Score: 82
Period size: 28 Copynumber: 3.1 Consensus size: 27
31587948 CATAATCAAT
*
31587958 TAATATATATTAACCATAATTAGTTCACA
1 TAATATA-ATTAATCATAATTAGTT-ACA
*
31587987 TAATATAATTAATCATAATTACTTA-A
1 TAATATAATTAATCATAATTAGTTACA
* *
31588013 T-ATATATTTACT-ATAATTAGTTTACA
1 TAATATAATTAATCATAATTAG-TTACA
31588039 TA
1 TA
31588041 TTTACAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
24 7 0.15
25 12 0.26
26 4 0.09
27 1 0.02
28 15 0.33
29 7 0.15
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (27 bp):
TAATATAATTAATCATAATTAGTTACA
Found at i:31588029 original size:52 final size:53
Alignment explanation
Indices: 31587897--31588040 Score: 168
Period size: 52 Copynumber: 2.7 Consensus size: 53
31587887 AGTAAACAAT
* * *
31587897 TAATTACTTGATACAGT-TTTACCATAATTAGTTTATC-TAATATAAATTCACCA
1 TAATTACTTAATATA-TATTTACCATAATTAGTTTA-CATAATATAAATTAACCA
* * * * *
31587950 TAATCAATTAATATATATTAACCATAATTAGTTCACATAATAT-AATTAATCA
1 TAATTACTTAATATATATTTACCATAATTAGTTTACATAATATAAATTAACCA
*
31588002 TAATTACTTAATATATATTTACTATAATTAGTTTACATA
1 TAATTACTTAATATATATTTACCATAATTAGTTTACATA
31588041 TTTACAATAA
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
52 43 0.57
53 33 0.43
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (53 bp):
TAATTACTTAATATATATTTACCATAATTAGTTTACATAATATAAATTAACCA
Found at i:31588041 original size:24 final size:24
Alignment explanation
Indices: 31587957--31588041 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 24
31587947 CCATAATCAA
* * *
31587957 TTAATATATATTAACCATAATTAG
1 TTAACATATATTTACTATAATTAG
* * *
31587981 TTCACATAATATAATTAATCATAATTAC
1 TTAACAT-ATAT--TTACT-ATAATTAG
*
31588009 TTAATATATATTTACTATAATTAG
1 TTAACATATATTTACTATAATTAG
*
31588033 TTTACATAT
1 TTAACATAT
31588042 TTACAATAAT
Statistics
Matches: 45, Mismatches: 12, Indels: 8
0.69 0.18 0.12
Matches are distributed among these distances:
24 19 0.42
25 8 0.18
27 6 0.13
28 12 0.27
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (24 bp):
TTAACATATATTTACTATAATTAG
Found at i:31593442 original size:22 final size:22
Alignment explanation
Indices: 31593398--31593456 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
31593388 ATGAATGTTG
*
31593398 TTTAAATTTATCACATATTATTAT
1 TTTAAATTTAT--CATATAATTAT
31593422 TTTAAATTTATCATATAATTAT
1 TTTAAATTTATCATATAATTAT
*
31593444 TTTAAGTTT-TCAT
1 TTTAAATTTATCAT
31593457 GTATCATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.55
24 11 0.33
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTAAATTTATCATATAATTAT
Found at i:31598488 original size:10 final size:10
Alignment explanation
Indices: 31598473--31598530 Score: 64
Period size: 10 Copynumber: 5.6 Consensus size: 10
31598463 CAGATCCAAT
31598473 TCAAAAAAAA
1 TCAAAAAAAA
31598483 TCAAAAAAAA
1 TCAAAAAAAA
31598493 T-AAAAAAAA
1 TCAAAAAAAA
*
31598502 ACAAAAAAGAA
1 TCAAAAAA-AA
*
31598513 TAAAAAGAAAAA
1 T-CAAA-AAAAA
31598525 TCAAAA
1 TCAAAA
31598531 TCAAGGTCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 8 0.20
10 18 0.45
11 5 0.12
12 6 0.15
13 3 0.08
ACGTcount: A:0.81, C:0.07, G:0.03, T:0.09
Consensus pattern (10 bp):
TCAAAAAAAA
Found at i:31598499 original size:19 final size:20
Alignment explanation
Indices: 31598475--31598523 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
31598465 GATCCAATTC
*
31598475 AAAAAAAATCAAAAAA-AAT
1 AAAAAAAAACAAAAAAGAAT
31598494 AAAAAAAAACAAAAAAGAAT
1 AAAAAAAAACAAAAAAGAAT
31598514 AAAAAGAAAA
1 AAAAA-AAAA
31598524 ATCAAAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 15 0.56
20 8 0.30
21 4 0.15
ACGTcount: A:0.86, C:0.04, G:0.04, T:0.06
Consensus pattern (20 bp):
AAAAAAAAACAAAAAAGAAT
Found at i:31598500 original size:20 final size:22
Alignment explanation
Indices: 31598475--31598530 Score: 82
Period size: 20 Copynumber: 2.6 Consensus size: 22
31598465 GATCCAATTC
31598475 AAAAAAAATCAAAAAA-AAT-A
1 AAAAAAAATCAAAAAAGAATAA
31598495 AAAAAAAA-CAAAAAAGAATAA
1 AAAAAAAATCAAAAAAGAATAA
31598516 AAAGAAAAATCAAAA
1 AAA-AAAAATCAAAA
31598531 TCAAGGTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.22
20 11 0.34
21 4 0.12
22 5 0.16
23 5 0.16
ACGTcount: A:0.84, C:0.05, G:0.04, T:0.07
Consensus pattern (22 bp):
AAAAAAAATCAAAAAAGAATAA
Found at i:31601111 original size:131 final size:131
Alignment explanation
Indices: 31600961--31601463 Score: 701
Period size: 131 Copynumber: 3.9 Consensus size: 131
31600951 TTGAAGATTT
* * *
31600961 GAAACTACAGATCTTATCTCCCTAAGTAATAGTGGAGCAAATCGAAGACGACGAATCTTATCTTC
1 GAAACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGATGAATCTTATCTTC
*
31601026 CCCAGGAGTAGGGAAACATATTTAAGCCACAAGTCCTATTTCCCTGAGCAGCAGGGGAATAGGTT
66 CCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGAGCAGCAGGGGAATAGGTT
*
31601091 A
131 G
*
31601092 GAAACTACAGATCTTATCTCCCTAAGCAATAGTGGAGTAGATCGAAGAC-AGTGAATCTTATCTT
1 GAAACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGA-TGAATCTTATCTT
* *
31601156 CCCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGAGCAGCAAGAGAATAGGT
65 CCCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGAGCAGCAGGGGAATAGGT
31601221 TG
130 TG
* * *
31601223 GAAGCTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTC
1 GAAACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGATGAATCTTATCTTC
* * * * *
31601288 CCGAAGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATGTCCCTG-GTCAGCAGTGGAGTAGGT
66 CCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGAG-CAGCAGGGGAATAGGT
31601352 TG
130 TG
* * * * *
31601354 GAAATTACAGATCTTGTCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGTGAATCTTATCTT-
1 GAAACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGATGAATCTTATCTTC
* * * * * * *
31601418 --CAAGTGTAAGGAAGCAGATTTAAGCCAAAAATCTTATTTCCCTGAG
66 CCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGAG
31601464 GTTGCAGTGG
Statistics
Matches: 335, Mismatches: 33, Indels: 10
0.89 0.09 0.03
Matches are distributed among these distances:
128 36 0.11
129 1 0.00
130 2 0.01
131 296 0.88
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (131 bp):
GAAACTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGATGAATCTTATCTTC
CCCAGGAGTAGGGAAACAGATTTAAGCCACAAGTCCTATTTCCCTGAGCAGCAGGGGAATAGGTT
G
Found at i:31601690 original size:50 final size:50
Alignment explanation
Indices: 31601636--31601805 Score: 180
Period size: 50 Copynumber: 3.4 Consensus size: 50
31601626 TCCCCAGCGA
* * *
31601636 TGCAGTGGAACATATTAAAACCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
** * * * * ** * **
31601686 TGCAGTTAAAAAGATTAAAGCTACAACAGTGAATCTTACTT-TTCAAGCGG
1 TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGA-CAT
31601736 TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
**
31601786 TGCAGTTAAACAGATTAAAG
1 TGCAGTGGAACAGATTAAAG
31601806 TTACGAGTTA
Statistics
Matches: 91, Mismatches: 27, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
49 2 0.02
50 87 0.96
51 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (50 bp):
TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
Found at i:31603320 original size:22 final size:22
Alignment explanation
Indices: 31603276--31603334 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
31603266 ATGAATGTTG
*
31603276 TTTAAATTTATCACATATTATTAT
1 TTTAAATTTAT--CATATAATTAT
31603300 TTTAAATTTATCATATAATTAT
1 TTTAAATTTATCATATAATTAT
*
31603322 TTTAAGTTT-TCAT
1 TTTAAATTTATCAT
31603335 GTATCATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.55
24 11 0.33
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTAAATTTATCATATAATTAT
Found at i:31616721 original size:15 final size:15
Alignment explanation
Indices: 31616678--31616721 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
31616668 TTCTATTCAG
*
31616678 TATTAAAACTTTTTT
1 TATTAAAGCTTTTTT
*
31616693 TATT--AGCTCTTTT
1 TATTAAAGCTTTTTT
31616706 TATTAAAGCTTTTTT
1 TATTAAAGCTTTTTT
31616721 T
1 T
31616722 TTTCAAGGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 11 0.46
15 13 0.54
ACGTcount: A:0.25, C:0.09, G:0.05, T:0.61
Consensus pattern (15 bp):
TATTAAAGCTTTTTT
Found at i:31620470 original size:11 final size:11
Alignment explanation
Indices: 31620454--31620483 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
31620444 CTAAATGATA
*
31620454 TTTTAATTTGG
1 TTTTAATTCGG
31620465 TTTTAATTCGG
1 TTTTAATTCGG
31620476 TTTTAATT
1 TTTTAATT
31620484 ACCTATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.20, C:0.03, G:0.13, T:0.63
Consensus pattern (11 bp):
TTTTAATTCGG
Found at i:31622706 original size:8 final size:8
Alignment explanation
Indices: 31622693--31622724 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
31622683 CAATTAGTAT
31622693 CATTTAAC
1 CATTTAAC
31622701 CATTTAAC
1 CATTTAAC
31622709 CATTTAAC
1 CATTTAAC
31622717 CATTTAAC
1 CATTTAAC
31622725 TTTCATATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (8 bp):
CATTTAAC
Found at i:31623158 original size:16 final size:17
Alignment explanation
Indices: 31623137--31623170 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
31623127 GCATACAAGC
31623137 ATACATATAATTC-CAT
1 ATACATATAATTCACAT
31623153 ATACATATAATTCACAT
1 ATACATATAATTCACAT
31623170 A
1 A
31623171 ATTCATTTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (17 bp):
ATACATATAATTCACAT
Found at i:31624355 original size:258 final size:260
Alignment explanation
Indices: 31623896--31624415 Score: 839
Period size: 258 Copynumber: 2.0 Consensus size: 260
31623886 AAACCATAAA
*
31623896 TAATTAAAAATTATAAACCAAAACCAATAGAGACTGATTAATACTTATTAAAAATAGTCCGAGGT
1 TAATTAAAAATTATAAACCAAAACCAATAGAGACTGATTAATACTTATTAAAAATAGTCCGAAGT
* * * * *
31623961 CAAAGGTGATTCTCCGTATGTCGAGTCTGGCCCTAGTTTCGAGCTTTACTTGTAAAGTTAAACAC
66 CAAAGGTAATTCTCCGTATGTCGAGTCCGGCCCTAGTTTCAAGCTTTACCTGAAAAGTTAAACAC
* *
31624026 TATGGGGGGTGAGCTTATGAAAGCTCAGTGTGAGTCGAACATTTATTTAAACACCCATAAATAGA
131 TATGGGGGGTGAGCTTATGAAAGCTCAGTGTGAGTCAAACAATTATTTAAACACCCATAAATAGA
* *
31624091 AAATATAGTTAAGCATATTACCGTTAACAAAAGAACACAGACCCATCATTGGAATTTCATATCAT
196 AAATATAGTGAAGCATATTACCATTAACAAAAGAACACAGACCCATCATTGGAATTTCATATCAT
*
31624156 TAATTAAAAATTATAAACCAAAACCAATAGAGATTGATTAATACTT-TTAAAAATAGTCCGAAGT
1 TAATTAAAAATTATAAACCAAAACCAATAGAGACTGATTAATACTTATTAAAAATAGTCCGAAGT
* * ** *
31624220 CCAGGGTAATTCTCCGTAT-TCCGAGTCCGGTTCTAGTTTCAAGGTTTACCTGAAAAGTTAAACA
66 CAAAGGTAATTCTCCGTATGT-CGAGTCCGGCCCTAGTTTCAAGCTTTACCTGAAAAGTTAAACA
31624284 CTAT-GGGGGTGAGCTTATGAAAGCTCAGTGTGAGTCAAACAATTATTTAAACACCCATAAATAG
130 CTATGGGGGGTGAGCTTATGAAAGCTCAGTGTGAGTCAAACAATTATTTAAACACCCATAAATAG
* * *
31624348 AAAATATAGTGAAGCATATTAGCATTAACAGAAGAATACAGACCCATCATTGGAATTTCATATCA
195 AAAATATAGTGAAGCATATTACCATTAACAAAAGAACACAGACCCATCATTGGAATTTCATATCA
31624413 T
260 T
31624414 TA
1 TA
31624416 CATAGTAATT
Statistics
Matches: 240, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
258 122 0.51
259 73 0.30
260 45 0.19
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (260 bp):
TAATTAAAAATTATAAACCAAAACCAATAGAGACTGATTAATACTTATTAAAAATAGTCCGAAGT
CAAAGGTAATTCTCCGTATGTCGAGTCCGGCCCTAGTTTCAAGCTTTACCTGAAAAGTTAAACAC
TATGGGGGGTGAGCTTATGAAAGCTCAGTGTGAGTCAAACAATTATTTAAACACCCATAAATAGA
AAATATAGTGAAGCATATTACCATTAACAAAAGAACACAGACCCATCATTGGAATTTCATATCAT
Found at i:31624513 original size:5 final size:5
Alignment explanation
Indices: 31624503--31624556 Score: 99
Period size: 5 Copynumber: 10.8 Consensus size: 5
31624493 GATAACATTT
*
31624503 AATAC AATAC AATAC AATAC AATAC AATAC AATAT AATAC AATAC AATAC
1 AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC
31624553 AATA
1 AATA
31624557 TGTAGCATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.61, C:0.17, G:0.00, T:0.22
Consensus pattern (5 bp):
AATAC
Found at i:31624751 original size:27 final size:27
Alignment explanation
Indices: 31624694--31624801 Score: 130
Period size: 27 Copynumber: 4.0 Consensus size: 27
31624684 ACTTGATGTG
31624694 GTAAAACTACCT-AATAAAAAATAATGCA
1 GTAAAACTA-CTGAAT-AAAAATAATGCA
*
31624722 GTAAAACTACTGAATAACAATAATGCA
1 GTAAAACTACTGAATAAAAATAATGCA
* **
31624749 GTAAAACTACCGAATAAAAATAATTTA
1 GTAAAACTACTGAATAAAAATAATGCA
*
31624776 GTAAAA-TGCTGAATAACAAATAATGC
1 GTAAAACTACTGAATAA-AAATAATGC
31624802 GATATAATCG
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 8 0.12
27 49 0.71
28 12 0.17
ACGTcount: A:0.54, C:0.13, G:0.10, T:0.23
Consensus pattern (27 bp):
GTAAAACTACTGAATAAAAATAATGCA
Found at i:31624779 original size:54 final size:55
Alignment explanation
Indices: 31624694--31624801 Score: 157
Period size: 54 Copynumber: 2.0 Consensus size: 55
31624684 ACTTGATGTG
*
31624694 GTAAAACTACCTAATAAAAAATAATGCAGTAAAACTACTGAATAAC-AATAATGCA
1 GTAAAACTACCGAATAAAAAATAATGCAGTAAAA-TACTGAATAACAAATAATGCA
** *
31624749 GTAAAACTACCGAAT-AAAAATAATTTAGTAAAATGCTGAATAACAAATAATGC
1 GTAAAACTACCGAATAAAAAATAATGCAGTAAAATACTGAATAACAAATAATGC
31624802 GATATAATCG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
53 10 0.21
54 24 0.50
55 14 0.29
ACGTcount: A:0.54, C:0.13, G:0.10, T:0.23
Consensus pattern (55 bp):
GTAAAACTACCGAATAAAAAATAATGCAGTAAAATACTGAATAACAAATAATGCA
Found at i:31625833 original size:5 final size:5
Alignment explanation
Indices: 31625827--31625870 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
31625817 ATGCATTTAT
* * * *
31625827 TTCAT TTCAA TTCAA TTCAA TTCAA TCCAA TCCAA TCCAA TTCA
1 TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA TTCAA TTCA
31625871 TATATATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (5 bp):
TTCAA
Found at i:31628853 original size:17 final size:18
Alignment explanation
Indices: 31628831--31628869 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
31628821 GTTTTACAAT
31628831 AAAATAAA-TAAACATGC
1 AAAATAAAGTAAACATGC
* *
31628848 AAAATAAAGTGAACATGG
1 AAAATAAAGTAAACATGC
31628866 AAAA
1 AAAA
31628870 CTAATGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.64, C:0.08, G:0.13, T:0.15
Consensus pattern (18 bp):
AAAATAAAGTAAACATGC
Found at i:31636332 original size:16 final size:16
Alignment explanation
Indices: 31636311--31636356 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
31636301 CATTCGCATG
31636311 AATAAATAATAATAAT
1 AATAAATAATAATAAT
*
31636327 AATAAATAATATTAAT
1 AATAAATAATAATAAT
* *
31636343 GATACAATATTAAT
1 AATA-AATAATAAT
31636357 GTTGCCACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 18 0.72
17 7 0.28
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (16 bp):
AATAAATAATAATAAT
Found at i:31636854 original size:19 final size:19
Alignment explanation
Indices: 31636822--31636913 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
31636812 AATCATAACT
31636822 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
31636841 TCTAAAATTACATATCATA
1 TCTAAGATTGCATATCATA
31636860 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
31636879 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
31636898 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
31636914 CTTGAAGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:31636870 original size:38 final size:38
Alignment explanation
Indices: 31636822--31636913 Score: 175
Period size: 38 Copynumber: 2.4 Consensus size: 38
31636812 AATCATAACT
31636822 TCTAAGATTGCATATCATATCTAAAATTACATATCATA
1 TCTAAGATTGCATATCATATCTAAAATTACATATCATA
*
31636860 TCTAAGATTGCATATCATATCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATATCTAAAATTACATATCATA
31636898 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
31636914 CTTGAAGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAAATTACATATCATA
Found at i:31637656 original size:44 final size:44
Alignment explanation
Indices: 31637604--31637715 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 44
31637594 GATCTGATTG
*
31637604 CTGTAACTTCAGAGAGATAAGATCT-GTAATTTTAATCCACTCCA
1 CTGTAACTTCAGAGAGATAAGAT-TAGTAACTTTAATCCACTCCA
* * ** **
31637648 CTGTAACTTCA-AGGAGATAGGATTATTGGCTTTAATCTGCTCCA
1 CTGTAACTTCAGA-GAGATAAGATTAGTAACTTTAATCCACTCCA
31637692 CTGTAACTTCATG-GAGATAAGATT
1 CTGTAACTTCA-GAGAGATAAGATT
31637716 CGCCATCTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
43 2 0.04
44 54 0.96
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (44 bp):
CTGTAACTTCAGAGAGATAAGATTAGTAACTTTAATCCACTCCA
Found at i:31637812 original size:217 final size:216
Alignment explanation
Indices: 31637556--31637946 Score: 660
Period size: 217 Copynumber: 1.8 Consensus size: 216
31637546 TTTCTTGGGT
* *
31637556 CTGCTCCACTGCAACTTCAGGGAGATAAGACTCGATGCGATCTGA-T-TGCTGTAACTTCAGAGA
1 CTGCTCCACTGCAACTTCAGGAAGATAAGACTAGATGCGATCT-ACTCT-CTGTAACTTCAGAGA
*
31637619 GATAAGATCTGTAATTTTAATCCACTCCACTGTAACTTCAAGGAGATAGGATTATTGGCTTTAAT
64 GATAAGATCTGTAATTTTAATCCACTCCACTGCAACTT-AAGGAGATAGGATTATTGGCTTTAAT
* *
31637684 CTGCTCCACTGTAACTTCATGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTTAG
128 CTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTTAG
31637749 GAGGATAAGGTTTGCTTACTTAGA
193 GAGGATAAGGTTTGCTTACTTAGA
31637773 CTGCTCCACTGCAACTTCAGGAAGATAAGACTAGATGCGATCTACTCTCTGTAACTTCAGAGAGA
1 CTGCTCCACTGCAACTTCAGGAAGATAAGACTAGATGCGATCTACTCTCTGTAACTTCAGAGAGA
* * * *
31637838 TAAGATCTGTGATTTTAATCCGCTCCACTGCGACTTAGGGAGATAGGATTATTGGCTTTAATCTG
66 TAAGATCTGTAATTTTAATCCACTCCACTGCAACTTAAGGAGATAGGATTATTGGCTTTAATCTG
31637903 CTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCT
131 CTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCT
31637947 TTTAAATTGC
Statistics
Matches: 163, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
216 71 0.44
217 91 0.56
218 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (216 bp):
CTGCTCCACTGCAACTTCAGGAAGATAAGACTAGATGCGATCTACTCTCTGTAACTTCAGAGAGA
TAAGATCTGTAATTTTAATCCACTCCACTGCAACTTAAGGAGATAGGATTATTGGCTTTAATCTG
CTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTACAACTTTAGGAG
GATAAGGTTTGCTTACTTAGA
Found at i:31638345 original size:44 final size:44
Alignment explanation
Indices: 31638295--31638416 Score: 149
Period size: 44 Copynumber: 2.8 Consensus size: 44
31638285 ATCTGCTATT
* * *
31638295 TTCAACCTACTCCACTGTTG-CTCAGGGAGATAGGA-TTCGCAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGACTT-ACAATC
31638339 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
** * *
31638383 TTCAACCTATTCCACTAATGTCCAGTGAGATAGG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
31638417 GTTGGGGTCA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 66 0.96
45 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
Found at i:31638550 original size:88 final size:88
Alignment explanation
Indices: 31638427--31639080 Score: 977
Period size: 88 Copynumber: 7.4 Consensus size: 88
31638417 GTTGGGGTCA
* * * *
31638427 TCGATATGCTTCGCTGTCAGTGCATGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
31638492 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * *
31638515 TCGATCTGCTTCGTTGTCGGTGCAAGAAGGCAAGATCTGTTATTTTTAACCTGCTCCACTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
31638580 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
31638603 TCAATCTGCTTCGCTGTCTGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
* * *
31638668 CCAAGGAAGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * * * *
31638691 TCGATCTGCTTTGCTATCGGTGCAGAAAGGCAAGATTTGCTATTTTTAACCTACTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
*
31638756 CCAGGAAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
** * *
31638779 TCGATCTGCTTCGCTGTTAGTGCAGGAAGGCAAGATCTGCAATTTTTAACCTGCTCCACTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
*
31638844 CCAGGGAGGCAAGGCCGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
31638867 TCGATCTGCTTTGCTGTCGGTGCAGGAAGGCAAGATCTGCTA-TTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
* *
31638931 ACAGGGAGGCAAGGCTAGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
**
31638954 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTAAAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
*
31639019 CCAGGGAGGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * *
31639042 TCGATCTTCTTCACTGTCAGTGTAGGAAGGCAAGATCTG
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
31639081 TTATCTTCAC
Statistics
Matches: 507, Mismatches: 58, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
87 82 0.16
88 425 0.84
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.28
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:31638675 original size:45 final size:43
Alignment explanation
Indices: 31638625--31638768 Score: 110
Period size: 44 Copynumber: 3.3 Consensus size: 43
31638615 GCTGTCTGTG
31638625 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACC
1 CAGGAAGGCAAGAT-TGCTATTTTTAACCTGCTCCGCTACAACC
* * * * ** * ** ****
31638669 CAAGGAA-GCAAGGTTGGTGTCTTCGATCTGCTTTGCTATCGGTG
1 C-AGGAAGGCAAGATTGCTATTTTTAACCTGCTCCGCTA-CAACC
* *
31638713 CAGAAAGGCAAGATTTGCTATTTTTAACCTACTCCGCTACAACC
1 CAGGAAGGCAAGA-TTGCTATTTTTAACCTGCTCCGCTACAACC
31638757 CAGGAAGGCAAG
1 CAGGAAGGCAAG
31638769 GCTGGTGTCT
Statistics
Matches: 67, Mismatches: 29, Indels: 8
0.64 0.28 0.08
Matches are distributed among these distances:
43 20 0.30
44 26 0.39
45 21 0.31
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (43 bp):
CAGGAAGGCAAGATTGCTATTTTTAACCTGCTCCGCTACAACC
Found at i:31640307 original size:2 final size:2
Alignment explanation
Indices: 31640300--31640330 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
31640290 TTTCTTCTTT
31640300 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
31640331 TCTTTTCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:31646134 original size:19 final size:19
Alignment explanation
Indices: 31646110--31646201 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
31646100 AATCATATCT
31646110 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
31646129 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
31646148 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
31646167 TCTAAGATTACATATCATG
1 TCTAAGATTGCATATCATA
31646186 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
31646202 CTTGAAGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 68 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:31646159 original size:38 final size:38
Alignment explanation
Indices: 31646087--31646201 Score: 176
Period size: 38 Copynumber: 2.9 Consensus size: 38
31646077 AAATTAAATC
*
31646087 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTGCATATCATA
31646129 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
*
31646167 TCTAAGATTACATATCATGTCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
31646202 CTTGAAGATT
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
38 53 0.75
41 7 0.10
42 11 0.15
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:31650603 original size:11 final size:11
Alignment explanation
Indices: 31650587--31650621 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
31650577 TCTGGACTCC
31650587 ACCATTGTTGA
1 ACCATTGTTGA
*
31650598 ACCATTGTCGA
1 ACCATTGTTGA
*
31650609 ACCACTGTTGA
1 ACCATTGTTGA
31650620 AC
1 AC
31650622 ATTTTTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (11 bp):
ACCATTGTTGA
Found at i:31651223 original size:22 final size:22
Alignment explanation
Indices: 31651195--31651246 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
31651185 TATCAGCATT
*
31651195 ATCAGTGGCGGTTTATCCATAA
1 ATCAGTGGCAGTTTATCCATAA
* *
31651217 ATTAGTGGCAGTTTATCTATAA
1 ATCAGTGGCAGTTTATCCATAA
31651239 ATCAGTGG
1 ATCAGTGG
31651247 TGGCATGTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (22 bp):
ATCAGTGGCAGTTTATCCATAA
Found at i:31658550 original size:25 final size:25
Alignment explanation
Indices: 31658521--31658573 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
31658511 GACTTAGTGT
31658521 ATTTATCCATGATATAGGTAGATTC
1 ATTTATCCATGATATAGGTAGATTC
*
31658546 ATTTATCCATGATATAGGTATATTC
1 ATTTATCCATGATATAGGTAGATTC
31658571 ATT
1 ATT
31658574 CATAGCATGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.43
Consensus pattern (25 bp):
ATTTATCCATGATATAGGTAGATTC
Found at i:31661085 original size:27 final size:27
Alignment explanation
Indices: 31661053--31661230 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
31661043 ATATTGAGTC
* *
31661053 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
31661080 CACACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
31661107 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
31661135 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
31661162 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
31661189 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
31661216 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31661231 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:31661213 original size:54 final size:55
Alignment explanation
Indices: 31661053--31661230 Score: 200
Period size: 54 Copynumber: 3.3 Consensus size: 55
31661043 ATATTGAGTC
* * * * * * *
31661053 CGCACACTCAGTGCTATATAATC-AACTCACACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
31661107 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
* **
31661162 CGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
31661216 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31661231 GTACAATTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
54 60 0.58
55 44 0.42
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:31671455 original size:22 final size:24
Alignment explanation
Indices: 31671406--31671466 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
31671396 TTAAAAATTC
31671406 AAAAATTTTAAAATATATATTTAA
1 AAAAATTTTAAAATATATATTTAA
* *
31671430 AAAAATTTTTAAATATAT-TTTTA
1 AAAAATTTTAAAATATATATTTAA
*
31671453 AAATATTTTAAAAT
1 AAAAATTTTAAAAT
31671467 TAAAAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
23 16 0.48
24 17 0.52
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
AAAAATTTTAAAATATATATTTAA
Found at i:31673915 original size:40 final size:36
Alignment explanation
Indices: 31673855--31673940 Score: 93
Period size: 40 Copynumber: 2.3 Consensus size: 36
31673845 AAACTAGTAT
* * *
31673855 TATTATTATGGTTAGTTATTATTTTTAGTA-AAACCC
1 TATTATTATTGTTAGTTATTATTTTGAGTATAAA-AC
31673891 TAATTATTATTGTTAGTTACTATTATTTTGAGTATAAAAC
1 T-ATTATTATTGTTAG-T--TATTATTTTGAGTATAAAAC
31673931 TATTATTATT
1 TATTATTATT
31673941 TTTATTGAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 1 0.02
37 13 0.31
38 1 0.02
39 9 0.21
40 15 0.36
41 3 0.07
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (36 bp):
TATTATTATTGTTAGTTATTATTTTGAGTATAAAAC
Found at i:31676586 original size:159 final size:153
Alignment explanation
Indices: 31676227--31676646 Score: 465
Period size: 159 Copynumber: 2.7 Consensus size: 153
31676217 GCATGTTGAA
* *
31676227 AAAAAAGTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCGTTTTATTA
1 AAAAAATTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
* *
31676292 -TTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTAAGTGCATTATGTTTGAA
66 CTTTTAAAAAAAATCATAATTTCTAATTTTATAATTTTACATTATTTAAGTACATTATGTTTGAA
* *
31676356 ATTTATTATTTTAGTGTATTTTT
131 ATTTATTATTTTACTGAATTTTT
* * * * * * *
31676379 AAAATTAATTTAATGTCAAAAAAACCCTTA-TTCCTGCCCTTTCCTCGTATTATTTTC-CCGAAT
1 AAAA--AATTT-A-GT--AAAACACTCTTACTT-CGGCCATTTCTTCGTATTTTTTTCTCCGCAT
* * * *
31676442 TTTATTACTTTTAATAAAAAAT-ATTATTTTCGT-ATTTTATTATTTTATATTATTTCAGTACAT
59 TTTATTACTTTTAA-AAAAAATCA-TAATTTC-TAATTTTATAATTTTACATTATTTAAGTACAT
* *
31676505 TTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTT
121 TATGTTTG-AA-A-TT-TATT-ATT-TTACTGAATTTTT
31676544 AAAAAATTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
1 AAAAAATTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
* *
31676609 C-TTTAAAAAATATCATAATTTCTAATTTTATAAATTTA
66 CTTTTAAAAAAAATCATAATTTCTAATTTTATAATTTTA
31676647 TGAATTTAGT
Statistics
Matches: 217, Mismatches: 30, Indels: 36
0.77 0.11 0.13
Matches are distributed among these distances:
152 4 0.02
154 4 0.02
155 1 0.00
156 2 0.01
157 14 0.06
158 61 0.28
159 81 0.37
160 18 0.08
161 3 0.01
162 3 0.01
163 9 0.04
164 3 0.01
165 14 0.06
ACGTcount: A:0.31, C:0.13, G:0.07, T:0.49
Consensus pattern (153 bp):
AAAAAATTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTA
CTTTTAAAAAAAATCATAATTTCTAATTTTATAATTTTACATTATTTAAGTACATTATGTTTGAA
ATTTATTATTTTACTGAATTTTT
Found at i:31676865 original size:285 final size:285
Alignment explanation
Indices: 31676354--31677218 Score: 1550
Period size: 285 Copynumber: 3.0 Consensus size: 285
31676344 ATTATGTTTG
* * *
31676354 AAATTTATTATTTTAGTGTATTTTTAAAATTAATTTAATGTCAAAAAAACCCTTATTCCTGCCCT
1 AAATTTATTAATTTAGTGTGTTTTTAAAATTAATTTAGTGT-AAAAAAACCCTTATTCCTGCCCT
* * *
31676419 TTCCTCGTATTATTTTCCCGAATTTTATTACTTTTAATAAAAAATATTATTTTCGTATTTTATTA
65 TTGCTCGTATTATTTTCCCAAATTTTATTACTTTCAATAAAAAATATTATTTTCGTATTTTATTA
31676484 TTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAA
130 TTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAA
31676549 ATTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTACTTTA
195 ATTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTACTTTA
31676614 AAAAATATCATAATTTCTAATTTTAT
260 AAAAATATCATAATTTCTAATTTTAT
*
31676640 AAATTTATGAATTTAGTGTGTTTTTAAAATTAATTTAGTGTAAAAAAACCCTTATTCCTGCCCTT
1 AAATTTATTAATTTAGTGTGTTTTTAAAATTAATTTAGTGTAAAAAAACCCTTATTCCTGCCCTT
*
31676705 TGCTCGTATTATTTTCCCAAATTTTGTTACTTTCAATAAAAAATATTATTTTCGTATTTTATTAT
66 TGCTCGTATTATTTTCCCAAATTTTATTACTTTCAATAAAAAATATTATTTTCGTATTTTATTAT
31676770 TTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAA
131 TTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAA
* *
31676835 TTTAGTAAAACACTCTTACTTCGTCCATTTCTTCGTATTTTTTTCTCCGTATTTTATTACTTTAA
196 TTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTACTTTAA
31676900 AAAATATCATAATTTCTAATTTTAT
261 AAAATATCATAATTTCTAATTTTAT
* *
31676925 AAATTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGTAAAAAAACCATTATTCCTGCCCTT
1 AAATTTATTAATTTAGTGTGTTTTTAAAATTAATTTAGTGTAAAAAAACCCTTATTCCTGCCCTT
31676990 TGCTCGTATTATTTTCCCAAATTTTATTACTTTCAATAAAAAATATTATTTTCGTATTTTATTAT
66 TGCTCGTATTATTTTCCCAAATTTTATTACTTTCAATAAAAAATATTATTTTCGTATTTTATTAT
* * *
31677055 TTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTTTTAATTCTTAAAAAA
131 TTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAA
* * *
31677120 TTTAGTAAAACACTCTTACTCCGGCCATTTCTTCGTATTTTTTTCTCTGCATCTTATTACTTTAA
196 TTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTACTTTAA
31677185 AAAATATCATAATTTCTAATTTTAT
261 AAAATATCATAATTTCTAATTTTAT
*
31677210 AATTTTATT
1 AAATTTATT
31677219 TTATTTTAGT
Statistics
Matches: 556, Mismatches: 23, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
285 519 0.93
286 37 0.07
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (285 bp):
AAATTTATTAATTTAGTGTGTTTTTAAAATTAATTTAGTGTAAAAAAACCCTTATTCCTGCCCTT
TGCTCGTATTATTTTCCCAAATTTTATTACTTTCAATAAAAAATATTATTTTCGTATTTTATTAT
TTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAA
TTTAGTAAAACACTCTTACTTCGGCCATTTCTTCGTATTTTTTTCTCCGCATTTTATTACTTTAA
AAAATATCATAATTTCTAATTTTAT
Found at i:31677634 original size:14 final size:14
Alignment explanation
Indices: 31677609--31677697 Score: 82
Period size: 14 Copynumber: 6.6 Consensus size: 14
31677599 CTTCCTCCAC
31677609 TCTTC-TTC-TTCT
1 TCTTCTTTCTTTCT
*
31677621 TCTTCTTTTTTTC-
1 TCTTCTTTCTTTCT
*
31677634 TCTTC-TCCTTTCAT
1 TCTTCTTTCTTTC-T
*
31677648 T-TTCTTTCTTTCC
1 TCTTCTTTCTTTCT
*
31677661 TCTCCTTTCTTT-T
1 TCTTCTTTCTTTCT
31677674 TCTTTCTTTCTTTCT
1 TC-TTCTTTCTTTCT
31677689 TCTTCTTTC
1 TCTTCTTTC
31677698 CCTCTCTTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
12 10 0.16
13 13 0.21
14 35 0.57
15 3 0.05
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (14 bp):
TCTTCTTTCTTTCT
Found at i:31677669 original size:24 final size:26
Alignment explanation
Indices: 31677623--31677688 Score: 93
Period size: 24 Copynumber: 2.7 Consensus size: 26
31677613 CTTCTTCTTC
*
31677623 TTCTTTTTTTCTCTTCTCCTTTCATT
1 TTCTTTCTTTCTCTTCTCCTTTCATT
*
31677649 TTCTTTCTTTC-C-TCTCCTTTCTTT
1 TTCTTTCTTTCTCTTCTCCTTTCATT
31677673 TTCTTTCTTTCT-TTCT
1 TTCTTTCTTTCTCTTCT
31677689 TCTTCTTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
24 22 0.61
25 4 0.11
26 10 0.28
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.70
Consensus pattern (26 bp):
TTCTTTCTTTCTCTTCTCCTTTCATT
Found at i:31677694 original size:24 final size:25
Alignment explanation
Indices: 31677617--31677696 Score: 92
Period size: 24 Copynumber: 3.2 Consensus size: 25
31677607 ACTCTTCTTC
* *
31677617 TTCTTCTTCTTTTTTTCTCTTCTCCT
1 TTCTTTTTCTTTCTTTCT-TTCTCCT
* *
31677643 TTCATTTTCTTTCTTTC-CTCTCCT
1 TTCTTTTTCTTTCTTTCTTTCTCCT
*
31677667 TTCTTTTTCTTTCTTTCTTTCTTC-
1 TTCTTTTTCTTTCTTTCTTTCTCCT
31677691 TTCTTT
1 TTCTTT
31677697 CCCTCTCTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 28 0.61
25 4 0.09
26 14 0.30
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (25 bp):
TTCTTTTTCTTTCTTTCTTTCTCCT
Found at i:31677705 original size:28 final size:28
Alignment explanation
Indices: 31677648--31677708 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
31677638 CTCCTTTCAT
** *
31677648 TTTCTTTCTTTCCTCTCCTTTCTTTTTC
1 TTTCTTTCTTTCCTCTCCTTTCCCTCTC
* *
31677676 TTTCTTTCTTTCTTCTTCTTTCCCTCTC
1 TTTCTTTCTTTCCTCTCCTTTCCCTCTC
31677704 TTTCT
1 TTTCT
31677709 CTTCCCCCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTCTTTCTTTCCTCTCCTTTCCCTCTC
Found at i:31677708 original size:14 final size:13
Alignment explanation
Indices: 31677650--31677713 Score: 53
Period size: 14 Copynumber: 4.8 Consensus size: 13
31677640 CCTTTCATTT
31677650 TCTTTCTTTCCTC
1 TCTTTCTTTCCTC
* *
31677663 TCCTTTCTTTTTCTT
1 T-CTTTC-TTTCCTC
31677678 TCTTTCTTT-CT-
1 TCTTTCTTTCCTC
31677689 TC-TTCTTTCCCTC
1 TCTTTCTTT-CCTC
31677702 TCTTTCTCTTCC
1 TCTTTCT-TTCC
31677714 CCCCACCTAC
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
10 6 0.14
11 2 0.05
12 4 0.10
13 6 0.14
14 16 0.38
15 8 0.19
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (13 bp):
TCTTTCTTTCCTC
Found at i:31677789 original size:27 final size:27
Alignment explanation
Indices: 31677750--31677818 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
31677740 TATATGGGCA
* *
31677750 GTGCCGCCGATGGGAATGACACCATCG
1 GTGCCGCCCATGGGAAAGACACCATCG
* * *
31677777 GTGCCGCCTATGGGAAAGGCACCTTCG
1 GTGCCGCCCATGGGAAAGACACCATCG
*
31677804 GTGCTGCCCATGGGA
1 GTGCCGCCCATGGGA
31677819 TACCCTCCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.19, C:0.29, G:0.35, T:0.17
Consensus pattern (27 bp):
GTGCCGCCCATGGGAAAGACACCATCG
Found at i:31680258 original size:39 final size:38
Alignment explanation
Indices: 31680215--31680312 Score: 97
Period size: 39 Copynumber: 2.5 Consensus size: 38
31680205 AATTCGCAAC
* * * *
31680215 AAATGTTGAATCTCGTTATATTGCCGGAGGATCCACATA
1 AAATGTT-AATCTCGTTATATTACCGAAGGATCCAAAAA
* * *
31680254 AAATGCTAGATCTCGTTATATTACCTAAGGATCTAAAAA
1 AAATGTTA-ATCTCGTTATATTACCGAAGGATCCAAAAA
*
31680293 AAATGTTAAATCTCATTATA
1 AAATGTT-AATCTCGTTATA
31680313 ATTTTGACAA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
38 1 0.02
39 46 0.96
40 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (38 bp):
AAATGTTAATCTCGTTATATTACCGAAGGATCCAAAAA
Found at i:31680638 original size:15 final size:15
Alignment explanation
Indices: 31680618--31680646 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31680608 GTCAAAATTC
31680618 ACAACAATTTTCACT
1 ACAACAATTTTCACT
31680633 ACAACAATTTTCAC
1 ACAACAATTTTCAC
31680647 ATAATATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.28, G:0.00, T:0.31
Consensus pattern (15 bp):
ACAACAATTTTCACT
Found at i:31685287 original size:5 final size:6
Alignment explanation
Indices: 31685270--31685294 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
31685260 TTCATACAAA
31685270 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
31685295 GGTAAATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:31688387 original size:8 final size:8
Alignment explanation
Indices: 31688374--31688417 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
31688364 ATTAAAATAA
31688374 TTTTATAT
1 TTTTATAT
31688382 TTTTATAT
1 TTTTATAT
31688390 TTTTATAT
1 TTTTATAT
*
31688398 TATTTCATAG
1 T-TTT-ATAT
*
31688408 GTTTATAT
1 TTTTATAT
31688416 TT
1 TT
31688418 AAAGTTTGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
8 21 0.70
9 6 0.20
10 3 0.10
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (8 bp):
TTTTATAT
Found at i:31694478 original size:89 final size:88
Alignment explanation
Indices: 31694372--31695544 Score: 441
Period size: 89 Copynumber: 13.0 Consensus size: 88
31694362 AGTCATCGTG
* *
31694372 GCAAATCCTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCACAAATTAGATCTCCCTAAAG
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCTACAAATTA-ATCTCCCTAAAG
* *
31694437 TTGTAGTGGAGCAGACTAAAGATA
65 TTGCAGTGGAGCAGACTGAAGATA
* * *
31694461 GCAAATCTTATCTCCCTGAAGTTACAGT-AGAGTAGATTAAAGCTATAAACCTT-ATCTCCCTAA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTAAAGCTACAAA--TTAATCTCCCTAA
* * ** *
31694524 AGTTACAGTGGGGCAGGTTGAAGTTA
63 AGTTGCAGTGGAGCAGACTGAAGATA
* * * * ** * * * * *
31694550 -CAAGTCTTATCTCTC-AAAATTGCAGTGGGGCAGATTGAAGTTACAAGTCTAATCCCCCTGAAG
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCTACAAAT-TAATCTCCCTAAAG
**
31694613 TTGCAGCAGAGCAGACTGAAGATA
65 TTGCAGTGGAGCAGACTGAAGATA
* * * *
31694637 GCGAATCTTATTTCCCTGAAGTTGCAGTAGAA-TAGATTAAGGCTACAAATTACAAATCGGATCC
1 GCAAATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTAAAGCTACAAATT---AATC---T-C
* * * * *
31694701 CCTTGAAGTTGTAGTGGGGCAGATTGAAGTTA
58 CC-TAAAGTTGCAGTGGAGCAGACTGAAGATA
* * ** * * ** *
31694733 -CGAGTCTTATCTCCCTGAAGTTGTTGTGGAA-CAGACTAAAGATAGCAAATCTTGTTTCCCTAA
1 GCAAATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTAAAGCTA-CAAAT-TAATCTCCCTAA
* * * *
31694796 AGTTGCAGTGGAACA-AATTAAGGCTA
63 AGTTGCAGTGGAGCAGACTGAA-GATA
* * ** * * * * *
31694822 -CAAATTACAATCGGATCTCCCTGAAGTTGTAGTGGGGTAGATTGAAGATACAAGTCTTATCTCC
1 GCAAA-T-C--T--TATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCTACAAAT-TAATCTCC
*
31694886 CTAAAGTTGCAGTGGAGCAAACTGAAGATA
59 CTAAAGTTGCAGTGGAGCAGACTGAAGATA
** * ** * * *
31694916 GCAAATCTTATCTTTCTAAAGTTATAGT-AGAGCAAATTAAAGCTATAAACCTT-ATCTCCCTGA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTAAAGCTACAAA--TTAATCTCCCTAA
* * ** *
31694979 AGTTACAGTGGGGCAGGTTGAAGTTA
63 AGTTGCAGTGGAGCAGACTGAAGATA
* * * * ** * * * * *
31695005 -CAAGTCTTATCT-CCTAAAATTTACAGTGGGGCAGATTGAAGTTACAAGTCTTATCCCCCTAAA
1 GCAAATCTTATCTCCCT-GAAGTTGCAGTGAAGCAGATTAAAGCTACAAAT-TAATCTCCCTAAA
31695068 GTTGCAGTGGAGCAGACTGAAGATA
64 GTTGCAGTGGAGCAGACTGAAGATA
* * * * *
31695093 G-AGAACCTTATTTCCATGAAGTTGCAGTGGAA-TAGATTAAGGCTACAAATTACAAATCGGATC
1 GCA-AATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTAAAGCTACAAATT---AATC---T-
** * * * * *
31695156 CCCTTGAGTTGCAGTGGGGTAGATTAAAGTTA
57 CCCTAAAGTTGCAGTGGAGCAGACTGAAGATA
* * * * * *
31695188 -CGAGTCTTATCTCCCTGAAGTTGCAGTGGAA-CAGACTAAAGATAGCAAATCTTATTTCCCTAA
1 GCAAATCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTAAAGCTA-CAAAT-TAATCTCCCTAA
* * * *
31695251 AGTTGCAGTGGAACA-AATTAAGGCTA
63 AGTTGCAGTGGAGCAGACTGAA-GATA
* * * ** * ** * * *
31695277 -CAAATTACAATCGGATCTCCTTGAAGTTGTAGTGGGGTAGATCGAAGATACAAGTTTTATCTCC
1 GCAAA-T-C--T--TATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCTACAA-ATTAATCTCC
* * *
31695341 CTGAAGTTGCAGTGGAGTAGACTAAAGATA
59 CTAAAGTTGCAGTGGAGCAGACTGAAGATA
* * * * *
31695371 GCAAATCTTATCTCTCTGAAGTTGCAGT-AGAGCAAATTAAAGCTATAAACCTT-ATCTCCTTGA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTAAAGCTACAAA--TTAATCTCCCTAA
* *
31695434 AGATGCAGTGGAGCAGGA-TGAAG-TT
63 AGTTGCAGTGGAGCA-GACTGAAGATA
* * * * * ** * * *
31695459 GCTAATCTTATCTCCATGAAGATGCAAT-AGAGCAGATTGAATATACTAATCTTATCTCCCCAAA
1 GCAAATCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTAAAGCTACAAAT-TAATCTCCCTAAA
* * *
31695523 GTTGCAGTAGAGTAGATTGAAG
64 GTTGCAGTGGAGCAGACTGAAG
31695545 CGACAAATTC
Statistics
Matches: 794, Mismatches: 222, Indels: 137
0.69 0.19 0.12
Matches are distributed among these distances:
85 1 0.00
86 3 0.00
87 54 0.07
88 161 0.20
89 270 0.34
90 15 0.02
91 15 0.02
93 6 0.01
94 100 0.13
95 139 0.18
96 29 0.04
97 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (88 bp):
GCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCTACAAATTAATCTCCCTAAAGT
TGCAGTGGAGCAGACTGAAGATA
Found at i:31694527 original size:44 final size:45
Alignment explanation
Indices: 31694425--31694532 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
31694415 CACAAATTAG
** * *
31694425 ATCTCCCTAAAGTTGTAGTGGAGCAGACTAAAGATAGCAAATCTT
1 ATCTCCCTAAAGTTACAGTAGAGCAGACTAAAGATAGCAAACCTT
* * * * *
31694470 ATCTCCCTGAAGTTACAGTAGAGTAGATTAAAGCTA-TAAACCTT
1 ATCTCCCTAAAGTTACAGTAGAGCAGACTAAAGATAGCAAACCTT
31694514 ATCTCCCTAAAGTTACAGT
1 ATCTCCCTAAAGTTACAGT
31694533 GGGGCAGGTT
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
44 24 0.45
45 29 0.55
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (45 bp):
ATCTCCCTAAAGTTACAGTAGAGCAGACTAAAGATAGCAAACCTT
Found at i:31694559 original size:44 final size:44
Alignment explanation
Indices: 31694373--31695540 Score: 375
Period size: 44 Copynumber: 25.8 Consensus size: 44
31694363 GTCATCGTGG
* * * * **
31694373 CAAATCCTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* ** * *
31694417 CAAAT-TAGATCTCCCTAAAGTTGTAGTGGAGCAGACTAAAGATA
1 CAAATCT-TATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * *
31694461 GCAAATCTTATCTCCCTGAAGTTACAGTAGAGTAGATTAAAGCTA
1 -CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * *
31694506 TAAACCTTATCTCCCTAAAGTTACAGTGGGGCAGGTTGAAGTTA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * *
31694550 CAAGTCTTATCTCTC-AAAATTGCAGTGGGGCAGATTGAAGTTA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * ** * * *
31694593 CAAGTCTAATCCCCCTGAAGTTGCAGCAGAGCAGACTGAAGATA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * ** * *
31694637 GCGAATCTTATTTCCCTGAAGTTGCAGTAGAATAGATTAAGGCTA
1 -CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
** * ** * *
31694682 CAAATTACAAATCGGATCCCCTTGAAGTTGTAGTGGGGCAGATTGAAGTTA
1 CAAA-T-CTTATC---T-CCC-TAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * *** * * *
31694733 CGAGTCTTATCTCCCTGAAGTTGTTGTGGAACAGACTAAAGATA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * * *
31694777 GCAAATCTTGTTTCCCTAAAGTTGCAGTGGAACAAATTAAGGCTA
1 -CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * ** * * * *
31694822 CAAATTACAATCGGATCTCCCTGAAGTTGTAGTGGGGTAGATTGAAGATA
1 CAAA-T-C--T--TATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * *
31694872 CAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAAACTGAAGATA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
** * * * *
31694916 GCAAATCTTATCTTTCTAAAGTTATAGTAGAGCAAATTAAAGCTA
1 -CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * *
31694961 TAAACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAAGTTA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * *
31695005 CAAGTCTTATCT-CCTAAAATTTACAGTGGGGCAGATTGAAGTTA
1 CAAATCTTATCTCCCT-AAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * *
31695049 CAAGTCTTATCCCCCTAAAGTTGCAGTGGAGCAGACTGAAGATA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * * ** * *
31695093 GAGAACCTTATTTCCATGAAGTTGCAGTGGAATAGATTAAGGCTA
1 CA-AATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
** ** * * *
31695138 CAAATTACAAATCGGATCCCCTTGAGTTGCAGTGGGGTAGATTAAAGTTA
1 CAAA-T-CTTATC---T-CCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * * *
31695188 CGAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * *
31695232 GCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAAATTAAGGCTA
1 -CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * ** * * ** *
31695277 CAAATTACAATCGGATCTCCTTGAAGTTGTAGTGGGGTAGATCGAAGATA
1 CAAA-T-C--T--TATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * * *
31695327 CAAGTTTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAAGATA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * *
31695371 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATTAAAGCTA
1 -CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
* * * * * * * *
31695416 TAAACCTTATCTCCTTGAAGATGCAGTGGAGCAGGA-TGAAGTTG
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCA-GATTAAAGTTA
* * * * * * * *
31695460 CTAATCTTATCTCCATGAAGATGCAATAGAGCAGATTGAA-TATA
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGT-TA
* * * * *
31695504 CTAATCTTATCTCCCCAAAGTTGCAGTAGAGTAGATT
1 CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATT
31695541 GAAGCGACAA
Statistics
Matches: 847, Mismatches: 237, Indels: 80
0.73 0.20 0.07
Matches are distributed among these distances:
43 43 0.05
44 419 0.49
45 248 0.29
46 12 0.01
48 7 0.01
49 9 0.01
50 86 0.10
51 23 0.03
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
CAAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTA
Found at i:31694755 original size:140 final size:139
Alignment explanation
Indices: 31694573--31695075 Score: 549
Period size: 139 Copynumber: 3.7 Consensus size: 139
31694563 TCAAAATTGC
* * **
31694573 AGTGGGGCAGATTGAAGTTACAAGTCTAATCCCCCTGAAGTTGCAGCAGAGCAGACTGAAGATAG
1 AGTGGGGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
* * * *
31694638 CGAATCTTATTTCCCTGAAGTTGCAGTAGAATAGATTAAGGCTACAAATTACAAATCGGATC-CC
66 CAAATCTTATTTCCCTAAAGTTGCAGTAGAACAAATTAAGGCTACAAATTAC-AATCGGATCTCC
31694702 CTTGAAGTTGT
130 C-TGAAGTTGT
* ** * *
31694713 AGTGGGGCAGATTGAAGTTACGAGTCTTATCTCCCTGAAGTTGTTGTGGAACAGACTAAAGATAG
1 AGTGGGGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
* *
31694778 CAAATCTTGTTTCCCTAAAGTTGCAGTGGAACAAATTAAGGCTACAAATTACAATCGGATCTCCC
66 CAAATCTTATTTCCCTAAAGTTGCAGTAGAACAAATTAAGGCTACAAATTACAATCGGATCTCCC
31694843 TGAAGTTGT
131 TGAAGTTGT
* * * *
31694852 AGTGGGGTAGATTGAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAAACTGAAGATAG
1 AGTGGGGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
* ** * * * **
31694917 CAAATCTTATCTT-TCTAAAGTTATAGTAGAGCAAATTAAAGCT----A-TA-AACCTTATCTCC
66 CAAATCTTAT-TTCCCTAAAGTTGCAGTAGAACAAATTAAGGCTACAAATTACAATCGGATCTCC
**
31694975 CTGAAGTTAC
130 CTGAAGTTGT
* * * * * * *
31694985 AGTGGGGCAGGTTGAAGTTACAAGTCTTATCT-CCTAAAATTTACAGTGGGGCAGATTGAAGTTA
1 AGTGGGGCAGATTGAAGTTACAAGTCTTATCTCCCT-GAAGTTGCAGTGGAGCAGACTGAAGATA
* **
31695049 -CAAGTCTTATCCCCCTAAAGTTGCAGT
65 GCAAATCTTATTTCCCTAAAGTTGCAGT
31695076 GGAGCAGACT
Statistics
Matches: 308, Mismatches: 51, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
132 23 0.07
133 68 0.22
134 2 0.01
135 1 0.00
139 107 0.35
140 107 0.35
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28
Consensus pattern (139 bp):
AGTGGGGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
CAAATCTTATTTCCCTAAAGTTGCAGTAGAACAAATTAAGGCTACAAATTACAATCGGATCTCCC
TGAAGTTGT
Found at i:31694921 original size:95 final size:95
Alignment explanation
Indices: 31694741--31694921 Score: 222
Period size: 95 Copynumber: 1.9 Consensus size: 95
31694731 TACGAGTCTT
* * *
31694741 ATCTCCCTGAAGTTGTTGTGGAACAGACTAAAGATAGCAAATCTTGTTTCCCTAAAGTTGCAGTG
1 ATCTCCCTGAAGTTGTAGTGGAACAGACTAAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTG
* *
31694806 GAACAAATTAAGGCTACAAATTACAATCGG
66 GAACAAATGAAGGATACAAATTACAATCGG
*** * * *
31694836 ATCTCCCTGAAGTTGTAGTGGGGTAGATTGAAGATA-CAAGTCTTATCTCCCTAAAGTTGCAGTG
1 ATCTCCCTGAAGTTGTAGTGGAACAGACTAAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTG
*
31694900 GAGCAAACTGAA-GATAGCAAAT
66 GAACAAA-TGAAGGATA-CAAAT
31694922 CTTATCTTTC
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
94 34 0.47
95 38 0.53
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (95 bp):
ATCTCCCTGAAGTTGTAGTGGAACAGACTAAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTG
GAACAAATGAAGGATACAAATTACAATCGG
Found at i:31695100 original size:133 final size:133
Alignment explanation
Indices: 31694425--31695122 Score: 339
Period size: 139 Copynumber: 5.2 Consensus size: 133
31694415 CACAAATTAG
* * * * * * * *
31694425 ATCTCCCTAAAGTTGTAGTGGAGCAGACTAAAGATAGCAAATCTTATCTCCCTGAAGTTACAGTA
1 ATCTCCCTGAAGTTGCAGTGGGGCAGATTGAAGATA-CAAGTCTTATCTCCCTAAAGTTACAGTG
* * * * * * * * * * *** * * * *
31694490 GAGTAGATTAAAGCTA-TAAACCTTATCTCCCTAAAGTTACAGTGGGGCAGGTTGAAGTTACAAG
65 GAGCAAACTGAAGATAGCAAATCTTATCCCCCTAAAGTTACAGTAGAGCAAACTAAAGATAGAAA
*
31694554 TCTT
130 CCTT
* * * * * * * * **
31694558 ATCTCTC-AAAATTGCAGTGGGGCAGATTGAAGTTACAAGTCTAATCCCCCTGAAGTTGCAGCAG
1 ATCTCCCTGAAGTTGCAGTGGGGCAGATTGAAGATACAAGTCTTATCTCCCTAAAGTTACAGTGG
* * ** * *
31694622 AGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTAGAATAG-ATTAAGGCTACAA-
66 AGCAAACTGAAGATAGCAAATCTTATCCCCCTAAAGTTACAGTAG---AGCA--AA--CTA-AAG
* * **
31694685 ATTACAAATCGG
123 A-TAGAAACCTT
* * * * ***
31694697 ATC-CCCTTGAAGTTGTAGTGGGGCAGATTGAAGTTACGAGTCTTATCTCCCTGAAGTTGTTGTG
1 ATCTCCC-TGAAGTTGCAGTGGGGCAGATTGAAGATACAAGTCTTATCTCCCTAAAGTTACAGTG
* * * * ** * * * * * * *
31694761 GAACAGACTAAAGATAGCAAATCTTGTTTCCCTAAAGTTGCAGTGGAACAAATTAAGGCTACAAA
65 GAGCAAACTGAAGATAGCAAATCTTATCCCCCTAAAGTTACAGTAGAGCAAACTAAAGATA-GAA
**
31694826 TTACAATCGG
129 --AC---CTT
* * *
31694836 ATCTCCCTGAAGTTGTAGTGGGGTAGATTGAAGATACAAGTCTTATCTCCCTAAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGCAGTGGGGCAGATTGAAGATACAAGTCTTATCTCCCTAAAGTTACAGTGG
*** * * * *
31694901 AGCAAACTGAAGATAGCAAATCTTATCTTTCTAAAGTTATAGTAGAGCAAATTAAAGCTATAAAC
66 AGCAAACTGAAGATAGCAAATCTTATCCCCCTAAAGTTACAGTAGAGCAAACTAAAGATAGAAAC
31694966 CTT
131 CTT
* * * *
31694969 ATCTCCCTGAAGTTACAGTGGGGCAGGTTGAAGTTACAAGTCTTATCT-CCTAAAATTTACAGTG
1 ATCTCCCTGAAGTTGCAGTGGGGCAGATTGAAGATACAAGTCTTATCTCCCT-AAAGTTACAGTG
* * * * * * * * *
31695033 GGGCAGATTGAAGTTA-CAAGTCTTATCCCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGAGA
65 GAGCAAACTGAAGATAGCAAATCTTATCCCCCTAAAGTTACAGTAGAGCAAACTAAAGATAGA-A
31695097 ACCTT
129 ACCTT
* *
31695102 ATTTCCATGAAGTTGCAGTGG
1 ATCTCCCTGAAGTTGCAGTGG
31695123 AATAGATTAA
Statistics
Matches: 440, Mismatches: 102, Indels: 46
0.75 0.17 0.08
Matches are distributed among these distances:
131 35 0.08
132 81 0.18
133 99 0.22
134 5 0.01
135 1 0.00
136 5 0.01
137 1 0.00
138 6 0.01
139 118 0.27
140 89 0.20
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (133 bp):
ATCTCCCTGAAGTTGCAGTGGGGCAGATTGAAGATACAAGTCTTATCTCCCTAAAGTTACAGTGG
AGCAAACTGAAGATAGCAAATCTTATCCCCCTAAAGTTACAGTAGAGCAAACTAAAGATAGAAAC
CTT
Found at i:31695195 original size:139 final size:138
Alignment explanation
Indices: 31695028--31695415 Score: 528
Period size: 139 Copynumber: 2.8 Consensus size: 138
31695018 CTAAAATTTA
* * * *
31695028 CAGTGGGGCAGATTGAAGTTACAAGTCTTATCCCCCTAAAGTTGCAGTGGAGCAGACTGAAGATA
1 CAGTGGGGTAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATA
* * *
31695093 G-AGAACCTTATTTCCATGAAGTTGCAGTGGAATAGATTAAGGCTACAAATTACAAATCGGATCC
66 GCA-AATCTTATTTCC-TGAAGTTGCAGTGGAACAAATTAAGGCTACAAATTAC-AATCGGATCC
31695157 CCTTG-AGTTG
128 CCTTGAAGTTG
* * *
31695167 CAGTGGGGTAGATTAAAGTTACGAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGATA
1 CAGTGGGGTAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATA
* *
31695232 GCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAAATTAAGGCTACAAATTACAATCGGATCTCC
66 GCAAATCTTATTT-CCTGAAGTTGCAGTGGAACAAATTAAGGCTACAAATTACAATCGGATCCCC
31695297 TTGAAGTTG
130 TTGAAGTTG
* * * * *
31695306 TAGTGGGGTAGATCGAAGATACAAGTTTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAAGATA
1 CAGTGGGGTAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATA
* * * *
31695371 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATTAAAGCTA
66 GCAAATCTTATTTC-CTGAAGTTGCAGTGGAACAAATTAAGGCTA
31695416 TAAACCTTAT
Statistics
Matches: 220, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
138 15 0.07
139 202 0.92
140 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (138 bp):
CAGTGGGGTAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATA
GCAAATCTTATTTCCTGAAGTTGCAGTGGAACAAATTAAGGCTACAAATTACAATCGGATCCCCT
TGAAGTTG
Found at i:31695496 original size:455 final size:455
Alignment explanation
Indices: 31694425--31695544 Score: 1725
Period size: 455 Copynumber: 2.5 Consensus size: 455
31694415 CACAAATTAG
* *
31694425 ATCTCCCTAAAGTTGTAGTGGAGCAGACTAAAGATAGCAAATCTTATCTCCCTGAAGTTACAGTA
1 ATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATCTCTCTGAAGTTACAGTA
* * *
31694490 GAGTAGATTAAAGCTATAAACCTTATCTCCCTAAAGTTACAGTGGGGCAGGTTGAAGTTACAAGT
66 GAGCAAATTAAAGCTATAAACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAAGTTACAAGT
* *
31694555 CTTATCTCTCA-AAATTGCAGTGGGGCAGATTGAAGTTACAAGTCTAATCCCCCTGAAGTTGCAG
131 CTTATCTC-CATAAATTGCAGTGGGGCAGATTGAAGTTACAAGTCTTATCCCCCTAAAGTTGCAG
* * * *
31694619 CAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTAGAATAGATTAAGGCTACA
195 TAGAGCAGACTGAAGATAGAGAACCTTATTTCCATGAAGTTGCAGTAGAATAGATTAAGGCTACA
* *
31694684 AATTACAAATCGGATCCCCTTGAAGTTGTAGTGGGGCAGATTGAAGTTACGAGTCTTATCTCCCT
260 AATTACAAATCGGATCCCCTTGAAGTTGCAGTGGGGCAGATTAAAGTTACGAGTCTTATCTCCCT
** *
31694749 GAAGTTGTTGTGGAACAGACTAAAGATAGCAAATCTTGTTTCCCTAAAGTTGCAGTGGAACAAAT
325 GAAGTTGCAGTGGAACAGACTAAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAAAT
*
31694814 TAAGGCTACAAATTACAATCGGATCTCCCTGAAGTTGTAGTGGGGTAGATTGAAGATACAAGTCT
390 TAAGGCTACAAATTACAATCGGATCTCCCTGAAGTTGTAGTGGGGTAGATCGAAGATACAAGTCT
31694879 T
455 T
* * * * *
31694880 ATCTCCCTAAAGTTGCAGTGGAGCAAACTGAAGATAGCAAATCTTATCTTTCTAAAGTTATAGTA
1 ATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATCTCTCTGAAGTTACAGTA
31694945 GAGCAAATTAAAGCTATAAACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAAGTTACAAGT
66 GAGCAAATTAAAGCTATAAACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAAGTTACAAGT
*
31695010 CTTATCTCC-TAAAATTTACAGTGGGGCAGATTGAAGTTACAAGTCTTATCCCCCTAAAGTTGCA
131 CTTATCTCCAT-AAA-TTGCAGTGGGGCAGATTGAAGTTACAAGTCTTATCCCCCTAAAGTTGCA
* *
31695074 GTGGAGCAGACTGAAGATAGAGAACCTTATTTCCATGAAGTTGCAGTGGAATAGATTAAGGCTAC
194 GTAGAGCAGACTGAAGATAGAGAACCTTATTTCCATGAAGTTGCAGTAGAATAGATTAAGGCTAC
*
31695139 AAATTACAAATCGGATCCCCTTG-AGTTGCAGTGGGGTAGATTAAAGTTACGAGTCTTATCTCCC
259 AAATTACAAATCGGATCCCCTTGAAGTTGCAGTGGGGCAGATTAAAGTTACGAGTCTTATCTCCC
31695203 TGAAGTTGCAGTGGAACAGACTAAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAAA
324 TGAAGTTGCAGTGGAACAGACTAAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAAA
* *
31695268 TTAAGGCTACAAATTACAATCGGATCTCCTTGAAGTTGTAGTGGGGTAGATCGAAGATACAAGTT
389 TTAAGGCTACAAATTACAATCGGATCTCCCTGAAGTTGTAGTGGGGTAGATCGAAGATACAAGTC
31695333 TT
454 TT
* * *
31695335 ATCTCCCTGAAGTTGCAGTGGAGTAGACTAAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTA
1 ATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATCTCTCTGAAGTTACAGTA
* * * * * *
31695400 GAGCAAATTAAAGCTATAAACCTTATCTCCTTGAAGATGCAGTGGAGCAGGATGAAGTTGCTAA-
66 GAGCAAATTAAAGCTATAAACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAAGTTAC-AAG
* * *
31695464 TCTTATCTCCATGAAGA-TGCAATAGAGCAGATTGAA-TATACTAA-TCTTATCTCCCC-AAAGT
130 TCTTATCTCCAT-AA-ATTGCAGTGGGGCAGATTGAAGT-TAC-AAGTCTTATC-CCCCTAAAGT
* *
31695525 TGCAGTAGAGTAGATTGAAG
190 TGCAGTAGAGCAGACTGAAG
31695545 CGACAAATTC
Statistics
Matches: 606, Mismatches: 50, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
454 2 0.00
455 464 0.77
456 139 0.23
457 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (455 bp):
ATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTATCTCTCTGAAGTTACAGTA
GAGCAAATTAAAGCTATAAACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAAGTTACAAGT
CTTATCTCCATAAATTGCAGTGGGGCAGATTGAAGTTACAAGTCTTATCCCCCTAAAGTTGCAGT
AGAGCAGACTGAAGATAGAGAACCTTATTTCCATGAAGTTGCAGTAGAATAGATTAAGGCTACAA
ATTACAAATCGGATCCCCTTGAAGTTGCAGTGGGGCAGATTAAAGTTACGAGTCTTATCTCCCTG
AAGTTGCAGTGGAACAGACTAAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAAATT
AAGGCTACAAATTACAATCGGATCTCCCTGAAGTTGTAGTGGGGTAGATCGAAGATACAAGTCTT
Found at i:31697336 original size:73 final size:71
Alignment explanation
Indices: 31697251--31697444 Score: 219
Period size: 73 Copynumber: 2.7 Consensus size: 71
31697241 TTAATACTAT
* *
31697251 ATATTTATTTTATTTATTTACTCATTTATTTACCATTCTTTTACTTTTAAAATAATTAAATTTCA
1 ATATTTATTTTATCTATTTACTCATTTATTTA--ATTCTTTTACTTTTAAAATAATTAAATTTAA
31697316 TATTATGA
64 TATTATGA
* * * **
31697324 ATATTTACTTTATCTATTTACTTATTTATTTATTATTCTTTTACTTTTCAAATGCTTAAATTTAA
1 ATATTTATTTTATCTATTTACTCATTTATTTA--ATTCTTTTACTTTTAAAATAATTAAATTTAA
* **
31697389 TATTGTTT
64 TATTATGA
* * * *
31697397 ACATTTGTTTTATCTATTTATTCACTTATTT-ATTCTTTTACTTTTAAA
1 ATATTTATTTTATCTATTTACTCATTTATTTAATTCTTTTACTTTTAAA
31697445 GAAATTTTAA
Statistics
Matches: 102, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
70 16 0.16
73 86 0.84
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (71 bp):
ATATTTATTTTATCTATTTACTCATTTATTTAATTCTTTTACTTTTAAAATAATTAAATTTAATA
TTATGA
Found at i:31697485 original size:4 final size:4
Alignment explanation
Indices: 31697476--31697502 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
31697466 TTCATATTGG
31697476 TTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA
31697503 AGTAATTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:31709057 original size:73 final size:73
Alignment explanation
Indices: 31708957--31709150 Score: 205
Period size: 73 Copynumber: 2.7 Consensus size: 73
31708947 TTAATACTAT
** * *
31708957 ATATTTATTTTATTTATTTACTCATTTATTTATCATTCTTTTACTTTTAAAATATTTAAATTTAA
1 ATATTTACGTTATCTATTTACTCATTTATTTATCATTCTTTTACTTTTAAAATACTTAAATTTAA
31709022 TATTATGA
66 TATTATGA
* * * * *
31709030 ATATTTACGTTATCTATTTACTTATTTATTTATTATTCTTTTATTTTTCAAATGCTTAAATTTAA
1 ATATTTACGTTATCTATTTACTCATTTATTTATCATTCTTTTACTTTTAAAATACTTAAATTTAA
* **
31709095 TATTGTTT
66 TATTATGA
* *** * *
31709103 ACATTTGTTTTATCTATTTATTCACTTA-TT-T-ATTCTTTTACTTTTAAA
1 ATATTTACGTTATCTATTTACTCATTTATTTATCATTCTTTTACTTTTAAA
31709151 GAAATTTTAA
Statistics
Matches: 100, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
70 15 0.15
71 1 0.01
72 2 0.02
73 82 0.82
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.60
Consensus pattern (73 bp):
ATATTTACGTTATCTATTTACTCATTTATTTATCATTCTTTTACTTTTAAAATACTTAAATTTAA
TATTATGA
Found at i:31709320 original size:6 final size:6
Alignment explanation
Indices: 31709309--31709341 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
31709299 ATTAAGCACC
31709309 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
31709342 GAATTATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTCAT
Found at i:31710049 original size:23 final size:23
Alignment explanation
Indices: 31709996--31710049 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
31709986 TTCCTCGTGC
31709996 GTAAATC--AAATATTTGTTTTA
1 GTAAATCAAAAATATTTGTTTTA
* *
31710017 GTAGACCAAAAATATTTGTTTTA
1 GTAAATCAAAAATATTTGTTTTA
31710040 GTAAATCAAA
1 GTAAATCAAA
31710050 TCTCTTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 5 0.19
23 22 0.81
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (23 bp):
GTAAATCAAAAATATTTGTTTTA
Found at i:31715782 original size:31 final size:30
Alignment explanation
Indices: 31715746--31715834 Score: 92
Period size: 31 Copynumber: 3.0 Consensus size: 30
31715736 GATTAAATTA
* *
31715746 AAATTAAAGTTTCAAGTATACATTTGGACC
1 AAATTAAAGTTTCAAGTATACAATTGCACC
* * * *
31715776 ACAATTAGAGTTTCACGTGTAGAATTGCACC
1 A-AATTAAAGTTTCAAGTATACAATTGCACC
31715807 AAATTAAAG-TT-AATGTATACAATTGCAC
1 AAATTAAAGTTTCAA-GTATACAATTGCAC
31715835 ATAAATTGAA
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
28 1 0.02
29 14 0.30
30 8 0.17
31 24 0.51
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATACAATTGCACC
Found at i:31716760 original size:22 final size:22
Alignment explanation
Indices: 31716712--31716764 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
31716702 TGCACAATGA
*
31716712 ATAAAAATAGTAGTAAAGCATTG
1 ATAAAAA-AGTAGTAAAGAATTG
* * *
31716735 ATAAAAAAGTAGTATATAATTT
1 ATAAAAAAGTAGTAAAGAATTG
31716757 ATAAAAAA
1 ATAAAAAA
31716765 AGTTCAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.28
Consensus pattern (22 bp):
ATAAAAAAGTAGTAAAGAATTG
Found at i:31717784 original size:22 final size:21
Alignment explanation
Indices: 31717759--31717802 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
31717749 GCAATATAAT
31717759 ATCAAAATGACAACAAAACAAC
1 ATCAAAATGACAAC-AAACAAC
*
31717781 ATCAAAATTACAACAAACAAC
1 ATCAAAATGACAACAAACAAC
31717802 A
1 A
31717803 AAAAACAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.64, C:0.23, G:0.02, T:0.11
Consensus pattern (21 bp):
ATCAAAATGACAACAAACAAC
Found at i:31717952 original size:30 final size:31
Alignment explanation
Indices: 31717893--31717951 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
31717883 AAAATGGGCC
* * *
31717893 TTATTTTTTTGTCCAAACTTACTTTTTTTGT
1 TTATATTTTTGCCCAAACTCACTTTTTTTGT
31717924 TTATATTTTTGCCCAAACTCACTTTTTT
1 TTATATTTTTGCCCAAACTCACTTTTTT
31717952 GGAGGGCCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.19, C:0.17, G:0.05, T:0.59
Consensus pattern (31 bp):
TTATATTTTTGCCCAAACTCACTTTTTTTGT
Found at i:31725085 original size:3 final size:3
Alignment explanation
Indices: 31725070--31725130 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
31725060 TAATCACTTA
* * * *
31725070 ATT ATT TTT ATT ATT ATT GTT ATT ATT -TT -TT ATC ACT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
*
31725114 ATT GTT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT AT
31725131 ATTTGATTAT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
2 4 0.09
3 40 0.87
4 2 0.04
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:31730324 original size:85 final size:85
Alignment explanation
Indices: 31730225--31730397 Score: 346
Period size: 85 Copynumber: 2.0 Consensus size: 85
31730215 TTATAATTAA
31730225 CGTTTGATTTTTATTTAAAGGTAAATTCATTAATTCATTTAATGAATGAACCATATAATTCAGAG
1 CGTTTGATTTTTATTTAAAGGTAAATTCATTAATTCATTTAATGAATGAACCATATAATTCAGAG
31730290 AAAAAGTAATAAACATTCAT
66 AAAAAGTAATAAACATTCAT
31730310 CGTTTGATTTTTATTTAAAGGTAAATTCATTAATTCATTTAATGAATGAACCATATAATTCAGAG
1 CGTTTGATTTTTATTTAAAGGTAAATTCATTAATTCATTTAATGAATGAACCATATAATTCAGAG
31730375 AAAAAGTAATAAACATTCAT
66 AAAAAGTAATAAACATTCAT
31730395 CGT
1 CGT
31730398 AGATGGTGAA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 88 1.00
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.38
Consensus pattern (85 bp):
CGTTTGATTTTTATTTAAAGGTAAATTCATTAATTCATTTAATGAATGAACCATATAATTCAGAG
AAAAAGTAATAAACATTCAT
Found at i:31730757 original size:10 final size:10
Alignment explanation
Indices: 31730742--31730766 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
31730732 AATAGAAAAA
31730742 AAAACCATAT
1 AAAACCATAT
31730752 AAAACCATAT
1 AAAACCATAT
31730762 AAAAC
1 AAAAC
31730767 TTAAACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.20, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAACCATAT
Found at i:31735836 original size:58 final size:59
Alignment explanation
Indices: 31735774--31735894 Score: 138
Period size: 59 Copynumber: 2.1 Consensus size: 59
31735764 TTTTTAAAAT
* ** *
31735774 TTTTAGAACTAGAACTAAATTGAA-AA-TTTTGTAAATGTTTAGAGCGAAATTTATTGAA
1 TTTTAGAACTAGAACTAAAAT-AACAAGTTTTGTAAACATTGAGAGCGAAATTTATTGAA
* * * * *
31735832 TTTTAGAATTTGAACTAAAATAACAAGTTTTGTAAACATTGAGAGCTAAATTTGTTGGA
1 TTTTAGAACTAGAACTAAAATAACAAGTTTTGTAAACATTGAGAGCGAAATTTATTGAA
31735891 TTTT
1 TTTT
31735895 TTAGGTTTAG
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
57 2 0.04
58 20 0.38
59 30 0.58
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.40
Consensus pattern (59 bp):
TTTTAGAACTAGAACTAAAATAACAAGTTTTGTAAACATTGAGAGCGAAATTTATTGAA
Found at i:31737215 original size:17 final size:17
Alignment explanation
Indices: 31737187--31737226 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
31737177 TAAAAAAACA
31737187 AAAAATATATGAAAATT
1 AAAAATATATGAAAATT
31737204 AGAAAATA-ATGAAAATT
1 A-AAAATATATGAAAATT
31737221 AAAAAT
1 AAAAAT
31737227 TTTAACTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.23
17 11 0.50
18 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (17 bp):
AAAAATATATGAAAATT
Found at i:31753898 original size:82 final size:82
Alignment explanation
Indices: 31753803--31754368 Score: 909
Period size: 82 Copynumber: 6.9 Consensus size: 82
31753793 CGAAGAAAAT
* * *
31753803 AGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCACCTCAAGTCTTATCTCCCTAAGCAGTAGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGT
31753868 GGAGCAGACAGAACCAC
66 GGAGCAGACAGAACCAC
* * *
31753885 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCTCTAAGTAGTAAT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGT
31753950 GGAGCAGACAGAACCAC
66 GGAGCAGACAGAACCAC
* *
31753967 AAATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGT
* *
31754032 AGAGCAGACAAAACCAC
66 GGAGCAGACAGAACCAC
*
31754049 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCCTCAAGTCTTATCTCCCTAAGCAGTAGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGT
31754114 GGAGCAGACAGAACCAC
66 GGAGCAGACAGAACCAC
* * * * *
31754131 AGATCTTATCTCCCTAAGCAGTAGCGAAACAAATCGCATCAAGTCTTATCTCCCTAAGTAGTAGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGT
*
31754196 GGAGCGGACAGAACCAC
66 GGAGCAGACAGAACCAC
* *
31754213 AGATCTTATCTCCCTAAGTAGTAGT-GACGCAGATCGCCTCAAGTCTTATCTCCCTAAGCAGTAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGA-GCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAG
31754277 TGGAGCAGACAGAACCAC
65 TGGAGCAGACAGAACCAC
* * * *
31754295 AGATTTTATCTCCTTAAGCAGTAATGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGC
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGT
31754360 GGAGCAGAC
66 GGAGCAGAC
31754369 TATAGATAGC
Statistics
Matches: 443, Mismatches: 39, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
81 1 0.00
82 440 0.99
83 2 0.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.23
Consensus pattern (82 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGT
GGAGCAGACAGAACCAC
Found at i:31758742 original size:23 final size:22
Alignment explanation
Indices: 31758716--31759351 Score: 574
Period size: 23 Copynumber: 28.1 Consensus size: 22
31758706 AAGTAAAATT
*
31758716 ATTAATTTAGTTTAGGGTTTTTA
1 ATTAA-TTAGGTTAGGGTTTTTA
31758739 ATTAAATTAGGTTA-GGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
* *
31758761 AGT--TTAGGGTTTATGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
31758783 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
*
31758806 ATTTAATTAGGTTAGAGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
31758829 AGTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
***
31758852 AGTTAAGGGGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
* *
31758875 A--ATTTAGGGTTTAAGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
31758897 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
* *
31758920 AGT--TTAGGGTTTAGTGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
31758942 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
31758965 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
31758988 AGTTAA--AGGGTTAGGGTTTTTA
1 A-TTAATTA-GGTTAGGGTTTTTA
*
31759010 AGTT--TAAGGTTTAGGGTTTTTA
1 A-TTAATTAGG-TTAGGGTTTTTA
31759032 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
31759055 ATTTAATTAGGTTAAGG-TTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
31759077 AGT--TTAGGGTTTAGGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
31759099 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
*
31759122 ATTTAATTAGGTTAAGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
* *
31759145 AGT--TTAGGGTTTAAGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
31759167 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
*
31759190 AGT--TTAGGGTTTAGGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
*
31759212 ATTAAATTAGGTTAGGGTTTATA
1 ATT-AATTAGGTTAGGGTTTTTA
*
31759235 ATTTAATTAGGTTAGGGTTCTTA
1 A-TTAATTAGGTTAGGGTTTTTA
31759258 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
***
31759281 AGTTAAGGGGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
* *
31759304 AGT--TTAGAGTTTAAGGTTTTTA
1 ATTAATTAG-G-TTAGGGTTTTTA
31759326 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
31759349 ATT
1 ATT
31759352 TAAGGGTATT
Statistics
Matches: 516, Mismatches: 49, Indels: 96
0.78 0.07 0.15
Matches are distributed among these distances:
19 6 0.01
20 15 0.03
21 21 0.04
22 135 0.26
23 289 0.56
24 27 0.05
25 23 0.04
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (22 bp):
ATTAATTAGGTTAGGGTTTTTA
Found at i:31758844 original size:90 final size:90
Alignment explanation
Indices: 31758717--31759354 Score: 538
Period size: 90 Copynumber: 7.0 Consensus size: 90
31758707 AGTAAAATTA
* *
31758717 TTAATTTAGTTTAGGGTTTTTAA-TTAAATTAGGTTA-GGTTTTTAAGTTTAGGGTTTATGGTTT
1 TTAA-TTAGGTTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTTAGGG-TTAGGGTTT
31758780 TTAATTAAATTAGGTTAGGGTTTTTAAT
63 TTAATTAAATTAGGTTAGGGTTTTTAAT
* *
31758808 TTAATTAGGTTAGAGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGGTTAGGGTTTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTA--GGGTTAGGGTTTT
* *
31758873 T-A--AATTTAGGGTTTAAGGTTTTTAAT
64 TAATTAAATTA-GG-TTAGGGTTTTTAAT
* * *
31758899 TAAATTAGGTTAGGGTTTTTAAG-T--TTAGGGTTTAGTGTTTTTAATTAAATTA-GGTTAGGGT
1 TTAATTAGGTTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTTAAGT---TTAGGGTTAGGGT
* *
31758960 TTTTAATTTAATTAGGTTAGGGTTTTTAAG
61 TTTTAATTAAATTAGGTTAGGGTTTTTAAT
* *
31758990 TTAA--AGGGTTAGGGTTTTTAAGTT--TAAGGTTTAGGGTTTTTAA-TTTAATTAGGTTAGGGT
1 TTAATTA-GGTTAGGGTTTTTAAGTTAATTAGG-TTAGGGTTTTTAAGTTT-A--GGGTTAGGGT
* *
31759050 TTTTAATTTAATTAGGTTAAGG-TTTTAAGT
61 TTTTAATTAAATTAGGTTAGGGTTTTTAA-T
* * *
31759080 TT-A--GGGTTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAA-TTTAATTAGGTTAAGGT
1 TTAATTAGG-TTAGGGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTT-A--GGGTTAGGGT
* *
31759140 TTTTAAGT---TTAGGGTTTAAGGTTTTTAAT
61 TTTTAATTAAATTA-GG-TTAGGGTTTTTAAT
* *
31759169 TAAATTAGGTTAGGGTTTTTAAG-T--TTAGGGTTTAGGGTTTTTAATTAAATTA-GGTTAGGGT
1 TTAATTAGGTTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTTAAGT---TTAGGGTTAGGGT
* * *
31759230 TTATAATTTAATTAGGTTAGGGTTCTTAAT
61 TTTTAATTAAATTAGGTTAGGGTTTTTAAT
*** * *
31759260 TTAATTAGGTTAGGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGTTTAGAGTTTAAGGTTTTT
1 TTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAG-GGTTAGGGTTTTT
31759325 AATTAAATTAGGTTAGGGTTTTTAAT
65 AATTAAATTAGGTTAGGGTTTTTAAT
31759351 TTAA
1 TTAA
31759355 GGGTATTAAT
Statistics
Matches: 460, Mismatches: 41, Indels: 92
0.78 0.07 0.16
Matches are distributed among these distances:
86 2 0.00
87 4 0.01
88 12 0.03
89 42 0.09
90 188 0.41
91 164 0.36
92 31 0.07
93 15 0.03
94 2 0.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (90 bp):
TTAATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGGTTAGGGTTTTTA
ATTAAATTAGGTTAGGGTTTTTAAT
Found at i:31758962 original size:113 final size:109
Alignment explanation
Indices: 31758716--31759351 Score: 542
Period size: 113 Copynumber: 5.6 Consensus size: 109
31758706 AAGTAAAATT
* * ** * *
31758716 ATTAATTTAGTTTAGGGTTTTTAA-TTAAATTAGGTTA-GGTTTTTAAGTTTAGGGTTTATGGTT
1 ATTAAATTAGGTTAGGGTTTTTAAGTT-AA-GGGGTTAGGGTTTTTAAATTTAGGG-TTAGGGTT
31758779 TTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGAGTTTTTA
63 TTTAATTAAATTAGGTTAGGGTTTTTAATTT-A-TAGGTTAG-GTTTTTA
*
31758829 AGTT-AATTAGGTTAGGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAATTTAGGGTTTAAGGTT
1 A-TTAAATTAGGTTAGGGTTTTTAAGTTAA-GGGGTTAGGGTTTTTAAATTTAGGG-TTAGGGTT
*
31758893 TTTAATTAAATTAGGTTAGGGTTTTTAAGTTTA-GGGTTTAGTGTTTTTA
63 TTTAATTAAATTAGGTTAGGGTTTTTAA-TTTATAGG-TTAG-GTTTTTA
* ** * *
31758942 ATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAAGGGTTAGGGTTT
1 ATTAAATTAGGTTAGGGTTTTTAAGTTAA-GGGGTTAGGGTTTTTAAATT-TAGGGTTAGGGTTT
*
31759007 TTAAGTT---TAAGGTTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTA
64 TTAA-TTAAATTAGG-TTAGGGTTTTTAATTT-A-TAGGTTA-GGTTTTTA
* * * * *
31759055 ATTTAATTAGGTTAAGG-TTTTAAGTTTAGGGTTTAGGGTTTTTAATTAAATTA-GGTTAGGGTT
1 ATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTT-A--AATTTAGGGTTAGGGTT
* * *
31759118 TTTAATTTAATTAGGTTAAGGTTTTTAAGTTTA-GGGTTTAAGGTTTTTA
63 TTTAATTAAATTAGGTTAGGGTTTTTAA-TTTATAGG-TT-AGGTTTTTA
* * *
31759167 ATTAAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAATTAAATTA-GGTTAGGGTT
1 ATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTT-A--AATTTAGGGTTAGGGTT
* * *
31759231 TATAATTTAATTAGGTTAGGGTTCTTAATTTAATTAGGTTAGGGTTTTTA
63 TTTAATTAAATTAGGTTAGGGTTTTTAATTT-A-TAGGTTA-GGTTTTTA
*** * * * * *
31759281 AGTT-AAGGGGGTTAGGGTTTTTAAGTTTAGAGTTTAAGGTTTTTAATTAAATTA-GGTTAGGGT
1 A-TTAAATTAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTT-A--AATTTAGGGTTAGGGT
31759344 TTTTAATT
62 TTTTAATT
31759352 TAAGGGTATT
Statistics
Matches: 452, Mismatches: 43, Indels: 55
0.82 0.08 0.10
Matches are distributed among these distances:
111 23 0.05
112 71 0.16
113 204 0.45
114 147 0.33
115 7 0.02
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (109 bp):
ATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAAATTTAGGGTTAGGGTTTTT
AATTAAATTAGGTTAGGGTTTTTAATTTATAGGTTAGGTTTTTA
Found at i:31759339 original size:45 final size:43
Alignment explanation
Indices: 31758727--31759353 Score: 454
Period size: 45 Copynumber: 13.9 Consensus size: 43
31758717 TTAATTTAGT
31758727 TTAGGGTTTTTAATTAAATTAGGTTA-GGTTTTTAAGTTTAG-GG
1 TTAGGGTTTTTAATT-AATTAGGTTAGGGTTTTTAA-TTTAGAGG
* *
31758770 TTTATGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGG
1 -TTAGGGTTTTTAATT-AATTAGGTTAGGGTTTTTAATTT-A-GAGG
* * *
31758817 TTAGAGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGG
1 TTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTTAA-TTTA-GAGG
* * * *
31758863 TTAGGGTTTTTAA--ATTTAGGGTTTAAGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAATTA-GG-TTAGGGTTTTTAATT-TA-GAGG
* * * *
31758908 TTAGGGTTTTTAAGT--TTAGGGTTTAGTGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAATTA-GG-TTAGGGTTTTTAATT-TA-GAGG
* *
31758953 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAAGGG
1 TTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTTAATTTAGA-GG
* *
31758998 TTAGGGTTTTTAAGTT--TAAGGTTTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAA-TTAATTAGG-TTAGGGTTTTTAATTT-A-GAGG
*
31759043 TTAGGGTTTTTAATTTAATTAGGTTAAGG-TTTTAAGTTTAG-GG
1 TTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTTAA-TTTAGAGG
*
31759086 TTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGG
1 -TTAGGGTTTTTAATT-AATTAGGTTAGGGTTTTTAATTT-A-GAGG
* * * * *
31759133 TTAAGGTTTTTAAGT--TTAGGGTTTAAGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAATTA-GG-TTAGGGTTTTTAATT-TA-GAGG
* * *
31759178 TTAGGGTTTTTAAGT--TTAGGGTTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAATTA-GG-TTAGGGTTTTTAATT-TA-GAGG
* * *
31759223 TTAGGGTTTATAATTTAATTAGGTTAGGGTTCTTAATTTAATTAGG
1 TTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTTAATTT-A-GAGG
*** *
31759269 TTAGGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGTTTAGAGT
1 TTAGGGTTTTTAA-TTAATTAGGTTAGGGTTTTTAA-TTTAGAGG
*
31759314 TTAAGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTA
1 TTAGGGTTTTTAATT-AATTAGGTTAGGGTTTTTAATTTA
31759354 AGGGTATTAA
Statistics
Matches: 494, Mismatches: 53, Indels: 72
0.80 0.09 0.12
Matches are distributed among these distances:
43 15 0.03
44 84 0.17
45 236 0.48
46 134 0.27
47 19 0.04
48 6 0.01
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.49
Consensus pattern (43 bp):
TTAGGGTTTTTAATTAATTAGGTTAGGGTTTTTAATTTAGAGG
Found at i:31759341 original size:68 final size:66
Alignment explanation
Indices: 31758716--31759357 Score: 425
Period size: 68 Copynumber: 9.5 Consensus size: 66
31758706 AAGTAAAATT
* * ** *
31758716 ATTAATTTAGTTTAGGGTTTTTAA-TTAAATTAGGTTA-GGTTTTTAAGTTTAG-GGTTTATGGT
1 ATTAAATTAGGTTAGGGTTTTTAAGTT-AA-GGGGTTAGGGTTTTTAA-TTTAGAGG-TTAGGGT
31758778 TTTTA
62 TTTTA
* ** * * *
31758783 ATTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGAGTTTTTAAGTTAATTAGGTTAGGGTT
1 ATTAAATTAGGTTAGGGTTTTTAAGTTAA-GGGGTTAGGGTTTTTAA-TTTA-GAGGTTAGGGTT
31758848 TTTA
63 TTTA
*** * * * * * *
31758852 AGTT-AAGGGGGTTAGGGTTTTTAAATTTAGGGTTTAAGGTTTTTAATTAAATTAGGTTAGGGTT
1 A-TTAAATTAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATT-TA-GAGGTTAGGGTT
31758916 TTTA
63 TTTA
* * ** *
31758920 AGT---TTAGGGTTTAGTGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGG
1 ATTAAATTA-GG-TTAGGGTTTTTAAGTT-AA-GGGGTTAGGGTTTTTAATTT-A-GAGGTTAGG
31758981 GTTTTTA
60 GTTTTTA
* * *
31758988 AGTTAAA--GGGTTAGGGTTTTTAAGTTTAA-GGTTTAGGGTTTTTAATTTAATTAGGTTAGGGT
1 A-TTAAATTAGGTTAGGGTTTTTAAG-TTAAGGGGTTAGGGTTTTTAATTT-A-GAGGTTAGGGT
31759050 TTTTA
62 TTTTA
* * * * * *
31759055 ATTTAATTAGGTTAAGG-TTTTAAGTTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTT
1 ATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATT-TA-GAGGTTAGGGTTT
31759119 TTA
64 TTA
* * * * * * *
31759122 ATTTAATTAGGTTAAGGTTTTTAAGTTTAGGGTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTT
1 ATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATT-TA-GAGGTTAGGGTTT
31759187 TTA
64 TTA
* ** * *
31759190 AGT---TTAGGGTTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTATAATTTAATTAGGTTAGG
1 ATTAAATTA-GG-TTAGGGTTTTTAAGTT-AA-GGGGTTAGGGTTTTTAATTT-A-GAGGTTAGG
*
31759251 GTTCTTA
60 GTTTTTA
* * *
31759258 ATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGTTTAGAGTTTAAGGTTT
1 ATTAAATTAGGTTAGGGTTTTTAAGTTAA-GGGGTTAGGGTTTTTAA-TTTAGAGGTTAGGGTTT
31759323 TTA
64 TTA
*
31759326 ATTAAATTAGGTTAGGGTTTTTAATTTAAGGG
1 ATTAAATTAGGTTAGGGTTTTTAAGTTAAGGG
31759358 TATTAATGGT
Statistics
Matches: 484, Mismatches: 59, Indels: 64
0.80 0.10 0.11
Matches are distributed among these distances:
65 3 0.01
66 15 0.03
67 161 0.33
68 222 0.46
69 67 0.14
70 13 0.03
71 3 0.01
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (66 bp):
ATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAATTTAGAGGTTAGGGTTTTT
A
Found at i:31759435 original size:24 final size:25
Alignment explanation
Indices: 31759393--31759443 Score: 95
Period size: 24 Copynumber: 2.1 Consensus size: 25
31759383 ATAATATAAA
31759393 AAATTTCTATTTTATTACATCAAAT
1 AAATTTCTATTTTATTACATCAAAT
31759418 AAATTTCTA-TTTATTACATCAAAT
1 AAATTTCTATTTTATTACATCAAAT
31759442 AA
1 AA
31759444 TATCAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (25 bp):
AAATTTCTATTTTATTACATCAAAT
Found at i:31760240 original size:7 final size:7
Alignment explanation
Indices: 31760230--31760254 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
31760220 TTATATACAT
31760230 AATACTA
1 AATACTA
31760237 AATACTA
1 AATACTA
31760244 AATACTA
1 AATACTA
31760251 AATA
1 AATA
31760255 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:31761420 original size:11 final size:11
Alignment explanation
Indices: 31761404--31761445 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
31761394 AAAAAGGGAG
31761404 TTAAGAGAAAC
1 TTAAGAGAAAC
*
31761415 TTAAGAGGAAC
1 TTAAGAGAAAC
*
31761426 TTAAGAGTAAC
1 TTAAGAGAAAC
31761437 TTAAGAGAA
1 TTAAGAGAA
31761446 TTTTTGAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (11 bp):
TTAAGAGAAAC
Found at i:31761492 original size:14 final size:11
Alignment explanation
Indices: 31761449--31761488 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
31761439 AAGAGAATTT
31761449 TTGA-AGGAAA
1 TTGAGAGGAAA
31761459 TTGAGAGGAAA
1 TTGAGAGGAAA
31761470 TTGAGAGGAAA
1 TTGAGAGGAAA
31761481 TTTGAGAG
1 -TTGAGAG
31761489 AGGATTAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 4 0.14
11 17 0.61
12 7 0.25
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:31762485 original size:18 final size:18
Alignment explanation
Indices: 31762464--31762543 Score: 60
Period size: 18 Copynumber: 4.3 Consensus size: 18
31762454 AAAAATGCAG
31762464 AAAAACTAGAAAATTATT
1 AAAAACTAGAAAATTATT
31762482 AAAAATCATA-AAAATTA--
1 AAAAA-C-TAGAAAATTATT
31762499 AATAAATCTACGAAAA-TATTT
1 AA-AAA-CTA-GAAAATTA-TT
* *
31762520 AATAACTAGAAAAATATT
1 AAAAACTAGAAAATTATT
31762538 AAAAAC
1 AAAAAC
31762544 ATTAAAATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 18
0.72 0.03 0.25
Matches are distributed among these distances:
17 4 0.08
18 24 0.47
19 17 0.33
20 4 0.08
21 2 0.04
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.26
Consensus pattern (18 bp):
AAAAACTAGAAAATTATT
Found at i:31762486 original size:19 final size:19
Alignment explanation
Indices: 31762464--31762542 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 19
31762454 AAAAATGCAG
31762464 AAAAACTAGAAAATTATTA
1 AAAAACTAGAAAATTATTA
*
31762483 AAAATCATA-AAAATTA--A
1 AAAAAC-TAGAAAATTATTA
* *
31762500 ATAAATCTACGAAAA-TATTT
1 A-AAAACTA-GAAAATTATTA
* *
31762520 AATAACTAGAAAAATATTA
1 AAAAACTAGAAAATTATTA
31762539 AAAA
1 AAAA
31762543 CATTAAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
17 4 0.09
18 12 0.26
19 28 0.60
20 3 0.06
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (19 bp):
AAAAACTAGAAAATTATTA
Found at i:31762879 original size:15 final size:16
Alignment explanation
Indices: 31762859--31762894 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
31762849 TCCTTTATTG
31762859 TTATTTTAAT-AATTT
1 TTATTTTAATGAATTT
31762874 TTATTTTTAATGAATTT
1 TTA-TTTTAATGAATTT
31762891 TTAT
1 TTAT
31762895 GGTTTGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.16
16 8 0.42
17 8 0.42
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTATTTTAATGAATTT
Found at i:31762883 original size:16 final size:17
Alignment explanation
Indices: 31762862--31762894 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
31762852 TTTATTGTTA
31762862 TTTTAAT-AATTTTTAT
1 TTTTAATGAATTTTTAT
31762878 TTTTAATGAATTTTTAT
1 TTTTAATGAATTTTTAT
31762895 GGTTTGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTAATGAATTTTTAT
Found at i:31765615 original size:18 final size:18
Alignment explanation
Indices: 31765592--31765628 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
31765582 CAAATGAATC
*
31765592 ATTTCCATTTTCATTTTT
1 ATTTCCATTTCCATTTTT
31765610 ATTTCCATTTCCATTTTT
1 ATTTCCATTTCCATTTTT
31765628 A
1 A
31765629 GAAACATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTCCATTTCCATTTTT
Found at i:31768489 original size:22 final size:22
Alignment explanation
Indices: 31768458--31768517 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
31768448 TTTTGCACAC
*
31768458 TAGTGCTCTCTGTTTAGCACATT
1 TAGTGATCTCTGTTTAGCAC-TT
*
31768481 T-GTGATCTCTGTATAGCACTT
1 TAGTGATCTCTGTTTAGCACTT
*
31768502 TAGTGCTCTCTGTTTA
1 TAGTGATCTCTGTTTA
31768518 CTAGTGCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 3 0.09
22 28 0.88
23 1 0.03
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.45
Consensus pattern (22 bp):
TAGTGATCTCTGTTTAGCACTT
Found at i:31771251 original size:13 final size:14
Alignment explanation
Indices: 31771217--31771251 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
31771207 TAAGCTGAAG
*
31771217 AGACACTTGCAATA
1 AGACACATGCAATA
31771231 AGACACATGCAATA
1 AGACACATGCAATA
31771245 A-ACACAT
1 AGACACAT
31771252 TAAAATGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.49, C:0.23, G:0.11, T:0.17
Consensus pattern (14 bp):
AGACACATGCAATA
Found at i:31771698 original size:50 final size:52
Alignment explanation
Indices: 31771572--31771703 Score: 146
Period size: 50 Copynumber: 2.6 Consensus size: 52
31771562 ATGAACAAAT
* *
31771572 GAGTTACTTAATGCA-AGACTTAATTTAATGATGCAGACTTAAACTAACATAG
1 GAGTTACATAATGCATA-ACTTTATTTAATGATGCAGACTTAAACTAACATAG
** * * *
31771624 GAGTTACATAATGCATGTCATTATTT-ATGATGCATACTT-AACTAGCAT-G
1 GAGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATAG
*
31771673 GAAGTTACATAATGCATAACTTTATTAAATG
1 G-AGTTACATAATGCATAACTTTATTTAATG
31771704 CAGAACACAT
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
49 2 0.03
50 29 0.44
51 15 0.23
52 20 0.30
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (52 bp):
GAGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATAG
Found at i:31773406 original size:20 final size:20
Alignment explanation
Indices: 31773383--31773425 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
31773373 GTGTTTGTTT
31773383 TGTAAGAATATGGATCCTTA
1 TGTAAGAATATGGATCCTTA
31773403 TGTAAGAATATGGATCCTTA
1 TGTAAGAATATGGATCCTTA
31773423 TGT
1 TGT
31773426 TTGGTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (20 bp):
TGTAAGAATATGGATCCTTA
Found at i:31775807 original size:49 final size:49
Alignment explanation
Indices: 31775754--31775855 Score: 125
Period size: 49 Copynumber: 2.1 Consensus size: 49
31775744 AAATATGGGT
* * * * *
31775754 CACACGTCCGTGTGGCC-CACACGGCCTACATGAATTTTCCATGTTATCG
1 CACACGCCCATGT-GCCTCACACGGCCTACATGAATTTCCCATGTAACCG
* *
31775803 CACACGCCCATGTGCCTCACACGGCTTACTTGAATTTCCCATGTAACCG
1 CACACGCCCATGTGCCTCACACGGCCTACATGAATTTCCCATGTAACCG
31775852 CACA
1 CACA
31775856 TGCCTGTATG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 3 0.07
49 42 0.93
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.25
Consensus pattern (49 bp):
CACACGCCCATGTGCCTCACACGGCCTACATGAATTTCCCATGTAACCG
Found at i:31777968 original size:17 final size:17
Alignment explanation
Indices: 31777946--31777991 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
31777936 TGTGTTATAG
*
31777946 TAATTTTGGGTTTAAAT
1 TAATTTTGAGTTTAAAT
*
31777963 TAATTTTGACTTTAAAT
1 TAATTTTGAGTTTAAAT
31777980 T-ATTTTGAGTTT
1 TAATTTTGAGTTT
31777992 GTGTCACCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.28, C:0.02, G:0.13, T:0.57
Consensus pattern (17 bp):
TAATTTTGAGTTTAAAT
Done.