Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 374 of 378
Found at i:111724584 original size:21 final size:21
Alignment explanation
Indices: 111724560--111724613 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
111724550 AGTGAATTGA
111724560 TCTGATT-TAGTGGTTAAATGT
1 TCTGATTAT-GTGGTTAAATGT
*
111724581 TCTGATTATGTGGTTAAATGA
1 TCTGATTATGTGGTTAAATGT
*
111724602 CCTGATTATGTG
1 TCTGATTATGTG
111724614 TCTGAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.44
Consensus pattern (21 bp):
TCTGATTATGTGGTTAAATGT
Found at i:111726327 original size:18 final size:18
Alignment explanation
Indices: 111726304--111726338 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
111726294 TAATTATAAT
*
111726304 ATCTAAGTATAAATTAGC
1 ATCTAAATATAAATTAGC
*
111726322 ATCTAAATATTAATTAG
1 ATCTAAATATAAATTAG
111726339 GTAAAAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (18 bp):
ATCTAAATATAAATTAGC
Found at i:111727109 original size:23 final size:23
Alignment explanation
Indices: 111727079--111727124 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
111727069 AGTGCCCCAA
111727079 TTTTTTGATGTCTTATTGGTGGG
1 TTTTTTGATGTCTTATTGGTGGG
111727102 TTTTTTGATGTCTTATTGGTGGG
1 TTTTTTGATGTCTTATTGGTGGG
111727125 GTTATCATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.04, G:0.30, T:0.57
Consensus pattern (23 bp):
TTTTTTGATGTCTTATTGGTGGG
Found at i:111730587 original size:175 final size:175
Alignment explanation
Indices: 111730292--111730646 Score: 557
Period size: 175 Copynumber: 2.0 Consensus size: 175
111730282 AGGAAAAGTT
*
111730292 AAATAAAGTGAGAGAAAAAAGATTCATTTTCTTTATTTGAACAAGCGAATTTTATAAAGAGAGAG
1 AAATAAAGTGAGAGAAAAAAGATTCATTTTCTTTATTTGAACAAGCGAATTTTAGAAAGAGAGAG
* *
111730357 AAAGAAAAATAATTGAGAATCCCTCGCTTTATTTAGCTTTACTCCACTTTTTAATATCCCAATTA
66 AAAGAAAAAGAATTGAGAATCCCTCGCTTTATTTAGCTTTACTCCACTGTTTAATATCCCAATTA
* *
111730422 AGGGGAAATGAGAGGAAAGAAAATGCAAATAACTCTACAATATTA
131 AGAGAAAATGAGAGGAAAGAAAATGCAAATAACTCTACAATATTA
** * **
111730467 AAATAAAGTGAGAGAAAAGGGATTCATTTTCTTTATTTGGACAATTGAATTTTAGAAAGAGAGAG
1 AAATAAAGTGAGAGAAAAAAGATTCATTTTCTTTATTTGAACAAGCGAATTTTAGAAAGAGAGAG
* * * * * *
111730532 AAAGGAAAGGAATTGAGAATCCCTCGCTTTCTTTAGTTTTATTCCACTGTTTAATATCCCAATTG
66 AAAGAAAAAGAATTGAGAATCCCTCGCTTTATTTAGCTTTACTCCACTGTTTAATATCCCAATTA
*
111730597 TGAGAAAATGAGAGGAAAGAAAATGCAAATAACTCTACAATATTA
131 AGAGAAAATGAGAGGAAAGAAAATGCAAATAACTCTACAATATTA
111730642 AAATA
1 AAATA
111730647 TTATTTTTAT
Statistics
Matches: 163, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
175 163 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (175 bp):
AAATAAAGTGAGAGAAAAAAGATTCATTTTCTTTATTTGAACAAGCGAATTTTAGAAAGAGAGAG
AAAGAAAAAGAATTGAGAATCCCTCGCTTTATTTAGCTTTACTCCACTGTTTAATATCCCAATTA
AGAGAAAATGAGAGGAAAGAAAATGCAAATAACTCTACAATATTA
Found at i:111744183 original size:27 final size:25
Alignment explanation
Indices: 111744124--111744174 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
111744114 TAGAATATAG
111744124 ATAGGTTTGATTGTGATTTTTTTTT
1 ATAGGTTTGATTGTGATTTTTTTTT
111744149 ATAGGTTTGATTGTGATTTTTTTTT
1 ATAGGTTTGATTGTGATTTTTTTTT
111744174 A
1 A
111744175 CTTCAGTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.20, T:0.63
Consensus pattern (25 bp):
ATAGGTTTGATTGTGATTTTTTTTT
Found at i:111747032 original size:21 final size:21
Alignment explanation
Indices: 111747002--111747043 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
111746992 ACAAATATAT
111747002 AAATAATTAAAATTTTATAAA
1 AAATAATTAAAATTTTATAAA
* *
111747023 AAATATTTAAATTTTTATAAA
1 AAATAATTAAAATTTTATAAA
111747044 CCGGTTGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATAATTAAAATTTTATAAA
Found at i:111749987 original size:2 final size:2
Alignment explanation
Indices: 111749980--111750012 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
111749970 AATACATGTG
111749980 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
111750013 GTGGCAGCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:111750301 original size:2 final size:2
Alignment explanation
Indices: 111750294--111750322 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
111750284 TATAAAACTA
111750294 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
111750323 GATAGATAGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:111750401 original size:31 final size:32
Alignment explanation
Indices: 111750348--111750407 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
111750338 ATGTTAGAAG
111750348 TAAGATAATTTAATAAATAATAT-AAATATGA
1 TAAGATAATTTAATAAATAATATGAAATATGA
* *
111750379 TAAGA-AATTTGATTAATGAATATGAAATA
1 TAAGATAATTTAATAAAT-AATATGAAATA
111750408 ATTCATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.40
31 10 0.40
32 5 0.20
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (32 bp):
TAAGATAATTTAATAAATAATATGAAATATGA
Found at i:111752025 original size:5 final size:5
Alignment explanation
Indices: 111752015--111752059 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
111752005 TTATAATGTG
111752015 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
111752060 TCTGAACAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:111759172 original size:20 final size:21
Alignment explanation
Indices: 111759149--111759197 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
111759139 ATAATAAAAG
111759149 AATTATAAAAAAATATTAA-T
1 AATTATAAAAAAATATTAATT
* ***
111759169 AATTTTATTTAAATATTAATT
1 AATTATAAAAAAATATTAATT
111759190 AATTATAA
1 AATTATAA
111759198 TATTATAAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AATTATAAAAAAATATTAATT
Found at i:111759427 original size:37 final size:40
Alignment explanation
Indices: 111759375--111759454 Score: 103
Period size: 37 Copynumber: 2.1 Consensus size: 40
111759365 TAAACTCCCC
* *
111759375 TAAAAATAATAAAATTTTAATTTAATT-T-TTTAAAATTA
1 TAAAAATAATAAAATTATAATTTAATTATCTTAAAAATTA
* *
111759413 TAAAAAT-ATAAAATTATATTTTTATTATCTTAAAAATTA
1 TAAAAATAATAAAATTATAATTTAATTATCTTAAAAATTA
111759452 TAA
1 TAA
111759455 TTTATTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 16 0.44
38 8 0.22
39 12 0.33
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (40 bp):
TAAAAATAATAAAATTATAATTTAATTATCTTAAAAATTA
Found at i:111759464 original size:29 final size:29
Alignment explanation
Indices: 111759385--111759468 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 29
111759375 TAAAAATAAT
* *
111759385 AAAATTTTAATTTAATTTTTTAAAATTATA
1 AAAATTATAATTT-ATTTTTTATAATTATA
* *
111759415 AAAA-TATAAAATTATATTTTTATTATCT-TA
1 AAAATTAT-AATTTAT-TTTTTATAAT-TATA
111759445 AAAATTATAATTTATTTTTTATAA
1 AAAATTATAATTTATTTTTTATAA
111759469 AAAAATTAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
29 12 0.27
30 28 0.64
31 4 0.09
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (29 bp):
AAAATTATAATTTATTTTTTATAATTATA
Found at i:111759470 original size:22 final size:24
Alignment explanation
Indices: 111759419--111759470 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 24
111759409 ATTATAAAAA
*
111759419 TATAAAATTATATTTTTATTATCT
1 TATAAAATTATATATTTATTATCT
*
111759443 TA-AAAATTATA-ATTTATT-TTT
1 TATAAAATTATATATTTATTATCT
111759464 TATAAAA
1 TATAAAA
111759471 AAATTAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 4 0.16
22 10 0.40
23 9 0.36
24 2 0.08
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
TATAAAATTATATATTTATTATCT
Found at i:111759525 original size:41 final size:41
Alignment explanation
Indices: 111759479--111759561 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
111759469 AAAAATTAAC
111759479 TTCACCCGTGTGTGTATGTATATATAAATTGACAAAAGCAT
1 TTCACCCGTGTGTGTATGTATATATAAATTGACAAAAGCAT
*
111759520 TTCACCCGTGTGTGTATGTGTATATAAATTGACAAAAGCAT
1 TTCACCCGTGTGTGTATGTATATATAAATTGACAAAAGCAT
111759561 T
1 T
111759562 GCAAGTTGCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (41 bp):
TTCACCCGTGTGTGTATGTATATATAAATTGACAAAAGCAT
Found at i:111761148 original size:20 final size:20
Alignment explanation
Indices: 111761113--111761164 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
111761103 TGTTGAAATC
* *
111761113 ATATTG-ATTAGATTAAAAG
1 ATATTGAATTGGATTAAAAA
111761132 ATATTGAATTGGATTAAAAA
1 ATATTGAATTGGATTAAAAA
111761152 ATCGATTGAATTG
1 AT--ATTGAATTG
111761165 AGAAATTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 6 0.21
20 13 0.46
22 9 0.32
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.37
Consensus pattern (20 bp):
ATATTGAATTGGATTAAAAA
Found at i:111764169 original size:2 final size:2
Alignment explanation
Indices: 111764162--111764191 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
111764152 TTATTTAAAC
111764162 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
111764192 TTACTTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111766919 original size:22 final size:23
Alignment explanation
Indices: 111766882--111766925 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
111766872 GTCTGGGTTT
* *
111766882 ATTTTGAGTTTAAATATATTTAA
1 ATTTTAAGTTTAAATAAATTTAA
111766905 ATTTTAAG-TTAAATAAATTTA
1 ATTTTAAGTTTAAATAAATTTA
111766926 GATTAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (23 bp):
ATTTTAAGTTTAAATAAATTTAA
Found at i:111769877 original size:92 final size:91
Alignment explanation
Indices: 111769719--111769951 Score: 283
Period size: 92 Copynumber: 2.5 Consensus size: 91
111769709 CCCATGTCAA
* * * * * * *
111769719 AACACTTGGTTTGAGA-TAATTTTCAATTTTTCGATTTCTCCTACTCAACCTTACTAACGACTAA
1 AACACTTGGTTTGA-ATTGATTTTCAATTTCTCAATTTTTTCTACTCAACCCTACTAACGACCAA
* *
111769783 TTTATTGGTCCTATTGAGTTTAGGCAG
65 TTTATTGATCCTATTGAGTTTAGACAG
*
111769810 AACACTTGGTTTTGAATTGATTTTCAATTTCTCAATTTTTTCTACTCAACCCTA-TGAATGACCA
1 AACACTTGG-TTTGAATTGATTTTCAATTTCTCAATTTTTTCTACTCAACCCTACT-AACGACCA
* *
111769874 ATTTGTTGATCCTATTGATTTTAGACAG
64 ATTTATTGATCCTATTGAGTTTAGACAG
**
111769902 AACACTTAATTTGAATTGATTTTCAATTTCTCAA-TTTTTCTTACTCAACC
1 AACACTTGGTTTGAATTGATTTTCAATTTCTCAATTTTTTC-TACTCAACC
111769952 TTATAAATAA
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
90 6 0.05
91 45 0.36
92 73 0.59
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.43
Consensus pattern (91 bp):
AACACTTGGTTTGAATTGATTTTCAATTTCTCAATTTTTTCTACTCAACCCTACTAACGACCAAT
TTATTGATCCTATTGAGTTTAGACAG
Found at i:111769951 original size:91 final size:91
Alignment explanation
Indices: 111769737--111769988 Score: 301
Period size: 91 Copynumber: 2.7 Consensus size: 91
111769727 GTTTGAGATA
* * * * * * * * *
111769737 ATTTTCAATTTTTCGATTTCTCCTACTCAACCTTACTAACGACTAATTTATTGGTCCTATTGAGT
1 ATTTTCAATTTCTCAATTTTTCTTACTCAACCTTA-TAATGACCAATTTGTTGATCCTATTGATT
* **
111769802 TTAGGCAGAACACTTGGTTTTGAATTG
65 TTAGACAGAACACTTGAATTTGAATTG
*
111769829 ATTTTCAATTTCTCAATTTTT-TCTACTCAACCCTATGAATGACCAATTTGTTGATCCTATTGAT
1 ATTTTCAATTTCTCAATTTTTCT-TACTCAACCTTAT-AATGACCAATTTGTTGATCCTATTGAT
111769893 TTTAGACAGAACACTT-AATTTGAATTG
64 TTTAGACAGAACACTTGAATTTGAATTG
* ** *
111769920 ATTTTCAATTTCTCAATTTTTCTTACTCAACCTTATAAATAACCAGCTTGTTTATCCTATTGATT
1 ATTTTCAATTTCTCAATTTTTCTTACTCAACCTTAT-AATGACCAATTTGTTGATCCTATTGATT
111769985 TTAG
65 TTAG
111769989 GTAGCTACTT
Statistics
Matches: 138, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
91 71 0.51
92 67 0.49
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.44
Consensus pattern (91 bp):
ATTTTCAATTTCTCAATTTTTCTTACTCAACCTTATAATGACCAATTTGTTGATCCTATTGATTT
TAGACAGAACACTTGAATTTGAATTG
Found at i:111772373 original size:145 final size:144
Alignment explanation
Indices: 111772110--111772380 Score: 393
Period size: 145 Copynumber: 1.9 Consensus size: 144
111772100 GCTTTTGCTC
111772110 AAATAATAAAATTGAGAGAGTAAAATATAAGGTTTCTTAGATATAAATCCATATGTTTTTTTTTA
1 AAATAATAAAATTGAGAGAGTAAAATATAAGGTTTC-TAGATATAAATCCATATGTTTTTTTTTA
* * *
111772175 GATTTATTAAAATATAAAAAGACATAAATATCCTTAAAATAATATTTATTGATTTATAAAATGAA
65 GATTTATCAAAATATAAAAAGACATAAATACCCTCAAAATAATATTTATTGATTTATAAAATGAA
111772240 ACGTAATTTTTATTG
130 ACGTAATTTTTATTG
* * * *
111772255 AAATAATAAAATTGAGAGAGTAAACTTTAAGGTTTC-CGAT-TCAAATTCATATGTTTTTTTTTC
1 AAATAATAAAATTGAGAGAGTAAAATATAAGGTTTCTAGATAT-AAATCCATATG-TTTTTTTT-
* * **
111772318 TCGATTTATCAAAATATAGAAAGGTATAAATACCCTCAAAATAATATTTATTGATTTATAAAA
63 TAGATTTATCAAAATATAAAAAGACATAAATACCCTCAAAATAATATTTATTGATTTATAAAA
111772381 CGAATATATT
Statistics
Matches: 112, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
142 1 0.01
143 13 0.12
144 8 0.07
145 90 0.80
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (144 bp):
AAATAATAAAATTGAGAGAGTAAAATATAAGGTTTCTAGATATAAATCCATATGTTTTTTTTTAG
ATTTATCAAAATATAAAAAGACATAAATACCCTCAAAATAATATTTATTGATTTATAAAATGAAA
CGTAATTTTTATTG
Found at i:111772839 original size:31 final size:31
Alignment explanation
Indices: 111772801--111772866 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
111772791 TTATAATATG
* ** * *
111772801 GTCATTGAATTATTTGAAAGTTTTTATTTAA
1 GTCATTGAACTATTCAAAAATTTTCATTTAA
111772832 GTCATTGAACTATTCAAAAATTTTCATTTAA
1 GTCATTGAACTATTCAAAAATTTTCATTTAA
111772863 GTCA
1 GTCA
111772867 CCAGGCTGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (31 bp):
GTCATTGAACTATTCAAAAATTTTCATTTAA
Found at i:111777340 original size:26 final size:25
Alignment explanation
Indices: 111777291--111777343 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
111777281 AAAAAGTTAT
* *
111777291 TTTTTTTGTTAAAATTGTTATTTAA
1 TTTTGTTGTTAAAAATGTTATTTAA
* *
111777316 TTTTGTTGTTAAAAATGTTTTTTTA
1 TTTTGTTGTTAAAAATGTTATTTAA
111777341 TTT
1 TTT
111777344 CATCAATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (25 bp):
TTTTGTTGTTAAAAATGTTATTTAA
Found at i:111779547 original size:63 final size:65
Alignment explanation
Indices: 111779439--111779575 Score: 215
Period size: 63 Copynumber: 2.1 Consensus size: 65
111779429 TTTCCCTTAC
* * *
111779439 CACAAACATCTTCATTATATAACTTAAGGGCCAGTAGTTACACAAATAAGAGAATAC-ACATATA
1 CACATACATCTCCATTATATAACTTAAGGGCCAGTAGTTACACAAATAAGAGAATACAACACATA
*
111779503 CACATACATCTCCATTATATAACTT-AGGGCCAGTAGTTACACAAATAAGAGGATACATACACAT
1 CACATACATCTCCATTATATAACTTAAGGGCCAGTAGTTACACAAATAAGAGAATACA-ACACAT
111779567 A
65 A
111779568 CACATACA
1 CACATACA
111779576 CATACACATA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
63 30 0.45
64 23 0.34
65 14 0.21
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.24
Consensus pattern (65 bp):
CACATACATCTCCATTATATAACTTAAGGGCCAGTAGTTACACAAATAAGAGAATACAACACATA
Found at i:111779568 original size:6 final size:6
Alignment explanation
Indices: 111779557--111779602 Score: 78
Period size: 6 Copynumber: 8.0 Consensus size: 6
111779547 ATAAGAGGAT
111779557 ACATAC ACATAC ACATAC ACATAC ACATAC AC--AC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
111779603 CTCTCCATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.11
6 34 0.89
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (6 bp):
ACATAC
Found at i:111779638 original size:93 final size:93
Alignment explanation
Indices: 111779494--111779762 Score: 386
Period size: 93 Copynumber: 2.9 Consensus size: 93
111779484 ATAAGAGAAT
* * *
111779494 ACACATATACACATACATCTCCATTATATAACTTAGGGCCAGTAGTTACACAAATAAGAGGATAC
1 ACACACATACACATACCTCTCCATTATATAACTTAAGGCCAGTAGTTACACAAATAAGAGGATAC
111779559 ATACACATACACATACACATACACATAC
66 ATACACATACACATACACATACACATAC
111779587 ACACACATACACATACCTCTCCATTATATAACTTAAGGCCAGTAGTTACACAAATAAGA-G---C
1 ACACACATACACATACCTCTCCATTATATAACTTAAGGCCAGTAGTTACACAAATAAGAGGATAC
111779648 ATACACATACACATACACATACACATAC
66 ATACACATACACATACACATACACATAC
* * *
111779676 ACATACACATACACATACAC-ATACATTATATAACTTAAGGCACAGTAGTTACACAAATAAGAGA
1 AC--ACACATACACATAC-CTCTCCATTATATAACTTAAGGC-CAGTAGTTACACAAATAAGAGG
*
111779740 ATACACATACACATAGACATACA
62 AT--ACATACACATACACATACA
111779763 TCTCCATTAT
Statistics
Matches: 159, Mismatches: 7, Indels: 15
0.88 0.04 0.08
Matches are distributed among these distances:
89 31 0.19
91 33 0.21
92 22 0.14
93 56 0.35
98 17 0.11
ACGTcount: A:0.46, C:0.25, G:0.08, T:0.22
Consensus pattern (93 bp):
ACACACATACACATACCTCTCCATTATATAACTTAAGGCCAGTAGTTACACAAATAAGAGGATAC
ATACACATACACATACACATACACATAC
Found at i:111779658 original size:6 final size:6
Alignment explanation
Indices: 111779647--111779700 Score: 108
Period size: 6 Copynumber: 9.0 Consensus size: 6
111779637 CAAATAAGAG
111779647 CATACA CATACA CATACA CATACA CATACA CATACA CATACA CATACA
1 CATACA CATACA CATACA CATACA CATACA CATACA CATACA CATACA
111779695 CATACA
1 CATACA
111779701 TTATATAACT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (6 bp):
CATACA
Found at i:111782175 original size:6 final size:6
Alignment explanation
Indices: 111782164--111782214 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
111782154 TCGCCTTTGG
* * * *
111782164 TGTATA TGTATA --TATA TGTATA TGTATG TGTATG TGTATG TGTATG
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
111782210 TGTAT
1 TGTAT
111782215 GTCTATGTGT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
4 4 0.10
6 38 0.90
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (6 bp):
TGTATA
Found at i:111782185 original size:16 final size:16
Alignment explanation
Indices: 111782164--111782204 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
111782154 TCGCCTTTGG
111782164 TGTATATGTATATATA
1 TGTATATGTATATATA
* *
111782180 TGTATATGTATGTGTA
1 TGTATATGTATATATA
*
111782196 TGTGTATGT
1 TGTATATGT
111782205 GTATGTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (16 bp):
TGTATATGTATATATA
Found at i:111782215 original size:6 final size:6
Alignment explanation
Indices: 111782180--111782225 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
111782170 TGTATATATA
* *
111782180 TGTATA TGTATG TGTATG TGTATG TGTATG TGTATG TCTATG TGTA
1 TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTATG TGTA
111782226 CAAGTACGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.20, C:0.02, G:0.28, T:0.50
Consensus pattern (6 bp):
TGTATG
Found at i:111782473 original size:145 final size:145
Alignment explanation
Indices: 111782210--111782523 Score: 502
Period size: 145 Copynumber: 2.2 Consensus size: 145
111782200 TATGTGTATG
* * * **
111782210 TGTATGTCTATGTGTACAAGTACGTATATTGCAATGCAACATAAGTCTAATTATGTCATGGACAT
1 TGTATGTGTATGTGTATATGTACGTATATTGCAATGCAACATAAGTCTAACCATGTCATGGACAT
* * *
111782275 GAAGGATATGAGGGATAGATGATTCTTTTCGTAAATGTGTTATTGTTGGTGGTATGATTTGCAGC
66 GAAGGATATGAGGGATAGATGATTCTTTTCCTAAATGTGCTATTGTTGATGGTATGATTTGCAGC
111782340 CAAGTGAATCCTATA
131 CAAGTGAATCCTATA
* *
111782355 TGTATGTGTATGTATATATGTACGTATATTGCAATGCAACATAATTCTAACCATGTCATGGACAT
1 TGTATGTGTATGTGTATATGTACGTATATTGCAATGCAACATAAGTCTAACCATGTCATGGACAT
111782420 GAAGGATATGAGGGATAGATGATTCTTTTCCTAAATGTGCTATTGTTGATGGTATGATTTGCAGC
66 GAAGGATATGAGGGATAGATGATTCTTTTCCTAAATGTGCTATTGTTGATGGTATGATTTGCAGC
*
111782485 CATGTGAATCCTATA
131 CAAGTGAATCCTATA
*
111782500 TGTATATGTGTATGTGTATGTGTA
1 TG--TATGTGTATGTGTATATGTA
111782524 TCCTTTCGGG
Statistics
Matches: 154, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
145 136 0.88
147 18 0.12
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (145 bp):
TGTATGTGTATGTGTATATGTACGTATATTGCAATGCAACATAAGTCTAACCATGTCATGGACAT
GAAGGATATGAGGGATAGATGATTCTTTTCCTAAATGTGCTATTGTTGATGGTATGATTTGCAGC
CAAGTGAATCCTATA
Found at i:111785449 original size:25 final size:25
Alignment explanation
Indices: 111785421--111785471 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
111785411 TGCTAACGAA
111785421 TGTTTGATTGTCATTAACTCACTAT
1 TGTTTGATTGTCATTAACTCACTAT
111785446 TGTTTGATTGTCATTAACTCACTAT
1 TGTTTGATTGTCATTAACTCACTAT
111785471 T
1 T
111785472 ATTAAGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.49
Consensus pattern (25 bp):
TGTTTGATTGTCATTAACTCACTAT
Found at i:111786814 original size:17 final size:17
Alignment explanation
Indices: 111786782--111786815 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
111786772 AATAAATTAT
* *
111786782 TTAAAAAATGATAAAAA
1 TTAAAAAATAAAAAAAA
111786799 TTAAAAAATAAAAAAAA
1 TTAAAAAATAAAAAAAA
111786816 AATAAAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
TTAAAAAATAAAAAAAA
Found at i:111786828 original size:10 final size:11
Alignment explanation
Indices: 111786801--111786827 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
111786791 GATAAAAATT
111786801 AAAAAATAAAA
1 AAAAAATAAAA
111786812 AAAAAATAAAA
1 AAAAAATAAAA
111786823 AAAAA
1 AAAAA
111786828 TCGATTCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAAATAAAA
Found at i:111792360 original size:24 final size:24
Alignment explanation
Indices: 111792303--111792364 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
111792293 ACACCATATA
* *
111792303 CACCGGCACCTCCACCACCAGAAC
1 CACCTGCACCACCACCACCAGAAC
*
111792327 CACCTCCACCACCACCACCATG-AC
1 CACCTGCACCACCACCACCA-GAAC
*
111792351 CGCCTGCACCACCA
1 CACCTGCACCACCA
111792365 AAACCTCCTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 31 0.97
25 1 0.03
ACGTcount: A:0.27, C:0.56, G:0.10, T:0.06
Consensus pattern (24 bp):
CACCTGCACCACCACCACCAGAAC
Found at i:111792426 original size:30 final size:30
Alignment explanation
Indices: 111792392--111792462 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
111792382 TTCTCCACTG
111792392 CCATATCCACCTGCA-TGTGCCCCTCCACCA
1 CCATATCCACCTGCACT-TGCCCCTCCACCA
* *
111792422 CCATATCCTCCTGCACTTGCTCCTCCACCA
1 CCATATCCACCTGCACTTGCCCCTCCACCA
111792452 CCACT-TCCACC
1 CCA-TATCCACC
111792463 ACCACCTCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 34 0.94
31 2 0.06
ACGTcount: A:0.18, C:0.52, G:0.07, T:0.23
Consensus pattern (30 bp):
CCATATCCACCTGCACTTGCCCCTCCACCA
Found at i:111792460 original size:12 final size:12
Alignment explanation
Indices: 111792443--111792472 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
111792433 TGCACTTGCT
111792443 CCTCCACCACCA
1 CCTCCACCACCA
*
111792455 CTTCCACCACCA
1 CCTCCACCACCA
111792467 CCTCCA
1 CCTCCA
111792473 TGTCCACCGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.23, C:0.63, G:0.00, T:0.13
Consensus pattern (12 bp):
CCTCCACCACCA
Found at i:111792867 original size:69 final size:69
Alignment explanation
Indices: 111792523--111792883 Score: 297
Period size: 69 Copynumber: 5.3 Consensus size: 69
111792513 CGCCTCCTTC
* * *
111792523 ACCACCTCCACCACCATATCCAGAAGCTCCACCACCATATCCACCAGCACTAGCTCCACCGCCAC
1 ACCACCACCACCTCCATATCCAGAAGCTCCACCACCATATCCACCGGCACTAGCTCCACCGCCAC
111792588 CACT
66 CACT
* *** * * * * ** * *
111792592 ACCACCACCACCTCCATGTCCACCGGCT---CCTCCATACCCACCGGCACCACCAGCTCCGCCTC
1 ACCACCACCACCTCCATATCCAGAAGCTCCACCACCATATCCACCGGCACTAGCTCCACCGCCAC
*
111792654 C-TT
66 CACT
* * * * * *
111792657 CGCCACCTCCACCGCCATATCCAGAAGCTCCACCACCATATCCACCTGCATTAGCTCCGCCGCCA
1 -ACCACCACCACCTCCATATCCAGAAGCTCCACCACCATATCCACCGGCACTAGCTCCACCGCCA
111792722 CCACT
65 CCACT
* ** * * * * ** * *
111792727 ACCACCACCACCTCCATGTCCAGCGGCT---CCTCCATACCCACCGGCACCACCAGCTCCGCCTC
1 ACCACCACCACCTCCATATCCAGAAGCTCCACCACCATATCCACCGGCACTAGCTCCACCGCCAC
*
111792789 C-TT
66 CACT
* * * *
111792792 CGCCACCTCCACCGCCATATCCAGAAGCTCCACCACCATATCCACCTGCACTAGCTCCACCGCCA
1 -ACCACCACCACCTCCATATCCAGAAGCTCCACCACCATATCCACCGGCACTAGCTCCACCGCCA
111792857 CCACT
65 CCACT
*
111792862 ACCACCACCACCTCCATGTCCA
1 ACCACCACCACCTCCATATCCA
111792884 CTTGCACCAC
Statistics
Matches: 211, Mismatches: 71, Indels: 20
0.70 0.24 0.07
Matches are distributed among these distances:
65 2 0.01
66 94 0.45
69 113 0.54
70 2 0.01
ACGTcount: A:0.23, C:0.52, G:0.10, T:0.15
Consensus pattern (69 bp):
ACCACCACCACCTCCATATCCAGAAGCTCCACCACCATATCCACCGGCACTAGCTCCACCGCCAC
CACT
Found at i:111792900 original size:117 final size:117
Alignment explanation
Indices: 111792770--111793001 Score: 437
Period size: 117 Copynumber: 2.0 Consensus size: 117
111792760 ATACCCACCG
* * *
111792770 GCACCACCAGCTCCGCCTCCTTCGCCACCTCCACCGCCATATCCAGAAGCTCCACCACCATATCC
1 GCACCACCAGCTCCACCTCCTTCACCACCCCCACCGCCATATCCAGAAGCTCCACCACCATATCC
111792835 ACCTGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCACTT
66 ACCTGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCACTT
111792887 GCACCACCAGCTCCACCTCCTTCACCACCCCCACCGCCATATCCAGAAGCTCCACCACCATATCC
1 GCACCACCAGCTCCACCTCCTTCACCACCCCCACCGCCATATCCAGAAGCTCCACCACCATATCC
111792952 ACCTGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCAC
66 ACCTGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCAC
111793002 CGGCTCCTCC
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
117 112 1.00
ACGTcount: A:0.23, C:0.53, G:0.09, T:0.15
Consensus pattern (117 bp):
GCACCACCAGCTCCACCTCCTTCACCACCCCCACCGCCATATCCAGAAGCTCCACCACCATATCC
ACCTGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCACTT
Found at i:111792913 original size:135 final size:135
Alignment explanation
Indices: 111792414--111792884 Score: 825
Period size: 135 Copynumber: 3.5 Consensus size: 135
111792404 GCATGTGCCC
* * * * *
111792414 CTCCACCACCATATCCTCCTGCACTTGCTCCTCCACCACCACTTCCACCACCACCTCCATGTCCA
1 CTCCACCACCATATCCACCTGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCA
* * * *
111792479 CCGGCTCCTCCATACCCGCCAGCACCACCAGCTCCGCCTCCTTCACCACCTCCACCACCATATCC
66 CCGGCTCCTCCATACCCACCGGCACCACCAGCTCCGCCTCCTTCGCCACCTCCACCGCCATATCC
111792544 AGAAG
131 AGAAG
*
111792549 CTCCACCACCATATCCACCAGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCA
1 CTCCACCACCATATCCACCTGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCA
111792614 CCGGCTCCTCCATACCCACCGGCACCACCAGCTCCGCCTCCTTCGCCACCTCCACCGCCATATCC
66 CCGGCTCCTCCATACCCACCGGCACCACCAGCTCCGCCTCCTTCGCCACCTCCACCGCCATATCC
111792679 AGAAG
131 AGAAG
* *
111792684 CTCCACCACCATATCCACCTGCATTAGCTCCGCCGCCACCACTACCACCACCACCTCCATGTCCA
1 CTCCACCACCATATCCACCTGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCA
*
111792749 GCGGCTCCTCCATACCCACCGGCACCACCAGCTCCGCCTCCTTCGCCACCTCCACCGCCATATCC
66 CCGGCTCCTCCATACCCACCGGCACCACCAGCTCCGCCTCCTTCGCCACCTCCACCGCCATATCC
111792814 AGAAG
131 AGAAG
111792819 CTCCACCACCATATCCACCTGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCA
1 CTCCACCACCATATCCACCTGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCA
111792884 C
66 C
111792885 TTGCACCACC
Statistics
Matches: 319, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
135 319 1.00
ACGTcount: A:0.22, C:0.53, G:0.10, T:0.16
Consensus pattern (135 bp):
CTCCACCACCATATCCACCTGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCA
CCGGCTCCTCCATACCCACCGGCACCACCAGCTCCGCCTCCTTCGCCACCTCCACCGCCATATCC
AGAAG
Found at i:111792923 original size:252 final size:252
Alignment explanation
Indices: 111792635--111793125 Score: 874
Period size: 252 Copynumber: 1.9 Consensus size: 252
111792625 ATACCCACCG
* * *
111792635 GCACCACCAGCTCCGCCTCCTTCGCCACCTCCACCGCCATATCCAGAAGCTCCACCACCATATCC
1 GCACCACCAGCTCCACCTCCTTCACCACCCCCACCGCCATATCCAGAAGCTCCACCACCATATCC
* * *
111792700 ACCTGCATTAGCTCCGCCGCCACCACTACCACCACCACCTCCATGTCCAGCGGCTCCTCCATACC
66 ACCTGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCACCGGCTCCTCCATACC
*
111792765 CACCGGCACCACCAGCTCCGCCTCCTTCGCCACCTCCACCGCCATATCCAGAAGCTCCACCACCA
131 CACCGGCACCACCAGCTCCACCTCCTTCGCCACCTCCACCGCCATATCCAGAAGCTCCACCACCA
* *
111792830 TATCCACCTGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCACTT
196 TATCCACCGGCACTAGCTCCACCACCACCACTACCACCACCACCTCCATGTCCACTT
111792887 GCACCACCAGCTCCACCTCCTTCACCACCCCCACCGCCATATCCAGAAGCTCCACCACCATATCC
1 GCACCACCAGCTCCACCTCCTTCACCACCCCCACCGCCATATCCAGAAGCTCCACCACCATATCC
111792952 ACCTGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCACCGGCTCCTCCATACC
66 ACCTGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCACCGGCTCCTCCATACC
*
111793017 CGCCGGCACCACCAGCTCCACCTCCTTCGCCACCTCCACCGCCATATCCAGAAGCTCCACCACCA
131 CACCGGCACCACCAGCTCCACCTCCTTCGCCACCTCCACCGCCATATCCAGAAGCTCCACCACCA
* *
111793082 TATCCACCGGCACTAGCTCCGCCACCACCACTACCACTACCACC
196 TATCCACCGGCACTAGCTCCACCACCACCACTACCACCACCACC
111793126 ACCACCTCCA
Statistics
Matches: 227, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
252 227 1.00
ACGTcount: A:0.22, C:0.53, G:0.10, T:0.15
Consensus pattern (252 bp):
GCACCACCAGCTCCACCTCCTTCACCACCCCCACCGCCATATCCAGAAGCTCCACCACCATATCC
ACCTGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCACCGGCTCCTCCATACC
CACCGGCACCACCAGCTCCACCTCCTTCGCCACCTCCACCGCCATATCCAGAAGCTCCACCACCA
TATCCACCGGCACTAGCTCCACCACCACCACTACCACCACCACCTCCATGTCCACTT
Found at i:111792979 original size:135 final size:134
Alignment explanation
Indices: 111792848--111793276 Score: 543
Period size: 135 Copynumber: 3.1 Consensus size: 134
111792838 TGCACTAGCT
* * ** * **
111792848 CCACCGCCACCACTACCACCACCACCTCCATGTCCACTTGCACCACCAGCTCCACCTCCTTCACC
1 CCACCACCACCACT-CCACCACCTCCTCCATACCCGCCAGCACCACCAGCTCCACCTCCTTCACC
* *
111792913 ACCCCCACCGCCATATCCAGAAGCTCCACCACCATATCCACCTGCACTAGCTCCACCGCCACCAC
65 ACCTCCACCGCCATATCCAGAAGCTCCACCACCATATCCACCTGCACTAGCTCCACCACCACCAC
111792978 TACCA
130 TACCA
* * ** * *
111792983 CCACCACCTCCATGTCCACCGGCTCCTCCATACCCGCCGGCACCACCAGCTCCACCTCCTTCGCC
1 CCACCACCACCA-CTCCACCACCTCCTCCATACCCGCCAGCACCACCAGCTCCACCTCCTTCACC
* *
111793048 ACCTCCACCGCCATATCCAGAAGCTCCACCACCATATCCACCGGCACTAGCTCCGCCACCACCAC
65 ACCTCCACCGCCATATCCAGAAGCTCCACCACCATATCCACCTGCACTAGCTCCACCACCACCAC
111793113 TACCA
130 TACCA
* *
111793118 CTACCACCACCACCTCCAATTCCACCCGCTCCTCCATACCCGCCAGCACCACCAGCTCCGCCTCC
1 CCACCACCACCA-CTCC-A--CCA--C-CTCCTCCATACCCGCCAGCACCACCAGCTCCACCTCC
* *
111793183 TTCACCACCTCCACCACCATATCCAGAAGCTCCACCACCATATCCACCTGCACTAGCTTCACCAC
59 TTCACCACCTCCACCGCCATATCCAGAAGCTCCACCACCATATCCACCTGCACTAGCTCCACCAC
* *
111793248 CACCATTGCCA
124 CACCACTACCA
* *
111793259 CCTCCTCCACCACCTCCA
1 CCACCACCACCA-CTCCA
111793277 TAACCAGCAG
Statistics
Matches: 253, Mismatches: 34, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
135 130 0.51
136 2 0.01
138 2 0.01
140 1 0.00
141 118 0.47
ACGTcount: A:0.23, C:0.54, G:0.08, T:0.15
Consensus pattern (134 bp):
CCACCACCACCACTCCACCACCTCCTCCATACCCGCCAGCACCACCAGCTCCACCTCCTTCACCA
CCTCCACCGCCATATCCAGAAGCTCCACCACCATATCCACCTGCACTAGCTCCACCACCACCACT
ACCA
Found at i:111792987 original size:387 final size:391
Alignment explanation
Indices: 111792500--111793252 Score: 1291
Period size: 387 Copynumber: 1.9 Consensus size: 391
111792490 ATACCCGCCA
* *
111792500 GCACCACCAGCTCCGCCTCCTTCACCACCTCCACCACCATATCCAGAAGCTCCACCACCATATCC
1 GCACCACCAGCTCCACCTCCTTCACCACCCCCACCACCATATCCAGAAGCTCCACCACCATATCC
111792565 ACCAGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCACCGGCTCCTCCATACC
66 ACCAGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCACCGGCTCCTCCATACC
*
111792630 CACCGGCACCACCAGCTCCGCCTCCTTCGCCACCTCCACCGCCATATCCAGAAGCTCCACCACCA
131 CACCGGCACCACCAGCTCCACCTCCTTCGCCACCTCCACCGCCATATCCAGAAGCTCCACCACCA
* * * * *
111792695 TATCCACCTGCATTAGCTCCG-CC-GC-C-ACCACTACCACCACCACCTCC-ATGTCCAGCGGCT
196 TATCCACCGGCACTAGCTCCGCCCACCACTACCACTACCACCACCACCTCCAAT-TCCACCCGCT
* * *
111792755 CCTCCATACCCACCGGCACCACCAGCTCCGCCTCCTTCGCCACCTCCACCGCCATATCCAGAAGC
260 CCTCCATACCCACCAGCACCACCAGCTCCGCCTCCTTCACCACCTCCACCACCATATCCAGAAGC
*
111792820 TCCACCACCATATCCACCTGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCAC
325 TCCACCACCATATCCACCTGCACTAGCTCCACCACCACCACTACCACCACCACCTCCATGTCCAC
111792885 TT
390 TT
*
111792887 GCACCACCAGCTCCACCTCCTTCACCACCCCCACCGCCATATCCAGAAGCTCCACCACCATATCC
1 GCACCACCAGCTCCACCTCCTTCACCACCCCCACCACCATATCCAGAAGCTCCACCACCATATCC
*
111792952 ACCTGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCACCGGCTCCTCCATACC
66 ACCAGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCACCGGCTCCTCCATACC
*
111793017 CGCCGGCACCACCAGCTCCACCTCCTTCGCCACCTCCACCGCCATATCCAGAAGCTCCACCACCA
131 CACCGGCACCACCAGCTCCACCTCCTTCGCCACCTCCACCGCCATATCCAGAAGCTCCACCACCA
111793082 TATCCACCGGCACTAGCTCCGCCACCACCACTACCACTACCACCACCACCTCCAATTCCACCCGC
196 TATCCACCGGCACTAGCTCCG-C-CCACCACTACCACTACCACCACCACCTCCAATTCCACCCGC
*
111793147 TCCTCCATACCCGCCAGCACCACCAGCTCCGCCTCCTTCACCACCTCCACCACCATATCCAGAAG
259 TCCTCCATACCCACCAGCACCACCAGCTCCGCCTCCTTCACCACCTCCACCACCATATCCAGAAG
*
111793212 CTCCACCACCATATCCACCTGCACTAGCTTCACCACCACCA
324 CTCCACCACCATATCCACCTGCACTAGCTCCACCACCACCA
111793253 TTGCCACCTC
Statistics
Matches: 342, Mismatches: 17, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
387 208 0.61
390 2 0.01
391 1 0.00
392 1 0.00
393 128 0.37
394 2 0.01
ACGTcount: A:0.23, C:0.53, G:0.09, T:0.15
Consensus pattern (391 bp):
GCACCACCAGCTCCACCTCCTTCACCACCCCCACCACCATATCCAGAAGCTCCACCACCATATCC
ACCAGCACTAGCTCCACCGCCACCACTACCACCACCACCTCCATGTCCACCGGCTCCTCCATACC
CACCGGCACCACCAGCTCCACCTCCTTCGCCACCTCCACCGCCATATCCAGAAGCTCCACCACCA
TATCCACCGGCACTAGCTCCGCCCACCACTACCACTACCACCACCACCTCCAATTCCACCCGCTC
CTCCATACCCACCAGCACCACCAGCTCCGCCTCCTTCACCACCTCCACCACCATATCCAGAAGCT
CCACCACCATATCCACCTGCACTAGCTCCACCACCACCACTACCACCACCACCTCCATGTCCACT
T
Found at i:111793038 original size:117 final size:117
Alignment explanation
Indices: 111792797--111793038 Score: 364
Period size: 117 Copynumber: 2.1 Consensus size: 117
111792787 TCCTTCGCCA
111792797 CCTCCACCGCCATATCCAGAAGCTCCACCACCATATCCACCTGCACTAGCTCCACCGCCACCACT
1 CCTCCACCGCCATATCCAGAAGCTCCACCACCATATCCACCTGCACTAGCTCCACCGCCACCACT
** * * **
111792862 ACCACCACCACCTCCATGTCCACTTGCACCACCAGCTCCACCTCCTTCACCAC
66 ACCACCACCACCTCCATGTCCACCGGCACCACCA-CTACACCGCCGGCACCAC
111792915 CC-CCACCGCCATATCCAGAAGCTCCACCACCATATCCACCTGCACTAGCTCCACCGCCACCACT
1 CCTCCACCGCCATATCCAGAAGCTCCACCACCATATCCACCTGCACTAGCTCCACCGCCACCACT
* *
111792979 ACCACCACCACCTCCATGTCCACCGGCTCCTCCA-TAC-CCGCCGGCACCAC
66 ACCACCACCACCTCCATGTCCACCGGCACCACCACTACACCGCCGGCACCAC
111793029 CAGCTCCACC
1 C--CTCCACC
111793039 TCCTTCGCCA
Statistics
Matches: 113, Mismatches: 8, Indels: 7
0.88 0.06 0.05
Matches are distributed among these distances:
114 11 0.10
115 2 0.02
116 1 0.01
117 97 0.86
118 2 0.02
ACGTcount: A:0.23, C:0.53, G:0.09, T:0.14
Consensus pattern (117 bp):
CCTCCACCGCCATATCCAGAAGCTCCACCACCATATCCACCTGCACTAGCTCCACCGCCACCACT
ACCACCACCACCTCCATGTCCACCGGCACCACCACTACACCGCCGGCACCAC
Found at i:111793167 original size:141 final size:140
Alignment explanation
Indices: 111792887--111793276 Score: 587
Period size: 141 Copynumber: 2.8 Consensus size: 140
111792877 ATGTCCACTT
*
111792887 GCACCACCAGCTCCACCTCCTTCACCACCCCCACCGCCATATCCAGAAGCTCCACCACCATATCC
1 GCACCACCAGCTCCACCTCCTTCACCACCTCCACCGCCATATCCAGAAGCTCCACCACCATATCC
* *
111792952 ACCTGCACTAGCT-CCACC-GC-C-ACCACTACCACCACCACCTCC-ATGTCCACCGGCTCCTCC
66 ACCTGCACTAGCTCCCACCACCACTACCACTACCACCACCACCTCCAATGTCCACCCGCTCCTCC
*
111793012 ATACCCGCCG
131 ATACCCGCCA
*
111793022 GCACCACCAGCTCCACCTCCTTCGCCACCTCCACCGCCATATCCAGAAGCTCCACCACCATATCC
1 GCACCACCAGCTCCACCTCCTTCACCACCTCCACCGCCATATCCAGAAGCTCCACCACCATATCC
*
111793087 ACCGGCACTAGCTCCGCCACCACCACTACCACTACCACCACCACCTCCAAT-TCCACCCGCTCCT
66 ACCTGCACTAGCT-C-CCACCACCACTACCACTACCACCACCACCTCCAATGTCCACCCGCTCCT
111793151 CCATACCCGCCA
129 CCATACCCGCCA
* *
111793163 GCACCACCAGCTCCGCCTCCTTCACCACCTCCACCACCATATCCAGAAGCTCCACCACCATATCC
1 GCACCACCAGCTCCACCTCCTTCACCACCTCCACCGCCATATCCAGAAGCTCCACCACCATATCC
* * *
111793228 ACCTGCACTAGCTTCACCACCACCATTGCCACCT-CCTCCACCACCTCCA
66 ACCTGCACTAGC-TC-CCACCACCACTACCA-CTACCACCACCACCTCCA
111793277 TAACCAGCAG
Statistics
Matches: 232, Mismatches: 14, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
135 75 0.32
138 5 0.02
139 1 0.00
140 1 0.00
141 145 0.62
142 5 0.02
ACGTcount: A:0.23, C:0.54, G:0.08, T:0.15
Consensus pattern (140 bp):
GCACCACCAGCTCCACCTCCTTCACCACCTCCACCGCCATATCCAGAAGCTCCACCACCATATCC
ACCTGCACTAGCTCCCACCACCACTACCACTACCACCACCACCTCCAATGTCCACCCGCTCCTCC
ATACCCGCCA
Found at i:111798793 original size:3 final size:3
Alignment explanation
Indices: 111798785--111798839 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
111798775 GATAATTCTC
111798785 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
111798833 TAT TAT T
1 TAT TAT T
111798840 TTGCAATTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:111804231 original size:18 final size:18
Alignment explanation
Indices: 111804208--111804246 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
111804198 CCCAACTACG
111804208 GTATACGTGAACAGTGCC
1 GTATACGTGAACAGTGCC
**
111804226 GTATACGTGAGTAGTGCC
1 GTATACGTGAACAGTGCC
111804244 GTA
1 GTA
111804247 AACGGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (18 bp):
GTATACGTGAACAGTGCC
Found at i:111808654 original size:69 final size:69
Alignment explanation
Indices: 111808564--111808711 Score: 269
Period size: 69 Copynumber: 2.1 Consensus size: 69
111808554 ACCTCCGTTG
* *
111808564 CCACCTCCATTGCCATACCCAGAAGCGCCACCTGCACTAGCTCCGCCTCCACCACTGCCACCACC
1 CCACCTCTATTGCCATACCCAGAAGCACCACCTGCACTAGCTCCGCCTCCACCACTGCCACCACC
111808629 AGCA
66 AGCA
*
111808633 TCACCTCTATTGCCATACCCAGAAGCACCACCTGCACTAGCTCCGCCTCCACCACTGCCACCACC
1 CCACCTCTATTGCCATACCCAGAAGCACCACCTGCACTAGCTCCGCCTCCACCACTGCCACCACC
111808698 AGCA
66 AGCA
111808702 CCACCTCTAT
1 CCACCTCTAT
111808712 GTCCACCAGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 75 1.00
ACGTcount: A:0.24, C:0.49, G:0.11, T:0.16
Consensus pattern (69 bp):
CCACCTCTATTGCCATACCCAGAAGCACCACCTGCACTAGCTCCGCCTCCACCACTGCCACCACC
AGCA
Found at i:111808697 original size:33 final size:33
Alignment explanation
Indices: 111808591--111808702 Score: 86
Period size: 33 Copynumber: 3.3 Consensus size: 33
111808581 CCCAGAAGCG
*
111808591 CCACCTGCACTAGCTCCGCCTCCACCACTGCCA
1 CCACCAGCACTAGCTCCGCCTCCACCACTGCCA
* * * **
111808624 CCACCAGCA-TCACCTCTATTGCCATAC-CCAGAAG-CA
1 CCACCAGCACT-AGCTC---CGCC-TCCACCA-CTGCCA
*
111808660 CCACCTGCACTAGCTCCGCCTCCACCACTGCCA
1 CCACCAGCACTAGCTCCGCCTCCACCACTGCCA
111808693 CCACCAGCAC
1 CCACCAGCAC
111808703 CACCTCTATG
Statistics
Matches: 57, Mismatches: 13, Indels: 18
0.65 0.15 0.20
Matches are distributed among these distances:
32 4 0.07
33 29 0.51
36 20 0.35
37 4 0.07
ACGTcount: A:0.23, C:0.51, G:0.12, T:0.14
Consensus pattern (33 bp):
CCACCAGCACTAGCTCCGCCTCCACCACTGCCA
Found at i:111808697 original size:192 final size:189
Alignment explanation
Indices: 111808468--111808831 Score: 511
Period size: 192 Copynumber: 1.9 Consensus size: 189
111808458 ACCACCATAT
* * * * ** *
111808468 CCACCTGCACTAGCTCCTCCACCACCATTG-TCA-C-CACCACCTCCGTGTCCATTAGCTCCTTC
1 CCACCTGCACTAGCTCCGCCACCACCACTGCCCACCACACCACCTCCATGTCCACCAGCTCCTCC
*
111808530 ATAGCCACCACCACTACCAGTTCCACCTCCGTT-GCCACCTCCATTGCCATACCCAGAAGCGCCA
66 ATA---ACCA-C-C-ACCAGTTCCACCTCC-TTCGCCACCTCCATTGCCATACCCAGAAGCACCA
*
111808594 CCTGCACTAGCTCCGCCTCCACCACTGCCACCACCAGCATCACCTCTATTGCCATACCCAGAAGC
124 CCTGCACTAGCTCCGCCTCCACCACTGCCACCACCAGCACCACCTCTATTGCCATACCCAGAAGC
111808659 A
189 A
* *
111808660 CCACCTGCACTAGCTCCGCCTCCACCACTGCCACCACCAGCACCACCTCTATGTCCACCAGCTCC
1 CCACCTGCACTAGCTCCGCCACCACCACTG-C-CCACCA-CACCACCTCCATGTCCACCAGCTCC
111808725 TCCATAACCACCACCAGTTCCACCTCCTTCGCCACCTCCATTGCCATACCCAGAAGCACCACCTG
63 TCCATAACCACCACCAGTTCCACCTCCTTCGCCACCTCCATTGCCATACCCAGAAGCACCACCTG
111808790 CACTAGCTCCGCCTCCACCACTGCCACCACCAGCACCACCTC
128 CACTAGCTCCGCCTCCACCACTGCCACCACCAGCACCACCTC
111808832 CTTGTCCACT
Statistics
Matches: 154, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
191 2 0.01
192 117 0.76
193 1 0.01
194 1 0.01
195 6 0.04
196 1 0.01
198 26 0.17
ACGTcount: A:0.22, C:0.49, G:0.11, T:0.18
Consensus pattern (189 bp):
CCACCTGCACTAGCTCCGCCACCACCACTGCCCACCACACCACCTCCATGTCCACCAGCTCCTCC
ATAACCACCACCAGTTCCACCTCCTTCGCCACCTCCATTGCCATACCCAGAAGCACCACCTGCAC
TAGCTCCGCCTCCACCACTGCCACCACCAGCACCACCTCTATTGCCATACCCAGAAGCA
Found at i:111808718 original size:123 final size:121
Alignment explanation
Indices: 111808612--111809078 Score: 376
Period size: 123 Copynumber: 3.8 Consensus size: 121
111808602 AGCTCCGCCT
* *
111808612 CCACCACTGCCACCACCAGCATCACCTCTATTGCCATACCCAGAAGCACCACCTGCACTAGCTCC
1 CCACCACTGCCACCACCAGCACCACCTCCATTGCCATACCCAGAAGCACCACCTGCACTAGCTCC
111808677 GCCTCCACCACTGCCACCACCAGCACCACCT-CTATGTCCACCAGCTCCTCCATAACCA
66 GCCTCCACCACTGCCACCACCAGCACCACCTCCT-TGTCCACCAGCTCCTCC--AACCA
* * * ** *
111808735 CCACCAGTTCCACCTCCTTCGCCACCTCCATTGCCATACCCAGAAGCACCACCTGCACTAGCTCC
1 CCACCACTGCCACCACCAGCACCACCTCCATTGCCATACCCAGAAGCACCACCTGCACTAGCTCC
**
111808800 GCCTCCACCACTGCCACCACCAGCACCACCTCCTTGTCCACTGGCTCCTCCATAACCA
66 GCCTCCACCACTGCCACCACCAGCACCACCTCCTTGTCCACCAGCTCCTCC--AACCA
* ** *** *
111808858 CCACCAGCT-CCACCTCCTTCACCACCTCCACCACCATATCCAGAAGCTCCACCACCATGTCCAC
1 CCACCA-CTGCCACCACCAGCACCACCTCCATTGCCATACCCAGAAG---CACCACC-TG--CA-
* ** * ** ** * * * *
111808922 CT-GCACTACCTCCCCCACCACCACTGCCACCACCACCTCCATGTCCACCGGCTTCTCCATACCC
58 CTAGCTCCGCCTCCACCACTGCCACCACCAGCACCACCTCCTTGTCCACCAGCTCCTCCA-A-CC
*
111808986 G
121 A
* * * *
111808987 CCACCACT---ACCA--A-CACCACCTCCACTACCATATCCAGAAGCACCACCTACACTAGCTCC
1 CCACCACTGCCACCACCAGCACCACCTCCATTGCCATACCCAGAAGCACCACCTGCACTAGCTCC
* * * * **
111809046 ACCACCACCATTGCCACCTCCTCCACCACCTCC
66 GCCTCCACCACTGCCACCACCAGCACCACCTCC
111809079 ATATCCAGCA
Statistics
Matches: 289, Mismatches: 43, Indels: 30
0.80 0.12 0.08
Matches are distributed among these distances:
116 2 0.01
117 30 0.10
119 1 0.00
120 7 0.02
123 174 0.60
124 3 0.01
126 10 0.03
127 3 0.01
128 3 0.01
129 54 0.19
130 2 0.01
ACGTcount: A:0.24, C:0.52, G:0.08, T:0.16
Consensus pattern (121 bp):
CCACCACTGCCACCACCAGCACCACCTCCATTGCCATACCCAGAAGCACCACCTGCACTAGCTCC
GCCTCCACCACTGCCACCACCAGCACCACCTCCTTGTCCACCAGCTCCTCCAACCA
Found at i:111808895 original size:42 final size:42
Alignment explanation
Indices: 111808813--111808895 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
111808803 TCCACCACTG
** * * *
111808813 CCACCACCAGCACCACCTCCTTGTCCACTGGCTCCTCCATAA
1 CCACCACCAGCACCACCTCCTTCACCACTGCCACCACCATAA
*
111808855 CCACCACCAGCTCCACCTCCTTCACCACCT-CCACCACCATA
1 CCACCACCAGCACCACCTCCTTCACCA-CTGCCACCACCATA
111808896 TCCAGAAGCT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.23, C:0.54, G:0.06, T:0.17
Consensus pattern (42 bp):
CCACCACCAGCACCACCTCCTTCACCACTGCCACCACCATAA
Found at i:111809965 original size:33 final size:33
Alignment explanation
Indices: 111809923--111810015 Score: 133
Period size: 32 Copynumber: 3.0 Consensus size: 33
111809913 GCCCCCCCAA
111809923 AAAAACCTAACCCAAAAAAAAAAAAGAAAAAAG
1 AAAAACCTAACCCAAAAAAAAAAAAGAAAAAAG
*
111809956 AAAAACCTAACCC-AAAAAAAAGAAGAAAAAAG
1 AAAAACCTAACCCAAAAAAAAAAAAGAAAAAAG
*
111809988 -AAAACCTAA--CAAAAAAAAAATA-AAAAAA
1 AAAAACCTAACCCAAAAAAAAAAAAGAAAAAA
111810016 CCTAGCCACC
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
29 7 0.12
30 9 0.16
31 9 0.16
32 18 0.32
33 13 0.23
ACGTcount: A:0.76, C:0.14, G:0.05, T:0.04
Consensus pattern (33 bp):
AAAAACCTAACCCAAAAAAAAAAAAGAAAAAAG
Found at i:111809982 original size:32 final size:31
Alignment explanation
Indices: 111809923--111810014 Score: 127
Period size: 31 Copynumber: 3.0 Consensus size: 31
111809913 GCCCCCCCAA
111809923 AAAAACCTAACCCAAAAAAAAAAAAGAAAAAAG
1 AAAAACCTAACCC--AAAAAAAAAAGAAAAAAG
111809956 AAAAACCTAACCCAAAAAAAAGAAGAAAAAAG
1 AAAAACCTAACCCAAAAAAAA-AAGAAAAAAG
*
111809988 -AAAACCTAA--CAAAAAAAAAATAAAAAA
1 AAAAACCTAACCCAAAAAAAAAAGAAAAAA
111810015 ACCTAGCCAC
Statistics
Matches: 57, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
28 8 0.14
29 9 0.16
31 17 0.30
32 10 0.18
33 13 0.23
ACGTcount: A:0.76, C:0.14, G:0.05, T:0.04
Consensus pattern (31 bp):
AAAAACCTAACCCAAAAAAAAAAGAAAAAAG
Found at i:111810062 original size:12 final size:12
Alignment explanation
Indices: 111810045--111810086 Score: 84
Period size: 12 Copynumber: 3.5 Consensus size: 12
111810035 TCCCACTTGC
111810045 CCCATTTTTCCT
1 CCCATTTTTCCT
111810057 CCCATTTTTCCT
1 CCCATTTTTCCT
111810069 CCCATTTTTCCT
1 CCCATTTTTCCT
111810081 CCCATT
1 CCCATT
111810087 GTCTACCACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.10, C:0.43, G:0.00, T:0.48
Consensus pattern (12 bp):
CCCATTTTTCCT
Found at i:111810844 original size:37 final size:37
Alignment explanation
Indices: 111810802--111810903 Score: 93
Period size: 37 Copynumber: 2.6 Consensus size: 37
111810792 CTAATATTTT
111810802 CTTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 CTTTTATT-TAGATATTATTATTATTATTATGTACATA
*
111810839 CTTTTATTATATGCATATATATATATGTATTTTTATGTACATA
1 CTTTTATT-TA-G-ATAT-TAT-TAT-TATTATTATGTACATA
*
111810882 -TTATTATTT-TATATTATTATTA
1 CTT-TTATTTAGATATTATTATTA
111810904 CCAAATATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 8 0.15
40 3 0.05
41 3 0.05
42 11 0.20
43 11 0.20
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (37 bp):
CTTTTATTTAGATATTATTATTATTATTATGTACATA
Found at i:111829834 original size:28 final size:26
Alignment explanation
Indices: 111829792--111829861 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 26
111829782 AGCAAATCTA
111829792 TTAATTATAATTTATTAAATAAAATTGATC
1 TTAATTA-AA-TTATT--ATAAAATTGATC
111829822 TTAATTAAATTA-T-TAAAATTGATC
1 TTAATTAAATTATTATAAAATTGATC
111829846 TTAATTAAATTATTAT
1 TTAATTAAATTATTAT
111829862 TTCAATAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
24 23 0.61
25 1 0.03
26 1 0.03
27 1 0.03
28 3 0.08
29 2 0.05
30 7 0.18
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (26 bp):
TTAATTAAATTATTATAAAATTGATC
Found at i:111829858 original size:24 final size:24
Alignment explanation
Indices: 111829811--111829860 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
111829801 ATTTATTAAA
111829811 TAAAATTGATCTTAATTAAATTAT
1 TAAAATTGATCTTAATTAAATTAT
111829835 TAAAATTGATCTTAATTAAATTAT
1 TAAAATTGATCTTAATTAAATTAT
111829859 TA
1 TA
111829861 TTTCAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (24 bp):
TAAAATTGATCTTAATTAAATTAT
Found at i:111830869 original size:32 final size:32
Alignment explanation
Indices: 111830828--111830893 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
111830818 AAGCGGGATG
111830828 GAAATGAATATCTTTAACATAAAGATGATAAT
1 GAAATGAATATCTTTAACATAAAGATGATAAT
111830860 GAAATGAATATCTTTAACATAAAGATGATAAT
1 GAAATGAATATCTTTAACATAAAGATGATAAT
111830892 GA
1 GA
111830894 TTTTTAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.50, C:0.06, G:0.14, T:0.30
Consensus pattern (32 bp):
GAAATGAATATCTTTAACATAAAGATGATAAT
Found at i:111833022 original size:20 final size:20
Alignment explanation
Indices: 111832993--111833043 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
111832983 ATACATATTA
* * *
111832993 TCACTGTTCATGATTTGACT
1 TCACTATTCATGACTTAACT
111833013 TCACTATTCATGACTTAACT
1 TCACTATTCATGACTTAACT
111833033 TCACTATTCAT
1 TCACTATTCAT
111833044 AGGACTGACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.25, C:0.24, G:0.08, T:0.43
Consensus pattern (20 bp):
TCACTATTCATGACTTAACT
Found at i:111838119 original size:24 final size:24
Alignment explanation
Indices: 111838090--111838254 Score: 120
Period size: 24 Copynumber: 6.9 Consensus size: 24
111838080 GAATTGACTT
111838090 TGGCACTATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* *
111838114 TGGCACTATGTGTGCGAAATTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
111838138 TGGCACTATGTGTGCGGACTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
111838162 TAGCACTATGTATGCGGATTTAAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * * *
111838186 TGTCAATACGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
** *
111838211 -GGCACTATGTGTGCG-GGTTAACA
1 TGGCACTATGTGTGCGAATTTGA-A
*
111838234 TGGCACTATGGGTGCGAATTT
1 TGGCACTATGTGTGCGAATTT
111838255 CCTTGTTTGA
Statistics
Matches: 110, Mismatches: 25, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
21 1 0.01
22 1 0.01
23 2 0.02
24 101 0.92
25 4 0.04
26 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:111839879 original size:13 final size:12
Alignment explanation
Indices: 111839852--111839885 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
111839842 CCGGGCGAGA
*
111839852 TGGCGGGCGCGG
1 TGGCCGGCGCGG
111839864 TGGCCGGCGACGG
1 TGGCCGGCG-CGG
111839877 TGGCCGGCG
1 TGGCCGGCG
111839886 GCGGACGGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.03, C:0.29, G:0.59, T:0.09
Consensus pattern (12 bp):
TGGCCGGCGCGG
Found at i:111840763 original size:2 final size:2
Alignment explanation
Indices: 111840756--111840815 Score: 66
Period size: 2 Copynumber: 30.0 Consensus size: 2
111840746 TATTTTTAAC
* * * *
111840756 AT AT AT AT AT AC AT AT AT AT AT AC AT AT GT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
111840798 AT AT AT GT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT
111840816 TTATGAAGTA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (2 bp):
AT
Found at i:111840854 original size:3 final size:3
Alignment explanation
Indices: 111840848--111840924 Score: 118
Period size: 3 Copynumber: 24.7 Consensus size: 3
111840838 GTTTTGTAAC
*
111840848 ATT ATT ATT ATT TTCT ACGTT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT AT-T A--TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
111840896 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
111840925 CATCATCATC
Statistics
Matches: 69, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
3 65 0.94
4 1 0.01
5 2 0.03
6 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:111853442 original size:39 final size:41
Alignment explanation
Indices: 111853372--111853494 Score: 196
Period size: 39 Copynumber: 3.0 Consensus size: 41
111853362 CAGATAACAA
*
111853372 ATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT-G
1 ATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAG
111853412 ATTTGGCATCTCTGTA-CGGCGGAGAGCAGATCGAAGATAACAG
1 ATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGAT---AG
111853455 ATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
1 ATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATA
111853495 ACAGATTTGG
Statistics
Matches: 77, Mismatches: 1, Indels: 9
0.89 0.01 0.10
Matches are distributed among these distances:
39 22 0.29
40 15 0.19
41 1 0.01
43 17 0.22
44 22 0.29
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (41 bp):
ATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAG
Found at i:111853488 original size:44 final size:44
Alignment explanation
Indices: 111853363--111853506 Score: 235
Period size: 44 Copynumber: 3.4 Consensus size: 44
111853353 TCCTTGAAAC
* *
111853363 AGATAACAAATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
111853407 AGAT----GATTTGGCATCTCTGTA-CGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
111853446 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
1 AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
111853490 AGATAACAGATTTGGCA
1 AGATAACAGATTTGGCA
111853507 GATCGAAGAT
Statistics
Matches: 93, Mismatches: 2, Indels: 10
0.89 0.02 0.10
Matches are distributed among these distances:
39 22 0.24
40 15 0.16
43 17 0.18
44 39 0.42
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.22
Consensus pattern (44 bp):
AGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGA
Found at i:111853511 original size:23 final size:23
Alignment explanation
Indices: 111853481--111853526 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
111853471 GCGGCGGAGA
111853481 GCAGATCGAAGATAACAGATTTG
1 GCAGATCGAAGATAACAGATTTG
111853504 GCAGATCGAAGATAACAGATTTG
1 GCAGATCGAAGATAACAGATTTG
111853527 CGTCTCTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (23 bp):
GCAGATCGAAGATAACAGATTTG
Found at i:111853551 original size:66 final size:67
Alignment explanation
Indices: 111853437--111853571 Score: 254
Period size: 66 Copynumber: 2.0 Consensus size: 67
111853427 ACGGCGGAGA
111853437 GCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATT
1 GCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATT
111853502 TG
66 TG
*
111853504 GCAGATCGAAGATAACAGATTT-GCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATT
1 GCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATT
111853568 TG
66 TG
111853570 GC
1 GC
111853572 GTCTCTGTAG
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
66 45 0.67
67 22 0.33
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (67 bp):
GCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATT
TG
Found at i:111853602 original size:153 final size:149
Alignment explanation
Indices: 111853363--111853656 Score: 484
Period size: 153 Copynumber: 1.9 Consensus size: 149
111853353 TCCTTGAAAC
111853363 AGATAACAAATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTA
1 AGATAACAAATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTA
111853428 CGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGA
66 CGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGA
111853493 TAACAGATTTGGCAGATCGA
131 TAA-AGATTTGGCAGATCGA
* *
111853513 AGATAACAGATTT-GCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTC
1 AGATAACAAATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----GATTTGGCATCTC
* *
111853577 TGTAGCGG-GGAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATC
62 TGTA-CGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATC
111853641 GAAGATAAAGATTTGG
126 GAAGATAAAGATTTGG
111853657 GTCACTGTCG
Statistics
Matches: 135, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
149 34 0.25
150 12 0.09
152 8 0.06
153 78 0.58
154 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.32, T:0.22
Consensus pattern (149 bp):
AGATAACAAATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATGATTTGGCATCTCTGTA
CGGCGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGA
TAAAGATTTGGCAGATCGA
Found at i:111853648 original size:44 final size:44
Alignment explanation
Indices: 111853504--111853950 Score: 706
Period size: 44 Copynumber: 10.5 Consensus size: 44
111853494 AACAGATTTG
111853504 GCAGATCGAAGATAACAGATTT-GCGTCTCTGTAGCGGCGGAGA
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
111853547 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG-GGAGA
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
*
111853590 GCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGCGGCGGAGA
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
* *
111853634 GCAGATCGAAGATAA-AGATTTGG-GTCACTGTCGC-GCAGGA-A
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-GGAGA
111853675 -CA-ATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
*
111853717 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCGGAGA
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
*
111853761 GCAGATCGAAGAT----GATTTGGCATCTCTGTAGCGGCGGAGA
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
* * *
111853801 ACAGATCGAAGATAACAGATTTGGCGTCTCTGTAGC-ACAGAGA
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
111853844 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
111853888 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-GAGA
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
*
111853931 GCAGATCGAAAATAACAGAT
1 GCAGATCGAAGATAACAGAT
111853951 CGGTGTTCCT
Statistics
Matches: 374, Mismatches: 16, Indels: 28
0.89 0.04 0.07
Matches are distributed among these distances:
39 11 0.03
40 47 0.13
41 15 0.04
42 15 0.04
43 137 0.37
44 149 0.40
ACGTcount: A:0.30, C:0.17, G:0.32, T:0.21
Consensus pattern (44 bp):
GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
Found at i:111853746 original size:127 final size:130
Alignment explanation
Indices: 111853504--111853950 Score: 682
Period size: 127 Copynumber: 3.5 Consensus size: 130
111853494 AACAGATTTG
111853504 GCAGATCGAAGATAACAGATTT-GCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATT
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGA-A-CAGATCGAAGATAACAGATT
*
111853568 TGGCGTCTCTGTAGCGG-GGAGAGCAGATCGAAGATAATAGATTTGGCGTCTCTGTAGCGGCGGA
64 TGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGA
111853632 GA
129 GA
* *
111853634 GCAGATCGAAGATAA-AGATTTGG-GTCACTGTCGC-GCAGGAACA-ATCGAAGATAACAGATTT
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-GGAACAGATCGAAGATAACAGATTT
*
111853695 GGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCGGAG
65 GGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
111853760 A
130 A
*
111853761 GCAGATCGAAGAT----GATTTGGCATCTCTGTAGCGGCGGAGAACAGATCGAAGATAACAGATT
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGC-G-GAACAGATCGAAGATAACAGATT
* *
111853822 TGGCGTCTCTGTAGC-ACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGA
64 TGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGA
111853886 GA
129 GA
* *
111853888 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGAGAGCAGATCGAAAATAACAGAT
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCG-GAACAGATCGAAGATAACAGAT
111853951 CGGTGTTCCT
Statistics
Matches: 292, Mismatches: 14, Indels: 22
0.89 0.04 0.07
Matches are distributed among these distances:
124 7 0.02
125 8 0.03
126 37 0.13
127 128 0.44
128 35 0.12
129 18 0.06
130 38 0.13
131 21 0.07
ACGTcount: A:0.30, C:0.17, G:0.32, T:0.21
Consensus pattern (130 bp):
GCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAACAGATCGAAGATAACAGATTTG
GCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGA
Found at i:111855667 original size:2 final size:2
Alignment explanation
Indices: 111855660--111855736 Score: 51
Period size: 2 Copynumber: 41.5 Consensus size: 2
111855650 GTGCATGTAT
* * *
111855660 TA TA TA TA TT TT TA -A TA CTA TA T- TA TG TA TA TA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* *
111855699 TA TA TA TA TA TA TA TA T- TA T- TA TA T- TT TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
111855737 TTTTAATATC
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
1 7 0.12
2 51 0.85
3 2 0.03
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (2 bp):
TA
Found at i:111855697 original size:16 final size:15
Alignment explanation
Indices: 111855657--111855728 Score: 71
Period size: 16 Copynumber: 4.9 Consensus size: 15
111855647 AATGTGCATG
111855657 TATTATATA-TAT-T
1 TATTATATATTATAT
*
111855670 T-TTA-ATACTATAT
1 TATTATATATTATAT
111855683 TATGTATATATTATAT
1 TAT-TATATATTATAT
111855699 TATATATATATATATAT
1 TAT-TATATAT-TATAT
*
111855716 TATTATATTTTAT
1 TATTATATATTAT
111855729 GTATATATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
11 3 0.06
12 6 0.12
13 3 0.06
14 1 0.02
15 5 0.10
16 24 0.48
17 8 0.16
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (15 bp):
TATTATATATTATAT
Found at i:111855706 original size:25 final size:24
Alignment explanation
Indices: 111855662--111855745 Score: 78
Period size: 25 Copynumber: 3.8 Consensus size: 24
111855652 GCATGTATTA
111855662 TATATATTT-TTAATACTATATTATG
1 TATATATTTATT-ATA-TATATTATG
111855687 TATATATTATATTATATATA-TA--
1 TATATATT-TATTATATATATTATG
111855709 TATATA-TTATTATAT-T-TTATG
1 TATATATTTATTATATATATTATG
111855730 TATATATTT-TTA-ATAT
1 TATATATTTATTATATAT
111855746 CACATTATTC
Statistics
Matches: 52, Mismatches: 0, Indels: 18
0.74 0.00 0.26
Matches are distributed among these distances:
19 3 0.06
20 10 0.19
21 11 0.21
22 8 0.15
24 2 0.04
25 12 0.23
26 4 0.08
27 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.58
Consensus pattern (24 bp):
TATATATTTATTATATATATTATG
Found at i:111855943 original size:3 final size:3
Alignment explanation
Indices: 111855935--111855982 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
111855925 TCTACGTTAG
111855935 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
111855983 GCCATTTTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:111859198 original size:17 final size:17
Alignment explanation
Indices: 111859176--111859208 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
111859166 AATTTAATCT
111859176 TATAATTTAACTTTTAA
1 TATAATTTAACTTTTAA
*
111859193 TATAATTTAATTTTTA
1 TATAATTTAACTTTTA
111859209 TATTTTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TATAATTTAACTTTTAA
Found at i:111865855 original size:19 final size:19
Alignment explanation
Indices: 111865814--111865855 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
111865804 TAATTTTTTT
*
111865814 TTTTAATCTTTCATCTACT
1 TTTTAATCTTTCATCTACA
*
111865833 TTTTAAT-TGTTCATCTCCA
1 TTTTAATCT-TTCATCTACA
111865852 TTTT
1 TTTT
111865856 TCCTTACTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.19, C:0.19, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTAATCTTTCATCTACA
Found at i:111867056 original size:14 final size:15
Alignment explanation
Indices: 111867037--111867069 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
111867027 TTTTTGTTGA
*
111867037 AATTTGATTCGA-TT
1 AATTTGACTCGATTT
111867051 AATTTGACTCGATTT
1 AATTTGACTCGATTT
111867066 AATT
1 AATT
111867070 AAATTTATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.48
Consensus pattern (15 bp):
AATTTGACTCGATTT
Found at i:111868571 original size:17 final size:17
Alignment explanation
Indices: 111868551--111868601 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
111868541 AAAAATATTT
*
111868551 TTTATTTATAAATTTAA
1 TTTAATTATAAATTTAA
111868568 TTTAATT-T-AATTCTAAA
1 TTTAATTATAAATT-T-AA
111868585 TTTAATTA-AAATTTAA
1 TTTAATTATAAATTTAA
111868601 T
1 T
111868602 ATAACTATCG
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
15 4 0.14
16 5 0.17
17 16 0.55
18 4 0.14
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAATTATAAATTTAA
Found at i:111868584 original size:22 final size:23
Alignment explanation
Indices: 111868559--111868601 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
111868549 TTTTTATTTA
*
111868559 TAAATTTAATT-TAATTTAATTC
1 TAAATTTAATTAAAATTTAATTC
111868581 TAAATTTAATTAAAATTTAAT
1 TAAATTTAATTAAAATTTAAT
111868602 ATAACTATCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAATTTAATTAAAATTTAATTC
Found at i:111868598 original size:11 final size:10
Alignment explanation
Indices: 111868559--111868601 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
111868549 TTTTTATTTA
111868559 TAAATTTAAT
1 TAAATTTAAT
*
111868569 TTAATTTAATT
1 TAAATTTAA-T
111868580 CTAAATTTAAT
1 -TAAATTTAAT
111868591 TAAAATTTAAT
1 T-AAATTTAAT
111868602 ATAACTATCG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
10 9 0.32
11 11 0.39
12 8 0.29
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (10 bp):
TAAATTTAAT
Found at i:111878582 original size:28 final size:28
Alignment explanation
Indices: 111878541--111878594 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
111878531 ATTGAAATGG
111878541 TTTTATAAAATTTTAA-TATGTTTTGATT
1 TTTTATAAAATTTTAATTAT-TTTTGATT
* *
111878569 TTTTATTAATTTTTAATTATTTTTGA
1 TTTTATAAAATTTTAATTATTTTTGA
111878595 GCTGGCGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.65
Consensus pattern (28 bp):
TTTTATAAAATTTTAATTATTTTTGATT
Found at i:111887226 original size:7 final size:7
Alignment explanation
Indices: 111887214--111887246 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
111887204 TTTTTACGAC
111887214 TTAAAAT
1 TTAAAAT
111887221 TTAAAAT
1 TTAAAAT
111887228 TTAAAAT
1 TTAAAAT
111887235 TTAAAAT
1 TTAAAAT
111887242 TTAAA
1 TTAAA
111887247 TCTAATTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TTAAAAT
Found at i:111891645 original size:49 final size:49
Alignment explanation
Indices: 111891581--111891770 Score: 324
Period size: 49 Copynumber: 4.0 Consensus size: 49
111891571 CATACATAAT
111891581 AATCTTTCTGAAAGGATGTAAAGACCCCTTATGAGAACAACAATAACAA
1 AATCTTTCTGAAAGGATGTAAAGACCCCTTATGAGAACAACAATAACAA
111891630 AATCTTTCTGAAAGGATGTAAAGACCCCTTATGAG---AAC---AAC--
1 AATCTTTCTGAAAGGATGTAAAGACCCCTTATGAGAACAACAATAACAA
111891671 AATCTTTCTGAAAGGATGTAAAGACCCCTTATGAGAACAACAATAACAA
1 AATCTTTCTGAAAGGATGTAAAGACCCCTTATGAGAACAACAATAACAA
111891720 AATCTTTCTGAAAGGATGTAAAGACCCCTTATGAGAACAACAATAACAA
1 AATCTTTCTGAAAGGATGTAAAGACCCCTTATGAGAACAACAATAACAA
111891769 AA
1 AA
111891771 ATATTATGTA
Statistics
Matches: 133, Mismatches: 0, Indels: 16
0.89 0.00 0.11
Matches are distributed among these distances:
41 35 0.26
43 3 0.02
44 3 0.02
46 3 0.02
47 3 0.02
49 86 0.65
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.23
Consensus pattern (49 bp):
AATCTTTCTGAAAGGATGTAAAGACCCCTTATGAGAACAACAATAACAA
Found at i:111891681 original size:41 final size:41
Alignment explanation
Indices: 111891625--111891763 Score: 199
Period size: 41 Copynumber: 3.2 Consensus size: 41
111891615 GAACAACAAT
111891625 AACAA-AATCTTTCTGAAAGGATGTAAAGACCCCTTATGAG
1 AACAACAATCTTTCTGAAAGGATGTAAAGACCCCTTATGAG
111891665 AACAACAATCTTTCTGAAAGGATGTAAAGACCCCTTATGAG
1 AACAACAATCTTTCTGAAAGGATGTAAAGACCCCTTATGAG
111891706 AACAACAATAACAAAATCTTTCTGAAAGGATGTAAAGACCCCTTATGAG
1 ---AAC---AAC--AATCTTTCTGAAAGGATGTAAAGACCCCTTATGAG
111891755 AACAACAAT
1 AACAACAAT
111891764 AACAAAAATA
Statistics
Matches: 90, Mismatches: 0, Indels: 17
0.84 0.00 0.16
Matches are distributed among these distances:
40 5 0.06
41 38 0.42
43 3 0.03
44 3 0.03
46 3 0.03
47 3 0.03
49 35 0.39
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (41 bp):
AACAACAATCTTTCTGAAAGGATGTAAAGACCCCTTATGAG
Found at i:111891734 original size:90 final size:90
Alignment explanation
Indices: 111891581--111891763 Score: 366
Period size: 90 Copynumber: 2.0 Consensus size: 90
111891571 CATACATAAT
111891581 AATCTTTCTGAAAGGATGTAAAGACCCCTTATGAGAACAACAATAACAAAATCTTTCTGAAAGGA
1 AATCTTTCTGAAAGGATGTAAAGACCCCTTATGAGAACAACAATAACAAAATCTTTCTGAAAGGA
111891646 TGTAAAGACCCCTTATGAGAACAAC
66 TGTAAAGACCCCTTATGAGAACAAC
111891671 AATCTTTCTGAAAGGATGTAAAGACCCCTTATGAGAACAACAATAACAAAATCTTTCTGAAAGGA
1 AATCTTTCTGAAAGGATGTAAAGACCCCTTATGAGAACAACAATAACAAAATCTTTCTGAAAGGA
111891736 TGTAAAGACCCCTTATGAGAACAAC
66 TGTAAAGACCCCTTATGAGAACAAC
111891761 AAT
1 AAT
111891764 AACAAAAATA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 93 1.00
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (90 bp):
AATCTTTCTGAAAGGATGTAAAGACCCCTTATGAGAACAACAATAACAAAATCTTTCTGAAAGGA
TGTAAAGACCCCTTATGAGAACAAC
Found at i:111892115 original size:81 final size:81
Alignment explanation
Indices: 111891980--111892141 Score: 193
Period size: 81 Copynumber: 2.0 Consensus size: 81
111891970 ATTCTGAAGT
* * * * * * *
111891980 CAACAGCCAAGATACACAAGCATGTGATAAACATCTGCAAAATTTTCCCACTGAAAATTTATTAC
1 CAACAGCCAAGATACACAAGCAAGTGACAAAAATATGCAAAATATTCCCACTGAAAATCTATCAC
*
111892045 AAATTAAAAAATGTAC
66 AAATTAAAAAAGGTAC
* *
111892061 CAACAGCCAAGATACACAAGTAAGTGACAAAGAATAT-CAATAA-ATTCCCACTGAAAATCTGTC
1 CAACAGCCAAGATACACAAGCAAGTGACAAA-AATATGCAA-AATATTCCCACTGAAAATCTATC
*
111892124 ACAAATTCAAAAAGGTAC
64 ACAAATTAAAAAAGGTAC
111892142 ATTAAGCAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
81 63 0.93
82 5 0.07
ACGTcount: A:0.47, C:0.20, G:0.11, T:0.22
Consensus pattern (81 bp):
CAACAGCCAAGATACACAAGCAAGTGACAAAAATATGCAAAATATTCCCACTGAAAATCTATCAC
AAATTAAAAAAGGTAC
Found at i:111896682 original size:26 final size:26
Alignment explanation
Indices: 111896653--111896705 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
111896643 AATTTCAACC
*
111896653 TTATCGAATTGAATCGAATCGTGTTT
1 TTATCGAATTGAATCAAATCGTGTTT
111896679 TTATCGAATTGAATCAAATCGTGTTT
1 TTATCGAATTGAATCAAATCGTGTTT
111896705 T
1 T
111896706 CATCCCTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.43
Consensus pattern (26 bp):
TTATCGAATTGAATCAAATCGTGTTT
Found at i:111897541 original size:36 final size:36
Alignment explanation
Indices: 111897494--111897599 Score: 160
Period size: 36 Copynumber: 2.9 Consensus size: 36
111897484 CGTTTACAGT
* *
111897494 ACTATTCACGTATAC-GACACTATTCACGTATATAAC
1 ACTATTCACGTATACAG-TACTATTCACGTATACAAC
*
111897530 ACTATTCACGTATACAGTATTATTCACGTATACAAC
1 ACTATTCACGTATACAGTACTATTCACGTATACAAC
*
111897566 ACTATTCACGTATACAGTACTGTTCACGTATACA
1 ACTATTCACGTATACAGTACTATTCACGTATACA
111897600 GTAGTTGGGA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
36 63 0.98
37 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.32
Consensus pattern (36 bp):
ACTATTCACGTATACAGTACTATTCACGTATACAAC
Found at i:111897570 original size:54 final size:54
Alignment explanation
Indices: 111897488--111897602 Score: 176
Period size: 54 Copynumber: 2.1 Consensus size: 54
111897478 TACAACCGTT
* *
111897488 TACAGTACTATTCACGTATACGACACTATTCACGTATATAACACTATTCACGTA
1 TACAGTACTATTCACGTATACAACACTATTCACGTATACAACACTATTCACGTA
* ** *
111897542 TACAGTATTATTCACGTATACAACACTATTCACGTATACAGTACTGTTCACGTA
1 TACAGTACTATTCACGTATACAACACTATTCACGTATACAACACTATTCACGTA
111897596 TACAGTA
1 TACAGTA
111897603 GTTGGGATTG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (54 bp):
TACAGTACTATTCACGTATACAACACTATTCACGTATACAACACTATTCACGTA
Found at i:111897600 original size:18 final size:18
Alignment explanation
Indices: 111897488--111897602 Score: 142
Period size: 18 Copynumber: 6.4 Consensus size: 18
111897478 TACAACCGTT
111897488 TACAGTACTATTCACGTA
1 TACAGTACTATTCACGTA
*
111897506 TAC-GACACTATTCACGTA
1 TACAG-TACTATTCACGTA
* **
111897524 TATAACACTATTCACGTA
1 TACAGTACTATTCACGTA
*
111897542 TACAGTATTATTCACGTA
1 TACAGTACTATTCACGTA
**
111897560 TACAACACTATTCACGTA
1 TACAGTACTATTCACGTA
*
111897578 TACAGTACTGTTCACGTA
1 TACAGTACTATTCACGTA
111897596 TACAGTA
1 TACAGTA
111897603 GTTGGGATTG
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
17 1 0.01
18 81 0.99
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (18 bp):
TACAGTACTATTCACGTA
Found at i:111905631 original size:17 final size:17
Alignment explanation
Indices: 111905611--111905651 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
111905601 TTAGTATTAT
111905611 TATTATTTTGAACAATC
1 TATTATTTTGAACAATC
111905628 TATTATTTTGAACAATC
1 TATTATTTTGAACAATC
111905645 TCATTAT
1 T-ATTAT
111905652 AAGTTCTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.49
Consensus pattern (17 bp):
TATTATTTTGAACAATC
Found at i:111907256 original size:16 final size:16
Alignment explanation
Indices: 111907235--111907268 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
111907225 GAGCACGTTG
111907235 GATTAGAGTGGTTTAT
1 GATTAGAGTGGTTTAT
111907251 GATTAGAGTGGTTTAT
1 GATTAGAGTGGTTTAT
111907267 GA
1 GA
111907269 GATGGGTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.41
Consensus pattern (16 bp):
GATTAGAGTGGTTTAT
Found at i:111916454 original size:19 final size:20
Alignment explanation
Indices: 111916430--111916469 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
111916420 ATATGCAATG
*
111916430 TTATATAT-AAATTTTGATT
1 TTATATATGAAATTTTAATT
111916449 TTATATATGAAATTTTAATT
1 TTATATATGAAATTTTAATT
111916469 T
1 T
111916470 AATTTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TTATATATGAAATTTTAATT
Found at i:111916470 original size:19 final size:19
Alignment explanation
Indices: 111916430--111916470 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
111916420 ATATGCAATG
*
111916430 TTATATATAAATTTTGATT
1 TTATATATAAATTTTGAAT
111916449 TTATATATGAAATTTT-AAT
1 TTATATAT-AAATTTTGAAT
111916468 TTA
1 TTA
111916471 ATTTAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
TTATATATAAATTTTGAAT
Found at i:111923093 original size:12 final size:12
Alignment explanation
Indices: 111923073--111923109 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
111923063 CCAAAAAACT
111923073 TATGCATATGTA
1 TATGCATATGTA
* *
111923085 TATGTATATGTT
1 TATGCATATGTA
111923097 TATGCATATGTA
1 TATGCATATGTA
111923109 T
1 T
111923110 GGCTAAAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (12 bp):
TATGCATATGTA
Found at i:111923412 original size:6 final size:6
Alignment explanation
Indices: 111923401--111923436 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
111923391 ACAACATCAC
111923401 TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG
111923437 AATGGTGGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:111934209 original size:15 final size:16
Alignment explanation
Indices: 111934186--111934215 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
111934176 ATATGAAAAA
111934186 ATTTAAATTTAAAATG
1 ATTTAAATTTAAAATG
111934202 ATTT-AATTTAAAAT
1 ATTTAAATTTAAAAT
111934216 TTTTAATTAT
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:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATTTAAATTTAAAATG
Found at i:111934209 original size:21 final size:21
Alignment explanation
Indices: 111934184--111934237 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
111934174 ATATATGAAA
111934184 AAATTTAAATTTAAAATGATT
1 AAATTTAAATTTAAAATGATT
* ** *
111934205 TAATTTAAAATTTTTAATTATT
1 AAATTT-AAATTTAAAATGATT
111934227 AAATTTAAATT
1 AAATTTAAATT
111934238 AATGATTCGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
AAATTTAAATTTAAAATGATT
Found at i:111934289 original size:16 final size:16
Alignment explanation
Indices: 111934254--111934292 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
111934244 TCGAATATAA
* * *
111934254 AAAATAATTTTAATTT
1 AAAATAATTTAAACTG
111934270 AAAATAATTTAAACTG
1 AAAATAATTTAAACTG
111934286 AAAATAA
1 AAAATAA
111934293 CTTCTCTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (16 bp):
AAAATAATTTAAACTG
Found at i:111935228 original size:31 final size:30
Alignment explanation
Indices: 111935160--111935228 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
111935150 TTAGCAGCCA
111935160 AATAACTTAAATAAAAAATTTCAAATAATT
1 AATAACTTAAATAAAAAATTTCAAATAATT
* * * *
111935190 AAGTAACTTAAATAAATACTTTTAAATAGTT
1 AA-TAACTTAAATAAAAAATTTCAAATAATT
111935221 CAATAACT
1 -AATAACT
111935229 ATTTTTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 2 0.06
31 29 0.88
32 2 0.06
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.35
Consensus pattern (30 bp):
AATAACTTAAATAAAAAATTTCAAATAATT
Found at i:111953812 original size:29 final size:29
Alignment explanation
Indices: 111953779--111953834 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
111953769 ATATAGATAG
111953779 GATCAAATTAGTCCCTT-TACTATTAAATA
1 GATCAAATTAGT-CCTTATACTATTAAATA
* *
111953808 GATCAATTTAGTCCTTATATTATTAAA
1 GATCAAATTAGTCCTTATACTATTAAA
111953835 AGGAATCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (29 bp):
GATCAAATTAGTCCTTATACTATTAAATA
Found at i:111957309 original size:186 final size:187
Alignment explanation
Indices: 111956948--111957310 Score: 534
Period size: 185 Copynumber: 1.9 Consensus size: 187
111956938 TTTGGGTTCT
* * * *
111956948 TTTTATTTTCTTCTTAAATCGGCTGTGTTTTCCATTGAATTTGAATATGTATATATAACTTCGAA
1 TTTTATTTTCTTCTTAAATCGGCTGTATTTTCCATTGAATTTGAATATATATATAAAAATTCGAA
* *
111957013 TCGATTTTTCAGCTTCATTGGGATTTTTGGGTTTTTTTTCTTCTTTAATCGGCTGTATTTTCCAT
66 TCAATTTTTCAGCTTCACTGGGATTTTTGGGTTTTTTTTCTTCTTTAATCGGCTGTATTTTCCAT
* *
111957078 TGAATTTGAATGTATATATAACTTTGAACCGATTTTTCGGCTTCATTGGGATTTTTG
131 TGAATTTGAATGTATATATAACTTTGAACCGATGTTTCAGCTTCATTGGGATTTTTG
* * * * * *
111957135 TTTT-TTTT-TTCTTTAATTGGCTGTATTTTTCATTGAATTTGAATGTATATATAAAAATTTGAG
1 TTTTATTTTCTTCTTAAATCGGCTGTATTTTCCATTGAATTTGAATATATATATAAAAATTCGAA
*
111957198 TCAATTTTTCAGCTTCACTGGGATTTTTGGGTTTTCTTTT-TTCCTTTAGTCGGCTGTATTTTCC
66 TCAATTTTTCAGCTTCACTGGGATTTTTGGGTTTT-TTTTCTT-CTTTAATCGGCTGTATTTTCC
* *
111957262 ATTGAATTTGGATGTATATATAACTTTGAATCGATGTTTCAGCTTCATT
129 ATTGAATTTGAATGTATATATAACTTTGAACCGATGTTTCAGCTTCATT
111957311 TGCATGCGGG
Statistics
Matches: 157, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
185 80 0.51
186 73 0.46
187 4 0.03
ACGTcount: A:0.21, C:0.12, G:0.16, T:0.51
Consensus pattern (187 bp):
TTTTATTTTCTTCTTAAATCGGCTGTATTTTCCATTGAATTTGAATATATATATAAAAATTCGAA
TCAATTTTTCAGCTTCACTGGGATTTTTGGGTTTTTTTTCTTCTTTAATCGGCTGTATTTTCCAT
TGAATTTGAATGTATATATAACTTTGAACCGATGTTTCAGCTTCATTGGGATTTTTG
Found at i:111963087 original size:13 final size:13
Alignment explanation
Indices: 111963069--111963094 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
111963059 CAATTTTAAA
111963069 AGATTGTAAATAT
1 AGATTGTAAATAT
111963082 AGATTGTAAATAT
1 AGATTGTAAATAT
111963095 TAAAGTGATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (13 bp):
AGATTGTAAATAT
Found at i:111966884 original size:17 final size:17
Alignment explanation
Indices: 111966847--111966884 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
111966837 AATAATTTTT
* *
111966847 TTTAATTTTTAATAATT
1 TTTAATTTTTAAAAATA
111966864 TTTAATTTTTAAAAATA
1 TTTAATTTTTAAAAATA
111966881 TTTA
1 TTTA
111966885 TATATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTAATTTTTAAAAATA
Found at i:111966906 original size:27 final size:26
Alignment explanation
Indices: 111966853--111966911 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
111966843 TTTTTTTAAT
111966853 TTTTAATAATTTTTAATTTTTAAAAA
1 TTTTAATAATTTTTAATTTTTAAAAA
*
111966879 TATTTATATATTTTTTGAA-TTTT-AAAA
1 T-TTTA-ATAATTTTT-AATTTTTAAAAA
111966906 TTTTAA
1 TTTTAA
111966912 AAAAATTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 1 0.03
26 5 0.17
27 9 0.31
28 12 0.41
29 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (26 bp):
TTTTAATAATTTTTAATTTTTAAAAA
Found at i:111981439 original size:3 final size:3
Alignment explanation
Indices: 111981431--111981478 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
111981421 TGTATTTCTA
111981431 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
111981479 ATAGTAGTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:111981658 original size:12 final size:12
Alignment explanation
Indices: 111981641--111981665 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
111981631 GTATTATGTT
111981641 TTTTTAATACCA
1 TTTTTAATACCA
111981653 TTTTTAATACCA
1 TTTTTAATACCA
111981665 T
1 T
111981666 GCATGTTGTG
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:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTTAATACCA
Found at i:112007822 original size:47 final size:48
Alignment explanation
Indices: 112007705--112007828 Score: 155
Period size: 46 Copynumber: 2.6 Consensus size: 48
112007695 TTTACATAAT
* * * * * *
112007705 GATGCCATAGCCCAGCTATGGTCTTACAC-GTAATCACATATCTCACT
1 GATGCCATATCCCAGATATGGTCTTATACAGTAAGCACATATCACACC
* *
112007752 GATGTCATAT-CCAGATATGGTCTTATACAGT-AGCATATATCACACC
1 GATGCCATATCCCAGATATGGTCTTATACAGTAAGCACATATCACACC
112007798 GATGCCATATCCCAGATATGGTCTTATACAG
1 GATGCCATATCCCAGATATGGTCTTATACAG
112007829 AAATCACTTG
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 36 0.55
47 30 0.45
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (48 bp):
GATGCCATATCCCAGATATGGTCTTATACAGTAAGCACATATCACACC
Found at i:112007844 original size:7 final size:7
Alignment explanation
Indices: 112007832--112007881 Score: 91
Period size: 7 Copynumber: 7.1 Consensus size: 7
112007822 TATACAGAAA
112007832 TCACTTG
1 TCACTTG
112007839 TCACTTG
1 TCACTTG
*
112007846 TCACTTA
1 TCACTTG
112007853 TCACTTG
1 TCACTTG
112007860 TCACTTG
1 TCACTTG
112007867 TCACTTG
1 TCACTTG
112007874 TCACTTG
1 TCACTTG
112007881 T
1 T
112007882 AGCCAAAGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (7 bp):
TCACTTG
Found at i:112007924 original size:31 final size:31
Alignment explanation
Indices: 112007880--112008059 Score: 261
Period size: 31 Copynumber: 5.8 Consensus size: 31
112007870 CTTGTCACTT
* * *
112007880 GTAGCCAAAGCTACCACTATTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* ** *
112007911 GTAGCTGGTGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
112007942 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
112007973 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
112008004 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
112008035 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
112008060 TGTCATTTGC
Statistics
Matches: 134, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 134 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:112008142 original size:50 final size:50
Alignment explanation
Indices: 112008035--112008211 Score: 266
Period size: 50 Copynumber: 3.5 Consensus size: 50
112008025 CACTGATCAG
* * *
112008035 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
* *
112008086 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
112008136 GTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
112008186 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
112008212 GTTTCCATGG
Statistics
Matches: 114, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
50 89 0.78
51 25 0.22
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:112014525 original size:18 final size:17
Alignment explanation
Indices: 112014504--112014564 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
112014494 TTTTATGAAC
112014504 TTTTTTTGAATTCTTAAA
1 TTTTTTT-AATTCTTAAA
* *
112014522 TTTTATTTATTTCTGAATA
1 TTTT-TTTAATTCTTAA-A
*
112014541 TTTTTATAATT-TTAAA
1 TTTTTTTAATTCTTAAA
112014557 TTATTTTT
1 TT-TTTTT
112014565 TGACATTACA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
16 3 0.09
17 7 0.21
18 16 0.47
19 8 0.24
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTTTTTAATTCTTAAA
Found at i:112018005 original size:2 final size:2
Alignment explanation
Indices: 112017998--112018023 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
112017988 TGGTAGATGC
112017998 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
112018024 TTTACATTTT
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:112021768 original size:21 final size:19
Alignment explanation
Indices: 112021729--112021773 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
112021719 AATCTTTTAT
112021729 TTTTAAAATAGTAAAAATAA
1 TTTTAAAATAGTAAAAAT-A
* *
112021749 TTTTAAAATATTATATAATA
1 TTTTAAAATAGTA-AAAATA
112021769 TTTTA
1 TTTTA
112021774 TAATTAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
TTTTAAAATAGTAAAAATA
Found at i:112021985 original size:3 final size:3
Alignment explanation
Indices: 112021977--112022032 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
112021967 ATCTAGTTTT
112021977 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
112022025 TAA TAA TA
1 TAA TAA TA
112022033 CAGGTAAATG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:112026010 original size:2 final size:2
Alignment explanation
Indices: 112026003--112026040 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
112025993 CATCTATCTT
112026003 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
112026041 CCCTTATAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 31 0.91
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:112030004 original size:16 final size:16
Alignment explanation
Indices: 112029985--112030021 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
112029975 ACCTAACCCC
112029985 AAAAAAAAA-AACAAAG
1 AAAAAAAAAGAA-AAAG
112030001 AAAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAG
112030017 AAAAA
1 AAAAA
112030022 CCTACCCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:112030036 original size:16 final size:16
Alignment explanation
Indices: 112030017--112030052 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
112030007 AAAGAAAAAG
112030017 AAAAACCT-ACCCCAA
1 AAAAACCTAACCCCAA
112030032 AAAAACCTAACCCCAA
1 AAAAACCTAACCCCAA
112030048 AAAAA
1 AAAAA
112030053 AAAGAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.61, C:0.33, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAACCTAACCCCAA
Found at i:112030879 original size:37 final size:37
Alignment explanation
Indices: 112030837--112030938 Score: 93
Period size: 37 Copynumber: 2.6 Consensus size: 37
112030827 CTAATATTTT
112030837 CTTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 CTTTTATT-TAGATATTATTATTATTATTATGTACATA
*
112030874 CTTTTATTATATGCATATATATATATGTATTTTTATGTACATA
1 CTTTTATT-TA-G-ATAT-TAT-TAT-TATTATTATGTACATA
*
112030917 -TTATTATTT-TATATTATTATTA
1 CTT-TTATTTAGATATTATTATTA
112030939 CCAAATATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 13 0.24
38 4 0.07
39 8 0.15
40 3 0.05
41 3 0.05
42 11 0.20
43 11 0.20
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (37 bp):
CTTTTATTTAGATATTATTATTATTATTATGTACATA
Done.