Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 268 of 311
Found at i:88692100 original size:20 final size:20
Alignment explanation
Indices: 88692077--88692114 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
88692067 GTTATTAAGT
88692077 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
88692097 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
88692115 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:88694859 original size:22 final size:21
Alignment explanation
Indices: 88694829--88694870 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
88694819 AATAGTTTAG
88694829 GTACCAAAATGAGACAAAAAAA
1 GTACCAAAATGAGA-AAAAAAA
*
88694851 GTACTAAAATGAGAAAAAAA
1 GTACCAAAATGAGAAAAAAA
88694871 TTAGTTGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.64, C:0.10, G:0.14, T:0.12
Consensus pattern (21 bp):
GTACCAAAATGAGAAAAAAAA
Found at i:88699305 original size:3 final size:3
Alignment explanation
Indices: 88699297--88699328 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
88699287 GTAGATCATT
88699297 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
88699329 GCAGATGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:88706614 original size:10 final size:10
Alignment explanation
Indices: 88706599--88706665 Score: 50
Period size: 10 Copynumber: 6.8 Consensus size: 10
88706589 TGAAAGTATT
88706599 AATATTTTTA
1 AATATTTTTA
88706609 AATATTTTTTA
1 AATA-TTTTTA
* *
88706620 CACT-TTTCTA
1 -AATATTTTTA
*
88706630 TAT-TTTTTA
1 AATATTTTTA
88706639 AATATTTTT-
1 AATATTTTTA
*
88706648 AATAATTTTA
1 AATATTTTTA
*
88706658 AAAATTTT
1 AATATTTT
88706666 GTATATTGAA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
9 16 0.36
10 20 0.45
11 6 0.14
12 2 0.05
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (10 bp):
AATATTTTTA
Found at i:88706665 original size:30 final size:30
Alignment explanation
Indices: 88706603--88706665 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
88706593 AGTATTAATA
* * ** *
88706603 TTTTTAAATATTTTTTACACTTTTCTATAT
1 TTTTTAAATATTTTTAACAATTTTAAAAAT
*
88706633 TTTTTAAATATTTTTAATAATTTTAAAAAT
1 TTTTTAAATATTTTTAACAATTTTAAAAAT
88706663 TTT
1 TTT
88706666 GTATATTGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTTAAATATTTTTAACAATTTTAAAAAT
Found at i:88707267 original size:16 final size:18
Alignment explanation
Indices: 88707241--88707280 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
88707231 AAATTTTAAA
*
88707241 AATATTTATTT-ATATTT
1 AATATTAATTTAATATTT
88707258 -ATATTAATTTAATATTT
1 AATATTAATTTAATATTT
88707275 AATATT
1 AATATT
88707281 TAATAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 9 0.45
17 6 0.30
18 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
AATATTAATTTAATATTT
Found at i:88707291 original size:23 final size:23
Alignment explanation
Indices: 88707247--88707294 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
88707237 TAAAAATATT
88707247 TATTTATATTTATATTAATTTAA
1 TATTTATATTTATATTAATTTAA
*
88707270 TATTTAATATTTA-A-TAATTTTA
1 TATTT-ATATTTATATTAATTTAA
88707292 TAT
1 TAT
88707295 ACTTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 10 0.43
23 6 0.26
24 7 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTTATATTTATATTAATTTAA
Found at i:88707927 original size:22 final size:22
Alignment explanation
Indices: 88707891--88707932 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
88707881 AAAATGCTTA
88707891 TTTTATAGTAGTATAGAATTAAT
1 TTTTATAGTAGTATA-AATTAAT
*
88707914 TTTTAT-GTATTATAAATTA
1 TTTTATAGTAGTATAAATTA
88707933 CATTATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 7 0.39
23 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (22 bp):
TTTTATAGTAGTATAAATTAAT
Found at i:88717534 original size:17 final size:17
Alignment explanation
Indices: 88717508--88717542 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
88717498 TTGCTTTCTC
88717508 AAAAGAAAAAAAAAAGA
1 AAAAGAAAAAAAAAAGA
* *
88717525 AAAAGGAAAAAAGAAGA
1 AAAAGAAAAAAAAAAGA
88717542 A
1 A
88717543 TCATCGATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAAAAAAGA
Found at i:88720079 original size:25 final size:25
Alignment explanation
Indices: 88720051--88720099 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
88720041 TACTTTTTAT
88720051 AATTA-TAAATATAATCAATTAATTA
1 AATTATTAAATATAATCAA-TAATTA
* *
88720076 AATTATTAAATTTAATTAATAATT
1 AATTATTAAATATAATCAATAATT
88720100 TTAAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
AATTATTAAATATAATCAATAATTA
Found at i:88725213 original size:9 final size:8
Alignment explanation
Indices: 88725196--88725221 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
88725186 ATTAAATTGT
88725196 AATAAAAA
1 AATAAAAA
88725204 AATAAAAA
1 AATAAAAA
88725212 AATAAAAA
1 AATAAAAA
88725220 AA
1 AA
88725222 GGCTAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AATAAAAA
Found at i:88728550 original size:115 final size:114
Alignment explanation
Indices: 88728322--88728552 Score: 259
Period size: 115 Copynumber: 2.0 Consensus size: 114
88728312 AGGATCATGT
*
88728322 AATAAGATATAAGAATAAATTTAAAACGAATTGTATGTGTAAAAATAATATGAAATTATTAGTAT
1 AATAAGATATAAGAATAAATTTAAAACGAATTATATGTGTAAAAATAATATGAAATTATTAGTAT
* ** * * * * *
88728387 ACATGAAATAAAACTAACTTTGTTATAAAATATGTATATTTATGTGTATA
66 ACATAAAATAAAACTAACTTTAATACAAAATA-GCACATATATATGTATA
* * * **
88728437 AATAATATATAAGAATAAATTTAAAAGGAATTATATGTGTGAAAATAATATGAGGTTAATAATA-
1 AATAAGATATAAGAATAAATTTAAAACGAATTATATGTGTAAAAATAATATGAAATT-AT--TAG
* * *
88728501 TATATATAAAATAAAATTAACTTTAATACAAAGTA-CACATATATATGTATA
63 TATACATAAAATAAAACTAACTTTAATACAAAATAGCACATATATATGTATA
88728552 A
1 A
88728553 TAGTGTATAT
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
115 64 0.67
116 2 0.02
117 28 0.29
118 2 0.02
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.35
Consensus pattern (114 bp):
AATAAGATATAAGAATAAATTTAAAACGAATTATATGTGTAAAAATAATATGAAATTATTAGTAT
ACATAAAATAAAACTAACTTTAATACAAAATAGCACATATATATGTATA
Found at i:88730063 original size:35 final size:35
Alignment explanation
Indices: 88730017--88730085 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
88730007 AACAACTTTC
88730017 GCGCATACTTCGACTAAGACACATGAAGACATGCT
1 GCGCATACTTCGACTAAGACACATGAAGACATGCT
88730052 GCGCATACTTCGACTAAGACACATGAAGACATGC
1 GCGCATACTTCGACTAAGACACATGAAGACATGC
88730086 AGCATGTCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (35 bp):
GCGCATACTTCGACTAAGACACATGAAGACATGCT
Found at i:88733468 original size:20 final size:20
Alignment explanation
Indices: 88733445--88733496 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
88733435 GACGCAATGC
* *
88733445 CAAAATTTGTATCCAAATAT
1 CAAAATTTCTAACCAAATAT
88733465 CAAAATTTCTAACCAAATA-
1 CAAAATTTCTAACCAAATAT
*
88733484 CTAACATTTCTAA
1 C-AAAATTTCTAA
88733497 TGGATACTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (20 bp):
CAAAATTTCTAACCAAATAT
Found at i:88738079 original size:4 final size:4
Alignment explanation
Indices: 88738060--88738130 Score: 60
Period size: 4 Copynumber: 17.8 Consensus size: 4
88738050 CATCCACCGG
*
88738060 AAGA GAGA AAGAA AAGA AAGA AATGA TAAG- AAGA AA-A GAAG- AAG-
1 AAGA AAGA AAG-A AAGA AAGA AA-GA -AAGA AAGA AAGA -AAGA AAGA
*
88738104 AAGA AAGA AAGA AAGA AAGA AAAA AAG
1 AAGA AAGA AAGA AAGA AAGA AAGA AAG
88738131 GTAATGTATT
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
3 10 0.18
4 37 0.66
5 7 0.12
6 2 0.04
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (4 bp):
AAGA
Found at i:88738094 original size:22 final size:21
Alignment explanation
Indices: 88738068--88738130 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
88738058 GGAAGAGAGA
*
88738068 AAGAAAAGAAAGAAATGATAAG
1 AAGAAAAGAAAGAAAAGA-AAG
88738090 AAGAAAAG-AAGAAGAAGAAAG
1 AAGAAAAGAAAGAA-AAGAAAG
88738111 AA-AGAAAGAAAGAAAA-AAAG
1 AAGA-AAAGAAAGAAAAGAAAG
88738131 GTAATGTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
20 5 0.14
21 16 0.43
22 16 0.43
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (21 bp):
AAGAAAAGAAAGAAAAGAAAG
Found at i:88738982 original size:131 final size:131
Alignment explanation
Indices: 88738734--88739069 Score: 454
Period size: 131 Copynumber: 2.6 Consensus size: 131
88738724 TCGAACGAAA
* * * * * * *
88738734 AAATTGAAACCCAGCAC-AGTA-GGCATGATTCCTCGAATTTCTAGACATCAAACATTGCCTT-A
1 AAATTGCAACCCAGCACGA-TAGGGCATGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCG
* *
88738796 TTTT-AGAA--TTTAGAGAACATAAGTGAAATTCTAAAGAGATATTCGATTATTTTGAACAAACG
65 TTTTAAGAATTTTTAAAGAACATAAGTGAAATTCAAAAGAGATATTCGATTATTTTGAACAAACG
88738858 GG
130 GG
*
88738860 AAATTGCAACCCAGCACGATAGGGCATGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGT
1 AAATTGCAACCCAGCACGATAGGGCATGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGT
*
88738925 TTTGAAGAATTTTTAAAG-ACATGAGTGAAATTCCAAAAGA-ATATTCGATTATTTTGAACAAAC
66 TTT-AAGAATTTTTAAAGAACATAAGTGAAATT-CAAAAGAGATATTCGATTATTTTGAACAAAC
88738988 GGG
129 GGG
* * *
88738991 AAATTGCAACACAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCGTTCGT
1 AAATTGCAACCCAGCACGATAGGGCATGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGT
88739056 TTTAAAGAATTTTT
66 TTT-AAGAATTTTT
88739070 GAATGAATAG
Statistics
Matches: 186, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
126 18 0.10
127 35 0.19
128 4 0.02
130 4 0.02
131 113 0.61
132 12 0.06
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (131 bp):
AAATTGCAACCCAGCACGATAGGGCATGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGT
TTTAAGAATTTTTAAAGAACATAAGTGAAATTCAAAAGAGATATTCGATTATTTTGAACAAACGG
G
Found at i:88740378 original size:39 final size:39
Alignment explanation
Indices: 88740334--88740472 Score: 192
Period size: 39 Copynumber: 3.6 Consensus size: 39
88740324 ATAAAGTATG
*
88740334 GTTTTAATTAATAATAAAACAAAATAGTATGAGGAAGTA
1 GTTTTAATTAACAATAAAACAAAATAGTATGAGGAAGTA
* *
88740373 GTTTTAATTAACAATAAAACAAAATAGTATGGGGAAATA
1 GTTTTAATTAACAATAAAACAAAATAGTATGAGGAAGTA
* *
88740412 GTTTTAATTAACAATAAAACAAAATAGCAT-AGGGAGT-
1 GTTTTAATTAACAATAAAACAAAATAGTATGAGGAAGTA
* *
88740449 GTTTTTGATTAATAATAAAACAAA
1 G-TTTTAATTAACAATAAAACAAA
88740473 GTAGCATGGG
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
37 1 0.01
38 24 0.27
39 65 0.72
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.30
Consensus pattern (39 bp):
GTTTTAATTAACAATAAAACAAAATAGTATGAGGAAGTA
Found at i:88740486 original size:78 final size:78
Alignment explanation
Indices: 88740334--88740483 Score: 214
Period size: 77 Copynumber: 1.9 Consensus size: 78
88740324 ATAAAGTATG
* *
88740334 GTTTTAATTAATAATAAAACAAAATAGTATGAGGAAGTAGTTTTAATTAACAATAAAACAAAATA
1 GTTTTAATTAACAATAAAACAAAATAGCATGAGGAAGTAGTTTTAATTAACAATAAAACAAAATA
*
88740399 GTATGGGGAAATA
66 GCATGGGGAAATA
* * * *
88740412 GTTTTAATTAACAATAAAACAAAATAGCAT-AGGGAGT-GTTTTTGATTAATAATAAAACAAAGT
1 GTTTTAATTAACAATAAAACAAAATAGCATGAGGAAGTAG-TTTTAATTAACAATAAAACAAAAT
88740475 AGCATGGGG
65 AGCATGGGG
88740484 GAAGTGGAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
76 1 0.02
77 35 0.55
78 28 0.44
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.29
Consensus pattern (78 bp):
GTTTTAATTAACAATAAAACAAAATAGCATGAGGAAGTAGTTTTAATTAACAATAAAACAAAATA
GCATGGGGAAATA
Found at i:88748938 original size:210 final size:210
Alignment explanation
Indices: 88748387--88749655 Score: 1939
Period size: 210 Copynumber: 6.1 Consensus size: 210
88748377 CTTCATCGGG
* * * *
88748387 GCAGATCTAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCATATCGAAGATATAGTTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
*
88748452 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGCCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * * *
88748517 GAACGAATCGAAGTTTGGCATCTT-CACTTTGATGG-AGAGTAGACACATAGCAGATCTGACCTT
131 GAACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTTACCTT
*
88748580 CAGATGTTTATGCTGAA
194 CAGATGTTTACGCTGAA
* ** * * * * **
88748597 GCAGATCCAAGATG---G-T-TTGGCATC-CT-TGTGTT-TACAAGGAACAAATTGAAGGCATAG
1 GCAGATCCAAGATGACAGATCTT---ATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAG
* * *
88748654 CTGATTTGGCTTTCACGTGTTTACGTTAAAACAAATCTAAGATGATTTGTCGTCTCTGTATTGTC
63 CTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTC
*
88748719 AGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGTAAGGCAGACACATAGCAGATCTTACCT
128 AGAGAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCT
88748784 TCAGATGTTTACGCTGAA
193 TCAGATGTTTACGCTGAA
* *
88748802 GCAGATCCAAGATGATAGATATTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
* *
88748867 ATTTGGCTTTCAAGTGTTTACGATGAAGCAAATCTAAAATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
88748932 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
88748997 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
88749012 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
*
88749077 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTATCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
*
88749142 GAACAAATTGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
88749207 GATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* * * *
88749222 GCAGATCCAAGATGATAGATCTTATTTCTCTATATTCGGCAGGGAGCAGATTGAAGATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
*
88749287 ATTTGGCTTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* *
88749352 GAACAAATCGAAGTCTGGCACTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCCTCA
131 GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
*
88749417 TATGTTTACGCTGAA
196 GATGTTTACGCTGAA
* * *
88749432 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAACAGATCAAAAATATAGCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
** *
88749497 ATTTGGCTTTCACGTGTTTTTGATAAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
* * * * **
88749562 GAACGAATCAAAGTTTGGCATCTT-CACTTTGATGGAAAGCAGACACATAGCAGATCTCGCCTTC
131 GAACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTC
* *
88749626 GGATGTTTATGCTGAA
195 AGATGTTTACGCTGAA
*
88749642 GCGGATCCAAGATG
1 GCAGATCCAAGATG
88749656 TTTGGCATCC
Statistics
Matches: 971, Mismatches: 74, Indels: 28
0.90 0.07 0.03
Matches are distributed among these distances:
204 2 0.00
205 163 0.17
206 8 0.01
207 6 0.01
208 6 0.01
209 6 0.01
210 778 0.80
211 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (210 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGATATAGCTG
ATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCA
GATGTTTACGCTGAA
Found at i:88749900 original size:43 final size:45
Alignment explanation
Indices: 88749853--88749936 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
88749843 GTTTGCAATG
* *
88749853 AGCAGATTGAAAAGAA-A-ATTTGGCGTCTCTGTATTAGACGGGA
1 AGCAGATCGAAAAGAATAGATTTGGCGTCTCTGTAGTAGACGGGA
* *
88749896 AGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGTAGAC
1 AGCAGATCGAAAAGAATAGATTTGGCGTCTCTGTAGTAGAC
88749937 CGGGGGCAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 13 0.37
44 1 0.03
45 21 0.60
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.26
Consensus pattern (45 bp):
AGCAGATCGAAAAGAATAGATTTGGCGTCTCTGTAGTAGACGGGA
Found at i:88749921 original size:45 final size:45
Alignment explanation
Indices: 88749870--88749955 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
88749860 TGAAAAGAAA
* *
88749870 ATTTGGCGTCTCTGTATTAGA-CGGGAAGCAGATCGAAGATAATAG
1 ATTTGGCGTCTCTGTAGTAGACCGGG-AGCAGATCAAAGATAATAG
*
88749915 ATTTGGCGTCTCTGTAGTAGACCGGGGGCAGATCAAAGATA
1 ATTTGGCGTCTCTGTAGTAGACCGGGAGCAGATCAAAGATA
88749956 GCAGATATCG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 33 0.89
46 4 0.11
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (45 bp):
ATTTGGCGTCTCTGTAGTAGACCGGGAGCAGATCAAAGATAATAG
Found at i:88751243 original size:2 final size:2
Alignment explanation
Indices: 88751238--88751281 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
88751228 TAAATATATA
88751238 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
88751280 TG
1 TG
88751282 AATGAGATAT
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:88751455 original size:15 final size:15
Alignment explanation
Indices: 88751437--88751493 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
88751427 TATCTGTTTT
88751437 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
88751452 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
88751467 ATTGAATTTATATTG
1 ATTGAATTTATATTG
88751482 ATTGAA-TTATAT
1 ATTGAATTTATAT
88751494 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:88751472 original size:30 final size:28
Alignment explanation
Indices: 88751433--88751491 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
88751423 TGAATATCTG
88751433 TTTTATTGAATTTATATTGATTGAAATTA
1 TTTTATTGAATTTATATTGATTG-AATTA
88751462 TTTTGATTGAATTTATATTGATTGAATTA
1 TTTT-ATTGAATTTATATTGATTGAATTA
88751491 T
1 T
88751492 ATAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (28 bp):
TTTTATTGAATTTATATTGATTGAATTA
Found at i:88751904 original size:23 final size:23
Alignment explanation
Indices: 88751878--88751952 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
88751868 ATGCACTTTA
88751878 TGTGTCGTATTTTAGGCACCTCG
1 TGTGTCGTATTTTAGGCACCTCG
*
88751901 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTTAGGCACCTCG
* **
88751922 TGTGTCG--TTTTAGGCACTTTA
1 TGTGTCGTATTTTAGGCACCTCG
88751943 TGTGTCGTAT
1 TGTGTCGTAT
88751953 ACTGATCAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 33 0.77
23 10 0.23
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (23 bp):
TGTGTCGTATTTTAGGCACCTCG
Found at i:88752135 original size:18 final size:19
Alignment explanation
Indices: 88752114--88752154 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
88752104 AATGAAATGA
88752114 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
88752132 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
88752151 GAAA
1 GAAA
88752155 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:88755296 original size:53 final size:53
Alignment explanation
Indices: 88755162--88755307 Score: 170
Period size: 53 Copynumber: 2.7 Consensus size: 53
88755152 TGCGCCTGTT
*
88755162 TAAGACCATATCTGGGCTATGGCATCGGTGA-AATGTGATAATATGACTCCGTA
1 TAAGACCATGTCTGGGCTATGGCATCGGT-ATAATGTGATAATATGACTCCGTA
* * * * *
88755215 TAAGACTATAG-CTAGGCTATCGCATCGGTATAATGTGATAATGTGATTCCGTA
1 TAAGACCAT-GTCTGGGCTATGGCATCGGTATAATGTGATAATATGACTCCGTA
* *
88755268 TAAGACCATGTCTGGGATATGGCTTCGGTATGATATGTGA
1 TAAGACCATGTCTGGGCTATGGCATCGGTAT-A-ATGTGA
88755308 ACTGTGTAAG
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
52 2 0.03
53 68 0.88
54 1 0.01
55 6 0.08
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (53 bp):
TAAGACCATGTCTGGGCTATGGCATCGGTATAATGTGATAATATGACTCCGTA
Found at i:88757255 original size:38 final size:38
Alignment explanation
Indices: 88757120--88757269 Score: 194
Period size: 39 Copynumber: 3.9 Consensus size: 38
88757110 ATAAAGTATG
* * *
88757120 GTTTTAATTAATAATAAAACAAAATAGTATGAGGAAGTA
1 GTTTTAATTAACAATAAAACAAAATAGCATG-GGGAGTA
* *
88757159 GTTTTAATTAACAATAAAACAAAATAGTATGGGGAAATA
1 GTTTTAATTAACAATAAAACAAAATAGCATGGGG-AGTA
88757198 GTTTTAATTAACAATAAAACAAAATAGCATGGGGAGT-
1 GTTTTAATTAACAATAAAACAAAATAGCATGGGGAGTA
* * *
88757235 GTTTTTGATTAATAATAAAACAAAGTAGCATGGGG
1 G-TTTTAATTAACAATAAAACAAAATAGCATGGGG
88757270 GAGTGGAATC
Statistics
Matches: 101, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
37 1 0.01
38 34 0.34
39 66 0.65
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.29
Consensus pattern (38 bp):
GTTTTAATTAACAATAAAACAAAATAGCATGGGGAGTA
Found at i:88757271 original size:78 final size:78
Alignment explanation
Indices: 88757120--88757269 Score: 214
Period size: 77 Copynumber: 1.9 Consensus size: 78
88757110 ATAAAGTATG
* *
88757120 GTTTTAATTAATAATAAAACAAAATAGTATGAGGAAGTAGTTTTAATTAACAATAAAACAAAATA
1 GTTTTAATTAACAATAAAACAAAATAGCATGAGGAAGTAGTTTTAATTAACAATAAAACAAAATA
*
88757185 GTATGGGGAAATA
66 GCATGGGGAAATA
* * * *
88757198 GTTTTAATTAACAATAAAACAAAATAGCATG-GGGAGT-GTTTTTGATTAATAATAAAACAAAGT
1 GTTTTAATTAACAATAAAACAAAATAGCATGAGGAAGTAG-TTTTAATTAACAATAAAACAAAAT
88757261 AGCATGGGG
65 AGCATGGGG
88757270 GAGTGGAATC
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
76 1 0.02
77 34 0.53
78 29 0.45
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.29
Consensus pattern (78 bp):
GTTTTAATTAACAATAAAACAAAATAGCATGAGGAAGTAGTTTTAATTAACAATAAAACAAAATA
GCATGGGGAAATA
Found at i:88757804 original size:35 final size:35
Alignment explanation
Indices: 88757764--88757836 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
88757754 TTTTTTACAT
*
88757764 TATTATGTATATACCATGTCAATATTTTAATATTA
1 TATTATGTATATACCATGTAAATATTTTAATATTA
*
88757799 TATTATGTATATACCATGTAAATATTTTAATCTTA
1 TATTATGTATATACCATGTAAATATTTTAATATTA
88757834 TAT
1 TAT
88757837 ACATTTTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.49
Consensus pattern (35 bp):
TATTATGTATATACCATGTAAATATTTTAATATTA
Found at i:88758232 original size:16 final size:17
Alignment explanation
Indices: 88758198--88758238 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
88758188 CCTACTCCCT
88758198 CCCAATTTAAAACCCAG
1 CCCAATTTAAAACCCAG
*
88758215 CCCAATTT-AAATCCAG
1 CCCAATTTAAAACCCAG
88758231 CCCAATTT
1 CCCAATTT
88758239 TCTCTTAGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.37, C:0.34, G:0.05, T:0.24
Consensus pattern (17 bp):
CCCAATTTAAAACCCAG
Found at i:88759168 original size:16 final size:16
Alignment explanation
Indices: 88759147--88759180 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
88759137 AATTATTGAA
*
88759147 TATATTGTAATTAATG
1 TATATTATAATTAATG
88759163 TATATTATAATTAATG
1 TATATTATAATTAATG
88759179 TA
1 TA
88759181 AGAAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (16 bp):
TATATTATAATTAATG
Found at i:88762298 original size:24 final size:24
Alignment explanation
Indices: 88762241--88762299 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
88762231 GGTTTAATGC
* *
88762241 AAATGGAGATATTTTGGAGAGATG
1 AAATGGATATATTTTGGAAAGATG
*
88762265 AAATGAATATATTTTGGAAAGATG
1 AAATGGATATATTTTGGAAAGATG
88762289 AAATGGATATA
1 AAATGGATATA
88762300 AATGGAGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (24 bp):
AAATGGATATATTTTGGAAAGATG
Found at i:88762391 original size:20 final size:19
Alignment explanation
Indices: 88762365--88762429 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
88762355 AATATTTTTA
88762365 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
* ***
88762384 ACTTATGTAAT-ATTTTTA-
1 A-TTATGTAGTGATTCAAAG
88762402 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
88762421 ATTTATGTA
1 A-TTATGTA
88762430 ATGTTTTTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
17 8 0.24
18 5 0.15
19 6 0.18
20 15 0.44
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (19 bp):
ATTATGTAGTGATTCAAAG
Found at i:88762394 original size:37 final size:37
Alignment explanation
Indices: 88762340--88762452 Score: 183
Period size: 37 Copynumber: 3.1 Consensus size: 37
88762330 TTATGTTTTA
*
88762340 ATTC-AAGACTTGTGTAATATTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
88762376 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
* * *
88762413 ATTCAAAGATTTATGTAATGTTTTTAACTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
88762450 ATT
1 ATT
88762453 TAATTCGGGT
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
36 4 0.06
37 68 0.94
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.47
Consensus pattern (37 bp):
ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
Found at i:88762408 original size:17 final size:17
Alignment explanation
Indices: 88762352--88762409 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
88762342 TCAAGACTTG
88762352 TGTAATATTTTTAATTA
1 TGTAATATTTTTAATTA
* ***
88762369 TGTAGTGATTCAAAGACTTA
1 TGTAAT-ATTTTTA-A-TTA
88762389 TGTAATATTTTTAATTA
1 TGTAATATTTTTAATTA
88762406 TGTA
1 TGTA
88762410 GTGATTCAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
17 12 0.40
18 5 0.17
19 5 0.17
20 8 0.27
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.50
Consensus pattern (17 bp):
TGTAATATTTTTAATTA
Found at i:88762467 original size:9 final size:9
Alignment explanation
Indices: 88762453--88762571 Score: 166
Period size: 9 Copynumber: 12.6 Consensus size: 9
88762443 TGTAGTGATT
88762453 TAATTCGGG
1 TAATTCGGG
88762462 TAATTCGGG
1 TAATTCGGG
88762471 TAATTTTCGGG
1 TAA--TTCGGG
88762482 TAATTTTCGGG
1 TAA--TTCGGG
88762493 TAATTCGGG
1 TAATTCGGG
*
88762502 TAATTTGGG
1 TAATTCGGG
88762511 TAATTTTCGGG
1 TAA--TTCGGG
88762522 TAATTCGGG
1 TAATTCGGG
88762531 TAATTCGGG
1 TAATTCGGG
*
88762540 TAAGTCGGG
1 TAATTCGGG
88762549 TAATTCGGG
1 TAATTCGGG
88762558 TAATTCGGG
1 TAATTCGGG
88762567 TAATT
1 TAATT
88762572 TTTAACCAAA
Statistics
Matches: 102, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
9 74 0.73
11 28 0.27
ACGTcount: A:0.22, C:0.09, G:0.31, T:0.38
Consensus pattern (9 bp):
TAATTCGGG
Found at i:88764745 original size:14 final size:14
Alignment explanation
Indices: 88764726--88764752 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
88764716 AATGTAAAAT
88764726 AAAATAATGATTTC
1 AAAATAATGATTTC
88764740 AAAATAATGATTT
1 AAAATAATGATTT
88764753 ATTTAAATAA
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:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (14 bp):
AAAATAATGATTTC
Found at i:88770080 original size:18 final size:18
Alignment explanation
Indices: 88770057--88770122 Score: 87
Period size: 18 Copynumber: 3.6 Consensus size: 18
88770047 AAAAATACAT
88770057 TTTCTTTCTTCTCTTTTC
1 TTTCTTTCTTCTCTTTTC
*
88770075 TTTCTTTCTTCTCTCTTC
1 TTTCTTTCTTCTCTTTTC
* *
88770093 TTCCTTTCTTCTCTTCTC
1 TTTCTTTCTTCTCTTTTC
*
88770111 CTTCTTTTCTTC
1 TTTC-TTTCTTC
88770123 CTTATGTTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
18 34 0.83
19 7 0.17
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTCTTTCTTCTCTTTTC
Found at i:88770099 original size:22 final size:21
Alignment explanation
Indices: 88770057--88770116 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
88770047 AAAAATACAT
88770057 TTTCTTTC-T-TCTCTT-TTC
1 TTTCTTTCTTCTCTCTTCTTC
88770075 TTTCTTTCTTCTCTCTTCTTCC
1 TTTCTTTCTTCTCTCTTCTT-C
88770097 TTTCTTCTCTTCTC-CTTCTT
1 TTTCTT-TCTTCTCTCTTCTT
88770117 TTCTTCCTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.22
19 1 0.03
20 6 0.16
21 2 0.05
22 13 0.35
23 7 0.19
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTCTTTCTTCTCTCTTCTTC
Found at i:88786549 original size:42 final size:42
Alignment explanation
Indices: 88786490--88786569 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
88786480 AGCATGAGAA
*
88786490 AGGTTAATTAAAGGAATTTATTAGTAATTAAGCCATCTCTAC
1 AGGTTAATTAAAGGAATTTATTAGCAATTAAGCCATCTCTAC
*
88786532 AGGTTAATTAAAGGAATTTATTAGCAATTAAGTCATCT
1 AGGTTAATTAAAGGAATTTATTAGCAATTAAGCCATCT
88786570 TTACTTATAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (42 bp):
AGGTTAATTAAAGGAATTTATTAGCAATTAAGCCATCTCTAC
Found at i:88791503 original size:28 final size:25
Alignment explanation
Indices: 88791441--88791512 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 25
88791431 AGGATGGATT
* *
88791441 TTTAATTTTATTTAACATTAATAAA
1 TTTAAATTTATTTAATATTAATAAA
*
88791466 TTTATATTTATTTAATATTAATATAAAA
1 TTTAAATTTATTTAATATT-A-AT-AAA
*
88791494 TTTAAATTTATATAATATT
1 TTTAAATTTATTTAATATT
88791513 TGTAATTTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
25 16 0.41
26 1 0.03
27 2 0.05
28 20 0.51
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (25 bp):
TTTAAATTTATTTAATATTAATAAA
Found at i:88791506 original size:17 final size:17
Alignment explanation
Indices: 88791462--88791513 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
88791452 TTAACATTAA
*
88791462 TAAATTTATAT-TTATT
1 TAAATTTATATAATATT
* *
88791478 TAATATTAATATAAAATT
1 TAA-ATTTATATAATATT
88791496 TAAATTTATATAATATT
1 TAAATTTATATAATATT
88791513 T
1 T
88791514 GTAATTTGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 3 0.10
17 20 0.69
18 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAATTTATATAATATT
Found at i:88793524 original size:4 final size:4
Alignment explanation
Indices: 88793507--88793538 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
88793497 GTCAACATAG
*
88793507 ATGT ATGA ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
88793539 GATGATCAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:88794056 original size:22 final size:23
Alignment explanation
Indices: 88794031--88794073 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
88794021 TATTTAACTA
88794031 ATTTTATTTTTA-ATAAAAATAT
1 ATTTTATTTTTATATAAAAATAT
88794053 ATTTTATTTTTATATAAAAAT
1 ATTTTATTTTTATATAAAAAT
88794074 GTAAATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTTTATTTTTATATAAAAATAT
Found at i:88798804 original size:30 final size:30
Alignment explanation
Indices: 88798762--88798832 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 30
88798752 AATTTAAATT
*
88798762 AATAAAAATAATATTATATTTTAA-CTCTTTAAA
1 AATAATAATAAT-TTA-A-TTTAATCT-TTTAAA
88798795 AATAATAATAATTTAATTTAATCTTTTAAA
1 AATAATAATAATTTAATTTAATCTTTTAAA
88798825 AATAATAA
1 AATAATAA
88798833 AATATAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
30 19 0.53
31 3 0.08
32 3 0.08
33 11 0.31
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (30 bp):
AATAATAATAATTTAATTTAATCTTTTAAA
Found at i:88798843 original size:30 final size:30
Alignment explanation
Indices: 88798760--88798843 Score: 86
Period size: 30 Copynumber: 2.8 Consensus size: 30
88798750 AAAATTTAAA
*
88798760 TTAATAAA-AATAAT-ATTATATTTTAACTCT
1 TTAA-AAATAATAATAATTA-AATTTAACTCT
*
88798790 TTAAAAATAATAATAATTTAATTTAA-TCTT
1 TTAAAAATAATAATAATTAAATTTAACTC-T
88798820 TTAAAAATAATAA-AATATAAATTT
1 TTAAAAATAATAATAAT-TAAATTT
88798844 TTAAAAATTA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
29 8 0.17
30 36 0.77
31 3 0.06
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (30 bp):
TTAAAAATAATAATAATTAAATTTAACTCT
Found at i:88804388 original size:29 final size:26
Alignment explanation
Indices: 88804339--88804394 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 26
88804329 TTTAATTTTT
* *
88804339 TTATATATTTAATAGAAAATTAATAAA
1 TTATATATATAATAAAAAATTAA-AAA
88804366 TTATATATATAATAAAAATAATTAAAAA
1 TTATATATATAAT-AAAA-AATTAAAAA
88804394 T
1 T
88804395 CAAACTATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 12 0.48
28 7 0.28
29 6 0.24
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (26 bp):
TTATATATATAATAAAAAATTAAAAA
Found at i:88807167 original size:24 final size:24
Alignment explanation
Indices: 88807140--88807194 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
88807130 CTATTTATAG
*
88807140 GCTAAATAAACTATGCTAATAAAT
1 GCTAAATAAACTATACTAATAAAT
* * *
88807164 GCTAAATATATTATACTAATATAT
1 GCTAAATAAACTATACTAATAAAT
*
88807188 ACTAAAT
1 GCTAAAT
88807195 CTTTTAGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (24 bp):
GCTAAATAAACTATACTAATAAAT
Found at i:88807989 original size:12 final size:12
Alignment explanation
Indices: 88807972--88808003 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
88807962 GCGATCAAAT
88807972 AAATTATTAAAA
1 AAATTATTAAAA
*
88807984 AAATTATAAAAA
1 AAATTATTAAAA
88807996 AAATTATT
1 AAATTATT
88808004 TTAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAATTATTAAAA
Found at i:88810679 original size:41 final size:41
Alignment explanation
Indices: 88810390--88810675 Score: 387
Period size: 41 Copynumber: 7.0 Consensus size: 41
88810380 GTTTAAAATA
**
88810390 AAACGCCACTAAAAACCGAGCAATAATGGCGTTTCT-GGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTT-TAGGTCC
* * * *
88810431 AAACGCCACTAAAAACTGAGAAATAGCAGCGTTTCAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTTAGGTCC
* * *
88810472 AACCGCCACTAAAAACCGAGCAATAGTGGCGTTTCAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTTAGGTCC
*
88810513 AAACGCCACTAAAAATCGAGCAATAGCGGCGTTTTAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTTAGGTCC
* *
88810554 AAATGCCACTAAAAACTGAGCAATAGCGGCGTTTTAGGTCC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTTAGGTCC
* *
88810595 AAACGCCACTAAAAACCGAGCAATAGCGGC-TTTTCTGGTCA
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTT-AGGTCC
** *
88810636 AAACGCCACTAAAAACCGAGCAATAATGGCGTTTTTGGTC
1 AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTTAGGTC
88810676 AAAATGCCGT
Statistics
Matches: 218, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
40 4 0.02
41 210 0.96
42 4 0.02
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.20
Consensus pattern (41 bp):
AAACGCCACTAAAAACCGAGCAATAGCGGCGTTTTAGGTCC
Found at i:88810739 original size:123 final size:123
Alignment explanation
Indices: 88810389--88810724 Score: 458
Period size: 123 Copynumber: 2.7 Consensus size: 123
88810379 CGTTTAAAAT
* * *
88810389 AAAACGCCACTAAAAACCGAGCAATAATGGCGTTTCTGGTCCAAACGCCACTAAAAACTGAGAAA
1 AAAACGCCACTAAAAACCGAGCAATAATGGCGTTTTTGGTCCAAATGCCACTAAAAACTGAGCAA
* * * *
88810454 TAGCAGCGTTTCAGGTCCAACCGCCACTAAAAACCGAGCAATAGTGGCGTTTCAGGTC
66 TAGCGGCGTTTTAGGTCCAAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTC
* * ** *
88810512 CAAACGCCACTAAAAATCGAGCAATAGCGGCGTTTTAGGTCCAAATGCCACTAAAAACTGAGCAA
1 AAAACGCCACTAAAAACCGAGCAATAATGGCGTTTTTGGTCCAAATGCCACTAAAAACTGAGCAA
* *
88810577 TAGCGGCGTTTTAGGTCCAAACGCCACTAAAAACCGAGCAATAGCGGCTTTTCTGGTC
66 TAGCGGCGTTTTAGGTCCAAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTC
* * * * * *
88810635 AAAACGCCACTAAAAACCGAGCAATAATGGCGTTTTTGGTCAAAATGCC-GTAAAAAGTTTATCT
1 AAAACGCCACTAAAAACCGAGCAATAATGGCGTTTTTGGTCCAAATGCCACTAAAAA-CTGAGCA
**
88810699 ATAGCGGCGTTTTTCGTCCAAACGCC
65 ATAGCGGCGTTTTAGGTCCAAACGCC
88810725 GCAAAAAGTT
Statistics
Matches: 185, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
122 6 0.03
123 179 0.97
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (123 bp):
AAAACGCCACTAAAAACCGAGCAATAATGGCGTTTTTGGTCCAAATGCCACTAAAAACTGAGCAA
TAGCGGCGTTTTAGGTCCAAACGCCACTAAAAACCGAGCAATAGCGGCGTTTCAGGTC
Found at i:88810843 original size:18 final size:17
Alignment explanation
Indices: 88810811--88810845 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
88810801 ATTTTCTTAT
*
88810811 TTTTGTTTTGAATTTGA
1 TTTTATTTTGAATTTGA
88810828 TTTTATTTTGATATTTGA
1 TTTTATTTTGA-ATTTGA
88810846 AATTGACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (17 bp):
TTTTATTTTGAATTTGA
Found at i:88811608 original size:21 final size:21
Alignment explanation
Indices: 88811559--88811609 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
88811549 AGTTTATGGT
88811559 TTAAGGTTTGTTATTTTGGGC
1 TTAAGGTTTGTTATTTTGGGC
**
88811580 TTGGGGTTTGTTATTTTGGGC
1 TTAAGGTTTGTTATTTTGGGC
88811601 TTAAGGTTT
1 TTAAGGTTT
88811610 AGGGTTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.12, C:0.04, G:0.31, T:0.53
Consensus pattern (21 bp):
TTAAGGTTTGTTATTTTGGGC
Found at i:88811986 original size:21 final size:21
Alignment explanation
Indices: 88811942--88811986 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
88811932 AATTAATTTT
*
88811942 ATTTTATTTAAAAGTTTAATA
1 ATTTTATTTAAAAGTTTAAAA
88811963 ATTTTA-TTAAAAGTTTATAAA
1 ATTTTATTTAAAAGTTTA-AAA
88811984 ATT
1 ATT
88811987 ATACTAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (21 bp):
ATTTTATTTAAAAGTTTAAAA
Found at i:88812079 original size:147 final size:147
Alignment explanation
Indices: 88811917--88812257 Score: 594
Period size: 147 Copynumber: 2.3 Consensus size: 147
88811907 TCGTCCACAA
*
88811917 TTATAAAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATA
1 TTATATAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATA
* *
88811982 AAATTATACTAATTCATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAA
66 AAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAA
88812047 TAAAATTATTTAAAAGT
131 TAAAATTATTTAAAAGT
* *
88812064 TTATATAATTATACAAATTAATTTGATTTTATTTAAAAG-TAAATTAATTTTATTAAAAGTTTAT
1 TTATATAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAA-TAATTTTATTAAAAGTTTAT
* *
88812128 AAAATTATACAAATTAATTTTATTTTATTTAAAATATTAATAAAATTAATTTACTTTTAATTAAA
65 AAAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAA
88812193 ATAAAATTATTTAAAAGT
130 ATAAAATTATTTAAAAGT
*
88812211 TTAAATAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAA
1 TTATATAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAA
88812258 AATTATTTTA
Statistics
Matches: 182, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
146 3 0.02
147 176 0.97
148 3 0.02
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (147 bp):
TTATATAATTATACAAATTAATTTTATTTTATTTAAAAGTTTAATAATTTTATTAAAAGTTTATA
AAATTATACAAATTAATTTTATTTTATTTAAAAGATTAATAAAATTAATTTACTTTTAAATAAAA
TAAAATTATTTAAAAGT
Found at i:88812083 original size:55 final size:59
Alignment explanation
Indices: 88812023--88812154 Score: 166
Period size: 60 Copynumber: 2.3 Consensus size: 59
88812013 AAGATTAATA
*
88812023 AAATTAATTT-ACTTTTAAATAAAA-T-AA-AATTAT-TTAAAAGTTTATATAATTATAC
1 AAATTAATTTGA-TTTTAAATAAAAGTAAATAATTATATTAAAAGTTTATAAAATTATAC
** *
88812078 AAATTAATTTGATTTTATTTAAAAGTAAATTAATTTTATTAAAAGTTTATAAAATTATAC
1 AAATTAATTTGATTTTAAATAAAAGTAAA-TAATTATATTAAAAGTTTATAAAATTATAC
*
88812138 AAATTAATTTTATTTTA
1 AAATTAATTTGATTTTA
88812155 TTTAAAATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
55 20 0.30
56 2 0.03
57 2 0.03
59 5 0.08
60 37 0.56
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (59 bp):
AAATTAATTTGATTTTAAATAAAAGTAAATAATTATATTAAAAGTTTATAAAATTATAC
Found at i:88812179 original size:32 final size:32
Alignment explanation
Indices: 88812071--88812195 Score: 97
Period size: 32 Copynumber: 4.0 Consensus size: 32
88812061 AGTTTATATA
*
88812071 ATTATACAAATTAATTTGATTTTATTT-AAA-
1 ATTATACAAATTAATTTTATTTTATTTAAAAT
* **
88812101 A--GT--AAATTAATTTTATTAAAAGTTTATAAA-
1 ATTATACAAATTAATTTTATT-TTA-TTTA-AAAT
88812131 ATTATACAAATTAATTTTATTTTATTTAAAAT
1 ATTATACAAATTAATTTTATTTTATTTAAAAT
*
88812163 ATTAATA-AAATTAA-TTTACTTTTAATTAAAAT
1 ATT-ATACAAATTAATTTTA-TTTTATTTAAAAT
88812195 A
1 A
88812196 AAATTATTTA
Statistics
Matches: 76, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
26 13 0.17
27 1 0.01
28 4 0.05
30 5 0.07
31 7 0.09
32 28 0.37
33 4 0.05
34 14 0.18
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.48
Consensus pattern (32 bp):
ATTATACAAATTAATTTTATTTTATTTAAAAT
Found at i:88812231 original size:40 final size:41
Alignment explanation
Indices: 88812116--88812263 Score: 104
Period size: 40 Copynumber: 3.5 Consensus size: 41
88812106 ATTAATTTTA
** * **
88812116 TTAAAAGTTT-ATAAAATTATACAAATTAATTTTATTTTAT
1 TTAAAAGTTTAATAAAATTATACAAATTAAAATAAAATTAT
*
88812156 TTAAAA-TATTAATAAAATTAATTTACTTTTAATTAAAATAAAATTAT
1 TTAAAAGT-TTAATAAAATT-A--TAC---AAATTAAAATAAAATTAT
* ** * **
88812203 TTAAAAGTTTAA-ATAATTATACAAATTAATTTTATTTTAT
1 TTAAAAGTTTAATAAAATTATACAAATTAAAATAAAATTAT
88812243 TTAAAAGTTTAATAAAATTAT
1 TTAAAAGTTTAATAAAATTAT
88812264 TTTACTTTAG
Statistics
Matches: 84, Mismatches: 14, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
39 1 0.01
40 32 0.38
41 15 0.18
42 1 0.01
43 3 0.04
44 3 0.04
45 1 0.01
46 5 0.06
47 22 0.26
48 1 0.01
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (41 bp):
TTAAAAGTTTAATAAAATTATACAAATTAAAATAAAATTAT
Found at i:88815277 original size:8 final size:8
Alignment explanation
Indices: 88815264--88815299 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
88815254 ATATATTTTA
88815264 AAAAATAT
1 AAAAATAT
88815272 AAAAATAT
1 AAAAATAT
*
88815280 AATAATA-
1 AAAAATAT
88815287 AAAAATAT
1 AAAAATAT
88815295 AAAAA
1 AAAAA
88815300 AATTTACCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAAATAT
Found at i:88815292 original size:15 final size:16
Alignment explanation
Indices: 88815267--88815296 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
88815257 TATTTTAAAA
88815267 AATATAAAAATATAAT
1 AATATAAAAATATAAT
88815283 AATA-AAAAATATAA
1 AATATAAAAATATAA
88815297 AAAAATTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AATATAAAAATATAAT
Found at i:88815905 original size:3 final size:3
Alignment explanation
Indices: 88815885--88815919 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
88815875 CTCTACTTTA
*
88815885 ATT ATTT ATT ATT GTT ATT ATT ATT ATT ATT ATT A
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
88815920 CTTCTAATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:88816468 original size:20 final size:21
Alignment explanation
Indices: 88816443--88816481 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
88816433 TTTTGTACTA
*
88816443 TATTATT-TTATTAGTTTTGC
1 TATTATTAATATTAGTTTTGC
88816463 TATTATTAATATTAGTTTT
1 TATTATTAATATTAGTTTT
88816482 AGTTTCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.64
Consensus pattern (21 bp):
TATTATTAATATTAGTTTTGC
Found at i:88826760 original size:73 final size:72
Alignment explanation
Indices: 88826631--88827237 Score: 730
Period size: 73 Copynumber: 8.2 Consensus size: 72
88826621 CTGATGTTTT
* * *
88826631 ATTTATGTTTTCAAAAATCAACTCATTTTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
88826696 AATTTCA
66 AATTTCA
* *
88826703 ATTTCTGTTTGTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
1 ATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
*
88826768 TATTTTCA
65 TAATTTCA
* *
88826776 ATTTCTGGTTTTCAAAAAAATCAGCTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCT-GTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*
88826841 GGTAATTTTA
63 GGTAATTTCA
* * * *
88826851 ATTTTTGTCTGTCAAAAATTAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGG-CACGCTGAG
1 ATTTCTGT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAG
*
88826915 GTATTTTCA
64 GTAATTTCA
* *
88826924 ATTTCTAGTTTTAAAAAAAATATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 ATTTCT-GTTTT----CAAA-A-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
88826989 CTGAGGTATTTTCA
59 CTGAGGTAATTTCA
* * *
88827003 ATTTCTAGTTTTCAAAAAAAATCAGCTCATATTGCGATAGGTGAGTTGAGCCTCAGGACATGCTG
1 ATTTCT-GTTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
88827068 AGGTAATTTCA
62 AGGTAATTTCA
* * * * **
88827079 ATTTTTGTTTGACAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCATGACACATTGAGG
1 ATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
*
88827144 TAATTTTA
65 TAATTTCA
* * *
88827152 ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAAGACACGTTGA
1 ATTTCTG-TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
* *
88827217 GATATTTTCA
63 GGTAATTTCA
88827227 ATTTCTGTTTT
1 ATTTCTGTTTT
88827238 TCAATTTTTG
Statistics
Matches: 466, Mismatches: 48, Indels: 40
0.84 0.09 0.07
Matches are distributed among these distances:
72 9 0.02
73 183 0.39
74 18 0.04
75 126 0.27
76 57 0.12
77 4 0.01
78 7 0.02
79 62 0.13
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.33
Consensus pattern (72 bp):
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
AATTTCA
Found at i:88826911 original size:148 final size:148
Alignment explanation
Indices: 88826643--88829634 Score: 1158
Period size: 148 Copynumber: 19.3 Consensus size: 148
88826633 TTATGTTTTC
* * * *
88826643 AAAAATCAACTCATTTTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTT
* *
88826708 TGTTTGTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
66 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTT
88826773 TCAATTTCTGGTTTTCAA
131 TCAATTTCTGGTTTTCAA
* *
88826791 AAAAATCAGCTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTT
* * *
88826856 TGTCTGTCAAAAATTAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGGCACGCTGAGGTATTT
66 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTT
* *
88826921 TCAATTTCTAGTTTTAAAAA
131 TCAATTTCTGGTTTT--CAA
*
88826941 AAATATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT-ATTTTCAAT
1 AAA-A-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AAT
* * * *
88827005 TTCTAGTTT-TCAAAAAAAATCAGCTCATATTGCGATAGGTGAGTTGAGCCTC-AGGACATGCTG
63 TT-TTGTTTGTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGCTG
* * * *
88827068 AGGTAATTTCAATTT-TTG-TTTGAC
123 AGGTATTTTCAATTTCTGGTTTTCAA
* * ** *
88827092 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCATGACACATTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTT
* * * * *
88827157 TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAAGACACGTTGAGATAT
66 TGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTAT
*
88827222 TTTCAATTTCTGTTTTTCAA
129 TTTCAATTTCTGGTTTTCAA
* ** * ** * * * * * * * *
88827242 TTTTTGCCTTACAAATTCTGCTTTTCAAATCAACTCATA-TTGCG-AGAG-GTGAGTTGA-GC-C
1 ----------A-AAAATCAAC---TCATAT-TGC-GAGAGGTGAGTTGAGCCTCAG--GACACGC
* ** * * * ****** * * * * * * * * *
88827302 TCAGG-ACACGCTGAGGTATTTTCAATTTTCGTTTTTTTTTAATTTATGTTTCAAAAAAGAATCA
48 TGAGGTA-A-TTTTA-AT-TTTT---GTTT-GTCAAAAATCAACTCATATTGC--GAGAG-GTGA
** * *** * * * * * *** ** **
88827366 ACTCATTTTGCGAGAAGTAAGTTGAGCCTCA-AGACACGTTGAGGTATTTTCAATTTCTGTCTTT
102 GTTGAGCCT-C-A-AGGCACGCTGAG-GT-ATTTTCAATTTCTGG--TTTT--------------
88827430 CAA
146 CAA
* * *
88827433 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA--AGACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTT
* * *
88827496 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGCTATTT
66 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTT
88827561 TCAATTTCT-GTCTTTCAA
131 TCAATTTCTGGT-TTTCAA
* * *
88827579 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGACGCTGAGGTGATTTCCATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-A-----A----
* * *
88827642 TGTTCTTTAATTTCTGTTTTTCAAAAACATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TAG
56 ---T-TTTAATTTTTGTTTGTC-AAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
* *
88827706 GACACGCTGAGGTAATTTCAATTT-TTGTTTGTC--
115 G-CACGCTGAGGTATTTTCAATTTCTGGTTT-TCAA
* * *
88827739 AAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTT
* * *
88827803 CTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTC-AGGACACGCTGAGGT
65 TTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGCTGAGGT
* *
88827867 AATTTCAATTT-TTGTTTGTC--
127 ATTTTCAATTTCTGGTTT-TCAA
* *
88827887 AAAAATCAACTCCTATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGT-ATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTT
* * * * *
88827951 CTGGTTT-TAAAAAAAAATATCAACTCATATTGCGAGAGGTGGGTTGAGTCTCAGGGCACGCTGA
65 -TTGTTTGT----CAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGA
88828015 GGTATTTTCAATTTCTGGTTTTCAAA
124 GGTATTTTCAATTTCTGGTTTTC-AA
* *
88828041 AAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTT
* * **
88828106 TGTTTGTCAAAAATCAACTAATATTGCGAGAAGTGAGTTGAGCCTC-AGGACACATTGAGGTAAT
66 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGCTGAGGT-AT
*
88828170 TTT-AATTTCTGTTTTTCAA
129 TTTCAATTTCTGGTTTTCAA
* * *
88828189 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTAAGAT-ATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTT
* * *** *** * **** * ** * ** * * *
88828253 CTGTTTTTCAATTTTTTCCTTACAAATT-CTG-CTTTTCAAATCA-AATCATATTGCGAGAGGTG
65 TTGTTTGTCAAAAATCAAC-T-CATATTGC-GAGAGGTGAGTTGAGCCTCA-A-GGC-A-CGCTG
* *** ***
88828315 AGTTGAGCCTCAGGACACGCTGAGATATTTTCAA
123 AGGT-ATTTTCA--A-TTTCTG-G---TTTTCAA
**** * * * * * **** ** * * * * *
88828349 TTTTCATTTTTTAAATTTATGTTTC-A-AAAAAAAATCA-ACTCATATTGCGAGAAG-TGAGTTG
1 -----A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--A--G-GACACGCTGAGGT-
* *** *** * *
88828410 AGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAG
54 A--AT-TTTA-A--TTTTTGT-TTGTC-A---------------AAAATCAACTCATATTGCGAG
* * *
88828475 AGGTGAGTTGAACCTCAA-G-ACGCTGAGGTAATTTCAATTT-TTGTTTGTC--
96 AGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCAATTTCTGGTTT-TCAA
* * ** *
88828524 AAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCAATACACGTTGAGGT-ATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTT
* * * * *
88828588 CTGTCTT-TCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAA--TACGCAGAGGT
65 TTGT-TTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGA-G-
*
88828650 GTTTTCCATTTCTGTTCTTCAATTTCTGTTTTTCAA
125 G---T--A------TT-TTCAATTTCTGGTTTTCAA
* * *
88828686 AAACATCAACTCATATTGCGAGAGCTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTT
* * * *
88828751 TGTTTGTCAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAAGACACGTTGAGGTATTT
66 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTT
*
88828816 TCAATTTCTGTTTTTCAA
131 TCAATTTCTGGTTTTCAA
* * * *
88828834 AAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGG-GACGTTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTT
* ** *
88828898 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAAGTATTT
66 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTT
* ** *
88828963 TCAA-TT-T-ATCATAAA
131 TCAATTTCTGGTTTTCAA
* * * *
88828978 AAAAATCAGCTCATATTGTGAAAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAATCCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAAT----TTT
** * * * * * *
88829043 CCGTTTGTCAATTTATTTTTCAAAAAACCAACTTATATTGCGAGGGGTGAGTTGAGCCT--TGGC
60 ---AAT-T---TTTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-
* * ***
88829106 TCACG-TGTTGAGTCACTTTCAATTTCTGTTTTTATGTCTGTTTTT
116 -CACGCTG-AG-GT-ATTTTCAATTTCTG-------GT-T-TTCAA
** * * *
88829151 TTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTT
**
88829216 TGTCTT-TCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGGACACGCTGA
66 TGT-TTGTC-----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGCTGA
* *
88829279 GATAATTTT-TATTTCT-G-TTTC--
124 GGT-ATTTTCAATTTCTGGTTTTCAA
* * * ** * *
88829300 AAAATTCAACTCATACTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTT
* * * * * * *
88829364 CTGTCTT-TCAAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTTAAGACACGTTGAGG
65 TTGT-TTGTC--AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGG
88829428 TATTTTCAATTTCT-GTCTTTC-A
126 TATTTTCAATTTCTGGT-TTTCAA
* * * * *
88829450 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTT
*
88829515 TGTCTT-TCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGTTGAGGT
66 TGT-TTGTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGCTGAGGT
* *
88829578 AATTTTGAA-CTCT-GTTTTC--
127 -ATTTTCAATTTCTGGTTTTCAA
* * *
88829597 GAAAATCAACTCAAATTGCGAGAGGTGAGTGGAGCCTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
88829635 GAATCACATT
Statistics
Matches: 2152, Mismatches: 445, Indels: 495
0.70 0.14 0.16
Matches are distributed among these distances:
144 41 0.02
145 1 0.00
146 112 0.05
147 186 0.09
148 474 0.22
149 233 0.11
150 103 0.05
151 75 0.03
152 69 0.03
153 14 0.01
154 63 0.03
155 62 0.03
156 3 0.00
157 2 0.00
158 10 0.00
159 40 0.02
160 117 0.05
161 41 0.02
162 142 0.07
163 30 0.01
164 59 0.03
165 15 0.01
166 19 0.01
167 12 0.01
168 18 0.01
169 22 0.01
170 10 0.00
171 29 0.01
172 5 0.00
173 40 0.02
174 14 0.01
175 16 0.01
176 15 0.01
177 14 0.01
178 2 0.00
179 1 0.00
180 7 0.00
181 1 0.00
182 1 0.00
184 4 0.00
185 6 0.00
186 1 0.00
188 1 0.00
189 6 0.00
190 7 0.00
191 9 0.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (148 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTT
TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTT
TCAATTTCTGGTTTTCAA
Found at i:88827465 original size:75 final size:74
Alignment explanation
Indices: 88827337--88828259 Score: 796
Period size: 75 Copynumber: 12.2 Consensus size: 74
88827327 TTTTCGTTTT
* * * * *
88827337 TTTTTAATTTATG-TTTCAAAAAAGAATCAACTCATTTTGCGAGAAGTAAGTTGAGCCTCAAGAC
1 TTTTCAATTTCTGTTTTC-AAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
*
88827401 ACGTTGAGGTA
64 ACGCTGAGGTA
*
88827412 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAG--A
1 TTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
88827475 CGCTGAGGTA
65 CGCTGAGGTA
* *
88827485 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* *
88827548 CGTTGAGCTA
65 CGCTGAGGTA
* *
88827558 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--A
1 TTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
88827621 CGCTGAGGTGA
65 CGCTGAGGT-A
* * ***** * * * *
88827632 -TTTCCATTTCTGTTCTTTAATTTCTGTTTTTCAAAAACATCA-ACT-C-ATATTGCGAGAGGTG
1 TTTTCAATTTCTGTT-TTCAA-----AAAAATC---AAC-TCATATTGCGAGA--G-GTGAGTTG
** * * *
88827693 AG--TTGAGCCTTAGGAC--ACGCTGA
53 AGCCTCAAGAC--ACG-CTGA-GGT-A
** *
88827716 -GGT-AATTTCAATTTTTGTTTGTC--AAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TTTTCAATTTC------TGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
88827777 AAGACACGTTGAGGTA
59 AAGACACGCTGAGGTA
* *
88827793 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
88827858 CGCTGAGGTA
65 CGCTGAGGTA
* * * * *
88827868 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCCTATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
88827931 CGCTGAGGTA
65 CGCTGAGGTA
* * * *
88827941 TTTTCAATTTCTGGTTTTAAAAAAAAATATCAACTCATATTGCGAGAGGTGGGTTGAGTCTCAGG
1 TTTTCAATTTCT-GTTTT--CAAAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
*
88828006 GCACGCTGAGGTA
62 ACACGCTGAGGTA
* *
88828019 TTTTCAATTTCTGGTTTTCAAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAATTTCT-GTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
88828084 ACGCTGAGGTA
64 ACGCTGAGGTA
* * * * *
88828095 ATTTCAATTTTTGTTTGTC--AAAAATCAACTAATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
**
88828158 CATTGAGGTAA
65 CGCTGAGGT-A
88828169 TTTT-AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* *
88828233 CGCTAAGATA
65 CGCTGAGGTA
88828243 TTTTCAATTTCTGTTTT
1 TTTTCAATTTCTGTTTT
88828260 TCAATTTTTT
Statistics
Matches: 695, Mismatches: 92, Indels: 123
0.76 0.10 0.14
Matches are distributed among these distances:
71 40 0.06
72 3 0.00
73 194 0.28
74 29 0.04
75 205 0.29
76 63 0.09
77 15 0.02
78 83 0.12
79 15 0.02
80 9 0.01
81 7 0.01
82 12 0.02
83 6 0.01
84 7 0.01
85 1 0.00
88 1 0.00
89 5 0.01
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (74 bp):
TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
GCTGAGGTA
Found at i:88828481 original size:75 final size:75
Alignment explanation
Indices: 88828376--88829706 Score: 847
Period size: 75 Copynumber: 17.5 Consensus size: 75
88828366 TATGTTTCAA
*
88828376 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
88828441 TCTGTCTTTC
66 TCTGTCTTTC
* * * *
88828451 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
*
88828514 TTTGT-TTGTC
66 TCTGTCTT-TC
* * *
88828524 --AAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCAATACACGTTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
88828587 TCTGTCTTTC
66 TCTGTCTTTC
* * * ** * *
88828597 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTC-A-ATACGCAGAGGTGTTTTCCATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
88828660 TCTGT-TCTTC
66 TCTGTCT-TTC
***** * * * * ** * * ***
88828670 AATTTCTGTTTTTCAAAAACATCA-ACT-C-ATATTGCGAGAGCTGAG--TTGAGCCTCAGGACA
1 AA-----AAAAATC---AAC-TCATATTGCGAGA--G-GTGAGTTGAGCCTCAAGACAC-GTTGA
* ** ** *
88828730 CGCTGAGGTAATTTCAATTTTTGT-TTGTC
53 -GGT-A--TTTTCA--ATTTCTGTCTT-TC
* *
88828759 --AAAACTCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAAGACACGTTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
*
88828822 TCTGTTTTTC
66 TCTGTCTTTC
* ** *
88828832 AAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTC-AGGGACGTTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
*
88828896 TTTGT-TTGTC
66 TCTGTCTT-TC
* *
88828906 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAAGTATTTTCAA-T
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
* * *
88828968 T-TATC-ATA
66 TCTGTCTTTC
* * * ** * * *
88828976 AAAAAAATCAGCTCATATTGTGAAAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-ATCCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACGTTGAGGTATTTTCAA
88829040 TTTCCGTTTGTCAATTT-
64 TTT-C---TGTC--TTTC
* * * ** *
88829057 ATTTTTCAAAAAACCAACTTATATTGCGAGGGGTGAGTTGAGCCT-TGGCTCACGTGTTGA-GTC
1 A------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACAC--GTTGAGGT-
* *
88829120 ACTTTCAATTTCTGTTTTTATGTCTGTTT
56 ATTTTCAATTTC--------TGTCT-TTC
**** * * * *
88829149 TTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
88829214 TCTGTCTTTC
66 TCTGTCTTTC
*** * *
88829224 AAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGATAATTTT-
1 ---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTC
*
88829288 TATTTCTG--TTTC
62 AATTTCTGTCTTTC
* * * **
88829300 --AAAATTCAACTCATACTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
88829363 TCTGTCTTTC
66 TCTGTCTTTC
* * * *
88829373 AAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTTAAGACACGTTGAGGTATTTTCAAT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAAT
88829438 TTCTGTCTTTC
65 TTCTGTCTTTC
* ** *
88829449 -AAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
88829513 TCTGTCTTTC
66 TCTGTCTTTC
* * *
88829523 AAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTTGAA-
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAAT
*
88829587 CTCTGT-TTTC
65 TTCTGTCTTTC
* * * * *
88829597 --GAAAATCAACTCAAATTGCGAGAGGTGAGTGGAGCCTCGAA-TCACATTTCGAGGTATTTTTT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AAGACAC-GTT-GAGGTA--TTTT
* **
88829659 CAAATTAAG--TTTC
61 CAATTTCTGTCTTTC
* *
88829672 --AAAAACCAACTCATATTGCGAGAAGTGAGTTGAGC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
88829707 TTGGCTCACA
Statistics
Matches: 987, Mismatches: 179, Indels: 180
0.73 0.13 0.13
Matches are distributed among these distances:
70 6 0.01
71 88 0.09
72 115 0.12
73 115 0.12
74 113 0.11
75 217 0.22
76 83 0.08
77 1 0.00
78 69 0.07
79 17 0.02
80 8 0.01
81 9 0.01
82 14 0.01
83 3 0.00
84 17 0.02
85 6 0.01
86 38 0.04
87 42 0.04
88 8 0.01
89 10 0.01
90 1 0.00
91 2 0.00
92 5 0.01
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
TCTGTCTTTC
Found at i:88828938 original size:72 final size:73
Alignment explanation
Indices: 88828667--88829053 Score: 429
Period size: 73 Copynumber: 5.3 Consensus size: 73
88828657 ATTTCTGTTC
* * *
88828667 TTCAATTTCTGTTTTTCAAAAACATCAACTCATATTGCGAGAGCTGAGTTGAGCCTCAGGACACG
1 TTCAATTTCTGTTTGTC-AAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
*
88828732 CTGAGGTAAT
64 TTGAGGTAAT
* * *
88828742 TTCAATTTTTGTTTGTCAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAAGACACGTT
1 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
*
88828807 GAGGTATT
66 GAGGTAAT
* * **
88828815 TTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTC-AGGGACG
1 TTCAATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
88828879 TTGAGGTAAT
64 TTGAGGTAAT
* *
88828889 TTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATT
1 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
* *
88828954 GAAGTATT
66 GAGGTAAT
* ** *** * * * **
88828962 TTCAATTTAT-CATAAAAAAAATCAGCTCATATTGTGAAAGGTGAGTTGAGCCTCGGGTCACACG
1 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACG
*
88829026 CTGAGGTAA-
64 TTGAGGTAAT
* *
88829035 TCCAATTTCCGTTTGTCAA
1 TTCAATTTCTGTTTGTCAA
88829054 TTTATTTTTC
Statistics
Matches: 259, Mismatches: 47, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
72 74 0.29
73 89 0.34
74 46 0.18
75 50 0.19
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (73 bp):
TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
GAGGTAAT
Found at i:88829031 original size:147 final size:148
Alignment explanation
Indices: 88828684--88829583 Score: 616
Period size: 147 Copynumber: 5.9 Consensus size: 148
88828674 TCTGTTTTTC
* * * *
88828684 AAAAACATCAACTCATATTGCGAGAGCTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
* * * *
88828749 TTTGTTTGTCAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAAGACACGTTGAGGTAT
66 TTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAAGTAT
* ** *
88828814 TTTCAATTTCTGTTTTTC
131 TTTCAATTTCTGATCATA
* *
88828832 AAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGG--ACGTTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTC-GGGACACGCTGAGGTAATTTCAAT
88828895 TTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAAGTA
65 TTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAAGTA
88828960 TTTTCAA-TT-T-ATCATA
130 TTTTCAATTTCTGATCATA
* * *
88828976 AAAAAAATCAGCTCATATTGTGAAAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAA-TCCAA
1 AAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGG--ACACGCTGAGGTAATTTCAA
* * * * **
88829040 TTTCCGTTTGTCAATTTATTTTTCAAAAAACCAACTTATATTGCGAGGGGTGAGTTGAGCCT-TG
64 -TT---TTTG--------TTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
* * * * *
88829104 GCTCACGTGTTG-AGTCACTTTCAATTTCTGTTTTTATGTCTGTTT
116 G-ACAC--ATTGAAGT-ATTTTCAATTTCTG-----A--TC--ATA
**** * * *
88829149 TTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
* *** **
88829214 TCTGTCTT-TCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTG
66 TTTGT-TTGTC-----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTG
*
88829278 -AGATAATTTT-TATTTCTG-T--T-
125 AAG-T-ATTTTCAATTTCTGATCATA
** * * ** * *
88829298 TCAAAATTCAACTCATACTGCAAGAAA--TGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGC--GAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAA
* * * * * *
88829361 TTTCTGTCTT-TCAAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTTAAGACACGTTG
64 TTTTTGT-TTGTC--AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTG
* * *
88829425 AGGTATTTTCAATTTCTG-TCTTT
125 AAGTATTTTCAATTTCTGATCATA
* * * ** *
88829448 CAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
* * * *
88829513 TCTGTCTT-TCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGG
66 TTTGT-TTGTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAAG
88829577 TAATTTT
128 T-ATTTT
88829584 GAACTCTGTT
Statistics
Matches: 617, Mismatches: 81, Indels: 106
0.77 0.10 0.13
Matches are distributed among these distances:
143 3 0.00
144 39 0.06
145 1 0.00
146 18 0.03
147 146 0.24
148 41 0.07
149 110 0.18
150 73 0.12
151 3 0.00
154 1 0.00
158 6 0.01
159 37 0.06
160 6 0.01
161 12 0.02
162 14 0.02
163 6 0.01
164 38 0.06
165 2 0.00
168 3 0.00
169 1 0.00
171 18 0.03
172 4 0.01
173 35 0.06
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (148 bp):
AAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
TTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAAGTAT
TTTCAATTTCTGATCATA
Found at i:88829405 original size:76 final size:75
Alignment explanation
Indices: 88829153--88829634 Score: 570
Period size: 76 Copynumber: 6.5 Consensus size: 75
88829143 CTGTTTTTTT
* * *
88829153 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTG
88829218 TCTTTCAAAAAAA
66 TCTTTC---AAAA
*** * *
88829231 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGATAATTTT-TATTTCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTTCT
88829295 G--TTTC--AA
65 GTCTTTCAAAA
* * * ** *
88829302 AATTCAACTCATACTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTG
88829367 TCTTTCAAAA
66 TCTTTCAAAA
* * * * *
88829377 AAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTTAAGACACGTTGAGGTATTTTCAATTTCT
1 AAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT
88829442 GTCTTTC-AAA
65 GTCTTTCAAAA
* * *
88829452 AAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTG
88829517 TCTTTCAAAA
66 TCTTTCAAAA
* * * * *
88829527 TAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTTGAA-CTCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTTCT
*
88829591 GT-TTTC--GA
65 GTCTTTCAAAA
* *
88829599 AAATCAACTCAAATTGCGAGAGGTGAGTGGAGCCTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
88829635 GAATCACATT
Statistics
Matches: 355, Mismatches: 40, Indels: 24
0.85 0.10 0.06
Matches are distributed among these distances:
70 5 0.01
71 50 0.14
72 34 0.10
73 4 0.01
74 64 0.18
75 64 0.18
76 76 0.21
78 54 0.15
79 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (75 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTG
TCTTTCAAAA
Found at i:88829449 original size:149 final size:147
Alignment explanation
Indices: 88829153--88829634 Score: 646
Period size: 149 Copynumber: 3.2 Consensus size: 147
88829143 CTGTTTTTTT
* *
88829153 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG
* * *
88829218 TCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGATA
66 TCTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGTTGAGGTA
*
88829283 ATTTTTATTTCTG-TTTCAA
128 ATTTTAATTTCTGTTTTCAA
* * * ** * *
88829302 AATTCAACTCATACTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG
* * * *
88829367 TCTTTCAAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTTAAGACACGTTGAGGT-AT
66 TCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGTTGAGGTAAT
88829431 TTTCAATTTCTGTCTTTCAAA
130 TTT-AATTTCTGT-TTTC-AA
* *
88829452 AAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG
* *
88829517 TCTTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATT
66 TCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGTTGAGGTAATT
* *
88829582 TTGAA-CTCTGTTTTCGA
131 TT-AATTTCTGTTTTCAA
* *
88829599 AAATCAACTCAAATTGCGAGAGGTGAGTGGAGCCTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
88829635 GAATCACATT
Statistics
Matches: 289, Mismatches: 38, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
146 12 0.04
147 82 0.28
148 4 0.01
149 114 0.39
150 77 0.27
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (147 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG
TCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGTTGAGGTAATT
TTAATTTCTGTTTTCAA
Found at i:88829651 original size:149 final size:145
Alignment explanation
Indices: 88829153--88829706 Score: 584
Period size: 147 Copynumber: 3.7 Consensus size: 145
88829143 CTGTTTTTTT
*
88829153 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACAC-GCTGAGGTAATTTCAATTTCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--ACACAGCTGAGGTAATTTCAATTTCT
* * * *
88829217 GTCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGAT
64 GTCTTTC---AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGACACGTTGAGGT
* *
88829282 AATTTTTATTTCTG-TTTCA
126 AATTTTCAATTCTGTTTTCA
* * ** * * *
88829301 AAATTCAACTCATACTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACA-GCTGAGGTAATTTCAATTTCT
* * *
88829366 GTCTTTCAAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTTAAGACACGTTGAGGT-A
64 GTCTTTCAAAAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGACACGTTGAGGTAA
88829430 TTTTCAATTTCTGTCTTTCAAA
128 TTTTCAA-TTCTGT-TTTC--A
*
88829452 AAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACA-CTGAGGTAATTTCAATTTCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-A-ACACAGCTGAGGTAATTTCAATTTCT
* * *
88829516 GTCTTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAAT
64 GTCTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGACACGTTGAGGTAAT
* *
88829581 TTTGAACTCTGTTTTCGA
129 TTTCAATTCTGTTTTC-A
* * ** * *
88829599 AAATCAACTCAAATTGCGAGAGGTGAGTGGAGCCTCGAATCACATTTCGAGGTATTTTTTCAAAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AA-CACAGCT-GAGGTA--ATTTCAATT
** *
88829664 TAAG--TTTC--AAAAACCAACTCATATTGCGAGAAGTGAGTTGAGC
61 TCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
88829707 TTGGCTCACA
Statistics
Matches: 343, Mismatches: 46, Indels: 35
0.81 0.11 0.08
Matches are distributed among these distances:
146 14 0.04
147 120 0.35
148 8 0.02
149 117 0.34
150 66 0.19
151 14 0.04
152 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (145 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACAGCTGAGGTAATTTCAATTTCTGT
CTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGACACGTTGAGGTAATTT
TCAATTCTGTTTTCA
Found at i:88829693 original size:147 final size:142
Alignment explanation
Indices: 88829153--88829706 Score: 549
Period size: 149 Copynumber: 3.7 Consensus size: 142
88829143 CTGTTTTTTT
* ** *
88829153 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--ACACATTGAGGTATTTTCAATTTCTG
* * * *
88829218 TCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGATA
64 -CTTTC----AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGACACGTTGAGGTA
* *
88829283 ATTTTTATTTCTG-TTTCA
124 ATTTTCAATTCTGTTTTCA
* * ** *
88829301 AAATTCAACTCATACTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-A-ACACATTGAGGTATTTTCAATTTCT
* * *
88829366 GTCTTTCAAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTTAAGACACGTTGAGGT-A
63 G-CTTTC-AAAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGACACGTTGAGGTAA
88829430 TTTTCAATTTCTGTCTTTCAAA
125 TTTTCAA-TTCTGT-TTTC--A
* * *
88829452 AAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-A-ACACATTGAGGTATTTTCAATTTCTG
* *
88829517 TCTTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATT
64 -CTTTCAAAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGACACGTTGAGGTAATT
* *
88829582 TTGAACTCTGTTTTCGA
127 TTCAATTCTGTTTTC-A
* * *
88829599 AAATCAACTCAAATTGCGAGAGGTGAGTGGAGCCTCGAATCACATTTCGAGGTATTTTTTCAAAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AA-CACA-TT-GAGGTA--TTTTCAATT
** *
88829664 TAAG-TTTC-AAAAACCAACTCATATTGCGAGAAGTGAGTTGAGC
60 TCTGCTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
88829707 TTGGCTCACA
Statistics
Matches: 348, Mismatches: 43, Indels: 31
0.82 0.10 0.07
Matches are distributed among these distances:
146 14 0.04
147 115 0.33
148 11 0.03
149 125 0.36
150 70 0.20
151 13 0.04
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (142 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACATTGAGGTATTTTCAATTTCTGCT
TTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGGACACGTTGAGGTAATTTTCA
ATTCTGTTTTCA
Found at i:88829748 original size:13 final size:13
Alignment explanation
Indices: 88829724--88829757 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
88829714 ACACGCTGAG
*
88829724 CTATTTTCAATTT
1 CTATTTTTAATTT
*
88829737 CTGTTTTTAATTT
1 CTATTTTTAATTT
88829750 CTATTTTT
1 CTATTTTT
88829758 TAAAGAGTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.03, T:0.68
Consensus pattern (13 bp):
CTATTTTTAATTT
Found at i:88831241 original size:5 final size:5
Alignment explanation
Indices: 88831231--88831256 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
88831221 TTTTGAGCCT
88831231 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
88831257 TCCAAACTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:88832149 original size:21 final size:20
Alignment explanation
Indices: 88832115--88832153 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
88832105 TTTTGTACTA
*
88832115 TATTATTTTATTAGTTTTGC
1 TATTATTGTATTAGTTTTGC
88832135 TATTATTAGTATTAGTTTT
1 TATTATT-GTATTAGTTTT
88832154 AGTTTCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.64
Consensus pattern (20 bp):
TATTATTGTATTAGTTTTGC
Found at i:88833435 original size:9 final size:9
Alignment explanation
Indices: 88833421--88833477 Score: 75
Period size: 9 Copynumber: 6.7 Consensus size: 9
88833411 CAAATGAAAA
88833421 TTAATGTTT
1 TTAATGTTT
*
88833430 TTAATG-AT
1 TTAATGTTT
88833438 TTAAT-TTT
1 TTAATGTTT
*
88833446 TTAATG-AT
1 TTAATGTTT
88833454 TTAATGTTT
1 TTAATGTTT
88833463 TTAATGTTT
1 TTAATGTTT
88833472 TTAATG
1 TTAATG
88833478 ATTTAAACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
8 19 0.46
9 22 0.54
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (9 bp):
TTAATGTTT
Found at i:88833442 original size:8 final size:8
Alignment explanation
Indices: 88833429--88833483 Score: 56
Period size: 8 Copynumber: 6.6 Consensus size: 8
88833419 AATTAATGTT
88833429 TTTAATGA
1 TTTAATGA
**
88833437 TTTAATTT
1 TTTAATGA
88833445 TTTAATGA
1 TTTAATGA
*
88833453 TTTAATGTT
1 TTTAATG-A
*
88833462 TTTAATGTT
1 TTTAATG-A
88833471 TTTAATGA
1 TTTAATGA
88833479 TTTAA
1 TTTAA
88833484 ACTTAGTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
8 24 0.60
9 16 0.40
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (8 bp):
TTTAATGA
Found at i:88833448 original size:16 final size:17
Alignment explanation
Indices: 88833421--88833468 Score: 89
Period size: 16 Copynumber: 2.9 Consensus size: 17
88833411 CAAATGAAAA
88833421 TTAATGTTTTTAATGAT
1 TTAATGTTTTTAATGAT
88833438 TTAAT-TTTTTAATGAT
1 TTAATGTTTTTAATGAT
88833454 TTAATGTTTTTAATG
1 TTAATGTTTTTAATG
88833469 TTTTTAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 16 0.53
17 14 0.47
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.60
Consensus pattern (17 bp):
TTAATGTTTTTAATGAT
Found at i:88833498 original size:26 final size:25
Alignment explanation
Indices: 88833437--88833498 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
88833427 TTTTTAATGA
**
88833437 TTTAATTTTTTAATGATTTAATGTT
1 TTTAATTTTTTAATGATTTAAACTT
88833462 TTTAATGTTTTTAATGATTTAAACTT
1 TTTAAT-TTTTTAATGATTTAAACTT
88833488 AGTTTAATTTT
1 --TTTAATTTT
88833499 ATTATTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 6 0.19
26 17 0.53
27 3 0.09
28 6 0.19
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.61
Consensus pattern (25 bp):
TTTAATTTTTTAATGATTTAAACTT
Found at i:88835595 original size:27 final size:27
Alignment explanation
Indices: 88835565--88835887 Score: 309
Period size: 27 Copynumber: 12.0 Consensus size: 27
88835555 GTACTCTCGA
* *
88835565 TTTACAGAATTACTGTTTTACCCTTAG
1 TTTACAGAATTACTATTTTACCCTCAG
88835592 TTTACAGAATTACTATTTTACCCTC-G
1 TTTACAGAATTACTATTTTACCCTCAG
* ** *
88835618 ATTTATAGAATTACCGTTTTATCCTCAG
1 -TTTACAGAATTACTATTTTACCCTCAG
*
88835646 TTTACAGAATTACCATTTTACCCTC-G
1 TTTACAGAATTACTATTTTACCCTCAG
* *
88835672 ATTTATAGAATTACCATTTTACCCTCAG
1 -TTTACAGAATTACTATTTTACCCTCAG
88835700 TTTACAGAATTACTATTTTACCCTC-G
1 TTTACAGAATTACTATTTTACCCTCAG
* *
88835726 ATTTACAGAATTACTGTTTTACCCTCAA
1 -TTTACAGAATTACTATTTTACCCTCAG
** * *
88835754 TTTGTAAAATTACTATTTTACCCTCGAT
1 TTTACAGAATTACTATTTTACCCTC-AG
** *
88835782 TTGTA-A-AATTACCGTTTTACCCTCAA
1 TT-TACAGAATTACTATTTTACCCTCAG
* * ** *
88835808 TTTATAGAATTATTGGTTTACCCTCGG
1 TTTACAGAATTACTATTTTACCCTCAG
* *
88835835 TTTACAAAATTA-TCGTTTTACCCTC-G
1 TTTACAGAATTACT-ATTTTACCCTCAG
88835861 ATTTACAGAATTACTATTTTACCCTCA
1 -TTTACAGAATTACTATTTTACCCTCA
88835888 ATTGTGAAAT
Statistics
Matches: 249, Mismatches: 33, Indels: 27
0.81 0.11 0.09
Matches are distributed among these distances:
25 2 0.01
26 9 0.04
27 230 0.92
28 7 0.03
29 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (27 bp):
TTTACAGAATTACTATTTTACCCTCAG
Found at i:88835603 original size:54 final size:54
Alignment explanation
Indices: 88835560--88835886 Score: 395
Period size: 54 Copynumber: 6.1 Consensus size: 54
88835550 CCAAAGTACT
* * *
88835560 CTCGATTTACAGAATTACTGTTTTACCCTTAGTTTACAGAATTACTATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACC
* *
88835614 CTCGATTTATAGAATTACCGTTTTATCCTCAGTTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACC
* * *
88835668 CTCGATTTATAGAATTACCATTTTACCCTCAGTTTACAGAATTACTATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACC
* * ** * *
88835722 CTCGATTTACAGAATTACTGTTTTACCCTCAATTTGTAAAATTACTATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACC
** * * * ****
88835776 CTCGATTTGTAAAATTACCGTTTTACCCTCAATTTATAGAATTATTGGTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACC
* * * *
88835830 CTCGGTTTACAAAATTATCGTTTTACCCTC-GATTTACAGAATTACTATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCAG-TTTACAGAATTACCATTTTACC
88835884 CTC
1 CTC
88835887 AATTGTGAAA
Statistics
Matches: 239, Mismatches: 33, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
54 239 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (54 bp):
CTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCATTTTACC
Found at i:88835888 original size:81 final size:81
Alignment explanation
Indices: 88835564--88835890 Score: 370
Period size: 81 Copynumber: 4.0 Consensus size: 81
88835554 AGTACTCTCG
* * * *
88835564 ATTTACAGAATTACTGTTTTACCCTTAGTTTACAGAATTACTATTTTACCCTCGATTTATAGAAT
1 ATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAGAAT
* *
88835629 TACCGTTTTATCCTCA
66 TACCATTTTACCCTCA
* ** * * * *
88835645 GTTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTC-AGTTTACAGAA
1 ATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATTACTATTTTACCCTCGA-TTTACAGAA
* *
88835709 TTACTATTTTACCCTCG
65 TTACCATTTTACCCTCA
** ** *
88835726 ATTTACAGAATTACTGTTTTACCCTCAATTTGTAAAATTACTATTTTACCCTCGATTTGTAAAAT
1 ATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAGAAT
*
88835791 TACCGTTTTACCCTCA
66 TACCATTTTACCCTCA
* * * ** *
88835807 ATTTATAGAATTATTGGTTTACCCTCGGTTTACAAAATTA-TCGTTTTACCCTCGATTTACAGAA
1 ATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATTACT-ATTTTACCCTCGATTTACAGAA
*
88835871 TTACTATTTTACCCTCA
65 TTACCATTTTACCCTCA
88835888 ATT
1 ATT
88835891 GTGAAATTAC
Statistics
Matches: 204, Mismatches: 39, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
80 2 0.01
81 201 0.99
82 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.42
Consensus pattern (81 bp):
ATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAGAAT
TACCATTTTACCCTCA
Found at i:88835933 original size:27 final size:27
Alignment explanation
Indices: 88835903--88836089 Score: 221
Period size: 27 Copynumber: 6.9 Consensus size: 27
88835893 GAAATTACTA
88835903 AAATACCCTTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * **
88835930 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCTTGTAGGGTAGAATTACCG
* *
88835957 AAATACCCTTATAGGGTAGAATTATCG
1 AAATACCCTTGTAGGGTAGAATTACCG
** *
88835984 AAATACCCCCGTAGGGTAGAATTATCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * *
88836011 AAATACCTTTGTAGGGTAGAAATACTG
1 AAATACCCTTGTAGGGTAGAATTACCG
*
88836038 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * * *
88836065 AGATACCTTTGTGGGGTAAAATTAC
1 AAATACCCTTGTAGGGTAGAATTAC
88836090 TATTTTGCCC
Statistics
Matches: 134, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 134 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAATTACCG
Found at i:88835964 original size:54 final size:54
Alignment explanation
Indices: 88835895--88836089 Score: 248
Period size: 54 Copynumber: 3.6 Consensus size: 54
88835885 TCAATTGTGA
*
88835895 AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
1 AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
88835949 AATTACTAAAATACCCTTATAGGGTAGAATTATCGAAATACCCCCGTAGGGTAG
1 AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
88836003 AATTA-TCGAAATACCTTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAG
1 AATTACT-AAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
** * * * *
88836057 AATTACCGAGATACCTTTGTGGGGTAAAATTAC
1 AATTACTAAAATACCCTTGTAGGGTAGAATTAC
88836090 TATTTTGCCC
Statistics
Matches: 123, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 122 0.99
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:88836770 original size:27 final size:27
Alignment explanation
Indices: 88836740--88836841 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
88836730 ATTCTGTTAA
* *
88836740 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
88836767 GTGGCTATGCCATAAATATCTG-TTCTG
1 GTGGCTCTGCCA-CAATATCTGTTTCTG
*
88836794 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
88836821 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
88836842 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.12
27 50 0.77
28 7 0.11
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:88837031 original size:19 final size:19
Alignment explanation
Indices: 88836990--88837033 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
88836980 CTGATTTTTT
* * *
88836990 ATTCTGTTACCTGATACTG
1 ATTCTGTCACCTAATACTA
*
88837009 ATTCTGTCACCTAATTCTA
1 ATTCTGTCACCTAATACTA
88837028 ATTCTG
1 ATTCTG
88837034 ATTCTGATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (19 bp):
ATTCTGTCACCTAATACTA
Found at i:88839290 original size:13 final size:14
Alignment explanation
Indices: 88839272--88839303 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
88839262 ATATTATAAA
88839272 TAATTATAAT-GTT
1 TAATTATAATGGTT
88839285 TAATTATAATGGTT
1 TAATTATAATGGTT
88839299 TAATT
1 TAATT
88839304 TGTCGTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (14 bp):
TAATTATAATGGTT
Found at i:88839745 original size:21 final size:21
Alignment explanation
Indices: 88839716--88839767 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
88839706 TAGAGCGGAT
*
88839716 GCAGCAGCGACGGAGGCAGCG
1 GCAGCAGCGACGGAGGCAGAG
* * *
88839737 GCAGTAGCGAGGGAGGTAGAG
1 GCAGCAGCGACGGAGGCAGAG
88839758 GCAGCAGCGA
1 GCAGCAGCGA
88839768 TGGCAGCAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.21, G:0.48, T:0.04
Consensus pattern (21 bp):
GCAGCAGCGACGGAGGCAGAG
Found at i:88840046 original size:31 final size:31
Alignment explanation
Indices: 88840009--88840093 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
88839999 TTTATGCTAC
*
88840009 ATTTGCTATTTTTGGTTGGATTTCATGTTAT
1 ATTTGCTGTTTTTGGTTGGATTTCATGTTAT
88840040 ATTTGCTGTTTTTGGTTGGATTTCATGTTAT
1 ATTTGCTGTTTTTGGTTGGATTTCATGTTAT
*
88840071 ATTTGCTGTTTTTGGTTGAATTT
1 ATTTGCTGTTTTTGGTTGGATTT
88840094 AATGCAGGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.14, C:0.06, G:0.21, T:0.59
Consensus pattern (31 bp):
ATTTGCTGTTTTTGGTTGGATTTCATGTTAT
Found at i:88845007 original size:22 final size:20
Alignment explanation
Indices: 88844979--88845031 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 20
88844969 GTTCGTGTAA
88844979 TTAAATTGTACATTTATATGTT
1 TTAAATTGTACA--TATATGTT
*
88845001 TTAAATTG-A-ATATTTGTT
1 TTAAATTGTACATATATGTT
88845019 TGTAAATTGTACA
1 T-TAAATTGTACA
88845032 ATTGCCATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 8 0.30
19 7 0.26
20 2 0.07
21 2 0.07
22 8 0.30
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (20 bp):
TTAAATTGTACATATATGTT
Found at i:88845200 original size:25 final size:24
Alignment explanation
Indices: 88845172--88845230 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
88845162 TAGCTCAAAT
*
88845172 GAGCTTACCGTTACTCAACTAAGAG
1 GAGCTTACC-TTACTCAACTAAGAA
* * *
88845197 GAGCTTACTCTTATTCAGCTCAGAA
1 GAGCTTAC-CTTACTCAACTAAGAA
88845222 GAGCTTACC
1 GAGCTTACC
88845231 ATTTACAGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 1 0.03
25 27 0.93
26 1 0.03
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (24 bp):
GAGCTTACCTTACTCAACTAAGAA
Found at i:88845602 original size:20 final size:20
Alignment explanation
Indices: 88845577--88845616 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
88845567 TGTTATTTGA
88845577 ACTTACTAAGCTTAAATGCT
1 ACTTACTAAGCTTAAATGCT
88845597 ACTTACTAAGCTTAAATGCT
1 ACTTACTAAGCTTAAATGCT
88845617 TACTCTGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
ACTTACTAAGCTTAAATGCT
Found at i:88848783 original size:21 final size:21
Alignment explanation
Indices: 88848758--88848826 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
88848748 TATAATGATT
88848758 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
88848779 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
88848799 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
88848819 ATTATTAT
1 ATTATTAT
88848827 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:88848839 original size:15 final size:14
Alignment explanation
Indices: 88848813--88848843 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
88848803 TATGGTTTTA
88848813 TATTAGATTATTAT
1 TATTAGATTATTAT
88848827 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
88848842 TA
1 TA
88848844 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:88860449 original size:43 final size:43
Alignment explanation
Indices: 88860382--88860472 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
88860372 AATTTTGTTG
* * * * *
88860382 AAAAAACGCCGCTAAAGGCTAGGACTTTTAGCGGCGCTTATAT
1 AAAAAACGCCACTAAAGACCAGGACTTATAGCAGCGCTTATAT
* *
88860425 AAAAAACGCCACTAAAGACCAGGACTTATAGCAGCGCTTTTTT
1 AAAAAACGCCACTAAAGACCAGGACTTATAGCAGCGCTTATAT
88860468 AAAAA
1 AAAAA
88860473 CTAAAAGTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (43 bp):
AAAAAACGCCACTAAAGACCAGGACTTATAGCAGCGCTTATAT
Found at i:88860541 original size:44 final size:43
Alignment explanation
Indices: 88860473--88860606 Score: 171
Period size: 43 Copynumber: 3.1 Consensus size: 43
88860463 TTTTTAAAAA
* *
88860473 CTAAAAGTCTTGTTCTATAATGGCGTTTTATATAAAAAGCGCCG
1 CTAAAAGTCTTGTTCTTTAGTGGCGTTTT-TATAAAAAGCGCCG
*
88860517 CTAAAAGTCTTGTTCTTTAGTGGCGTTTTT-TAAAAAAGTGCCG
1 CTAAAAGTCTTGTTCTTTAGTGGCGTTTTTAT-AAAAAGCGCCG
* * * * *
88860560 CTAAAAGTCCTGGTCTTTAGCGGCGTTTTTTTAAAAAACGCCG
1 CTAAAAGTCTTGTTCTTTAGTGGCGTTTTTATAAAAAGCGCCG
88860603 CTAA
1 CTAA
88860607 TTTGCCCAGT
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
42 1 0.01
43 51 0.64
44 28 0.35
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (43 bp):
CTAAAAGTCTTGTTCTTTAGTGGCGTTTTTATAAAAAGCGCCG
Found at i:88860567 original size:43 final size:43
Alignment explanation
Indices: 88860473--88860606 Score: 180
Period size: 44 Copynumber: 3.1 Consensus size: 43
88860463 TTTTTAAAAA
* * *
88860473 CTAAAAGTCTTGTTCTATAATGGCGTTTTATATAAAAAGCGCCG
1 CTAAAAGTCTTGTTCTTTAGTGGCGTTTTTTA-AAAAAGCGCCG
*
88860517 CTAAAAGTCTTGTTCTTTAGTGGCGTTTTTTAAAAAAGTGCCG
1 CTAAAAGTCTTGTTCTTTAGTGGCGTTTTTTAAAAAAGCGCCG
* * *
88860560 CTAAAAGTCCTGGTCTTTAGCGGCGTTTTTTTAAAAAA-CGCCG
1 CTAAAAGTCTTGTTCTTTAGTGGCG-TTTTTTAAAAAAGCGCCG
88860603 CTAA
1 CTAA
88860607 TTTGCCCAGT
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
43 40 0.49
44 41 0.51
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (43 bp):
CTAAAAGTCTTGTTCTTTAGTGGCGTTTTTTAAAAAAGCGCCG
Found at i:88866606 original size:19 final size:20
Alignment explanation
Indices: 88866584--88866628 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
88866574 CTGTTTTATT
*
88866584 ATGGGCC-AACTGTATTAAA
1 ATGGGCCTAACTATATTAAA
* *
88866603 ATGGGCCTAACTATGTTAAT
1 ATGGGCCTAACTATATTAAA
88866623 ATGGGC
1 ATGGGC
88866629 AAGACCCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (20 bp):
ATGGGCCTAACTATATTAAA
Found at i:88866791 original size:62 final size:61
Alignment explanation
Indices: 88866621--88866793 Score: 176
Period size: 61 Copynumber: 2.8 Consensus size: 61
88866611 AACTATGTTA
* * * *
88866621 ATATGGGCAAGACCCAATATA-TCTCGA-CTTGTAATAGGGC-TACGGCCCAGACTGATACTG
1 ATATGGGCTAGACCCAGTATACTCT-GATATTGTAATAGGGCTTA-GGCCCAGACTAATACTG
* * * *
88866681 ATATGGGCTAGACCCAGTATGCTTTGATATTGTAATAGGGCTTTGGCCCAGATTAATACTG
1 ATATGGGCTAGACCCAGTATACTCTGATATTGTAATAGGGCTTAGGCCCAGACTAATACTG
* *
88866742 ATATGGGCTAAGGCCCAGT-TAACTCTGAT-TTCTGAATAGGGCTTAGGCCCAG
1 ATATGGGCT-AGACCCAGTAT-ACTCTGATATTGT-AATAGGGCTTAGGCCCAG
88866794 TAAAGCTTGA
Statistics
Matches: 94, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
60 20 0.21
61 42 0.45
62 32 0.34
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (61 bp):
ATATGGGCTAGACCCAGTATACTCTGATATTGTAATAGGGCTTAGGCCCAGACTAATACTG
Found at i:88869938 original size:36 final size:37
Alignment explanation
Indices: 88869861--88869980 Score: 161
Period size: 36 Copynumber: 3.2 Consensus size: 37
88869851 CTATGCAGCA
88869861 GATGCACGGGGCGAAGGCGATGGAGGCCGAGATGGGTTGC
1 GATGCACGGGGCGAAGGCGATGGA-G--GAGATGGGTTGC
* * *
88869901 GATGAACGGTGCGAAGGCGATGGAGG-GATGGTTTGC
1 GATGCACGGGGCGAAGGCGATGGAGGAGATGGGTTGC
*
88869937 GATGCACGGGGAGAAGGCGATGGAGGAGATGGGTTGC
1 GATGCACGGGGCGAAGGCGATGGAGGAGATGGGTTGC
*
88869974 AATGCAC
1 GATGCAC
88869981 AGGGAGATTT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
36 32 0.45
37 16 0.23
39 1 0.01
40 22 0.31
ACGTcount: A:0.23, C:0.14, G:0.47, T:0.15
Consensus pattern (37 bp):
GATGCACGGGGCGAAGGCGATGGAGGAGATGGGTTGC
Found at i:88870832 original size:15 final size:15
Alignment explanation
Indices: 88870809--88870840 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
88870799 AAATAATAAT
88870809 TTATATATATTTATC
1 TTATATATATTTATC
*
88870824 TTATTTATATTTATC
1 TTATATATATTTATC
88870839 TT
1 TT
88870841 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATATATATTTATC
Found at i:88871001 original size:18 final size:17
Alignment explanation
Indices: 88870975--88871008 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
88870965 CACTGTAACC
88870975 CCTAAACCAACCATAAAT
1 CCTAAACC-ACCATAAAT
*
88870993 CCTAGACCACCATAAA
1 CCTAAACCACCATAAA
88871009 GCCCAAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.35, G:0.03, T:0.15
Consensus pattern (17 bp):
CCTAAACCACCATAAAT
Found at i:88874260 original size:4 final size:4
Alignment explanation
Indices: 88874251--88874275 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
88874241 AAAAAGATTA
88874251 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
88874276 GGAAAGGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:88882257 original size:32 final size:31
Alignment explanation
Indices: 88882212--88882329 Score: 102
Period size: 32 Copynumber: 3.8 Consensus size: 31
88882202 TTAATCCCTT
* * *
88882212 ATTTTGAT-TTTTTTATTATTATTTTGTTAA
1 ATTTTTATATTTTTTATAATTATTTTTTTAA
*
88882242 ATTTTTATATATTTTT-T-A-GATTTTTTTAA
1 ATTTTTATAT-TTTTTATAATTATTTTTTTAA
* * *
88882271 ATTTATA-ATTTTTTAAAAATAAATTTTTTTAA
1 ATTTTTATATTTTTT-ATAAT-TATTTTTTTAA
88882303 ATTTTTATATTTTTTATAAATTATTTT
1 ATTTTTATATTTTTTAT-AATTATTTT
88882330 CAAAATTTGA
Statistics
Matches: 70, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
27 5 0.07
28 2 0.03
29 15 0.21
30 9 0.13
31 2 0.03
32 27 0.39
33 10 0.14
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (31 bp):
ATTTTTATATTTTTTATAATTATTTTTTTAA
Found at i:88882264 original size:19 final size:22
Alignment explanation
Indices: 88882221--88882266 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 22
88882211 TATTTTGATT
88882221 TTTTTATTATTATTTTGTTAAA
1 TTTTTATTATTATTTTGTTAAA
*
88882243 TTTTTA-TA-TATTTT-TTAGA
1 TTTTTATTATTATTTTGTTAAA
88882262 TTTTT
1 TTTTT
88882267 TTAAATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 9 0.39
20 6 0.26
21 2 0.09
22 6 0.26
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTTATTATTATTTTGTTAAA
Found at i:88882265 original size:29 final size:26
Alignment explanation
Indices: 88882232--88882285 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 26
88882222 TTTTATTATT
88882232 ATTTTGTTAAATTTTTATATATTTTTTAG
1 ATTTTGTTAAA--TTTATA-ATTTTTTAG
*
88882261 ATTTTTTTAAATTTATAATTTTTTA
1 ATTTTGTTAAATTTATAATTTTTTA
88882286 AAAATAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 8 0.33
27 6 0.25
29 10 0.42
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (26 bp):
ATTTTGTTAAATTTATAATTTTTTAG
Found at i:88882274 original size:19 final size:20
Alignment explanation
Indices: 88882232--88882274 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
88882222 TTTTATTATT
*
88882232 ATTTTGTTAAATTTTTATAT
1 ATTTTGTTAAATTTTTATAA
* *
88882252 ATTTT-TTAGATTTTTTTAA
1 ATTTTGTTAAATTTTTATAA
88882271 ATTT
1 ATTT
88882275 ATAATTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
ATTTTGTTAAATTTTTATAA
Found at i:88882326 original size:16 final size:16
Alignment explanation
Indices: 88882256--88882324 Score: 66
Period size: 16 Copynumber: 4.1 Consensus size: 16
88882246 TTATATATTT
*
88882256 TTTAGATTTTTTTAAA
1 TTTATATTTTTTTAAA
*
88882272 TTTATAATTTTTTAAA
1 TTTATATTTTTTTAAA
** *
88882288 AATAAATTTTTTTAAA
1 TTTATATTTTTTTAAA
88882304 TTTTTATATTTTTTATAAA
1 --TTTATATTTTTT-TAAA
88882323 TT
1 TT
88882325 ATTTTCAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
16 26 0.63
17 2 0.05
18 9 0.22
19 4 0.10
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (16 bp):
TTTATATTTTTTTAAA
Found at i:88893636 original size:53 final size:53
Alignment explanation
Indices: 88893555--88893705 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
88893545 CTTACACGGT
* *
88893555 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
88893610 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
88893663 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
88893706 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:88900672 original size:53 final size:53
Alignment explanation
Indices: 88900591--88900736 Score: 204
Period size: 53 Copynumber: 2.7 Consensus size: 53
88900581 CTTACACGGT
* *
88900591 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACAGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACAGAATCACATTA
* *
88900646 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACAGAATCACATTA
**
88900699 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTA
88900737 AACGGGCACA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 76 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACAGAATCACATTA
Found at i:88902335 original size:44 final size:43
Alignment explanation
Indices: 88902254--88902336 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 43
88902244 TCTGCACTTC
* *
88902254 CTTCCATACTGAGCTAAACGGGTGCCATTCTGCTACTAGTTCG
1 CTTCCATACAGAGCTAAACGGGTGCCATTCTGATACTAGTTCG
*
88902297 CTTCCATACAGAGCTTCAAAC-GGTGCCATTTTGATACTAG
1 CTTCCATACAGAGC-T-AAACGGGTGCCATTCTGATACTAG
88902337 CTTGATAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
43 13 0.37
44 18 0.51
45 4 0.11
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (43 bp):
CTTCCATACAGAGCTAAACGGGTGCCATTCTGATACTAGTTCG
Found at i:88907428 original size:53 final size:53
Alignment explanation
Indices: 88907347--88907497 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
88907337 CTTACACGGT
* *
88907347 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
88907402 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
88907455 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
88907498 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:88908529 original size:8 final size:8
Alignment explanation
Indices: 88908513--88908544 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
88908503 CTAGATCTGT
88908513 AAAAGCCG
1 AAAAGCCG
*
88908521 AAAAACCG
1 AAAAGCCG
88908529 AAAAGCCG
1 AAAAGCCG
88908537 AAAAGCCG
1 AAAAGCCG
88908545 GCATGTGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.53, C:0.25, G:0.22, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:88908822 original size:27 final size:27
Alignment explanation
Indices: 88908791--88908851 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
88908781 TTTATTAAAC
* *
88908791 TACCCCTAAGTATG-AAAATTACCGTTT
1 TACCCCTAAG-ATGCAAAATGACCGTTA
*
88908818 TACCCCT-AGGTGCAAAATGACCGTTA
1 TACCCCTAAGATGCAAAATGACCGTTA
88908844 TACCCCTA
1 TACCCCTA
88908852 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.07
26 20 0.69
27 7 0.24
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (27 bp):
TACCCCTAAGATGCAAAATGACCGTTA
Found at i:88910040 original size:16 final size:17
Alignment explanation
Indices: 88910008--88910041 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
88909998 CATCAAGAAG
88910008 GGTTTTCAATGAAAACAC
1 GGTTTTCAA-GAAAACAC
88910026 GGTTTTCAA-AAAACAC
1 GGTTTTCAAGAAAACAC
88910042 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAC
Found at i:88911682 original size:46 final size:46
Alignment explanation
Indices: 88911586--88911896 Score: 415
Period size: 46 Copynumber: 6.7 Consensus size: 46
88911576 TGCCATAATG
* * ** * * *
88911586 TCTTTCAACTATGGTCTTACTCATTTTTTTGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGCTGCCATGGTA
** * *
88911633 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
*** ** * *
88911679 TCTTTCAACCATGGTCTTATTTATTTCCCATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
88911725 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
* *
88911771 TCTTTCAACCATGGTCTTACACGTTTCATATCAGGCCGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
*
88911817 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
*
88911863 TCTTTCAAACATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
88911897 AGAGCACACT
Statistics
Matches: 239, Mismatches: 25, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
46 218 0.91
47 21 0.09
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
Found at i:88913957 original size:18 final size:20
Alignment explanation
Indices: 88913942--88913978 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
88913932 TAATAATAAA
*
88913942 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
88913962 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
88913979 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:88916105 original size:18 final size:18
Alignment explanation
Indices: 88916084--88916165 Score: 53
Period size: 18 Copynumber: 4.3 Consensus size: 18
88916074 AAATCCTTTT
88916084 ATTATTGTAAATCTTTGG
1 ATTATTGTAAATCTTTGG
* *
88916102 ATTATTATATAT-TTTAAGG
1 ATTATTGTAAATCTTT--GG
*
88916121 -TTAATTGTTTTAAATCCTTT-T
1 ATT-ATTG---TAAAT-CTTTGG
88916142 ATTATTGTAAATCTTTGG
1 ATTATTGTAAATCTTTGG
88916160 ATTATT
1 ATTATT
88916166 ATATATTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 20
0.65 0.08 0.27
Matches are distributed among these distances:
17 7 0.15
18 23 0.48
19 5 0.10
21 4 0.08
22 6 0.12
24 3 0.06
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (18 bp):
ATTATTGTAAATCTTTGG
Done.