Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 189 of 203
Found at i:60098258 original size:17 final size:16
Alignment explanation
Indices: 60098220--60098266 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
60098210 AATATAAAAA
60098220 AAGT-AAAAAAAATCG
1 AAGTGAAAAAAAATCG
* *
60098235 AAGTGAAAAAAATTTG
1 AAGTGAAAAAAAATCG
60098251 AAGTTGAACAAAAAAT
1 AAG-TGAA-AAAAAAT
60098267 TGTAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 4 0.15
16 12 0.46
17 4 0.15
18 6 0.23
ACGTcount: A:0.62, C:0.04, G:0.15, T:0.19
Consensus pattern (16 bp):
AAGTGAAAAAAAATCG
Found at i:60106020 original size:30 final size:29
Alignment explanation
Indices: 60105972--60106028 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
60105962 TTTACGAGCG
* *
60105972 TAGGGGCCAAAGTGCAAATATGTGAAAATT
1 TAGGGGCCAAAATACAAATATGT-AAAATT
* *
60106002 TAGGGGTCAAAATACAAATTTGTAAAA
1 TAGGGGCCAAAATACAAATATGTAAAA
60106029 GTATGATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 4 0.17
30 19 0.83
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.25
Consensus pattern (29 bp):
TAGGGGCCAAAATACAAATATGTAAAATT
Found at i:60106287 original size:18 final size:20
Alignment explanation
Indices: 60106251--60106297 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
60106241 AGTTGTAAGT
60106251 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
60106271 ATAT-TATGTGACTATTTTG
1 ATATATATGTGAATAATTTG
60106290 ATGATATA
1 AT-ATATA
60106298 ACATGTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:60106777 original size:51 final size:50
Alignment explanation
Indices: 60106648--60107025 Score: 168
Period size: 50 Copynumber: 7.8 Consensus size: 50
60106638 TCGTTGTGAG
* * * *
60106648 TCACATGTGTAGTACTAAGTGCCGGCTACTATGTGTACCAGATTGATAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAATAGA
* * * * *
60106698 TCGCATGTGTAGTACTAAATGCAAGCTACTATGCGTACCCG-TTAACTTTGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAA--TAGA
* * ** * *
60106749 TCACATATGTAGTACTAAGTGTAGGCTACTATTTGTATC--A--AAT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAATAGA
* * * * * * * *
60106794 TTA-A-GT-CA-CACTAAGTGCAGGCTACTACGTGCACCAGATTGATAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAATAGA
* * *
60106840 TCGCATGTGTAGTACTAAGTCCAGGCTACTATGCGTA-CACG-TTAACTTTGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA-GATTAA--TAGA
* * * *** * *
60106891 TCACGTGTGTAGTACAAAGTGGAGGCTACTACATGTATCAGATGGTTA-AG-
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT--TAATAGA
* * * * * *
60106941 TCACGTGTGTAGTACTAAGTGTAGG-------GTGTACCAGGTTGATAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAATAGA
* *
60106984 TCGCATGTGTAGTATTAAGTGCAGGCTACTATGCGTACCAGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
60107026 GAGCTTCGGT
Statistics
Matches: 239, Mismatches: 61, Indels: 56
0.67 0.17 0.16
Matches are distributed among these distances:
41 23 0.10
42 3 0.01
43 31 0.13
44 1 0.00
45 5 0.02
46 4 0.02
47 1 0.00
48 4 0.02
49 9 0.04
50 87 0.36
51 66 0.28
52 3 0.01
54 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTAATAGA
Found at i:60106917 original size:142 final size:142
Alignment explanation
Indices: 60106661--60107021 Score: 467
Period size: 142 Copynumber: 2.5 Consensus size: 142
60106651 CATGTGTAGT
* * * *
60106661 ACTAAGTGCCGGCTACTATGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAATGCAAGCTA
1 ACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTA
* * * **
60106726 CTATGCGTACCCGTTAACTTTGATCACATATGTAGTACTAAGTGTAGGCTACTATTTGTATCAAA
66 CTATGCGTACACGTTAACTTTGATCACATATGTAGTACAAAGTGGAGGCTACTACATGTATCAAA
60106791 TGGTTAAGTCAC
131 TGGTTAAGTCAC
* *
60106803 ACTAAGTGCAGGCTACTACGTGCACCAGATTGATAGGTCGCATGTGTAGTACTAAGTCCAGGCTA
1 ACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTA
* * *
60106868 CTATGCGTACACGTTAACTTTGATCACGTGTGTAGTACAAAGTGGAGGCTACTACATGTATCAGA
66 CTATGCGTACACGTTAACTTTGATCACATATGTAGTACAAAGTGGAGGCTACTACATGTATCAAA
60106933 TGGTTAAGTCAC
131 TGGTTAAGTCAC
* * * * * * *
60106945 -GT--GTGTAGTACTAAGTGTAGGGTGTACCAGGTTGATAGGTCGCATGTGTAGTATTAAGTGCA
1 ACTAAGTGCAG-GCT-A--CTA-CGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCA
60107007 GGCTACTATGCGTAC
61 GGCTACTATGCGTAC
60107022 CAGAGAGCTT
Statistics
Matches: 191, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
139 5 0.03
140 2 0.01
141 2 0.01
142 128 0.67
143 2 0.01
144 52 0.27
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (142 bp):
ACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTA
CTATGCGTACACGTTAACTTTGATCACATATGTAGTACAAAGTGGAGGCTACTACATGTATCAAA
TGGTTAAGTCAC
Found at i:60108401 original size:15 final size:15
Alignment explanation
Indices: 60108381--60108419 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
60108371 TATAATATTG
*
60108381 TATCTTGGATTTCCT
1 TATCTTGGATTTCCC
60108396 TATCTTGGATTTCCC
1 TATCTTGGATTTCCC
60108411 TATCTTGGA
1 TATCTTGGA
60108420 GATCCTAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.49
Consensus pattern (15 bp):
TATCTTGGATTTCCC
Found at i:60108720 original size:40 final size:40
Alignment explanation
Indices: 60108663--60108847 Score: 127
Period size: 41 Copynumber: 4.5 Consensus size: 40
60108653 ACAAAAATTG
* * * *
60108663 TAAAACACAGAGCAATAGCGGCGTTTTTGGTAAAACGCTGC
1 TAAAA-ACAGAGAAATAGCGGCGTTTTAGATAAAACGCCGC
* * * * *
60108704 TAAAAACAGATAAATAGCTGTGTTTTAGCAAAAAACACCGC
1 TAAAAACAGAGAAATAGCGGCGTTTTAG-ATAAAACGCCGC
* * * *
60108745 TAAAAATAGAGCAATAGCGGCGCTTTCGATAAAACGCCGC
1 TAAAAACAGAGAAATAGCGGCGTTTTAGATAAAACGCCGC
* * * * * * **
60108785 TAAAAACTAGAGCATTAGCAGCGCTTTCGGTAAAACGCCAT
1 TAAAAAC-AGAGAAATAGCGGCGTTTTAGATAAAACGCCGC
* *
60108826 TAAAAACCAGAGCATTAGCGGC
1 TAAAAA-CAGAGAAATAGCGGC
60108848 ACTTTCTGTA
Statistics
Matches: 116, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
40 34 0.29
41 81 0.70
42 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (40 bp):
TAAAAACAGAGAAATAGCGGCGTTTTAGATAAAACGCCGC
Found at i:60108812 original size:41 final size:41
Alignment explanation
Indices: 60108735--60108912 Score: 216
Period size: 41 Copynumber: 4.4 Consensus size: 41
60108725 GTTTTAGCAA
* * * *
60108735 AAAACACCGCTAAAAA-TAGAGCAATAGCGGCGCTTTC-GAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTCTG-T
* * * *
60108775 AAAACGCCGCTAAAAACTAGAGCATTAGCAGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTCTGT
**
60108816 AAAACGCCATTAAAAACCAGAGCATTAGCGGCACTTTCTGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTCTGT
**
60108857 AAAACGCCATTAAAAACCAGAGCATTAGCGGCACTTTCTGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTCTGT
*
60108898 AAAATGCCGCTAAAA
1 AAAACGCCGCTAAAA
60108913 GTCATATAAC
Statistics
Matches: 124, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
40 15 0.12
41 108 0.87
42 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTCTGT
Found at i:60109015 original size:16 final size:16
Alignment explanation
Indices: 60108970--60109015 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
60108960 TCTATATAAC
*
60108970 CCCTAAAACACT-AAAC
1 CCCT-AAACACTAAAAA
60108986 CCCTAAAC-CTTAAAAA
1 CCCTAAACAC-TAAAAA
60109002 CCCTAAACACTAAA
1 CCCTAAACACTAAA
60109016 CTATAACCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 1 0.04
15 5 0.19
16 19 0.73
17 1 0.04
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (16 bp):
CCCTAAACACTAAAAA
Found at i:60109281 original size:21 final size:21
Alignment explanation
Indices: 60109243--60109299 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
60109233 GGATTATGAT
* *
60109243 TTAAGAGTT-GGGGTTTAAGGT
1 TTAAGGGTTAGGGG-TTAAGGG
* *
60109264 TTAGGGGTTATGGGTTAAGGG
1 TTAAGGGTTAGGGGTTAAGGG
60109285 TTAAGGGTTAGGGGT
1 TTAAGGGTTAGGGGT
60109300 CTAGGATTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.21, C:0.00, G:0.44, T:0.35
Consensus pattern (21 bp):
TTAAGGGTTAGGGGTTAAGGG
Found at i:60109309 original size:21 final size:21
Alignment explanation
Indices: 60109243--60109310 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
60109233 GGATTATGAT
* *
60109243 TTAAGAGTT-GGGGTTTAAGGT
1 TTAAGGGTTAGGGG-TTAAGGA
* * *
60109264 TTAGGGGTTATGGGTTAAGGG
1 TTAAGGGTTAGGGGTTAAGGA
60109285 TTAAGGGTTAGGGGTCT-AGGA
1 TTAAGGGTTAGGGGT-TAAGGA
60109306 TTAAG
1 TTAAG
60109311 AGTTTATGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 34 0.89
22 4 0.11
ACGTcount: A:0.24, C:0.01, G:0.41, T:0.34
Consensus pattern (21 bp):
TTAAGGGTTAGGGGTTAAGGA
Found at i:60109325 original size:21 final size:21
Alignment explanation
Indices: 60109301--60109353 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
60109291 GTTAGGGGTC
*
60109301 TAGGATTAAGAGTTTATGTTT
1 TAGGATTAAGAGTTTATGATT
* *
60109322 TAGGATTTAGGGTTTATGATT
1 TAGGATTAAGAGTTTATGATT
60109343 TAGGGATTAAG
1 TA-GGATTAAG
60109354 GATTGGAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.43
Consensus pattern (21 bp):
TAGGATTAAGAGTTTATGATT
Found at i:60109371 original size:7 final size:7
Alignment explanation
Indices: 60109253--60109373 Score: 57
Period size: 7 Copynumber: 17.1 Consensus size: 7
60109243 TTAAGAGTTG
60109253 GGGTTTA
1 GGGTTTA
*
60109260 AGGTTTA
1 GGGTTTA
*
60109267 GGGGTTA
1 GGGTTTA
*
60109274 TGGGTTAA
1 -GGGTTTA
*
60109282 GGGTTAA
1 GGGTTTA
60109289 GGG-TTA
1 GGGTTTA
*
60109295 GGGGTCTA
1 -GGGTTTA
* *
60109303 GGATTAA
1 GGGTTTA
*
60109310 GAGTTTA
1 GGGTTTA
* *
60109317 TGTTTTA
1 GGGTTTA
*
60109324 GGATTTA
1 GGGTTTA
60109331 GGGTTTA
1 GGGTTTA
* *
60109338 TGATTTA
1 GGGTTTA
*
60109345 GGGATTA
1 GGGTTTA
* *
60109352 AGGATT-
1 GGGTTTA
60109358 GGAGTTTA
1 GG-GTTTA
60109366 GGGTTTA
1 GGGTTTA
60109373 G
1 G
60109374 TTAATTAGTG
Statistics
Matches: 82, Mismatches: 27, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
6 3 0.04
7 70 0.85
8 9 0.11
ACGTcount: A:0.23, C:0.01, G:0.37, T:0.39
Consensus pattern (7 bp):
GGGTTTA
Found at i:60109519 original size:21 final size:20
Alignment explanation
Indices: 60109495--60109577 Score: 62
Period size: 21 Copynumber: 3.9 Consensus size: 20
60109485 ATTTAGGATA
60109495 TATGGTTAAGGGTTTAAGGTT
1 TATGGTTAA-GGTTTAAGGTT
*
60109516 TATGAGTTACTA-TTTTAAGGTT
1 TATG-GTTA--AGGTTTAAGGTT
*
60109538 TATGGATTATA-GTTTAAGGGT
1 TATGG-TTA-AGGTTTAAGGTT
*
60109559 TAGGGTTTAAGGTTTAAGG
1 TATGG-TTAAGGTTTAAGG
60109578 GTTAGGGGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
20 1 0.02
21 30 0.58
22 20 0.38
24 1 0.02
ACGTcount: A:0.27, C:0.01, G:0.29, T:0.43
Consensus pattern (20 bp):
TATGGTTAAGGTTTAAGGTT
Found at i:60109578 original size:21 final size:21
Alignment explanation
Indices: 60109549--60109617 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
60109539 ATGGATTATA
*
60109549 GTTTAAGGGTTAGGGTTTAAG
1 GTTTAAGGGTTAGGGGTTAAG
*
60109570 GTTTAAGGGTTAGGGGTTATG
1 GTTTAAGGGTTAGGGGTTAAG
* * **
60109591 GGTTCAGGGTTAATGGTTAATG
1 GTTTAAGGGTTAGGGGTTAA-G
60109613 GTTTA
1 GTTTA
60109618 TATTTTAGGA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
21 34 0.89
22 4 0.11
ACGTcount: A:0.22, C:0.01, G:0.38, T:0.39
Consensus pattern (21 bp):
GTTTAAGGGTTAGGGGTTAAG
Found at i:60109965 original size:19 final size:21
Alignment explanation
Indices: 60109925--60109970 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
60109915 ATATTAGATT
*
60109925 TAAAAAATATTGATAAATAAA
1 TAAAAAATATTGATAAACAAA
60109946 TAAAAAA-ATTGAT-AACAAA
1 TAAAAAATATTGATAAACAAA
60109965 TAAAAA
1 TAAAAA
60109971 TGAAATACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 11 0.46
20 6 0.25
21 7 0.29
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (21 bp):
TAAAAAATATTGATAAACAAA
Found at i:60109984 original size:19 final size:19
Alignment explanation
Indices: 60109962--60110001 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
60109952 AATTGATAAC
*
60109962 AAATAAAAATGAAATACAA
1 AAATAAAAATAAAATACAA
*
60109981 AAATAAAAATAAAATATAA
1 AAATAAAAATAAAATACAA
60110000 AA
1 AA
60110002 TAGAGATTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (19 bp):
AAATAAAAATAAAATACAA
Found at i:60115022 original size:15 final size:16
Alignment explanation
Indices: 60115002--60115032 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
60114992 GTTTTTGTCT
60115002 TATATATGAT-TAAAA
1 TATATATGATCTAAAA
60115017 TATATATGATCTAAAA
1 TATATATGATCTAAAA
60115033 GCAAGAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATGATCTAAAA
Found at i:60116558 original size:43 final size:43
Alignment explanation
Indices: 60116487--60116642 Score: 141
Period size: 43 Copynumber: 3.6 Consensus size: 43
60116477 AATAATATTT
* * * *
60116487 TAAAGGTTATGATTTTTAGCGACATTTGTGAGAAAAGTGCCGC
1 TAAAGGTCAAGATTTTTAGCGGCGTTTGTGAGAAAAGTGCCGC
* * * * * *
60116530 TAAATGTCAAGATTTTTAGTGGCGTTTGTGGGAAAAGCGTCAC
1 TAAAGGTCAAGATTTTTAGCGGCGTTTGTGAGAAAAGTGCCGC
* * * *
60116573 TAAAGGTCATGCTCTTTAGCGGCGTTTGTGAAAAAAGTGCCGC
1 TAAAGGTCAAGATTTTTAGCGGCGTTTGTGAGAAAAGTGCCGC
** * * *
60116616 TAAAATTCATGGTCTTTAGCGGCGTTT
1 TAAAGGTCAAGATTTTTAGCGGCGTTT
60116643 TTTTAAAAAA
Statistics
Matches: 90, Mismatches: 23, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 90 1.00
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (43 bp):
TAAAGGTCAAGATTTTTAGCGGCGTTTGTGAGAAAAGTGCCGC
Found at i:60118590 original size:38 final size:38
Alignment explanation
Indices: 60118475--60118592 Score: 112
Period size: 39 Copynumber: 3.0 Consensus size: 38
60118465 TCCAATTTCT
* * **
60118475 AGCACAAAGCCTACGGGATTTAACCCGGATATCTCTTACC
1 AGCACTAAGCCTGCGGGATTTAACCCGGATA--TAATACC
* * * *
60118515 AGCACTAGGCCTG-TGGACTATAAGTCCGGATATAATACC
1 AGCACTAAGCCTGCGGGA-TTTAA-CCCGGATATAATACC
*
60118554 AGCATTAAGCCTGCGGGATTTAACCCGGATATAATACC
1 AGCACTAAGCCTGCGGGATTTAACCCGGATATAATACC
60118592 A
1 A
60118593 CATAAATTTT
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
38 15 0.24
39 23 0.37
40 17 0.27
41 7 0.11
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.23
Consensus pattern (38 bp):
AGCACTAAGCCTGCGGGATTTAACCCGGATATAATACC
Found at i:60142715 original size:14 final size:15
Alignment explanation
Indices: 60142689--60142721 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
60142679 TCCCAAGCTG
60142689 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
60142704 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
60142718 GGAA
1 GGAA
60142722 AAGCGTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:60144145 original size:44 final size:43
Alignment explanation
Indices: 60144097--60144315 Score: 136
Period size: 44 Copynumber: 5.0 Consensus size: 43
60144087 AGACACCAAC
* *
60144097 CTTGCCTCCCTGGGTTGTAGCGGAGTAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGTAGCGAAGCAGGTT-AAAATAGCAGAT
* ** * * * * * *
60144141 CTTGCCTTCCTGCATCGATAGCGAAGCAGATCGAAAACACCAG-C
1 CTTGCCTCCCTGGGTTG-TAGCGAAGCAGGT-TAAAATAGCAGAT
*
60144185 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGTAGCGAAGCAGGTTAAAATAGCAGAT
* **** * * * * * * *
60144228 CTTGCCTTCCTGTACGGACAGCGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-TAGCGAAGCAGGT-TAAAATAGCAGAT
* *
60144272 CTCGCCTCCCTGGGTTGTAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGTAGCGAAGCAGGTT-AAAATAGCAGAT
60144316 GTTTCCTTCC
Statistics
Matches: 122, Mismatches: 46, Indels: 14
0.67 0.25 0.08
Matches are distributed among these distances:
42 8 0.07
43 40 0.33
44 49 0.40
45 25 0.20
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (43 bp):
CTTGCCTCCCTGGGTTGTAGCGAAGCAGGTTAAAATAGCAGAT
Found at i:60144197 original size:88 final size:88
Alignment explanation
Indices: 60144048--60144434 Score: 564
Period size: 88 Copynumber: 4.4 Consensus size: 88
60144038 GTGAAGATAA
* * * * * *
60144048 CAGATCTTGCCTTCCTACACTGAAAACGAAGCAGATTGAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACAGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
60144113 GTAGCGGAGTAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* *
60144136 CAGATCTTGCCTTCCTGCATC-GATAGCGAAGCAGATCGAAAACACCAGCCTTGCCTCCCTGGGT
1 CAGATCTTGCCTTCCTGCA-CAGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGT
*
60144200 TGCAGCGAAGCAGGTT-AAAATAG
65 TGCAGCGGAGCAGGTTAAAAATAG
* * *
60144223 CAGATCTTGCCTTCCTGTACGGACAGCGAAGCAGATCGAAGACACCAGCCTCGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACAGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
60144288 GTAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * *
60144311 CAGATGTTTCCTTCCTGCACAGACAGCGAAGCAAATCGAAGACACCAGCCTTGCCTCCCTGGTTT
1 CAGATCTTGCCTTCCTGCACAGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
60144376 GCAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
60144399 CAGATCTTGCCTTCCTGCATC-GACAGCGAAGCAGAT
1 CAGATCTTGCCTTCCTGCA-CAGACAGCGAAGCAGAT
60144435 TAATGACCCT
Statistics
Matches: 269, Mismatches: 26, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
86 1 0.00
87 79 0.29
88 187 0.70
89 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACAGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGTTAAAAATAG
Found at i:60144341 original size:175 final size:175
Alignment explanation
Indices: 60144048--60144434 Score: 589
Period size: 175 Copynumber: 2.2 Consensus size: 175
60144038 GTGAAGATAA
* * * * *
60144048 CAGATCTTGCCTTCCTACACTGAAAACGAAGCAGATTGAAGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCAC-GACAGCGAAGCAGATCGAAGACACCAACCTCGCCTCCCTGGGTT
* * *
60144113 GTAGCGGAGTAGGTTAAAAATAGCAGATCTTGCCTTCCTGCATCGATAGCGAAGCAGATCGAAAA
65 GTAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAAATCGAAAA
60144178 CACCAGCCTTGCCTCCCTGGGTTGCAGCGAAGCAGGTT-AAAATAG
130 CACCAGCCTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAG
* *
60144223 CAGATCTTGCCTTCCTGTACGGACAGCGAAGCAGATCGAAGACACCAGCCTCGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCAC-GACAGCGAAGCAGATCGAAGACACCAACCTCGCCTCCCTGGGTT
* * *
60144288 GTAGCGGAGCAGGTTAAAAATAGCAGATGTTTCCTTCCTGCA-CAGACAGCGAAGCAAATCGAAG
65 GTAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCATC-GACAGCGAAGCAAATCGAAA
* *
60144352 ACACCAGCCTTGCCTCCCTGGTTTGCAGCGGAGCAGGTTAAAAATAG
129 ACACCAGCCTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAG
60144399 CAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGAT
1 CAGATCTTGCCTTCCTGCA-CGACAGCGAAGCAGAT
60144435 TAATGACCCT
Statistics
Matches: 192, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
174 1 0.01
175 150 0.78
176 40 0.21
177 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (175 bp):
CAGATCTTGCCTTCCTGCACGACAGCGAAGCAGATCGAAGACACCAACCTCGCCTCCCTGGGTTG
TAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAAATCGAAAAC
ACCAGCCTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAG
Found at i:60144559 original size:44 final size:44
Alignment explanation
Indices: 60144448--60144547 Score: 157
Period size: 44 Copynumber: 2.3 Consensus size: 44
60144438 TGACCCTAGC
*
60144448 CCTATCTCCCGGGACAGCAGTGGAATAGGTTGAAAATTGTAAGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATTGTAAGT
* *
60144492 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-T
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATTGT-AAGT
60144536 CCTATCTCCCTG
1 CCTATCTCCCTG
60144548 AGCAACAGTG
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
44 50 0.96
45 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATTGTAAGT
Found at i:60145184 original size:45 final size:45
Alignment explanation
Indices: 60145061--60145184 Score: 169
Period size: 45 Copynumber: 2.8 Consensus size: 45
60145051 ATCGCATTGG
* * *
60145061 GTCTTATCTCCCTGAAGTTGCAATGGAGCAGACCCAAGAAAGCGA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAA
* *
60145106 GTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTCAAGAAATCAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAA
* *
60145151 GTCTTATGC-CCCTGAAATTGCAGTGGGGCAGACT
1 GTCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGACT
60145185 AAATAAACAA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
45 69 0.99
46 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (45 bp):
GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAA
Found at i:60145758 original size:19 final size:19
Alignment explanation
Indices: 60145734--60145825 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
60145724 AATCTTCAAG
* *
60145734 GATATGCAATCTTCGTTAT
1 GATATGCAATCTTAGATAT
60145753 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
60145772 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
60145791 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
60145810 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
60145826 AGATATGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 69 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:60153432 original size:47 final size:47
Alignment explanation
Indices: 60153365--60154272 Score: 1717
Period size: 47 Copynumber: 19.3 Consensus size: 47
60153355 AAAGTGTATA
60153365 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
*
60153412 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
60153459 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
60153506 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
60153553 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
60153600 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
60153647 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
60153694 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
60153741 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
60153788 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
60153835 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
60153882 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
60153929 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
60153976 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
60154023 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
60154070 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
60154117 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
* *
60154164 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
* * * * * * *
60154211 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
*
60154258 TATAAATGTGATAAG
1 TATATATGTGATAAG
60154273 TCCCGAAGGG
Statistics
Matches: 847, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 847 1.00
ACGTcount: A:0.30, C:0.10, G:0.32, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAGAGTG
Found at i:60154447 original size:37 final size:37
Alignment explanation
Indices: 60154391--60154469 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
60154381 CCGAGCTCTA
* *
60154391 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
60154428 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
60154465 AAGAC
1 AAGAC
60154470 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:60156374 original size:14 final size:14
Alignment explanation
Indices: 60156355--60156394 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
60156345 TTGATTGCCA
60156355 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
60156369 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
60156383 GGAAAATGTTTT
1 GTAAAATGTTTT
60156395 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:60156403 original size:20 final size:20
Alignment explanation
Indices: 60156378--60156417 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
60156368 CGTAAAATGA
*
60156378 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
60156398 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
60156418 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:60156407 original size:34 final size:35
Alignment explanation
Indices: 60156363--60156429 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
60156353 CAGTAAAATG
*
60156363 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
60156397 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
60156430 CTCGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:60156609 original size:22 final size:24
Alignment explanation
Indices: 60156583--60156634 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
60156573 ATGATTTATT
60156583 TATAAATAA-A-TCAA-ATT-AAA
1 TATAAATAATACTCAATATTAAAA
60156603 TATATAATAATACTCAATTATTAAAA
1 TATA-AATAATACTCAA-TATTAAAA
60156629 TATAAA
1 TATAAA
60156635 AGCATTGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 4 0.15
21 5 0.19
22 1 0.04
23 4 0.15
25 5 0.19
26 7 0.27
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (24 bp):
TATAAATAATACTCAATATTAAAA
Found at i:60161443 original size:21 final size:22
Alignment explanation
Indices: 60161399--60161445 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
60161389 AAATTTAGTA
*
60161399 TATTTTAAATTTATTACAATAT
1 TATTTTAAATTTATAACAATAT
60161421 TATTTT-AATATTATAAC-ATAT
1 TATTTTAAAT-TTATAACAATAT
60161442 TATT
1 TATT
60161446 GTTCTAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTTTAAATTTATAACAATAT
Found at i:60161695 original size:29 final size:28
Alignment explanation
Indices: 60161670--60161755 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 28
60161660 TTTATATATA
60161670 TACATAATATATTATCGATTTCATATTAT
1 TACATAATATATTATCGA-TTCATATTAT
**
60161699 TACAT-AT-CCTT-TC-A-T-ATA-TAT
1 TACATAATATATTATCGATTCATATTAT
60161720 ATACATAATATATTATCGATATCATATTAT
1 -TACATAATATATTATCGAT-TCATATTAT
60161750 TACATA
1 TACATA
60161756 TCCTTTCATA
Statistics
Matches: 44, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
21 3 0.07
22 8 0.18
23 3 0.07
24 2 0.05
25 3 0.07
26 3 0.07
27 2 0.05
28 3 0.07
29 14 0.32
30 3 0.07
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.45
Consensus pattern (28 bp):
TACATAATATATTATCGATTCATATTAT
Found at i:60161737 original size:51 final size:51
Alignment explanation
Indices: 60161662--60161768 Score: 205
Period size: 51 Copynumber: 2.1 Consensus size: 51
60161652 AAATTATTTT
*
60161662 TATATATATACATAATATATTATCGATTTCATATTATTACATATCCTTTCA
1 TATATATATACATAATATATTATCGATATCATATTATTACATATCCTTTCA
60161713 TATATATATACATAATATATTATCGATATCATATTATTACATATCCTTTCA
1 TATATATATACATAATATATTATCGATATCATATTATTACATATCCTTTCA
60161764 TATAT
1 TATAT
60161769 TTTTATGTAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.47
Consensus pattern (51 bp):
TATATATATACATAATATATTATCGATATCATATTATTACATATCCTTTCA
Found at i:60164166 original size:18 final size:18
Alignment explanation
Indices: 60164140--60164174 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60164130 TTTGAAATAT
*
60164140 GTTAAGTTTCTAAGGAAA
1 GTTAAGTTTCAAAGGAAA
*
60164158 GTTATGTTTCAAAGGAA
1 GTTAAGTTTCAAAGGAA
60164175 GAAGATTGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (18 bp):
GTTAAGTTTCAAAGGAAA
Found at i:60171125 original size:20 final size:20
Alignment explanation
Indices: 60171100--60171137 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
60171090 CCCAGTGAAG
60171100 TCTTAGTATCTGATTGTTGT
1 TCTTAGTATCTGATTGTTGT
60171120 TCTTAGTATCTGATTGTT
1 TCTTAGTATCTGATTGTT
60171138 ATTTAGTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.16, C:0.11, G:0.18, T:0.55
Consensus pattern (20 bp):
TCTTAGTATCTGATTGTTGT
Found at i:60174110 original size:18 final size:18
Alignment explanation
Indices: 60174087--60174123 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
60174077 ATGTTTAGGT
60174087 TCGTCTACAAATATAAGC
1 TCGTCTACAAATATAAGC
60174105 TCGTCTACAAATATAAGC
1 TCGTCTACAAATATAAGC
60174123 T
1 T
60174124 ATCTTTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.30
Consensus pattern (18 bp):
TCGTCTACAAATATAAGC
Found at i:60179492 original size:14 final size:14
Alignment explanation
Indices: 60179473--60179499 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60179463 TGTTTCGTGC
60179473 ATATGATATGAATA
1 ATATGATATGAATA
60179487 ATATGATATGAAT
1 ATATGATATGAAT
60179500 TGATCTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (14 bp):
ATATGATATGAATA
Found at i:60180273 original size:50 final size:50
Alignment explanation
Indices: 60180219--60180357 Score: 172
Period size: 50 Copynumber: 2.8 Consensus size: 50
60180209 TAATAAAGTC
* *
60180219 ATGCATTATGTAACTTTCATGTTAGTTACG-TATGCATCATAAATAATGAA
1 ATGCATTATGTAACTCTCATGTTAGTTAAGAT-TGCATCATAAATAATGAA
* * **
60180269 ATGCATTATGTAACTCTCATGTTAGTGAAGATTGCATCATAAATTATGTT
1 ATGCATTATGTAACTCTCATGTTAGTTAAGATTGCATCATAAATAATGAA
* * *
60180319 ATGTATTATGTAACTCCCATGTTAGTTAAAGTTTGCATC
1 ATGCATTATGTAACTCTCATGTTAGTT-AAGATTGCATC
60180358 TTTAAATGAA
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
50 66 0.86
51 11 0.14
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (50 bp):
ATGCATTATGTAACTCTCATGTTAGTTAAGATTGCATCATAAATAATGAA
Found at i:60183453 original size:100 final size:100
Alignment explanation
Indices: 60183336--60183540 Score: 302
Period size: 100 Copynumber: 2.0 Consensus size: 100
60183326 TGTTAAGAAG
* * *
60183336 TTGAATTGGGTGCGTAAATTTGATTGGTATGGTTTAATGCAGGATTTGAATCAGATGAGTTTGAC
1 TTGAATTGAGTGCGTAAACTTGATTGGCATGGTTTAATGCAGGATTTGAATCAGATGAGTTTGAC
* * *
60183401 ATTAGGTGACTATGTCACAATTTGGTTTGGAAACA
66 ATTAGGTGAATATGTCACAAGTTGGTTCGGAAACA
* * * *
60183436 TTGAATTGAGTGCGTAAACTTGATTGGCATGGTTTAATGCATGTTTTGGATTAGATGAGTTTGAC
1 TTGAATTGAGTGCGTAAACTTGATTGGCATGGTTTAATGCAGGATTTGAATCAGATGAGTTTGAC
* *
60183501 ATTAGGTGAATATGTTACAAGTTGGTTCGGAAGCA
66 ATTAGGTGAATATGTCACAAGTTGGTTCGGAAACA
60183536 TTGAA
1 TTGAA
60183541 ATAGGTACCA
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 93 1.00
ACGTcount: A:0.28, C:0.08, G:0.27, T:0.37
Consensus pattern (100 bp):
TTGAATTGAGTGCGTAAACTTGATTGGCATGGTTTAATGCAGGATTTGAATCAGATGAGTTTGAC
ATTAGGTGAATATGTCACAAGTTGGTTCGGAAACA
Found at i:60184640 original size:43 final size:45
Alignment explanation
Indices: 60184572--60184656 Score: 129
Period size: 43 Copynumber: 1.9 Consensus size: 45
60184562 TTTTATCCTA
* *
60184572 GAAAGAAAGAATTTTAAAAAAAGGAGAAGATAATCTTGGGTTGTT
1 GAAAGAAAGAATTTTAAAAAAAGGAGAAGATAAACATGGGTTGTT
*
60184617 GAAA-AAAGAA-TTTAAAAAGAGGAGAAGATAAACATGGGTT
1 GAAAGAAAGAATTTTAAAAAAAGGAGAAGATAAACATGGGTT
60184657 ATTGGATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 27 0.73
44 6 0.16
45 4 0.11
ACGTcount: A:0.51, C:0.02, G:0.25, T:0.22
Consensus pattern (45 bp):
GAAAGAAAGAATTTTAAAAAAAGGAGAAGATAAACATGGGTTGTT
Found at i:60185979 original size:41 final size:41
Alignment explanation
Indices: 60185933--60186012 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
60185923 TTTGACGTAG
** * *
60185933 AGATCGAAAGAACTTTATGAAGAATGTGGAAAGAACTGCAA
1 AGATCGAAAGAACTTTACAAAAAAGGTGGAAAGAACTGCAA
60185974 AGATCGAAAGAACTTTACAAAAAAGGTGGAAAGAACTGC
1 AGATCGAAAGAACTTTACAAAAAAGGTGGAAAGAACTGC
60186013 GAAAAATGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.17
Consensus pattern (41 bp):
AGATCGAAAGAACTTTACAAAAAAGGTGGAAAGAACTGCAA
Found at i:60204141 original size:12 final size:12
Alignment explanation
Indices: 60204126--60204155 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
60204116 GTCAGGTTTT
60204126 ACACGGCCTAGC
1 ACACGGCCTAGC
*
60204138 ACACGGCCTGGC
1 ACACGGCCTAGC
60204150 ACACGG
1 ACACGG
60204156 GCGTGTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:60210496 original size:74 final size:74
Alignment explanation
Indices: 60210375--60210522 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
60210365 TCTTAGTTAT
60210375 GTATTTGTTCATTTACATAATATTCACGTAGTAATTCTCATAATTGCCATTACATTTCTATTCTC
1 GTATTTGTTCATTTACATAATATTCACGTAGTAATTCTCATAATTGCCATTACATTTCTATTCTC
60210440 GTTTTGCCA
66 GTTTTGCCA
60210449 GTATTTGTTCATTTACATAATATTCACGTAGTAATTCTCATAATTGCCATTACATTTCTATTCTC
1 GTATTTGTTCATTTACATAATATTCACGTAGTAATTCTCATAATTGCCATTACATTTCTATTCTC
60210514 GTTTTGCCA
66 GTTTTGCCA
60210523 TAACATTTCC
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.46
Consensus pattern (74 bp):
GTATTTGTTCATTTACATAATATTCACGTAGTAATTCTCATAATTGCCATTACATTTCTATTCTC
GTTTTGCCA
Found at i:60210502 original size:37 final size:37
Alignment explanation
Indices: 60210387--60210503 Score: 109
Period size: 37 Copynumber: 3.2 Consensus size: 37
60210377 ATTTGTTCAT
60210387 TTACATAATATTCACGTAGTAATTCTCATAATTGCCA
1 TTACATAATATTCACGTAGTAATTCTCATAATTGCCA
** * * *
60210424 TTACATTTCTATTCTCGT--T--TTGC-CAGTATTTGTTCA
1 TTACA-TAATATTCACGTAGTAATT-CTCA-TAATTG-CCA
60210460 TTTACATAATATTCACGTAGTAATTCTCATAATTGCCA
1 -TTACATAATATTCACGTAGTAATTCTCATAATTGCCA
60210498 TTACAT
1 TTACAT
60210504 TTCTATTCTC
Statistics
Matches: 60, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
34 4 0.07
35 6 0.10
36 12 0.20
37 16 0.27
38 12 0.20
39 6 0.10
40 4 0.07
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.44
Consensus pattern (37 bp):
TTACATAATATTCACGTAGTAATTCTCATAATTGCCA
Found at i:60213997 original size:42 final size:42
Alignment explanation
Indices: 60213932--60214087 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
60213922 AAATCGTACA
*
60213932 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
60213974 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
60214016 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
60214060 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
60214088 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:60216607 original size:6 final size:6
Alignment explanation
Indices: 60216589--60216629 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
60216579 CGCCTTCTCC
60216589 TCCCCT CTCCCCT TCCCCT TCCCCT TCCCCTT TCCCCT TCC
1 TCCCCT -TCCCCT TCCCCT TCCCCT TCCCC-T TCCCCT TCC
60216630 TTTTCCCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 21 0.64
7 12 0.36
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (6 bp):
TCCCCT
Found at i:60216607 original size:13 final size:12
Alignment explanation
Indices: 60216589--60216629 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 12
60216579 CGCCTTCTCC
60216589 TCCCCTCTCCCCT
1 TCCCCT-TCCCCT
60216602 TCCCCTTCCCCT
1 TCCCCTTCCCCT
60216614 TCCCCTTTCCCCT
1 TCCCC-TTCCCCT
60216627 TCC
1 TCC
60216630 TTTTCCCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (12 bp):
TCCCCTTCCCCT
Found at i:60216613 original size:19 final size:19
Alignment explanation
Indices: 60216589--60216642 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
60216579 CGCCTTCTCC
60216589 TCCCCTCTCCCC-TTCCCCT
1 TCCCCT-TCCCCTTTCCCCT
60216608 TCCCCTTCCCCTTTCCCCT
1 TCCCCTTCCCCTTTCCCCT
* *
60216627 T-CCTTTTCCCTTTCCC
1 TCCCCTTCCCCTTTCCC
60216643 TTTCTCTTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 18 0.56
19 14 0.44
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (19 bp):
TCCCCTTCCCCTTTCCCCT
Found at i:60216634 original size:12 final size:12
Alignment explanation
Indices: 60216591--60216646 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
60216581 CCTTCTCCTC
*
60216591 CCCTCTCCCCTT
1 CCCTTTCCCCTT
*
60216603 CCCCTTCCCCTT
1 CCCTTTCCCCTT
60216615 CCCCTTTCCCCTT
1 -CCCTTTCCCCTT
* *
60216628 CCTTTTCCCTTT
1 CCCTTTCCCCTT
60216640 CCCTTTC
1 CCCTTTC
60216647 TCTTGGGCTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
12 26 0.70
13 11 0.30
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (12 bp):
CCCTTTCCCCTT
Found at i:60216635 original size:6 final size:6
Alignment explanation
Indices: 60216598--60216646 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
60216588 CTCCCCTCTC
* * * * *
60216598 CCCTTC CCCTTC CCCTTC CCCTTT CCCCTT CCTTTT CCCTTT CCCTTT
1 CCCTTT CCCTTT CCCTTT CCCTTT CCCTTT CCCTTT CCCTTT CCCTTT
60216646 C
1 C
60216647 TCTTGGGCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (6 bp):
CCCTTT
Found at i:60216635 original size:25 final size:24
Alignment explanation
Indices: 60216581--60216646 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
60216571 GAAAATGACG
*
60216581 CCTTCTCC-TCCCCTCTCCCCTTCC
1 CCTTC-CCTTCCCCTTTCCCCTTCC
60216605 CCTTCCCCTTCCCCTTTCCCCTTCC
1 CCTT-CCCTTCCCCTTTCCCCTTCC
** *
60216630 TTTTCCCTTTCCCTTTC
1 CCTTCCCTTCCCCTTTC
60216647 TCTTGGGCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 18 0.50
25 18 0.50
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (24 bp):
CCTTCCCTTCCCCTTTCCCCTTCC
Found at i:60216637 original size:18 final size:19
Alignment explanation
Indices: 60216589--60216642 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
60216579 CGCCTTCTCC
* *
60216589 TCCCCTCTCCCCTTCCCCT
1 TCCCCTTTCCCTTTCCCCT
*
60216608 TCCCCTTCCCCTTTCCCCT
1 TCCCCTTTCCCTTTCCCCT
*
60216627 T-CCTTTTCCCTTTCCC
1 TCCCCTTTCCCTTTCCC
60216643 TTTCTCTTGG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 13 0.43
19 17 0.57
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (19 bp):
TCCCCTTTCCCTTTCCCCT
Found at i:60219566 original size:20 final size:19
Alignment explanation
Indices: 60219541--60219580 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
60219531 AAATATTTTC
60219541 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCA-AAA
60219561 AGTAAATCATTTTCCAAAA
1 AGTAAATCATTTTCCAAAA
60219580 A
1 A
60219581 TCATTTTCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.30
Consensus pattern (19 bp):
AGTAAATCATTTTCCAAAA
Found at i:60219583 original size:14 final size:15
Alignment explanation
Indices: 60219564--60219601 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
60219554 CCAGAAAAGT
60219564 AAATCATTTTCC-AA
1 AAATCATTTTCCGAA
60219578 AAATCATTTTCCGAA
1 AAATCATTTTCCGAA
60219593 AAA-CATTTT
1 AAATCATTTT
60219602 ACTGGCAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.42, C:0.18, G:0.03, T:0.37
Consensus pattern (15 bp):
AAATCATTTTCCGAA
Found at i:60222845 original size:16 final size:17
Alignment explanation
Indices: 60222821--60222853 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
60222811 GGATCATAGA
*
60222821 GTTATTTGCA-TGTTTT
1 GTTACTTGCATTGTTTT
60222837 GTTACTTGCATTGTTTT
1 GTTACTTGCATTGTTTT
60222854 TAAAAGTGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.12, C:0.09, G:0.18, T:0.61
Consensus pattern (17 bp):
GTTACTTGCATTGTTTT
Found at i:60229954 original size:16 final size:16
Alignment explanation
Indices: 60229907--60229954 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
60229897 TCTTAAGTGG
*
60229907 TACTTATTCTTGAATGA
1 TACTTATT-TTGAATAA
* * *
60229924 TATTTTTTTTAAATAA
1 TACTTATTTTGAATAA
60229940 TACTTATTTTGAATA
1 TACTTATTTTGAATA
60229955 GAAATTGTTA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.54
Consensus pattern (16 bp):
TACTTATTTTGAATAA
Found at i:60234211 original size:21 final size:20
Alignment explanation
Indices: 60234182--60234246 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
60234172 TTCTCTTGTA
*
60234182 CCTTTTTTTATTTTTCATTTC
1 CCTTCTTTTATTTTT-ATTTC
* *
60234203 CCTTCTTTTCTTTTT-TTTT
1 CCTTCTTTTATTTTTATTTC
*
60234222 TCTTCTTTTTATTTTTATTTTC
1 CCTTC-TTTTATTTTTA-TTTC
60234244 CCT
1 CCT
60234247 ACCTCTATCT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
19 7 0.21
20 9 0.26
21 13 0.38
22 5 0.15
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (20 bp):
CCTTCTTTTATTTTTATTTC
Found at i:60234228 original size:19 final size:20
Alignment explanation
Indices: 60234186--60234243 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 20
60234176 CTTGTACCTT
*
60234186 TTTTTATTTTTCATTTCCCTTC
1 TTTTTATTTTT-ATTT-TCTTC
60234208 TTTTCT-TTTTT-TTTTCTTC
1 TTTT-TATTTTTATTTTCTTC
60234227 TTTTTATTTTTATTTTC
1 TTTTTATTTTTATTTTC
60234244 CCTACCTCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
18 1 0.03
19 13 0.41
20 8 0.25
22 9 0.28
23 1 0.03
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTATTTTTATTTTCTTC
Found at i:60234231 original size:20 final size:19
Alignment explanation
Indices: 60234187--60234243 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
60234177 TTGTACCTTT
*
60234187 TTTTATTTTTCATTTCCCTTC
1 TTTTATTTTT-ATTT-TCTTC
* *
60234208 TTTTCTTTTTTTTTTCTTC
1 TTTTATTTTTATTTTCTTC
60234227 TTTTTATTTTTATTTTC
1 -TTTTATTTTTATTTTC
60234244 CCTACCTCTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 4 0.13
20 17 0.57
21 9 0.30
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTATTTTTATTTTCTTC
Found at i:60238160 original size:66 final size:67
Alignment explanation
Indices: 60238050--60238175 Score: 184
Period size: 66 Copynumber: 1.9 Consensus size: 67
60238040 TTTAACAAAA
*
60238050 TTTTTTCGCTCATTTTCTCTCTTGTCAAACACCACTTCTTTTCTTCAAAACACATGGTTGCTGCC
1 TTTTTTCGCTCATTTTCTCTCTTGCCAAACACCACTTCTTTTCTTCAAAACACATGGTTGCTGCC
60238115 AT
66 AT
* * * *
60238117 TTTTTTCTCTCATTTT-TTTCTTGCCAAACACCA-TTTTTCTTCTTCAAAACATATGGTTG
1 TTTTTTCGCTCATTTTCTCTCTTGCCAAACACCACTTCTT-TTCTTCAAAACACATGGTTG
60238176 GCTCATTTCA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
65 4 0.08
66 34 0.64
67 15 0.28
ACGTcount: A:0.20, C:0.25, G:0.08, T:0.47
Consensus pattern (67 bp):
TTTTTTCGCTCATTTTCTCTCTTGCCAAACACCACTTCTTTTCTTCAAAACACATGGTTGCTGCC
AT
Found at i:60238166 original size:21 final size:21
Alignment explanation
Indices: 60238127--60238167 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
60238117 TTTTTTCTCT
*
60238127 CATTTTTTTCTTGCCAAACAC
1 CATTTTTTTCTTGCAAAACAC
60238148 CATTTTTCTTCTT-CAAAACA
1 CATTTTT-TTCTTGCAAAACA
60238168 TATGGTTGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.27, C:0.27, G:0.02, T:0.44
Consensus pattern (21 bp):
CATTTTTTTCTTGCAAAACAC
Found at i:60239108 original size:67 final size:67
Alignment explanation
Indices: 60239009--60239135 Score: 229
Period size: 67 Copynumber: 1.9 Consensus size: 67
60238999 TGAAATGAGC
60239009 CAACCATATGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAATGGC
1 CAACCATATGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAATGGC
60239074 AG
66 AG
*
60239076 CAACCATGTGTTTTGAAGAA-AAAAAGTGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAA
1 CAACCATATGTTTTGAAGAAGAAAAA-TGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAA
60239136 TTTTGTTAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
66 5 0.09
67 53 0.91
ACGTcount: A:0.46, C:0.07, G:0.27, T:0.20
Consensus pattern (67 bp):
CAACCATATGTTTTGAAGAAGAAAAATGGTGTTTGGCAAGAGAGAAAATGAGAGAAAAAAATGGC
AG
Found at i:60240687 original size:20 final size:20
Alignment explanation
Indices: 60240650--60240688 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
60240640 TGGTATTTTG
**
60240650 TGTGGTGGTTAATTTGATGT
1 TGTGGTGGTTAAGATGATGT
*
60240670 TGTGTTGGTTAAGATGATG
1 TGTGGTGGTTAAGATGATG
60240689 GTAAAGAAAT
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:0.00, G:0.36, T:0.46
Consensus pattern (20 bp):
TGTGGTGGTTAAGATGATGT
Found at i:60244667 original size:75 final size:75
Alignment explanation
Indices: 60244504--60244897 Score: 447
Period size: 75 Copynumber: 5.3 Consensus size: 75
60244494 ACACCCTGCA
* * * * * * * *
60244504 CTAGTTAGATAAACCGACATATATAATGATGTGCCCAACACTAGTAAGATAAA-TGATGAAAGTT
1 CTAGTCAGATAAACCAACAAATATAATGGTGTGCCTAGCACTAGTCAGATAAACTAATGAAAGTT
* *
60244568 GCG-CTAAGTG
66 GCGCCCAA-CG
* * * * * * *
60244578 CTAGTCGGATAAACCGACAGATAAAATGTTGTGCGC-AACATTAGTCAGATAAACTAATGAAAGT
1 CTAGTCAGATAAACCAACAAATATAATGGTGTGC-CTAGCACTAGTCAGATAAACTAATGAAAGT
*
60244642 TGCGCCTAACG
65 TGCGCCCAACG
* *
60244653 CTAGTCGGATAAACCAACAAATATAATGGTGTGCCTAGCACTAGTCAGATAAACTGAA-GAAAAT
1 CTAGTCAGATAAACCAACAAATATAATGGTGTGCCTAGCACTAGTCAGATAAACT-AATGAAAGT
* *
60244717 TGCACCCAGCG
65 TGCGCCCAACG
* *
60244728 CTAATCAGATAAACCAACAAATATAATGGTGTGCCTAGCACTAGTCAGATAAACTGAA-GAAAAT
1 CTAGTCAGATAAACCAACAAATATAATGGTGTGCCTAGCACTAGTCAGATAAACT-AATGAAAGT
* *
60244792 TGCACCCAGCG
65 TGCGCCCAACG
* *
60244803 CTAATCAGATAAACCAACAAATATAATGGTGTGCCTAGCACTAGTCAGATAAACTGATGAAAGTT
1 CTAGTCAGATAAACCAACAAATATAATGGTGTGCCTAGCACTAGTCAGATAAACTAATGAAAGTT
*
60244868 ACGCCCAACG
66 GCGCCCAACG
*
60244878 CTAGTCAGATAAACCGACAA
1 CTAGTCAGATAAACCAACAA
60244898 TATTCATTAT
Statistics
Matches: 286, Mismatches: 28, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
74 46 0.16
75 234 0.82
76 6 0.02
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.22
Consensus pattern (75 bp):
CTAGTCAGATAAACCAACAAATATAATGGTGTGCCTAGCACTAGTCAGATAAACTAATGAAAGTT
GCGCCCAACG
Found at i:60244697 original size:40 final size:40
Alignment explanation
Indices: 60244653--60244856 Score: 185
Period size: 40 Copynumber: 5.3 Consensus size: 40
60244643 GCGCCTAACG
*
60244653 CTAGTCGGATAAACCAACAAATATAATGGTGTGCCTAGCA
1 CTAGTCAGATAAACCAACAAATATAATGGTGTGCCTAGCA
** * ** * *
60244693 CTAGTCAGATAAACTGA-AGA-A-AAT--TGCACCCAGCG
1 CTAGTCAGATAAACCAACAAATATAATGGTGTGCCTAGCA
*
60244728 CTAATCAGATAAACCAACAAATATAATGGTGTGCCTAGCA
1 CTAGTCAGATAAACCAACAAATATAATGGTGTGCCTAGCA
** * ** * *
60244768 CTAGTCAGATAAACTGA-AGA-A-AAT--TGCACCCAGCG
1 CTAGTCAGATAAACCAACAAATATAATGGTGTGCCTAGCA
*
60244803 CTAATCAGATAAACCAACAAATATAATGGTGTGCCTAGCA
1 CTAGTCAGATAAACCAACAAATATAATGGTGTGCCTAGCA
60244843 CTAGTCAGATAAAC
1 CTAGTCAGATAAAC
60244857 TGATGAAAGT
Statistics
Matches: 121, Mismatches: 33, Indels: 20
0.70 0.19 0.11
Matches are distributed among these distances:
35 42 0.35
36 4 0.03
37 8 0.07
38 8 0.07
39 4 0.03
40 55 0.45
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (40 bp):
CTAGTCAGATAAACCAACAAATATAATGGTGTGCCTAGCA
Found at i:60253409 original size:25 final size:26
Alignment explanation
Indices: 60253381--60253435 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
60253371 CAATTTGCAC
* *
60253381 AAAATAT-GAATAATTTAAT-AAATT
1 AAAATATCAAATAATTAAATAAAATT
60253405 GAAAA-ATCAAATAATTAAATAAAATT
1 -AAAATATCAAATAATTAAATAAAATT
60253431 AAAAT
1 AAAAT
60253436 TTCGGAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 2 0.08
25 18 0.72
26 5 0.20
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (26 bp):
AAAATATCAAATAATTAAATAAAATT
Found at i:60254278 original size:27 final size:27
Alignment explanation
Indices: 60254244--60254296 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
60254234 TATACAAATT
*
60254244 AAATTAAATTAAAAACTTTTATTTTAA
1 AAATTAAATGAAAAACTTTTATTTTAA
60254271 AAATTAAATGAAAAACTTTTATTTTA
1 AAATTAAATGAAAAACTTTTATTTTA
60254297 GCTGCTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (27 bp):
AAATTAAATGAAAAACTTTTATTTTAA
Found at i:60266429 original size:18 final size:19
Alignment explanation
Indices: 60266384--60266432 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
60266374 TAAGAAAACA
60266384 TTTTGAAATTGAATAACGAT
1 TTTTGAAA-TGAATAACGAT
* *
60266404 TTGT-AAATGAATAA-TAT
1 TTTTGAAATGAATAACGAT
60266421 TTTTGAAATGAA
1 TTTTGAAATGAA
60266433 CGATATGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 5 0.20
18 14 0.56
19 3 0.12
20 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (19 bp):
TTTTGAAATGAATAACGAT
Found at i:60266438 original size:18 final size:19
Alignment explanation
Indices: 60266401--60266453 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
60266391 ATTGAATAAC
*
60266401 GATTTGTAAATGAATAATAT
1 GATTTG-AAATGAACAATAT
* *
60266421 -TTTTGAAATGAACGATAT
1 GATTTGAAATGAACAATAT
*
60266439 GATTTGAAATTAACA
1 GATTTGAAATGAACA
60266454 TAAGATAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.38
Consensus pattern (19 bp):
GATTTGAAATGAACAATAT
Found at i:60266805 original size:24 final size:25
Alignment explanation
Indices: 60266760--60266807 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
60266750 CTGTCTTTAA
* *
60266760 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATACTGAAACTACTATAGG
*
60266785 TAGT-TATACTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
60266808 ATAGACTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:60286825 original size:3 final size:3
Alignment explanation
Indices: 60286817--60286842 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
60286807 TTTGTATTTT
60286817 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
60286843 TTTAAGCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:60292387 original size:40 final size:41
Alignment explanation
Indices: 60292308--60292388 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 41
60292298 CTTTGCCCAT
60292308 CAATTCTAGCTCTTTCCCCTTCCCCTAAAATAATCTTATGC
1 CAATTCTAGCTCTTTCCCCTTCCCCTAAAATAATCTTATGC
** * *
60292349 CAATTCTAGCTCTTT-CCCTTCTTCTAAAATGATTTTATGC
1 CAATTCTAGCTCTTTCCCCTTCCCCTAAAATAATCTTATGC
60292389 ATGCAAAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 21 0.58
41 15 0.42
ACGTcount: A:0.23, C:0.30, G:0.06, T:0.41
Consensus pattern (41 bp):
CAATTCTAGCTCTTTCCCCTTCCCCTAAAATAATCTTATGC
Found at i:60292996 original size:35 final size:35
Alignment explanation
Indices: 60292957--60293026 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
60292947 GGCACTTTCT
*
60292957 TATCTGCTTCAAAATATAAAATAATAAAATCAGCA
1 TATCTGCTTCAAAATATAAAAGAATAAAATCAGCA
*
60292992 TATCTGCTTCAAAATCTAAAAGAATAAAATCAGCA
1 TATCTGCTTCAAAATATAAAAGAATAAAATCAGCA
60293027 GGAAAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.50, C:0.16, G:0.07, T:0.27
Consensus pattern (35 bp):
TATCTGCTTCAAAATATAAAAGAATAAAATCAGCA
Found at i:60296374 original size:19 final size:19
Alignment explanation
Indices: 60296350--60296387 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
60296340 CTAAAAGAGT
60296350 TGAGAGAATGATGA-ATGAG
1 TGAGAG-ATGATGAGATGAG
60296369 TGAGAGATGATGAGATGAG
1 TGAGAGATGATGAGATGAG
60296388 GGATGATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.21
Consensus pattern (19 bp):
TGAGAGATGATGAGATGAG
Found at i:60296855 original size:14 final size:14
Alignment explanation
Indices: 60296836--60296863 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
60296826 CCAATTTATT
60296836 AATGAATTATTAAA
1 AATGAATTATTAAA
60296850 AATGAATTATTAAA
1 AATGAATTATTAAA
60296864 TATAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:60301264 original size:22 final size:22
Alignment explanation
Indices: 60301239--60301280 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
60301229 TGAAATAAGT
*
60301239 ACATAATTGCTGGAAAATAACA
1 ACATAATTGATGGAAAATAACA
60301261 ACATAATTGATGGAAAATAA
1 ACATAATTGATGGAAAATAA
60301281 AAAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (22 bp):
ACATAATTGATGGAAAATAACA
Found at i:60305988 original size:31 final size:31
Alignment explanation
Indices: 60305945--60306011 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
60305935 GTTACAAAAT
* **
60305945 AGTCGTTGAATTATTTGAATATTTTTATTTA
1 AGTCATTGAATTATTCAAATATTTTTATTTA
60305976 AGTCATTGAATTATTCAAATATTTTTATTTA
1 AGTCATTGAATTATTCAAATATTTTTATTTA
60306007 AGTCA
1 AGTCA
60306012 CTAGGTTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.51
Consensus pattern (31 bp):
AGTCATTGAATTATTCAAATATTTTTATTTA
Found at i:60310300 original size:13 final size:13
Alignment explanation
Indices: 60310268--60310292 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60310258 TTAAAAATAT
60310268 ATTATATAATAAA
1 ATTATATAATAAA
60310281 ATTATATAATAA
1 ATTATATAATAA
60310293 TTTAATATTT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTATATAATAAA
Found at i:60315292 original size:23 final size:23
Alignment explanation
Indices: 60315265--60315310 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
60315255 TTGTTAGAAC
*
60315265 TACAGTGGTAAAATAAAATAAAA
1 TACAGTGGTAAAATAAAAAAAAA
60315288 TACAGTGGTAAAATAAAAAAAAA
1 TACAGTGGTAAAATAAAAAAAAA
60315311 AGTAAAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.63, C:0.04, G:0.13, T:0.20
Consensus pattern (23 bp):
TACAGTGGTAAAATAAAAAAAAA
Found at i:60322522 original size:38 final size:38
Alignment explanation
Indices: 60322475--60322591 Score: 105
Period size: 38 Copynumber: 3.1 Consensus size: 38
60322465 TGTAGACTGT
*
60322475 TTTC-ATGGTGTCGCTCCGAAAAGCCTATAGATAACCA
1 TTTCTATGGTGTCACTCCGAAAAGCCTATAGATAACCA
* * * * *
60322512 TTTCTATGGTGTCATTCTGAACAGCCTGTATATAACCA
1 TTTCTATGGTGTCACTCCGAAAAGCCTATAGATAACCA
** * *
60322550 TTT-TAATGGTGTCACT-TTAAAGAGCCTGTAGATAGCCA
1 TTTCT-ATGGTGTCACTCCGAAA-AGCCTATAGATAACCA
60322588 TTTC
1 TTTC
60322592 CAACCAATCC
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
37 8 0.12
38 57 0.88
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (38 bp):
TTTCTATGGTGTCACTCCGAAAAGCCTATAGATAACCA
Found at i:60324778 original size:15 final size:17
Alignment explanation
Indices: 60324752--60324784 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
60324742 GGGTTTAATA
60324752 TTTAAGTTTTAAG-GTT
1 TTTAAGTTTTAAGTGTT
60324768 TTTAA-TTTTAAGTGTT
1 TTTAAGTTTTAAGTGTT
60324784 T
1 T
60324785 AGGATTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.61
Consensus pattern (17 bp):
TTTAAGTTTTAAGTGTT
Found at i:60324780 original size:22 final size:23
Alignment explanation
Indices: 60324737--60324793 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
60324727 TTAGATTTAG
*
60324737 GTTTAGG-GTTTAATATTTAAGT
1 GTTTAGGATTTTAATATTTAAGT
*
60324759 -TTTAAGGTTTTTAAT-TTTAAGT
1 GTTT-AGGATTTTAATATTTAAGT
60324781 GTTTAGGATTTTA
1 GTTTAGGATTTTA
60324794 GGGTTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 3 0.10
22 18 0.60
23 9 0.30
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.54
Consensus pattern (23 bp):
GTTTAGGATTTTAATATTTAAGT
Found at i:60324902 original size:29 final size:29
Alignment explanation
Indices: 60324814--60324906 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
60324804 TAATCTTTAG
* *
60324814 GGGTTTTGAAAAAAATAATTTGTAT-AGGAT
1 GGGTTCTG-AAAAAATAATTTTTATGA-GAT
* * *
60324844 AGGTTCTGAAAAACTAATTTTGATTG-GAT
1 GGGTTCTGAAAAAATAATTTTTA-TGAGAT
60324873 GGGTTCT-AAAGAAATAATTTTTATGAGAT
1 GGGTTCTGAAA-AAATAATTTTTATGAGAT
60324902 GGGTT
1 GGGTT
60324907 GAGTGTTTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
28 5 0.10
29 39 0.76
30 7 0.14
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (29 bp):
GGGTTCTGAAAAAATAATTTTTATGAGAT
Found at i:60345158 original size:28 final size:28
Alignment explanation
Indices: 60345103--60345224 Score: 82
Period size: 28 Copynumber: 4.1 Consensus size: 28
60345093 TCTCCAGTTC
* *
60345103 TTTTTTTAGACCTGAAGAGTACTATTTA
1 TTTTTTTAGACATGAAGAGTATTATTTA
* *
60345131 TTTTTTTAGACATGAAGATTATTGTTTA
1 TTTTTTTAGACATGAAGAGTATTATTTA
* *
60345159 TTGTGCAATCTTTTGATCCTGAAGAGTATTATTTA
1 TT-T----T-TTTAGA-CATGAAGAGTATTATTTA
* * * *
60345194 TTTTTATTAGACACGAAAATTATTGTTTA
1 TTTTT-TTAGACATGAAGAGTATTATTTA
60345223 TT
1 TT
60345225 GTGCAATCTT
Statistics
Matches: 72, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
28 26 0.36
29 17 0.24
30 5 0.07
33 1 0.01
34 6 0.08
35 17 0.24
ACGTcount: A:0.29, C:0.08, G:0.14, T:0.49
Consensus pattern (28 bp):
TTTTTTTAGACATGAAGAGTATTATTTA
Found at i:60345185 original size:63 final size:64
Alignment explanation
Indices: 60345113--60345239 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
60345103 TTTTTTTAGA
* *
60345113 CCTGAAGAGTACTATTTATTTTT-TTAGACATGAAGATTATTGTTTATTGTGCAATCTTTTGAT
1 CCTGAAGAGTACTATTTATTTTTATTAGACACGAAAATTATTGTTTATTGTGCAATCTTTTGAT
*
60345176 CCTGAAGAGTATTATTTATTTTTATTAGACACGAAAATTATTGTTTATTGTGCAATCTTTTGAT
1 CCTGAAGAGTACTATTTATTTTTATTAGACACGAAAATTATTGTTTATTGTGCAATCTTTTGAT
60345240 TGAGCTATGC
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
63 22 0.37
64 38 0.63
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.47
Consensus pattern (64 bp):
CCTGAAGAGTACTATTTATTTTTATTAGACACGAAAATTATTGTTTATTGTGCAATCTTTTGAT
Found at i:60351896 original size:26 final size:26
Alignment explanation
Indices: 60351822--60351898 Score: 70
Period size: 26 Copynumber: 2.9 Consensus size: 26
60351812 GCATATTTTC
*
60351822 TCAAAACTTTATTAGGG-GTAAAATCA
1 TCAAAATTTTA-TAGGGTGTAAAATCA
* *
60351848 TCAAAATTTTTATCGGGAT-TAAAATCG
1 TCAAAA-TTTTATAGGG-TGTAAAATCA
60351875 TCAAAATTTTACT-GGGTGTAAAAT
1 TCAAAATTTTA-TAGGGTGTAAAAT
60351899 AAGATGAGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
25 1 0.02
26 24 0.56
27 18 0.42
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (26 bp):
TCAAAATTTTATAGGGTGTAAAATCA
Found at i:60357265 original size:37 final size:38
Alignment explanation
Indices: 60357211--60357283 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
60357201 TTTTCATAAT
* * *
60357211 TTCACTTTTTCACTTTCAA-TCACTATTTAATTCAAAA
1 TTCACTTTGTCACTTTCAAGTCAATATTCAATTCAAAA
*
60357248 TTCACTTTGTCATTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTGTCACTTTCAAGTCAATATTCAATTCAA
60357284 TTCCACACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 17 0.55
38 14 0.45
ACGTcount: A:0.32, C:0.21, G:0.03, T:0.45
Consensus pattern (38 bp):
TTCACTTTGTCACTTTCAAGTCAATATTCAATTCAAAA
Found at i:60357314 original size:23 final size:22
Alignment explanation
Indices: 60357271--60357314 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
60357261 TTTCAAGTCA
60357271 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
60357294 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
60357315 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:60357657 original size:50 final size:50
Alignment explanation
Indices: 60357488--60358415 Score: 1678
Period size: 50 Copynumber: 18.5 Consensus size: 50
60357478 CTGATTCACA
* * * * * * *
60357488 TAGTAGCCTACACATAGTACTGCACATGTGACC-ATCACTATCCGATACATG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTAT--CTTTCTGGTACACG
* * * * ** * * *
60357539 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAGTTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTT-TCTGGTACACG
60357590 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
60357640 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
60357690 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
60357740 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
60357790 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
60357840 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
60357890 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
60357940 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
60357990 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
60358040 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
60358090 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
60358140 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
60358190 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
60358240 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
60358290 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
60358340 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
60358390 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACATAGTACTACACA
60358416 CGTGACCATC
Statistics
Matches: 855, Mismatches: 20, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
50 785 0.92
51 69 0.08
52 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGCGACCTATCTTTCTGGTACACG
Found at i:60358683 original size:30 final size:30
Alignment explanation
Indices: 60358649--60358709 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
60358639 CCTTGACTCG
60358649 AACTTTGACAAAATTACAATTTTACCCCAA
1 AACTTTGACAAAATTACAATTTTACCCCAA
* * * * *
60358679 AACTTTTACATATTTACACTTTTGCCCCAA
1 AACTTTGACAAAATTACAATTTTACCCCAA
60358709 A
1 A
60358710 GATCGAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (30 bp):
AACTTTGACAAAATTACAATTTTACCCCAA
Found at i:60367156 original size:26 final size:26
Alignment explanation
Indices: 60367117--60367182 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
60367107 TTTACATCGT
*
60367117 TGCTCACACGAGCTGTGAAATGGGTC
1 TGCTCACACGAGCTGTAAAATGGGTC
* *
60367143 TGTTCACAAGAGCTGTAAAATGGGTC
1 TGCTCACACGAGCTGTAAAATGGGTC
60367169 TGCTCACACGAGCT
1 TGCTCACACGAGCT
60367183 ATGGGTCAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (26 bp):
TGCTCACACGAGCTGTAAAATGGGTC
Found at i:60381710 original size:40 final size:39
Alignment explanation
Indices: 60381627--60381710 Score: 89
Period size: 40 Copynumber: 2.1 Consensus size: 39
60381617 TATTAATGAT
* * *
60381627 TGCACATACGTCCCTTTTTTGTAATTCGGTACCTCTGAT
1 TGCACATACGTCACTTTTTTGTAATTCAGTACCTCTGAA
* * *
60381666 TGCACATACGTGACTTTGTTTGTACTTTAGTA-CTCCTGAA
1 TGCACATACGTCACTTT-TTTGTAATTCAGTACCT-CTGAA
60381706 TGCAC
1 TGCAC
60381711 TTACATGCCC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
39 17 0.46
40 20 0.54
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (39 bp):
TGCACATACGTCACTTTTTTGTAATTCAGTACCTCTGAA
Found at i:60393611 original size:19 final size:17
Alignment explanation
Indices: 60393567--60393614 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 17
60393557 TGCCGTTCGT
60393567 TTTCAAAATATTATTCA
1 TTTCAAAATATTATTCA
60393584 TTTGC-AAATCATTATTCAA
1 TTT-CAAAAT-ATTATTC-A
60393603 TTTCAAAATATT
1 TTTCAAAATATT
60393615 TTTTTTATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 7 0.26
18 12 0.44
19 8 0.30
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.46
Consensus pattern (17 bp):
TTTCAAAATATTATTCA
Found at i:60398510 original size:159 final size:159
Alignment explanation
Indices: 60398221--60399043 Score: 1646
Period size: 159 Copynumber: 5.2 Consensus size: 159
60398211 CTAGCATCAT
60398221 CTCTGAATTGGGTTTAATCTTTCTTTTCCACCAACCTAGAGATTTTAGCAATTAAGCCTCTTAAA
1 CTCTGAATTGGGTTTAATCTTTCTTTTCCACCAACCTAGAGATTTTAGCAATTAAGCCTCTTAAA
60398286 GAACCCTTGGTCGGCCACCTTGGAGAACCATCAGCAAAAGAGCAAAGCAAAGGAATGAAGGACTC
66 GAACCCTTGGTCGGCCACCTTGGAGAACCATCAGCAAAAGAGCAAAGCAAAGGAATGAAGGACTC
60398351 TCATCAGTCAAAGTCTTGGGTGACAGCCA
131 TCATCAGTCAAAGTCTTGGGTGACAGCCA
60398380 CTCTGAATTGGGTTTAATCTTTCTTTTCCACCAACCTAGAGATTTTAGCAATTAAGCCTCTTAAA
1 CTCTGAATTGGGTTTAATCTTTCTTTTCCACCAACCTAGAGATTTTAGCAATTAAGCCTCTTAAA
60398445 GAACCCTTGGTCGGCCACCTTGGAGAACCATCAGCAAAAGAGCAAAGCAAAGGAATGAAGGACTC
66 GAACCCTTGGTCGGCCACCTTGGAGAACCATCAGCAAAAGAGCAAAGCAAAGGAATGAAGGACTC
60398510 TCATCAGTCAAAGTCTTGGGTGACAGCCA
131 TCATCAGTCAAAGTCTTGGGTGACAGCCA
60398539 CTCTGAATTGGGTTTAATCTTTCTTTTCCACCAACCTAGAGATTTTAGCAATTAAGCCTCTTAAA
1 CTCTGAATTGGGTTTAATCTTTCTTTTCCACCAACCTAGAGATTTTAGCAATTAAGCCTCTTAAA
60398604 GAACCCTTGGTCGGCCACCTTGGAGAACCATCAGCAAAAGAGCAAAGCAAAGGAATGAAGGACTC
66 GAACCCTTGGTCGGCCACCTTGGAGAACCATCAGCAAAAGAGCAAAGCAAAGGAATGAAGGACTC
60398669 TCATCAGTCAAAGTCTTGGGTGACAGCCA
131 TCATCAGTCAAAGTCTTGGGTGACAGCCA
60398698 CTCTGAATTGGGTTTAATCTTTCTTTTCCACCAACCTAGAGATTTTAGCAATTAAGCCTCTTAAA
1 CTCTGAATTGGGTTTAATCTTTCTTTTCCACCAACCTAGAGATTTTAGCAATTAAGCCTCTTAAA
60398763 GAACCCTTGGTCGGCCACCTTGGAGAACCATCAGCAAAAGAGCAAAGCAAAGGAATGAAGGACTC
66 GAACCCTTGGTCGGCCACCTTGGAGAACCATCAGCAAAAGAGCAAAGCAAAGGAATGAAGGACTC
60398828 TCATCAGTCAAAGTCTTGGGTGACAGCCA
131 TCATCAGTCAAAGTCTTGGGTGACAGCCA
60398857 CTCTGAATTGGGTTTAATCTTTCTTTTCCACCAACCTAGAGATTTTAGCAATTAAGCCTCTTAAA
1 CTCTGAATTGGGTTTAATCTTTCTTTTCCACCAACCTAGAGATTTTAGCAATTAAGCCTCTTAAA
60398922 GAACCCTTGGTCGGCCACCTTGGAGAACCATCAGCAAAAGAGCAAAGCAAAGGAATGAAGGACTC
66 GAACCCTTGGTCGGCCACCTTGGAGAACCATCAGCAAAAGAGCAAAGCAAAGGAATGAAGGACTC
60398987 TCATCAGTCAAAGTCTTGGGTGACAGCCA
131 TCATCAGTCAAAGTCTTGGGTGACAGCCA
60399016 CTCTGAATTGGGTTTAATCTTTCTTTTC
1 CTCTGAATTGGGTTTAATCTTTCTTTTC
60399044 TTTAACTTAA
Statistics
Matches: 664, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
159 664 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (159 bp):
CTCTGAATTGGGTTTAATCTTTCTTTTCCACCAACCTAGAGATTTTAGCAATTAAGCCTCTTAAA
GAACCCTTGGTCGGCCACCTTGGAGAACCATCAGCAAAAGAGCAAAGCAAAGGAATGAAGGACTC
TCATCAGTCAAAGTCTTGGGTGACAGCCA
Found at i:60402630 original size:47 final size:47
Alignment explanation
Indices: 60402576--60402900 Score: 632
Period size: 47 Copynumber: 6.9 Consensus size: 47
60402566 AAATTAACGG
60402576 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
60402623 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
60402670 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
60402717 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
60402764 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
60402811 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
* *
60402858 AATGGCCGATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
60402901 TCCCGAAGGG
Statistics
Matches: 276, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 276 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
Found at i:60403075 original size:37 final size:37
Alignment explanation
Indices: 60403019--60403093 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
60403009 CCGAGCTCTA
* * *
60403019 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
60403056 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
60403093 A
1 A
60403094 GGACTTCGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:60408730 original size:29 final size:29
Alignment explanation
Indices: 60408697--60408893 Score: 211
Period size: 29 Copynumber: 6.8 Consensus size: 29
60408687 GTGGAATCAC
* *
60408697 GATGGTCATCACCATCCCTATTCATAGTT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
** * * *
60408726 GATGGTC-TCTAGAATCTCTTTTCATAATC
1 GATGGTCGTC-ACCATCCCTTTTCATAGTT
* * * *
60408755 GATAGTCG-AAGCTATCCCGTTTCATA-TT
1 GATGGTCGTCA-CCATCCCTTTTCATAGTT
60408783 CGATGGTCGTCACCATCCCTTTTCATAGTT
1 -GATGGTCGTCACCATCCCTTTTCATAGTT
* *
60408813 GATGGTTGTCACCATCCCTTTTGATAGTT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
*
60408842 GATGGTTGTCACCATCCCTTTTCATAGTT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
*
60408871 GATGGTCGTCACCATCCTTTTTC
1 GATGGTCGTCACCATCCCTTTTC
60408894 GTAATCGATA
Statistics
Matches: 140, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
28 4 0.03
29 133 0.95
30 3 0.02
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.39
Consensus pattern (29 bp):
GATGGTCGTCACCATCCCTTTTCATAGTT
Found at i:60408917 original size:58 final size:58
Alignment explanation
Indices: 60408794--60408925 Score: 160
Period size: 58 Copynumber: 2.3 Consensus size: 58
60408784 GATGGTCGTC
* * * * * *
60408794 ACCATCCCTTTTCATAGTTGATGGTTGTCACCATCCCTTTTGATAGTTGATGGTTGTC
1 ACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTGATAATCGATAGCTGTA
*
60408852 ACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCTTTTTCG-TAATCGATAGCTG-A
1 ACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTT-GATAATCGATAGCTGTA
*
60408909 AGCTATCCCTTTTCATA
1 A-CCATCCCTTTTCATA
60408926 TTCGATGTCC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
57 1 0.02
58 62 0.97
59 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.39
Consensus pattern (58 bp):
ACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTGATAATCGATAGCTGTA
Found at i:60415683 original size:29 final size:29
Alignment explanation
Indices: 60415651--60415718 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
60415641 AGCTGAAGCT
*
60415651 ATCCCTTTTCGTAGTTGATGGTTATCACC
1 ATCCCTTTTCGTAGTTGATGGTCATCACC
*
60415680 ATCCCTTTTCGTAGTTGATGGTCGTCACC
1 ATCCCTTTTCGTAGTTGATGGTCATCACC
60415709 ATCCCTTTTC
1 ATCCCTTTTC
60415719 ATAATCGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.15, C:0.28, G:0.16, T:0.41
Consensus pattern (29 bp):
ATCCCTTTTCGTAGTTGATGGTCATCACC
Found at i:60418606 original size:25 final size:26
Alignment explanation
Indices: 60418578--60418643 Score: 89
Period size: 25 Copynumber: 2.5 Consensus size: 26
60418568 GGGATAGAGT
60418578 TGCTCACACGAGCTATGAATATA-AA
1 TGCTCACACGAGCTATGAATATAGAA
* **
60418603 TGCTCACACGAGTTATGAATATAGGCC
1 TGCTCACACGAGCTATGAATATA-GAA
60418630 TGCTCACACGAGCT
1 TGCTCACACGAGCT
60418644 GTGGGTCGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 22 0.63
27 13 0.37
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (26 bp):
TGCTCACACGAGCTATGAATATAGAA
Found at i:60438716 original size:18 final size:18
Alignment explanation
Indices: 60438695--60438729 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60438685 ATTATTATAA
*
60438695 TATTAGATTAAATTATTT
1 TATTAGATTAAAATATTT
*
60438713 TATTTGATTAAAATATT
1 TATTAGATTAAAATATT
60438730 AGAGATATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (18 bp):
TATTAGATTAAAATATTT
Found at i:60447052 original size:58 final size:57
Alignment explanation
Indices: 60446983--60447111 Score: 165
Period size: 57 Copynumber: 2.3 Consensus size: 57
60446973 AGAAATGGTG
* * *
60446983 AAATGGAGAAATAGGAAA-CATTTAGAAATGATTATGGTTTTTTCCAAAATTAAAATAA
1 AAATGGAGAAAT--GAAATCATTTAGAAATGAATATGGTTTTCTCCAAAATGAAAATAA
* * *
60447041 AAATGGAGAAATGAAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAATGA
1 AAATGGAGAAATGAAATCATTTAGAAATGAATATGGTTTTCTCCAAAATGAAAATAA
60447098 AAAT-GA-AAATGAAA
1 AAATGGAGAAATGAAA
60447112 ATGCCCTGAA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
55 8 0.12
56 6 0.09
57 38 0.59
58 12 0.19
ACGTcount: A:0.49, C:0.05, G:0.18, T:0.28
Consensus pattern (57 bp):
AAATGGAGAAATGAAATCATTTAGAAATGAATATGGTTTTCTCCAAAATGAAAATAA
Found at i:60447096 original size:6 final size:6
Alignment explanation
Indices: 60447085--60447114 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
60447075 GGTTTTCTCC
60447085 AAAATG AAAATG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG
60447115 CCCTGAAAAA
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:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:60452915 original size:30 final size:30
Alignment explanation
Indices: 60452881--60452973 Score: 86
Period size: 30 Copynumber: 3.1 Consensus size: 30
60452871 ACGACCACTA
* *
60452881 AATTATGAAAACGGATAGCCTT-GGCTATCG
1 AATTATGAAAA-GGATAGCCTTCAGATATCG
*
60452911 AATTATGAATAGTGATAG-CTTCAGATATCG
1 AATTATGAAAAG-GATAGCCTTCAGATATCG
*
60452941 AATTATGGAAAGGGATAGCC-TC-GATTATCG
1 AATTAT-GAAAAGGATAGCCTTCAGA-TATCG
60452971 AAT
1 AAT
60452974 AAAGGAAAGG
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
29 6 0.11
30 42 0.79
31 5 0.09
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (30 bp):
AATTATGAAAAGGATAGCCTTCAGATATCG
Found at i:60457460 original size:20 final size:20
Alignment explanation
Indices: 60457435--60457475 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
60457425 AGCGTACGAT
60457435 TTGTTTATTTCGTGTGTAGG
1 TTGTTTATTTCGTGTGTAGG
60457455 TTGTTTATTTCGTGTGTAGG
1 TTGTTTATTTCGTGTGTAGG
60457475 T
1 T
60457476 ATAAAGTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.10, C:0.05, G:0.29, T:0.56
Consensus pattern (20 bp):
TTGTTTATTTCGTGTGTAGG
Found at i:60460587 original size:28 final size:28
Alignment explanation
Indices: 60460556--60460632 Score: 109
Period size: 28 Copynumber: 2.8 Consensus size: 28
60460546 GGAATGTGGG
* *
60460556 CCTTAGCCCATTTCAGTAACAGTGTGAA
1 CCTTAGCCCAATACAGTAACAGTGTGAA
**
60460584 CCTTAGCCCAATACAGTAACAGTGTGGG
1 CCTTAGCCCAATACAGTAACAGTGTGAA
*
60460612 CCTTAGCCCAATATAGTAACA
1 CCTTAGCCCAATACAGTAACA
60460633 ATACAGTGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (28 bp):
CCTTAGCCCAATACAGTAACAGTGTGAA
Found at i:60461249 original size:108 final size:106
Alignment explanation
Indices: 60460998--60461463 Score: 463
Period size: 108 Copynumber: 4.3 Consensus size: 106
60460988 GGGTGTTTCG
* * * *
60460998 GTCATTTTACCCTTTAGGGGTATTTTGGTCATTTTACCTTTCGAGGGTATTTCAATCATTTTACC
1 GTCATTTTACCCTTCA-GGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACC
* * * * * * *
60461063 -TTCGAGGGTATTTTAGTTATTTTACACTTTAGGGGTATTTTA
65 TTTGGA-GGTAATTCAGTCATTTTACCCTTCAGGGGTAATTTA
* * *
60461105 GTCATTTTACCTTTCAAGGGTATTTCGGTCATTTTACCTTTAGAGGGTATTTC-AGTCATTTTAC
1 GTCATTTTACCCTTC-AGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGA-TCATTTTAC
* * *
60461169 CTTTTGGAGGTAATTCGGTAATTTTACCCTTCAGGGGTAATTTG
64 C-TTTGGAGGTAATTCAGTCATTTTACCCTTCAGGGGTAATTTA
* * * *
60461213 GTCATTTTACCCTTCGGGGTTAATTCGGTCATTTTACCCTTCGGGGGTAATTCGATCATTTTACC
1 GTCATTTTACCCTTCAGGG-TATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACC
* * *
60461278 TTTTGGGGGTAATTCAGTCATTTTACCCTTCGGGGGTAATTCA
65 -TTTGGAGGTAATTCAGTCATTTTACCCTTCAGGGGTAATTTA
* * * *
60461321 GTCATTTTATCTTTTAGGGTTATTTCGGTCATTTTACCCTTCGGGGGTATTTCGATCATTTTAGC
1 GTCATTTTACCCTTCAGGG-TATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTA-C
* * * * *
60461386 CTTCGGGGGTATTTC-GATCATTTTACCCTTCGGGGGT-ATTTC
64 CTTTGGAGGTAATTCAG-TCATTTTACCCTTCAGGGGTAATTTA
* * * *
60461428 GATAATTTTACCATTCGATGGTATTTCGGTAATTTT
1 G-TCATTTTACCCTTC-AGGGTATTTCGGTCATTTT
60461464 TCGGTCTAAG
Statistics
Matches: 307, Mismatches: 42, Indels: 19
0.83 0.11 0.05
Matches are distributed among these distances:
106 1 0.00
107 65 0.21
108 231 0.75
109 10 0.03
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (106 bp):
GTCATTTTACCCTTCAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCT
TTGGAGGTAATTCAGTCATTTTACCCTTCAGGGGTAATTTA
Found at i:60461460 original size:27 final size:27
Alignment explanation
Indices: 60460961--60461463 Score: 403
Period size: 27 Copynumber: 18.7 Consensus size: 27
60460951 CGACTCCTAG
* * * *
60460961 GGGTATATCAGTCATTTTACCCAAT-GG
1 GGGTATTTCGGTCATTTTACCC-TTCGA
* *
60460988 GGGTGTTTCGGTCATTTTACCCTT-TA
1 GGGTATTTCGGTCATTTTACCCTTCGA
* *
60461014 GGGGTATTTTGGTCATTTTACCTTTCGA
1 -GGGTATTTCGGTCATTTTACCCTTCGA
**
60461042 GGGTATTTCAATCATTTTA-CCTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
** * * *
60461068 GGGTATTTTAGTTATTTTACACTT-TA
1 GGGTATTTCGGTCATTTTACCCTTCGA
** * *
60461094 GGGGTATTTTAGTCATTTTACCTTTCAA
1 -GGGTATTTCGGTCATTTTACCCTTCGA
* *
60461122 GGGTATTTCGGTCATTTTACCTTTAGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * *
60461149 GGGTATTTCAGTCATTTTACCTTTTG-
1 GGGTATTTCGGTCATTTTACCCTTCGA
* *
60461175 GAGGTAATTCGGTAATTTTACCCTTC-A
1 G-GGTATTTCGGTCATTTTACCCTTCGA
60461202 GGGGTAATTT-GGTCATTTTACCCTTCG-
1 -GGGT-ATTTCGGTCATTTTACCCTTCGA
* *
60461229 GGGTTAATTCGGTCATTTTACCCTTCGG
1 GGG-TATTTCGGTCATTTTACCCTTCGA
* * * * *
60461257 GGGTAATTCGATCATTTTACCTTTTGG
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * *
60461284 GGGTAATTCAGTCATTTTACCCTTCGG
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * * **
60461311 GGGTAATTCAGTCATTTTA-TCTTTTA
1 GGGTATTTCGGTCATTTTACCCTTCGA
*
60461337 GGGTTATTTCGGTCATTTTACCCTTCGG
1 GGG-TATTTCGGTCATTTTACCCTTCGA
* * *
60461365 GGGTATTTCGATCATTTTAGCCTTCGG
1 GGGTATTTCGGTCATTTTACCCTTCGA
* *
60461392 GGGTATTTCGATCATTTTACCCTTCGG
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * *
60461419 GGGTATTTCGATAATTTTACCATTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
* *
60461446 TGGTATTTCGGTAATTTT
1 GGGTATTTCGGTCATTTT
60461464 TCGGTCTAAG
Statistics
Matches: 399, Mismatches: 62, Indels: 30
0.81 0.13 0.06
Matches are distributed among these distances:
26 37 0.09
27 347 0.87
28 15 0.04
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCCTTCGA
Found at i:60463165 original size:23 final size:25
Alignment explanation
Indices: 60463135--60463180 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
60463125 TGAATTAACA
60463135 TATTCACAA-AT-ACATAAGTATTT
1 TATTCACAATATAACATAAGTATTT
*
60463158 TATTCACAATATAACATAGGTAT
1 TATTCACAATATAACATAAGTAT
60463181 GAGAAAGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 2 0.10
25 9 0.45
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (25 bp):
TATTCACAATATAACATAAGTATTT
Found at i:60472762 original size:42 final size:41
Alignment explanation
Indices: 60472701--60472782 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 41
60472691 CCATAATGAA
* * * **
60472701 GTTATTCCCATCGTCATTTTAGTTTCGTACACTTAGTGCCT
1 GTTATTCACATCATCATTTTAATTTCACACACTTAGTGCCT
60472742 GTTATTCAACATCATCATTTTAATTTCACACACTTAGTGCC
1 GTTATTC-ACATCATCATTTTAATTTCACACACTTAGTGCC
60472783 ATTCATATAG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
41 7 0.20
42 28 0.80
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.41
Consensus pattern (41 bp):
GTTATTCACATCATCATTTTAATTTCACACACTTAGTGCCT
Found at i:60474587 original size:18 final size:18
Alignment explanation
Indices: 60474564--60474602 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
60474554 TTAAATAACT
* *
60474564 TAAAATGAATTTTAAAAA
1 TAAAATCAAGTTTAAAAA
*
60474582 TAAAATCAAGTTTGAAAA
1 TAAAATCAAGTTTAAAAA
60474600 TAA
1 TAA
60474603 TTGAGAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.31
Consensus pattern (18 bp):
TAAAATCAAGTTTAAAAA
Found at i:60476255 original size:31 final size:31
Alignment explanation
Indices: 60476217--60476297 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
60476207 AAGGTATGTG
* * *
60476217 TATATATACAATATATATTCTTGGGTTTTG-T
1 TATATATA-AATATATATGCGTGGGTCTTGAT
60476248 TATATATATAATATATATGCGTGGGTCTTGAT
1 TATATATA-AATATATATGCGTGGGTCTTGAT
60476280 TATATAT-AATATATATGC
1 TATATATAAATATATATGC
60476298 ATATATGGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
30 11 0.24
31 26 0.58
32 8 0.18
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (31 bp):
TATATATAAATATATATGCGTGGGTCTTGAT
Found at i:60477342 original size:17 final size:17
Alignment explanation
Indices: 60477322--60477376 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
60477312 GGATGAATTA
60477322 TTATATTGAATGAACTG
1 TTATATTGAATGAACTG
*
60477339 TTATATTGAATGAACTA
1 TTATATTGAATGAACTG
*
60477356 TTAT-TTCGTATGAACTG
1 TTATATT-GAATGAACTG
60477373 TTAT
1 TTAT
60477377 TTTATGTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
16 2 0.06
17 32 0.94
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (17 bp):
TTATATTGAATGAACTG
Found at i:60485645 original size:27 final size:27
Alignment explanation
Indices: 60485615--60485893 Score: 267
Period size: 27 Copynumber: 10.4 Consensus size: 27
60485605 TATCCTTTAT
* ** *
60485615 GGGTAAAATGATCAAAATACCCCCGTA
1 GGGTAAAATGACCGTAATACCCCTGTA
* ** * *
60485642 GGGTAGAAT-ACCAAAATACCCTTATA
1 GGGTAAAATGACCGTAATACCCCTGTA
* *
60485668 AGGTAAAATGACCGTAATACCCTTGTA
1 GGGTAAAATGACCGTAATACCCCTGTA
* ** * *
60485695 GGGTGAAATGACTATAATGCCCCTATA
1 GGGTAAAATGACCGTAATACCCCTGTA
* *
60485722 GGGTAAAATAACCGTAATACCACTGTA
1 GGGTAAAATGACCGTAATACCCCTGTA
* ** *
60485749 GGGTAAACTGATTGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATACCCCTGTA
* * *
60485776 GAGTAAAATGACTGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATACCCCTGTA
*
60485803 GGGTAAAATGA-C-TAAATACCCATGTA
1 GGGTAAAATGACCGT-AATACCCCTGTA
* *
60485829 GGGTAAAATGACCGTAATGCCCTTGTA
1 GGGTAAAATGACCGTAATACCCCTGTA
*
60485856 GGGTAAAATGACCATAATACCCCTGTA
1 GGGTAAAATGACCGTAATACCCCTGTA
60485883 GGGTAAAATGA
1 GGGTAAAATGA
60485894 TTGTAATGCC
Statistics
Matches: 206, Mismatches: 42, Indels: 8
0.80 0.16 0.03
Matches are distributed among these distances:
25 1 0.00
26 41 0.20
27 163 0.79
28 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATACCCCTGTA
Found at i:60485737 original size:54 final size:53
Alignment explanation
Indices: 60485669--60485922 Score: 298
Period size: 54 Copynumber: 4.8 Consensus size: 53
60485659 ACCCTTATAA
* * *
60485669 GGTAAAATGACCGTAATACCCTTGTAGGGTGAAATGACTATAATGCCCCTATAG
1 GGTAAAATGACCGTAATGCCCTTGTAGGGT-AAATGACTATAATACCCCTGTAG
* * * * *
60485723 GGTAAAATAACCGTAATACCAC-TGTAGGGTAAACTGATTGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCC-CTTGTAGGGTAAA-TGACTATAATACCCCTGTAG
* * * *
60485777 AGTAAAATGACTGTAATGCCCCTGTAGGGTAAAATGACTA-AATACCCATGTAG
1 GGTAAAATGACCGTAATGCCCTTGTAGGGT-AAATGACTATAATACCCCTGTAG
*
60485830 GGTAAAATGACCGTAATGCCCTTGTAGGGTAAAATGACCATAATACCCCTGTAG
1 GGTAAAATGACCGTAATGCCCTTGTAGGGT-AAATGACTATAATACCCCTGTAG
** *
60485884 GGTAAAATGATTGTAATGCCCTGGT-GGGTAAATGACTAT
1 GGTAAAATGACCGTAATGCCCTTGTAGGGTAAATGACTAT
60485923 TTTTGCCCCT
Statistics
Matches: 174, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
52 9 0.05
53 55 0.32
54 106 0.61
55 4 0.02
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (53 bp):
GGTAAAATGACCGTAATGCCCTTGTAGGGTAAATGACTATAATACCCCTGTAG
Found at i:60485862 original size:80 final size:82
Alignment explanation
Indices: 60485615--60485893 Score: 311
Period size: 80 Copynumber: 3.5 Consensus size: 82
60485605 TATCCTTTAT
* * * * * * * *
60485615 GGGTAAAATGA-TCAAAATACCCCCGTAGGGTAGAAT-ACC-AAAATACCCTTATAAGGTAAAAT
1 GGGTAAAATGACT-ATAATGCCCCTGTAGGGTAAAATGACCGTAAATACCCATGTAGGGTAAAAT
*
60485677 GACCGTAATACCCTTGTA
65 GACCGTAATGCCCTTGTA
* * * *
60485695 GGGTGAAATGACTATAATGCCCCTATAGGGTAAAATAACCGT-AATA-CCACTGTAGGGTAAACT
1 GGGTAAAATGACTATAATGCCCCTGTAGGGTAAAATGACCGTAAATACCCA-TGTAGGGTAAAAT
** *
60485758 GATTGTAATGCCCCTGTA
65 GACCGTAATGCCCTTGTA
* *
60485776 GAGTAAAATGACTGTAATGCCCCTGTAGGGTAAAATGA-C-TAAATACCCATGTAGGGTAAAATG
1 GGGTAAAATGACTATAATGCCCCTGTAGGGTAAAATGACCGTAAATACCCATGTAGGGTAAAATG
60485839 ACCGTAATGCCCTTGTA
66 ACCGTAATGCCCTTGTA
* *
60485856 GGGTAAAATGACCATAATACCCCTGTAGGGTAAAATGA
1 GGGTAAAATGACTATAATGCCCCTGTAGGGTAAAATGA
60485894 TTGTAATGCC
Statistics
Matches: 165, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
79 1 0.01
80 96 0.58
81 68 0.41
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (82 bp):
GGGTAAAATGACTATAATGCCCCTGTAGGGTAAAATGACCGTAAATACCCATGTAGGGTAAAATG
ACCGTAATGCCCTTGTA
Found at i:60485900 original size:27 final size:27
Alignment explanation
Indices: 60485669--60485920 Score: 260
Period size: 27 Copynumber: 9.4 Consensus size: 27
60485659 ACCCTTATAA
* *
60485669 GGTAAAATGACCGTAATACCCTTGTAG
1 GGTAAAATGACTGTAATACCCCTGTAG
* * * *
60485696 GGTGAAATGACTATAATGCCCCTATAG
1 GGTAAAATGACTGTAATACCCCTGTAG
* * *
60485723 GGTAAAATAACCGTAATACCACTGTAG
1 GGTAAAATGACTGTAATACCCCTGTAG
* * *
60485750 GGTAAACTGATTGTAATGCCCCTGTAG
1 GGTAAAATGACTGTAATACCCCTGTAG
* *
60485777 AGTAAAATGACTGTAATGCCCCTGTAG
1 GGTAAAATGACTGTAATACCCCTGTAG
* *
60485804 GGTAAAATGACT-AAATACCCATGTAG
1 GGTAAAATGACTGTAATACCCCTGTAG
* * *
60485830 GGTAAAATGACCGTAATGCCCTTGTAG
1 GGTAAAATGACTGTAATACCCCTGTAG
**
60485857 GGTAAAATGACCATAATACCCCTGTAG
1 GGTAAAATGACTGTAATACCCCTGTAG
* *
60485884 GGTAAAATGATTGTAAT-GCCCTGGT-G
1 GGTAAAATGACTGTAATACCCCT-GTAG
60485910 GGT-AAATGACT
1 GGTAAAATGACT
60485921 ATTTTTGCCC
Statistics
Matches: 185, Mismatches: 38, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
25 7 0.04
26 30 0.16
27 148 0.80
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (27 bp):
GGTAAAATGACTGTAATACCCCTGTAG
Done.