Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 327 of 362
Found at i:109241177 original size:10 final size:10
Alignment explanation
Indices: 109241107--109241208 Score: 61
Period size: 10 Copynumber: 10.3 Consensus size: 10
109241097 AAAAATCAAT
109241107 AAAATTTAT-
1 AAAATTTATA
*
109241116 AAAA-TTATT
1 AAAATTTATA
*
109241125 AAATTTTAATA
1 AAAATTT-ATA
109241136 AAAA--TATA
1 AAAATTTATA
**
109241144 AAAAAATA-A
1 AAAATTTATA
109241153 AAAATTTATAAA
1 AAAATTTAT--A
*
109241165 AAAATTTGTA
1 AAAATTTATA
*
109241175 AAATTTTATA
1 AAAATTTATA
* *
109241185 AAAATCGTAAA
1 AAAAT-TTATA
109241196 AAAATTTATA
1 AAAATTTATA
109241206 AAA
1 AAA
109241209 TGCATCAAAA
Statistics
Matches: 71, Mismatches: 13, Indels: 17
0.70 0.13 0.17
Matches are distributed among these distances:
8 11 0.15
9 15 0.21
10 23 0.32
11 13 0.18
12 9 0.13
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAATTTATA
Found at i:109241219 original size:31 final size:31
Alignment explanation
Indices: 109241161--109241219 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
109241151 AAAAAATTTA
* **
109241161 TAAAAAAATTTGTAAAATTTTATAAAAATCG
1 TAAAAAAATTTATAAAATTGCATAAAAATCG
109241192 TAAAAAAATTTATAAAA-TGCATCAAAAA
1 TAAAAAAATTTATAAAATTGCAT-AAAAA
109241220 GGCCCTTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 21 0.88
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (31 bp):
TAAAAAAATTTATAAAATTGCATAAAAATCG
Found at i:109241445 original size:19 final size:21
Alignment explanation
Indices: 109241394--109241537 Score: 96
Period size: 19 Copynumber: 7.3 Consensus size: 21
109241384 ACGTACGATA
* *
109241394 ATTTTTATAATTTTTTTTACA
1 ATTTTTATAATTTTCTTTACT
*
109241415 AATTTTAT-A-TTTCTTTA-T
1 ATTTTTATAATTTTCTTTACT
109241433 ATTTTTATAATTTTCTTT-CT
1 ATTTTTATAATTTTCTTTACT
*
109241453 A-TTTTATAA-TTT-TTTACG
1 ATTTTTATAATTTTCTTTACT
** *
109241471 ATTTTTATAA---AATTTACA
1 ATTTTTATAATTTTCTTTACT
*
109241489 ATTTTTATAATTTTTTTTTAC-
1 ATTTTTATAA-TTTTCTTTACT
* *
109241510 AGTTTTATAATTTT-TTTTCT
1 ATTTTTATAATTTTCTTTACT
109241530 AATTTTTA
1 -ATTTTTA
109241538 ATATATTTAT
Statistics
Matches: 99, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
17 3 0.03
18 27 0.27
19 28 0.28
20 14 0.14
21 22 0.22
22 5 0.05
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (21 bp):
ATTTTTATAATTTTCTTTACT
Found at i:109241524 original size:9 final size:9
Alignment explanation
Indices: 109241391--109241503 Score: 61
Period size: 9 Copynumber: 12.0 Consensus size: 9
109241381 TGTACGTACG
109241391 ATAATTTTT
1 ATAATTTTT
109241400 ATAATTTTTTTT
1 ATAA---TTTTT
* *
109241412 ACAAATTTT
1 ATAATTTTT
*
109241421 ATATTTCTTT
1 ATAATT-TTT
109241431 AT-ATTTTT
1 ATAATTTTT
109241439 ATAATTTTCT
1 ATAATTTT-T
**
109241449 -TTCTATTTT
1 ATAAT-TTTT
109241458 ATAATTTTT
1 ATAATTTTT
109241467 -TACGATTTTT
1 ATA--ATTTTT
**
109241477 ATAAAATTT
1 ATAATTTTT
*
109241486 ACAATTTTT
1 ATAATTTTT
109241495 ATAATTTTT
1 ATAATTTTT
109241504 TTTTACAGTT
Statistics
Matches: 77, Mismatches: 16, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
8 7 0.09
9 43 0.56
10 17 0.22
11 2 0.03
12 8 0.10
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (9 bp):
ATAATTTTT
Found at i:109241585 original size:18 final size:19
Alignment explanation
Indices: 109241559--109241596 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
109241549 GTTTTCTCAT
109241559 TAAAATTTAAT-ATTTTTA
1 TAAAATTTAATAATTTTTA
* *
109241577 TAAATTTTATTAATTTTTA
1 TAAAATTTAATAATTTTTA
109241596 T
1 T
109241597 TTTCTATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TAAAATTTAATAATTTTTA
Found at i:109241901 original size:13 final size:13
Alignment explanation
Indices: 109241883--109241907 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109241873 CAGGTTCTAA
109241883 AAAAATAAAAAAT
1 AAAAATAAAAAAT
109241896 AAAAATAAAAAA
1 AAAAATAAAAAA
109241908 GATATCCAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:109242671 original size:23 final size:24
Alignment explanation
Indices: 109242621--109242671 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
109242611 TGTCATCACC
109242621 TAAAA-TATTAAAATAGTTTAAAA
1 TAAAATTATTAAAATAGTTTAAAA
*
109242644 -GAAATTATTAAAA-A-TTATAAAA
1 TAAAATTATTAAAATAGTT-TAAAA
109242666 TAAAAT
1 TAAAAT
109242672 ATAAATGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
21 2 0.09
22 9 0.39
23 12 0.52
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (24 bp):
TAAAATTATTAAAATAGTTTAAAA
Found at i:109243244 original size:13 final size:14
Alignment explanation
Indices: 109243223--109243251 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
109243213 TGAAAAATGA
109243223 ATTAGAAAATATTT
1 ATTAGAAAATATTT
109243237 ATTA-AAAATATTT
1 ATTAGAAAATATTT
109243250 AT
1 AT
109243252 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:109243814 original size:31 final size:32
Alignment explanation
Indices: 109243765--109243828 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
109243755 ATATTAAATA
*
109243765 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
109243796 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
109243828 A
1 A
109243829 CAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:109243902 original size:142 final size:140
Alignment explanation
Indices: 109243626--109243906 Score: 302
Period size: 142 Copynumber: 2.0 Consensus size: 140
109243616 AGAATAAAAC
* * *
109243626 ATATTTATTAATTAAATAATTAAATAATGAGATTTTTTTTGATAAATAAATTAAATAATGACAAT
1 ATATTTATTAATTAAATAATTAAATAATGAGATTTTTTGTAATAAATAAATTAAATAATGACAAA
* * * * * *
109243691 TGTAATGAATTTATTGGTACAAATGTGAAAATATAAGTGTGTACAATTGTAATATTAGTATTTAA
66 TGTAATGAA-TAATTGGTACAAATGTGAAAATAAAAATGTGTACAAGTGTAATATAAATATTTAA
109243756 TATTAAATAAG
130 TATTAAATAAG
* * * *
109243767 ATATTTATTAATTAAATAATTATATTATGAGATTTTTATGTAATAAATATATTAAATTATGACAA
1 ATATTTATTAATTAAATAATTAAATAATGAGATTTTT-TGTAATAAATAAATTAAATAATGACAA
* *
109243832 ATGT-ATGGTAA-AATTTGT-GAAATGTGTAATAATAAAAATGCT-TACAAGTGTTAA-ATAAAT
65 ATGTAAT-G-AATAATTGGTACAAATGTG-AA-AATAAAAATG-TGTACAAGTG-TAATATAAAT
**
109243892 ATTTGTTATTAAATA
124 ATTTAATATTAAATA
109243907 GATTCTATAG
Statistics
Matches: 116, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
140 7 0.06
141 44 0.38
142 59 0.51
143 6 0.05
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.42
Consensus pattern (140 bp):
ATATTTATTAATTAAATAATTAAATAATGAGATTTTTTGTAATAAATAAATTAAATAATGACAAA
TGTAATGAATAATTGGTACAAATGTGAAAATAAAAATGTGTACAAGTGTAATATAAATATTTAAT
ATTAAATAAG
Found at i:109244791 original size:15 final size:15
Alignment explanation
Indices: 109244743--109244792 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
109244733 TTTATCAAAT
109244743 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* * *
109244758 TCATTTTGATTGAAT
1 TTATATTGATTGAAA
109244773 TTATATTGATTGAAA
1 TTATATTGATTGAAA
109244788 TTATA
1 TTATA
109244793 ATATATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:109248022 original size:21 final size:21
Alignment explanation
Indices: 109247996--109248066 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
109247986 TTTCCAACCC
109247996 TTTGTCAGAATCCCAAAACTT
1 TTTGTCAGAATCCCAAAACTT
* **
109248017 TTTGTCAAAAATCTTTTCC--AACCC
1 TTTGTC-AGAATC----CCAAAACTT
109248041 TTTGTCAGAATCCCAAAACTT
1 TTTGTCAGAATCCCAAAACTT
109248062 TTTGT
1 TTTGT
109248067 TATCCAATCT
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
19 2 0.05
21 14 0.38
22 5 0.14
23 5 0.14
24 9 0.24
26 2 0.05
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (21 bp):
TTTGTCAGAATCCCAAAACTT
Found at i:109248025 original size:45 final size:45
Alignment explanation
Indices: 109247979--109248066 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
109247969 GTAAGATTCA
109247979 AAAAAT-TTTTCCAACCCTTTGTCAGAATCCCAAAACTTTTTGTC
1 AAAAATCTTTTCCAACCCTTTGTCAGAATCCCAAAACTTTTTGTC
109248023 AAAAATCTTTTCCAACCCTTTGTCAGAATCCCAAAACTTTTTGT
1 AAAAATCTTTTCCAACCCTTTGTCAGAATCCCAAAACTTTTTGT
109248067 TATCCAATCT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 6 0.14
45 37 0.86
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (45 bp):
AAAAATCTTTTCCAACCCTTTGTCAGAATCCCAAAACTTTTTGTC
Found at i:109273692 original size:29 final size:28
Alignment explanation
Indices: 109273660--109273720 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
109273650 AGAATCATAG
109273660 AAAAAATAAGTTGTTTGAGTTGAAAACAA
1 AAAAAATAAG-TGTTTGAGTTGAAAACAA
* * *
109273689 AAAAATTGAGTGTTTGAGTTGAAAATAA
1 AAAAAATAAGTGTTTGAGTTGAAAACAA
109273717 AAAA
1 AAAA
109273721 TTTAGTCTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 21 0.72
29 8 0.28
ACGTcount: A:0.52, C:0.02, G:0.18, T:0.28
Consensus pattern (28 bp):
AAAAAATAAGTGTTTGAGTTGAAAACAA
Found at i:109274229 original size:21 final size:21
Alignment explanation
Indices: 109274180--109274229 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
109274170 TAAAATCCTC
109274180 AACCTTAAATTATTTTAACAA
1 AACCTTAAATTATTTTAACAA
**
109274201 AAAATTAAATTATTTTAACAA
1 AACCTTAAATTATTTTAACAA
109274222 AACCTTAA
1 AACCTTAA
109274230 CTCTAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (21 bp):
AACCTTAAATTATTTTAACAA
Found at i:109287547 original size:13 final size:13
Alignment explanation
Indices: 109287529--109287553 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109287519 GAGGGCTACC
109287529 AAAATTCTTTTTG
1 AAAATTCTTTTTG
109287542 AAAATTCTTTTT
1 AAAATTCTTTTT
109287554 TTTTTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (13 bp):
AAAATTCTTTTTG
Found at i:109291361 original size:47 final size:47
Alignment explanation
Indices: 109291252--109291362 Score: 120
Period size: 47 Copynumber: 2.4 Consensus size: 47
109291242 CCGGGATAAG
* *
109291252 CACATAGTGAT-TCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTG-TCTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * * *
109291299 CACAAAGT-ACTTCATCGGAACAAATCTGAAACTTTAACAGTAGTCG-A
1 CACATAGTGTC-TCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
109291346 CACATAGTGTCTCATCG
1 CACATAGTGTCTCATCG
109291363 ACTCAATGTC
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
47 49 0.94
48 3 0.06
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGTCTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:109292133 original size:4 final size:4
Alignment explanation
Indices: 109292124--109292164 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
109292114 CCCTTTTCTA
109292124 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
109292165 CACGTTTGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:109299193 original size:99 final size:100
Alignment explanation
Indices: 109299084--109299276 Score: 257
Period size: 99 Copynumber: 1.9 Consensus size: 100
109299074 TACACTCGTA
* * * *
109299084 GTGCCATAACCCAGTTATGGTCT-TGTC-TTCAAGATGTCATAGCTCAATTATGGTCTTACA-TA
1 GTGCCATAACCCAATTATGGTCTCT-TCATT-AAAATGTCATAGCCCAACTATGGTCTTACATTA
* * *
109299146 TATACTGCCATGGTGCGACCATGGTCTTATGTTCACG
64 AATACTGCCATGGTCCAACCATGGTCTTATGTTCACG
*
109299183 GTGCCATAACCCAATTATGGTCTCTTCATTAAAATGTCATAGCCCAGCTATGGTCTTACATTTAA
1 GTGCCATAACCCAATTATGGTCTCTTCATTAAAATGTCATAGCCCAACTATGGTCTTACA-TTAA
*
109299248 ATATTGCCATGGTCCAACCATGGTCTTAT
65 ATACTGCCATGGTCCAACCATGGTCTTAT
109299277 CCATCAATTC
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
99 50 0.62
100 3 0.04
101 28 0.35
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (100 bp):
GTGCCATAACCCAATTATGGTCTCTTCATTAAAATGTCATAGCCCAACTATGGTCTTACATTAAA
TACTGCCATGGTCCAACCATGGTCTTATGTTCACG
Found at i:109317021 original size:319 final size:319
Alignment explanation
Indices: 109316442--109317083 Score: 1284
Period size: 319 Copynumber: 2.0 Consensus size: 319
109316432 ATTGATGAAT
109316442 AAATTGAGTAGGGACTAAATTGTAGAAACTGAAAAGTTTGAGGTAATAGTGTAATTTCAAAAATT
1 AAATTGAGTAGGGACTAAATTGTAGAAACTGAAAAGTTTGAGGTAATAGTGTAATTTCAAAAATT
109316507 AAAGGACATAAATTGTGAAGTAGAATTGAATTGAATTAGATGCTAATGAAGGAATGATTTTATAA
66 AAAGGACATAAATTGTGAAGTAGAATTGAATTGAATTAGATGCTAATGAAGGAATGATTTTATAA
109316572 TTATAGATCAATAAAACAAAGTGAATAGTGGAAAGGAGAAATTACAAGAATAGTCCCTAAAAATT
131 TTATAGATCAATAAAACAAAGTGAATAGTGGAAAGGAGAAATTACAAGAATAGTCCCTAAAAATT
109316637 CTACGACTTTTGCAAATCAGCCCAGATAAGTTCATATAGCAAAGTTTAATGTTTTATCATGAAAA
196 CTACGACTTTTGCAAATCAGCCCAGATAAGTTCATATAGCAAAGTTTAATGTTTTATCATGAAAA
109316702 TATTATGATTACTAAGGTATCTTATTGTAGATGAACATTATCAGATTGTATTAATTACC
261 TATTATGATTACTAAGGTATCTTATTGTAGATGAACATTATCAGATTGTATTAATTACC
109316761 AAATTGAGTAGGGACTAAATTGTAGAAACTGAAAAGTTTGAGGTAATAGTGTAATTTCAAAAATT
1 AAATTGAGTAGGGACTAAATTGTAGAAACTGAAAAGTTTGAGGTAATAGTGTAATTTCAAAAATT
109316826 AAAGGACATAAATTGTGAAGTAGAATTGAATTGAATTAGATGCTAATGAAGGAATGATTTTATAA
66 AAAGGACATAAATTGTGAAGTAGAATTGAATTGAATTAGATGCTAATGAAGGAATGATTTTATAA
109316891 TTATAGATCAATAAAACAAAGTGAATAGTGGAAAGGAGAAATTACAAGAATAGTCCCTAAAAATT
131 TTATAGATCAATAAAACAAAGTGAATAGTGGAAAGGAGAAATTACAAGAATAGTCCCTAAAAATT
109316956 CTACGACTTTTGCAAATCAGCCCAGATAAGTTCATATAGCAAAGTTTAATGTTTTATCATGAAAA
196 CTACGACTTTTGCAAATCAGCCCAGATAAGTTCATATAGCAAAGTTTAATGTTTTATCATGAAAA
109317021 TATTATGATTACTAAGGTATCTTATTGTAGATGAACATTATCAGATTGTATTAATTACC
261 TATTATGATTACTAAGGTATCTTATTGTAGATGAACATTATCAGATTGTATTAATTACC
109317080 AAAT
1 AAAT
109317084 GATATTTAAC
Statistics
Matches: 323, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
319 323 1.00
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (319 bp):
AAATTGAGTAGGGACTAAATTGTAGAAACTGAAAAGTTTGAGGTAATAGTGTAATTTCAAAAATT
AAAGGACATAAATTGTGAAGTAGAATTGAATTGAATTAGATGCTAATGAAGGAATGATTTTATAA
TTATAGATCAATAAAACAAAGTGAATAGTGGAAAGGAGAAATTACAAGAATAGTCCCTAAAAATT
CTACGACTTTTGCAAATCAGCCCAGATAAGTTCATATAGCAAAGTTTAATGTTTTATCATGAAAA
TATTATGATTACTAAGGTATCTTATTGTAGATGAACATTATCAGATTGTATTAATTACC
Found at i:109317307 original size:53 final size:53
Alignment explanation
Indices: 109317166--109317325 Score: 181
Period size: 52 Copynumber: 3.1 Consensus size: 53
109317156 TGACGGAATA
* *
109317166 GATGTGATAA-GTGCGC-CCGTATAAGACCATAGT-TGGGCTATGACATCGGTGT
1 GATGTGATAATGTGC-CTCCGTATAAGACCATA-TCTGGGCTATGGCATCGGTAT
* *
109317218 -ATTGTGAT-ATGT-ACTCCCGTATAAGACCATGA-CTGGGCTATGGCATCAGTAT
1 GA-TGTGATAATGTGCCT-CCGTATAAGACCAT-ATCTGGGCTATGGCATCGGTAT
*
109317270 GATGTGATAATGTGCCTCCGTATAAGACCATATCTGGGATATGGCATCGGTAT
1 GATGTGATAATGTGCCTCCGTATAAGACCATATCTGGGCTATGGCATCGGTAT
109317323 GAT
1 GAT
109317326 ATGTGATCTG
Statistics
Matches: 91, Mismatches: 7, Indels: 19
0.78 0.06 0.16
Matches are distributed among these distances:
50 1 0.01
51 2 0.02
52 45 0.49
53 41 0.45
54 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (53 bp):
GATGTGATAATGTGCCTCCGTATAAGACCATATCTGGGCTATGGCATCGGTAT
Found at i:109317388 original size:46 final size:46
Alignment explanation
Indices: 109317286--109317389 Score: 154
Period size: 46 Copynumber: 2.3 Consensus size: 46
109317276 ATAATGTGCC
* * *
109317286 TCCGTATAAGACCATATCTGGGATATGGCATCGGTATGATATGTGA
1 TCCGTATAAGACCATATCTGGAATATGGCATCGGTATGATACGTAA
* *
109317332 TCTGTATAAGACCATATCTGGAATATGGTATCGGTATGATACGTAA
1 TCCGTATAAGACCATATCTGGAATATGGCATCGGTATGATACGTAA
*
109317378 TCCGTGTAAGAC
1 TCCGTATAAGAC
109317390 TATGGCAGGG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (46 bp):
TCCGTATAAGACCATATCTGGAATATGGCATCGGTATGATACGTAA
Found at i:109324933 original size:46 final size:46
Alignment explanation
Indices: 109324876--109324982 Score: 169
Period size: 46 Copynumber: 2.3 Consensus size: 46
109324866 ATAATGTGCC
* * *
109324876 TCCGTAGAAGACCATATCTGGGATATGGCATCGGTATGATATGTGA
1 TCCGTATAAGACCATATCTGAGATATGGCATCAGTATGATATGTGA
*
109324922 TCTGTATAAGACCATATCTGAGATATGGCATCAGTATGATATGTGA
1 TCCGTATAAGACCATATCTGAGATATGGCATCAGTATGATATGTGA
*
109324968 TCCGTGTAAGACCAT
1 TCCGTATAAGACCAT
109324983 GGCAGGGCTA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (46 bp):
TCCGTATAAGACCATATCTGAGATATGGCATCAGTATGATATGTGA
Found at i:109324995 original size:46 final size:46
Alignment explanation
Indices: 109324812--109324996 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 46
109324802 CGGTGTATTG
* *
109324812 TGATATGT-ACTCCAGTATAAGACCATGGCTGGGCTATGGCATCAGTATGA
1 TGATATGTGA-TCC-GTATAAGACCATAGCTGGGATATGGCATCAG--T-A
* * * *
109324862 TGTGATAATGTGCCTCCGTAGAAGACCATATCTGGGATATGGCATCGGTA
1 --TGAT-ATGTG-ATCCGTATAAGACCATAGCTGGGATATGGCATCAGTA
* * *
109324912 TGATATGTGATCTGTATAAGACCATATCTGAGATATGGCATCAGTA
1 TGATATGTGATCCGTATAAGACCATAGCTGGGATATGGCATCAGTA
* * * *
109324958 TGATATGTGATCCGTGTAAGACCATGGCAGGGCTATGGC
1 TGATATGTGATCCGTATAAGACCATAGCTGGGATATGGC
109324997 TTTGGTATGT
Statistics
Matches: 112, Mismatches: 18, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
46 64 0.57
47 5 0.04
48 4 0.04
50 1 0.01
51 1 0.01
52 4 0.04
53 30 0.27
54 3 0.03
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (46 bp):
TGATATGTGATCCGTATAAGACCATAGCTGGGATATGGCATCAGTA
Found at i:109325005 original size:46 final size:46
Alignment explanation
Indices: 109324876--109325015 Score: 136
Period size: 46 Copynumber: 3.0 Consensus size: 46
109324866 ATAATGTGCC
* * * *
109324876 TCCGTAGAAGACCATATCTGGGATATGGCATCGGTATGATATGTGA
1 TCCGTATAAGACCATAGCAGAGATATGGCATCGGTATGATATGTGA
* * * *
109324922 TCTGTATAAGACCATATCTGAGATATGGCATCAGTATGATATGTGA
1 TCCGTATAAGACCATAGCAGAGATATGGCATCGGTATGATATGTGA
* * * * * *
109324968 TCCGTGTAAGACCATGGCAGGGCTATGGCTTTGGTATGTGATATGTGA
1 TCCGTATAAGACCATAGCAGAGATATGGCATCGGTA--TGATATGTGA
109325016 CTATGTGTAA
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 68 0.87
48 10 0.13
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGTATAAGACCATAGCAGAGATATGGCATCGGTATGATATGTGA
Found at i:109326009 original size:20 final size:20
Alignment explanation
Indices: 109325971--109326009 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
109325961 GACCACATGG
*
109325971 CCTACCCACACGAGTGTGTC
1 CCTACCCACACGAGCGTGTC
* *
109325991 CCTATCCACACGGGCGTGT
1 CCTACCCACACGAGCGTGT
109326010 GGCCCTGTTT
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:0.18, C:0.38, G:0.23, T:0.21
Consensus pattern (20 bp):
CCTACCCACACGAGCGTGTC
Found at i:109326557 original size:7 final size:7
Alignment explanation
Indices: 109326545--109326601 Score: 71
Period size: 7 Copynumber: 8.3 Consensus size: 7
109326535 TAGAGCATAC
109326545 ACCCTAA
1 ACCCTAA
109326552 ACCCTAA
1 ACCCTAA
109326559 ACCCTAA
1 ACCCTAA
* *
109326566 ACCTTAG
1 ACCCTAA
* *
109326573 AGCCTAC
1 ACCCTAA
109326580 ACCCTAA
1 ACCCTAA
109326587 ACCCTAA
1 ACCCTAA
109326594 ACCC-AA
1 ACCCTAA
109326600 AC
1 AC
109326602 TCAAACTCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
6 4 0.09
7 39 0.91
ACGTcount: A:0.40, C:0.42, G:0.04, T:0.14
Consensus pattern (7 bp):
ACCCTAA
Found at i:109326572 original size:35 final size:35
Alignment explanation
Indices: 109326521--109326601 Score: 137
Period size: 35 Copynumber: 2.3 Consensus size: 35
109326511 ACATAAATTT
*
109326521 TAAACCCTAAATCTTAGAGCATACACCCTAAACCC
1 TAAACCCTAAACCTTAGAGCATACACCCTAAACCC
*
109326556 TAAACCCTAAACCTTAGAGCCTACACCCTAAACCC
1 TAAACCCTAAACCTTAGAGCATACACCCTAAACCC
109326591 TAAACCC-AAAC
1 TAAACCCTAAAC
109326602 TCAAACTCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
34 4 0.09
35 40 0.91
ACGTcount: A:0.41, C:0.37, G:0.05, T:0.17
Consensus pattern (35 bp):
TAAACCCTAAACCTTAGAGCATACACCCTAAACCC
Found at i:109327067 original size:14 final size:14
Alignment explanation
Indices: 109327048--109327077 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
109327038 AAATTATTAA
*
109327048 TTATTAATAATATT
1 TTATTAAAAATATT
109327062 TTATTAAAAATATT
1 TTATTAAAAATATT
109327076 TT
1 TT
109327078 TGTAGAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTATTAAAAATATT
Found at i:109329937 original size:25 final size:23
Alignment explanation
Indices: 109329886--109329938 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
109329876 CCCTATACTT
* *
109329886 TTATTTTTAAGAATTTAATCTAT
1 TTATTTTTAAGAATTTAATCCAA
*
109329909 TTATTTTTTAGAATTTCAAGTCCAA
1 TTATTTTTAAGAATTT-AA-TCCAA
109329934 TTATT
1 TTATT
109329939 AACACTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 15 0.60
24 2 0.08
25 8 0.32
ACGTcount: A:0.32, C:0.08, G:0.06, T:0.55
Consensus pattern (23 bp):
TTATTTTTAAGAATTTAATCCAA
Found at i:109331494 original size:6 final size:6
Alignment explanation
Indices: 109331483--109331512 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
109331473 GAAAGGAAAC
109331483 AATGAG AATGAG AATGAG AATGAG AATGAG
1 AATGAG AATGAG AATGAG AATGAG AATGAG
109331513 CATGGGGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (6 bp):
AATGAG
Found at i:109334703 original size:16 final size:16
Alignment explanation
Indices: 109334682--109334712 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
109334672 CATTTTATTT
*
109334682 ATATTAGGATAATTAA
1 ATATTAAGATAATTAA
109334698 ATATTAAGATAATTA
1 ATATTAAGATAATTA
109334713 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
ATATTAAGATAATTAA
Found at i:109334741 original size:28 final size:27
Alignment explanation
Indices: 109334678--109334742 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
109334668 ACTTCATTTT
109334678 ATTTATATTAGGATAATTAAATATTAAG
1 ATTT-TATTAGGATAATTAAATATTAAG
* * * *
109334706 ATAATTATTAGGATTATTTAAATTTTAGG
1 AT-TTTATTAGGA-TAATTAAATATTAAG
109334735 ATTTTATT
1 ATTTTATT
109334743 TTAATTATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (27 bp):
ATTTTATTAGGATAATTAAATATTAAG
Found at i:109341165 original size:3 final size:3
Alignment explanation
Indices: 109341157--109341189 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
109341147 ATTTCTAATT
109341157 TTA TTA TTA TTA TTA TTA TT- TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
109341190 TCAATTTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (3 bp):
TTA
Found at i:109341171 original size:9 final size:8
Alignment explanation
Indices: 109341160--109341221 Score: 52
Period size: 8 Copynumber: 6.9 Consensus size: 8
109341150 TCTAATTTTA
109341160 TTATTATT
1 TTATTATT
109341168 ATTATTATT
1 -TTATTATT
109341177 TTATTATT
1 TTATTATT
109341185 TTATTTCAATT
1 TTA-TT--ATT
*
109341196 TGTTTTATTT
1 T-TATTA-TT
109341206 TTAATTATT
1 TT-ATTATT
109341215 TTATTAT
1 TTATTAT
109341222 ATTAATAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
8 16 0.36
9 16 0.36
10 6 0.13
11 6 0.13
12 1 0.02
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (8 bp):
TTATTATT
Found at i:109341179 original size:20 final size:20
Alignment explanation
Indices: 109341154--109341225 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
109341144 TTTATTTCTA
109341154 ATTTTATTATTATTATTATT
1 ATTTTATTATTATTATTATT
*
109341174 ATTTTATTATT-TTATT-TC
1 ATTTTATTATTATTATTATT
* * *
109341192 AATTTGTT-TTATTTTTAATT
1 ATTTTATTATTATTATT-ATT
109341212 ATTTTATTA-TATTA
1 ATTTTATTATTATTA
109341226 ATAAAATTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
17 2 0.05
18 11 0.28
19 5 0.12
20 22 0.55
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (20 bp):
ATTTTATTATTATTATTATT
Found at i:109341736 original size:9 final size:9
Alignment explanation
Indices: 109341722--109341747 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
109341712 GCTGGTTTGG
109341722 TTGTTGCTA
1 TTGTTGCTA
109341731 TTGTTGCTA
1 TTGTTGCTA
109341740 TTGTTGCT
1 TTGTTGCT
109341748 GGCTCACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.58
Consensus pattern (9 bp):
TTGTTGCTA
Found at i:109353699 original size:21 final size:21
Alignment explanation
Indices: 109353673--109353714 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
109353663 CACCAAATTG
*
109353673 AAAAAATAAAAATTTATAAAA
1 AAAAAATAAAAATTTAGAAAA
* *
109353694 AAAAAATTAAACTTTAGAAAA
1 AAAAAATAAAAATTTAGAAAA
109353715 TTACAAAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (21 bp):
AAAAAATAAAAATTTAGAAAA
Found at i:109360705 original size:44 final size:46
Alignment explanation
Indices: 109360627--109360712 Score: 131
Period size: 44 Copynumber: 1.9 Consensus size: 46
109360617 TATAATTGAG
109360627 TAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGGAATGGAA
1 TAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGGAATGGAA
* **
109360673 TAGAGCTGTAAT-AG-CATTCTTTTGTTTGGTTGAATGGAAT
1 TAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGGAAT
109360713 AGATATTGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 23 0.62
45 2 0.05
46 12 0.32
ACGTcount: A:0.29, C:0.07, G:0.26, T:0.38
Consensus pattern (46 bp):
TAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGGAATGGAA
Found at i:109360941 original size:58 final size:60
Alignment explanation
Indices: 109360810--109360947 Score: 156
Period size: 58 Copynumber: 2.3 Consensus size: 60
109360800 TTATTAAATT
* * * * * *
109360810 TTAATA-AATTTATTGTTAAATATATTTTAATAAAAATAAAAATAAATAGTTTAATCATATTT
1 TTAATATAA-TTATTATTAAATACAATTTAATAAAAAT--AAATAAATAATTTAATAATATTC
* *
109360872 TTAATGTAATTATTATTAAATACAATTTAAT-AAAAT-AATATATAATTTAATAATATTC
1 TTAATATAATTATTATTAAATACAATTTAATAAAAATAAATAAATAATTTAATAATATTC
109360930 TTAATATAATTATTATTA
1 TTAATATAATTATTATTA
109360948 TATGAATTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
58 35 0.53
61 5 0.08
62 24 0.36
63 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (60 bp):
TTAATATAATTATTATTAAATACAATTTAATAAAAATAAATAAATAATTTAATAATATTC
Found at i:109363520 original size:12 final size:12
Alignment explanation
Indices: 109363503--109363537 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
109363493 TTTAGATTTA
*
109363503 TTATTATTGTTG
1 TTATTATTATTG
109363515 TTATTATTATTG
1 TTATTATTATTG
*
109363527 TTATCATTATT
1 TTATTATTATT
109363538 ATTTACATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.23, C:0.03, G:0.09, T:0.66
Consensus pattern (12 bp):
TTATTATTATTG
Found at i:109363520 original size:15 final size:15
Alignment explanation
Indices: 109363500--109363540 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
109363490 AAATTTAGAT
*
109363500 TTATTATTATTGTTG
1 TTATTATTATTGTTA
109363515 TTATTATTATTGTTA
1 TTATTATTATTGTTA
*
109363530 TCATTATTATT
1 TTATTATTATT
109363541 TACATTGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.66
Consensus pattern (15 bp):
TTATTATTATTGTTA
Found at i:109367216 original size:19 final size:19
Alignment explanation
Indices: 109367192--109367246 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
109367182 CAACGCCTCT
109367192 TTTGCATT-CATTTCATTCA
1 TTTGCATTACATTTCA-TCA
109367211 TTTGCATTACATTTCATCA
1 TTTGCATTACATTTCATCA
* *
109367230 TATGCATTAAATTTCAT
1 TTTGCATTACATTTCAT
109367247 GAAAAGACGC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 26 0.79
20 7 0.21
ACGTcount: A:0.27, C:0.18, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTGCATTACATTTCATCA
Found at i:109375489 original size:88 final size:88
Alignment explanation
Indices: 109375382--109375666 Score: 237
Period size: 88 Copynumber: 3.2 Consensus size: 88
109375372 AAGATTGTAG
* * *
109375382 TCTTATCTTCTTGAGGTAGCGAGGAAGCAGACTTGAGATTGAAGATCTTATCTCCCTAAGCAGTA
1 TCTTATCTTCCTGAGGTAGCGAGGAAGCAGGCTTGAGATTGAAGATCTTATCTCTCTAAGCAGTA
109375447 GTGGAGCAGATCGAAGTTGGGAA
66 GTGGAGCAGATCGAAGTTGGGAA
* * * * * * * *
109375470 TCTTATCTTCCCGAGGTAGC-AGGGGAGCAGGTTTTAG--CGACCAG-CCTTATCTCTTTGAG--
1 TCTTATCTTCCTGAGGTAGCGA-GGAAGCAGGCTTGAGATTGA--AGATCTTATCTCTCTAAGCA
* * * ** *
109375529 GTAGCAAGAGAGCAGGT-TAAGGATT-ATAG
63 GTAG--TG-GAGCAGATCGAA-G-TTGGGAA
*
109375558 TCTTATCTTCCTGAGGTAGCGAGGAAGCAGGC-TGAAAATTGAAGATCTTATCTCTCTAAGCAGT
1 TCTTATCTTCCTGAGGTAGCGAGGAAGCAGGCTTG-AGATTGAAGATCTTATCTCTCTAAGCAGT
*
109375622 AGTGGAGCAGATCGAAGATGGTGAA
65 AGTGGAGCAGATCGAAGTTGG-GAA
*
109375647 TCTTATCTTCCTAAGGTAGC
1 TCTTATCTTCCTGAGGTAGC
109375667 AGGGGAGCAG
Statistics
Matches: 145, Mismatches: 34, Indels: 35
0.68 0.16 0.16
Matches are distributed among these distances:
85 4 0.03
86 2 0.01
87 17 0.12
88 78 0.54
89 38 0.26
90 2 0.01
91 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (88 bp):
TCTTATCTTCCTGAGGTAGCGAGGAAGCAGGCTTGAGATTGAAGATCTTATCTCTCTAAGCAGTA
GTGGAGCAGATCGAAGTTGGGAA
Found at i:109375632 original size:176 final size:177
Alignment explanation
Indices: 109375338--109375810 Score: 686
Period size: 177 Copynumber: 2.7 Consensus size: 177
109375328 GAATTCACAA
* * * *
109375338 CCTTATCTCTCTGAGGTTGTAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCTTGAGGTAGCG
1 CCTTATCTCTTTGAGGTTGCAAGAGAGCAGGTTGAAGATTATAGTCTTATCTTCCTGAGGTAGCG
* * *
109375403 AGGAAGCAGACTTG-AGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTTGG
66 AGGAAGCAGAC-TGAAAATTGAAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGATGG
* *
109375467 -GAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGGTTTTAGCGACCAG
130 TGAATCTTATCTTCCCAAGGTAGCAGGGGAGCAGGTTTTAGCCACCAG
*
109375514 CCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTT-AAGGATTATAGTCTTATCTTCCTGAGGTAGC
1 CCTTATCTCTTTGAGGTTGCAAGAGAGCAGGTTGAA-GATTATAGTCTTATCTTCCTGAGGTAGC
*
109375578 GAGGAAGCAGGCTGAAAATTGAAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGATGG
65 GAGGAAGCAGACTGAAAATTGAAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGATGG
*
109375643 TGAATCTTATCTTCCTAAGGTAGCAGGGGAGCAGGTTTTAGCCACCAG
130 TGAATCTTATCTTCCCAAGGTAGCAGGGGAGCAGGTTTTAGCCACCAG
* * * *
109375691 CCTTATCTCTTTGAGGTTGCAAAAGAGCAGGTTGAAGATTGA-AGTCTTATCTTCGTAAGGTAAC
1 CCTTATCTCTTTGAGGTTGCAAGAGAGCAGGTTGAAGATT-ATAGTCTTATCTTCCTGAGGTAGC
* * * **
109375755 AAGAAAGCAGACT-AAGAATTGAAAATCTCGTCTCTCTAAGCAGTAGTGGAGCAGAT
65 GAGGAAGCAGACTGAA-AATTGAAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGAT
109375811 TTAAGCCACC
Statistics
Matches: 268, Mismatches: 23, Indels: 11
0.89 0.08 0.04
Matches are distributed among these distances:
175 4 0.01
176 116 0.43
177 145 0.54
178 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (177 bp):
CCTTATCTCTTTGAGGTTGCAAGAGAGCAGGTTGAAGATTATAGTCTTATCTTCCTGAGGTAGCG
AGGAAGCAGACTGAAAATTGAAGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGATGGT
GAATCTTATCTTCCCAAGGTAGCAGGGGAGCAGGTTTTAGCCACCAG
Found at i:109375972 original size:44 final size:44
Alignment explanation
Indices: 109375922--109376066 Score: 125
Period size: 44 Copynumber: 3.3 Consensus size: 44
109375912 CTTATCCGAT
*
109375922 GTTACAGTGGGGCAGGATGAAGTTACGAGTCCTATCTCCCTAAA
1 GTTACAGTGGAGCAGGATGAAGTTACGAGTCCTATCTCCCTAAA
* ** *
109375966 GTTACAGTGGAGCA-GATTGAAGATA-GCAAACCTTATCTCTCTGAAA
1 GTTACAGTGGAGCAGGA-TGAAGTTACG-AGTCC-TATCTCCCT-AAA
* * * * *
109376012 -TTACAATGGAGCAGGCTGAAGTCACAAGTCTTATCTCCCTAAA
1 GTTACAGTGGAGCAGGATGAAGTTACGAGTCCTATCTCCCTAAA
* *
109376055 GTTGCAGCGGAG
1 GTTACAGTGGAG
109376067 TAGATTAAAA
Statistics
Matches: 77, Mismatches: 17, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
43 6 0.08
44 39 0.51
45 28 0.36
46 4 0.05
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (44 bp):
GTTACAGTGGAGCAGGATGAAGTTACGAGTCCTATCTCCCTAAA
Found at i:109376053 original size:89 final size:89
Alignment explanation
Indices: 109375843--109376097 Score: 248
Period size: 89 Copynumber: 2.9 Consensus size: 89
109375833 TGAGCAGCTG
* * * * * * * **
109375843 TGGAGTAGGTTGAAATCAACAATTCTTATCTCCCTGAAGTTGCAACGGAGCAGATTGAAGCTATA
1 TGGAGCAGGATGAAGTC-ACAAGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGATTGAAGATAGC
** *
109375908 AAACCTTA--TC-C-GATGTTACAG
65 AAACCTTATCTCTCTGAAATTACAA
* * * * * *
109375929 TGGGGCAGGATGAAGTTACGAGTCCTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGATAGCA
1 TGGAGCAGGATGAAGTCACAAGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGATTGAAGATAGCA
109375994 AACCTTATCTCTCTGAAATTACAA
66 AACCTTATCTCTCTGAAATTACAA
* * * * * *
109376018 TGGAGCAGGCTGAAGTCACAAGTCTTATCTCCCTAAAGTTGCAGCGGAGTAGATTAAAAATGGCG
1 TGGAGCAGGATGAAGTCACAAGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGATTGAAGATAGCA
*
109376083 AATCTTATCTCTCTG
66 AACCTTATCTCTCTG
109376098 GAGTTGGAGT
Statistics
Matches: 134, Mismatches: 31, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
85 45 0.34
86 12 0.09
87 2 0.01
88 1 0.01
89 74 0.55
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (89 bp):
TGGAGCAGGATGAAGTCACAAGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGATTGAAGATAGCA
AACCTTATCTCTCTGAAATTACAA
Found at i:109376144 original size:31 final size:31
Alignment explanation
Indices: 109376084--109376145 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
109376074 AAAATGGCGA
* **
109376084 ATCTTATCTCTCTGGAGTTGGAGTAGAGCAG
1 ATCTTATCTCTCTGAAGTTACAGTAGAGCAG
*
109376115 ATCTTATCTCTCTGAAGTTACAGTGGAGCAG
1 ATCTTATCTCTCTGAAGTTACAGTAGAGCAG
109376146 GTTGAAGTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (31 bp):
ATCTTATCTCTCTGAAGTTACAGTAGAGCAG
Found at i:109376166 original size:44 final size:43
Alignment explanation
Indices: 109376115--109376396 Score: 160
Period size: 45 Copynumber: 6.5 Consensus size: 43
109376105 AGTAGAGCAG
*
109376115 ATCTTATCTCTCTGAAGTTACAGTGGAGCAGGTTGAAGTCACA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTCACA
* * ** ** * **
109376158 AGTCTTATCTCTCTGAAGTTGCAGCGGAACAAACTAAAAATGGCGA
1 A-TCTTATCTCTCTGAAGTTGCAGTGGAGC-AGGTTGAAGTCAC-A
* * * *
109376204 ATCTTATCTCTCTGAAGTTGTAGTAGAGCA-GATCATAG-CA-A
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGA-AGTCACA
*
109376245 ACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTCACA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTCACA
* * * * * * ** * **
109376288 AGTCTTACCT-TCTTGAAGTTACAGCGAATCAGACTAAAAATGGCGA
1 A-TCTTATCTCTC-TGAAGTTGCAGTGGAGCAG-GTTGAAGTCAC-A
* * **
109376334 ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAAACTA-A
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTC-ACA
* *
109376377 ACCTTATTTCTCTGAAGTTG
1 ATCTTATCTCTCTGAAGTTG
109376397 TGGTGGAATA
Statistics
Matches: 172, Mismatches: 54, Indels: 26
0.68 0.21 0.10
Matches are distributed among these distances:
41 30 0.17
42 5 0.03
43 24 0.14
44 52 0.30
45 56 0.33
46 5 0.03
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (43 bp):
ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTCACA
Found at i:109376210 original size:120 final size:122
Alignment explanation
Indices: 109375997--109376364 Score: 474
Period size: 120 Copynumber: 3.0 Consensus size: 122
109375987 GATAGCAAAC
* * * * *
109375997 CTTATCTCTCTGAAATTACAATGGAGCAGGCTGAAGTCACAAGTCTTATCTCCCTAAAGTTGCAG
1 CTTATCTCTCTGAAGTTACAGTGGAGCAGGTTGAAGTCACAAGTCTTATCTCTCTGAAGTTGCAG
** * * *
109376062 CGGAGTAGATTAAAAATGGCGAATCTTATCTCTCTGGAGTTGGAGTAGAGCAG-AT-
66 CGGAACAGACTAAAAATGGCGAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGAATA
109376117 CTTATCTCTCTGAAGTTACAGTGGAGCAGGTTGAAGTCACAAGTCTTATCTCTCTGAAGTTGCAG
1 CTTATCTCTCTGAAGTTACAGTGGAGCAGGTTGAAGTCACAAGTCTTATCTCTCTGAAGTTGCAG
*
109376182 CGGAACAAACTAAAAATGGCGAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCATAGCAAA
66 CGGAACAGACTAAAAATGGCGAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGA--AT-----A
* * *
109376246 CCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTCACAAGTCTTACCT-TCTTGAAGTTAC
1 -CTTATCTCTCTGAAGTTACAGTGGAGCAGGTTGAAGTCACAAGTCTTATCTCTC-TGAAGTTGC
* *
109376310 AGC-GAATCAGACTAAAAATGGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAG
64 AGCGGAA-CAGACTAAAAATGGCGAATCTTATCTCTCTGAAGTTGTAGTAGAGCAG
109376365 GTTGAAAACT
Statistics
Matches: 219, Mismatches: 17, Indels: 14
0.88 0.07 0.06
Matches are distributed among these distances:
120 107 0.49
123 2 0.01
129 5 0.02
130 105 0.48
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (122 bp):
CTTATCTCTCTGAAGTTACAGTGGAGCAGGTTGAAGTCACAAGTCTTATCTCTCTGAAGTTGCAG
CGGAACAGACTAAAAATGGCGAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGAATA
Found at i:109376350 original size:130 final size:132
Alignment explanation
Indices: 109376117--109376396 Score: 415
Period size: 130 Copynumber: 2.1 Consensus size: 132
109376107 TAGAGCAGAT
* * *
109376117 CTTATCTCTCTGAAGTTACAGTGGAGCAGGTTGAAGTCACAAGTCTTATCTCTCTGAAGTTGCAG
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTCACAAGTCTTACCTCTCTGAAGTTACAG
* * *
109376182 CGGAACAAACTAAAAATGGCGAATCTTATCTCTCTGAAGTTGTAGTAGAGCA-GATCATAGC-AA
66 CGGAACAAACTAAAAATGGCGAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGGATCAAAACTAA
109376245 AC
131 AC
109376247 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTCACAAGTCTTACCT-TCTTGAAGTTACA
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTCACAAGTCTTACCTCTC-TGAAGTTACA
* * * *
109376311 GC-GAATCAGACTAAAAATGGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAAACT
65 GCGGAA-CAAACTAAAAATGGCGAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGGATCAAAACT
109376375 AAAC
129 AAAC
*
109376379 CTTATTTCTCTGAAGTTG
1 CTTATCTCTCTGAAGTTG
109376397 TGGTGGAATA
Statistics
Matches: 135, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
129 5 0.04
130 104 0.77
131 5 0.04
132 21 0.16
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (132 bp):
CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTCACAAGTCTTACCTCTCTGAAGTTACAG
CGGAACAAACTAAAAATGGCGAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGGATCAAAACTAA
AC
Found at i:109378072 original size:12 final size:12
Alignment explanation
Indices: 109378055--109378086 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
109378045 AAATTTAGAT
109378055 TTATTATTGTTA
1 TTATTATTGTTA
109378067 TTATTATTGTTA
1 TTATTATTGTTA
*
109378079 TCATTATT
1 TTATTATT
109378087 ATTTACGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.66
Consensus pattern (12 bp):
TTATTATTGTTA
Found at i:109380732 original size:16 final size:16
Alignment explanation
Indices: 109380707--109380740 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
109380697 AGGTAAGTAT
* *
109380707 TGATATTTGAGTTGAA
1 TGATAATTGAATTGAA
109380723 TGATAATTGAATTGAA
1 TGATAATTGAATTGAA
109380739 TG
1 TG
109380741 GTAAATGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (16 bp):
TGATAATTGAATTGAA
Found at i:109380955 original size:23 final size:23
Alignment explanation
Indices: 109380929--109381015 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
109380919 GCTTTACTGA
* *
109380929 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
109380952 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
109380973 TCAGGCACCTCGTGTGTC--ATT
1 TCAGGCACCTCATGTGTCGTATT
* * *
109380994 TTAGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
109381016 ACTGATCAGG
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
19 1 0.02
21 32 0.60
23 20 0.38
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:109380976 original size:21 final size:22
Alignment explanation
Indices: 109380941--109380990 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
109380931 AGGCACTTTA
109380941 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA-TTCAGGCACCTCG
109380964 TGTGTCGTA-TCAGGCACCTCG
1 TGTGTCGTATTCAGGCACCTCG
109380985 TGTGTC
1 TGTGTC
109380991 ATTTTAGGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 18 0.67
23 9 0.33
ACGTcount: A:0.12, C:0.26, G:0.28, T:0.34
Consensus pattern (22 bp):
TGTGTCGTATTCAGGCACCTCG
Found at i:109383111 original size:21 final size:21
Alignment explanation
Indices: 109383086--109383129 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
109383076 AAACCATCCA
109383086 AAAATACAATACTACTTAATC
1 AAAATACAATACTACTTAATC
*
109383107 AAAATGCAATACTACTTAATC
1 AAAATACAATACTACTTAATC
109383128 AA
1 AA
109383130 TACTACTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.52, C:0.18, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAATACAATACTACTTAATC
Found at i:109388119 original size:33 final size:36
Alignment explanation
Indices: 109388082--109388153 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
109388072 ATTCCCACGT
*
109388082 CAAATTGAAAGAG-AAAAGA-A-AATAATTC-AATTC
1 CAAATGGAAAGAGAAAAAGAGAGAATAA-TCAAATTC
*
109388115 CAAATGGAAATAGAAAAAGAGAGAATAATCAAATTC
1 CAAATGGAAAGAGAAAAAGAGAGAATAATCAAATTC
109388151 CAA
1 CAA
109388154 TGTGAAGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
33 11 0.33
34 6 0.18
35 3 0.09
36 13 0.39
ACGTcount: A:0.58, C:0.10, G:0.14, T:0.18
Consensus pattern (36 bp):
CAAATGGAAAGAGAAAAAGAGAGAATAATCAAATTC
Found at i:109394109 original size:22 final size:23
Alignment explanation
Indices: 109394066--109394176 Score: 97
Period size: 23 Copynumber: 4.9 Consensus size: 23
109394056 TGCAGCCCGC
* *
109394066 ATGAGCTTATCGTTTCAACTCTT
1 ATGAGCTTACCGTTTCAGCTCTT
109394089 ATGAGCTTACCG-TTCAGCTCTT
1 ATGAGCTTACCGTTTCAGCTCTT
109394111 CA-GAGCTTACCGTTTCAG-TCTTT
1 -ATGAGCTTACCGTTTCAGCTC-TT
* * * *
109394134 AGGGGTTTACCGTTTCAACTC-T
1 ATGAGCTTACCGTTTCAGCTCTT
*
109394156 ACGAAGCTTACCGTTT-AGCTC
1 ATG-AGCTTACCGTTTCAGCTC
109394177 AATTGAGCAT
Statistics
Matches: 73, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
22 29 0.40
23 42 0.58
24 2 0.03
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (23 bp):
ATGAGCTTACCGTTTCAGCTCTT
Found at i:109400805 original size:40 final size:39
Alignment explanation
Indices: 109400575--109400798 Score: 265
Period size: 40 Copynumber: 5.6 Consensus size: 39
109400565 TTGAATGATG
* * * *
109400575 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
109400615 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
*
109400655 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
109400693 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
*
109400733 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
*
109400774 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
109400799 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 67 0.41
40 85 0.52
41 9 0.06
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:109400821 original size:79 final size:78
Alignment explanation
Indices: 109400575--109400798 Score: 260
Period size: 79 Copynumber: 2.8 Consensus size: 78
109400565 TTGAATGATG
* * * * *
109400575 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTA-CATAACCGGGCTAAG-TCCCGAAGGCAT
109400638 TTGTGCGAGATACTAA
63 TTGTGCGAGATACTAA
* *
109400654 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACA-AATTCCGGGCTAAG-CCCGAAGGCAT
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACATAA--CCGGGCTAAGTCCCGAAGGCAT
*
109400716 TTGTGCGAGTTACTAAA
63 TTGTGCGAGATACT-AA
*
109400733 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTAC-ATAACCGGGCTAAGTCCCGAAGGCATTT
109400798 G
65 G
109400799 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
77 1 0.01
78 35 0.28
79 55 0.44
80 33 0.26
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAA
Found at i:109400829 original size:79 final size:78
Alignment explanation
Indices: 109400575--109400831 Score: 220
Period size: 79 Copynumber: 3.3 Consensus size: 78
109400565 TTGAATGATG
* * * * * *
109400575 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGA-T-A-CAAATCCGGGCTAAG-CCCGAAGGCAT
** * *
109400638 TTGTGCGAGATACTAAT
62 TTGAACGAGTTACTAAA
* *
109400655 TCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGATACAAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACAAA-TCCGGGCTAAGCCCGAAGGCATTTG
**
109400719 TGCGAGTTACTAAA
65 AACGAGTTACTAAA
* * *
109400733 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATAC-A-AATCCGGGCTAAG-CCCGAAGGCATT
*
109400797 TGAACGAG-TAGCTATA
63 TGAACGAGTTA-CTAAA
*
109400813 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAATCCCGAAGG
109400832 TACGTGATTT
Statistics
Matches: 151, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
78 35 0.23
79 70 0.46
80 43 0.28
81 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACAAATCCGGGCTAAGCCCGAAGGCATTTGA
ACGAGTTACTAAA
Found at i:109404494 original size:48 final size:48
Alignment explanation
Indices: 109404438--109404606 Score: 221
Period size: 48 Copynumber: 3.5 Consensus size: 48
109404428 TATGTCCTAG
*
109404438 ACATGGTCTTACACTAGCTCTCGTAACAATGCCGATGCCATGTTCCAA
1 ACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAA
* * * * ** * * * *
109404486 ACATGGTCTTACATTGGATCACATATTAAGGCCGATGGCATGTCCCAG
1 ACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAA
*
109404534 ACATGGTCTTACACTAGCTCTCATAACAATGCTGATGCCATGTTCCAA
1 ACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAA
*
109404582 ACATGGTCTTACACTAGCTCACATA
1 ACATGGTCTTACACTAGCTCTCATA
109404607 TACCCTAATG
Statistics
Matches: 98, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 98 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (48 bp):
ACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAA
Found at i:109404604 original size:96 final size:96
Alignment explanation
Indices: 109404429--109404607 Score: 304
Period size: 96 Copynumber: 1.9 Consensus size: 96
109404419 TGCCAATGCT
* *
109404429 ATGTCCTAGACATGGTCTTACACTAGCTCTCGTAACAATGCCGATGCCATGTTCCAAACATGGTC
1 ATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACATGGTC
* *
109404494 TTACATTGGATCACATATTAAGGCCGATGGC
66 TTACACTAGATCACATATTAAGGCCGATGGC
*
109404525 ATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCTGATGCCATGTTCCAAACATGGTC
1 ATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACATGGTC
*
109404590 TTACACTAGCTCACATAT
66 TTACACTAGATCACATAT
109404608 ACCCTAATGG
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 77 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (96 bp):
ATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACATGGTC
TTACACTAGATCACATATTAAGGCCGATGGC
Found at i:109406214 original size:103 final size:102
Alignment explanation
Indices: 109406068--109406252 Score: 264
Period size: 103 Copynumber: 1.8 Consensus size: 102
109406058 TTTTTTTAAT
* * * *
109406068 GTTGGTACCTCAATTAGTCAAACCGCTAGTCAAATTGTTAAGTCTATTTTAACAAAAA-GTTTAA
1 GTTGGCACATCAATTAGTCAAACCGCTAGTCAAATTGTGAAGTCTA-TTTAA-AAAAAGGTTCAA
109406132 CCCACAAATTGGTAAAAAAAAACTATGCTTTTTTCTCAA
64 CCCACAAATTGGTAAAAAAAAACTATGCTTTTTTCTCAA
** * *
109406171 GTTGGCACATCAATTAGTCAAACTTCTAGTTAAATTGTGAAGTCTATTTAAAAAAAGGTTCAACT
1 GTTGGCACATCAATTAGTCAAACCGCTAGTCAAATTGTGAAGTCTATTTAAAAAAAGGTTCAACC
*
109406236 CACAAATTGGTACAAAA
66 CACAAATTGGTAAAAAA
109406253 CTATACTTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 5 0.07
102 27 0.38
103 40 0.56
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (102 bp):
GTTGGCACATCAATTAGTCAAACCGCTAGTCAAATTGTGAAGTCTATTTAAAAAAAGGTTCAACC
CACAAATTGGTAAAAAAAAACTATGCTTTTTTCTCAA
Found at i:109410636 original size:40 final size:40
Alignment explanation
Indices: 109410592--109410711 Score: 145
Period size: 40 Copynumber: 3.0 Consensus size: 40
109410582 TTAAGTTACC
* * *
109410592 ATAGTGAATCAAGAACAAATCTTATCCACTTTAAATAT-TT
1 ATAGTGAATCAAGAATAAATCCTATTCACTTT-AATATCTT
* * *
109410632 ATAGTGAATCAGGAATAAATCCTATTCACCTTAATTTCTT
1 ATAGTGAATCAAGAATAAATCCTATTCACTTTAATATCTT
*
109410672 TTAGTGAATCAAGAATAAATCCTATTCACTTTTAAT-TCTT
1 ATAGTGAATCAAGAATAAATCCTATTCAC-TTTAATATCTT
109410712 GAGAAGGCTT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.06
40 60 0.87
41 5 0.07
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (40 bp):
ATAGTGAATCAAGAATAAATCCTATTCACTTTAATATCTT
Found at i:109412687 original size:23 final size:25
Alignment explanation
Indices: 109412661--109412707 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
109412651 TATCATTCAT
*
109412661 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
109412684 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
109412708 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:109413028 original size:46 final size:46
Alignment explanation
Indices: 109412968--109413179 Score: 300
Period size: 46 Copynumber: 4.6 Consensus size: 46
109412958 TTTGACGTGA
* * * *
109412968 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTC-TTTTCATGTCACGT
* *
109413014 TGCCATGGTATCTTTCAACCATTGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
*
109413060 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
* * * * *
109413106 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
109413152 TGCCATGGTATCTTTCAACCATGGTCTT
1 TGCCATGGTATCTTTCAACCATGGTCTT
109413180 CCACATTTCA
Statistics
Matches: 152, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 5 0.03
46 147 0.97
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCTTTTCATGTCACGT
Found at i:109418304 original size:29 final size:30
Alignment explanation
Indices: 109418245--109418302 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
109418235 TCCGAGCCTT
*
109418245 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
109418275 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
109418303 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:109418532 original size:13 final size:13
Alignment explanation
Indices: 109418514--109418545 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
109418504 TTTCCAGCAA
109418514 TTATGAATTTATT
1 TTATGAATTTATT
109418527 TTATGAATTTATT
1 TTATGAATTTATT
*
109418540 TGATGA
1 TTATGA
109418546 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:109418787 original size:50 final size:50
Alignment explanation
Indices: 109418640--109418887 Score: 302
Period size: 50 Copynumber: 4.8 Consensus size: 50
109418630 ATTTGGGTAA
* *
109418640 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--G
*
109418696 AGAGGTCCC-TGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* *
109418745 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * * *
109418795 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA-GACG
** *
109418845 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
109418888 TGTTATTATC
Statistics
Matches: 171, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
49 11 0.06
50 81 0.47
51 35 0.20
52 3 0.02
54 2 0.01
55 31 0.18
56 8 0.05
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:109418833 original size:105 final size:102
Alignment explanation
Indices: 109418640--109418888 Score: 353
Period size: 100 Copynumber: 2.4 Consensus size: 102
109418630 ATTTGGGTAA
109418640 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
109418705 TGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 TATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
109418745 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGT-CCCTA
109418807 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
65 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
109418845 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
109418889 GTTATTATCA
Statistics
Matches: 132, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
99 10 0.08
100 43 0.33
101 37 0.28
104 2 0.02
105 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (102 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCTAT
AAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:109421784 original size:12 final size:12
Alignment explanation
Indices: 109421769--109421800 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
109421759 ATTTTTATTT
109421769 TTATTTATTTAC
1 TTATTTATTTAC
109421781 TTATTTATTTAC
1 TTATTTATTTAC
109421793 TTAGTTTA
1 TTA-TTTA
109421801 AATTTTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (12 bp):
TTATTTATTTAC
Found at i:109430675 original size:29 final size:30
Alignment explanation
Indices: 109430616--109430673 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
109430606 TCCGAGCCTT
*
109430616 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
109430646 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
109430674 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:109430903 original size:13 final size:13
Alignment explanation
Indices: 109430885--109430916 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
109430875 TTTCCAGCAA
109430885 TTATGAATTTATT
1 TTATGAATTTATT
109430898 TTATGAATTTATT
1 TTATGAATTTATT
*
109430911 TGATGA
1 TTATGA
109430917 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:109431124 original size:50 final size:50
Alignment explanation
Indices: 109431011--109431252 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
109431001 ATTTGGGTAA
* * *
109431011 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
109431067 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
109431117 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
109431167 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
109431217 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
109431253 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:109431200 original size:100 final size:103
Alignment explanation
Indices: 109431011--109431260 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
109431001 ATTTGGGTAA
109431011 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
109431076 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
109431117 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
109431179 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
109431217 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
109431261 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:109433158 original size:23 final size:25
Alignment explanation
Indices: 109433132--109433177 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
109433122 TATCATTCAT
*
109433132 TTCATTATAT-CA-ATATTTTATAC
1 TTCATCATATCCATATATTTTATAC
*
109433155 TTCATCATTTCCATATATTTTAT
1 TTCATCATATCCATATATTTTAT
109433178 GTATATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 2 0.11
25 9 0.47
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.54
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATAC
Found at i:109433610 original size:46 final size:46
Alignment explanation
Indices: 109433439--109433620 Score: 222
Period size: 46 Copynumber: 4.0 Consensus size: 46
109433429 TTTGACGTGA
* * * * * * *
109433439 TGCCATAGTGTCTTTCAACTATGGTTTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
109433485 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
109433531 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
109433577 TGCCATGGTATCTTTCAACCATGGTCTTCCACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
109433621 AGAGCACACT
Statistics
Matches: 120, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 4 0.03
46 116 0.97
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:109436300 original size:13 final size:13
Alignment explanation
Indices: 109436282--109436306 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109436272 ACAAAGGAAG
109436282 AAAAAATAAAGAA
1 AAAAAATAAAGAA
109436295 AAAAAATAAAGA
1 AAAAAATAAAGA
109436307 GAGGGATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAAAATAAAGAA
Found at i:109437916 original size:6 final size:6
Alignment explanation
Indices: 109437906--109437982 Score: 75
Period size: 6 Copynumber: 12.5 Consensus size: 6
109437896 GGGACGATTT
* * * **
109437906 TATTAT TATTAT TATTTAA TATTAA TA-AAA TTATTTT TATTTAA TATTAA
1 TATTAA TATTAA TA-TTAA TATTAA TATTAA -TATTAA TA-TTAA TATTAA
109437956 TATTAA TATTAA TATTAA TATTAA TAT
1 TATTAA TATTAA TATTAA TATTAA TAT
109437983 AAAATTTAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
5 2 0.03
6 49 0.82
7 9 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TATTAA
Found at i:109437938 original size:25 final size:26
Alignment explanation
Indices: 109437910--109437985 Score: 104
Period size: 25 Copynumber: 3.0 Consensus size: 26
109437900 CGATTTTATT
109437910 ATTATTATTATTTAATATTAATA-AA
1 ATTATTATTATTTAATATTAATATAA
* *
109437935 ATTATTTTTATTTAATATTAATATTA
1 ATTATTATTATTTAATATTAATATAA
*
109437961 A-TATTAATA-TTAATATTAATATAA
1 ATTATTATTATTTAATATTAATATAA
109437985 A
1 A
109437986 ATTTAAATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
24 15 0.33
25 28 0.62
26 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
ATTATTATTATTTAATATTAATATAA
Found at i:109454292 original size:16 final size:17
Alignment explanation
Indices: 109454271--109454305 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
109454261 CTTAAAATTA
*
109454271 TTATTTTAGAATTT-TT
1 TTATTTTAAAATTTATT
109454287 TTATTTTAAAATTTATT
1 TTATTTTAAAATTTATT
109454304 TT
1 TT
109454306 TATATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
TTATTTTAAAATTTATT
Found at i:109454321 original size:22 final size:21
Alignment explanation
Indices: 109454290--109454345 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
109454280 AATTTTTTTA
*
109454290 TTTTAAAATTTATTTTTATATT
1 TTTTAAAATTT-TTTTAATATT
* *
109454312 TTTTAGAATTTTTTTAATTTT
1 TTTTAAAATTTTTTTAATATT
109454333 TTTTATAAATTTT
1 TTTTA-AAATTTT
109454346 GGAATTGTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTAAAATTTTTTTAATATT
Found at i:109458454 original size:42 final size:42
Alignment explanation
Indices: 109458395--109458477 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
109458385 TCTCCTACAG
* *
109458395 CGCATATTATTAAGGAAGACAACCACGCATAAGCACGAAAAA
1 CGCATATTATAAAGGAAGACAACCACACATAAGCACGAAAAA
* *
109458437 CGCATATTATAAAGGAAGACAACCGCACATGAGCACGAAAA
1 CGCATATTATAAAGGAAGACAACCACACATAAGCACGAAAA
109458478 TCTATCGTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.47, C:0.22, G:0.18, T:0.13
Consensus pattern (42 bp):
CGCATATTATAAAGGAAGACAACCACACATAAGCACGAAAAA
Found at i:109463253 original size:55 final size:55
Alignment explanation
Indices: 109463188--109463293 Score: 160
Period size: 55 Copynumber: 1.9 Consensus size: 55
109463178 TTAATGTAAG
* * * *
109463188 AGTCGATTTAAATATATAAATAATCA-ATTCAAAAGAAACATTATTTCAACACGAT
1 AGTCGATTTAAACATATAAAAAAT-ATAGTCAAAAGAAACAGTATTTCAACACGAT
109463243 AGTCGATTTAAACATATAAAAAATATAGTCAAAAGAAACAGTATTTCAACA
1 AGTCGATTTAAACATATAAAAAATATAGTCAAAAGAAACAGTATTTCAACA
109463294 ATTAAGACAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 1 0.02
55 45 0.98
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.28
Consensus pattern (55 bp):
AGTCGATTTAAACATATAAAAAATATAGTCAAAAGAAACAGTATTTCAACACGAT
Found at i:109467457 original size:31 final size:32
Alignment explanation
Indices: 109467416--109467478 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
109467406 TTATTTATAA
*
109467416 AAGATATTTAT-TAATTAAATA-ATTATATTAT
1 AAGATATTTATGTAA-TAAATATATTAAATTAT
*
109467447 AAGATTTTTATGTAATAAATATATTAAATTAT
1 AAGATATTTATGTAATAAATATATTAAATTAT
109467479 GACAAGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (32 bp):
AAGATATTTATGTAATAAATATATTAAATTAT
Found at i:109468757 original size:22 final size:22
Alignment explanation
Indices: 109468729--109468772 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
109468719 CGAGAGTTAG
109468729 CTCGAAAATTACAGTTTGTATT
1 CTCGAAAATTACAGTTTGTATT
109468751 CTCGAAAATTACAGTTTGTATT
1 CTCGAAAATTACAGTTTGTATT
109468773 TCTATAACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (22 bp):
CTCGAAAATTACAGTTTGTATT
Found at i:109469540 original size:18 final size:18
Alignment explanation
Indices: 109469494--109469577 Score: 78
Period size: 18 Copynumber: 4.6 Consensus size: 18
109469484 AGATCGACTG
* *
109469494 TTACTGAATAATTTAATTG
1 TTACTGAATAACTT-ATTA
109469513 TTACTGAATAACTTATTA
1 TTACTGAATAACTTATTA
* * *
109469531 TTATTGAATAATTTATTT
1 TTACTGAATAACTTATTA
* * * *
109469549 TTACCGAATAACTGACTG
1 TTACTGAATAACTTATTA
109469567 TTACTGAATAA
1 TTACTGAATAA
109469578 ATAATCGTTC
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
18 40 0.75
19 13 0.25
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (18 bp):
TTACTGAATAACTTATTA
Found at i:109469575 original size:36 final size:37
Alignment explanation
Indices: 109469489--109469577 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 37
109469479 TGGAAAGATC
*
109469489 GACTGTTACTGAATAATTTAATTGTTACTGAATAACT
1 GACTGTTACTGAATAATTTAATTGTTACCGAATAACT
* * * * *
109469526 TATTATTATTGAATAATTT-ATTTTTACCGAATAACT
1 GACTGTTACTGAATAATTTAATTGTTACCGAATAACT
109469562 GACTGTTACTGAATAA
1 GACTGTTACTGAATAA
109469578 ATAATCGTTC
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
36 27 0.64
37 15 0.36
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (37 bp):
GACTGTTACTGAATAATTTAATTGTTACCGAATAACT
Found at i:109481756 original size:35 final size:36
Alignment explanation
Indices: 109481706--109481774 Score: 88
Period size: 35 Copynumber: 1.9 Consensus size: 36
109481696 ATAACTTAAT
109481706 ATATTATAATTACATTCAATAAT-TCAAATAAAAAAA
1 ATATTATAATTACATT-AATAATCTCAAATAAAAAAA
* * *
109481742 ATATTAT-TTTACATTAATTATCTCAATTAAAAA
1 ATATTATAATTACATTAATAATCTCAAATAAAAA
109481775 TACAACATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 5 0.17
35 17 0.59
36 7 0.24
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (36 bp):
ATATTATAATTACATTAATAATCTCAAATAAAAAAA
Found at i:109485591 original size:30 final size:31
Alignment explanation
Indices: 109485565--109485624 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
109485555 ACTTAATGAT
109485565 TTAAATAAAAATTTCT-AATAATTTAATAAC
1 TTAAATAAAAATTTCTAAATAATTTAATAAC
* * * *
109485595 TTAAATGATAATTTTTAAATAATTCAATAA
1 TTAAATAAAAATTTCTAAATAATTTAATAA
109485625 TTATTTTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (31 bp):
TTAAATAAAAATTTCTAAATAATTTAATAAC
Found at i:109494553 original size:30 final size:30
Alignment explanation
Indices: 109494517--109494573 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
109494507 GGAGATAAAA
109494517 AATTGCT-TCTGTTAGTTTCTTAAGATTTAG
1 AATTGCTAT-TGTTAGTTTCTTAAGATTTAG
*
109494547 AATTGCTATTGTTAGTTTCTTGAGATT
1 AATTGCTATTGTTAGTTTCTTAAGATT
109494574 GAAAGCTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.23, C:0.09, G:0.18, T:0.51
Consensus pattern (30 bp):
AATTGCTATTGTTAGTTTCTTAAGATTTAG
Found at i:109497685 original size:12 final size:12
Alignment explanation
Indices: 109497618--109497686 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
109497608 TGATAAGGAT
*
109497618 AATATATAAAAA
1 AATATATATAAA
* *
109497630 AATATACAT-GA
1 AATATATATAAA
109497641 AATAGTATA-AAA
1 AATA-TATATAAA
* *
109497653 AATGTATATAACT
1 AATATATATAA-A
109497666 AATA-ATATAAA
1 AATATATATAAA
109497677 AATATATATA
1 AATATATATA
109497687 CATGTAATAA
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
11 13 0.30
12 27 0.63
13 3 0.07
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (12 bp):
AATATATATAAA
Found at i:109497817 original size:16 final size:16
Alignment explanation
Indices: 109497763--109497820 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
109497753 AAAATTGCAT
* * *
109497763 AATAAAATATACGAAT
1 AATATAATATATGAAA
* *
109497779 AATATGATATATAAAAA
1 AATATAATATAT-GAAA
*
109497796 AATATAATATATGAAC
1 AATATAATATATGAAA
109497812 AATATAATA
1 AATATAATA
109497821 AAAAAATACC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
16 20 0.61
17 13 0.39
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.29
Consensus pattern (16 bp):
AATATAATATATGAAA
Found at i:109498042 original size:18 final size:18
Alignment explanation
Indices: 109498019--109498065 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
109498009 GTATAAGTAG
109498019 ATATAATAAT-AAATAATA
1 ATATAATAATAAAAT-ATA
* *
109498037 ATATAAAAAGAAAATATA
1 ATATAATAATAAAATATA
109498055 ATATAATAATA
1 ATATAATAATA
109498066 GTGATAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
ATATAATAATAAAATATA
Found at i:109498074 original size:12 final size:12
Alignment explanation
Indices: 109498057--109498085 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
109498047 AAAATATAAT
109498057 ATAATAATAGTG
1 ATAATAATAGTG
109498069 ATAATAATAGTG
1 ATAATAATAGTG
109498081 ATAAT
1 ATAAT
109498086 GTTAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (12 bp):
ATAATAATAGTG
Found at i:109498241 original size:3 final size:3
Alignment explanation
Indices: 109498222--109498256 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
109498212 TGCATATATA
* *
109498222 AAT AAA AAT ACT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
109498257 GAGTGATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:109498524 original size:29 final size:25
Alignment explanation
Indices: 109498473--109498541 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
109498463 TTAGGAAATA
109498473 ATACTATGTATAAAAATATATACAT
1 ATACTATGTATAAAAATATATACAT
*
109498498 ATACATATGTAATAAAAA-ATA-ATAT
1 ATAC-TATGT-ATAAAAATATATACAT
* *
109498523 ACACTAATGTATAATAATA
1 ATACT-ATGTATAAAAATA
109498542 ATAATAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
24 7 0.19
25 15 0.41
26 8 0.22
27 7 0.19
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.33
Consensus pattern (25 bp):
ATACTATGTATAAAAATATATACAT
Found at i:109498583 original size:147 final size:147
Alignment explanation
Indices: 109498275--109498585 Score: 385
Period size: 146 Copynumber: 2.2 Consensus size: 147
109498265 ATATTGAAAT
*
109498275 AAAAAGCAA-ATATAACAT-ATAAAAATATTAAAATAAAATAATTAGAAATAATACTATGTACAA
1 AAAAAGCAAGA-ATAATATAATAAAAATATTAAAATAAAATAATTAGAAATAATACTATGTACAA
* * *
109498338 AAATATAAGTACATATACATATATAACAAAAAATATACACTAATACTACTGCTACTACTAATAAT
65 AAATATAAGTACATATACATATATAACAAAAAATATACACTAACACTAATGCTACTAATAATAAT
109498403 AAAAATAATATAAATAAA
130 AAAAATAATATAAATAAA
* * *
109498421 AAAAAGCAAGCATAATATAATAAAAATATTAAAATAAAGTAATTAGGAAATAATACTATGTATAA
1 AAAAAGCAAGAATAATATAATAAAAATATTAAAATAAAATAATTA-GAAATAATACTATGTACAA
* * *
109498486 AAATAT-A-TACATATACATATGTAATAAAAAATA-ATA-T-ACACTAATG-TA-TAATAATAAT
65 AAATATAAGTACATATACATATATAACAAAAAATATACACTAACACTAATGCTACTAATAATAAT
*
109498544 AATAATAATGAT--ATGAAA
130 AAAAATAAT-ATAAAT-AAA
109498562 AAAGAAG-AAGAATAATAATAATAA
1 AAA-AAGCAAGAATAAT-ATAATAA
109498586 TAACAATAGT
Statistics
Matches: 146, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
140 2 0.01
141 31 0.21
142 14 0.10
143 7 0.05
144 1 0.01
145 2 0.01
146 39 0.27
147 26 0.18
148 24 0.16
ACGTcount: A:0.60, C:0.07, G:0.06, T:0.27
Consensus pattern (147 bp):
AAAAAGCAAGAATAATATAATAAAAATATTAAAATAAAATAATTAGAAATAATACTATGTACAAA
AATATAAGTACATATACATATATAACAAAAAATATACACTAACACTAATGCTACTAATAATAATA
AAAATAATATAAATAAA
Found at i:109499873 original size:8 final size:9
Alignment explanation
Indices: 109499855--109499923 Score: 50
Period size: 10 Copynumber: 7.4 Consensus size: 9
109499845 ATTAATTTAG
109499855 AAAATTTTT
1 AAAATTTTT
109499864 AAAA-TTTT
1 AAAATTTTT
**
109499872 AACTTTTTT
1 AAAATTTTT
**
109499881 ATATTTTTTT
1 A-AAATTTTT
**
109499891 TGAATTTTT
1 AAAATTTTT
109499900 AAAATTTTTT
1 AAAA-TTTTT
109499910 AAAATTTTTT
1 AAAA-TTTTT
109499920 AAAA
1 AAAA
109499924 ATATAACATT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
8 6 0.12
9 16 0.33
10 26 0.54
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (9 bp):
AAAATTTTT
Found at i:109499908 original size:10 final size:10
Alignment explanation
Indices: 109499895--109499923 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
109499885 TTTTTTTGAA
109499895 TTTTTAAAAT
1 TTTTTAAAAT
109499905 TTTTTAAAAT
1 TTTTTAAAAT
109499915 TTTTTAAAA
1 TTTTTAAAA
109499924 ATATAACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:109500000 original size:19 final size:18
Alignment explanation
Indices: 109499940--109500000 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 18
109499930 CATTTGAAAT
*
109499940 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTT-AA
*
109499958 TTTTAAAAATTATTTTTCAT
1 TTTTAAAAATTA-TTTT-AA
*
109499978 TTTTGAAAATTATTTTAA
1 TTTTAAAAATTATTTTAA
109499996 GTTTT
1 -TTTT
109500001 TTTTGGTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 9 0.26
19 10 0.29
20 16 0.46
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTAAAAATTATTTTAA
Found at i:109500001 original size:20 final size:20
Alignment explanation
Indices: 109499937--109499993 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
109499927 TAACATTTGA
* *
109499937 AATTTTTATAAA-TATTTTG
1 AATTTTTAAAAATTATTTTT
109499956 AA-TTTTAAAAATTATTTTT
1 AATTTTTAAAAATTATTTTT
* *
109499975 CATTTTTGAAAATTATTTT
1 AATTTTTAAAAATTATTTT
109499994 AAGTTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 8 0.25
19 9 0.28
20 15 0.47
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTTT
Found at i:109500094 original size:9 final size:9
Alignment explanation
Indices: 109500080--109500109 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
109500070 ACACCAATTT
*
109500080 ATTATTTGA
1 ATTATTCGA
109500089 ATTATTCGA
1 ATTATTCGA
109500098 ATTATTCGA
1 ATTATTCGA
109500107 ATT
1 ATT
109500110 CTGAAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (9 bp):
ATTATTCGA
Found at i:109506796 original size:14 final size:15
Alignment explanation
Indices: 109506763--109506799 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
109506753 CAATTTAAAG
*
109506763 AAAAATGAATATTGT
1 AAAAATAAATATTGT
*
109506778 AAAAATAAATGTTGT
1 AAAAATAAATATTGT
109506793 AAAAATA
1 AAAAATA
109506800 TTGGTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (15 bp):
AAAAATAAATATTGT
Found at i:109507595 original size:16 final size:16
Alignment explanation
Indices: 109507574--109507641 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
109507564 TTTGGTTCGC
109507574 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
109507590 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
109507606 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
109507622 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
109507638 TGTA
1 TGTA
109507642 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:109507895 original size:16 final size:16
Alignment explanation
Indices: 109507858--109507899 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
109507848 TTAATCATAT
*
109507858 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
109507874 TT-AAATATATTATAA
1 TTAAAATATATTATAA
109507889 TTAAAATATAT
1 TTAAAATATAT
109507900 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:109507906 original size:14 final size:15
Alignment explanation
Indices: 109507867--109507908 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
109507857 TTTAAACATA
*
109507867 ATTATTATTAAATAT
1 ATTATAATTAAATAT
109507882 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
109507896 A-TATAATTTAATA
1 ATTATAATTAAATA
109507909 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:109508005 original size:15 final size:15
Alignment explanation
Indices: 109507977--109508035 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
109507967 ATAAAATATA
109507977 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
109507992 TATTAAATATATTAT
1 AATTAAATATATTAT
109508007 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
109508020 AATTTAATAATATTAT
1 AATTAAAT-ATATTAT
109508036 TAATAATCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 9 0.24
14 6 0.16
15 19 0.51
16 3 0.08
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:109508006 original size:120 final size:120
Alignment explanation
Indices: 109507861--109508342 Score: 752
Period size: 120 Copynumber: 4.0 Consensus size: 120
109507851 ATCATATTTA
* *
109507861 AACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
1 AACATAATTATTATTAAATATAATT-TAATAAAAATATATAATTTAATAAAATTCTTAATAATAA
* * *
109507925 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
65 ATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
* * * *
109507981 AACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAATATTATTAATAATCA
1 AACATAATTATTATTAAATATAATT-TAATAAAAATATATAATTTAATAAAATTCTTAATAATAA
* * * *
109508045 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT
65 ATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
*
109508101 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAA
* *
109508166 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAATTT
66 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
* *
109508221 AAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAA
* *
109508286 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAGATT
66 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
109508341 AA
1 AA
109508343 TAATGTAGAT
Statistics
Matches: 346, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 343 0.99
121 3 0.01
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAA
TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
Found at i:109508036 original size:44 final size:43
Alignment explanation
Indices: 109507954--109508038 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
109507944 CTCAAATCAT
* *
109507954 AATATATGATACTATAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATATAAAATATAAATTAAAATAATTATTATTA
* *
109507997 AATATATTATAAT-TAAAATATATAATT-TAATAA-TATTATTA
1 AATATATGATAATATAAAATATA-AATTAAAATAATTATTATTA
109508038 A
1 A
109508039 TAATCAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 9 0.24
42 13 0.35
43 15 0.41
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (43 bp):
AATATATGATAATATAAAATATAAATTAAAATAATTATTATTA
Found at i:109508182 original size:38 final size:37
Alignment explanation
Indices: 109508135--109508318 Score: 140
Period size: 37 Copynumber: 4.7 Consensus size: 37
109508125 TTAATAAAAA
*
109508135 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTAT
*
109508172 TATATGAATTTAATAAAA-TCATAATA-TATAATACTATAT
1 TATAT-AATTTAATAAAATTCTTAATATTA-AATA-T-TAT
* * * * ** *
109508211 AATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAA
1 TATATAATTT--AATAA-AATTCTT--A-AT-ATTAAATATTAT
*
109508255 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTAT
*
109508292 TATATGAATTTAATAAAA-TCATAATAT
1 TATAT-AATTTAATAAAATTCTTAATAT
109508319 ATAATACTAT
Statistics
Matches: 114, Mismatches: 19, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
36 2 0.02
37 36 0.32
38 32 0.28
39 7 0.06
40 5 0.04
41 6 0.05
42 7 0.06
44 11 0.10
45 2 0.02
46 5 0.04
47 1 0.01
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (37 bp):
TATATAATTTAATAAAATTCTTAATATTAAATATTAT
Found at i:109508284 original size:18 final size:18
Alignment explanation
Indices: 109508118--109508271 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
109508108 TTATTATTAA
109508118 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
109508136 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
* ****
109508154 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
109508173 ATATGAATTTAAT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
109508191 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* *
109508207 ATATAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
109508226 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
109508238 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
109508256 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
109508272 TTCTTAATAT
Statistics
Matches: 99, Mismatches: 23, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 2 0.02
15 5 0.05
16 8 0.08
17 16 0.16
18 41 0.41
19 15 0.15
20 3 0.03
21 3 0.03
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:109512046 original size:19 final size:19
Alignment explanation
Indices: 109511995--109512046 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
109511985 AAGTACAAAA
* *
109511995 AAAAATCAAAGTAATTTTC
1 AAAATTCAAAATAATTTTC
* *
109512014 AAAATTTGAAAATAATTTTT
1 AAAA-TTCAAAATAATTTTC
109512034 AAAATTCAAAATA
1 AAAATTCAAAATA
109512047 TTTATAGAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTC
Found at i:109512093 original size:18 final size:18
Alignment explanation
Indices: 109512061--109512107 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
109512051 TAGAAATTAT
*
109512061 AAAATTTATA-TTTTTAA
1 AAAATTTAAATTTTTTAA
109512078 AAAATTATAAATTTTTTAA
1 AAAATT-TAAATTTTTTAA
109512097 AAAATTCTAAA
1 AAAATT-TAAA
109512108 AATATATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 6 0.23
18 3 0.12
19 17 0.65
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAATTTAAATTTTTTAA
Found at i:109512095 original size:19 final size:19
Alignment explanation
Indices: 109512071--109512107 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
109512061 AAAATTTATA
109512071 TTTTTAAAAAATTATAAAT
1 TTTTTAAAAAATTATAAAT
*
109512090 TTTTTAAAAAATTCTAAA
1 TTTTTAAAAAATTATAAA
109512108 AATATATTAA
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:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTTTAAAAAATTATAAAT
Found at i:109512110 original size:21 final size:20
Alignment explanation
Indices: 109512071--109512122 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
109512061 AAAATTTATA
*
109512071 TTTTTAAAAAA-TTATAAAT
1 TTTTTAAAAAATTTAAAAAT
109512090 TTTTTAAAAAATTCTAAAAAT
1 TTTTTAAAAAATT-TAAAAAT
* *
109512111 ATATTAAAAAAT
1 TTTTTAAAAAAT
109512123 GTAATAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 11 0.39
20 1 0.04
21 16 0.57
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTTTAAAAAATTTAAAAAT
Found at i:109512481 original size:65 final size:66
Alignment explanation
Indices: 109512403--109512562 Score: 232
Period size: 65 Copynumber: 2.4 Consensus size: 66
109512393 TAAAAATAGA
*
109512403 CAAAACTATGTCGTTTTGATAAATGTTTAATTTTTCTAAAGTTAAAAGT-CTATCAAGTTAAAAG
1 CAAAACTACGTCGTTTTGATAAATGTTTAATTTTTCTAAAGTTAAAAGTACTATCAAGTTAAAAG
109512467 G
66 G
109512468 CAAAACTACGTCGTTTTGATAAATGTTTAATTTTTCTAAAGTTAAAAGTCAAAACTATCAAGTTA
1 CAAAACTACGTCGTTTTGATAAATGTTTAATTTTTCTAAAGTTAAAAGT----ACTATCAAGTTA
109512533 AAAGG
62 AAAGG
* * **
109512538 TAAAACTACATTATTTTGATAAATG
1 CAAAACTACGTCGTTTTGATAAATG
109512563 ATTACCCATT
Statistics
Matches: 85, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
65 48 0.56
70 37 0.44
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (66 bp):
CAAAACTACGTCGTTTTGATAAATGTTTAATTTTTCTAAAGTTAAAAGTACTATCAAGTTAAAAG
G
Found at i:109512530 original size:21 final size:21
Alignment explanation
Indices: 109512506--109512545 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
109512496 AATTTTTCTA
109512506 AAGTTAAAA-GTCAAAACTATC
1 AAGTTAAAAGGT-AAAACTATC
109512527 AAGTTAAAAGGTAAAACTA
1 AAGTTAAAAGGTAAAACTA
109512546 CATTATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGTAAAACTATC
Found at i:109517691 original size:3 final size:3
Alignment explanation
Indices: 109517683--109517735 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
109517673 ATCTTTAACT
** *
109517683 TAA TAA TAA TAA TAA TAA TAA T-A TAA -AA CCA TAC TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
109517727 TAA TAA TAA
1 TAA TAA TAA
109517736 AATCTTAGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
2 4 0.10
3 35 0.83
4 3 0.07
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Done.