Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 90 of 136
Found at i:29905249 original size:46 final size:46
Alignment explanation
Indices: 29905193--29905283 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
29905183 ATATATAAAA
*
29905193 ATATATGTGTAGGTATATATGAATCATAAAATGTAAAGAATATATT
1 ATATATGTGTAAGTATATATGAATCATAAAATGTAAAGAATATATT
* *
29905239 ATATATGTGTAAGTATATATTAGTCATAAAATGTAAAGAATATAT
1 ATATATGTGTAAGTATATATGAATCATAAAATGTAAAGAATATAT
29905284 ACAAGGTATA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.37
Consensus pattern (46 bp):
ATATATGTGTAAGTATATATGAATCATAAAATGTAAAGAATATATT
Found at i:29905282 original size:25 final size:24
Alignment explanation
Indices: 29905215--29905283 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 24
29905205 GTATATATGA
29905215 ATCATAAAATGTAAAGAATATATT
1 ATCATAAAATGTAAAGAATATATT
** *
29905239 AT-AT-ATGTGT-AAGTATATATT
1 ATCATAAAATGTAAAGAATATATT
29905260 AGTCATAAAATGTAAAGAATATAT
1 A-TCATAAAATGTAAAGAATATAT
29905284 ACAAGGTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
21 11 0.31
22 5 0.14
23 4 0.11
24 6 0.17
25 9 0.26
ACGTcount: A:0.49, C:0.03, G:0.12, T:0.36
Consensus pattern (24 bp):
ATCATAAAATGTAAAGAATATATT
Found at i:29906780 original size:22 final size:22
Alignment explanation
Indices: 29906727--29906799 Score: 87
Period size: 22 Copynumber: 3.3 Consensus size: 22
29906717 TCTAGGCTTA
*
29906727 TTTGGGTTTA-GTTTGTAATGGG
1 TTTGGGTTTAGGTTTG-AGTGGG
*
29906749 TTTTGAGTTTAGGTTTGAGTGGG
1 -TTTGGGTTTAGGTTTGAGTGGG
29906772 TTTGGGTTTAGGTTT-AGGTGGG
1 TTTGGGTTTAGGTTTGA-GTGGG
29906794 TTTGGG
1 TTTGGG
29906800 CCCGGGCAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
21 1 0.02
22 25 0.56
23 14 0.31
24 5 0.11
ACGTcount: A:0.11, C:0.00, G:0.41, T:0.48
Consensus pattern (22 bp):
TTTGGGTTTAGGTTTGAGTGGG
Found at i:29916545 original size:23 final size:23
Alignment explanation
Indices: 29916516--29916566 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
29916506 TAGTATTCAT
*
29916516 TTTTTTTCGAATTATTGATAGTA
1 TTTTTTTCGAATTACTGATAGTA
*
29916539 TTTTTTTCTAATTACTGATAGTA
1 TTTTTTTCGAATTACTGATAGTA
29916562 TTTTT
1 TTTTT
29916567 GCAATTAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.24, C:0.06, G:0.10, T:0.61
Consensus pattern (23 bp):
TTTTTTTCGAATTACTGATAGTA
Found at i:29916572 original size:21 final size:23
Alignment explanation
Indices: 29916516--29916573 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
29916506 TAGTATTCAT
* * *
29916516 TTTTTTTCGAATTATTGATAGTA
1 TTTTTTGCTAATTACTGATAGTA
*
29916539 TTTTTTTCTAATTACTGATAGTA
1 TTTTTTGCTAATTACTGATAGTA
29916562 -TTTTTGC-AATTA
1 TTTTTTGCTAATTA
29916574 ATGCATTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 5 0.16
22 6 0.19
23 21 0.66
ACGTcount: A:0.26, C:0.07, G:0.10, T:0.57
Consensus pattern (23 bp):
TTTTTTGCTAATTACTGATAGTA
Found at i:29917253 original size:102 final size:102
Alignment explanation
Indices: 29917077--29917282 Score: 403
Period size: 102 Copynumber: 2.0 Consensus size: 102
29917067 TCGAGATTCA
29917077 ACAAATAACTTCATCATCCAGCAAGTCTACCAACAATTATATACTACAACAAACTCGAAATTAAT
1 ACAAATAACTTCATCATCCAGCAAGTCTACCAACAATTATATACTACAACAAACTCGAAATTAAT
29917142 ATCTTATCATATTCTTTACTTTGGATTTAATTTTTGT
66 ATCTTATCATATTCTTTACTTTGGATTTAATTTTTGT
*
29917179 ACAAATAACTTCATCATCCAGCAAGTCTACCAATAATTATATACTACAACAAACTCGAAATTAAT
1 ACAAATAACTTCATCATCCAGCAAGTCTACCAACAATTATATACTACAACAAACTCGAAATTAAT
29917244 ATCTTATCATATTCTTTACTTTGGATTTAATTTTTGT
66 ATCTTATCATATTCTTTACTTTGGATTTAATTTTTGT
29917281 AC
1 AC
29917283 TTTTTATTTT
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.37
Consensus pattern (102 bp):
ACAAATAACTTCATCATCCAGCAAGTCTACCAACAATTATATACTACAACAAACTCGAAATTAAT
ATCTTATCATATTCTTTACTTTGGATTTAATTTTTGT
Found at i:29919828 original size:9 final size:9
Alignment explanation
Indices: 29919800--29919853 Score: 63
Period size: 9 Copynumber: 5.7 Consensus size: 9
29919790 TGTAGTGATT
29919800 TAATTTGGG
1 TAATTTGGG
*
29919809 TAAATTCGGG
1 T-AATTTGGG
29919819 TAATTTGGG
1 TAATTTGGG
29919828 TAATTTTCGGG
1 TAA-TTT-GGG
*
29919839 TAATTCGGG
1 TAATTTGGG
29919848 TAATTT
1 TAATTT
29919854 TTAACCAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 19 0.50
10 13 0.34
11 6 0.16
ACGTcount: A:0.24, C:0.06, G:0.28, T:0.43
Consensus pattern (9 bp):
TAATTTGGG
Found at i:29919838 original size:20 final size:20
Alignment explanation
Indices: 29919800--29919854 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
29919790 TGTAGTGATT
*
29919800 TAATTTGGGTAA-ATTCGGG
1 TAATTTGGGTAATTTTCGGG
29919819 TAATTTGGGTAATTTTCGGG
1 TAATTTGGGTAATTTTCGGG
*
29919839 TAATTCGGGTAATTTT
1 TAATTTGGGTAATTTT
29919855 TAACCAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 12 0.36
20 21 0.64
ACGTcount: A:0.24, C:0.05, G:0.27, T:0.44
Consensus pattern (20 bp):
TAATTTGGGTAATTTTCGGG
Found at i:29919960 original size:28 final size:27
Alignment explanation
Indices: 29919917--29919994 Score: 86
Period size: 29 Copynumber: 2.8 Consensus size: 27
29919907 ATTAACCGAA
*
29919917 AAAAATTTCGGTTCGGTTAACGGTTA-
1 AAAAATTTCGGGTCGGTTAACGGTTAT
*
29919943 AAAAATTTGGGAGGTCGGTTAATTCGGTTAT
1 AAAAATTT-CG-GGTCGGTTAA--CGGTTAT
*
29919974 AATAATTTCGGGTCGGTTAAC
1 AAAAATTTCGGGTCGGTTAAC
29919995 CGGTCGATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
26 8 0.19
27 2 0.05
28 9 0.21
29 10 0.23
30 7 0.16
31 7 0.16
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (27 bp):
AAAAATTTCGGGTCGGTTAACGGTTAT
Found at i:29931471 original size:23 final size:23
Alignment explanation
Indices: 29931445--29931491 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
29931435 TATGAAGTCA
29931445 TGAAAATAAAATATGTACTTTGT
1 TGAAAATAAAATATGTACTTTGT
29931468 TGAAAATAAAATATGTACTTTGT
1 TGAAAATAAAATATGTACTTTGT
29931491 T
1 T
29931492 TTCTATTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.40
Consensus pattern (23 bp):
TGAAAATAAAATATGTACTTTGT
Found at i:29941080 original size:44 final size:44
Alignment explanation
Indices: 29941007--29941100 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
29940997 CATTATTTAT
* * * *
29941007 CACTTAATTCACTTATGAACTATTCTTTTACTAACTCCACATGC
1 CACTTAATTCACTTATAAAATATTATTTTACTAACTCCACATAC
*
29941051 CACTTAA-TCTACTTATAAAATATTATTTTACTAACTCTACATAC
1 CACTTAATTC-ACTTATAAAATATTATTTTACTAACTCCACATAC
29941095 CACTTA
1 CACTTA
29941101 TCACATTCAC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 2 0.05
44 42 0.95
ACGTcount: A:0.34, C:0.24, G:0.02, T:0.39
Consensus pattern (44 bp):
CACTTAATTCACTTATAAAATATTATTTTACTAACTCCACATAC
Found at i:29941608 original size:56 final size:57
Alignment explanation
Indices: 29941541--29941654 Score: 221
Period size: 56 Copynumber: 2.0 Consensus size: 57
29941531 TAAAATACCC
29941541 TCATAAAAAATTAAAATTTTATATAAAATGTGAGAAAAAGTTAAG-AATGAGGGATA
1 TCATAAAAAATTAAAATTTTATATAAAATGTGAGAAAAAGTTAAGAAATGAGGGATA
29941597 TCATAAAAAATTAAAATTTTATATAAAATGTGAGAAAAAGTTAAGAAATGAGGGATA
1 TCATAAAAAATTAAAATTTTATATAAAATGTGAGAAAAAGTTAAGAAATGAGGGATA
29941654 T
1 T
29941655 GTGATGAAGA
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 45 0.79
57 12 0.21
ACGTcount: A:0.54, C:0.02, G:0.16, T:0.29
Consensus pattern (57 bp):
TCATAAAAAATTAAAATTTTATATAAAATGTGAGAAAAAGTTAAGAAATGAGGGATA
Found at i:29942117 original size:12 final size:12
Alignment explanation
Indices: 29942100--29942124 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29942090 GGTATTCATT
29942100 CGGTTAACCGAC
1 CGGTTAACCGAC
29942112 CGGTTAACCGAC
1 CGGTTAACCGAC
29942124 C
1 C
29942125 CGAAATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:29942300 original size:9 final size:9
Alignment explanation
Indices: 29942286--29942343 Score: 71
Period size: 9 Copynumber: 6.4 Consensus size: 9
29942276 TTTGGTTAAA
29942286 AATTAACCG
1 AATTAACCG
*
29942295 AATTAACTG
1 AATTAACCG
*
29942304 AATTACCCG
1 AATTAACCG
*
29942313 AATTACCCG
1 AATTAACCG
*
29942322 AATTAACCA
1 AATTAACCG
*
29942331 AATTAACCA
1 AATTAACCG
29942340 AATT
1 AATT
29942344 GAATCACTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:29942482 original size:18 final size:18
Alignment explanation
Indices: 29942442--29942485 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
29942432 TAATTTTATG
**
29942442 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
29942460 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
29942478 CTTGGGTT
1 ATTGGGTT
29942486 TAGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:29943719 original size:18 final size:18
Alignment explanation
Indices: 29943679--29943722 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
29943669 TAATTTTATG
**
29943679 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
29943697 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
29943715 CTTGGGTT
1 ATTGGGTT
29943723 TAGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:29949161 original size:21 final size:20
Alignment explanation
Indices: 29949135--29949174 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
29949125 TAAAATTATT
*
29949135 AAAATTATATATTTTAAATTA
1 AAAATTATA-ATATTAAATTA
29949156 AAAATTATAATATTAAATT
1 AAAATTATAATATTAAATT
29949175 TATATATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAATTATAATATTAAATTA
Found at i:29949387 original size:12 final size:12
Alignment explanation
Indices: 29949370--29949395 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29949360 GTATCCATAC
29949370 TTTATAGGATAA
1 TTTATAGGATAA
29949382 TTTATAGGATAA
1 TTTATAGGATAA
29949394 TT
1 TT
29949396 GGTAGGATTA
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:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (12 bp):
TTTATAGGATAA
Found at i:29950489 original size:46 final size:46
Alignment explanation
Indices: 29950439--29950534 Score: 183
Period size: 46 Copynumber: 2.1 Consensus size: 46
29950429 ATTCATATAT
29950439 TAATTTTAACTATGTTCTCTATTTATATAGAACAAGTTTGTACATA
1 TAATTTTAACTATGTTCTCTATTTATATAGAACAAGTTTGTACATA
*
29950485 TAATTTTAACTATGTTCTCTATTTATATATAACAAGTTTGTACATA
1 TAATTTTAACTATGTTCTCTATTTATATAGAACAAGTTTGTACATA
29950531 TAAT
1 TAAT
29950535 GTGTTCAATG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (46 bp):
TAATTTTAACTATGTTCTCTATTTATATAGAACAAGTTTGTACATA
Found at i:29950517 original size:23 final size:23
Alignment explanation
Indices: 29950445--29950517 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
29950435 ATATTAATTT
29950445 TAACTATGTTCTCTATTTATATA
1 TAACTATGTTCTCTATTTATATA
* * * ** *
29950468 GAAC-AAGTT-TGTACATATAATTT
1 TAACTATGTTCTCTATTTAT-A-TA
29950491 TAACTATGTTCTCTATTTATATA
1 TAACTATGTTCTCTATTTATATA
29950514 TAAC
1 TAAC
29950518 AAGTTTGTAC
Statistics
Matches: 34, Mismatches: 12, Indels: 8
0.63 0.22 0.15
Matches are distributed among these distances:
21 6 0.18
22 5 0.15
23 12 0.35
24 5 0.15
25 6 0.18
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (23 bp):
TAACTATGTTCTCTATTTATATA
Found at i:29951447 original size:347 final size:347
Alignment explanation
Indices: 29950812--29951506 Score: 1390
Period size: 347 Copynumber: 2.0 Consensus size: 347
29950802 ATGTGATATA
29950812 TCATATCAACTTATTTGAGCATGACCATGCATTTCTAGTTTCATTCCATTAAGTGGTCTAAGATA
1 TCATATCAACTTATTTGAGCATGACCATGCATTTCTAGTTTCATTCCATTAAGTGGTCTAAGATA
29950877 TTACTCCCATTATGTAGGAGGGGCAAATCATATATTGATCAATCATATCCCACTACATAAATTTG
66 TTACTCCCATTATGTAGGAGGGGCAAATCATATATTGATCAATCATATCCCACTACATAAATTTG
29950942 TGACATACCGAACATCAGTCTTTATAGTACAACCTGTTACAGTAGACGTTTGGCTGTATCAAAAT
131 TGACATACCGAACATCAGTCTTTATAGTACAACCTGTTACAGTAGACGTTTGGCTGTATCAAAAT
29951007 ATACAACTCACGATGTTGGAATAATGATGATCTCAAGTTTGAGGATCGTATATGTAGTTATCACT
196 ATACAACTCACGATGTTGGAATAATGATGATCTCAAGTTTGAGGATCGTATATGTAGTTATCACT
29951072 ATGAGTAATGTTGTGATTATTATATAATAATCCAAGAAACATACTCATAGCGGGTCAGTCCAGCA
261 ATGAGTAATGTTGTGATTATTATATAATAATCCAAGAAACATACTCATAGCGGGTCAGTCCAGCA
29951137 TATTTTTATCTAACACATACTC
326 TATTTTTATCTAACACATACTC
29951159 TCATATCAACTTATTTGAGCATGACCATGCATTTCTAGTTTCATTCCATTAAGTGGTCTAAGATA
1 TCATATCAACTTATTTGAGCATGACCATGCATTTCTAGTTTCATTCCATTAAGTGGTCTAAGATA
29951224 TTACTCCCATTATGTAGGAGGGGCAAATCATATATTGATCAATCATATCCCACTACATAAATTTG
66 TTACTCCCATTATGTAGGAGGGGCAAATCATATATTGATCAATCATATCCCACTACATAAATTTG
29951289 TGACATACCGAACATCAGTCTTTATAGTACAACCTGTTACAGTAGACGTTTGGCTGTATCAAAAT
131 TGACATACCGAACATCAGTCTTTATAGTACAACCTGTTACAGTAGACGTTTGGCTGTATCAAAAT
29951354 ATACAACTCACGATGTTGGAATAATGATGATCTCAAGTTTGAGGATCGTATATGTAGTTATCACT
196 ATACAACTCACGATGTTGGAATAATGATGATCTCAAGTTTGAGGATCGTATATGTAGTTATCACT
29951419 ATGAGTAATGTTGTGATTATTATATAATAATCCAAGAAACATACTCATAGCGGGTCAGTCCAGCA
261 ATGAGTAATGTTGTGATTATTATATAATAATCCAAGAAACATACTCATAGCGGGTCAGTCCAGCA
29951484 TATTTTTATCTAACACATACTC
326 TATTTTTATCTAACACATACTC
29951506 T
1 T
29951507 TGTATTGATT
Statistics
Matches: 348, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
347 348 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (347 bp):
TCATATCAACTTATTTGAGCATGACCATGCATTTCTAGTTTCATTCCATTAAGTGGTCTAAGATA
TTACTCCCATTATGTAGGAGGGGCAAATCATATATTGATCAATCATATCCCACTACATAAATTTG
TGACATACCGAACATCAGTCTTTATAGTACAACCTGTTACAGTAGACGTTTGGCTGTATCAAAAT
ATACAACTCACGATGTTGGAATAATGATGATCTCAAGTTTGAGGATCGTATATGTAGTTATCACT
ATGAGTAATGTTGTGATTATTATATAATAATCCAAGAAACATACTCATAGCGGGTCAGTCCAGCA
TATTTTTATCTAACACATACTC
Found at i:29952653 original size:88 final size:88
Alignment explanation
Indices: 29952468--29952770 Score: 419
Period size: 89 Copynumber: 3.4 Consensus size: 88
29952458 TTAAGGATAC
* * * ** * * *
29952468 AAAAA-ACTCTCAAACTTTTTCAAAAAAAGTAATTAAGTCATTACTTTTTTTTGCACTCATTTAG
1 AAAAATACACTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTTTCCACTCAATTGG
* *
29952532 GTACTTAAACTTTCAAAATACATA
66 GTACTT-GACTTTCAAAATGCATA
*
29952556 AAAAATACACTCAAACTTTTTCGAAAAAAGCAATTAAGCCCCTACTTTTTTTTCCACTCAATTGG
1 AAAAATACACTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTTTCCACTCAATTGG
* *
29952621 GTACATGACTTTCAAAATGCATC
66 GTACTTGACTTTCAAAATGCATA
* * *
29952644 AAAAATACACTCAAACCTTTTCGAAAAAAGCAATTAAGCCCCTACTTTTTTTTCCATTCAATTGG
1 AAAAATACACTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTTTCCACTCAATTGG
29952709 GTACTTGAACTTTCAAAATGCATA
66 GTACTTG-ACTTTCAAAATGCATA
* *
29952733 AAAAAGACCCTCAAACTTTTTCAAAAAAAGCAATTAAG
1 AAAAATACACTCAAACTTTTTCAAAAAAAGCAATTAAG
29952771 TCCATTTTTT
Statistics
Matches: 192, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
88 88 0.46
89 104 0.54
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (88 bp):
AAAAATACACTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTACTTTTTTTTCCACTCAATTGG
GTACTTGACTTTCAAAATGCATA
Found at i:29953304 original size:88 final size:85
Alignment explanation
Indices: 29953200--29953452 Score: 337
Period size: 88 Copynumber: 2.9 Consensus size: 85
29953190 AACAAGAGCT
* *
29953200 TAATTGCTTTTTTGAAAAATTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACTTAATT
1 TAATTGCTTTTTTGAAAAATTTTGAGGG-CTTTTTGATACATTTTGAAAGTTCAAGTACTCAATT
29953265 GAGTGAAAAAAAAACAGGGGCC
65 GAGTG-AAAAAAAACAGGGGCC
* * *
29953287 TAATTGCTTTTATTGAAAATTTTTGAGGGCCTTTTTGATACATTTTGAAAGTTTAAGTACCCAAT
1 TAATTGCTTTT-TTGAAAAATTTTGAGGG-CTTTTTGATACATTTTGAAAGTTCAAGTACTCAAT
* *
29953352 TGAGTGAAGAAAAATAGGGGCC
64 TGAGTGAAAAAAAACAGGGGCC
* * *
29953374 TAATTGCTTTTTTTGAAGAAA-TTTGAGGGCTTTTTGATACATTTTAAAAATTCAAGTGCTCAAT
1 TAATTGC-TTTTTTGAA-AAATTTTGAGGGCTTTTTGATACATTTTGAAAGTTCAAGTACTCAAT
*
29953438 TAAGTGCAAAAAAAA
64 TGAGTG-AAAAAAAA
29953453 GAAACATAAA
Statistics
Matches: 146, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
86 35 0.24
87 52 0.36
88 59 0.40
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.37
Consensus pattern (85 bp):
TAATTGCTTTTTTGAAAAATTTTGAGGGCTTTTTGATACATTTTGAAAGTTCAAGTACTCAATTG
AGTGAAAAAAAACAGGGGCC
Found at i:29953749 original size:22 final size:23
Alignment explanation
Indices: 29953730--29953796 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 23
29953720 TCCTTTTTTG
29953730 CATTTTATATATTCCATTTTTAA
1 CATTTTATATATTCCATTTTTAA
* **
29953753 CATTTTATAATTTTTAATTTTTAA
1 CATTTTAT-ATATTCCATTTTTAA
** *
29953777 TTTTTTGTA-ATTCCATTTTT
1 CATTTTATATATTCCATTTTT
29953797 TTTAAAAAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
22 8 0.24
23 9 0.26
24 17 0.50
ACGTcount: A:0.27, C:0.09, G:0.01, T:0.63
Consensus pattern (23 bp):
CATTTTATATATTCCATTTTTAA
Found at i:29971832 original size:108 final size:109
Alignment explanation
Indices: 29971703--29971923 Score: 435
Period size: 108 Copynumber: 2.0 Consensus size: 109
29971693 CTAGGGTTTA
29971703 ATATTCCCAAAATAGATCTCAAAAGTGAATCTTAAAAATAAAGGGAAAGAAATCATTACTAATAA
1 ATATTCCCAAAATAGATCTCAAAAGTGAATCTTAAAAATAAAGGGAAAGAAATCATTACTAATAA
29971768 AGAGAAAATTGACTCATTAAATTGAGTAACAGAATAA-ATATAT
66 AGAGAAAATTGACTCATTAAATTGAGTAACAGAATAATATATAT
29971811 ATATTCCCAAAATAGATCTCAAAAGTGAATCTTAAAAATAAAGGGAAAGAAATCATTACTAATAA
1 ATATTCCCAAAATAGATCTCAAAAGTGAATCTTAAAAATAAAGGGAAAGAAATCATTACTAATAA
29971876 AGAGAAAATTGACTCATTAAATTGAGTAACAGAATAATATATAT
66 AGAGAAAATTGACTCATTAAATTGAGTAACAGAATAATATATAT
29971920 ATAT
1 ATAT
29971924 ATATATATAT
Statistics
Matches: 112, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
108 102 0.91
109 10 0.09
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.27
Consensus pattern (109 bp):
ATATTCCCAAAATAGATCTCAAAAGTGAATCTTAAAAATAAAGGGAAAGAAATCATTACTAATAA
AGAGAAAATTGACTCATTAAATTGAGTAACAGAATAATATATAT
Found at i:29973280 original size:22 final size:21
Alignment explanation
Indices: 29973242--29973285 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
29973232 AAGGAAATAG
29973242 AAGAGTGGAAAAGAAAAAGAAA
1 AAGAGTGGAAAAGAAAAA-AAA
*
29973264 AAGAGTTGGTAAA-AAAAAAAA
1 AAGAG-TGGAAAAGAAAAAAAA
29973285 A
1 A
29973286 GTAAAAGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 10 0.50
23 6 0.30
ACGTcount: A:0.68, C:0.00, G:0.23, T:0.09
Consensus pattern (21 bp):
AAGAGTGGAAAAGAAAAAAAA
Found at i:29975490 original size:43 final size:43
Alignment explanation
Indices: 29975429--29975544 Score: 171
Period size: 43 Copynumber: 2.7 Consensus size: 43
29975419 ACGGGTACAG
* *
29975429 ACACGGGCTGGGACACGGCCGTGTGTCTCTATTTCGAATGCCC
1 ACACGGCCTGGGACACGGCCGTGTGTCCCTATTTCGAATGCCC
*
29975472 ACACGGCCTGGGACACGGCCGTGTGTCCCTATTTTGAATGCCC
1 ACACGGCCTGGGACACGGCCGTGTGTCCCTATTTCGAATGCCC
* *
29975515 ACACGGCCTGAGACACAGG-CGTTTGTCCCT
1 ACACGGCCTGGGACAC-GGCCGTGTGTCCCT
29975545 TGTACCTTTG
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
43 65 0.97
44 2 0.03
ACGTcount: A:0.17, C:0.32, G:0.28, T:0.22
Consensus pattern (43 bp):
ACACGGCCTGGGACACGGCCGTGTGTCCCTATTTCGAATGCCC
Found at i:29978062 original size:4 final size:4
Alignment explanation
Indices: 29978047--29978076 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
29978037 TATGAAATGT
*
29978047 TTTA TCTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
29978077 ATTCCTTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:29979672 original size:24 final size:24
Alignment explanation
Indices: 29979656--29979708 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
29979646 TAATCAAAGT
29979656 TAAATATATTATGCTAATAAATGC
1 TAAATATATTATGCTAATAAATGC
* * *
29979680 TAAATATATTATACTCATAAATAC
1 TAAATATATTATGCTAATAAATGC
29979704 TAAAT
1 TAAAT
29979709 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (24 bp):
TAAATATATTATGCTAATAAATGC
Found at i:30000040 original size:31 final size:29
Alignment explanation
Indices: 29999994--30000067 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 29
29999984 GTTAATACAG
* * *
29999994 TAAACAAACCTTTAAATTACTATATTTTGTT
1 TAAATAAACCCTTAAATTA-TATATATTG-T
* *
30000025 TAAATAAACCCTTAAATTATTTCTATTGT
1 TAAATAAACCCTTAAATTATATATATTGT
30000054 TAAATAAACCCTTA
1 TAAATAAACCCTTA
30000068 TTTTATAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 15 0.39
30 6 0.16
31 17 0.45
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.42
Consensus pattern (29 bp):
TAAATAAACCCTTAAATTATATATATTGT
Found at i:30002083 original size:18 final size:19
Alignment explanation
Indices: 30002062--30002104 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
30002052 TGTTTGAAAC
30002062 ATTTTTAACATTAT-TTTT
1 ATTTTTAACATTATGTTTT
*
30002080 ATTTTTTACATTATGTTTT
1 ATTTTTAACATTATGTTTT
30002099 -TTTTTA
1 ATTTTTA
30002105 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (19 bp):
ATTTTTAACATTATGTTTT
Found at i:30004491 original size:18 final size:19
Alignment explanation
Indices: 30004470--30004512 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
30004460 TGTTTGAAAC
30004470 ATTTTTAACATTAT-TTTT
1 ATTTTTAACATTATGTTTT
*
30004488 ATTTTTTACATTATGTTTT
1 ATTTTTAACATTATGTTTT
30004507 -TTTTTA
1 ATTTTTA
30004513 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (19 bp):
ATTTTTAACATTATGTTTT
Found at i:30005424 original size:13 final size:14
Alignment explanation
Indices: 30005406--30005437 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
30005396 CAAATATATA
30005406 ATATTTT-AAAAAT
1 ATATTTTAAAAAAT
30005419 ATATTTTAAAAAAT
1 ATATTTTAAAAAAT
30005433 ATATT
1 ATATT
30005438 ACATAAAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATTTTAAAAAAT
Found at i:30005745 original size:358 final size:359
Alignment explanation
Indices: 30005088--30005805 Score: 1420
Period size: 358 Copynumber: 2.0 Consensus size: 359
30005078 TGAGGTGGGT
30005088 CGGGCGAGCCACTCTATTGTATTATAAGGAAGAAAATTAAAATAGATTAAATTGTGATGATCCCA
1 CGGGCGAGCCACTCTATTGTATTATAAGGAAGAAAATTAAAATAGATTAAATTGTGATGATCCCA
30005153 ATTCCTTCTGTTTAGACTCATTGACAGGCGACAACAATGCCATCACTCAATTTGCATTTGACAAT
66 ATTCCTTCTGTTTAGACTCATTGACAGGCGACAACAATGCCATCACTCAATTTGCATTTGACAAT
30005218 TCTTCGTACGATTACATTGACAGGTCATGGGTTTATAACTCAAATGCAAGATCCGAAATAGCTAT
131 TCTTCGTACGATTACATTGACAGGTCATGGGTTTATAACTCAAATGCAAGATCCGAAATAGCTAT
30005283 AAGGAAATATTCAAATGATGGAATTGCATTTTATAAATAAAGTATTAGAAACTTGATTAAACTCA
196 AAGGAAATATTCAAATGATGGAATTGCATTTTATAAATAAAGTATTAGAAACTTGATTAAACTCA
30005348 ATCTCTTATCTTTTTTATCTTTATTATTTAAAAACAATCCGAAACTTTCAAATATATAATATTTT
261 ATCTCTTATCTTTTTTATCTTTATTATTTAAAAACAATCCGAAACTTTCAAATATATAATATTTT
30005413 AAAAATATATTTTAAAAAATAT-ATTACATAAAA
326 AAAAATATATTTTAAAAAATATAATTACATAAAA
30005446 CGGGCGAGCCACTCTATTGTATTATAAGGAAGAAAATTAAAATAGATTAAATTGTGATGATCCCA
1 CGGGCGAGCCACTCTATTGTATTATAAGGAAGAAAATTAAAATAGATTAAATTGTGATGATCCCA
30005511 ATTCCTTCTGTTTAGACTCATTGACAGGCGACAACAATGCCATCACTCAATTTGCATTTGACAAT
66 ATTCCTTCTGTTTAGACTCATTGACAGGCGACAACAATGCCATCACTCAATTTGCATTTGACAAT
30005576 TCTTCGTACGATTACATTGACAGGTCATGGGTTTATAACTCAAATGCAAGATCCGAAATAGCTAT
131 TCTTCGTACGATTACATTGACAGGTCATGGGTTTATAACTCAAATGCAAGATCCGAAATAGCTAT
30005641 AAGGAAATATTCAAATGATGGAATTGCATTTTATAAATAAAGTATTAGAAACTTGATTAAACTCA
196 AAGGAAATATTCAAATGATGGAATTGCATTTTATAAATAAAGTATTAGAAACTTGATTAAACTCA
30005706 ATCTCTTATCTTTTTTATCTTTATTATTTAAAAACAATCCGAAACTTTCAAATATATAATATTTT
261 ATCTCTTATCTTTTTTATCTTTATTATTTAAAAACAATCCGAAACTTTCAAATATATAATATTTT
30005771 AAAAATATATTTTAAAAAATATAAATTACATAAAA
326 AAAAATATATTTTAAAAAATAT-AATTACATAAAA
30005806 ATATAGTCAC
Statistics
Matches: 358, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
358 347 0.97
360 11 0.03
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.34
Consensus pattern (359 bp):
CGGGCGAGCCACTCTATTGTATTATAAGGAAGAAAATTAAAATAGATTAAATTGTGATGATCCCA
ATTCCTTCTGTTTAGACTCATTGACAGGCGACAACAATGCCATCACTCAATTTGCATTTGACAAT
TCTTCGTACGATTACATTGACAGGTCATGGGTTTATAACTCAAATGCAAGATCCGAAATAGCTAT
AAGGAAATATTCAAATGATGGAATTGCATTTTATAAATAAAGTATTAGAAACTTGATTAAACTCA
ATCTCTTATCTTTTTTATCTTTATTATTTAAAAACAATCCGAAACTTTCAAATATATAATATTTT
AAAAATATATTTTAAAAAATATAATTACATAAAA
Found at i:30005793 original size:14 final size:13
Alignment explanation
Indices: 30005764--30005792 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30005754 CAAATATATA
30005764 ATATTTTAAAAAT
1 ATATTTTAAAAAT
30005777 ATATTTTAAAAA-
1 ATATTTTAAAAAT
30005789 ATAT
1 ATAT
30005793 AAATTACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
ATATTTTAAAAAT
Found at i:30007126 original size:17 final size:19
Alignment explanation
Indices: 30007093--30007127 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
30007083 ATTGTTTGGA
30007093 TATTGTATAACTTTTGTTT
1 TATTGTATAACTTTTGTTT
30007112 TATTGT-TAA-TTTTGTT
1 TATTGTATAACTTTTGTT
30007128 ACCATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.20, C:0.03, G:0.11, T:0.66
Consensus pattern (19 bp):
TATTGTATAACTTTTGTTT
Found at i:30014718 original size:2 final size:2
Alignment explanation
Indices: 30014707--30014735 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
30014697 CCACACTCAC
30014707 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30014736 AGAACCCATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:30019900 original size:17 final size:17
Alignment explanation
Indices: 30019878--30019912 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30019868 CATACAAATT
30019878 AATAAA-AATATTTTAAA
1 AATAAACAA-ATTTTAAA
30019895 AATAAACAAATTTTAAA
1 AATAAACAAATTTTAAA
30019912 A
1 A
30019913 TTTTCATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AATAAACAAATTTTAAA
Found at i:30028024 original size:58 final size:58
Alignment explanation
Indices: 30027950--30028068 Score: 211
Period size: 58 Copynumber: 2.1 Consensus size: 58
30027940 TGAATATGCT
* *
30027950 ACTGGCTTAGGAACAAGATGGCTAGCCACTATGTAAAGACGAATCTTTCTTTCTTTCG
1 ACTGGCTTAGGAACAAGATGACTAGCCACTATGTAAAGACGAATCTTTCTCTCTTTCG
*
30028008 ACTGGCTTAGGAACAAGATGACTAGTCACTATGTAAAGACGAATCTTTCTCTCTTTCG
1 ACTGGCTTAGGAACAAGATGACTAGCCACTATGTAAAGACGAATCTTTCTCTCTTTCG
30028066 ACT
1 ACT
30028069 AAAAAGAAAG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (58 bp):
ACTGGCTTAGGAACAAGATGACTAGCCACTATGTAAAGACGAATCTTTCTCTCTTTCG
Found at i:30029530 original size:11 final size:13
Alignment explanation
Indices: 30029514--30029547 Score: 54
Period size: 11 Copynumber: 2.8 Consensus size: 13
30029504 AATTTTACGG
30029514 AAAAATTTCG-T-
1 AAAAATTTCGTTC
30029525 AAAAATTTCGTTC
1 AAAAATTTCGTTC
30029538 AAAAATTTCG
1 AAAAATTTCG
30029548 ACGTTTGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 1 0.05
13 10 0.48
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (13 bp):
AAAAATTTCGTTC
Found at i:30030636 original size:33 final size:33
Alignment explanation
Indices: 30030589--30030929 Score: 166
Period size: 33 Copynumber: 9.8 Consensus size: 33
30030579 AATATGAAGG
30030589 GGTTGCTAAGTGCTGATTCCCCGATTTATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTTATTGGT
* *
30030622 GGTTACTAAGTGCTGATTCCACCGTATCTTTAAATATAAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TTT--AT-T---GGT
* *
30030665 GGTTGTTAAGTGCTGATTCCCCCA---A--GG-
1 GGTTGCTAAGTGCTGATTCCCCGATTTATTGGT
*
30030692 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTTATTGGT
*
30030725 GGTTGCTAAGTGCTGATTCCACCGTATCTCTAAATGTGAAGCG
1 GGTTGCTAAGTGCTGATTCC-CCG-AT-T-T--AT-TG--G-T
* *
30030768 GGTTGCTAAGTGATGATTCCCCCA---A--GG-
1 GGTTGCTAAGTGCTGATTCCCCGATTTATTGGT
* *
30030795 GGTTGCTAAGTGCTGATTCCCCGAATGATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTTATTGGT
* *
30030828 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CC-GA--TTT--AT-TG---GT
* * *
30030871 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTTATTGGT
* *
30030904 AGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
30030930 AACGGTTAAC
Statistics
Matches: 240, Mismatches: 25, Indels: 85
0.69 0.07 0.24
Matches are distributed among these distances:
27 44 0.18
28 2 0.01
29 1 0.00
30 2 0.01
31 1 0.00
32 4 0.02
33 78 0.32
34 14 0.06
35 4 0.02
36 3 0.01
37 5 0.02
39 7 0.03
40 5 0.02
41 3 0.01
42 7 0.03
43 60 0.25
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTTATTGGT
Found at i:30030771 original size:103 final size:102
Alignment explanation
Indices: 30030585--30030892 Score: 490
Period size: 103 Copynumber: 3.0 Consensus size: 102
30030575 ATTGAATATG
* *
30030585 AAGGGGTTGCTAAGTGCTGATTCCCCGATTTATTGGTGGTTACTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
* * *
30030650 TTTAAATATAAAGGGGGTTGTTAAGTGCTGATTCCCCC
66 TTTAAATGTGAA-GGGGTTGCTAAGTGCTGATTCCCCC
30030688 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
* *
30030753 TCTAAATGTGAAGCGGGTTGCTAAGTGATGATTCCCCC
66 TTTAAATGTGAAG-GGGTTGCTAAGTGCTGATTCCCCC
* * *
30030791 AAGGGGTTGCTAAGTGCTGATTCCCCGAATGATTGGTGGTTGCTAAGTGCTGATTCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
*
30030856 TTTGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 TTTAAATGTG-AAGGGGTTGCTAAGTGCTGATTCCCC
30030893 GAATCACTGG
Statistics
Matches: 190, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
102 1 0.01
103 186 0.98
104 3 0.02
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.32
Consensus pattern (102 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTTAAATGTGAAGGGGTTGCTAAGTGCTGATTCCCCC
Found at i:30031922 original size:2 final size:2
Alignment explanation
Indices: 30031915--30031942 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30031905 GCGTAAACTA
30031915 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30031943 GTTTCAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30037133 original size:14 final size:15
Alignment explanation
Indices: 30037101--30037131 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30037091 ATATTTTTTT
30037101 AATATTTAAACAAAA
1 AATATTTAAACAAAA
*
30037116 AATATTTAAAGAAAA
1 AATATTTAAACAAAA
30037131 A
1 A
30037132 TAAAATAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (15 bp):
AATATTTAAACAAAA
Found at i:30038375 original size:12 final size:12
Alignment explanation
Indices: 30038344--30038375 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
30038334 TTTATTTTTT
30038344 AAAA-AATTTAA
1 AAAATAATTTAA
30038355 AAAAT-ATTTAA
1 AAAATAATTTAA
30038366 AAAATAATTT
1 AAAATAATTT
30038376 TTTTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAAATAATTTAA
Found at i:30045062 original size:74 final size:74
Alignment explanation
Indices: 30044975--30045119 Score: 274
Period size: 74 Copynumber: 2.0 Consensus size: 74
30044965 TATATAAATA
30044975 TTAATATTTATTAAAGAG-AAATATTTGGTAAAGTGTCCTATAAAATTATAGTAAAATACTAAAA
1 TTAATATTTATTAAAGAGAAAATATTTGGT-AAGTGTCCTATAAAATTATAGTAAAATACTAAAA
30045039 AAGAAGATTT
65 AAGAAGATTT
30045049 TTAATATTTATTAAAGAGAAAATATTTGGTAAGTGTCCTATAAAATTATAGTAAAATACTAAAAA
1 TTAATATTTATTAAAGAGAAAATATTTGGTAAGTGTCCTATAAAATTATAGTAAAATACTAAAAA
30045114 AGAAGA
66 AGAAGA
30045120 GATGTGGCAA
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
74 59 0.84
75 11 0.16
ACGTcount: A:0.50, C:0.04, G:0.12, T:0.34
Consensus pattern (74 bp):
TTAATATTTATTAAAGAGAAAATATTTGGTAAGTGTCCTATAAAATTATAGTAAAATACTAAAAA
AGAAGATTT
Found at i:30050754 original size:12 final size:12
Alignment explanation
Indices: 30050733--30050763 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
30050723 AATTGAAATG
*
30050733 AAAAATAAATTT
1 AAAAACAAATTT
30050745 AAAAACAAATTT
1 AAAAACAAATTT
30050757 AAAAACA
1 AAAAACA
30050764 TAAAAAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAACAAATTT
Found at i:30051050 original size:212 final size:211
Alignment explanation
Indices: 30050667--30051088 Score: 561
Period size: 212 Copynumber: 2.0 Consensus size: 211
30050657 TACATAGAGG
* * ** *
30050667 GGCTGGAAGGGAAATTTTCCCTTCTCCTCTAAAACGGCGCCGTTCCAGTAGGATTAAATTGAAAT
1 GGCTGGAAGGGAAATTTTCCCTTATCCTCTAAAACGACGCCGTTCCAAAAGGACTAAATTGAAAT
*
30050732 GAAAAATAAATTTAAAAACAAATTTAAAAACATAAAAAAACCTAATTGAAAATTCATTAAAAGGC
66 GAAAAATAAATTTAAAAACAAATTTAAAAACATAAAAAAACCTAATTGAAAAATCATTAAAAGGC
* *
30050797 GGAGGGGTCAAAAATGCAATTTGCCCCTCCGCATGAAAAACACGCGGATCCCTGGGTCCGGGTCG
131 GGAGGGGTCAAAAACGCAATTTGCCCCTCCGAATGAAAAACACGCGGAT-CCTGGGTCCGGGTCG
30050862 GGTCGACGCGCGGATCA
195 GGTCGACGCGCGGATCA
*
30050879 GGCTGGAAGGGAAATTTTCCCTTATCCTCT-AAACGACGTCGTTCCCAAAAGGACTAAATTGAAA
1 GGCTGGAAGGGAAATTTTCCCTTATCCTCTAAAACGACGCCGTT-CCAAAAGGACTAAATTGAAA
* * * * *
30050943 TGTAAGATAAA-TTAAAGAGCGAATTTTAAAAA-ATGAAAAAAACCTAATT-ATAAAGAT-ATTT
65 TGAAAAATAAATTTAAA-AAC-AAATTTAAAAACAT-AAAAAAACCTAATTGA-AAA-ATCATTA
* * *
30051004 AAAGGCGGAGGGG-CTAAAAGCGCAATTTTCCCCTCCGAAT-AAAAACACGCGGATCTTGGGTCC
125 AAAGGCGGAGGGGTC-AAAAACGCAATTTGCCCCTCCGAATGAAAAACACGCGGATCCTGGGTCC
*
30051067 GGGTCGTGTCGACGCGCGGATC
189 GGGTCGGGTCGACGCGCGGATC
30051089 CTCCCCTCAA
Statistics
Matches: 185, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
211 45 0.24
212 75 0.41
213 64 0.35
214 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (211 bp):
GGCTGGAAGGGAAATTTTCCCTTATCCTCTAAAACGACGCCGTTCCAAAAGGACTAAATTGAAAT
GAAAAATAAATTTAAAAACAAATTTAAAAACATAAAAAAACCTAATTGAAAAATCATTAAAAGGC
GGAGGGGTCAAAAACGCAATTTGCCCCTCCGAATGAAAAACACGCGGATCCTGGGTCCGGGTCGG
GTCGACGCGCGGATCA
Found at i:30052418 original size:45 final size:44
Alignment explanation
Indices: 30052141--30052431 Score: 159
Period size: 44 Copynumber: 6.6 Consensus size: 44
30052131 TCTCGATCCA
* * * * * *
30052141 CTCCACTACAACGTCGGGGAGATAAGATTGGTATGTTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGCTTTGCTTAGTCTG
* * * *
30052185 -TCCCACAGTAATTTCAAGGG-GATAAGACTTGCTTT-CTTGAGTCTA
1 CT-CCACTGCAACTTC-AGGGAGATAAGA-TTGCTTTGCTT-AGTCTG
* ** ** * *
30052230 CTCTACTGCAACTTCAGGGAGATTAAGA-CCCGATG-TGA-TCTA
1 CTCCACTGCAACTTCAGGGAGA-TAAGATTGCTTTGCTTAGTCTG
* * * * * *
30052272 CTCTACTGCAACTTCAGAGAGATAAGA-T-CTGTGGTTATAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGCT-TTGCT-TAGTCTG
* * ** *
30052316 CTCCACTGCAACTTTAGGGAGATAGGATTG-TCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGCTTTGC-TTAGTCTG
* *
30052360 TTCCGCTGCAACTTCAGGGAGATAAGATTTGCTTTGCTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGCTTTGCTTAGTCTG
*
30052405 CTCCACTGCAACTTCAAGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
30052432 CTAGATACGA
Statistics
Matches: 186, Mismatches: 44, Indels: 33
0.71 0.17 0.13
Matches are distributed among these distances:
40 1 0.01
41 6 0.03
42 26 0.14
43 3 0.02
44 80 0.43
45 61 0.33
46 9 0.05
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGCTTTGCTTAGTCTG
Found at i:30062402 original size:22 final size:20
Alignment explanation
Indices: 30062352--30062403 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 20
30062342 GTAAAGTTTT
*
30062352 ATTTTTATTTTTATTTATTTA
1 ATTTTTA-TTTTATTAATTTA
*
30062373 TTTATTTATTTTACTTAATTTAA
1 ATT-TTTATTTTA-TTAATTT-A
30062396 ATTTTTAT
1 ATTTTTAT
30062404 GTAAATATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 7 0.28
22 15 0.60
23 3 0.12
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTTATTTTATTAATTTA
Found at i:30069852 original size:21 final size:21
Alignment explanation
Indices: 30069828--30069867 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30069818 ATAGACAGAA
30069828 AGGAAAATAAAAAGAAAAGGC
1 AGGAAAATAAAAAGAAAAGGC
* * *
30069849 AGGAGAGTGAAAAGAAAAG
1 AGGAAAATAAAAAGAAAAG
30069868 AAAAAGGAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.30, T:0.05
Consensus pattern (21 bp):
AGGAAAATAAAAAGAAAAGGC
Found at i:30070686 original size:5 final size:5
Alignment explanation
Indices: 30070678--30070719 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
30070668 AGATTTGATT
* * *
30070678 GTAGG GTAGG GTAGG GTAGG GTAGG GTTGG GTTGG GTTGG GT
1 GTAGG GTAGG GTAGG GTAGG GTAGG GTAGG GTAGG GTAGG GT
30070720 CTGAAATGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.12, C:0.00, G:0.60, T:0.29
Consensus pattern (5 bp):
GTAGG
Found at i:30071918 original size:2 final size:2
Alignment explanation
Indices: 30071911--30071941 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
30071901 TGACATTCTT
30071911 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30071942 GCAANNNNNN
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30081355 original size:14 final size:15
Alignment explanation
Indices: 30081316--30081352 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
30081306 AATCATATTA
*
30081316 ATTATTATTAAATAT
1 ATTATAATTAAATAT
30081331 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
30081345 A-TATAATT
1 ATTATAATT
30081353 TAAGAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.33
14 3 0.14
15 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:30085334 original size:33 final size:33
Alignment explanation
Indices: 30085287--30085354 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
30085277 GCGTGTGGAG
* *
30085287 AACTATGAGAAACAGAGGGAGCAAATCGGCAGA
1 AACTATGAGAAACAGAGGCAGCAAATCGACAGA
*
30085320 AACTGTGAGAAACAGAGGCAGCAAATCGACAGA
1 AACTATGAGAAACAGAGGCAGCAAATCGACAGA
30085353 AA
1 AA
30085355 AGAAAAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.47, C:0.16, G:0.28, T:0.09
Consensus pattern (33 bp):
AACTATGAGAAACAGAGGCAGCAAATCGACAGA
Found at i:30085364 original size:33 final size:33
Alignment explanation
Indices: 30085294--30085364 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
30085284 GAGAACTATG
* * * **
30085294 AGAAACAGAGGGAGCAAATCGGCAGAAACTGTG
1 AGAAACAGAGGCAGCAAATCGACAGAAACAGAA
30085327 AGAAACAGAGGCAGCAAATCGACAGAAA-AGAAA
1 AGAAACAGAGGCAGCAAATCGACAGAAACAG-AA
30085360 AGAAA
1 AGAAA
30085365 AGAAACAGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 1 0.03
33 31 0.97
ACGTcount: A:0.52, C:0.14, G:0.28, T:0.06
Consensus pattern (33 bp):
AGAAACAGAGGCAGCAAATCGACAGAAACAGAA
Found at i:30100478 original size:19 final size:19
Alignment explanation
Indices: 30100454--30100506 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
30100444 GAAACTCTGT
*
30100454 TGTTTTGTTGTTTTTTCAC
1 TGTTTTGTTGTTATTTCAC
* * *
30100473 TGTTTTGCTATCATTTCAC
1 TGTTTTGTTGTTATTTCAC
*
30100492 TATTTTGTTGTTATT
1 TGTTTTGTTGTTATT
30100507 ATTTGGATAT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.11, C:0.11, G:0.13, T:0.64
Consensus pattern (19 bp):
TGTTTTGTTGTTATTTCAC
Found at i:30101731 original size:46 final size:46
Alignment explanation
Indices: 30101664--30101753 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
30101654 CTTTCTTGGC
30101664 TTCATAGTCTGCTCACCTTTTCACCCTTCTTTACTCTCAATTATGT
1 TTCATAGTCTGCTCACCTTTTCACCCTTCTTTACTCTCAATTATGT
*
30101710 TTCATGGTCTGCTCACCTTTTCACCCTTCTTTACTCTCAATTAT
1 TTCATAGTCTGCTCACCTTTTCACCCTTCTTTACTCTCAATTAT
30101754 CTCTCTCTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.17, C:0.31, G:0.07, T:0.46
Consensus pattern (46 bp):
TTCATAGTCTGCTCACCTTTTCACCCTTCTTTACTCTCAATTATGT
Found at i:30106815 original size:23 final size:24
Alignment explanation
Indices: 30106775--30106835 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 24
30106765 TATATATAAA
* * *
30106775 CAAAAATAAAACACCAAT-ATATG
1 CAAAAAGAAAAAAACAATGATATG
* * *
30106798 CTAAAAGCAAAAAACAATGGTATG
1 CAAAAAGAAAAAAACAATGATATG
30106822 CAAAAAGAAAAAAA
1 CAAAAAGAAAAAAA
30106836 ATGTTATTAA
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 13 0.45
24 16 0.55
ACGTcount: A:0.64, C:0.13, G:0.10, T:0.13
Consensus pattern (24 bp):
CAAAAAGAAAAAAACAATGATATG
Found at i:30106838 original size:22 final size:24
Alignment explanation
Indices: 30106794--30106838 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
30106784 AACACCAATA
*
30106794 TATGCTAAAAGCAAAAAACAATGG
1 TATGCAAAAAGCAAAAAACAATGG
30106818 TATGCAAAAAG-AAAAAA-AATG
1 TATGCAAAAAGCAAAAAACAATG
30106839 TTATTAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 6 0.30
24 10 0.50
ACGTcount: A:0.60, C:0.09, G:0.16, T:0.16
Consensus pattern (24 bp):
TATGCAAAAAGCAAAAAACAATGG
Found at i:30112312 original size:29 final size:30
Alignment explanation
Indices: 30112257--30112321 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 30
30112247 TGATCCTAGA
* *
30112257 TTAATATATAAGAGTGAGATTGCAACT-TG
1 TTAATGTATAAGAGTAAGATTGCAACTCTG
* * *
30112286 TTAATGTATAGGAGTAAGGTTGTAACTCTG
1 TTAATGTATAAGAGTAAGATTGCAACTCTG
*
30112316 TGAATG
1 TTAATG
30112322 GGTTAAACTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (30 bp):
TTAATGTATAAGAGTAAGATTGCAACTCTG
Found at i:30128936 original size:29 final size:30
Alignment explanation
Indices: 30128875--30128937 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
30128865 AATAAAGATA
* *
30128875 AAAAATGTATATGGGTATATATTTACAAAAT
1 AAAAATGTATA-GAGTATATATATACAAAAT
* *
30128906 AAAAATGTATA-AGTATATATATAGAATAT
1 AAAAATGTATAGAGTATATATATACAAAAT
30128935 AAA
1 AAA
30128938 GTATATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 17 0.61
31 11 0.39
ACGTcount: A:0.54, C:0.02, G:0.11, T:0.33
Consensus pattern (30 bp):
AAAAATGTATAGAGTATATATATACAAAAT
Found at i:30130260 original size:132 final size:132
Alignment explanation
Indices: 30130023--30130286 Score: 519
Period size: 132 Copynumber: 2.0 Consensus size: 132
30130013 GCGGCTGGAG
*
30130023 ACTGCTGGAGGCACATGCAGCTAGGGTTGCTGCTTCTGAACATTTGCTTTGGGCTATGCTGAAAA
1 ACTGCTGGAGGCACATGCAACTAGGGTTGCTGCTTCTGAACATTTGCTTTGGGCTATGCTGAAAA
30130088 CGGGCTAGGGTAGAACCTAGATTTTGGGCCAGCTAATGATATTGGGCTTGTAAAAATGGACTCTT
66 CGGGCTAGGGTAGAACCTAGATTTTGGGCCAGCTAATGATATTGGGCTTGTAAAAATGGACTCTT
30130153 TA
131 TA
30130155 ACTGCTGGAGGCACATGCAACTAGGGTTGCTGCTTCTGAACATTTGCTTTGGGCTATGCTGAAAA
1 ACTGCTGGAGGCACATGCAACTAGGGTTGCTGCTTCTGAACATTTGCTTTGGGCTATGCTGAAAA
30130220 CGGGCTAGGGTAGAACCTAGATTTTGGGCCAGCTAATGATATTGGGCTTGTAAAAATGGACTCTT
66 CGGGCTAGGGTAGAACCTAGATTTTGGGCCAGCTAATGATATTGGGCTTGTAAAAATGGACTCTT
30130285 TA
131 TA
30130287 TTTGGGTTTT
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 131 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (132 bp):
ACTGCTGGAGGCACATGCAACTAGGGTTGCTGCTTCTGAACATTTGCTTTGGGCTATGCTGAAAA
CGGGCTAGGGTAGAACCTAGATTTTGGGCCAGCTAATGATATTGGGCTTGTAAAAATGGACTCTT
TA
Found at i:30132752 original size:22 final size:22
Alignment explanation
Indices: 30132709--30132753 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
30132699 AGCTGAAATG
* ***
30132709 ATACGATAAATTTATTTTAAAA
1 ATACAATAAATTTATAAAAAAA
30132731 ATACAATAAATTTATAAAAAAA
1 ATACAATAAATTTATAAAAAAA
30132753 A
1 A
30132754 ATACTTTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (22 bp):
ATACAATAAATTTATAAAAAAA
Found at i:30140672 original size:6 final size:6
Alignment explanation
Indices: 30140646--30140684 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
30140636 ACAGCACCTA
*
30140646 AACAGT AATCAGT AACGGT AACAGT AATCAGT AACAGT A
1 AACAGT AA-CAGT AACAGT AACAGT AA-CAGT AACAGT A
30140685 TTCAACACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 17 0.59
7 12 0.41
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.21
Consensus pattern (6 bp):
AACAGT
Found at i:30140679 original size:13 final size:12
Alignment explanation
Indices: 30140646--30140684 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
30140636 ACAGCACCTA
30140646 AACAGTAATCAGT
1 AACAGTAA-CAGT
*
30140659 AACGGTAACAGT
1 AACAGTAACAGT
30140671 AATCAGTAACAGT
1 AA-CAGTAACAGT
30140684 A
1 A
30140685 TTCAACACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.21
Consensus pattern (12 bp):
AACAGTAACAGT
Found at i:30140738 original size:45 final size:45
Alignment explanation
Indices: 30140663--30140764 Score: 143
Period size: 45 Copynumber: 2.2 Consensus size: 45
30140653 ATCAGTAACG
* *
30140663 GTAACAGTAATCAGTAACAGTATTCAACACACAAAGTG-CTGAATCT
1 GTAACAGTAA-CGGTAACAGTATTCAACACACAAAGTGTC-GAATCA
* *
30140709 GTAATAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATCA
1 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCA
30140754 GTAACAGTAAC
1 GTAACAGTAAC
30140765 AATAGTCGAC
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
45 40 0.80
46 10 0.20
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.23
Consensus pattern (45 bp):
GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCA
Found at i:30141028 original size:40 final size:40
Alignment explanation
Indices: 30140978--30141054 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
30140968 TTCATTAATC
* *
30140978 TCACAGTTCAATGCAGTACACATAACAATATTCAGTAACT
1 TCACAATTCAATGCAGTACACAAAACAATATTCAGTAACT
* *
30141018 TCACAATTCAATTCAGTACTCAAAACAATATTCAGTA
1 TCACAATTCAATGCAGTACACAAAACAATATTCAGTA
30141055 TTCCATAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.29
Consensus pattern (40 bp):
TCACAATTCAATGCAGTACACAAAACAATATTCAGTAACT
Found at i:30141819 original size:18 final size:19
Alignment explanation
Indices: 30141796--30141831 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
30141786 ATTATTTATC
30141796 TAATAAATATCT-TTAAAA
1 TAATAAATATCTATTAAAA
30141814 TAATAAATATCTATTAAA
1 TAATAAATATCTATTAAA
30141832 TATACAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
TAATAAATATCTATTAAAA
Found at i:30141840 original size:19 final size:18
Alignment explanation
Indices: 30141800--30141841 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
30141790 TTTATCTAAT
*
30141800 AAATATCTTTAAAATAAT
1 AAATATCTTTAAAATAAC
30141818 AAATATCTATT-AAATATAC
1 AAATATCT-TTAAAATA-AC
30141837 AAATA
1 AAATA
30141842 AAAATATTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATATCTTTAAAATAAC
Found at i:30146788 original size:32 final size:33
Alignment explanation
Indices: 30146730--30146797 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 33
30146720 TATAAAAAAT
*
30146730 ATTAATTTTTTTAAAAATATATAAAAATGCCAA
1 ATTAATTTTTTTAAAAATATATAAAAATGACAA
30146763 ATTATATTTTTTTAAAAATA-A-AAAAATGACAA
1 ATTA-ATTTTTTTAAAAATATATAAAAATGACAA
30146795 ATT
1 ATT
30146798 TGAGAACTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 5 0.15
34 15 0.45
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (33 bp):
ATTAATTTTTTTAAAAATATATAAAAATGACAA
Found at i:30151796 original size:116 final size:110
Alignment explanation
Indices: 30151648--30152076 Score: 395
Period size: 112 Copynumber: 3.8 Consensus size: 110
30151638 ACCCAACAGT
30151648 AAAAAATTTTACTTTTTTTTTCGTGTTAAAATTAGGTATCAGTATACAAAAAAAAGTAAAAAAAA
1 AAAAAATTTTAC-TTTTTTTTCGTGTTAAAATTAGGTATCAGTATAC-AAAAAAAGTAAAAAAAA
* *
30151713 AATTTTTTTTTGGGTGCTGGCCTGTTAATGGCCGACACCAAACAATAATAA
64 AA--TTTTTTTGGGTGCAGGCCTGTCAATGGCCGACACCAAACAAT-A-AA
* *
30151764 AAAAAATTTTTACTTTTTTTTCGTGTTCAAATTAGGTATCAGTATACGAAAAAAGTAAAAAAAAA
1 AAAAAA-TTTTACTTTTTTTTCGTGTTAAAATTAGGTATCAGTATACAAAAAAAGTAAAAAAAAA
* * *
30151829 ATTTTTTTGGGTGCAGGCCTGTCAATGGCCGGCACCCAACAGTAAA
65 ATTTTTTTGGGTGCAGGCCTGTCAATGGCCGACACCAAACAATAAA
* * * * * * * * *
30151875 AAAAAA-TTTACTTTTTTTTCGTGTCAGAGTCAGATATAAATATATGAAAAAAATTAAAAAAAAA
1 AAAAAATTTTACTTTTTTTTCGTGTTAAAATTAGGTATCAGTATA-CAAAAAAAGTAAAAAAAAA
** * * *
30151939 A--AATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAA
65 ATTTTTTTGGGTGCAGGCCTGTCAATGGCCGACA-CCA-AACAA--TAAA
* * * * * ** * * *
30151987 AAAAAA-ATT-CTTTTTTTTTCGTGTCAGAGTCAAATATAAATATACGAAAAAAATTAAAAAAAA
1 AAAAAATTTTAC-TTTTTTTTCGTGTTAAAATTAGGTATCAGTATAC-AAAAAAAGTAAAAAAAA
*
30152050 AA--TTTTTGGGTGCTGGCCTGTCAATGG
64 AATTTTTTTGGGTGCAGGCCTGTCAATGG
30152077 TCGGCACCCA
Statistics
Matches: 276, Mismatches: 29, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
108 28 0.10
109 32 0.12
110 20 0.07
111 9 0.03
112 87 0.32
113 37 0.13
115 18 0.07
116 39 0.14
117 6 0.02
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (110 bp):
AAAAAATTTTACTTTTTTTTCGTGTTAAAATTAGGTATCAGTATACAAAAAAAGTAAAAAAAAAA
TTTTTTTGGGTGCAGGCCTGTCAATGGCCGACACCAAACAATAAA
Found at i:30152400 original size:110 final size:110
Alignment explanation
Indices: 30151720--30152649 Score: 1087
Period size: 110 Copynumber: 8.5 Consensus size: 110
30151710 AAAAATTTTT
* * * * *
30151720 TTTTGGGTGCTGGCCTGTTAATGGCCGACA-CCA-AAC-AATAATAAAAAAAATTTTTACTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAAT-TTAAAAAAAA--ATT-CTTTTT
* * * * * *
30151782 TTTCGTGTTCA-AATTAGGTATCAGTATACG-AAAAAAGTAAAAAAAAAA
62 TTTCGTG-TCAGAGTCAGATATAAATATACGAAAAAAATTAAAAAAAAAA
* *
30151830 TTTTTTTGGGTGCAGGCCTGTCAATGGCCGGCACCCA--AC--A-GTAAAAAAAAATTTACTTTT
1 ---TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAAA-TT-CTTTT
*
30151890 TTTTCGTGTCAGAGTCAGATATAAATATATGAAAAAAATTAAAAAAAAAAA
61 TTTTCGTGTCAGAGTCAGATATAAATATACGAAAAAAATT-AAAAAAAAAA
*
30151941 ATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC-AATTTAAAAAAAAAATTCTTTTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTT-AAAAAAAAATTC-TTTTTTT
*
30152005 TCGTGTCAGAGTCAAATATAAATATACGAAAAAAATTAAAAAAAAAA
64 TCGTGTCAGAGTCAGATATAAATATACGAAAAAAATTAAAAAAAAAA
* * * *
30152052 TTTTTGGGTGCTGGCCTGTCAATGGTCGGCACCCAGTGCAAATTTTTTAAAAAAATTTCTTTTTT
1 -TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAA--TTTAAAAAAAAATTCTTTTTT
*
30152117 TTTGTGTCAGAGTCAGATATAAATATACGAAAAAAATTAAAAAAAAAA
63 TTCGTGTCAGAGTCAGATATAAATATACGAAAAAAATTAAAAAAAAAA
* * *
30152165 TTTT-GGTTCTGGCCTGCCAATGGCCGGCACCCAGTAC-AATTTAAAAAAAATTTCTTTTTTTT-
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAAATTCTTTTTTTTC
* * **
30152227 TTGTCAGAGTCAAATATAAATATACG-AAAAAATT-TTAAAAAAA
66 GTGTCAGAGTCAGATATAAATATACGAAAAAAATTAAAAAAAAAA
*
30152270 TTTTGGGGTGCTGGCATGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAAATTCTTTTTTTT
1 TTTT-GGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAAATTCTTTTTTTT
* **
30152335 CGTGTCAAAGTCAGATATAAATATACGAAAAAAATTTTAAAAAAAA
65 CGTGTCAGAGTCAGATATAAATATACGAAAAAAATTAAAAAAAAAA
* * *
30152381 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACACAGTACAAATTTAAAAAAAAAATCTTTTTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAAATTCTTTTTTTTC
**
30152446 GTGTCAGAGTCAGATATAAATATACGAAAAAAATT-----AAATT
66 GTGTCAGAGTCAGATATAAATATACGAAAAAAATTAAAAAAAAAA
** *
30152486 TTTTTTGTGCTGGCCTGTCAATGGCCGGCACCTAGTACAAATTTAAAAAAAAA-TCTTTTTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAAATTC-TTTTTTTT
* * *****
30152550 CATCTCAGAGTCAGATATAAATATACGAAAAAAATTAGAAAATTTTT
65 CGTGTCAGAGTCAGATATAAATATACGAAAAAAATTA-AAAAAAAAA
* *
30152597 TTTTGGGTGCTGGCTTGTCAATGGCTGGCACCCAGTACAAA-TTAAAAAAAAAT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAAAT
30152650 AGGAATGAGG
Statistics
Matches: 725, Mismatches: 63, Indels: 60
0.85 0.07 0.07
Matches are distributed among these distances:
104 2 0.00
105 104 0.14
106 8 0.01
107 54 0.07
108 81 0.11
109 52 0.07
110 130 0.18
111 101 0.14
112 85 0.12
113 92 0.13
114 13 0.02
115 3 0.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (110 bp):
TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAAATTCTTTTTTTTC
GTGTCAGAGTCAGATATAAATATACGAAAAAAATTAAAAAAAAAA
Found at i:30152645 original size:111 final size:109
Alignment explanation
Indices: 30151719--30152648 Score: 1034
Period size: 111 Copynumber: 8.5 Consensus size: 109
30151709 AAAAAATTTT
* * * * ** *
30151719 TTTTTGGGTGCTGGCCTGTTAATGGCCGACA-CCA-AACAATAATAAAAAAAATTTTTACTTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAA-ATTAAAAAAAAAATCT--TTTTT
* * * * * * *
30151782 TTTCGTGTTCA-AATTAGGTATCAGTATACGAAAAAAGTAAAAAAAAAA
63 TTTCGTG-TCAGAGTCAGATATAAATATACGAAAAAAAT-TAAAAAAAA
* * *
30151830 TTTTTTTGGGTGCAGGCCTGTCAATGGCCGGCACCCA--AC--AGT-AAAAAAAAATTTACTTTT
1 --TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAAAATCT--TTTT
*
30151890 TTTTCGTGTCAGAGTCAGATATAAATATATGAAAAAAATTAAAAAAAAAA
62 TTTTCGTGTCAGAGTCAGATATAAATATACGAAAAAAATT--AAAAAAAA
** *
30151940 AATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAAATTCTTTTTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAAAA-TCTTTTTTTT
*
30152005 TCGTGTCAGAGTCAAATATAAATATACGAAAAAAATTAAAAAAAAAA
65 TCGTGTCAGAGTCAGATATAAATATACGAAAAAAATT--AAAAAAAA
* * * **
30152052 TTTTTGGGTGCTGGCCTGTCAATGGTCGGCACCCAGTGCAAATTTTTTAAAAAAATTTCTTTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAA---TTAAAAAAAAAATCTTTTTT
30152117 TTT-GTGTCAGAGTCAGATATAAATATACGAAAAAAATTAAAAAAAAA
63 TTTCGTGTCAGAGTCAGATATAAATATACGAAAAAAATT-AAAAAAAA
* * * * **
30152164 ATTTT-GGTTCTGGCCTGCCAATGGCCGGCACCCAGTACAATTTAAAAAAAATTTCTTTTTTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAAAATCTTTTTTTTT
* * *
30152228 --TGTCAGAGTCAAATATAAATATACGAAAAAATTTTAAAAAAA
66 CGTGTCAGAGTCAGATATAAATATACGAAAAAAATTAAAAAAAA
* * *
30152270 TTTTGGGGTGCTGGCATGTCAATGGCCGGCACCCAGTACAAATTTAAAAAAAAAT-TCTTTTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAAAATCT-TTTTTTT
*
30152334 TCGTGTCAAAGTCAGATATAAATATACGAAAAAAATTTTAAAAAAAA
65 TCGTGTCAGAGTCAGATATAAATATACGAAAAAAA--TTAAAAAAAA
*
30152381 -TTTTGGGTGCTGGCCTGTCAATGGCCGGCACACAGTACAAATTTAAAAAAAAAATCTTTTTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAA-TTAAAAAAAAAATCTTTTTTTT
*
30152445 T-GTGTCAGAGTCAGATATAAATATACGAAAAAAATT----AAAT
65 TCGTGTCAGAGTCAGATATAAATATACGAAAAAAATTAAAAAAAA
** * *
30152485 TTTTTTTGTGCTGGCCTGTCAATGGCCGGCACCTAGTACAAATTTAAAAAAAAATCTTTTTTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAAAATCTTTTTTTTT
* * ***
30152550 CATCTCAGAGTCAGATATAAATATACGAAAAAAATTAGAAAATTTT
66 CGTGTCAGAGTCAGATATAAATATACGAAAAAAATTA-AAAA-AAA
* *
30152596 TTTTTGGGTGCTGGCTTGTCAATGGCTGGCACCCAGTACAAATTAAAAAAAAA
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAAA
30152649 TAGGAATGAG
Statistics
Matches: 713, Mismatches: 75, Indels: 60
0.84 0.09 0.07
Matches are distributed among these distances:
104 25 0.04
105 70 0.10
106 11 0.02
107 82 0.12
108 59 0.08
109 73 0.10
110 83 0.12
111 108 0.15
112 104 0.15
113 73 0.10
114 16 0.02
115 9 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (109 bp):
TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAAAATCTTTTTTTTT
CGTGTCAGAGTCAGATATAAATATACGAAAAAAATTAAAAAAAA
Found at i:30156973 original size:212 final size:208
Alignment explanation
Indices: 30156589--30157367 Score: 1002
Period size: 212 Copynumber: 3.7 Consensus size: 208
30156579 AAAAAGAATT
* * **** * *
30156589 TTTTTTTTAAATTTGTACTGGATGCCGGCCATTTACAGGCCAGCACCAAAAAAAAATTTAAAATT
1 TTTTTTTTAAA-TTGTACTGGGTGCCGGCCATTGACAGGCCAGCACC-AAAATTTTTTTTAATTT
*
30156654 TTTTCGTATATTTATATCTGACTCTGACACTAAAAAAAAAGAAATTTTTTTTAAAATTGTACTGG
64 TTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAAAGAAATTTTTTTTAAAATTGTACTGG
30156719 GTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTAAAATTTTTTTCGTATATTTATATCT
129 GTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTAAAATTTTTTTCGTATATTTATATCT
30156784 GACTCTAAAACG-AA
194 GACTCTAAAACGAAA
*
30156798 TTTTTTTTAAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCACCCAAAATTTTTTTTAAATT
1 TTTTTTTT-AAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CCAAAATTTTTTTT-AATT
30156863 TTTTTCGTATATTTATATCTGACTCTGACAC-AAAAAAAAAGAAAAAATATTTTTTT-AAATTGT
63 TTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAAAG---AAAT-TTTTTTTAAAATTGT
30156926 ACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTAAAATTTTTTTCGTATATTTA
124 ACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTAAAATTTTTTTCGTATATTTA
*
30156991 TATCTGACTCTGACACAAAAAAAAGAAA
189 TATCTGACTCT--------AAAACGAAA
***** * *
30157019 AAAAATTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTTACTTTT
1 TTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTAATTTTT
* *
30157084 TTCGTATATTTATATCTGACTCTAACACGAAAAAAAAAGAAATTTTTTTAAAAATTGTACTGGGT
66 TTCGTATATTTATATCTGACTCTGACACGAAAAAAAAAGAAATTTTTTTTAAAATTGTACTGGGT
* *
30157149 GTCGGCCATTGACAGGCCAGCACCC-AAAATTTTTTT---ATTTTTTTCGTATAATTATATCT-A
131 GCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTAAAATTTTTTTCGTATATTTATATCTGA
*
30157209 TCTCTAACACGAAAAAAAA
196 -CTCTAAAACG-----AAA
* *
30157228 GTAAATTTTTTT-AATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTAT
1 -T---TTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTAAT
30157292 TTTTTTCGTATATTTATATCTGACTCTGACACG-AAAAAAAAGAAATTTTTTTTAAAATTTGTAC
62 TTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAAAGAAATTTTTTTTAAAA-TTGTAC
*
30157356 TGGGTGCTGGCC
126 TGGGTGCCGGCC
30157368 TGTCATATCG
Statistics
Matches: 506, Mismatches: 35, Indels: 55
0.85 0.06 0.09
Matches are distributed among these distances:
204 4 0.01
209 58 0.11
210 39 0.08
211 24 0.05
212 211 0.42
213 10 0.02
215 17 0.03
216 42 0.08
218 32 0.06
219 24 0.05
220 40 0.08
221 5 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (208 bp):
TTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTAATTTTT
TTCGTATATTTATATCTGACTCTGACACGAAAAAAAAAGAAATTTTTTTTAAAATTGTACTGGGT
GCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTAAAATTTTTTTCGTATATTTATATCTGA
CTCTAAAACGAAA
Found at i:30157117 original size:105 final size:106
Alignment explanation
Indices: 30156559--30157336 Score: 667
Period size: 105 Copynumber: 7.3 Consensus size: 106
30156549 AAATTTTTTG
***** * *
30156559 TATCTGACTCTGACACGAAAAAAAAGAATTTTTTTTTTAAATTTGTACTGGATGCCGGCCATTTA
1 TATCTGACTCTGACACG-AAAAAAAGAA-AAAAATTTTAAA-TTGTACTGGGTGCCGGCCATTGA
* **** ** *
30156624 CAGGCCAGCACCAAAAAAAAATTTAAAATTTTTTCGTATATTTA
63 CAGGCCAGCACCCAAAATTTTTTTTTATTTTTTTCGTATATTTA
* **
30156668 TATCTGACTCTGACACTAAAAAAA-AAGAAATTTTTTTTAAAATTGTACTGGGTGCCGGCCATTG
1 TATCTGACTCTGACACGAAAAAAAGAA-AAA--AATTTT-AAATTGTACTGGGTGCCGGCCATTG
**
30156732 ACAGGCCAGCACCCAAAAATTTTTTTAAAATTTTTTTCGTATATTTA
62 ACAGGCCAGCACCC-AAAATTTTTTT-TTATTTTTTTCGTATATTTA
* * ******** * * ** * * * ** *
30156779 TATCTGACTCTAAAACG-AATTTTTTTTAAAATTGT--ACTG-GGTGCCG-GCCATTG-AAAGGC
1 TATCTGACTCTGACACGAAAAAAAGAAAAAAATTTTAAATTGTACTG-GGTGCC--GGCCATTGA
*
30156838 CA-----GCACCCAAAATTTTTTTTAAATTTTTTTCGTATATTTA
63 CAGGCCAGCACCCAAAATTTTTTTT-TATTTTTTTCGTATATTTA
*
30156878 TATCTGACTCTGACACAAAAAAAAAGAAAAAATATTTTTTTAAATTGTACTGGGTGCCGGCCATT
1 TATCTGACTCTGACAC-GAAAAAAAGAAAAAA-A---TTTTAAATTGTACTGGGTGCCGGCCATT
**
30156943 GACAGGCCAGCACCCAAAAATTTTTTTAAAATTTTTTTCGTATATTTA
61 GACAGGCCAGCACCC-AAAATTTTTTT-TTATTTTTTTCGTATATTTA
* *
30156991 TATCTGACTCTGACACAAAAAAAAGAAAAAAAATTTAAATTGTACTGGGTGCCGGCCATTGACAG
1 TATCTGACTCTGACACGAAAAAAAGAAAAAAATTTTAAATTGTACTGGGTGCCGGCCATTGACAG
*
30157056 GCCAGCA-CCAAAATTTTTTTTTACTTTTTTCGTATATTTA
66 GCCAGCACCCAAAATTTTTTTTTATTTTTTTCGTATATTTA
* ** *
30157096 TATCTGACTCTAACACGAAAAAAA-AAGAAATTTTTTTAAAAATTGTACTGGGTGTCGGCCATTG
1 TATCTGACTCTGACACGAAAAAAAGAA-AAA-AATTTT--AAATTGTACTGGGTGCCGGCCATTG
*
30157160 ACAGGCCAGCACCCAAAA--TTTTTTTATTTTTTTCGTATAATTA
62 ACAGGCCAGCACCCAAAATTTTTTTTTATTTTTTTCGTATATTTA
* * ** *
30157203 TATCT-ATCTCTAACACGAAAAAAA-AGTAAATTTTTTTAATTGTACTGGGTGCCGGCCATTGAC
1 TATCTGA-CTCTGACACGAAAAAAAGA-AAAAAATTTTAAATTGTACTGGGTGCCGGCCATTGAC
30157266 AGGCCAGCACCC-AAATTTTTTTTTATTTTTTTCGTATATTTA
64 AGGCCAGCACCCAAAATTTTTTTTTATTTTTTTCGTATATTTA
30157308 TATCTGACTCTGACACGAAAAAAAAGAAA
1 TATCTGACTCTGACACG-AAAAAAAGAAA
30157337 TTTTTTTTAA
Statistics
Matches: 553, Mismatches: 76, Indels: 83
0.78 0.11 0.12
Matches are distributed among these distances:
99 44 0.08
100 6 0.01
101 5 0.01
102 1 0.00
103 3 0.01
104 44 0.08
105 91 0.16
106 32 0.06
107 62 0.11
108 89 0.16
109 61 0.11
110 14 0.03
111 34 0.06
112 21 0.04
113 46 0.08
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (106 bp):
TATCTGACTCTGACACGAAAAAAAGAAAAAAATTTTAAATTGTACTGGGTGCCGGCCATTGACAG
GCCAGCACCCAAAATTTTTTTTTATTTTTTTCGTATATTTA
Found at i:30157119 original size:108 final size:107
Alignment explanation
Indices: 30156802--30157336 Score: 730
Period size: 105 Copynumber: 5.0 Consensus size: 107
30156792 AACGAATTTT
* *
30156802 TTTTAAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCACCCAAAATTTTTTTTAAATTTTTT
1 TTTT-AAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTT-TATTTTTT
30156867 TCGTATATTTATATCTGACTCTGACAC-AAAAAAAAAGAAAAAATA
64 TCGTATATTTATATCTGACTCTGACACGAAAAAAAAAG-AAAAA-A
**
30156912 TTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTAAAATTT
1 ---TTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAAATTTTTTT-TTATTT
30156977 TTTTCGTATATTTATATCTGACTCTGACAC--AAAAAAAAGAAAAAAA
61 TTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAAAG-AAAAAA
* *
30157023 ATTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCA-CCAAAATTTTTTTTTACTTTTTTC
1 TTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTATTTTTTTC
* ***
30157087 GTATATTTATATCTGACTCTAACACGAAAAAAAAAGAAATTT
66 GTATATTTATATCTGACTCTGACACGAAAAAAAAAGAAAAAA
*
30157129 TTTTAAAAATTGTACTGGGTGTCGGCCATTGACAGGCCAGCACCCAAAA--TTTTTTTATTTTTT
1 TTTT--AAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTATTTTTT
* * * **
30157192 TCGTATAATTATATCT-ATCTCTAACACG-AAAAAAAAGTAAATT
64 TCGTATATTTATATCTGA-CTCTGACACGAAAAAAAAAGAAAAAA
*
30157235 TTTTTAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAATTTTTTTTTATTTTTTTC
1 TTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTATTTTTTTC
30157299 GTATATTTATATCTGACTCTGACACG-AAAAAAAAGAAA
66 GTATATTTATATCTGACTCTGACACGAAAAAAAAAGAAA
30157337 TTTTTTTTAA
Statistics
Matches: 390, Mismatches: 21, Indels: 30
0.88 0.05 0.07
Matches are distributed among these distances:
103 3 0.01
104 37 0.09
105 81 0.21
106 36 0.09
107 49 0.13
108 74 0.19
109 6 0.02
111 1 0.00
112 53 0.14
113 50 0.13
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (107 bp):
TTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTATTTTTTTC
GTATATTTATATCTGACTCTGACACGAAAAAAAAAGAAAAAA
Found at i:30157452 original size:428 final size:423
Alignment explanation
Indices: 30156594--30157367 Score: 1037
Period size: 428 Copynumber: 1.8 Consensus size: 423
30156584 GAATTTTTTT
*
30156594 TTTAAATTTGTACTGGATGCCGGCCATTTACAGGCCAGCACCAAAAAAAAATTTAAAATTTTTTC
1 TTTAAATTTGTACTGGATGCCGGCCATTGACAGGCCAGCACCAAAAAAAAATTTAAAATTTTTTC
* * *
30156659 GTATATTTATATCTGACTCTGACACTAAAAAAAAAGAAATTTTTTTTAAAATTGTACTGGGTGCC
66 GTATATTTATATCTGACTCTAACACGAAAAAAAAAGAAATTTTTTTAAAAATTGTACTGGGTGCC
*
30156724 GGCCATTGACAGGCCAGCACCCAAAAATTTTTTTAAAATTTTTTTCGTATATTTATATCTGACTC
131 GGCCATTGACAGGCCAGCACCCAAAAATTTTTTT--AATTTTTTTCGTATAATTATATCTGACTC
30156789 TAAAACGAATTTTTTTTAAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCACCCAAAATTTT
194 TAAAACGAATTTTTTTT-AAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCACCCAAAATTTT
30156854 TTTTAAATTTTTTTCGTATATTTATATCTGACTCTGACACAAAAAAAAAGAAAAAATATTTTTTT
258 TTTTAAATTTTTTTCGTATATTTATATCTGACTCTGACACAAAAAAAAAG--AAAATATTTTTTT
* * ****
30156919 AAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTAAAATTTTTTTCGT
321 AAATTGTACTGGGTGCCGGCCATTCACAGACCAGCACCCAAAAA-TAAAGTAAAATTTTTTTC-T
* * * *
30156984 ATATTTATATCTGACTCTGACACAAAAAAAAGAAAAAAAA
384 ATATTGATACCGGACTCTGACACAAAAAAAACAAAAAAAA
* **** ** *
30157024 TTTAAA-TTGTACTGGGTGCCGGCCATTGACAGGCCAGCACC-AAAATTTTTTTTTACTTTTTTC
1 TTTAAATTTGTACTGGATGCCGGCCATTGACAGGCCAGCACCAAAAAAAAATTTAAAATTTTTTC
*
30157087 GTATATTTATATCTGACTCTAACACGAAAAAAAAAGAAATTTTTTTAAAAATTGTACTGGGTGTC
66 GTATATTTATATCTGACTCTAACACGAAAAAAAAAGAAATTTTTTTAAAAATTGTACTGGGTGCC
30157152 GGCCATTGACAGGCCAGCACCC-AAAATTTTTTT-ATTTTTTTCGTATAATTATATCT-ATCTCT
131 GGCCATTGACAGGCCAGCACCCAAAAATTTTTTTAATTTTTTTCGTATAATTATATCTGA-CTCT
* *
30157214 AACACGAAAAAAAAGTAAATTTTTTT-AATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC
195 AAAACG------AA-T---TTTTTTTAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCACCC
* *
30157278 -AAATTTTTTTT-TATTTTTTTCGTATATTTATATCTGACTCTGACACGAAAAAAAAG-AAAT-T
250 AAAATTTTTTTTAAATTTTTTTCGTATATTTATATCTGACTCTGACACAAAAAAAAAGAAAATAT
*
30157339 TTTTTTAAAATTTGTACTGGGTGCTGGCC
315 TTTTTT-AAA-TTGTACTGGGTGCCGGCC
30157368 TGTCATATCG
Statistics
Matches: 312, Mismatches: 19, Indels: 28
0.87 0.05 0.08
Matches are distributed among these distances:
423 1 0.00
424 31 0.10
426 7 0.02
427 18 0.06
428 115 0.37
429 33 0.11
430 51 0.16
431 12 0.04
432 37 0.12
434 7 0.02
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (423 bp):
TTTAAATTTGTACTGGATGCCGGCCATTGACAGGCCAGCACCAAAAAAAAATTTAAAATTTTTTC
GTATATTTATATCTGACTCTAACACGAAAAAAAAAGAAATTTTTTTAAAAATTGTACTGGGTGCC
GGCCATTGACAGGCCAGCACCCAAAAATTTTTTTAATTTTTTTCGTATAATTATATCTGACTCTA
AAACGAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCACCCAAAATTTTTTT
TAAATTTTTTTCGTATATTTATATCTGACTCTGACACAAAAAAAAAGAAAATATTTTTTTAAATT
GTACTGGGTGCCGGCCATTCACAGACCAGCACCCAAAAATAAAGTAAAATTTTTTTCTATATTGA
TACCGGACTCTGACACAAAAAAAACAAAAAAAA
Found at i:30167748 original size:78 final size:79
Alignment explanation
Indices: 30167660--30167819 Score: 236
Period size: 77 Copynumber: 2.0 Consensus size: 79
30167650 TTTCAGACCA
* * *
30167660 AATTATAATGAATAGTACTTTTTAAGTATTAATGTGAATAAATTAATAGAAC-T-GAAAGGG-AA
1 AATTATAATGAATAATAC-TTCTAAGTATTAAAGTGAATAAATTAATA-AACTTAGAAAGGGAAA
30167722 ATCATGAATTAAACTT
64 ATCATGAATTAAACTT
* *
30167738 AATTATAATGAATAATACTTCTAAGTATTAAAGTGAATAAATTACTATACTTAGAAAGGGAAAAT
1 AATTATAATGAATAATACTTCTAAGTATTAAAGTGAATAAATTAATAAACTTAGAAAGGGAAAAT
30167803 CATGAATTAAACTT
66 CATGAATTAAACTT
30167817 AAT
1 AAT
30167820 CAATTTTAGT
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
76 2 0.03
77 27 0.36
78 24 0.32
79 21 0.28
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.34
Consensus pattern (79 bp):
AATTATAATGAATAATACTTCTAAGTATTAAAGTGAATAAATTAATAAACTTAGAAAGGGAAAAT
CATGAATTAAACTT
Found at i:30172233 original size:19 final size:19
Alignment explanation
Indices: 30172209--30172249 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
30172199 CATGGTGAGT
30172209 TCACCTTTCTGCACATCGA
1 TCACCTTTCTGCACATCGA
*
30172228 TCACCTTTCTGCATATCGA
1 TCACCTTTCTGCACATCGA
30172247 TCA
1 TCA
30172250 ACGTCCTACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.22, C:0.34, G:0.10, T:0.34
Consensus pattern (19 bp):
TCACCTTTCTGCACATCGA
Found at i:30174452 original size:20 final size:19
Alignment explanation
Indices: 30174404--30174453 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
30174394 TAATAGAAAT
* *
30174404 TTATCCGTATCAATAGTAA
1 TTATCCATATCAACAGTAA
*
30174423 CTTATACATATCAACAGTAA
1 -TTATCCATATCAACAGTAA
30174443 TTCATCCATAT
1 TT-ATCCATAT
30174454 AATTACATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (19 bp):
TTATCCATATCAACAGTAA
Found at i:30177942 original size:4 final size:4
Alignment explanation
Indices: 30177933--30177969 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
30177923 TTCCTGACAG
30177933 AAGA AAGA AAG- AAGA AAG- AAGA AAGA AAG- AAGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
30177970 TGAAGTCGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
3 9 0.30
4 21 0.70
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:30177947 original size:11 final size:11
Alignment explanation
Indices: 30177933--30177969 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
30177923 TTCCTGACAG
30177933 AAGAAAGAA-A
1 AAGAAAGAAGA
30177943 GAAGAAAGAAGA
1 -AAGAAAGAAGA
30177955 AAGAAAGAAGA
1 AAGAAAGAAGA
30177966 AAGA
1 AAGA
30177970 TGAAGTCGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 24 0.96
12 1 0.04
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (11 bp):
AAGAAAGAAGA
Found at i:30177954 original size:18 final size:18
Alignment explanation
Indices: 30177931--30177969 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
30177921 GGTTCCTGAC
30177931 AGAAGAAAGAAAGAAGAA
1 AGAAGAAAGAAAGAAGAA
30177949 AGAAGAAAGAAAGAAGAA
1 AGAAGAAAGAAAGAAGAA
30177967 AGA
1 AGA
30177970 TGAAGTCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (18 bp):
AGAAGAAAGAAAGAAGAA
Found at i:30178541 original size:30 final size:32
Alignment explanation
Indices: 30178502--30178562 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 32
30178492 ATTAATAATT
* *
30178502 AGATGTAAATTTTAAAATTAAAAAA-ATAAAG
1 AGATGTAAATTTCAAAAATAAAAAATATAAAG
30178533 AGAT-TAAATTTCAAAAATAAAAAATATAAA
1 AGATGTAAATTTCAAAAATAAAAAATATAAA
30178563 AACTAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.28
Consensus pattern (32 bp):
AGATGTAAATTTCAAAAATAAAAAATATAAAG
Found at i:30178569 original size:29 final size:30
Alignment explanation
Indices: 30178507--30178571 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
30178497 TAATTAGATG
* * *
30178507 TAAATTTTAAAATTAAAAAAATAAAGAGAT
1 TAAATTTCAAAAATAAAAAAATAAAGAGAC
30178537 TAAATTTCAAAAATAAAAAATATAAA-A-AC
1 TAAATTTCAAAAATAAAAAA-ATAAAGAGAC
30178566 TAAATT
1 TAAATT
30178572 GGAAAATATC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 7 0.23
30 19 0.61
31 5 0.16
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (30 bp):
TAAATTTCAAAAATAAAAAAATAAAGAGAC
Found at i:30184419 original size:28 final size:30
Alignment explanation
Indices: 30184364--30184431 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
30184354 TTTAAAAATA
* *
30184364 CCTTATTTGAACACTTTCAAAAGGGTTTGG
1 CCTTATTTGAACACTTTCAAAAAGGTTTAG
**
30184394 CCTTATTTGTCCA-TTT-AAAAAGGTTTAG
1 CCTTATTTGAACACTTTCAAAAAGGTTTAG
*
30184422 CCTCATTTGA
1 CCTTATTTGA
30184432 GCATTTTTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 18 0.56
29 3 0.09
30 11 0.34
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (30 bp):
CCTTATTTGAACACTTTCAAAAAGGTTTAG
Found at i:30204063 original size:2 final size:2
Alignment explanation
Indices: 30204056--30204090 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
30204046 TGATTTGCAT
30204056 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30204091 GTAACATATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30205287 original size:34 final size:34
Alignment explanation
Indices: 30205239--30205303 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
30205229 AACACTATCA
*
30205239 ACACAATTGGCGCTTAGTTGTACAAGAGCCTCGG
1 ACACAATTGGCGCTTAGGTGTACAAGAGCCTCGG
* *
30205273 ACACTATTGGCGCTTAGGTGTGCAAGAGCCT
1 ACACAATTGGCGCTTAGGTGTACAAGAGCCT
30205304 TGAACACCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (34 bp):
ACACAATTGGCGCTTAGGTGTACAAGAGCCTCGG
Found at i:30214063 original size:71 final size:72
Alignment explanation
Indices: 30213947--30214092 Score: 285
Period size: 71 Copynumber: 2.0 Consensus size: 72
30213937 ATCTGACAAC
30213947 TTTTAAAATTGTTTAATTTAGTCTTAATTTTAAAATTTTAGGCTTCAATATTTATA-TTTTTATA
1 TTTTAAAATTGTTTAATTTAGTCTTAATTTTAAAATTTTAGGCTTCAATATTTATATTTTTTATA
30214011 TTTTATT
66 TTTTATT
30214018 TTTTAAAATTGTTTAATTTAGTCTTAATTTTAAAATTTTAGGCTTCAATATTTATATTTTTTATA
1 TTTTAAAATTGTTTAATTTAGTCTTAATTTTAAAATTTTAGGCTTCAATATTTATATTTTTTATA
30214083 TTTTATT
66 TTTTATT
30214090 TTT
1 TTT
30214093 ATTTATGACT
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
71 56 0.76
72 18 0.24
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.60
Consensus pattern (72 bp):
TTTTAAAATTGTTTAATTTAGTCTTAATTTTAAAATTTTAGGCTTCAATATTTATATTTTTTATA
TTTTATT
Found at i:30218108 original size:13 final size:13
Alignment explanation
Indices: 30218087--30218126 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
30218077 AGTTCTTCAT
30218087 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
30218100 TGTTTTTGAAAAG
1 TGCTTTTGAAAAG
30218113 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
30218126 T
1 T
30218127 TTGGTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.42
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:30224817 original size:15 final size:15
Alignment explanation
Indices: 30224797--30224826 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
30224787 CTTTTTCGGC
30224797 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
30224812 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
30224827 TTTACCCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.27, G:0.20, T:0.47
Consensus pattern (15 bp):
CGATTTGCTCTCTGT
Found at i:30225880 original size:19 final size:19
Alignment explanation
Indices: 30225856--30225892 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
30225846 GCATGACCTC
30225856 TATATGCACCTGAACGATG
1 TATATGCACCTGAACGATG
*
30225875 TATATGTACCTGAACGAT
1 TATATGCACCTGAACGAT
30225893 AATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (19 bp):
TATATGCACCTGAACGATG
Found at i:30227976 original size:16 final size:16
Alignment explanation
Indices: 30227955--30227990 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
30227945 GATTTGCTAT
30227955 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
30227971 TACACCTCTAATTCAA
1 TACACCTCTAATCCAA
30227987 TACA
1 TACA
30227991 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:30231354 original size:32 final size:33
Alignment explanation
Indices: 30231292--30231370 Score: 81
Period size: 32 Copynumber: 2.4 Consensus size: 33
30231282 TAAGCATAAT
*
30231292 AAATTTATGTATATTTTTATGTAGGATTTTAT-G
1 AAATTT-TGTATATTTTCATGTAGGATTTTATGG
* *
30231325 AAATTTTGTGTATTTTCATGTA-TATTTTTATGGG
1 AAATTTTGTATATTTTCATGTAGGA-TTTTAT-GG
*
30231359 AAATTTTTTATA
1 AAATTTTGTATA
30231371 GATAAATTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
31 1 0.03
32 20 0.53
33 6 0.16
34 11 0.29
ACGTcount: A:0.29, C:0.01, G:0.14, T:0.56
Consensus pattern (33 bp):
AAATTTTGTATATTTTCATGTAGGATTTTATGG
Found at i:30237778 original size:2 final size:2
Alignment explanation
Indices: 30237771--30237799 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
30237761 NNNNNNNNTG
30237771 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30237800 TTGTAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30239681 original size:45 final size:45
Alignment explanation
Indices: 30239617--30239891 Score: 217
Period size: 44 Copynumber: 6.2 Consensus size: 45
30239607 AAGACTCGTA
* *
30239617 TCTTCGATCTACTTCACCACCAGTATGGGACGACAAGATCTACTT
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTAGTT
* * *
30239662 TCTTCGATCTACTTCACCACCAGTATGGAAAGATAAGATCT-GTA
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTAGTT
* * * * * * *
30239706 TATTCGATCCACTTCGCTACC-GATATAGGAAGGCAGGA-C-ATGTT
1 TCTTCGATCTACTTCACCACCAG-TATGGGAAGACAAGATCTA-GTT
* * * ***
30239750 ATCTTTGATCTACTTCA-CGCCAATACATGAAGACAAGATCTA-TT
1 -TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTAGTT
* *
30239794 TCATTCGATCTACTGCACCACCAGTATGGGGAGACAAGATCT-GTT
1 TC-TTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTAGTT
* *** *
30239839 TCTTTGATCTACTTCA-CACCAGTACATGAAGATAAGATCT-GTTT
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTAG-TT
30239883 TCTTCGATC
1 TCTTCGATC
30239892 GATTCCACTG
Statistics
Matches: 177, Mismatches: 42, Indels: 23
0.73 0.17 0.10
Matches are distributed among these distances:
43 24 0.14
44 79 0.45
45 73 0.41
46 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (45 bp):
TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTAGTT
Found at i:30240076 original size:132 final size:132
Alignment explanation
Indices: 30239883--30240228 Score: 480
Period size: 132 Copynumber: 2.6 Consensus size: 132
30239873 AGATCTGTTT
* * * ** * * * *
30239883 TCTTCGATCGATTCCACTGCCGACTGGGGAGATAGAATTGCTGGCTTTAATATACTCCACTGCAA
1 TCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* * * *
30239948 CTTCAGGGAGGTAAAA-TCTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTG
66 CCTCAGGGAGGTAAAATTC-ACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTA
*
30240012 TAA
130 AAA
* * *
30240015 TCTTCAATCTATTCCGCTGCTGCCCAGGGAGATAGAATTACTAGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* * *
30240080 CCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGTCAAGATCTAA
66 CCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTAA
30240145 AA
131 AA
30240147 TCTTCAATCTATTCCACTGCTGACCAGGGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTA
1 TCTTCAATCTATTCCACTGCTGACCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTA
30240211 ACCTCAGGGAGGTAAAAT
65 ACCTCAGGGAGGTAAAAT
30240229 NNNNNNNNNN
Statistics
Matches: 188, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
131 1 0.01
132 185 0.98
133 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (132 bp):
TCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
CCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTAA
AA
Found at i:30260427 original size:26 final size:26
Alignment explanation
Indices: 30260397--30260451 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
30260387 GTATTCAAGA
**
30260397 GATGAAAAAGGCTTGATTGAAA-ACTT
1 GATGAAAAACACTTGA-TGAAAGACTT
30260423 GATGAAAAACACTTGATGAAAGACTT
1 GATGAAAAACACTTGATGAAAGACTT
30260449 GAT
1 GAT
30260452 TAATGAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.25
Consensus pattern (26 bp):
GATGAAAAACACTTGATGAAAGACTT
Found at i:30271310 original size:43 final size:43
Alignment explanation
Indices: 30271249--30271331 Score: 166
Period size: 43 Copynumber: 1.9 Consensus size: 43
30271239 TAAGTAAACA
30271249 AAAAAATTGACATTTGTATGGTTATATAACTTGAGACTTATGT
1 AAAAAATTGACATTTGTATGGTTATATAACTTGAGACTTATGT
30271292 AAAAAATTGACATTTGTATGGTTATATAACTTGAGACTTA
1 AAAAAATTGACATTTGTATGGTTATATAACTTGAGACTTA
30271332 GAGCATTTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.39
Consensus pattern (43 bp):
AAAAAATTGACATTTGTATGGTTATATAACTTGAGACTTATGT
Found at i:30271325 original size:24 final size:24
Alignment explanation
Indices: 30271255--30271325 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 24
30271245 AACAAAAAAA
30271255 TTGACATTTGTATGGTTATATAAC
1 TTGACATTTGTATGGTTATATAAC
* * * *
30271279 TTGAGA-CT-TAT-G-TA-AAAAA
1 TTGACATTTGTATGGTTATATAAC
30271298 TTGACATTTGTATGGTTATATAAC
1 TTGACATTTGTATGGTTATATAAC
30271322 TTGA
1 TTGA
30271326 GACTTAGAGC
Statistics
Matches: 34, Mismatches: 8, Indels: 10
0.65 0.15 0.19
Matches are distributed among these distances:
19 8 0.24
20 3 0.09
21 4 0.12
22 4 0.12
23 3 0.09
24 12 0.35
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (24 bp):
TTGACATTTGTATGGTTATATAAC
Found at i:30278974 original size:24 final size:24
Alignment explanation
Indices: 30278940--30278991 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
30278930 TTTTTAGAAG
* **
30278940 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
30278964 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
30278988 ATTT
1 ATTT
30278992 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:30279572 original size:7 final size:7
Alignment explanation
Indices: 30279557--30279653 Score: 122
Period size: 7 Copynumber: 13.6 Consensus size: 7
30279547 ATTTTGTTAT
30279557 ACCCTAA
1 ACCCTAA
*
30279564 ACTCTAA
1 ACCCTAA
30279571 ACCCTAA
1 ACCCTAA
30279578 ACCCTAAA
1 ACCCT-AA
*
30279586 ACTCTAA
1 ACCCTAA
*
30279593 ACACTAA
1 ACCCTAA
*
30279600 ACCTTAAA
1 ACCCT-AA
*
30279608 ACCTTAA
1 ACCCTAA
30279615 ACCCTAA
1 ACCCTAA
*
30279622 ACCTTAA
1 ACCCTAA
30279629 ACCCTAA
1 ACCCTAA
30279636 ACCCTAA
1 ACCCTAA
30279643 ACCCTAA
1 ACCCTAA
30279650 ACCC
1 ACCC
30279654 CAAATTCCTT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
7 66 0.84
8 13 0.16
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (7 bp):
ACCCTAA
Found at i:30279590 original size:22 final size:22
Alignment explanation
Indices: 30279557--30279650 Score: 122
Period size: 22 Copynumber: 4.4 Consensus size: 22
30279547 ATTTTGTTAT
30279557 ACCCT-AAACTCTAAACCCTAA
1 ACCCTAAAACTCTAAACCCTAA
*
30279578 ACCCTAAAACTCTAAACACTAA
1 ACCCTAAAACTCTAAACCCTAA
*
30279600 ACCTTAAAAC-CTTAAACCCTAA
1 ACCCTAAAACTC-TAAACCCTAA
* *
30279622 A-CCTTAAACCCTAAACCCTAA
1 ACCCTAAAACTCTAAACCCTAA
30279643 ACCCTAAA
1 ACCCTAAA
30279651 CCCCAAATTC
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
21 23 0.37
22 40 0.63
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (22 bp):
ACCCTAAAACTCTAAACCCTAA
Found at i:30283467 original size:24 final size:24
Alignment explanation
Indices: 30283433--30283484 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
30283423 TTTTTAGAAG
* **
30283433 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
30283457 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
30283481 ATTT
1 ATTT
30283485 GACTCTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:30287439 original size:20 final size:20
Alignment explanation
Indices: 30287401--30287439 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30287391 GTCCAATTAG
*
30287401 ATATAAAAATGAATTTAAAA
1 ATATAAAAATGAATGTAAAA
* *
30287421 ATATAAAACTTAATGTAAA
1 ATATAAAAATGAATGTAAA
30287440 TATTTTCATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (20 bp):
ATATAAAAATGAATGTAAAA
Found at i:30294724 original size:138 final size:139
Alignment explanation
Indices: 30294476--30294753 Score: 508
Period size: 138 Copynumber: 2.0 Consensus size: 139
30294466 TTATAAATAA
30294476 AAATAAAGCCAAATTTTAAAATGTCCACAGTCCATTACAGCGCGCTATATAGGGCCCAAATCAGT
1 AAATAAAGCCAAATTTTAAAATGTCCACAGTCCATTACAGCGCGCTATATAGGGCCCAAATCAGT
30294541 CCAAATCACTACACATTAACTAAACCCAAACCCGTTACAAACCCAAACCCACTAGCCT-AAAAAA
66 CCAAATCACTACACATTAACTAAACCCAAACCCGTTACAAACCCAAACCCACTAGCCTAAAAAAA
30294605 AACCTTTGG
131 AACCTTTGG
30294614 AAATAAAGCCAAATTTTAAAATGTCCACAGTCCATTACAGCAG-GCT-TAATAGGGCCCAAATCA
1 AAATAAAGCCAAATTTTAAAATGTCCACAGTCCATTACAGC-GCGCTAT-ATAGGGCCCAAATCA
30294677 GTCCAAATCACTACACATTAACTAAACCCAAACCCGTTACAAACCCAAACCCACTAGCCTAAAAA
64 GTCCAAATCACTACACATTAACTAAACCCAAACCCGTTACAAACCCAAACCCACTAGCCT-AAAA
30294742 AAAAACCTTTGG
128 AAAAACCTTTGG
30294754 CCCACTGAGC
Statistics
Matches: 136, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
137 1 0.01
138 119 0.88
139 1 0.01
140 15 0.11
ACGTcount: A:0.42, C:0.28, G:0.10, T:0.19
Consensus pattern (139 bp):
AAATAAAGCCAAATTTTAAAATGTCCACAGTCCATTACAGCGCGCTATATAGGGCCCAAATCAGT
CCAAATCACTACACATTAACTAAACCCAAACCCGTTACAAACCCAAACCCACTAGCCTAAAAAAA
AACCTTTGG
Found at i:30303888 original size:25 final size:25
Alignment explanation
Indices: 30303854--30303905 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
30303844 GTGACTTCTA
30303854 AATCTATAAAATAAAGGTAAACAAG
1 AATCTATAAAATAAAGGTAAACAAG
30303879 AATCTATAAAATAAAGGTAAACAAG
1 AATCTATAAAATAAAGGTAAACAAG
30303904 AA
1 AA
30303906 CACATGCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.62, C:0.08, G:0.12, T:0.19
Consensus pattern (25 bp):
AATCTATAAAATAAAGGTAAACAAG
Found at i:30304425 original size:43 final size:43
Alignment explanation
Indices: 30304337--30304460 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 43
30304327 AGCTCGTACA
* * * * ***
30304337 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCACATACCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAGGTCG
** * *
30304380 ATGCCATTGTCCCAGACAG-GGTCTTTCACGTAAACACAGGTCG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACGAAAACACAGGTCG
*
30304423 ATGTCAACGTCCCAGACGTGGTCTTACACGAAAACACA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACA
30304461 TATCGGAATC
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 1 0.02
43 63 0.97
44 1 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAGGTCG
Found at i:30305411 original size:5 final size:5
Alignment explanation
Indices: 30305369--30305393 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
30305359 GTAATAACTT
30305369 TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA
30305394 GCTTTATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:30308799 original size:40 final size:40
Alignment explanation
Indices: 30308750--30308841 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
30308740 AATCGAGAAA
* *
30308750 TAGCAGCGTTTTAGGAAAAGCACCGCTAAAGAGTGAGCAT
1 TAGCGGCGTTTAAGGAAAAGCACCGCTAAAGAGTGAGCAT
*
30308790 TAGCGGCGTTTAAGGAAAAGCGCCGCTAAAGAGTGAGCAT
1 TAGCGGCGTTTAAGGAAAAGCACCGCTAAAGAGTGAGCAT
*
30308830 TAACGGCGTTTA
1 TAGCGGCGTTTA
30308842 TAAAAAATGC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (40 bp):
TAGCGGCGTTTAAGGAAAAGCACCGCTAAAGAGTGAGCAT
Found at i:30316181 original size:31 final size:31
Alignment explanation
Indices: 30316143--30316239 Score: 140
Period size: 31 Copynumber: 3.0 Consensus size: 31
30316133 NNNNNNATTA
30316143 ATTAATATTATACATAAATTACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAC
*
30316174 ATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTT-A--C
**
30316208 ATTAATATTATACATACCTTACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAC
30316239 A
1 A
30316240 ACTTACATAA
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
31 30 0.51
32 1 0.02
33 1 0.02
34 27 0.46
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.39
Consensus pattern (31 bp):
ATTAATATTATACATAAATTACATAACTTAC
Found at i:30316232 original size:9 final size:9
Alignment explanation
Indices: 30316218--30316435 Score: 105
Period size: 9 Copynumber: 26.2 Consensus size: 9
30316208 ATTAATATTA
*
30316218 TACATACCT
1 TACATAACT
30316227 TACATAACT
1 TACATAACT
30316236 TAC--AACT
1 TACATAACT
30316243 TACATAACT
1 TACATAACT
***
30316252 TACATTTTTT
1 TACA-TAACT
*
30316262 TA-ATCA-T
1 TACATAACT
*
30316269 T-CATAAAT
1 TACATAACT
30316277 TACATAACT
1 TACATAACT
* *
30316286 TACTTAATT
1 TACATAACT
*
30316295 TTCATAA--
1 TACATAACT
*
30316302 TAAATAACT
1 TACATAACT
30316311 TACATAACT
1 TACATAACT
30316320 TACATAA--
1 TACATAACT
30316327 TACATAACT
1 TACATAACT
* * *
30316336 GATATGACT
1 TACATAACT
30316345 TACATAACT
1 TACATAACT
30316354 TACAT-A--
1 TACATAACT
* *
30316360 -GCATAATT
1 TACATAACT
*
30316368 TTCATAA--
1 TACATAACT
*
30316375 TACACAACT
1 TACATAACT
*
30316384 TACATAATT
1 TACATAACT
*
30316393 TTCATAA--
1 TACATAACT
*
30316400 TAAATAACT
1 TACATAACT
30316409 TACATAA--
1 TACATAACT
30316416 TACATAACT
1 TACATAACT
*
30316425 TACATAGCT
1 TACATAACT
30316434 TA
1 TA
30316436 ATTATACTTA
Statistics
Matches: 157, Mismatches: 32, Indels: 40
0.69 0.14 0.17
Matches are distributed among these distances:
5 3 0.02
6 1 0.01
7 41 0.26
8 4 0.03
9 104 0.66
10 4 0.03
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.37
Consensus pattern (9 bp):
TACATAACT
Found at i:30316246 original size:16 final size:16
Alignment explanation
Indices: 30316225--30316255 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
30316215 TTATACATAC
30316225 CTTACATAACTTACAA
1 CTTACATAACTTACAA
30316241 CTTACATAACTTACA
1 CTTACATAACTTACA
30316256 TTTTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (16 bp):
CTTACATAACTTACAA
Found at i:30316280 original size:34 final size:35
Alignment explanation
Indices: 30316242--30316324 Score: 98
Period size: 34 Copynumber: 2.4 Consensus size: 35
30316232 AACTTACAAC
* * **
30316242 TTACATAACTTACATT-TTTTTAATCATTCATAAA
1 TTACATAACTTACATTAATTTTAATAATAAATAAA
* *
30316276 TTACATAACTTAC-TTAATTTTCATAATAAATAAC
1 TTACATAACTTACATTAATTTTAATAATAAATAAA
30316310 TTACATAACTTACAT
1 TTACATAACTTACAT
30316325 AATACATAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
33 2 0.05
34 38 0.93
35 1 0.02
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (35 bp):
TTACATAACTTACATTAATTTTAATAATAAATAAA
Found at i:30316311 original size:25 final size:25
Alignment explanation
Indices: 30316280--30316416 Score: 120
Period size: 25 Copynumber: 5.6 Consensus size: 25
30316270 CATAAATTAC
*
30316280 ATAACTTACTTAATTTTCATAATAA
1 ATAACTTACATAATTTTCATAATAA
* * *
30316305 ATAACTTACATAACTTACATAATAC
1 ATAACTTACATAATTTTCATAATAA
* * * * *
30316330 ATAACTGATATGACTTACATAACT--
1 ATAACTTACATAATTTTCATAA-TAA
* *
30316354 -T-ACATAGCATAATTTTCATAATAC
1 ATAACTTA-CATAATTTTCATAATAA
*
30316378 ACAACTTACATAATTTTCATAATAA
1 ATAACTTACATAATTTTCATAATAA
30316403 ATAACTTACATAAT
1 ATAACTTACATAAT
30316417 ACATAACTTA
Statistics
Matches: 89, Mismatches: 17, Indels: 12
0.75 0.14 0.10
Matches are distributed among these distances:
22 4 0.04
23 11 0.12
25 69 0.78
26 5 0.06
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.36
Consensus pattern (25 bp):
ATAACTTACATAATTTTCATAATAA
Found at i:30316330 original size:16 final size:16
Alignment explanation
Indices: 30316311--30316430 Score: 87
Period size: 16 Copynumber: 7.9 Consensus size: 16
30316301 ATAAATAACT
30316311 TACATAACTTACATAA
1 TACATAACTTACATAA
* * *
30316327 TACATAACTGATATGACT
1 TACATAACTTACAT-A-A
30316345 TACATAACTTACAT-A
1 TACATAACTTACATAA
* * *
30316360 -GCATAATTTTCATAA
1 TACATAACTTACATAA
*
30316375 TACACAACTTACATAA
1 TACATAACTTACATAA
30316391 T---T---TT-CATAA
1 TACATAACTTACATAA
*
30316400 TAAATAACTTACATAA
1 TACATAACTTACATAA
30316416 TACATAACTTACATA
1 TACATAACTTACATA
30316431 GCTTAATTAT
Statistics
Matches: 78, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
12 1 0.01
14 10 0.13
15 3 0.04
16 43 0.55
17 1 0.01
18 12 0.15
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:30320196 original size:15 final size:15
Alignment explanation
Indices: 30320176--30320205 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
30320166 TAATCTCTTG
30320176 TTCTCCGTAAATACT
1 TTCTCCGTAAATACT
30320191 TTCTCCGTAAATACT
1 TTCTCCGTAAATACT
30320206 CAAGTATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.40
Consensus pattern (15 bp):
TTCTCCGTAAATACT
Found at i:30324954 original size:31 final size:31
Alignment explanation
Indices: 30324910--30325015 Score: 106
Period size: 31 Copynumber: 3.5 Consensus size: 31
30324900 TTTGAGGATC
30324910 AAATTGATAGAATTTATAAATAAGAAGGGTT
1 AAATTGATAGAATTTATAAATAAGAAGGGTT
* * ** * ** * *
30324941 AAATTTATTGAA-TTATTTAGAATTAGGATC
1 AAATTGATAGAATTTATAAATAAGAAGGGTT
30324971 AAATTGATAGAATTTATAAATAAGAAGGGTT
1 AAATTGATAGAATTTATAAATAAGAAGGGTT
* *
30325002 AAATTTATTGAATT
1 AAATTGATAGAATT
30325016 ATTTAGAATT
Statistics
Matches: 54, Mismatches: 20, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
30 21 0.39
31 33 0.61
ACGTcount: A:0.45, C:0.01, G:0.16, T:0.38
Consensus pattern (31 bp):
AAATTGATAGAATTTATAAATAAGAAGGGTT
Found at i:30324978 original size:61 final size:61
Alignment explanation
Indices: 30324904--30325036 Score: 248
Period size: 61 Copynumber: 2.2 Consensus size: 61
30324894 AGGAAGTTTG
30324904 AGGATCAAATTGATAGAATTTATAAATAAGAAGGGTTAAATTTATTGAATTATTTAGAATT
1 AGGATCAAATTGATAGAATTTATAAATAAGAAGGGTTAAATTTATTGAATTATTTAGAATT
30324965 AGGATCAAATTGATAGAATTTATAAATAAGAAGGGTTAAATTTATTGAATTATTTAGAATT
1 AGGATCAAATTGATAGAATTTATAAATAAGAAGGGTTAAATTTATTGAATTATTTAGAATT
* *
30325026 AGAATCCAATT
1 AGGATCAAATT
30325037 AATATTTAAG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 70 1.00
ACGTcount: A:0.44, C:0.03, G:0.16, T:0.37
Consensus pattern (61 bp):
AGGATCAAATTGATAGAATTTATAAATAAGAAGGGTTAAATTTATTGAATTATTTAGAATT
Done.