Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 90 of 103
Found at i:33063059 original size:17 final size:18
Alignment explanation
Indices: 33063023--33063059 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
33063013 CAAAAATTTA
*
33063023 TTAATTTTAAAATAATAT
1 TTAATTTTAAAAAAATAT
33063041 TTAA-TTTAAAAAAATAT
1 TTAATTTTAAAAAAATAT
33063058 TT
1 TT
33063060 CTTATTAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATTTTAAAAAAATAT
Found at i:33063241 original size:86 final size:84
Alignment explanation
Indices: 33063131--33063293 Score: 256
Period size: 86 Copynumber: 1.9 Consensus size: 84
33063121 ATGATAAGAA
**
33063131 TAAAAAGATAATTTTATCTTTGATTAATTTTTGTAATTATTATTATATAATTTTATTAATTTTTT
1 TAAAAAGATAATTTTATCTTTGATTAATTTTTAAAATTATTATTATATAATTTTATTAA--TTTT
33063196 TATTAATGAAAAAANTAAAAAT
64 TATTAATGAAAAAA-TAAAAAT
*
33063218 TAAAAA-ATAATTTTATTTTTGATTAATTTTTAAAATTATTATTATATAATTTTATTAATTTTTA
1 TAAAAAGATAATTTTATCTTTGATTAATTTTTAAAATTATTATTATATAATTTTATTAATTTTTA
*
33063282 TTAATTAAAAAA
66 TTAATGAAAAAA
33063294 CCTACCCATC
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
84 17 0.24
86 49 0.68
87 6 0.08
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (84 bp):
TAAAAAGATAATTTTATCTTTGATTAATTTTTAAAATTATTATTATATAATTTTATTAATTTTTA
TTAATGAAAAAATAAAAAT
Found at i:33063280 original size:10 final size:10
Alignment explanation
Indices: 33063232--33063287 Score: 51
Period size: 10 Copynumber: 5.3 Consensus size: 10
33063222 AAATAATTTT
33063232 ATTTTTGATTA
1 ATTTTT-ATTA
*
33063243 ATTTTTA-AA
1 ATTTTTATTA
*
33063252 ATTATTATTA
1 ATTTTTATTA
33063262 TATAATTTTATTA
1 -AT--TTTTATTA
33063275 ATTTTTATTA
1 ATTTTTATTA
33063285 ATT
1 ATT
33063288 AAAAAACCTA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
9 7 0.19
10 13 0.35
11 8 0.22
12 2 0.05
13 7 0.19
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
ATTTTTATTA
Found at i:33063285 original size:42 final size:42
Alignment explanation
Indices: 33063153--33063287 Score: 105
Period size: 42 Copynumber: 3.2 Consensus size: 42
33063143 TTTATCTTTG
**
33063153 ATTAATTTTTGTAATTATTATTATATAATTTTATTAATTTTTTT
1 ATTAATTTTTAAAATTATTATTATATAATTTTATTAA--TTTTT
*** * ** * * *
33063197 ATTAA-TGAAAAAANTAAAAATTAAAAAATAATT-TT-ATTTTT
1 ATTAATTTTTAAAA-TTATTATTATATAAT-TTTATTAATTTTT
33063238 GATTAATTTTTAAAATTATTATTATATAATTTTATTAATTTTT
1 -ATTAATTTTTAAAATTATTATTATATAATTTTATTAATTTTT
33063281 ATTAATT
1 ATTAATT
33063288 AAAAAACCTA
Statistics
Matches: 65, Mismatches: 20, Indels: 14
0.66 0.20 0.14
Matches are distributed among these distances:
41 7 0.11
42 24 0.37
43 15 0.23
44 17 0.26
45 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (42 bp):
ATTAATTTTTAAAATTATTATTATATAATTTTATTAATTTTT
Found at i:33068105 original size:21 final size:20
Alignment explanation
Indices: 33068054--33068106 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
33068044 TATATTTAAT
*
33068054 TTAAAATAAACATATAAAAA
1 TTAAAATAAATATATAAAAA
* *
33068074 TTTAATTAAATATATTAAAAA
1 TTAAAATAAATATA-TAAAAA
*
33068095 TTAAAAAAAATA
1 TTAAAATAAATA
33068107 AAACTTTCAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
TTAAAATAAATATATAAAAA
Found at i:33072941 original size:14 final size:15
Alignment explanation
Indices: 33072910--33072943 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
33072900 TCTCTTAAAT
33072910 TAATAAATAATAACA
1 TAATAAATAATAACA
*
33072925 TAATAAAT-ATAATA
1 TAATAAATAATAACA
33072939 TAATA
1 TAATA
33072944 TTTATATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
TAATAAATAATAACA
Found at i:33073026 original size:19 final size:21
Alignment explanation
Indices: 33072996--33073034 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
33072986 TAATTATTTA
33072996 TTTTTAATAAATT-AATTAAG
1 TTTTTAATAAATTAAATTAAG
33073016 TTTTTAA-AAATTAAATTAA
1 TTTTTAATAAATTAAATTAA
33073035 TTAATTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (21 bp):
TTTTTAATAAATTAAATTAAG
Found at i:33078403 original size:41 final size:41
Alignment explanation
Indices: 33078346--33078436 Score: 182
Period size: 41 Copynumber: 2.2 Consensus size: 41
33078336 TAACAATCAA
33078346 ACAAAACTTGATAATAAAAATTTTTATTGCAGGAAGCCAAG
1 ACAAAACTTGATAATAAAAATTTTTATTGCAGGAAGCCAAG
33078387 ACAAAACTTGATAATAAAAATTTTTATTGCAGGAAGCCAAG
1 ACAAAACTTGATAATAAAAATTTTTATTGCAGGAAGCCAAG
33078428 ACAAAACTT
1 ACAAAACTT
33078437 ACTTTTGTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.26
Consensus pattern (41 bp):
ACAAAACTTGATAATAAAAATTTTTATTGCAGGAAGCCAAG
Found at i:33079380 original size:31 final size:31
Alignment explanation
Indices: 33079345--33079408 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
33079335 AATGGTATTT
*
33079345 GAAAACTCAATTTTAATAGTTTGAAGATAAA
1 GAAAACTCAATTTTAATAGCTTGAAGATAAA
* *
33079376 GAAAACTCAATTTTAATAGCTTGTAGATGAA
1 GAAAACTCAATTTTAATAGCTTGAAGATAAA
33079407 GA
1 GA
33079409 CAAGAAGTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (31 bp):
GAAAACTCAATTTTAATAGCTTGAAGATAAA
Found at i:33080324 original size:115 final size:113
Alignment explanation
Indices: 33080193--33080418 Score: 434
Period size: 115 Copynumber: 2.0 Consensus size: 113
33080183 CGAAAGAAAC
33080193 ATAAAAGAAAAGAAGTAAAAAACAATGAAAACAAACCTGAGTAAATCGAGTTCAAAACATTAAGA
1 ATAAAAGAAAAGAAGTAAAAAACAATGAAAACAAACCTGAGTAAATCGAGTTCAAAACATTAAGA
33080258 AATGAAGAAAAGAATTGACAAAAAAAAAAAAAAAACCAAAATAAATAAG
66 AATGAAGAAAAGAATTG-CAAAAAAAAAAAAAAAACCAAAATAAATAAG
33080307 NATAAAAGAAAAGAAGTAAAAAACAATGAAAACAAACCTGAGTAAATCGAGTTCAAAACATTAAG
1 -ATAAAAGAAAAGAAGTAAAAAACAATGAAAACAAACCTGAGTAAATCGAGTTCAAAACATTAAG
33080372 AAATGAAGAAAAGAATTGCAAAAAAAAAAAAAAAACCAAAATAAATA
65 AAATGAAGAAAAGAATTGCAAAAAAAAAAAAAAAACCAAAATAAATA
33080419 GAGGAAACAG
Statistics
Matches: 111, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
114 29 0.26
115 82 0.74
ACGTcount: A:0.65, C:0.09, G:0.12, T:0.13
Consensus pattern (113 bp):
ATAAAAGAAAAGAAGTAAAAAACAATGAAAACAAACCTGAGTAAATCGAGTTCAAAACATTAAGA
AATGAAGAAAAGAATTGCAAAAAAAAAAAAAAAACCAAAATAAATAAG
Found at i:33080511 original size:25 final size:25
Alignment explanation
Indices: 33080483--33080532 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
33080473 AAAACGATGA
*
33080483 GAAGAAAGCAAAGAAAAAAATAAAG
1 GAAGAAAGCAAAGAAAAAAAAAAAG
* * *
33080508 GAAGAAGGTAAATAAAAAAAAAAAG
1 GAAGAAAGCAAAGAAAAAAAAAAAG
33080533 AAAAAAAGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.72, C:0.02, G:0.20, T:0.06
Consensus pattern (25 bp):
GAAGAAAGCAAAGAAAAAAAAAAAG
Found at i:33082495 original size:2 final size:2
Alignment explanation
Indices: 33082483--33082522 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
33082473 TAATAAACTT
*
33082483 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33082523 ATGGAACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:33083455 original size:112 final size:112
Alignment explanation
Indices: 33083325--33083546 Score: 394
Period size: 112 Copynumber: 2.0 Consensus size: 112
33083315 ATTTTTTAAC
33083325 AACATTAAATTTTTTAAAAAATGAAATAAATCTTTTATCTTTTTTATTAGATTTAATTAAGTTTT
1 AACATTAAATTTTTTAAAAAATGAAATAAATCTTTTATCTTTTTTATTAGATTTAATTAAGTTTT
33083390 TTATTTTTATTTTAAATCAAATAAAC-TTTATAA-TAATANAATAAAA
66 TTATTTTTATTTTAAATCAAATAAACTTTTATAATTAATA-AATAAAA
33083436 AACATTAAAATTTTTTAAAAAATGAAATAAATCTTTTATCTTTTTTATTAGATTTAATTAAGTTT
1 AACATT-AAATTTTTTAAAAAATGAAATAAATCTTTTATCTTTTTTATTAGATTTAATTAAGTTT
* *
33083501 TTTATTTTTATTTTAAATCATATAAACTTTTATAATTAATAGATAA
65 TTTATTTTTATTTTAAATCAAATAAACTTTTATAATTAATAAATAA
33083547 TTCATATTTA
Statistics
Matches: 106, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
111 6 0.06
112 84 0.79
113 11 0.10
114 5 0.05
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (112 bp):
AACATTAAATTTTTTAAAAAATGAAATAAATCTTTTATCTTTTTTATTAGATTTAATTAAGTTTT
TTATTTTTATTTTAAATCAAATAAACTTTTATAATTAATAAATAAAA
Found at i:33089985 original size:7 final size:7
Alignment explanation
Indices: 33089973--33089997 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33089963 GAGAAACAAG
33089973 ATTTTGA
1 ATTTTGA
33089980 ATTTTGA
1 ATTTTGA
33089987 ATTTTGA
1 ATTTTGA
33089994 ATTT
1 ATTT
33089998 ACACGGAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
ATTTTGA
Found at i:33092497 original size:327 final size:328
Alignment explanation
Indices: 33091903--33092552 Score: 1277
Period size: 327 Copynumber: 2.0 Consensus size: 328
33091893 CTTATTGGTT
33091903 GATAATGACTTGTGGCTTGTCATAGCTAGCAAGCACGTTAGTTTTTGTTATGAAATAAAAAATCT
1 GATAATGACTTGTGGCTTGTCATAGCTAGCAAGCACGTTAGTTTTTGTTATGAAATAAAAAATCT
33091968 TATACGTTACATACAACATATGCGATAATAATTTTATATTCTAAATAATAATAATTATGTGTACC
66 TATACGTTACATACAACATATGCGATAATAATTTTATATTCTAAATAATAATAATTATGTGTACC
33092033 AAATCTATTTCGAAACAAGCAAATTGAATTTTCCAATTTTTTTAGACCAAGATATTTACCAAATC
131 AAATCTATTTCGAAACAAGCAAATTGAATTTTCCAATTTTTTTAGACCAAGATATTTACCAAATC
33092098 TTTTAAAATTCCTATGAACTTTTAATTTGTTATCATAATACAATAAAAGACCAAATCTTCCAAAC
196 TTTTAAAATTCCTATGAACTTTTAATTTGTTATCATAATACAATAAAAGACCAAATCTTCCAAAC
33092163 CCACTATCAATTTAATCTGTTTGTAAAACTTGTTAAAATCAAA-A-TCATATATATATATATAAA
261 CCACTATCAATTTAATCTGTTTGTAAAACTTGTTAAAATCAAATATTCATATATATATATATAAA
33092226 ACA
326 ACA
33092229 NGATAATGACTTGTGGCTTGTCATAGCTAGCAAGCACGTTAGTTTTTGTTATGAAATAAAAAATC
1 -GATAATGACTTGTGGCTTGTCATAGCTAGCAAGCACGTTAGTTTTTGTTATGAAATAAAAAATC
33092294 TTATACGTTACATACAACATATGCGATAATAATTTTATATTCTAAATAATAATAATTATGTGTAC
65 TTATACGTTACATACAACATATGCGATAATAATTTTATATTCTAAATAATAATAATTATGTGTAC
33092359 CAAATCTATTTCGAAACAAGCAAATTGAATTTTCCAATTTTTTTAGACCAAGATATTTACCAAAT
130 CAAATCTATTTCGAAACAAGCAAATTGAATTTTCCAATTTTTTTAGACCAAGATATTTACCAAAT
33092424 CTTTTAAAATTCCTATGAACTTTTAATTTGTTATCATAATACAATAAAAGACCAAATCTTCCAAA
195 CTTTTAAAATTCCTATGAACTTTTAATTTGTTATCATAATACAATAAAAGACCAAATCTTCCAAA
33092489 CCCACTATCAATTTAATCTGTTTGTAAAACTTGTTAAAATCAAATATTCATATATATATATATA
260 CCCACTATCAATTTAATCTGTTTGTAAAACTTGTTAAAATCAAATATTCATATATATATATATA
33092553 TATATATATA
Statistics
Matches: 321, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
327 303 0.94
328 1 0.00
329 17 0.05
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (328 bp):
GATAATGACTTGTGGCTTGTCATAGCTAGCAAGCACGTTAGTTTTTGTTATGAAATAAAAAATCT
TATACGTTACATACAACATATGCGATAATAATTTTATATTCTAAATAATAATAATTATGTGTACC
AAATCTATTTCGAAACAAGCAAATTGAATTTTCCAATTTTTTTAGACCAAGATATTTACCAAATC
TTTTAAAATTCCTATGAACTTTTAATTTGTTATCATAATACAATAAAAGACCAAATCTTCCAAAC
CCACTATCAATTTAATCTGTTTGTAAAACTTGTTAAAATCAAATATTCATATATATATATATAAA
ACA
Found at i:33092545 original size:2 final size:2
Alignment explanation
Indices: 33092538--33092581 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
33092528 TCAAATATTC
33092538 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
33092580 AT
1 AT
33092582 CACTTTTCCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33096886 original size:2 final size:2
Alignment explanation
Indices: 33096879--33096905 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33096869 AACAAATCTC
33096879 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
33096906 GAAATAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33106368 original size:3 final size:3
Alignment explanation
Indices: 33106360--33106388 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
33106350 AGCTGACACC
33106360 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
33106389 GATTTTACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:33106726 original size:7 final size:7
Alignment explanation
Indices: 33106714--33106744 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
33106704 TTACTTTCAC
33106714 TGATTCT
1 TGATTCT
33106721 TGATTCT
1 TGATTCT
33106728 TGATTCT
1 TGATTCT
33106735 TGATTCT
1 TGATTCT
33106742 TGA
1 TGA
33106745 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.55
Consensus pattern (7 bp):
TGATTCT
Found at i:33109711 original size:166 final size:167
Alignment explanation
Indices: 33109409--33109714 Score: 454
Period size: 166 Copynumber: 1.8 Consensus size: 167
33109399 GAGTAAACCA
* * *
33109409 CATTCCTTAATAGTGCAATGAACTCAGAAGCAGCACAGAAGCAAACTGTGCTTGTATATCATTAC
1 CATTCCTTAATAATACAATCAACTCAGAAGCAGCACAGAAGCAAA----GCTTGTATATCATTAC
* * * * *
33109474 CTTGCTATTTATCTTAGGATGTTCTTTTACGTATGTTGTATTCCTACCCTTTTAAGATGAGACTG
62 CTCGCTATTTATCATAGGATGTTCTGTCACGTATGTTGTATTCCTACCCTTTTAAGATGACACTG
33109539 TTTCTTCAATAGCAGTAATGCAGATTCGCAGAGAGAGAACT
127 TTTCTTCAATAGCAGTAATGCAGATTCGCAGAGAGAGAACT
* *
33109580 CATTCCTTTAATAATACAATCAGCTCAGAAGCAGCACAGAAGCAAA-C-TGTATATCATTAGCTC
1 CATTCC-TTAATAATACAATCAACTCAGAAGCAGCACAGAAGCAAAGCTTGTATATCATTACCTC
*
33109643 GCTATTTATCATAGGATGTTCTGTCATGTATGTTGTATTCCTACCCTTTTAAGATGACACTGTTT
65 GCTATTTATCATAGGATGTTCTGTCACGTATGTTGTATTCCTACCCTTTTAAGATGACACTGTTT
33109708 CTTCAAT
130 CTTCAAT
33109715 TTAAGCAGTA
Statistics
Matches: 123, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
166 81 0.66
167 1 0.01
171 6 0.05
172 35 0.28
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (167 bp):
CATTCCTTAATAATACAATCAACTCAGAAGCAGCACAGAAGCAAAGCTTGTATATCATTACCTCG
CTATTTATCATAGGATGTTCTGTCACGTATGTTGTATTCCTACCCTTTTAAGATGACACTGTTTC
TTCAATAGCAGTAATGCAGATTCGCAGAGAGAGAACT
Found at i:33127447 original size:37 final size:37
Alignment explanation
Indices: 33127392--33127471 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
33127382 CATGAGAAGT
*
33127392 AATTGCAACCATTTGTACCACAT-AAGAAGTAATAATA
1 AATTTCAACCATTTGTACCACATGAA-AAGTAATAATA
33127429 AATTTCAACCATTTGTACCACATGAAAAGTAATAATA
1 AATTTCAACCATTTGTACCACATGAAAAGTAATAATA
*
33127466 ACTTTC
1 AATTTC
33127472 GTATACGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
37 38 0.95
38 2 0.05
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (37 bp):
AATTTCAACCATTTGTACCACATGAAAAGTAATAATA
Found at i:33128430 original size:4 final size:4
Alignment explanation
Indices: 33128412--33128520 Score: 102
Period size: 4 Copynumber: 27.0 Consensus size: 4
33128402 TGTAGACACC
*
33128412 TAAA AAAA T-AA TAAA TAAA TAAA -AAA TTAAA TTATAA TAAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA -TAAA -TA-AA T-AAA TAAA
* *
33128458 -ATA TAAA GTAAAA TAAC TAAA TAAA TAAA T-AA -AAA TAAA TAAA TAAA
1 TAAA TAAA -T-AAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
33128505 TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA
33128521 AGAGAGAGGG
Statistics
Matches: 89, Mismatches: 6, Indels: 20
0.77 0.05 0.17
Matches are distributed among these distances:
3 12 0.13
4 59 0.66
5 12 0.13
6 6 0.07
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:33128464 original size:22 final size:23
Alignment explanation
Indices: 33128424--33128521 Score: 63
Period size: 22 Copynumber: 4.6 Consensus size: 23
33128414 AAAAAATAAT
*
33128424 AAAT-AAATAAAAAATTAAATTA
1 AAATAAAATAAAAAATTAAAGTA
* *
33128446 TAATAAAATAAAATA-TAAAGTA
1 AAATAAAATAAAAAATTAAAGTA
*
33128468 AAAT-AACTAAATAAA-TAAA-TA
1 AAATAAAATAAA-AAATTAAAGTA
33128489 AAA-ATAAATAAATAAA-TAAA-T-
1 AAATA-AAATAAA-AAATTAAAGTA
33128510 AAAT-AAATAAAA
1 AAATAAAATAAAA
33128522 GAGAGAGGGA
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
19 1 0.02
20 7 0.11
21 14 0.22
22 33 0.52
23 9 0.14
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.24
Consensus pattern (23 bp):
AAATAAAATAAAAAATTAAAGTA
Found at i:33129698 original size:6 final size:6
Alignment explanation
Indices: 33129683--33129764 Score: 60
Period size: 6 Copynumber: 13.2 Consensus size: 6
33129673 ACCTCCTTTT
*
33129683 AAAA-A AAAATA AAAATA AAAATA ATAAATA AATA-A AAAATAA AAAATTA
1 AAAATA AAAATA AAAATA AAAATA A-AAATA AAAATA AAAAT-A AAAA-TA
* * * *
33129732 AAATATA CACATA AATAATA ACAATA ACAATA A
1 AAA-ATA AAAATA AA-AATA AAAATA AAAATA A
33129765 TGAGTGAATA
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
5 8 0.13
6 31 0.49
7 22 0.35
8 2 0.03
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:33129733 original size:8 final size:7
Alignment explanation
Indices: 33129686--33129734 Score: 55
Period size: 8 Copynumber: 6.6 Consensus size: 7
33129676 TCCTTTTAAA
33129686 AAAAAAT
1 AAAAAAT
33129693 -AAAAAT
1 AAAAAAT
33129699 AAAAATAAT
1 -AAAA-AAT
33129708 AAATAAAT
1 AAA-AAAT
33129716 AAAAAAT
1 AAAAAAT
33129723 AAAAAATT
1 AAAAAA-T
33129731 AAAA
1 AAAA
33129735 TATACACATA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
6 6 0.16
7 10 0.27
8 17 0.46
9 4 0.11
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAAAAT
Found at i:33129735 original size:24 final size:22
Alignment explanation
Indices: 33129682--33129764 Score: 67
Period size: 25 Copynumber: 3.4 Consensus size: 22
33129672 TACCTCCTTT
*
33129682 TAAAAAAAAATAAAAATAAAAA
1 TAAAAATAAATAAAAATAAAAA
33129704 TAATAAATAAATAAAAAATAAAAAA
1 TAA-AAATAAAT-AAAAAT-AAAAA
*
33129729 TTAAAATATACACATAAATAATAACAA
1 -TAAAA-ATA-A-ATAAA-AATAAAAA
*
33129756 TAACAATAA
1 TAAAAATAA
33129765 TGAGTGAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
22 3 0.06
23 7 0.14
24 7 0.14
25 10 0.20
26 10 0.20
27 8 0.16
28 5 0.10
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (22 bp):
TAAAAATAAATAAAAATAAAAA
Found at i:33129746 original size:32 final size:31
Alignment explanation
Indices: 33129682--33129758 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
33129672 TACCTCCTTT
33129682 TAAA-AAAAAAT-AAAAATAAAAATAATAAA
1 TAAATAAAAAATAAAAAATAAAAATAATAAA
*
33129711 TAAATAAAAAATAAAAAATTAAAAT-ATACACA
1 TAAATAAAAAATAAAAAATAAAAATAATA-A-A
33129743 TAAATAATAACAATAA
1 TAAATAA-AA-AATAA
33129759 CAATAATGAG
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
29 4 0.10
30 10 0.24
31 12 0.29
32 8 0.20
33 2 0.05
34 5 0.12
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (31 bp):
TAAATAAAAAATAAAAAATAAAAATAATAAA
Found at i:33129827 original size:3 final size:3
Alignment explanation
Indices: 33129813--33129876 Score: 60
Period size: 3 Copynumber: 20.3 Consensus size: 3
33129803 GAGGCTTGCA
*
33129813 AAT AAT AA- AAT AAT AAT AAT AAT AAAT ATAT ATAT ATTT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT A-AT A-AT A-AT AAT AAT AAT
33129860 AAT AAT AAT AAAT AAT A
1 AAT AAT AAT -AAT AAT A
33129877 TAAATGGAAC
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
2 4 0.07
3 34 0.63
4 16 0.30
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:33130064 original size:13 final size:13
Alignment explanation
Indices: 33130048--33130089 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
33130038 AAAATAGTAT
*
33130048 ATAAAAATGATAA
1 ATAATAATGATAA
33130061 ATAATAATGATAA
1 ATAATAATGATAA
*
33130074 ATAATAATAATAA
1 ATAATAATGATAA
33130087 ATA
1 ATA
33130090 TATGAATAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (13 bp):
ATAATAATGATAA
Found at i:33135461 original size:28 final size:28
Alignment explanation
Indices: 33135413--33135483 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
33135403 ATTATTCTGG
* *
33135413 ATGTCTGTGTTCTTATCTATTAGTATGA
1 ATGTTTGTGTTCTTATATATTAGTATGA
* * *
33135441 ATGTTTGTGTTCTTGA-ATATTATTTTGG
1 ATGTTTGTGTTCTT-ATATATTAGTATGA
*
33135469 ATATTTGTGTTCTTA
1 ATGTTTGTGTTCTTA
33135484 ATTAATATCT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 1 0.03
28 34 0.94
29 1 0.03
ACGTcount: A:0.20, C:0.07, G:0.18, T:0.55
Consensus pattern (28 bp):
ATGTTTGTGTTCTTATATATTAGTATGA
Found at i:33136169 original size:23 final size:21
Alignment explanation
Indices: 33136143--33136201 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 21
33136133 AAGTAGATAA
33136143 TAATTTTTACATTTTTTACTTTT
1 TAATTTTTACATTTTTTA--TTT
*
33136166 TAATATTTACATTTTTTATTT
1 TAATTTTTACATTTTTTATTT
*
33136187 TATATTTTTAAATTT
1 TA-ATTTTTACATTT
33136202 GAAATTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.16
22 10 0.31
23 17 0.53
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (21 bp):
TAATTTTTACATTTTTTATTT
Found at i:33136188 original size:14 final size:14
Alignment explanation
Indices: 33136156--33136197 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
33136146 TTTTTACATT
33136156 TTTTAC-TTTTTAA
1 TTTTACATTTTTAA
*
33136169 TATTTACATTTTTTA
1 T-TTTACATTTTTAA
*
33136184 TTTTATATTTTTAA
1 TTTTACATTTTTAA
33136198 ATTTGAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 1 0.04
14 16 0.67
15 7 0.29
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTACATTTTTAA
Found at i:33150102 original size:11 final size:11
Alignment explanation
Indices: 33150086--33150111 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33150076 CCTTTCTCCC
33150086 TTTTTTTTTCT
1 TTTTTTTTTCT
33150097 TTTTTTTTTCT
1 TTTTTTTTTCT
33150108 TTTT
1 TTTT
33150112 CTTTCTCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:33150157 original size:17 final size:17
Alignment explanation
Indices: 33150134--33150211 Score: 97
Period size: 17 Copynumber: 4.5 Consensus size: 17
33150124 GCCGCTCCCC
*
33150134 CTTTCTTCTCTCTTTCT
1 CTTTCTTCTTTCTTTCT
*
33150151 TTTTCTT-TNTTCTTCTCT
1 CTTTCTTCT-TTCTT-TCT
33150169 CTTTCTT-TTTCTTTTCT
1 CTTTCTTCTTTC-TTTCT
33150186 CTTTCTTCTTTCTTTCT
1 CTTTCTTCTTTCTTTCT
33150203 CTTTCTTCT
1 CTTTCTTCT
33150212 CCTTTCTTTC
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
16 1 0.02
17 37 0.69
18 16 0.30
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.71
Consensus pattern (17 bp):
CTTTCTTCTTTCTTTCT
Found at i:33150163 original size:7 final size:6
Alignment explanation
Indices: 33150146--33150211 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
33150136 TTCTTCTCTC
* * *
33150146 TTTCTT TTTCTT TNTTC-T TCTCTC TTTCTT TTTC-T TTTCTC TTTCTT
1 TTTCTT TTTCTT T-TTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
*
33150193 CTTTCTT TCTCTT TCTTCT
1 -TTTCTT TTTCTT T-TTCT
33150212 CCTTTCTTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
5 7 0.15
6 28 0.60
7 12 0.26
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTCTT
Found at i:33150168 original size:24 final size:23
Alignment explanation
Indices: 33150135--33150220 Score: 108
Period size: 24 Copynumber: 3.8 Consensus size: 23
33150125 CCGCTCCCCC
33150135 TTTCTTCTCTCTTTCTTTTTCTT
1 TTTCTTCTCTCTTTCTTTTTCTT
33150158 TNTTCTTCTCTCTTTCTTTTTCTT
1 T-TTCTTCTCTCTTTCTTTTTCTT
*
33150182 TTCTCTT-TCTTCTTTC--TTTCTC
1 TT-TCTTCTC-TCTTTCTTTTTCTT
33150204 TTTCTTCTC-CTTTCTTT
1 TTTCTTCTCTCTTTCTTT
33150221 CCCCCGCTGG
Statistics
Matches: 56, Mismatches: 1, Indels: 13
0.80 0.01 0.19
Matches are distributed among these distances:
20 5 0.09
21 4 0.07
22 10 0.18
23 4 0.07
24 33 0.59
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTCTTCTCTCTTTCTTTTTCTT
Found at i:33150176 original size:28 final size:27
Alignment explanation
Indices: 33150136--33150219 Score: 75
Period size: 28 Copynumber: 3.1 Consensus size: 27
33150126 CGCTCCCCCT
* *
33150136 TTCTTCTCTCTTTCT-TTTTCTTTNTTC
1 TTCTTCTTTCTTTCTCTTTTCTCT-TTC
*
33150163 TTCTCTCTTTCTTTTTCTTTTCTCTTTC
1 TTCT-TCTTTCTTTCTCTTTTCTCTTTC
*
33150191 TTCTTTCTTTCTCTT-TCTTCTC-CTTTC
1 TTC-TTCTTTCT-TTCTCTTTTCTCTTTC
33150218 TT
1 TT
33150220 TCCCCCGCTG
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
27 11 0.22
28 28 0.57
29 10 0.20
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.70
Consensus pattern (27 bp):
TTCTTCTTTCTTTCTCTTTTCTCTTTC
Found at i:33150221 original size:24 final size:22
Alignment explanation
Indices: 33150134--33150283 Score: 94
Period size: 24 Copynumber: 6.7 Consensus size: 22
33150124 GCCGCTCCCC
33150134 CTTTCTTCTCTCTTTCTTTTTCT
1 CTTTCTTCTC-CTTTCTTTTTCT
*
33150157 TTNTTCTTCTCTCTTTCTTTTTCT
1 CT-TTCTTCTC-CTTTCTTTTTCT
* *
33150181 TTTCTCTTTCTTCTTTC--TTTCT
1 CTT-TC-TTCTCCTTTCTTTTTCT
** *
33150203 CTTTCTTCTCCTTTCTTTCCCCCG
1 CTTTCTTCTCCTTTCTTT--TTCT
**
33150227 CTGGCTTCTCCTTTCTTTTTCCT
1 CTTTCTTCTCCTTTCTTTTT-CT
**
33150250 CTTTCTT-T-CTTTCTCCTTCT
1 CTTTCTTCTCCTTTCTTTTTCT
*
33150270 CTTTC-TCTCTTTTC
1 CTTTCTTCTCCTTTC
33150284 CCCCTGCCAG
Statistics
Matches: 100, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
19 1 0.01
20 17 0.17
21 14 0.14
22 9 0.09
23 8 0.08
24 47 0.47
25 4 0.04
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (22 bp):
CTTTCTTCTCCTTTCTTTTTCT
Found at i:33150259 original size:17 final size:16
Alignment explanation
Indices: 33150232--33150275 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
33150222 CCCCGCTGGC
*
33150232 TTCTCCTTTCTTTTTCC
1 TTCT-CTTTCTTTCTCC
*
33150249 TCTTTCTTTCTTTCTCC
1 T-TCTCTTTCTTTCTCC
33150266 TTCTCTTTCT
1 TTCTCTTTCT
33150276 CTCTTTTCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 8 0.35
17 13 0.57
18 2 0.09
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (16 bp):
TTCTCTTTCTTTCTCC
Found at i:33150480 original size:16 final size:17
Alignment explanation
Indices: 33150459--33150491 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33150449 AGATCAATTC
*
33150459 GTTTTT-TTTCTTTAAA
1 GTTTTTCTTCCTTTAAA
33150475 GTTTTTCTTCCTTTAAA
1 GTTTTTCTTCCTTTAAA
33150492 AATGGGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (17 bp):
GTTTTTCTTCCTTTAAA
Found at i:33150594 original size:23 final size:22
Alignment explanation
Indices: 33150558--33150608 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
33150548 CCATTTCTCT
33150558 ATTTT-TTTTAATTTT-TTAATC
1 ATTTTATTTTAATTTTATT-ATC
*
33150579 ATTTTATTTTATATTTTATTATT
1 ATTTTATTTTA-ATTTTATTATC
33150602 ATTTTAT
1 ATTTTAT
33150609 ATTTTAAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 5 0.19
22 5 0.19
23 14 0.54
24 2 0.08
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (22 bp):
ATTTTATTTTAATTTTATTATC
Found at i:33151551 original size:38 final size:38
Alignment explanation
Indices: 33151508--33151585 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 38
33151498 ATGGTTTGAC
* *
33151508 TAAATCCAAATCCAAATTC-ATCCAGGACTATGACTCAA
1 TAAATCCAAATCCAAATTCAAT-AAGGACCATGACTCAA
*
33151546 TAAATCCAAATCCACATTCAATAAGGACCATGACTCAA
1 TAAATCCAAATCCAAATTCAATAAGGACCATGACTCAA
33151584 TA
1 TA
33151586 GGAAGCCTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 34 0.94
39 2 0.06
ACGTcount: A:0.44, C:0.26, G:0.08, T:0.23
Consensus pattern (38 bp):
TAAATCCAAATCCAAATTCAATAAGGACCATGACTCAA
Found at i:33155326 original size:49 final size:49
Alignment explanation
Indices: 33155254--33155353 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
33155244 GCACAAATAA
*
33155254 CAATACCAGAGAAATGGGTTGTTCTCTTTCTTATTTCAGAAACTGATGG
1 CAATAACAGAGAAATGGGTTGTTCTCTTTCTTATTTCAGAAACTGATGG
*
33155303 CAATAACAGAGAAATGGGTTGTTCTCTTTCTTATTTCGGAAACTGATGG
1 CAATAACAGAGAAATGGGTTGTTCTCTTTCTTATTTCAGAAACTGATGG
33155352 CA
1 CA
33155354 CCAATGGTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (49 bp):
CAATAACAGAGAAATGGGTTGTTCTCTTTCTTATTTCAGAAACTGATGG
Found at i:33157856 original size:3 final size:3
Alignment explanation
Indices: 33157848--33157882 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
33157838 TGAAACAACC
33157848 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
33157883 AGAGAACGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:33168837 original size:57 final size:57
Alignment explanation
Indices: 33168744--33168856 Score: 165
Period size: 57 Copynumber: 2.0 Consensus size: 57
33168734 TTATGAGAAA
* *
33168744 AACAAAATTGATACCCAGGTAATGTAGGTAAAATATTAGCACACAGTAATGAGCTAT
1 AACAAAATTGATACCCAGGTAACGTAGGTAAAATATTAGAACACAGTAATGAGCTAT
* * *
33168801 AACAAAATTGATACCCGGGTAACGTAGG-AAACATATTATAACACAGTATTGAGCTA
1 AACAAAATTGATACCCAGGTAACGTAGGTAAA-ATATTAGAACACAGTAATGAGCTA
33168857 CGCCAACAGC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
56 3 0.06
57 47 0.94
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (57 bp):
AACAAAATTGATACCCAGGTAACGTAGGTAAAATATTAGAACACAGTAATGAGCTAT
Found at i:33182984 original size:14 final size:14
Alignment explanation
Indices: 33182965--33182997 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
33182955 TTAATTAATA
33182965 TTTCTTTTTA-TATT
1 TTTCTTTTTACT-TT
33182979 TTTCTTTTTACTTT
1 TTTCTTTTTACTTT
33182993 TTTCT
1 TTTCT
33182998 CAAATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.94
15 1 0.06
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTCTTTTTACTTT
Found at i:33183275 original size:15 final size:15
Alignment explanation
Indices: 33183251--33183290 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
33183241 TATATATACA
*
33183251 TGAATAATAACAAAT
1 TGAATCATAACAAAT
33183266 TGAATCATAACAAAT
1 TGAATCATAACAAAT
33183281 TGAATCATAA
1 TGAATCATAA
33183291 TTAAGATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (15 bp):
TGAATCATAACAAAT
Found at i:33184311 original size:19 final size:20
Alignment explanation
Indices: 33184289--33184331 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
33184279 ATTTAATTGC
*
33184289 TCTCCCATGA-CAAGTATGT
1 TCTCCCATGATCAAATATGT
* *
33184308 TCTCCTATGATTAAATATGT
1 TCTCCCATGATCAAATATGT
33184328 TCTC
1 TCTC
33184332 TTAACTATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.40
Consensus pattern (20 bp):
TCTCCCATGATCAAATATGT
Found at i:33189058 original size:19 final size:20
Alignment explanation
Indices: 33189029--33189068 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
33189019 TCACTTCTAA
33189029 ACTTCAAATCATACTCCAAT
1 ACTTCAAATCATACTCCAAT
33189049 ACTT-AAATCATACTCCAAT
1 ACTTCAAATCATACTCCAAT
33189068 A
1 A
33189069 AGTCAAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (20 bp):
ACTTCAAATCATACTCCAAT
Found at i:33193328 original size:3 final size:3
Alignment explanation
Indices: 33193320--33193368 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
33193310 TTCGTAACGC
33193320 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
33193368 A
1 A
33193369 ATGTATAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:33199824 original size:25 final size:27
Alignment explanation
Indices: 33199770--33199826 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 27
33199760 CTCTTAAATA
*
33199770 TATTTTTAATATCATGTATTTTATTTT
1 TATTTTTAATATCATGTATTTTATTAT
*
33199797 TATTTCTTAATAT-A-GTTTTTTA-TAT
1 TATTT-TTAATATCATGTATTTTATTAT
33199822 TATTT
1 TATTT
33199827 ATTTTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 7 0.26
26 7 0.26
27 6 0.22
28 7 0.26
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.67
Consensus pattern (27 bp):
TATTTTTAATATCATGTATTTTATTAT
Found at i:33199836 original size:21 final size:21
Alignment explanation
Indices: 33199770--33199836 Score: 50
Period size: 20 Copynumber: 3.3 Consensus size: 21
33199760 CTCTTAAATA
* * *
33199770 TATTTTTAATATCATGTATTT
1 TATTTTTTATATTATTTATTT
* * *
33199791 TA-TTTTTAT-TT-CTTAATA
1 TATTTTTTATATTATTTATTT
33199809 TAGTTTTTTATATTATTTATTT
1 TA-TTTTTTATATTATTTATTT
33199831 TATTTT
1 TATTTT
33199837 AATTATTTTT
Statistics
Matches: 33, Mismatches: 9, Indels: 8
0.66 0.18 0.16
Matches are distributed among these distances:
18 5 0.15
19 1 0.03
20 13 0.39
21 8 0.24
22 6 0.18
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (21 bp):
TATTTTTTATATTATTTATTT
Found at i:33199837 original size:39 final size:40
Alignment explanation
Indices: 33199761--33199836 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
33199751 TAATTTCATC
33199761 TCTTAAATATATTTTTAATATCATGTATTTTATTTTTATT
1 TCTTAAATATATTTTTAATATCATGTATTTTATTTTTATT
* * *
33199801 TCTT-AATATAGTTTTTTATATTATTTATTTTATTTT
1 TCTTAAATATA-TTTTTAATATCATGTATTTTATTTT
33199837 AATTATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 6 0.19
40 26 0.81
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.66
Consensus pattern (40 bp):
TCTTAAATATATTTTTAATATCATGTATTTTATTTTTATT
Found at i:33211120 original size:18 final size:18
Alignment explanation
Indices: 33211089--33211126 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
33211079 CTTTTATCCT
* *
33211089 ATAATTATTGACTAATTG
1 ATAATCATTAACTAATTG
33211107 ATAATCATTAACTAATTG
1 ATAATCATTAACTAATTG
33211125 AT
1 AT
33211127 TCCTTAGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (18 bp):
ATAATCATTAACTAATTG
Found at i:33213392 original size:14 final size:14
Alignment explanation
Indices: 33213375--33213404 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33213365 TATATTTTTC
*
33213375 TTTTTTGTCAAATA
1 TTTTTTGTAAAATA
33213389 TTTTTTGTAAAATA
1 TTTTTTGTAAAATA
33213403 TT
1 TT
33213405 ATAATTTAGA
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:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (14 bp):
TTTTTTGTAAAATA
Found at i:33214426 original size:21 final size:21
Alignment explanation
Indices: 33214395--33214434 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
33214385 TATTAAAATA
33214395 TTAATTTAATATACTTTTATTT
1 TTAATTTAATA-ACTTTTATTT
*
33214417 TTAA-TTAATAATTTTTAT
1 TTAATTTAATAACTTTTAT
33214435 ATAATATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
TTAATTTAATAACTTTTATTT
Found at i:33214679 original size:13 final size:13
Alignment explanation
Indices: 33214663--33214687 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33214653 TATTATGTGA
33214663 TTACATTACAATG
1 TTACATTACAATG
33214676 TTACATTACAAT
1 TTACATTACAAT
33214688 AGTTTATTGT
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:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (13 bp):
TTACATTACAATG
Found at i:33216781 original size:15 final size:14
Alignment explanation
Indices: 33216748--33216799 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
33216738 TAATTGAAAA
33216748 AAATAAAAAAATAT
1 AAATAAAAAAATAT
* *
33216762 AAATAATAATAATGT
1 AAATAA-AAAAATAT
33216777 AAATAGAAAAAAT-T
1 AAATA-AAAAAATAT
33216791 AAATAAAAA
1 AAATAAAAA
33216800 CTTTACTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
13 4 0.12
14 12 0.36
15 16 0.48
16 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (14 bp):
AAATAAAAAAATAT
Found at i:33221573 original size:23 final size:22
Alignment explanation
Indices: 33221530--33221573 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
33221520 AAATACAAAC
* **
33221530 ATATTTTTATTATAATTTAATA
1 ATATTTTTATTAGAAGATAATA
33221552 ATATTTTGTATTAGAAGATAAT
1 ATATTTT-TATTAGAAGATAAT
33221574 TAAACCTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
ATATTTTTATTAGAAGATAATA
Found at i:33226219 original size:34 final size:34
Alignment explanation
Indices: 33226168--33226315 Score: 162
Period size: 35 Copynumber: 4.4 Consensus size: 34
33226158 CTCTTTTATG
*
33226168 CCGGCAGAAATTCCCTCCTTTCTTCCTCTCAAAA
1 CCGGCAGCAATTCCCTCCTTTCTTCCTCTCAAAA
* *
33226202 CCTGCAGCAATTTCCTCCATTTCTTCCTCTCAAAA
1 CCGGCAGCAATTCCCTCC-TTTCTTCCTCTCAAAA
* *
33226237 CCGGCAACAATTCCCTCATTTCTT-C-CTCAAAA
1 CCGGCAGCAATTCCCTCCTTTCTTCCTCTCAAAA
*
33226269 CCGGCAGCAATTCGGCC-CC-TTCTTCCTCCTTAAAA
1 CCGGCAGCAATTC--CCTCCTTTCTTCCT-CTCAAAA
*
33226304 TC-GCAGCAATTC
1 CCGGCAGCAATTC
33226316 AGCTCCCTTT
Statistics
Matches: 97, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
32 24 0.25
33 3 0.03
34 33 0.34
35 37 0.38
ACGTcount: A:0.24, C:0.38, G:0.09, T:0.29
Consensus pattern (34 bp):
CCGGCAGCAATTCCCTCCTTTCTTCCTCTCAAAA
Found at i:33226226 original size:35 final size:35
Alignment explanation
Indices: 33226168--33226281 Score: 164
Period size: 35 Copynumber: 3.4 Consensus size: 35
33226158 CTCTTTTATG
*
33226168 CCGGCAGAAATTCCCTCC-TTTCTTCCTCTCAAAA
1 CCGGCAGCAATTCCCTCCATTTCTTCCTCTCAAAA
* *
33226202 CCTGCAGCAATTTCCTCCATTTCTTCCTCTCAAAA
1 CCGGCAGCAATTCCCTCCATTTCTTCCTCTCAAAA
*
33226237 CCGGCAACAATTCCCT-CATTTCTT-C-CTCAAAA
1 CCGGCAGCAATTCCCTCCATTTCTTCCTCTCAAAA
33226269 CCGGCAGCAATTC
1 CCGGCAGCAATTC
33226282 GGCCCCTTCT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
32 19 0.26
33 1 0.01
34 23 0.32
35 29 0.40
ACGTcount: A:0.25, C:0.38, G:0.09, T:0.29
Consensus pattern (35 bp):
CCGGCAGCAATTCCCTCCATTTCTTCCTCTCAAAA
Found at i:33226292 original size:32 final size:31
Alignment explanation
Indices: 33226168--33226330 Score: 84
Period size: 34 Copynumber: 4.9 Consensus size: 31
33226158 CTCTTTTATG
*
33226168 CCGGCAGAAATTC-CCTCCTTTCTTCCTCTCAAAA
1 CCGGCAGCAATTCGCC-CC-TTCTT-C-CTCAAAA
* *
33226202 CCTGCAGCAATTTC-CTCCATTTCTTCCTCTCAAAA
1 CCGGCAGCAA-TTCGC-CC-CTTCTT-C-CTCAAAA
* *
33226237 CCGGCAACAATTC-CCTCATTTCTTCCTCAAAA
1 CCGGCAGCAATTCGCC-C-CTTCTTCCTCAAAA
33226269 CCGGCAGCAATTCGGCCCCTTCTTCCTCCTTAAAA
1 CCGGCAGCAATTC-GCCCCTTCTTCCT-C--AAAA
*
33226304 TC-GCAGCAATTCAGCTCCCTT-TTCCTC
1 CCGGCAGCAATTC-GC-CCCTTCTTCCTC
33226331 CTTAAAATGG
Statistics
Matches: 110, Mismatches: 9, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
32 27 0.25
33 5 0.05
34 39 0.35
35 38 0.35
36 1 0.01
ACGTcount: A:0.22, C:0.39, G:0.09, T:0.30
Consensus pattern (31 bp):
CCGGCAGCAATTCGCCCCTTCTTCCTCAAAA
Found at i:33226329 original size:34 final size:34
Alignment explanation
Indices: 33226272--33226365 Score: 127
Period size: 34 Copynumber: 2.7 Consensus size: 34
33226262 CTCAAAACCG
*
33226272 GCAGCAATTCGGC-CCCTTCTTCCTCCTTAAAATC
1 GCAGCAATTCAGCTCCCTT-TTCCTCCTTAAAATC
*
33226306 GCAGCAATTCAGCTCCCTTTTCCTCCTTAAAATG
1 GCAGCAATTCAGCTCCCTTTTCCTCCTTAAAATC
**
33226340 GCAGCAAACCAGCTCCCTTTTTCCTC
1 GCAGCAATTCAGCTCCC-TTTTCCTC
33226366 TCAAAATTGG
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
34 41 0.76
35 13 0.24
ACGTcount: A:0.21, C:0.37, G:0.12, T:0.30
Consensus pattern (34 bp):
GCAGCAATTCAGCTCCCTTTTCCTCCTTAAAATC
Found at i:33226372 original size:34 final size:35
Alignment explanation
Indices: 33226285--33226382 Score: 128
Period size: 34 Copynumber: 2.8 Consensus size: 35
33226275 GCAATTCGGC
* * **
33226285 CCCTTCTTCCTCCTTAAAATCGCAGCAATTCAGCT
1 CCCTTTTTCCTCCTTAAAATGGCAGCAAACCAGCT
33226320 CCC-TTTTCCTCCTTAAAATGGCAGCAAACCAGCT
1 CCCTTTTTCCTCCTTAAAATGGCAGCAAACCAGCT
*
33226354 CCCTTTTTCCT-CTCAAAATTGGCAGCAAA
1 CCCTTTTTCCTCCTTAAAA-TGGCAGCAAA
33226383 ACTCTTTCTT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
34 36 0.64
35 20 0.36
ACGTcount: A:0.26, C:0.35, G:0.10, T:0.30
Consensus pattern (35 bp):
CCCTTTTTCCTCCTTAAAATGGCAGCAAACCAGCT
Found at i:33226377 original size:35 final size:35
Alignment explanation
Indices: 33226306--33226415 Score: 109
Period size: 35 Copynumber: 3.2 Consensus size: 35
33226296 CCTTAAAATC
** *
33226306 GCAGCAATTCAGCTCCC-TTTTCCTCCTTAAAA-TG
1 GCAGCAAAACAGCTCCCTTTTTCCT-CTCAAAATTG
*
33226340 GCAGCAAACCAGCTCCCTTTTTCCTCTCAAAATTG
1 GCAGCAAAACAGCTCCCTTTTTCCTCTCAAAATTG
* ** *
33226375 GCAGCAAAAC-TCTTTCTTTTTCCCTCTCAAAATTT
1 GCAGCAAAACAGCTCCCTTTTT-CCTCTCAAAATTG
33226410 GCAGCA
1 GCAGCA
33226416 CAAAGCCTCT
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
34 29 0.45
35 36 0.55
ACGTcount: A:0.25, C:0.32, G:0.11, T:0.32
Consensus pattern (35 bp):
GCAGCAAAACAGCTCCCTTTTTCCTCTCAAAATTG
Found at i:33228589 original size:13 final size:13
Alignment explanation
Indices: 33228567--33228599 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33228557 GTACTTTCTC
33228567 ATAT-ATATATAT
1 ATATAATATATAT
33228579 ATATAATATATAT
1 ATATAATATATAT
*
33228592 ATTTAATA
1 ATATAATA
33228600 CGACAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATATAATATATAT
Found at i:33230577 original size:100 final size:100
Alignment explanation
Indices: 33230343--33230679 Score: 548
Period size: 101 Copynumber: 3.4 Consensus size: 100
33230333 GCGGACAAGG
*
33230343 TGTAATATACTATAATTTAGTGCAGCTACGTAATATTTTAGTATGGGCAGCTACCTAATGCATTC
1 TGTAATATACTATAATTTAGTGCAGCTACCTAATATTTTAGTATGGGCAGCTACCTAATGCATTC
*
33230408 TTGGCTTTCTTCCAATTTTTCACCCAATGCATTCGT
66 TTGGCTTTCTTCCAA-TTTTCACCTAATGCATTCGT
*
33230444 TGTAATATACTATAATTTAGTGCAGCTACCTAATATTTTAGTATGGGTAGCTACCTAATGCATTC
1 TGTAATATACTATAATTTAGTGCAGCTACCTAATATTTTAGTATGGGCAGCTACCTAATGCATTC
33230509 TTGGCTTTCTTCCAATTTTCACCTAATGCATTCGT
66 TTGGCTTTCTTCCAATTTTCACCTAATGCATTCGT
**
33230544 TGTAATATACTATAATTTAGTGCAGCTACCTAATATTTTAGTATGTACAGCTACCTAATGCATTC
1 TGTAATATACTATAATTTAGTGCAGCTACCTAATATTTTAGTATGGGCAGCTACCTAATGCATTC
* * * * *
33230609 TTGGCCTTGTTCCATCTTTTCCCCTAATGCATTTGT
66 TTGGCTTTCTTCCA-ATTTTCACCTAATGCATTCGT
* *
33230645 TGTAATATACTATATTTTATTGCAGCTACCTAATA
1 TGTAATATACTATAATTTAGTGCAGCTACCTAATA
33230680 CATTCTTGGC
Statistics
Matches: 222, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
100 93 0.42
101 129 0.58
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.41
Consensus pattern (100 bp):
TGTAATATACTATAATTTAGTGCAGCTACCTAATATTTTAGTATGGGCAGCTACCTAATGCATTC
TTGGCTTTCTTCCAATTTTCACCTAATGCATTCGT
Found at i:33230717 original size:76 final size:76
Alignment explanation
Indices: 33230591--33230755 Score: 233
Period size: 76 Copynumber: 2.2 Consensus size: 76
33230581 TTAGTATGTA
* *
33230591 CAGCTACCTAATGCATTCTTGGCCTTGTTCCATCTTTTCCCCTAATGCATTTGTTGTAATATACT
1 CAGCTACCTAATACATTCTTGGCCTTGTTCCATCTTTTCCCCTAATGCATTCGTTGTAATATACT
* ** *
33230656 ATATTTTATTG
66 ACAACTTAGTG
* *
33230667 CAGCTACCTAATACATTCTTGGCTTTTTTCCAAT-TTTTCCCCTAATGCATTCGTTGTAATATAC
1 CAGCTACCTAATACATTCTTGGCCTTGTTCC-ATCTTTTCCCCTAATGCATTCGTTGTAATATAC
33230731 TACAACTTAGTG
65 TACAACTTAGTG
*
33230743 CAACTACCTAATA
1 CAGCTACCTAATA
33230756 TTTTAGTATG
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
76 77 0.97
77 2 0.03
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (76 bp):
CAGCTACCTAATACATTCTTGGCCTTGTTCCATCTTTTCCCCTAATGCATTCGTTGTAATATACT
ACAACTTAGTG
Found at i:33230775 original size:101 final size:101
Alignment explanation
Indices: 33230665--33230855 Score: 310
Period size: 101 Copynumber: 1.9 Consensus size: 101
33230655 TATATTTTAT
* * *
33230665 TGCAGCTACCTAATACATTCTTGGCTTTTTTCCAATTTTTCCCCTAATGCATTCGTTGTAATATA
1 TGCAGCTACCTAATACATTCTTGGCTTTCTTCCAATTTTTCCCCTAATGCATTCGTCGTAATAGA
33230730 CTACAACTTAGTGCAACTACCTAATATTTTAGTATG
66 CTACAACTTAGTGCAACTACCTAATATTTTAGTATG
* *
33230766 TGCAGCTACCTAATGCATTCTTGGCTTTCTTCCAATTTTTCCCCTAATGCATTTGTCGTAATAGA
1 TGCAGCTACCTAATACATTCTTGGCTTTCTTCCAATTTTTCCCCTAATGCATTCGTCGTAATAGA
* **
33230831 CTATAACTTAGTGCGGCTACCTAAT
66 CTACAACTTAGTGCAACTACCTAAT
33230856 GAATTATTGG
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 82 1.00
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (101 bp):
TGCAGCTACCTAATACATTCTTGGCTTTCTTCCAATTTTTCCCCTAATGCATTCGTCGTAATAGA
CTACAACTTAGTGCAACTACCTAATATTTTAGTATG
Found at i:33230787 original size:177 final size:177
Alignment explanation
Indices: 33230492--33230910 Score: 637
Period size: 177 Copynumber: 2.4 Consensus size: 177
33230482 TAGTATGGGT
* *
33230492 AGCTACCTAATGCATTCTTGGCTTTCTTCCAA-TTTTCACCTAATGCATTCGTTGTAATATACTA
1 AGCTACCTAATACATTCTTGGCTTTCTTCCAATTTTTCCCCTAATGCATTCGTTGTAATATACTA
* * * *
33230556 TAATTTAGTGCAGCTACCTAATATTTTAGTATGTACAGCTACCTAATGCATTCTTGGCCTTGTTC
66 CAACTTAGTGCAACTACCTAATATTTTAGTATGTACAGCTACCTAATGCATTCTTGGCCTTCTTC
* * ** *
33230621 C-ATCTTTTCCCCTAATGCATTTGTTGTAATATACTATATTTTATTGC
131 CAAT-TTTTCCCCTAATGCATTTGTCGTAATAGACTATAACTTAGTGC
*
33230668 AGCTACCTAATACATTCTTGGCTTTTTTCCAATTTTTCCCCTAATGCATTCGTTGTAATATACTA
1 AGCTACCTAATACATTCTTGGCTTTCTTCCAATTTTTCCCCTAATGCATTCGTTGTAATATACTA
* *
33230733 CAACTTAGTGCAACTACCTAATATTTTAGTATGTGCAGCTACCTAATGCATTCTTGGCTTTCTTC
66 CAACTTAGTGCAACTACCTAATATTTTAGTATGTACAGCTACCTAATGCATTCTTGGCCTTCTTC
33230798 CAATTTTTCCCCTAATGCATTTGTCGTAATAGACTATAACTTAGTGC
131 CAATTTTTCCCCTAATGCATTTGTCGTAATAGACTATAACTTAGTGC
* * *
33230845 GGCTACCTAATGA-ATTATTGGCTTTCTTCCAATGTTTTCCCCTAATGCATTCGTTGAAATATAC
1 AGCTACCTAAT-ACATTCTTGGCTTTCTTCCAAT-TTTTCCCCTAATGCATTCGTTGTAATATAC
33230909 TA
64 TA
33230911 TATCCTAGTT
Statistics
Matches: 221, Mismatches: 18, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
176 30 0.14
177 157 0.71
178 34 0.15
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (177 bp):
AGCTACCTAATACATTCTTGGCTTTCTTCCAATTTTTCCCCTAATGCATTCGTTGTAATATACTA
CAACTTAGTGCAACTACCTAATATTTTAGTATGTACAGCTACCTAATGCATTCTTGGCCTTCTTC
CAATTTTTCCCCTAATGCATTTGTCGTAATAGACTATAACTTAGTGC
Found at i:33230927 original size:77 final size:77
Alignment explanation
Indices: 33230769--33231065 Score: 348
Period size: 76 Copynumber: 3.9 Consensus size: 77
33230759 TAGTATGTGC
* * * *
33230769 AGCTACCTAATGCATTCTTGGCTTTCTTCCAAT-TTTTCCCCTAATGCATTTGTCGTAATAGACT
1 AGCTACCTAATGCATTCTTGGCTTTCTTCCAATGTTTTCCCCTAATACATTCGTTGTAATATACT
* *
33230833 ATAACTTAGTGC
66 ATATCTTAGTGT
* * * * *
33230845 GGCTACCTAATGAATTATTGGCTTTCTTCCAATGTTTTCCCCTAATGCATTCGTTGAAATATACT
1 AGCTACCTAATGCATTCTTGGCTTTCTTCCAATGTTTTCCCCTAATACATTCGTTGTAATATACT
* *
33230910 ATATCCTAGTTT
66 ATATCTTAGTGT
* * * * *
33230922 AGCTACCTAATGCATTCTTGGCTTTCTT-CTATTTTTTTCCCTAATAAATTCGTTGCAATATACT
1 AGCTACCTAATGCATTCTTGGCTTTCTTCCAATGTTTTCCCCTAATACATTCGTTGTAATATACT
*
33230986 ATATTTTAGTGT
66 ATATCTTAGTGT
* * * ** *
33230998 AGCTACCAAATGCATTCTTGACTTTCTTGC-ATGTTTTTTCCTAATACACTCGTTGTAATATACT
1 AGCTACCTAATGCATTCTTGGCTTTCTTCCAATGTTTTCCCCTAATACATTCGTTGTAATATACT
33231062 ATAT
66 ATAT
33231066 TTGGTACTAG
Statistics
Matches: 189, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
76 128 0.68
77 61 0.32
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.43
Consensus pattern (77 bp):
AGCTACCTAATGCATTCTTGGCTTTCTTCCAATGTTTTCCCCTAATACATTCGTTGTAATATACT
ATATCTTAGTGT
Found at i:33232848 original size:6 final size:6
Alignment explanation
Indices: 33232817--33232845 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
33232807 AATAAGTAAA
33232817 AATCTT AATCTT AATCTT AATCTT -ATCTT
1 AATCTT AATCTT AATCTT AATCTT AATCTT
33232846 TATATAGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.52
Consensus pattern (6 bp):
AATCTT
Found at i:33234933 original size:35 final size:34
Alignment explanation
Indices: 33234892--33234970 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 34
33234882 AAAATTAAAT
*
33234892 TTAAATAAGC-AAAAACAAATATCTCAAATATCAAC
1 TTAAATAA-CAAAAAACAAATATCT-AAATAACAAC
33234927 TTAAATAACAAAAAACAAATATCTAAATAACAAC
1 TTAAATAACAAAAAACAAATATCTAAATAACAAC
*
33234961 TTAAACAACA
1 TTAAATAACA
33234971 TTACAAGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
34 19 0.46
35 22 0.54
ACGTcount: A:0.61, C:0.16, G:0.01, T:0.22
Consensus pattern (34 bp):
TTAAATAACAAAAAACAAATATCTAAATAACAAC
Found at i:33239870 original size:15 final size:14
Alignment explanation
Indices: 33239852--33239902 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 14
33239842 TTTAAAGATC
33239852 AAAGATTTTGATTTT
1 AAAG-TTTTGATTTT
*
33239867 AAAGCTTTGGATTTT
1 AAAG-TTTTGATTTT
33239882 AAAGTTTTCGATTTT
1 AAAGTTTT-GATTTT
33239897 AAAGTT
1 AAAGTT
33239903 GTTTTAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
14 3 0.09
15 29 0.91
ACGTcount: A:0.31, C:0.04, G:0.16, T:0.49
Consensus pattern (14 bp):
AAAGTTTTGATTTT
Found at i:33248556 original size:19 final size:19
Alignment explanation
Indices: 33248532--33248569 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
33248522 CTGCCAAACC
*
33248532 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
33248551 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
33248570 AATTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:33250400 original size:18 final size:18
Alignment explanation
Indices: 33250377--33250420 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
33250367 TTTTATTAAT
33250377 TATTTTTT-ACTTATATA
1 TATTTTTTAACTTATATA
* *
33250394 TATTTTTTAATTTTTATA
1 TATTTTTTAACTTATATA
33250412 TATTTTTTA
1 TATTTTTTA
33250421 TATAATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (18 bp):
TATTTTTTAACTTATATA
Found at i:33254121 original size:13 final size:13
Alignment explanation
Indices: 33254103--33254127 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33254093 TTTCAGAAAA
33254103 TTTATAAAATCAT
1 TTTATAAAATCAT
33254116 TTTATAAAATCA
1 TTTATAAAATCA
33254128 CAATTTCTTC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:33255924 original size:17 final size:17
Alignment explanation
Indices: 33255902--33255940 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
33255892 AGTAATTTAA
33255902 TTAATTATTT-TCTATTT
1 TTAATT-TTTATCTATTT
*
33255919 TTAATTTTTATTTATTT
1 TTAATTTTTATCTATTT
33255936 TTAAT
1 TTAAT
33255941 ATAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (17 bp):
TTAATTTTTATCTATTT
Found at i:33256271 original size:101 final size:101
Alignment explanation
Indices: 33256096--33256414 Score: 532
Period size: 101 Copynumber: 3.2 Consensus size: 101
33256086 GTGCAGCTAG
* *
33256096 CTAATGCATTCGTTGTAACATACTATAATTTAGTGCAGCTACATAATATTTTAGTATGGGCAGCT
1 CTAATGCATTCGTTGTAATATACTATAATTTAGTGCAGCTACCTAATATTTTAGTATGGGCAGCT
33256161 ACCTAATGCATTCTTGGCTTTCTTCCAATTTTTCAC
66 ACCTAATGCATTCTTGGCTTTCTTCCAATTTTTCAC
*
33256197 CTAATGCATTCGTTGTAATATACTATAATTTAGTGCAGCTACCTAATATTTTAGTATGGGTAGCT
1 CTAATGCATTCGTTGTAATATACTATAATTTAGTGCAGCTACCTAATATTTTAGTATGGGCAGCT
33256262 ACCTAATGCATTCTTGGCTTTCTTCCAATTTTTCAC
66 ACCTAATGCATTCTTGGCTTTCTTCCAATTTTTCAC
* * *
33256298 CTAATGCATTCGTTGTAATATACTATAATTTAGTGCAGTTACCCAATATTTTAGTATGTGCAGCT
1 CTAATGCATTCGTTGTAATATACTATAATTTAGTGCAGCTACCTAATATTTTAGTATGGGCAGCT
* * *
33256363 ACCTAATGCATTCTTGGCTTTGTTCC-ATCGTTTCCC
66 ACCTAATGCATTCTTGGCTTTCTTCCAAT-TTTTCAC
*
33256399 CTAATGCATTTGTTGT
1 CTAATGCATTCGTTGT
33256415 TATTTTATAT
Statistics
Matches: 206, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
100 2 0.01
101 204 0.99
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.41
Consensus pattern (101 bp):
CTAATGCATTCGTTGTAATATACTATAATTTAGTGCAGCTACCTAATATTTTAGTATGGGCAGCT
ACCTAATGCATTCTTGGCTTTCTTCCAATTTTTCAC
Found at i:33256752 original size:18 final size:19
Alignment explanation
Indices: 33256703--33256759 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 19
33256693 AGAGAATAAA
33256703 TAATTTTAT-TAATTATTTTT
1 TAATTTTATAT-A-TATTTTT
*
33256723 TACTTTTATATATATTTTT
1 TAATTTTATATATATTTTT
33256742 TAATTTT-TATATATTTTT
1 TAATTTTATATATATTTTT
33256760 AATATAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 11 0.32
19 13 0.38
20 9 0.26
21 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
TAATTTTATATATATTTTT
Found at i:33264431 original size:42 final size:43
Alignment explanation
Indices: 33264385--33264485 Score: 127
Period size: 43 Copynumber: 2.4 Consensus size: 43
33264375 CTTATGACTT
*
33264385 ATGCCACTATGGTTAATTGTGG-TTTTGA-TATGATTATAACCC
1 ATGCCACTATGGTTAATTGTGGATTCT-ATTATGATTATAACCC
* * *
33264427 ATGCCACTAGGGTTAATTGTGGATTCTATTATGATTATGACCT
1 ATGCCACTATGGTTAATTGTGGATTCTATTATGATTATAACCC
33264470 ATGCCA-TAGTGGTTAA
1 ATGCCACTA-TGGTTAA
33264486 GTATGGCCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
42 24 0.47
43 27 0.53
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.39
Consensus pattern (43 bp):
ATGCCACTATGGTTAATTGTGGATTCTATTATGATTATAACCC
Found at i:33264474 original size:43 final size:42
Alignment explanation
Indices: 33264365--33264485 Score: 140
Period size: 42 Copynumber: 2.9 Consensus size: 42
33264355 TAATGATTGA
* *
33264365 TTCTGATAT-ACTTATGACTTATGCCACTATGGTTAATTGTGG
1 TTCTGATATGA-TTATGACCTATGCCACTAGGGTTAATTGTGG
* * *
33264407 TTTTGATATGATTATAACCCATGCCACTAGGGTTAATTGTGG
1 TTCTGATATGATTATGACCTATGCCACTAGGGTTAATTGTGG
33264449 ATTCT-ATTATGATTATGACCTATGCCA-TAGTGGTTAA
1 -TTCTGA-TATGATTATGACCTATGCCACTAG-GGTTAA
33264486 GTATGGCCAT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
42 39 0.58
43 28 0.42
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.40
Consensus pattern (42 bp):
TTCTGATATGATTATGACCTATGCCACTAGGGTTAATTGTGG
Found at i:33268929 original size:18 final size:18
Alignment explanation
Indices: 33268906--33268941 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
33268896 ACCTTTGCTA
33268906 CAGCCACAGCAAATAAGC
1 CAGCCACAGCAAATAAGC
33268924 CAGCCACAGCAAATAAGC
1 CAGCCACAGCAAATAAGC
33268942 TAGATAAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.33, G:0.17, T:0.06
Consensus pattern (18 bp):
CAGCCACAGCAAATAAGC
Found at i:33272084 original size:13 final size:13
Alignment explanation
Indices: 33272053--33272086 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33272043 TGTTTGGTTG
* *
33272053 CCAAAAGCTTCAG
1 CCAAAGGCTTCAA
33272066 CCAAAGGCTTCAA
1 CCAAAGGCTTCAA
33272079 CCAAAGGC
1 CCAAAGGC
33272087 CTGGTCTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.32, G:0.18, T:0.12
Consensus pattern (13 bp):
CCAAAGGCTTCAA
Found at i:33276916 original size:42 final size:42
Alignment explanation
Indices: 33276883--33277081 Score: 211
Period size: 42 Copynumber: 4.6 Consensus size: 42
33276873 AGGCAGTGGT
* *
33276883 TGGAGCTGAGAATGAAATTTTGTCCAAGGACGAGGTCGTAGC
1 TGGAGCTGAGAATGAAATTTTGTCCAAGGACGAGGCCGCAGC
* * * * *
33276925 TGGAGTTGAGAACGGAATTTTGCCCAAAGACGAGGCCGCAGC
1 TGGAGCTGAGAATGAAATTTTGTCCAAGGACGAGGCCGCAGC
* * *
33276967 TAGAGTTGAGAATGAAATTTTGTCCAAGGACGAGGCCGCAGT
1 TGGAGCTGAGAATGAAATTTTGTCCAAGGACGAGGCCGCAGC
* *
33277009 TGGAGCAGAGAACAGAATTTTAATTTTGTCCAAGGACGAGGCCGCAGC
1 TGGAGCTGAGAA-TG-A----AATTTTGTCCAAGGACGAGGCCGCAGC
*
33277057 TGGAGCTGAGAAATG-AATTTAGTCC
1 TGGAGCTGAG-AATGAAATTTTGTCC
33277082 GAAGACAAAA
Statistics
Matches: 129, Mismatches: 21, Indels: 14
0.79 0.13 0.09
Matches are distributed among these distances:
42 89 0.69
43 1 0.01
44 1 0.01
48 36 0.28
49 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.22
Consensus pattern (42 bp):
TGGAGCTGAGAATGAAATTTTGTCCAAGGACGAGGCCGCAGC
Found at i:33277045 original size:48 final size:48
Alignment explanation
Indices: 33276982--33277076 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
33276972 TTGAGAATGA
*
33276982 AATTTTGTCCAAGGACGAGGCCGCAGTTGGAGCAGAGAACA-GAATTTT
1 AATTTTGTCCAAGGACGAGGCCGCAGCTGGAGCAGAGAA-ATGAATTTT
*
33277030 AATTTTGTCCAAGGACGAGGCCGCAGCTGGAGCTGAGAAATGAATTT
1 AATTTTGTCCAAGGACGAGGCCGCAGCTGGAGCAGAGAAATGAATTT
33277077 AGTCCGAAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 1 0.02
48 43 0.98
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (48 bp):
AATTTTGTCCAAGGACGAGGCCGCAGCTGGAGCAGAGAAATGAATTTT
Found at i:33290036 original size:78 final size:78
Alignment explanation
Indices: 33289907--33290063 Score: 269
Period size: 78 Copynumber: 2.0 Consensus size: 78
33289897 GAAACACGAC
* * *
33289907 ACCTTTTTCTCAAACAAAATTTTTGTGGTGGAACATTGACCAGCGGCCCACCGATGGGACTGCAT
1 ACCTTTTTCTCAAACAAAATTTGTGTGGTGGAACATTAACCAGCGGCCCACCGATGGAACTGCAT
*
33289972 TTTTCGCAACTTT
66 TTTTCCCAACTTT
*
33289985 ACCTTTTTCTCAAACAAAATTTGTGTGGTGGAACATTAACCAGTGGCCCACCGATGGAACTGCAT
1 ACCTTTTTCTCAAACAAAATTTGTGTGGTGGAACATTAACCAGCGGCCCACCGATGGAACTGCAT
33290050 TTTTCCCAACTTT
66 TTTTCCCAACTTT
33290063 A
1 A
33290064 GACATAATCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (78 bp):
ACCTTTTTCTCAAACAAAATTTGTGTGGTGGAACATTAACCAGCGGCCCACCGATGGAACTGCAT
TTTTCCCAACTTT
Found at i:33293614 original size:118 final size:118
Alignment explanation
Indices: 33293406--33293647 Score: 475
Period size: 118 Copynumber: 2.1 Consensus size: 118
33293396 TGAACAAAAA
*
33293406 TTTGTGATATGATTAAAACAAGAATTGGGCGGTGGTTCAAGGAAAAAATGGAATGATTTTCTTAA
1 TTTGTGATATAATTAAAACAAGAATTGGGCGGTGGTTCAAGGAAAAAATGGAATGATTTTCTTAA
33293471 AGATATTGCTGACATCTATCATTGTCATCCTTCTGCTAAATGTGTGTTAAGAC
66 AGATATTGCTGACATCTATCATTGTCATCCTTCTGCTAAATGTGTGTTAAGAC
33293524 TTTGTGATATAATTAAAACAAGAATTGGGCGGTGGTTCAAGGAAAAAATGGAATGATTTTCTTAA
1 TTTGTGATATAATTAAAACAAGAATTGGGCGGTGGTTCAAGGAAAAAATGGAATGATTTTCTTAA
33293589 AGATATTGCTGACATCTATCATTGTCATCCTTCTGCTAAATGTGTGTTAAGAC
66 AGATATTGCTGACATCTATCATTGTCATCCTTCTGCTAAATGTGTGTTAAGAC
33293642 TTTGTG
1 TTTGTG
33293648 GTCTCCACCT
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 123 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.36
Consensus pattern (118 bp):
TTTGTGATATAATTAAAACAAGAATTGGGCGGTGGTTCAAGGAAAAAATGGAATGATTTTCTTAA
AGATATTGCTGACATCTATCATTGTCATCCTTCTGCTAAATGTGTGTTAAGAC
Found at i:33294217 original size:91 final size:90
Alignment explanation
Indices: 33294119--33294383 Score: 352
Period size: 91 Copynumber: 2.9 Consensus size: 90
33294109 ACAATAATTA
* *
33294119 AAAAATATTAATTTTTAAAATATAAAAGGAAATATTTTTGTCGTTTTAAGTAATATCTAAATATT
1 AAAAATATTAATATTTAAATTATAAAAGGAAATATTTTTGTC-TTTTAAGTAATATCTAAATATT
*
33294184 AATATATAAATTATTTTTTGAAAAAT
65 AGTATATAAATTATTTTTTGAAAAAT
* *
33294210 AAAAATATTAATATTTAAATTATAAAAGAAAATATTTTTGTCATTTTAAGTAACATCTAAATATT
1 AAAAATATTAATATTTAAATTATAAAAGGAAATATTTTTGTC-TTTTAAGTAATATCTAAATATT
* * * *
33294275 TGTATATAAATAACTTTTTGATAAAT
65 AGTATATAAATTATTTTTTGAAAAAT
* ** * * *
33294301 AAACATATTAGCATTTAAATTATAAAA-GAAATTTTTTTGACTTTTCAAGTAATATCTAATTATT
1 AAAAATATTAATATTTAAATTATAAAAGGAAATATTTTTGTCTTTT-AAGTAATATCTAAATATT
*
33294365 GGTATATAAATTATTTTTT
65 AGTATATAAATTATTTTTT
33294384 TGATAAATCT
Statistics
Matches: 152, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
89 4 0.03
90 43 0.28
91 105 0.69
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (90 bp):
AAAAATATTAATATTTAAATTATAAAAGGAAATATTTTTGTCTTTTAAGTAATATCTAAATATTA
GTATATAAATTATTTTTTGAAAAAT
Found at i:33305773 original size:17 final size:18
Alignment explanation
Indices: 33305753--33305786 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33305743 TTAATTCATG
33305753 CATAAA-AAAAGAAATTA
1 CATAAATAAAAGAAATTA
*
33305770 CATAAATAAAATAAATT
1 CATAAATAAAAGAAATT
33305787 GGGTAAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.24
Consensus pattern (18 bp):
CATAAATAAAAGAAATTA
Found at i:33306682 original size:46 final size:45
Alignment explanation
Indices: 33306609--33306732 Score: 137
Period size: 45 Copynumber: 2.7 Consensus size: 45
33306599 ATATTACATG
* *
33306609 CCATGATTAGGTTGTTACAC-CTTATGTACAAAAAATATGTGACA-T
1 CCATGGTTAGGTTG-TACACGC-TATGTACAAAAAACATGTGACACT
** *
33306654 ATTATGGTTAGGTTGTCACACGCCATGTAC-AAAAACATGTGACACT
1 -CCATGGTTAGGTTGT-ACACGCTATGTACAAAAAACATGTGACACT
*
33306700 CCATGGTTAGGTTGTTCACGCTATGTACAAAAA
1 CCATGGTTAGGTTGTACACGCTATGTACAAAAA
33306733 CTTATTACAC
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
44 11 0.17
45 31 0.48
46 22 0.34
47 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (45 bp):
CCATGGTTAGGTTGTACACGCTATGTACAAAAAACATGTGACACT
Found at i:33306706 original size:45 final size:44
Alignment explanation
Indices: 33306579--33306733 Score: 136
Period size: 45 Copynumber: 3.5 Consensus size: 44
33306569 GTCATAATAT
* * * * *
33306579 TACATGCCATGTA-ACAAAACATATTACATGCCATGATTAGGTTG
1 TACACGCCATGTACA-AAAACATGTGACATACCATGGTTAGGTTG
* * **
33306623 TTACAC-CTTATGTACAAAAAATATGTGACATATTATGGTTAGGTTG
1 -TACACGC-CATGTAC-AAAAACATGTGACATACCATGGTTAGGTTG
33306669 TCACACGCCATGTACAAAAACATGTGACACT-CCATGGTTAGGTTG
1 T-ACACGCCATGTACAAAAACATGTGACA-TACCATGGTTAGGTTG
* *
33306714 TTCACGCTATGTACAAAAAC
1 TACACGCCATGTACAAAAAC
33306734 TTATTACACA
Statistics
Matches: 89, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
44 18 0.20
45 36 0.40
46 33 0.37
47 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (44 bp):
TACACGCCATGTACAAAAACATGTGACATACCATGGTTAGGTTG
Found at i:33306808 original size:24 final size:25
Alignment explanation
Indices: 33306780--33306831 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
33306770 ATGGTTAGGT
33306780 TGTTACACGT-CATGTACAAAAACA
1 TGTTACACGTGCATGTACAAAAACA
*
33306804 TGTTATACGTGCATGTACAAAAACA
1 TGTTACACGTGCATGTACAAAAACA
33306829 TGT
1 TGT
33306832 GACATACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (25 bp):
TGTTACACGTGCATGTACAAAAACA
Found at i:33306849 original size:70 final size:69
Alignment explanation
Indices: 33306671--33306882 Score: 241
Period size: 70 Copynumber: 3.1 Consensus size: 69
33306661 TTAGGTTGTC
* *
33306671 ACACGCCATGTACAAAAACATGTGACACTCCATGGTTAGGTTGTT-CACG-CTATGTACAAAAAC
1 ACACACCATGTACAAAAACATGTGACACTACATGGTTAGGTTGTTACACGTC-ATGTACAAAAAC
*
33306734 TTATT
65 ATATT
* * * * *
33306739 ACACACCATATACAAAAATATATAACACAACATGGTTAGGTTGTTACACGTCATGTACAAAAACA
1 ACACACCATGTACAAAAACATGTGACACTACATGGTTAGGTTGTTACACGTCATGTACAAAAACA
*
33306804 TGTT
66 TATT
* ** * *
33306808 ATACGTGCATGTACAAAAACATGTGACA-TACTATAGTTAGGTTGTTACACGTCATGTGCAAAAA
1 ACAC-ACCATGTACAAAAACATGTGACACTAC-ATGGTTAGGTTGTTACACGTCATGTACAAAAA
*
33306872 CATATG
64 CATATT
33306878 ACACA
1 ACACA
33306883 TTGTTACATG
Statistics
Matches: 117, Mismatches: 23, Indels: 7
0.80 0.16 0.05
Matches are distributed among these distances:
68 38 0.32
69 24 0.21
70 55 0.47
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (69 bp):
ACACACCATGTACAAAAACATGTGACACTACATGGTTAGGTTGTTACACGTCATGTACAAAAACA
TATT
Found at i:33306943 original size:34 final size:34
Alignment explanation
Indices: 33306849--33306945 Score: 149
Period size: 34 Copynumber: 2.9 Consensus size: 34
33306839 TATAGTTAGG
* *
33306849 TTGTTACACGTCATGTGCAAAAACATATGACACA
1 TTGTTACATGTCATGTGCAAAAACATGTGACACA
33306883 TTGTTACATGTCATGTGCAAAAACATGTGACACA
1 TTGTTACATGTCATGTGCAAAAACATGTGACACA
* * *
33306917 TTGTTACATGCCATGTACAATAACATGTG
1 TTGTTACATGTCATGTGCAAAAACATGTG
33306946 TCACGTCATG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (34 bp):
TTGTTACATGTCATGTGCAAAAACATGTGACACA
Found at i:33307026 original size:29 final size:29
Alignment explanation
Indices: 33306983--33307058 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
33306973 CATATTGAAA
*
33306983 AAAAAATATTATTGTTACACGTCATATTG
1 AAAAAATATTATTGTTACACGTCATATTC
* *
33307012 AAAAAATATTGTTGTTATACGTCATATTC
1 AAAAAATATTATTGTTACACGTCATATTC
*
33307041 AAAAACATTTTATT-TTAC
1 AAAAA-ATATTATTGTTAC
33307059 TTTAATACTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 34 0.85
30 6 0.15
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.41
Consensus pattern (29 bp):
AAAAAATATTATTGTTACACGTCATATTC
Found at i:33307458 original size:23 final size:23
Alignment explanation
Indices: 33307432--33307478 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
33307422 ACTTGGTGTC
33307432 TTAAAAAAATAGGAAAGAGAAAT
1 TTAAAAAAATAGGAAAGAGAAAT
** *
33307455 TTAAAAACGTAGGAGAGAGAAAT
1 TTAAAAAAATAGGAAAGAGAAAT
33307478 T
1 T
33307479 GAAGTGTAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.57, C:0.02, G:0.21, T:0.19
Consensus pattern (23 bp):
TTAAAAAAATAGGAAAGAGAAAT
Found at i:33312109 original size:2 final size:2
Alignment explanation
Indices: 33312102--33312134 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
33312092 TTCATAGCTT
33312102 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33312135 ATGTTACAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33315895 original size:2 final size:2
Alignment explanation
Indices: 33315772--33315877 Score: 114
Period size: 2 Copynumber: 53.5 Consensus size: 2
33315762 ATGTGAAAAG
*
33315772 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
* *
33315815 -A TT TCA T- TA NT- TA TA -A TC TA TA -A CTA TA TA TA TA TA TA
1 TA TA T-A TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
33315853 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 T
33315878 TGAGAATATC
Statistics
Matches: 90, Mismatches: 5, Indels: 18
0.80 0.04 0.16
Matches are distributed among these distances:
1 5 0.06
2 81 0.90
3 4 0.04
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:33324021 original size:2 final size:2
Alignment explanation
Indices: 33324014--33324040 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33324004 TCATGCACAG
33324014 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
33324041 TTGAACAACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:33325438 original size:15 final size:16
Alignment explanation
Indices: 33325420--33325462 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
33325410 GTATCATGAT
33325420 TATATTTAAT-TTTAA
1 TATATTTAATATTTAA
**
33325435 TATATTTTTTATTTAA
1 TATATTTAATATTTAA
33325451 TCATATTTAATA
1 T-ATATTTAATA
33325463 CATTTAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 8 0.36
16 6 0.27
17 8 0.36
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATTTAATATTTAA
Found at i:33341891 original size:20 final size:20
Alignment explanation
Indices: 33341866--33341932 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
33341856 TTCTTTACTT
33341866 AGTTTTTACTAACCTCAACA
1 AGTTTTTACTAACCTCAACA
* * *
33341886 AG-TTTT-CAAACCATCCATCTT
1 AGTTTTTACTAACC-T-CAAC-A
33341907 AGTTTTTACTAACCTCAACA
1 AGTTTTTACTAACCTCAACA
33341927 AGTTTT
1 AGTTTT
33341933 CAAACCATCC
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
18 5 0.14
19 5 0.14
20 11 0.31
21 5 0.14
22 5 0.14
23 5 0.14
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (20 bp):
AGTTTTTACTAACCTCAACA
Found at i:33341911 original size:21 final size:21
Alignment explanation
Indices: 33341886--33341948 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
33341876 AACCTCAACA
33341886 AGTTTTCAAACCATCCATCTT
1 AGTTTTCAAACCATCCATCTT
* * *
33341907 AGTTTTTACTAACC-T-CAAC-A
1 AG-TTTT-CAAACCATCCATCTT
33341927 AGTTTTCAAACCATCCATCTT
1 AGTTTTCAAACCATCCATCTT
33341948 A
1 A
33341949 AATCTTCCTA
Statistics
Matches: 31, Mismatches: 6, Indels: 10
0.66 0.13 0.21
Matches are distributed among these distances:
18 5 0.16
19 5 0.16
20 5 0.16
21 6 0.19
22 5 0.16
23 5 0.16
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.37
Consensus pattern (21 bp):
AGTTTTCAAACCATCCATCTT
Found at i:33341920 original size:41 final size:41
Alignment explanation
Indices: 33341863--33341948 Score: 172
Period size: 41 Copynumber: 2.1 Consensus size: 41
33341853 CCTTTCTTTA
33341863 CTTAGTTTTTACTAACCTCAACAAGTTTTCAAACCATCCAT
1 CTTAGTTTTTACTAACCTCAACAAGTTTTCAAACCATCCAT
33341904 CTTAGTTTTTACTAACCTCAACAAGTTTTCAAACCATCCAT
1 CTTAGTTTTTACTAACCTCAACAAGTTTTCAAACCATCCAT
33341945 CTTA
1 CTTA
33341949 AATCTTCCTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.37
Consensus pattern (41 bp):
CTTAGTTTTTACTAACCTCAACAAGTTTTCAAACCATCCAT
Found at i:33342400 original size:5 final size:5
Alignment explanation
Indices: 33342390--33342480 Score: 56
Period size: 5 Copynumber: 19.6 Consensus size: 5
33342380 GTAGACACTC
* * * * *
33342390 AAATA AAAT- AAA-A AAATT AAA-A AAAT- AAATT AAGTT AAATC AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
33342436 AAATAA ATAATA AAAT- AAATA AAAT- AAAT- AAA-A AAATA AAA-A AAA
1 AAAT-A A-AATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAA
33342481 AATCGGGATG
Statistics
Matches: 71, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
4 31 0.44
5 33 0.46
6 4 0.06
7 3 0.04
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:33342412 original size:9 final size:8
Alignment explanation
Indices: 33342394--33342479 Score: 59
Period size: 9 Copynumber: 10.5 Consensus size: 8
33342384 ACACTCAAAT
33342394 AAAATAAA
1 AAAATAAA
33342402 AAAATTAAA
1 AAAA-TAAA
33342411 AAAATAAA
1 AAAATAAA
* * *
33342419 TTAAGTTAA
1 -AAAATAAA
** *
33342428 ATCA-AAT
1 AAAATAAA
33342435 AAAAT-AA
1 AAAATAAA
*
33342442 ATAATAAA
1 AAAATAAA
33342450 ATAAATAAA
1 A-AAATAAA
33342459 ATAAATAAA
1 A-AAATAAA
33342468 AAAATAAA
1 AAAATAAA
33342476 AAAA
1 AAAA
33342480 AAATCGGGAT
Statistics
Matches: 59, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
7 8 0.14
8 22 0.37
9 29 0.49
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.21
Consensus pattern (8 bp):
AAAATAAA
Found at i:33342449 original size:12 final size:12
Alignment explanation
Indices: 33342432--33342475 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
33342422 AGTTAAATCA
33342432 AATAAAATAAAT
1 AATAAAATAAAT
33342444 AATAAAAT--A-
1 AATAAAATAAAT
33342453 AATAAAATAAAT
1 AATAAAATAAAT
*
33342465 AAAAAAATAAA
1 AATAAAATAAA
33342476 AAAAAAATCG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 8 0.29
10 1 0.04
11 1 0.04
12 18 0.64
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (12 bp):
AATAAAATAAAT
Found at i:33343340 original size:15 final size:14
Alignment explanation
Indices: 33343315--33343349 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
33343305 AGCTTGCAAA
33343315 AAATAAAATAAATAAT
1 AAAT-AAATAAAT-AT
33343331 AAATAAATAAATAT
1 AAATAAATAAATAT
33343345 AAATA
1 AAATA
33343350 TACATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.37
15 8 0.42
16 4 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATAAATAAATAT
Found at i:33343421 original size:25 final size:26
Alignment explanation
Indices: 33343384--33343466 Score: 73
Period size: 25 Copynumber: 3.1 Consensus size: 26
33343374 TTTGGATAAA
* *
33343384 AAAATTAATTAAATAAA-AAATATAT
1 AAAATAAAATAAATAAATAAATATAT
33343409 AAAATAAAATAAA-AAATAATGATAGTAAT
1 AAAATAAAATAAATAAATAA--ATA-T-AT
33343438 AAAATGAAAA-AAATAAATAAATAATAT
1 AAAAT-AAAATAAATAAATAAAT-ATAT
33343465 AA
1 AA
33343467 TTGGAATAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
24 3 0.06
25 13 0.27
27 7 0.15
28 4 0.08
29 11 0.23
30 10 0.21
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (26 bp):
AAAATAAAATAAATAAATAAATATAT
Found at i:33349187 original size:21 final size:21
Alignment explanation
Indices: 33349162--33349201 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
33349152 TCTAACATAT
33349162 TAATAAGGAATGTAAGGTGAA
1 TAATAAGGAATGTAAGGTGAA
33349183 TAATAAGGAATGTAAGGTG
1 TAATAAGGAATGTAAGGTG
33349202 GTGTATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (21 bp):
TAATAAGGAATGTAAGGTGAA
Found at i:33351112 original size:40 final size:40
Alignment explanation
Indices: 33351037--33351114 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
33351027 TTGGCTATTT
* **
33351037 TTCACCTTAGTGGGATTTTCAATTTTGCCAAGATTGGTGA
1 TTCACCTTAGTGGGATTTTCAATCTCACCAAGATTGGTGA
* *
33351077 TTCACCTTAGTGGGGTTTTCAATCTCACCACGATTGGT
1 TTCACCTTAGTGGGATTTTCAATCTCACCAAGATTGGT
33351115 TGGTGTCTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (40 bp):
TTCACCTTAGTGGGATTTTCAATCTCACCAAGATTGGTGA
Found at i:33353580 original size:16 final size:16
Alignment explanation
Indices: 33353559--33353589 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33353549 TGTAGGGTCA
*
33353559 TTATATTATTTATTAT
1 TTATATTAATTATTAT
33353575 TTATATTAATTATTA
1 TTATATTAATTATTA
33353590 AATAAAAATT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATATTAATTATTAT
Found at i:33356900 original size:2 final size:2
Alignment explanation
Indices: 33356895--33356943 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
33356885 TGTATGTGTG
* * * *
33356895 TA TA TA CA TA TA TA TA TA TA TA TA TA TA CA TA TA CA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33356937 TA TA TA T
1 TA TA TA T
33356944 NNNNNNNNNN
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:33379596 original size:25 final size:25
Alignment explanation
Indices: 33379560--33379610 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
33379550 TAATTACATG
33379560 TCTTTTACTTGGTAGTTATTTAGTT
1 TCTTTTACTTGGTAGTTATTTAGTT
* * *
33379585 TCTTTTATTTGGTGGTTATTTGGTT
1 TCTTTTACTTGGTAGTTATTTAGTT
33379610 T
1 T
33379611 TTCATGTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.12, C:0.06, G:0.20, T:0.63
Consensus pattern (25 bp):
TCTTTTACTTGGTAGTTATTTAGTT
Found at i:33379730 original size:20 final size:19
Alignment explanation
Indices: 33379697--33379744 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
33379687 GTAGTGCTAT
**
33379697 TTAT-TTTT-TTTTTAATT
1 TTATCTTTTGTTTTTAACC
33379714 TTATCTGTTTGTTTTTAACC
1 TTATCT-TTTGTTTTTAACC
33379734 TTATCTTTTGT
1 TTATCTTTTGT
33379745 AAGGCTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 4 0.15
18 1 0.04
19 8 0.31
20 13 0.50
ACGTcount: A:0.15, C:0.08, G:0.06, T:0.71
Consensus pattern (19 bp):
TTATCTTTTGTTTTTAACC
Found at i:33380761 original size:24 final size:25
Alignment explanation
Indices: 33380729--33380777 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
33380719 TAAATATTCC
* * *
33380729 TTTATTAATTAATGTAATTATAGGA
1 TTTATTAATCAACGAAATTATAGGA
33380754 TTTA-TAATCAACGAAATTATAGGA
1 TTTATTAATCAACGAAATTATAGGA
33380778 ATCACCATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (25 bp):
TTTATTAATCAACGAAATTATAGGA
Found at i:33382126 original size:15 final size:16
Alignment explanation
Indices: 33382100--33382132 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
33382090 ATCTCTTCTG
*
33382100 ATAAGTAGAAACCCCA
1 ATAAGTAGAAACCACA
33382116 ATAAG-AGAAACCACA
1 ATAAGTAGAAACCACA
33382131 AT
1 AT
33382133 GTAATTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.55, C:0.21, G:0.12, T:0.12
Consensus pattern (16 bp):
ATAAGTAGAAACCACA
Found at i:33412977 original size:20 final size:20
Alignment explanation
Indices: 33412952--33412998 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
33412942 TACCTCTTTT
33412952 TTTTTTAATTATAATTAAAA
1 TTTTTTAATTATAATTAAAA
* * **
33412972 TTTTTTATTTATTATTATTA
1 TTTTTTAATTATAATTAAAA
33412992 TTTTTTA
1 TTTTTTA
33412999 GGTGTCTACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTTAATTATAATTAAAA
Found at i:33415667 original size:30 final size:31
Alignment explanation
Indices: 33415611--33415670 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
33415601 ACATTTTAAT
33415611 TATAAAAATTAAATTCAACATTTTGATAGAA
1 TATAAAAATTAAATTCAACATTTTGATAGAA
* * *
33415642 TATAGAAATTAAGTT-AACGTTTTGATAGA
1 TATAAAAATTAAATTCAACATTTTGATAGA
33415671 CTACAAGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.37
Consensus pattern (31 bp):
TATAAAAATTAAATTCAACATTTTGATAGAA
Found at i:33417619 original size:2 final size:2
Alignment explanation
Indices: 33417612--33417645 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
33417602 GGCTTATAAC
33417612 AT AT AT 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 AT AT AT
33417646 TAATTGGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.