Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 391 of 410
Found at i:118702195 original size:2 final size:2
Alignment explanation
Indices: 118702188--118702216 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
118702178 ATGAAAATTT
118702188 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
118702217 GTGTTTCTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:118702791 original size:30 final size:29
Alignment explanation
Indices: 118702746--118702813 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 29
118702736 TATGTATACT
**
118702746 TAAAAAACAAGCAAATGTCTCTAAAACAA
1 TAAAAAATTAGCAAATGTCTCTAAAACAA
* *
118702775 TAACAAAATTAGCAAATGTCTTTAAAATAA
1 TAA-AAAATTAGCAAATGTCTCTAAAACAA
118702805 TAAAAAATT
1 TAAAAAATT
118702814 TAACAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 9 0.26
30 25 0.74
ACGTcount: A:0.57, C:0.12, G:0.06, T:0.25
Consensus pattern (29 bp):
TAAAAAATTAGCAAATGTCTCTAAAACAA
Found at i:118706665 original size:31 final size:31
Alignment explanation
Indices: 118706627--118706713 Score: 120
Period size: 31 Copynumber: 2.8 Consensus size: 31
118706617 ACAAATGACA
* *
118706627 AGTGAAAAGTGGTAGGTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
118706658 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
118706689 AGTGAATAGTGGTAGTTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
118706714 AAGTGACAAG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:118706849 original size:46 final size:49
Alignment explanation
Indices: 118706782--118706907 Score: 152
Period size: 49 Copynumber: 2.6 Consensus size: 49
118706772 TGCTACTGTA
* *
118706782 TAAGACCATA-TCTGGGATATGGCATC-A-GTGAGATATGTGATT-CATG
1 TAAGACCATAGT-TGGGCTATGGCATCGATATGAGATATGTGATTACATG
* *
118706828 TAAGACCATAGTTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGTTGGGCTATGGCATCGATATGAGATATGTGATTACATG
* * *
118706877 TAAGACCATAGCTGGGCTATGACATTGATAT
1 TAAGACCATAGTTGGGCTATGGCATCGATAT
118706908 ATGAAGATGT
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 23 0.33
47 2 0.03
48 13 0.19
49 31 0.45
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.31
Consensus pattern (49 bp):
TAAGACCATAGTTGGGCTATGGCATCGATATGAGATATGTGATTACATG
Found at i:118711606 original size:17 final size:17
Alignment explanation
Indices: 118711584--118711618 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
118711574 GACATGGTTT
118711584 ATCTATAAGAAAAATAG
1 ATCTATAAGAAAAATAG
118711601 ATCTATAAGAAAAATAG
1 ATCTATAAGAAAAATAG
118711618 A
1 A
118711619 GTCAATTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.60, C:0.06, G:0.11, T:0.23
Consensus pattern (17 bp):
ATCTATAAGAAAAATAG
Found at i:118711685 original size:17 final size:17
Alignment explanation
Indices: 118711663--118711697 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
118711653 GACATGGTTT
118711663 ATCTATAAGAAAAATAG
1 ATCTATAAGAAAAATAG
118711680 ATCTATAAGAAAAATAG
1 ATCTATAAGAAAAATAG
118711697 A
1 A
118711698 GTCAATTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.60, C:0.06, G:0.11, T:0.23
Consensus pattern (17 bp):
ATCTATAAGAAAAATAG
Found at i:118711693 original size:79 final size:79
Alignment explanation
Indices: 118711562--118711719 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
118711552 AACGACTCGA
118711562 TTTGTTTTAGCTGACATGGTTTATCTATAAGAAAAATAGATCTATAAGAAAAATAGAGTCAATTT
1 TTTGTTTTAGCTGACATGGTTTATCTATAAGAAAAATAGATCTATAAGAAAAATAGAGTCAATTT
118711627 GGATTAGAAGGCAT
66 GGATTAGAAGGCAT
118711641 TTTGTTTTAGCTGACATGGTTTATCTATAAGAAAAATAGATCTATAAGAAAAATAGAGTCAATTT
1 TTTGTTTTAGCTGACATGGTTTATCTATAAGAAAAATAGATCTATAAGAAAAATAGAGTCAATTT
118711706 GGATTAGAAGGCAT
66 GGATTAGAAGGCAT
118711720 CGCACTATCA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (79 bp):
TTTGTTTTAGCTGACATGGTTTATCTATAAGAAAAATAGATCTATAAGAAAAATAGAGTCAATTT
GGATTAGAAGGCAT
Found at i:118714369 original size:21 final size:22
Alignment explanation
Indices: 118714332--118714373 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
118714322 AAATAGGAAG
118714332 AAAACAACAAGAAAATAACATT
1 AAAACAACAAGAAAATAACATT
118714354 AAAACAACAA-AAAATAACAT
1 AAAACAACAAGAAAATAACAT
118714374 ATTTTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.71, C:0.14, G:0.02, T:0.12
Consensus pattern (22 bp):
AAAACAACAAGAAAATAACATT
Found at i:118724950 original size:17 final size:17
Alignment explanation
Indices: 118724925--118724960 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
118724915 TAAATTTTTT
118724925 TATATAAAAAT-TTAAAA
1 TATA-AAAAATATTAAAA
118724942 TATAAAAAATATTAAAA
1 TATAAAAAATATTAAAA
118724959 TA
1 TA
118724961 AATGTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TATAAAAAATATTAAAA
Found at i:118729429 original size:12 final size:13
Alignment explanation
Indices: 118729412--118729446 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
118729402 CTTTGTTTAA
118729412 TTTATTTATTA-T
1 TTTATTTATTATT
*
118729424 TTTATTTATCATT
1 TTTATTTATTATT
118729437 TTTATTTATT
1 TTTATTTATT
118729447 TAATATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTATTTATTATT
Found at i:118729454 original size:17 final size:17
Alignment explanation
Indices: 118729414--118729455 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
118729404 TTGTTTAATT
118729414 TATTTATTATTTTATTTA
1 TATTT-TTATTTTATTTA
118729432 TCATTTTTA-TTTATTTAA
1 T-ATTTTTATTTTATTT-A
118729450 TATTTT
1 TATTTT
118729456 AATTCTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 12 0.55
18 6 0.27
19 4 0.18
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTTTATTTTATTTA
Found at i:118737294 original size:18 final size:18
Alignment explanation
Indices: 118737271--118737314 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
118737261 ATTACTTATC
118737271 AAAAATATTTTTTG-GAT
1 AAAAATATTTTTTGAGAT
118737288 AAAAA-ATATTTTTGAGAT
1 AAAAATAT-TTTTTGAGAT
118737306 AAAAATATT
1 AAAAATATT
118737315 GTTAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 2 0.08
17 11 0.46
18 9 0.38
19 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
AAAAATATTTTTTGAGAT
Found at i:118743407 original size:47 final size:47
Alignment explanation
Indices: 118743338--118743431 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
118743328 ATCTTTTGCT
118743338 GCTATCAATATGTCATCAACATAGAGAAGTAGATACACAAAAGAACC
1 GCTATCAATATGTCATCAACATAGAGAAGTAGATACACAAAAGAACC
118743385 GCTATCAATATGTCATCAACATAGAGAAGTAGATACACAAAAGAACC
1 GCTATCAATATGTCATCAACATAGAGAAGTAGATACACAAAAGAACC
118743432 ATCACTATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.19
Consensus pattern (47 bp):
GCTATCAATATGTCATCAACATAGAGAAGTAGATACACAAAAGAACC
Found at i:118751143 original size:17 final size:16
Alignment explanation
Indices: 118751117--118751152 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
118751107 TAAGCAGGAG
118751117 AATTTAATTCTACCCT
1 AATTTAATTCTACCCT
118751133 AATTCTAATTCTACCCT
1 AATT-TAATTCTACCCT
118751150 AAT
1 AAT
118751153 CAGGAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTTAATTCTACCCT
Found at i:118755026 original size:22 final size:22
Alignment explanation
Indices: 118755001--118755054 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
118754991 TTGTTAATTA
* *
118755001 TTTATTATTAAA-ATATTATTTT
1 TTTATT-TTAAATAAATTATATT
*
118755023 TTTAATTTAAATAAATTATATT
1 TTTATTTTAAATAAATTATATT
118755045 TTTATTTTAA
1 TTTATTTTAA
118755055 GACTTTACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 5 0.19
22 22 0.81
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTATTTTAAATAAATTATATT
Found at i:118756534 original size:14 final size:13
Alignment explanation
Indices: 118756511--118756574 Score: 58
Period size: 14 Copynumber: 4.8 Consensus size: 13
118756501 CAGGCGCGAC
*
118756511 ATATTATTTTATT
1 ATATTTTTTTATT
*
118756524 AATATTTTTTT-TAA
1 -ATATTTTTTTAT-T
*
118756538 ATATTTTATTATT
1 ATATTTTTTTATT
*
118756551 ATTTTTTTATTATT
1 ATATTTTT-TTATT
118756565 ATATTTTTTT
1 ATATTTTTTT
118756575 TAAAAAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
13 18 0.45
14 22 0.55
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
ATATTTTTTTATT
Found at i:118756576 original size:17 final size:17
Alignment explanation
Indices: 118756543--118756574 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
118756533 TTTAAATATT
118756543 TTATTATTATTTTTTTA
1 TTATTATTATTTTTTTA
118756560 TTATTA-TATTTTTTT
1 TTATTATTATTTTTTT
118756575 TAAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
TTATTATTATTTTTTTA
Found at i:118756911 original size:17 final size:17
Alignment explanation
Indices: 118756868--118756922 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 17
118756858 TAGTTAAATT
118756868 TTTATAATTATTT-TAAA
1 TTTA-AATTATTTGTAAA
*
118756885 ATTAAATTATTTGT-AA
1 TTTAAATTATTTGTAAA
118756901 TTTAGAATTATTTGATAAA
1 TTTA-AATTATTTG-TAAA
118756920 TTT
1 TTT
118756923 TTGTGTTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 13 0.41
17 13 0.41
18 1 0.03
19 5 0.16
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTAAATTATTTGTAAA
Found at i:118756980 original size:60 final size:60
Alignment explanation
Indices: 118756872--118756989 Score: 152
Period size: 60 Copynumber: 2.0 Consensus size: 60
118756862 TAAATTTTTA
* *
118756872 TAATTATTTTAAAATTAAATTATTTGTAATTTAGAATTATTTGATAAATT-TTTGTGTTAG
1 TAATTAATTTAAAATTAAATTATTAGTAATTTAGAATTATTTGATAAATTATTT-TGTTAG
* *
118756932 TAATTAATTTAAAATTAATTTATTAGTAATTTA-AGATTATATT-TTAAATTATTTTGTT
1 TAATTAATTTAAAATTAAATTATTAGTAATTTAGA-ATTAT-TTGATAAATTATTTTGTT
118756990 TAGTTTAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
59 1 0.02
60 45 0.88
61 5 0.10
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (60 bp):
TAATTAATTTAAAATTAAATTATTAGTAATTTAGAATTATTTGATAAATTATTTTGTTAG
Found at i:118757269 original size:16 final size:16
Alignment explanation
Indices: 118757248--118757285 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
118757238 CTGTATTATG
*
118757248 ATTTTTTTAGAAATATA
1 ATTTTTTAAGAAA-ATA
118757265 ATTTTTTAAGAAAATA
1 ATTTTTTAAGAAAATA
118757281 ATTTT
1 ATTTT
118757286 ATAGTTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (16 bp):
ATTTTTTAAGAAAATA
Found at i:118757899 original size:297 final size:296
Alignment explanation
Indices: 118757349--118758356 Score: 1711
Period size: 297 Copynumber: 3.4 Consensus size: 296
118757339 TAGTGTTTTA
*
118757349 TGATTTTTTAATGTAA--TTATATAATGTAAATTTAATTTATTGAATTATTTATTTGATAATTCT
1 TGATTTTTTAATGTAATTTTATATAATGTAAATTTAATTTATTGAATTATTTATTTGATAATTTT
118757412 TATTGATTGATTAAAATTTTGATTAAATTTGTTGTTATATAATTTTATAGGTTACGTGAAAGAAA
66 TATTGATTGATTAAAATTTTGATTAAATTTGTTGTTATATAATTTTATAGGTTACGTGAAAGAAA
118757477 CTACTTAGGAATGTTTCAATTTCAATTATTTTTAATTCATATGTTTTTTAATCTTTAGATAATTT
131 CTACTTAGGAATGTTTCAATTTCAATTATTTTTAATTCATATGTTTTTTAATCTTTAGATAATTT
*
118757542 ATATTTATTTTTTATTGTATATAAATGATGGTGAATTATAAAATTAATTTTTAAAATGGTTGTGC
196 ATATTTATTTTTTATTGTATATAAATGATGGGGAATTATAAAATTAATTTTTAAAATGGTTGTGC
118757607 AATAAAATTATTTTTTATTAGTGTATTAGTGTAGTG
261 AATAAAATTATTTTTTATTAGTGTATTAGTGTAGTG
*
118757643 TGATTTTTTAATGTAATTTTTATATAATCTAAATTTAATTTATTGAATTATTTATTTGATAATTT
1 TGATTTTTTAATGTAA-TTTTATATAATGTAAATTTAATTTATTGAATTATTTATTTGATAATTT
118757708 TTATTGATTGATTAAAATTTTGATTAAATTTGTTGTTATATAATTTTATAGGTTACGTGAAAGAA
65 TTATTGATTGATTAAAATTTTGATTAAATTTGTTGTTATATAATTTTATAGGTTACGTGAAAGAA
118757773 ACTACTTAGGAATGTTTCAATTTCAATTATTTTTAATTCATATGTTTTTTAATCTTTAGATAATT
130 ACTACTTAGGAATGTTTCAATTTCAATTATTTTTAATTCATATGTTTTTTAATCTTTAGATAATT
118757838 TATATTTATTTTTTATTGTATATAAATGATGGGGAATTATAAAATTAATTTTTAAAATGGTTGTG
195 TATATTTATTTTTTATTGTATATAAATGATGGGGAATTATAAAATTAATTTTTAAAATGGTTGTG
118757903 CAATAAAATTATTTTTTATTAGTGTATTAGTGTAGTG
260 CAATAAAATTATTTTTTATTAGTGTATTAGTGTAGTG
*
118757940 TGATTTTTTAATGTAATTTTTATATAATGTAAATTTAATTTATTTAATTATTTATTTGATAATTT
1 TGATTTTTTAATGTAA-TTTTATATAATGTAAATTTAATTTATTGAATTATTTATTTGATAATTT
* **
118758005 TTATTGATTGATTAAAATTTTGATTAAATTTGTTATTATATAATTTTATAGGTTGTGTGAAAGAA
65 TTATTGATTGATTAAAATTTTGATTAAATTTGTTGTTATATAATTTTATAGGTTACGTGAAAGAA
*
118758070 ACTA-TTCAGGTATGTTTCAATTTCAATTATTTTTAATTCATATG-TTTTTAATCTTTAGATAAT
130 ACTACTT-AGGAATGTTTCAATTTCAATTATTTTTAATTCATATGTTTTTTAATCTTTAGATAAT
* *
118758133 TTATATTTATTTTTTATTATATATAAATGATGGGGAATTATAAAATTAATTTTCAAAATGGTTGT
194 TTATATTTATTTTTTATTGTATATAAATGATGGGGAATTATAAAATTAATTTTTAAAATGGTTGT
* *
118758198 GCAATAAAATTATTTTTTAGTAGTGTATTAGTGTATTG
259 GCAATAAAATTATTTTTTATTAGTGTATTAGTGTAGTG
* * * * *
118758236 TGATATTTTGGATAAGGT-ATTTTAAAAAATGATTAGGTTATATAAATTTATTGAATTATTTATT
1 TGAT-TTTT---TAATGTAATTTTATATAATG--TA---AAT-TTAATTTATTGAATTATTTATT
118758300 TGATAATTTTTATTGATTGATTAAAATTTTGATTAAATTTGTTGTTATATAATTTTA
56 TGATAATTTTTATTGATTGATTAAAATTTTGATTAAATTTGTTGTTATATAATTTTA
118758357 ATTGCAGATT
Statistics
Matches: 680, Mismatches: 20, Indels: 18
0.95 0.03 0.03
Matches are distributed among these distances:
294 16 0.02
296 124 0.18
297 444 0.65
298 10 0.01
299 1 0.00
300 7 0.01
303 2 0.00
304 76 0.11
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.52
Consensus pattern (296 bp):
TGATTTTTTAATGTAATTTTATATAATGTAAATTTAATTTATTGAATTATTTATTTGATAATTTT
TATTGATTGATTAAAATTTTGATTAAATTTGTTGTTATATAATTTTATAGGTTACGTGAAAGAAA
CTACTTAGGAATGTTTCAATTTCAATTATTTTTAATTCATATGTTTTTTAATCTTTAGATAATTT
ATATTTATTTTTTATTGTATATAAATGATGGGGAATTATAAAATTAATTTTTAAAATGGTTGTGC
AATAAAATTATTTTTTATTAGTGTATTAGTGTAGTG
Found at i:118760204 original size:21 final size:23
Alignment explanation
Indices: 118760156--118760198 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
118760146 ACATGCATAT
118760156 ATATATAAATACAAGTATTAGAA
1 ATATATAAATACAAGTATTAGAA
*
118760179 ATATAT-AATATAA-TATTAGA
1 ATATATAAATACAAGTATTAGA
118760199 GGTATACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 6 0.32
23 6 0.32
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (23 bp):
ATATATAAATACAAGTATTAGAA
Found at i:118760247 original size:11 final size:11
Alignment explanation
Indices: 118760231--118760290 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
118760221 GTAATATTAA
118760231 AAAATATATAT
1 AAAATATATAT
118760242 AAAATATATATT
1 AAAATATATA-T
*
118760254 AAAAGACTTATAT
1 AAAATA--TATAT
* *
118760267 ACAACATATAT
1 AAAATATATAT
118760278 GAAAA-ATATAT
1 -AAAATATATAT
118760289 AA
1 AA
118760291 TATTAAACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
10 2 0.05
11 21 0.51
12 9 0.22
13 5 0.12
14 4 0.10
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (11 bp):
AAAATATATAT
Found at i:118760257 original size:25 final size:25
Alignment explanation
Indices: 118760224--118760300 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
118760214 ATAACTAGTA
*
118760224 ATATTAAAAAATATATATAAAATAT
1 ATATTAAAAAATATATATAAAACAT
* *
118760249 ATATTAAAAGACT-TATATACAACAT
1 ATATTAAAA-AATATATATAAAACAT
* *
118760274 ATATGAAAAATATATAATATTAAACAT
1 ATATTAAAAA-ATAT-ATATAAAACAT
118760301 TTACATAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
24 1 0.02
25 28 0.68
26 3 0.07
27 9 0.22
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (25 bp):
ATATTAAAAAATATATATAAAACAT
Found at i:118761016 original size:12 final size:14
Alignment explanation
Indices: 118760980--118761007 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
118760970 AAAAGAGAGA
118760980 AAAGGAGAGGGGAG
1 AAAGGAGAGGGGAG
118760994 AAAGGAGAGGGGAG
1 AAAGGAGAGGGGAG
118761008 GAGAGAGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (14 bp):
AAAGGAGAGGGGAG
Found at i:118762381 original size:68 final size:65
Alignment explanation
Indices: 118762189--118762365 Score: 185
Period size: 68 Copynumber: 2.6 Consensus size: 65
118762179 AAGTGAACTG
** * * * *
118762189 AGGCTCAACTCATTTCTCGCAATATGGGTTGATTTTTGAAACGTAGAAATTAAAAGAAGAAATTA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAGTA-AAA-TAAAAAAAGAAATTA
118762254 GA
64 GA
* * ** * *
118762256 AGGCTCAACTCACCTCTCGCAACATGAGTTAATACTTTGAAAAGTAGATTTTGAAAAACGAAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAT-CTTTGAAAAGTA-A-AATAAAAAAAG-AAAT
118762321 TA-A
62 TAGA
118762324 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAA
118762366 ATTAAAAAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
67 37 0.40
68 50 0.54
69 6 0.06
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (65 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAGTAAAATAAAAAAAGAAATTAGA
Found at i:118762773 original size:54 final size:54
Alignment explanation
Indices: 118762668--118762778 Score: 127
Period size: 54 Copynumber: 2.0 Consensus size: 54
118762658 ATGTGAACCC
*
118762668 AAGGCTCAACTCACATCTCGCAATACGAGTTGATTTTGAAAAAGTAGAAATT-AA
1 AAGGCTCAACCCACATCTCGCAATACGAGTTGATTTTGAAAAAGTA-AAATTGAA
* * * * *
118762722 AAGGTTCAACCCACCTCTCGTAATATGAGTTGATTCTTGAACAACGT-AAATTGAA
1 AAGGCTCAACCCACATCTCGCAATACGAGTTGATT-TTGAA-AAAGTAAAATTGAA
118762777 AA
1 AA
118762779 CAGAAATTGA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
54 35 0.73
55 9 0.19
56 4 0.08
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (54 bp):
AAGGCTCAACCCACATCTCGCAATACGAGTTGATTTTGAAAAAGTAAAATTGAA
Found at i:118762958 original size:71 final size:71
Alignment explanation
Indices: 118762867--118763114 Score: 334
Period size: 71 Copynumber: 3.5 Consensus size: 71
118762857 ATTAAAAGGT
* *
118762867 TCAACCCACCTCTCGTAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
118762932 TGAGGC
66 TGAGGC
** ** * * *
118762938 TCAACTCACCTCTCGCAATATGAGTTGATGAACTAAAAAGCAGAAATTGAAAATACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGAT--TTTTGAAA-CATAAATTGAAATTACCTCAACGTG
* *
118763003 CCCTGAGGC
63 TCTTGAGGC
*
118763012 TCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
118763077 TGAGGC
66 TGAGGC
* * *
118763083 TCAACTTACCTCTCGCAATATGGGCTGATTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTT
118763115 CTTGGAAAAC
Statistics
Matches: 149, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
71 84 0.56
72 4 0.03
73 4 0.03
74 57 0.38
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (71 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
TGAGGC
Found at i:118763235 original size:160 final size:160
Alignment explanation
Indices: 118762965--118763365 Score: 766
Period size: 160 Copynumber: 2.5 Consensus size: 160
118762955 ATATGAGTTG
* *
118762965 ATGAACTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAA
1 ATGAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAA
*
118763030 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTTACCTC
66 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
118763095 TCGCAATATGGGCTGATTTTCTTGGAAAAC
131 TCGCAATATGGGCTGATTTTCTTGGAAAAC
118763125 ATGAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAA
1 ATGAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAA
118763190 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
66 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
118763255 TCGCAATATGGGCTGATTTTCTTGGAAAAC
131 TCGCAATATGGGCTGATTTTCTTGGAAAAC
118763285 ATGAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAA
1 ATGAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAA
*
118763350 TATGAGCTGATTTTTG
66 TATGAGTTGATTTTTG
118763366 GAAAAAACAA
Statistics
Matches: 237, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
160 237 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (160 bp):
ATGAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAA
TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
TCGCAATATGGGCTGATTTTCTTGGAAAAC
Found at i:118763257 original size:71 final size:71
Alignment explanation
Indices: 118763141--118763274 Score: 205
Period size: 71 Copynumber: 1.9 Consensus size: 71
118763131 TAAAAAGTAG
* * *
118763141 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
118763206 AAACAT
66 AAACAT
* * * *
118763212 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGGGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
118763275 CTTGGAAAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 56 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:118775735 original size:21 final size:23
Alignment explanation
Indices: 118775687--118775729 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
118775677 ACATGCATAT
118775687 ATATATAAATACAAGTATTAGAA
1 ATATATAAATACAAGTATTAGAA
*
118775710 ATATAT-AATATAA-TATTAGA
1 ATATATAAATACAAGTATTAGA
118775730 GGTATACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 6 0.32
23 6 0.32
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (23 bp):
ATATATAAATACAAGTATTAGAA
Found at i:118775778 original size:11 final size:11
Alignment explanation
Indices: 118775762--118775821 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
118775752 GTAATATTAA
118775762 AAAATATATAT
1 AAAATATATAT
118775773 AAAATATATATT
1 AAAATATATA-T
*
118775785 AAAAGACTTATAT
1 AAAATA--TATAT
* *
118775798 ATAACATATAT
1 AAAATATATAT
118775809 GAAAA-ATATAT
1 -AAAATATATAT
118775820 AA
1 AA
118775822 TATTAAACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
10 2 0.05
11 21 0.51
12 9 0.22
13 5 0.12
14 4 0.10
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (11 bp):
AAAATATATAT
Found at i:118775788 original size:25 final size:25
Alignment explanation
Indices: 118775755--118775831 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
118775745 ATAACTAGTA
*
118775755 ATATTAAAAAATATATATAAAATAT
1 ATATTAAAAAATATATATAAAACAT
* *
118775780 ATATTAAAAGACT-TATATATAACAT
1 ATATTAAAA-AATATATATAAAACAT
* *
118775805 ATATGAAAAATATATAATATTAAACAT
1 ATATTAAAAA-ATAT-ATATAAAACAT
118775832 TTACATAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
24 1 0.02
25 28 0.68
26 3 0.07
27 9 0.22
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (25 bp):
ATATTAAAAAATATATATAAAACAT
Found at i:118776549 original size:12 final size:14
Alignment explanation
Indices: 118776513--118776540 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
118776503 AAAAGAGAGA
118776513 AAAGGAGAGGGGAG
1 AAAGGAGAGGGGAG
118776527 AAAGGAGAGGGGAG
1 AAAGGAGAGGGGAG
118776541 GAGAGAGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (14 bp):
AAAGGAGAGGGGAG
Found at i:118778009 original size:6 final size:6
Alignment explanation
Indices: 118777998--118778039 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
118777988 GAGGTAGAGT
* * *
118777998 CGGAGC CGGAGC CGGAGC CAGAGC CGGAGC CAGATC CGGAGC
1 CGGAGC CGGAGC CGGAGC CGGAGC CGGAGC CGGAGC CGGAGC
118778040 TACACTCCGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.21, C:0.33, G:0.43, T:0.02
Consensus pattern (6 bp):
CGGAGC
Found at i:118778013 original size:12 final size:12
Alignment explanation
Indices: 118777979--118778039 Score: 68
Period size: 12 Copynumber: 5.1 Consensus size: 12
118777969 ATATCATGCA
*
118777979 CCAGCGCCGGAG
1 CCAGAGCCGGAG
** *
118777991 GTAGAGTCGGAG
1 CCAGAGCCGGAG
*
118778003 CCGGAGCCGGAG
1 CCAGAGCCGGAG
118778015 CCAGAGCCGGAG
1 CCAGAGCCGGAG
*
118778027 CCAGATCCGGAG
1 CCAGAGCCGGAG
118778039 C
1 C
118778040 TACACTCCGG
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.21, C:0.31, G:0.43, T:0.05
Consensus pattern (12 bp):
CCAGAGCCGGAG
Found at i:118778192 original size:33 final size:33
Alignment explanation
Indices: 118778150--118778266 Score: 135
Period size: 33 Copynumber: 3.5 Consensus size: 33
118778140 CCCCCTACCA
* * *
118778150 CATCAGTACTCTACTACTTCTACCTCTTATCCAC
1 CATC-GTACTCTACTCCTTCTAGCTCATATCCAC
* ** *
118778184 CACCGTACTCCGCTCCTTCCAGCTCATATCCAC
1 CATCGTACTCTACTCCTTCTAGCTCATATCCAC
* *
118778217 CATCGTACTCTACTCCTGCTGGCTCATATCCAC
1 CATCGTACTCTACTCCTTCTAGCTCATATCCAC
*
118778250 CATCGTACTCTGCTCCT
1 CATCGTACTCTACTCCT
118778267 CCAGAGCCGT
Statistics
Matches: 69, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
33 66 0.96
34 3 0.04
ACGTcount: A:0.19, C:0.42, G:0.09, T:0.31
Consensus pattern (33 bp):
CATCGTACTCTACTCCTTCTAGCTCATATCCAC
Found at i:118778305 original size:66 final size:65
Alignment explanation
Indices: 118778224--118778372 Score: 165
Period size: 66 Copynumber: 2.3 Consensus size: 65
118778214 CACCATCGTA
** * *
118778224 CTCTACTCCTGCTGGCTCATATCCACCATCGTACTCTGCTCCTCCAGAGCCGTATCC-GTCGCCG
1 CTCTACTCCCCCTGGCTCATATCCACCATCGTACTCTACTCCCCCAG-GCCGTATCCAG-CGCCG
118778288 TT
64 TT
* * * * * * *
118778290 CTCTTCTCCCCCTGGCCCATATCCAGCGTCGTTCTCTACTCCCCCCGGCCGTATCCAGCGTCGTT
1 CTCTACTCCCCCTGGCTCATATCCACCATCGTACTCTACTCCCCCAGGCCGTATCCAGCGCCGTT
*
118778355 CTCTACTCCCCCCGGCTC
1 CTCTACTCCCCCTGGCTC
118778373 GAGTTCATCA
Statistics
Matches: 68, Mismatches: 14, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
65 30 0.44
66 38 0.56
ACGTcount: A:0.11, C:0.46, G:0.16, T:0.28
Consensus pattern (65 bp):
CTCTACTCCCCCTGGCTCATATCCACCATCGTACTCTACTCCCCCAGGCCGTATCCAGCGCCGTT
Found at i:118778350 original size:32 final size:32
Alignment explanation
Indices: 118778272--118778370 Score: 137
Period size: 32 Copynumber: 3.1 Consensus size: 32
118778262 CTCCTCCAGA
* * *
118778272 GCCGTATCC-GTCGCCGTTCTCTTCTCCCCCTG
1 GCCGTATCCAG-CGTCGTTCTCTACTCCCCCCG
*
118778304 GCCCATATCCAGCGTCGTTCTCTACTCCCCCCG
1 G-CCGTATCCAGCGTCGTTCTCTACTCCCCCCG
118778337 GCCGTATCCAGCGTCGTTCTCTACTCCCCCCG
1 GCCGTATCCAGCGTCGTTCTCTACTCCCCCCG
118778369 GC
1 GC
118778371 TCGAGTTCAT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
32 33 0.55
33 26 0.43
34 1 0.02
ACGTcount: A:0.08, C:0.47, G:0.18, T:0.26
Consensus pattern (32 bp):
GCCGTATCCAGCGTCGTTCTCTACTCCCCCCG
Found at i:118778570 original size:20 final size:21
Alignment explanation
Indices: 118778530--118778579 Score: 93
Period size: 20 Copynumber: 2.4 Consensus size: 21
118778520 GGTTTTGTAT
118778530 TGTAAATTACTTTATTTTTTA
1 TGTAAATTACTTTATTTTTTA
118778551 TGTAAATTACTTTA-TTTTTA
1 TGTAAATTACTTTATTTTTTA
118778571 TGTAAATTA
1 TGTAAATTA
118778580 TTTTTTGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (21 bp):
TGTAAATTACTTTATTTTTTA
Found at i:118781496 original size:14 final size:14
Alignment explanation
Indices: 118781463--118781497 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
118781453 TCTCACAATT
*
118781463 TTCAAAATTTTTTA
1 TTCAAAATTTTTCA
*
118781477 TGCAAAATTTTTCA
1 TTCAAAATTTTTCA
118781491 TTCAAAA
1 TTCAAAA
118781498 CCTAGCAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (14 bp):
TTCAAAATTTTTCA
Found at i:118783150 original size:16 final size:17
Alignment explanation
Indices: 118783123--118783154 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
118783113 TAATTAACCA
118783123 AAAACAAAACAAAGAAG
1 AAAACAAAACAAAGAAG
118783140 AAAAC-AAACAAAGAA
1 AAAACAAAACAAAGAA
118783155 AAGAGAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.78, C:0.12, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAACAAAACAAAGAAG
Found at i:118783157 original size:21 final size:20
Alignment explanation
Indices: 118783124--118783162 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
118783114 AATTAACCAA
118783124 AAACAAAACAAAGAAGAAAAC
1 AAACAAAACAAAG-AGAAAAC
118783145 AAACAAAGA-AAAGAGAAA
1 AAACAAA-ACAAAGAGAAA
118783163 GGACCAGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 11 0.65
22 1 0.06
ACGTcount: A:0.77, C:0.10, G:0.13, T:0.00
Consensus pattern (20 bp):
AAACAAAACAAAGAGAAAAC
Found at i:118783299 original size:15 final size:14
Alignment explanation
Indices: 118783275--118783333 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 14
118783265 TTTTTTTAAA
118783275 AAAAATATAATAAT
1 AAAAATATAATAAT
118783289 AAAAATAATAATAAT
1 AAAAAT-ATAATAAT
* *
118783304 -AAAATAT-TTAAA
1 AAAAATATAATAAT
* *
118783316 AAAAATTTATTAAT
1 AAAAATATAATAAT
118783330 AAAA
1 AAAA
118783334 TAATATGTCG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
12 3 0.08
13 8 0.21
14 19 0.50
15 8 0.21
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAAATATAATAAT
Found at i:118784353 original size:60 final size:59
Alignment explanation
Indices: 118784261--118784376 Score: 155
Period size: 60 Copynumber: 1.9 Consensus size: 59
118784251 TAATAATAAA
*
118784261 TTTTATTTTTTTTATAATTTTAAAATTAATTTTTATTTTTTATTTTATGAATTTTAAGGAT
1 TTTTATTTTTTTTATAATTTTAAAATTAATTTTTATTTTATATTTTATG--TTTTAAGGAT
* * *
118784322 TTTTA-TTTTTTTAT-TTTTTGAAATTATATTTTTATTTTATGTTTTATGTTTTAAG
1 TTTTATTTTTTTTATAATTTTAAAATTA-ATTTTTATTTTATATTTTATGTTTTAAG
118784377 TACAATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
58 7 0.14
59 10 0.20
60 28 0.56
61 5 0.10
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (59 bp):
TTTTATTTTTTTTATAATTTTAAAATTAATTTTTATTTTATATTTTATGTTTTAAGGAT
Found at i:118794910 original size:18 final size:17
Alignment explanation
Indices: 118794869--118794917 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
118794859 TTATTATAAA
118794869 TATTAAATTAAATAATT
1 TATTAAATTAAATAATT
* *
118794886 AACTTAATTTAAATTAATT
1 TA-TTAAATTAAA-TAATT
*
118794905 TATTAAAATAAAT
1 TATTAAATTAAAT
118794918 TTAATATATA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
17 2 0.08
18 17 0.68
19 6 0.24
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
TATTAAATTAAATAATT
Found at i:118802025 original size:18 final size:18
Alignment explanation
Indices: 118802002--118802037 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
118801992 AGCTGTATAG
118802002 TATTCAAGTTCAAGCTCA
1 TATTCAAGTTCAAGCTCA
118802020 TATTCAAGTTCAAGCTCA
1 TATTCAAGTTCAAGCTCA
118802038 ACTCCGTTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (18 bp):
TATTCAAGTTCAAGCTCA
Found at i:118803152 original size:9 final size:9
Alignment explanation
Indices: 118803117--118803154 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
118803107 TCTTTTATTT
118803117 TTAAAATT-
1 TTAAAATTA
118803125 TTAAAATTCA
1 TTAAAATT-A
*
118803135 TTAACATTA
1 TTAAAATTA
118803144 TTAAAATTA
1 TTAAAATTA
118803153 TT
1 TT
118803155 TGATTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 8 0.31
9 11 0.42
10 7 0.27
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (9 bp):
TTAAAATTA
Found at i:118804227 original size:18 final size:18
Alignment explanation
Indices: 118804200--118804234 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
118804190 TTGCTATGTT
118804200 AATTCAAATCCGAATCTA
1 AATTCAAATCCGAATCTA
*
118804218 AATTCGAATCCGAATCT
1 AATTCAAATCCGAATCT
118804235 TTATTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (18 bp):
AATTCAAATCCGAATCTA
Found at i:118809847 original size:15 final size:15
Alignment explanation
Indices: 118809827--118809859 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
118809817 TGAAAATAAT
118809827 GAAGGTCGGGAATCC
1 GAAGGTCGGGAATCC
118809842 GAAGGTCGGGAATCC
1 GAAGGTCGGGAATCC
118809857 GAA
1 GAA
118809860 CCCTGTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.30, C:0.18, G:0.39, T:0.12
Consensus pattern (15 bp):
GAAGGTCGGGAATCC
Found at i:118816345 original size:48 final size:48
Alignment explanation
Indices: 118816274--118816366 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
118816264 AGAAGATAGC
118816274 TGAGATTCCTTCTCCGACTAACGATTCTTCAAGGACAGCATATGGAGT
1 TGAGATTCCTTCTCCGACTAACGATTCTTCAAGGACAGCATATGGAGT
*
118816322 TGAGATTCCTTCTCCGGCTAACGATTCTTCAAGGACAGCATATGG
1 TGAGATTCCTTCTCCGACTAACGATTCTTCAAGGACAGCATATGG
118816367 TTTTAGCTCC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.29
Consensus pattern (48 bp):
TGAGATTCCTTCTCCGACTAACGATTCTTCAAGGACAGCATATGGAGT
Found at i:118817181 original size:24 final size:24
Alignment explanation
Indices: 118817134--118817181 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
118817124 GATGACTTTG
* *
118817134 ATTAAACCTTAACTGCCAACTACA
1 ATTAAACATTAACAGCCAACTACA
118817158 ATTAAACATTAACCAGCCAA-TACA
1 ATTAAACATTAA-CAGCCAACTACA
118817182 TGGACCATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.46, C:0.27, G:0.04, T:0.23
Consensus pattern (24 bp):
ATTAAACATTAACAGCCAACTACA
Found at i:118834603 original size:4 final size:4
Alignment explanation
Indices: 118834581--118834648 Score: 64
Period size: 4 Copynumber: 15.5 Consensus size: 4
118834571 TCTCTTTTGG
* *
118834581 TTCT TTTT TTCT CTCT TTCT TTCT TTCT TTCT TTCTT TTCTT TTCTT TTCTT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC-T TTC-T TTC-T TTC-T
118834633 TTCTT TTCTT TTCT TT
1 TTC-T TTC-T TTCT TT
118834649 TCATTTTTCT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
4 30 0.51
5 29 0.49
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTCT
Found at i:118834622 original size:5 final size:5
Alignment explanation
Indices: 118834581--118834655 Score: 88
Period size: 5 Copynumber: 15.4 Consensus size: 5
118834571 TCTCTTTTGG
118834581 TTCTT TT-TT TCTCTCT TTC-T TTC-T TTC-T TTC-T TTCTT TTCTT TTCTT
1 TTCTT TTCTT T-TCT-T TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT
118834628 TTCTT TTCTT TTCTT TTCTT TTCATT TT
1 TTCTT TTCTT TTCTT TTCTT TTC-TT TT
118834656 TCTGTATTAA
Statistics
Matches: 65, Mismatches: 0, Indels: 9
0.88 0.00 0.12
Matches are distributed among these distances:
4 19 0.29
5 37 0.57
6 7 0.11
7 2 0.03
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.77
Consensus pattern (5 bp):
TTCTT
Found at i:118836177 original size:11 final size:11
Alignment explanation
Indices: 118836163--118836212 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
118836153 ATATCTAAAT
*
118836163 AATAACAATAA
1 AATAATAATAA
*
118836174 AATAGTAATAA
1 AATAATAATAA
* *
118836185 TATAATAGTAA
1 AATAATAATAA
*
118836196 AATAGTAATAA
1 AATAATAATAA
118836207 AATAAT
1 AATAAT
118836213 GACAAAACAA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (11 bp):
AATAATAATAA
Found at i:118836189 original size:22 final size:22
Alignment explanation
Indices: 118836163--118836211 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
118836153 ATATCTAAAT
118836163 AATAACAATAAAATAGTAATAA
1 AATAACAATAAAATAGTAATAA
* * *
118836185 TATAATAGTAAAATAGTAATAA
1 AATAACAATAAAATAGTAATAA
118836207 AATAA
1 AATAA
118836212 TGACAAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (22 bp):
AATAACAATAAAATAGTAATAA
Found at i:118836212 original size:22 final size:22
Alignment explanation
Indices: 118836171--118836212 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
118836161 ATAATAACAA
*
118836171 TAAAATAGTAATAATATAATAG
1 TAAAATAGTAATAAAATAATAG
118836193 TAAAATAGTAATAAAATAAT
1 TAAAATAGTAATAAAATAAT
118836213 GACAAAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (22 bp):
TAAAATAGTAATAAAATAATAG
Found at i:118836938 original size:2 final size:2
Alignment explanation
Indices: 118836931--118836956 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
118836921 TCAATCCTTC
118836931 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
118836957 GTGTGGCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:118856617 original size:13 final size:14
Alignment explanation
Indices: 118856599--118856627 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
118856589 TATTTTTATC
118856599 TAAATTTAT-TTTT
1 TAAATTTATATTTT
118856612 TAAATTTATATTTT
1 TAAATTTATATTTT
118856626 TA
1 TA
118856628 TTAAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TAAATTTATATTTT
Found at i:118858005 original size:29 final size:30
Alignment explanation
Indices: 118857951--118858007 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
118857941 GAATTGAATC
118857951 AAATAAAAATTACACATATGAAATTGCACA
1 AAATAAAAATTACACATATGAAATTGCACA
* *
118857981 AAATTAAAATT-CATATAT-AATATTGCA
1 AAATAAAAATTACACATATGAA-ATTGCA
118858008 TATTGATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 12 0.50
30 10 0.42
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (30 bp):
AAATAAAAATTACACATATGAAATTGCACA
Found at i:118859099 original size:17 final size:16
Alignment explanation
Indices: 118859069--118859102 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
118859059 TTAAATGAGT
*
118859069 TTTATTAATTTTTTTA
1 TTTATTAATATTTTTA
118859085 TTTATTTAATATTTTTA
1 TTTA-TTAATATTTTTA
118859102 T
1 T
118859103 AATTTCATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTATTAATATTTTTA
Found at i:118859880 original size:16 final size:15
Alignment explanation
Indices: 118859845--118859889 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
118859835 ATTTCATGCA
*
118859845 ATTTTT-AATTTTTT
1 ATTTTTAAATTTTTG
118859859 ATTTTTAAATTTTATG
1 ATTTTTAAATTTT-TG
118859875 ATTTTTAAATATTTT
1 ATTTTTAAAT-TTTT
118859890 TATAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 6 0.22
15 6 0.22
16 12 0.44
17 3 0.11
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
ATTTTTAAATTTTTG
Found at i:118863871 original size:8 final size:8
Alignment explanation
Indices: 118863860--118863910 Score: 70
Period size: 8 Copynumber: 6.6 Consensus size: 8
118863850 ATATTTTTAT
*
118863860 TTTAAGAA
1 TTTAAAAA
*
118863868 TTT-AATA
1 TTTAAAAA
118863875 TTTAAAAA
1 TTTAAAAA
118863883 TTTAAAAA
1 TTTAAAAA
118863891 TTTAAAAA
1 TTTAAAAA
118863899 TTT-AAAA
1 TTTAAAAA
118863906 TTTAA
1 TTTAA
118863911 GTTACATTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
7 12 0.32
8 26 0.68
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (8 bp):
TTTAAAAA
Found at i:118863878 original size:15 final size:15
Alignment explanation
Indices: 118863860--118863910 Score: 75
Period size: 15 Copynumber: 3.3 Consensus size: 15
118863850 ATATTTTTAT
* *
118863860 TTTAAGAATTTAATA
1 TTTAAAAATTTAAAA
118863875 TTTAAAAATTTAAAAA
1 TTTAAAAATTT-AAAA
118863891 TTTAAAAATTTAAAA
1 TTTAAAAATTTAAAA
118863906 TTTAA
1 TTTAA
118863911 GTTACATTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
15 19 0.58
16 14 0.42
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
TTTAAAAATTTAAAA
Found at i:118863886 original size:23 final size:23
Alignment explanation
Indices: 118863860--118863911 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
118863850 ATATTTTTAT
*
118863860 TTTAAGAATTT-AATATTTAAAAA
1 TTTAAGAATTTAAAAATTT-AAAA
*
118863883 TTTAAAAATTTAAAAATTTAAAA
1 TTTAAGAATTTAAAAATTTAAAA
118863906 TTTAAG
1 TTTAAG
118863912 TTACATTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (23 bp):
TTTAAGAATTTAAAAATTTAAAA
Found at i:118872915 original size:12 final size:12
Alignment explanation
Indices: 118872898--118872922 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
118872888 ATCTCCTACC
118872898 AAATTAAATTTG
1 AAATTAAATTTG
118872910 AAATTAAATTTG
1 AAATTAAATTTG
118872922 A
1 A
118872923 TCGGTAGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
AAATTAAATTTG
Found at i:118878571 original size:44 final size:44
Alignment explanation
Indices: 118878480--118878563 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
118878470 TCAGTTCCGG
*
118878480 TTTTTTTGGTTTCAGACCATTTCAGATTAGAATCAGTTTCAGGT
1 TTTTTTTGGATTCAGACCATTTCAGATTAGAATCAGTTTCAGGT
* **
118878524 TTTTTTTGGATTCAGACCGTTTTGGATTA-ATATCAGTTTC
1 TTTTTTTGGATTCAGACCATTTCAGATTAGA-ATCAGTTTC
118878564 CATTTTTTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 1 0.03
44 34 0.97
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.48
Consensus pattern (44 bp):
TTTTTTTGGATTCAGACCATTTCAGATTAGAATCAGTTTCAGGT
Found at i:118885967 original size:30 final size:31
Alignment explanation
Indices: 118885933--118886000 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
118885923 GAAGAAGAAG
118885933 AAAAACTCTT-AACGA-CCCAATGACTTAAAT
1 AAAAACTCTTGAA-GAGCCCAATGACTTAAAT
* * * *
118885963 AAAAATTTTTGAATAGCTCAATGACTTAAAT
1 AAAAACTCTTGAAGAGCCCAATGACTTAAAT
118885994 AAAAACT
1 AAAAACT
118886001 TTCGAATAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 9 0.29
31 22 0.71
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.28
Consensus pattern (31 bp):
AAAAACTCTTGAAGAGCCCAATGACTTAAAT
Found at i:118885985 original size:31 final size:31
Alignment explanation
Indices: 118885950--118886009 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
118885940 CTTAACGACC
* *
118885950 CAATGACTTAAATAAAAATTTTTGAATAGCT
1 CAATGACTTAAATAAAAACTTTCGAATAGCT
118885981 CAATGACTTAAATAAAAACTTTCGAATAG
1 CAATGACTTAAATAAAAACTTTCGAATAG
118886010 TTTAGTGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.32
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTCGAATAGCT
Found at i:118889847 original size:107 final size:108
Alignment explanation
Indices: 118889728--118889936 Score: 393
Period size: 107 Copynumber: 1.9 Consensus size: 108
118889718 CAAAAAATTA
118889728 GTTTAACAAAACAATAATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAAAATT
1 GTTTAACAAAACAATAATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAAAATT
118889793 GTATTAAAATTTTTGTTAATTACTCT-ATAAAATTTTAGATTT
66 GTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTAGATTT
* *
118889835 GTTTAACAAAACAATGATATGTTAAGTTGGAATAAGTTTTAAATAATAAAATTTCTAACAAAATT
1 GTTTAACAAAACAATAATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAAAATT
118889900 GTATTAAAATTTTTGTTAATTACTCTGATAAAATTTT
66 GTATTAAAATTTTTGTTAATTACTCTGATAAAATTTT
118889937 TGACGTGTTT
Statistics
Matches: 99, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
107 89 0.90
108 10 0.10
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.42
Consensus pattern (108 bp):
GTTTAACAAAACAATAATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAAAATT
GTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTAGATTT
Found at i:118893939 original size:16 final size:17
Alignment explanation
Indices: 118893908--118893941 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
118893898 AAACAAATTC
118893908 AAAATACATCCTAAACG
1 AAAATACATCCTAAACG
*
118893925 AAAATA-ATTCTAAACG
1 AAAATACATCCTAAACG
118893941 A
1 A
118893942 GGAGAGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.56, C:0.18, G:0.06, T:0.21
Consensus pattern (17 bp):
AAAATACATCCTAAACG
Found at i:118901703 original size:2 final size:2
Alignment explanation
Indices: 118901689--118901721 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
118901679 ATATCTATTT
118901689 TA TA TA TCA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
118901722 TGCATAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 27 0.93
3 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:118905652 original size:22 final size:22
Alignment explanation
Indices: 118905624--118905669 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
118905614 TTACTGTTAT
* *
118905624 TTTTGCTATTGTTTTGTTATTA
1 TTTTGCTATTATTTTATTATTA
*
118905646 TTTTGCTATTATTTTATTGTTA
1 TTTTGCTATTATTTTATTATTA
118905668 TT
1 TT
118905670 ATTTGAATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.15, C:0.04, G:0.11, T:0.70
Consensus pattern (22 bp):
TTTTGCTATTATTTTATTATTA
Found at i:118905721 original size:11 final size:11
Alignment explanation
Indices: 118905624--118905660 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
118905614 TTACTGTTAT
*
118905624 TTTTGCTATTG
1 TTTTGCTATTA
*
118905635 TTTTGTTATTA
1 TTTTGCTATTA
118905646 TTTTGCTATTA
1 TTTTGCTATTA
118905657 TTTT
1 TTTT
118905661 ATTGTTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.14, C:0.05, G:0.11, T:0.70
Consensus pattern (11 bp):
TTTTGCTATTA
Found at i:118907957 original size:20 final size:20
Alignment explanation
Indices: 118907920--118907958 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
118907910 GGTTAAATTG
*
118907920 ATTTATAATTTTTTTTAATA
1 ATTTATAATTTTTATTAATA
118907940 ATTT-TAATTTTCTATTAAT
1 ATTTATAATTTT-TATTAAT
118907959 TTTTATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTATAATTTTTATTAATA
Found at i:118910934 original size:13 final size:15
Alignment explanation
Indices: 118910916--118910948 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
118910906 AAATTAAATT
118910916 ATTAATTCAA-T-AA
1 ATTAATTCAACTCAA
118910929 ATTAATTCAACTCAA
1 ATTAATTCAACTCAA
118910944 ATTAA
1 ATTAA
118910949 CTCGTCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 1 0.06
15 7 0.39
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
ATTAATTCAACTCAA
Found at i:118912827 original size:19 final size:19
Alignment explanation
Indices: 118912803--118912846 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
118912793 AAAATTATTG
118912803 ATTATTAATAA-TATTTTTT
1 ATTATT-ATAATTATTTTTT
*
118912822 ATTATTTTAATTATTTTTT
1 ATTATTATAATTATTTTTT
*
118912841 AATATT
1 ATTATT
118912847 CTAAATTACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTATTATAATTATTTTTT
Found at i:118919125 original size:15 final size:15
Alignment explanation
Indices: 118919105--118919137 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
118919095 AAGTTCCTTT
118919105 GATTAGAAAATGCTC
1 GATTAGAAAATGCTC
118919120 GATTAGAAAATGCTC
1 GATTAGAAAATGCTC
118919135 GAT
1 GAT
118919138 AAATATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.27
Consensus pattern (15 bp):
GATTAGAAAATGCTC
Found at i:118921871 original size:16 final size:16
Alignment explanation
Indices: 118921847--118921886 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
118921837 AAGTACTCTC
118921847 TTTT-TTTTTTT-AAT
1 TTTTATTTTTTTAAAT
*
118921861 TTTTGTTTTTTTAAAT
1 TTTTATTTTTTTAAAT
118921877 TTTTATTTTT
1 TTTTATTTTT
118921887 ATTTTTTCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.17
15 7 0.30
16 12 0.52
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTTATTTTTTTAAAT
Found at i:118922154 original size:9 final size:9
Alignment explanation
Indices: 118922140--118922173 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
118922130 AGAAAAAAGT
118922140 ATTAAATTA
1 ATTAAATTA
*
118922149 ATTAAATTC
1 ATTAAATTA
118922158 ATTAAATTA
1 ATTAAATTA
118922167 CATTAAA
1 -ATTAAA
118922174 AGATTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (9 bp):
ATTAAATTA
Found at i:118928971 original size:27 final size:27
Alignment explanation
Indices: 118928929--118928995 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
118928919 GCAGTTGAGT
*
118928929 AGTTAGTTTGTTAAAGAAAGGTTAAAGA
1 AGTTAGTTAGTTAAAGAAA-GTTAAAGA
* *
118928957 AGTTAG-TAGTTAAAGATAGTTACAGA
1 AGTTAGTTAGTTAAAGAAAGTTAAAGA
118928983 AGTTAGTTAGTTA
1 AGTTAGTTAGTTA
118928996 GCAACTTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 13 0.37
27 16 0.46
28 6 0.17
ACGTcount: A:0.40, C:0.01, G:0.24, T:0.34
Consensus pattern (27 bp):
AGTTAGTTAGTTAAAGAAAGTTAAAGA
Found at i:118931114 original size:89 final size:89
Alignment explanation
Indices: 118930948--118931144 Score: 209
Period size: 89 Copynumber: 2.2 Consensus size: 89
118930938 TCAATAAGGT
* * * * *
118930948 GTACAGTGCCATGCGG-AAGTCCACGGTACAGACATGCAGTATGAACTACCAGATCAGATATATT
1 GTACAGTGCAATGCGGTAA-ACCGCGGTACAGACATGCAGTATGAACTACCAGACCAGATATAGT
* * *
118931012 ACGCAGCAAAGCTAGCGTATAAGCT
65 ACGCAGCAAAGCTAACGTACAAGCG
* * * *
118931037 GTACTGTGCAATGCGGTAAACCGCGGTACAGACGTGCAGTAT-AACTGCCAGACCAGATAGTGGT
1 GTACAGTGCAATGCGGTAAACCGCGGTACAGACATGCAGTATGAACTACCAGACCAGATA-TAGT
* *** *
118931101 ACGTAGTGTAGCTAACGTACATGCG
65 ACGCAGCAAAGCTAACGTACAAGCG
118931126 GTACAGTGCAATGCGGTAA
1 GTACAGTGCAATGCGGTAA
118931145 TTCGCTATAC
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
88 15 0.17
89 71 0.81
90 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (89 bp):
GTACAGTGCAATGCGGTAAACCGCGGTACAGACATGCAGTATGAACTACCAGACCAGATATAGTA
CGCAGCAAAGCTAACGTACAAGCG
Found at i:118932256 original size:11 final size:11
Alignment explanation
Indices: 118932240--118932264 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
118932230 TGTTTTCGAC
118932240 GACGAAAGAAT
1 GACGAAAGAAT
118932251 GACGAAAGAAT
1 GACGAAAGAAT
118932262 GAC
1 GAC
118932265 AGAGGAGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.12, G:0.28, T:0.08
Consensus pattern (11 bp):
GACGAAAGAAT
Found at i:118933631 original size:22 final size:23
Alignment explanation
Indices: 118933588--118933637 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
118933578 GAGCTTACAG
*
118933588 AGAATGTCAGTATTAGGAACAA-
1 AGAATGTCAGTACTAGGAACAAC
118933610 AGAATGTCAGTACT-GGAGACAAC
1 AGAATGTCAGTACTAGGA-ACAAC
118933633 AGAAT
1 AGAAT
118933638 CAAAACAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 3 0.12
22 17 0.68
23 5 0.20
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.20
Consensus pattern (23 bp):
AGAATGTCAGTACTAGGAACAAC
Found at i:118936564 original size:21 final size:21
Alignment explanation
Indices: 118936535--118936582 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
118936525 AAATTATTTA
118936535 TAAAAT-ATA-AATTTTA-AT
1 TAAAATAATATAATTTTATAT
* *
118936553 TAAAATAATATATTTTTATTT
1 TAAAATAATATAATTTTATAT
118936574 TAAAATAAT
1 TAAAATAAT
118936583 GATATGAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 6 0.24
19 3 0.12
20 6 0.24
21 10 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAAAATAATATAATTTTATAT
Found at i:118937020 original size:18 final size:20
Alignment explanation
Indices: 118936986--118937028 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
118936976 TTAAAGAAAT
118936986 TATTA-AAATAAAATTATA-
1 TATTATAAATAAAATTATAC
*
118937004 TATTATAAAT-AAGTTATAC
1 TATTATAAATAAAATTATAC
118937023 TATTAT
1 TATTAT
118937029 GATAATACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
TATTATAAATAAAATTATAC
Found at i:118939124 original size:96 final size:94
Alignment explanation
Indices: 118938957--118939133 Score: 275
Period size: 96 Copynumber: 1.9 Consensus size: 94
118938947 GAATTGAGAC
* *
118938957 TTGAGAATCACGAGAATACAAATAAGTTTCAATTGAAAAGAATGAAATTTGGAGGGATTTATATA
1 TTGAGAATCACGAGAATACAAATAAGTTTCAATTGAAAAGAATAAAATTTAGAGGGATTTATATA
118939022 GGAAAAAAAGATATGGTTGTTGCCATTGGAA
66 GG-AAAAAA-ATATGGTTGTTGCCATTGGAA
** *
118939053 TTGAGAATTGCGAGAATACAAATAAGTTTGAATTGAAAAGAATAAAATTTAGAGGGATTTATAT-
1 TTGAGAATCACGAGAATACAAATAAGTTTCAATTGAAAAGAATAAAATTTAGAGGGATTTATATA
118939117 GGCAAAAAAATATGGTT
66 GG-AAAAAAATATGGTT
118939134 ATTTCTCACT
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
94 8 0.11
95 8 0.11
96 59 0.79
ACGTcount: A:0.44, C:0.05, G:0.22, T:0.29
Consensus pattern (94 bp):
TTGAGAATCACGAGAATACAAATAAGTTTCAATTGAAAAGAATAAAATTTAGAGGGATTTATATA
GGAAAAAAATATGGTTGTTGCCATTGGAA
Found at i:118939523 original size:6 final size:7
Alignment explanation
Indices: 118939506--118939532 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
118939496 CATTTATGCT
118939506 TTTTTTC
1 TTTTTTC
118939513 TTTTTTC
1 TTTTTTC
118939520 TTTTTTC
1 TTTTTTC
118939527 TTTTTT
1 TTTTTT
118939533 ATGAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:118941128 original size:21 final size:20
Alignment explanation
Indices: 118941086--118941128 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
118941076 CAGTTTGCTC
* * *
118941086 TTGTAAGGGAATTTGAATAT
1 TTGTAAGGGAACTTCAACAT
118941106 TTGTAATGGGAACTTCAACAT
1 TTGTAA-GGGAACTTCAACAT
118941127 TT
1 TT
118941129 ACAATAGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGTAAGGGAACTTCAACAT
Found at i:118945621 original size:41 final size:41
Alignment explanation
Indices: 118945494--118945670 Score: 161
Period size: 41 Copynumber: 4.4 Consensus size: 41
118945484 ACCAGTTTTG
* * *
118945494 CACCCAGTGCCTCATC-AAATAATTCGAAGT-AATAACTTGA
1 CACCCAGTGCCTCATCGAATTAATCCAAAGTAAATAA-TTGA
** * * *
118945534 CACCCAGTGTCC-CATC-AGCTAAACCGAAGT--A-AATTGG
1 CACCCAGTG-CCTCATCGAATTAATCCAAAGTAAATAATTGA
118945571 CACCCAGTGCCTCATCGAATTAATCCAAAGTAAATAATTGA
1 CACCCAGTGCCTCATCGAATTAATCCAAAGTAAATAATTGA
* * *
118945612 CACCTAGTGCCTTATCGAATTAATCCGAAGTAAATAATTGA
1 CACCCAGTGCCTCATCGAATTAATCCAAAGTAAATAATTGA
* * *
118945653 CATCCAGTGTCTTATCGA
1 CACCCAGTGCCTCATCGA
118945671 CTCGAGGTCG
Statistics
Matches: 115, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
36 2 0.02
37 16 0.14
38 12 0.10
39 1 0.01
40 24 0.21
41 60 0.52
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (41 bp):
CACCCAGTGCCTCATCGAATTAATCCAAAGTAAATAATTGA
Found at i:118946861 original size:10 final size:10
Alignment explanation
Indices: 118946846--118946891 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
118946836 ATTCTAAAAT
118946846 ATAAATACAA-
1 ATAAATA-AAG
118946856 ATAAATAAAG
1 ATAAATAAAG
*
118946866 ATAATTAAAG
1 ATAAATAAAG
*
118946876 ATAAATAAAA
1 ATAAATAAAG
118946886 ATAAAT
1 ATAAAT
118946892 CCTAAATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
9 2 0.06
10 30 0.94
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (10 bp):
ATAAATAAAG
Found at i:118946869 original size:20 final size:20
Alignment explanation
Indices: 118946840--118946891 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
118946830 AATTAAATTC
118946840 TAAAATATAAATACAA-ATAAA
1 TAAAA-ATAAATA-AAGATAAA
* *
118946861 TAAAGATAATTAAAGATAAA
1 TAAAAATAAATAAAGATAAA
118946881 TAAAAATAAAT
1 TAAAAATAAAT
118946892 CCTAAATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 2 0.08
20 20 0.77
21 4 0.15
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (20 bp):
TAAAAATAAATAAAGATAAA
Found at i:118955261 original size:12 final size:12
Alignment explanation
Indices: 118955246--118955270 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
118955236 AAAATAAAAA
118955246 TCGAATTGAAAT
1 TCGAATTGAAAT
118955258 TCGAATTGAAAT
1 TCGAATTGAAAT
118955270 T
1 T
118955271 GAGAAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (12 bp):
TCGAATTGAAAT
Found at i:118955288 original size:17 final size:18
Alignment explanation
Indices: 118955266--118955299 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
118955256 ATTCGAATTG
118955266 AAATTGAG-AAATTAAAT
1 AAATTGAGAAAATTAAAT
*
118955283 AAATTGTGAAAATTAAA
1 AAATTGAGAAAATTAAA
118955300 ATAGAAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (18 bp):
AAATTGAGAAAATTAAAT
Found at i:118956045 original size:10 final size:10
Alignment explanation
Indices: 118956018--118956067 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
118956008 TTAAATTCTA
118956018 AAAGATAAAT
1 AAAGATAAAT
118956028 ACAA-ATAAAT
1 A-AAGATAAAT
*
118956038 AAAGATAATT
1 AAAGATAAAT
*
118956048 AAAGATAAAC
1 AAAGATAAAT
*
118956058 AAAAATAAAT
1 AAAGATAAAT
118956068 CCTAAATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
9 2 0.06
10 29 0.88
11 2 0.06
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:118957309 original size:22 final size:23
Alignment explanation
Indices: 118957266--118957309 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
118957256 AACCCTAGTT
*
118957266 TTTTATCCTTTCTTTTTCTTTCC
1 TTTTATCCTTTCTATTTCTTTCC
118957289 TTTT-TCC-TTCTATTTCGTTTC
1 TTTTATCCTTTCTATTTC-TTTC
118957310 AACTTTCTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.05, C:0.25, G:0.02, T:0.68
Consensus pattern (23 bp):
TTTTATCCTTTCTATTTCTTTCC
Found at i:118957417 original size:5 final size:5
Alignment explanation
Indices: 118957373--118957410 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
118957363 AGTTATTATA
118957373 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
118957411 TAATATATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:118957450 original size:14 final size:15
Alignment explanation
Indices: 118957426--118957462 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
118957416 TATTATTATG
*
118957426 AAAAAAAAATAAAAT
1 AAAATAAAATAAAAT
118957441 -AAATAAAATAAAAT
1 AAAATAAAATAAAAT
118957455 AAAATAAA
1 AAAATAAA
118957463 GAACACACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAATAAAATAAAAT
Found at i:118957453 original size:19 final size:19
Alignment explanation
Indices: 118957426--118957462 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
118957416 TATTATTATG
118957426 AAAAAAAAATAAAATAAAT
1 AAAAAAAAATAAAATAAAT
*
118957445 AAAATAAAATAAAATAAA
1 AAAAAAAAATAAAATAAA
118957463 GAACACACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (19 bp):
AAAAAAAAATAAAATAAAT
Found at i:118957459 original size:5 final size:5
Alignment explanation
Indices: 118957426--118957462 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
118957416 TATTATTATG
*
118957426 AAAAA AAAAT AAAAT -AAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
118957463 GAACACACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:118962608 original size:30 final size:30
Alignment explanation
Indices: 118962547--118962627 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
118962537 TGGTACATTA
* * * *
118962547 CTCACACAAGCTTATAGTATATCGAGTTTG
1 CTCACACAAGCTGACATTATAACGAGTTTG
118962577 CTCACACAAGCTGACATTATAACAGAG-TTG
1 CTCACACAAGCTGACATTATAAC-GAGTTTG
*
118962607 CTCGCACAAGCTGACATTATA
1 CTCACACAAGCTGACATTATA
118962628 TCAATGTTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
30 42 0.93
31 3 0.07
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.27
Consensus pattern (30 bp):
CTCACACAAGCTGACATTATAACGAGTTTG
Found at i:118964721 original size:22 final size:22
Alignment explanation
Indices: 118964696--118964739 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
118964686 TAGTCATATA
118964696 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
118964718 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
118964740 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:118964775 original size:13 final size:14
Alignment explanation
Indices: 118964759--118964800 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
118964749 TTTCAATTTT
118964759 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
118964772 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
118964787 ATTTTAAATAATAT
1 ATTTT-AATAATAT
118964801 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:118964785 original size:16 final size:16
Alignment explanation
Indices: 118964763--118964799 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
118964753 AATTTTATTT
118964763 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
118964780 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
118964795 TAATA
1 TAATA
118964800 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:118966667 original size:26 final size:27
Alignment explanation
Indices: 118966610--118966667 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
118966600 AAATAATTTT
*
118966610 TAAAATTTAAAATATTTATAAAAATTC
1 TAAAATTTAAAATATTTATAAAAATTA
* *
118966637 CAAAATTTATATATATTT-T-AAAATTA
1 TAAAATTTA-AAATATTTATAAAAATTA
118966663 TAAAA
1 TAAAA
118966668 AAAATTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 10 0.38
27 9 0.35
28 7 0.27
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (27 bp):
TAAAATTTAAAATATTTATAAAAATTA
Found at i:118967588 original size:7 final size:7
Alignment explanation
Indices: 118967549--118967626 Score: 59
Period size: 7 Copynumber: 10.1 Consensus size: 7
118967539 TTTATTAATT
118967549 TAAAAAA
1 TAAAAAA
118967556 TTATAAAAA
1 -TA-AAAAA
*
118967565 T-AGAAA
1 TAAAAAA
118967571 TAAAAATA
1 TAAAAA-A
118967579 TAAAAAA
1 TAAAAAA
118967586 TAAAAAA
1 TAAAAAA
*
118967593 TATATATAA
1 TA-A-AAAA
118967602 TAATAAAGTA
1 TAA-AAA--A
118967612 TAAAAAA
1 TAAAAAA
118967619 TAAAAAA
1 TAAAAAA
118967626 T
1 T
118967627 CATTAATTCC
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
6 5 0.08
7 22 0.37
8 15 0.25
9 13 0.22
10 4 0.07
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (7 bp):
TAAAAAA
Found at i:118970034 original size:31 final size:31
Alignment explanation
Indices: 118969973--118970034 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
118969963 ATATTTTATA
* *
118969973 TTTGTTTAAATTTGACCCGACTTGAAATATG
1 TTTGTTTAAATCTGACCCGACCTGAAATATG
* *
118970004 TTTGTTTAAATCTGACCCGTCCTGACATATG
1 TTTGTTTAAATCTGACCCGACCTGAAATATG
118970035 GGCTTAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (31 bp):
TTTGTTTAAATCTGACCCGACCTGAAATATG
Found at i:118970131 original size:17 final size:15
Alignment explanation
Indices: 118970088--118970134 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
118970078 GTTTTGAAAA
118970088 AATTTTATATTATTTT
1 AATTTTATA-TATTTT
*
118970104 TATTTTA-ATATTTAAT
1 AATTTTATATATTT--T
118970120 AATTTTATATATTTT
1 AATTTTATATATTTT
118970135 TTACTTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
14 5 0.19
15 2 0.08
16 13 0.50
17 6 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
AATTTTATATATTTT
Found at i:118971803 original size:62 final size:63
Alignment explanation
Indices: 118971713--118971833 Score: 145
Period size: 62 Copynumber: 1.9 Consensus size: 63
118971703 ATAAGGGGCC
* * * * *
118971713 TAATAAAAATTTTCTAAAAAATTCAAGGGAGAAATGAAAATTTCCAAAAATTTT-GGAGAACT
1 TAATAAAAATTTGCTAAAAAATTAAAGGGAAAAATAAAAATATCCAAAAATTTTAGGAGAACT
* ** * *
118971775 TAATTAAAATTTGCTAAAAGTTTAAAGGGAAAAATAAAAATATCCCAAATTTTTAGGAG
1 TAATAAAAATTTGCTAAAAAATTAAAGGGAAAAATAAAAATATCCAAAAATTTTAGGAG
118971834 GGGGGAGTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
62 44 0.92
63 4 0.08
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (63 bp):
TAATAAAAATTTGCTAAAAAATTAAAGGGAAAAATAAAAATATCCAAAAATTTTAGGAGAACT
Found at i:118972290 original size:18 final size:17
Alignment explanation
Indices: 118972242--118972304 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
118972232 TAAACTTACT
*
118972242 AAAATTATAAACATTTATA
1 AAAATTATAAA-A-TTAAA
* *
118972261 AACATTACAAAATATAAA
1 AAAATTATAAAAT-TAAA
118972279 AAAATTATAAAATTAATA
1 AAAATTATAAAATTAA-A
*
118972297 AAACTTAT
1 AAAATTAT
118972305 TCAAAACATT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
17 4 0.11
18 23 0.64
19 9 0.25
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTATAAAATTAAA
Found at i:118972320 original size:37 final size:36
Alignment explanation
Indices: 118972278--118972368 Score: 98
Period size: 37 Copynumber: 2.5 Consensus size: 36
118972268 CAAAATATAA
118972278 AAAAATTATAAAATTAATAAAACTTATTCAA-AACATTT
1 AAAAATTATAAAATTAATAAAA-TTATT-AATAA-ATTT
* * * *
118972316 -AAAATTAAAAAATGAATTAAATTCTTAATAAATTT
1 AAAAATTATAAAATTAATAAAATTATTAATAAATTT
118972351 AAAAATTATAAAA-TAATA
1 AAAAATTATAAAATTAATA
118972369 TTAAAAAACA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
35 9 0.20
36 17 0.39
37 18 0.41
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (36 bp):
AAAAATTATAAAATTAATAAAATTATTAATAAATTT
Found at i:118972822 original size:19 final size:19
Alignment explanation
Indices: 118972798--118972834 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
118972788 AGTCTAATTC
* *
118972798 AAGTTTGTATAATTTTTAT
1 AAGTTTATATAAATTTTAT
118972817 AAGTTTATATAAATTTTA
1 AAGTTTATATAAATTTTA
118972835 ATACATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
AAGTTTATATAAATTTTAT
Found at i:118972833 original size:20 final size:20
Alignment explanation
Indices: 118972798--118972855 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
118972788 AGTCTAATTC
*
118972798 AAGTTTGTAT-AATTTTTAT
1 AAGTTTATATAAATTTTTAT
*
118972817 AAGTTTATATAAATTTTAAT
1 AAGTTTATATAAATTTTTAT
* *
118972837 ACA-TTTTTATAAAATTTTA
1 A-AGTTTATATAAATTTTTA
118972856 ATATCTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
19 9 0.28
20 22 0.69
21 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (20 bp):
AAGTTTATATAAATTTTTAT
Found at i:118976199 original size:2 final size:2
Alignment explanation
Indices: 118976194--118976225 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
118976184 TTATTTGTTG
118976194 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
118976226 CCTTGAATCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:118980321 original size:2 final size:2
Alignment explanation
Indices: 118980316--118980348 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
118980306 TTTATTTGCC
*
118980316 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
118980349 CCTTGAATCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:118981609 original size:21 final size:21
Alignment explanation
Indices: 118981585--118981625 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
118981575 AACAAAAGGG
118981585 TTAATTAGTAA-AATTTAATTA
1 TTAATT-GTAAGAATTTAATTA
*
118981606 TTAATTTTAAGAATTTAATT
1 TTAATTGTAAGAATTTAATT
118981626 TCAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (21 bp):
TTAATTGTAAGAATTTAATTA
Found at i:118982019 original size:20 final size:19
Alignment explanation
Indices: 118981985--118982022 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
118981975 ATGTATCTCT
118981985 AAATAAAATAATATAGTAA
1 AAATAAAATAATATAGTAA
*
118982004 AAATAAATTAAATATAGTA
1 AAATAAAAT-AATATAGTA
118982023 CCATAGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
AAATAAAATAATATAGTAA
Found at i:118996187 original size:15 final size:15
Alignment explanation
Indices: 118996167--118996207 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
118996157 AAAATATAAC
118996167 AATAATAGTAACAAT
1 AATAATAGTAACAAT
*
118996182 AATAATAGTAATAAT
1 AATAATAGTAACAAT
118996197 AA-AATATGTAA
1 AATAATA-GTAA
118996208 ATAAAGGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (15 bp):
AATAATAGTAACAAT
Found at i:118996235 original size:26 final size:27
Alignment explanation
Indices: 118996197--118996253 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
118996187 TAGTAATAAT
* * *
118996197 AAAATATGTAAAT-AAAGGAATAAAGA
1 AAAATATGAAAATGAAAAGAACAAAGA
* *
118996223 AAAATGTGAAAATGAAAAGAGCAAAGA
1 AAAATATGAAAATGAAAAGAACAAAGA
118996250 AAAA
1 AAAA
118996254 AAATGTACAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.67, C:0.02, G:0.18, T:0.14
Consensus pattern (27 bp):
AAAATATGAAAATGAAAAGAACAAAGA
Found at i:118997460 original size:16 final size:16
Alignment explanation
Indices: 118997437--118997480 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
118997427 TTTCTGTTGC
*
118997437 TAGTTTGGGTTATGGGT
1 TAGTTTGGGCTA-GGGT
118997454 T-GTTTGGGCTAGGGT
1 TAGTTTGGGCTAGGGT
118997469 TAGTTTTGGGCT
1 TAG-TTTGGGCT
118997481 TGTAAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 5 0.21
16 10 0.42
17 9 0.38
ACGTcount: A:0.09, C:0.05, G:0.41, T:0.45
Consensus pattern (16 bp):
TAGTTTGGGCTAGGGT
Done.