Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 153 of 208
Found at i:49695383 original size:28 final size:28
Alignment explanation
Indices: 49695310--49695402 Score: 85
Period size: 28 Copynumber: 3.5 Consensus size: 28
49695300 ATTAATTAAT
*
49695310 TTTA-ATA-ATGTAATTA-TTA-TTATTA
1 TTTATATATATGTAATGATTTATTTA-TA
*
49695335 TTTATATATATGTAATTATTT-TTTATAA
1 TTTATATATATGTAATGATTTATTTAT-A
49695363 TTTATATATATGT-ATAGATTTATTT-T-
1 TTTATATATATGTAAT-GATTTATTTATA
49695389 TTTATATATATGTA
1 TTTATATATATGTA
49695403 CATGTAAATA
Statistics
Matches: 59, Mismatches: 1, Indels: 14
0.80 0.01 0.19
Matches are distributed among these distances:
25 4 0.07
26 16 0.27
27 12 0.20
28 24 0.41
29 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (28 bp):
TTTATATATATGTAATGATTTATTTATA
Found at i:49706874 original size:25 final size:26
Alignment explanation
Indices: 49706833--49706881 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
49706823 TAAATTTGTT
49706833 TGTTCTTGTAATACTTCATTCTTTGC
1 TGTTCTTGTAATACTTCATTCTTTGC
*
49706859 TGTTCTTG-AATACTTCTTTCTTT
1 TGTTCTTGTAATACTTCATTCTTT
49706882 TCAAGACACT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.14, C:0.18, G:0.10, T:0.57
Consensus pattern (26 bp):
TGTTCTTGTAATACTTCATTCTTTGC
Found at i:49708413 original size:44 final size:44
Alignment explanation
Indices: 49708133--49708432 Score: 168
Period size: 44 Copynumber: 6.9 Consensus size: 44
49708123 GAATATAGAG
* * *
49708133 AATCTTATCTCCCTAAAGTTGCAATGGGGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* ** * **
49708177 AATCCTATCTCCCTGAAGTTTTAGTGGAGCGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* * * * * * *
49708221 GATCTTATCTCTCTGAAGTTGCAG-AGAGCAAATCACA-TC--T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * *
49708261 AGTCTTATCTCCCTGAAGTTTCAGTGGAGCAGACTAAGTAAG-CAA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA--AAGCCAAT
* * * * * * * *
49708306 AGTCTTATCCCCCTGAAGTTACAGTGGGGCAAGCTGAAGATGGC--G
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGC-AGATTAA-A-GCCAAT
* * *
49708351 AATCTCATCTCCTTGAAGTTGTAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * **
49708395 AATCCTATCTCCCTGAAGTTGCAATGGAGTGGATTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
49708433 AACGCAGGTC
Statistics
Matches: 190, Mismatches: 50, Indels: 32
0.70 0.18 0.12
Matches are distributed among these distances:
40 20 0.11
41 6 0.03
42 6 0.03
43 10 0.05
44 91 0.48
45 54 0.28
46 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
Found at i:49708623 original size:209 final size:209
Alignment explanation
Indices: 49708132--49708709 Score: 789
Period size: 209 Copynumber: 2.7 Consensus size: 209
49708122 TGAATATAGA
* * *
49708132 GAATCTTATCTCCCTAAAGTTGCAATGGGGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTT
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTT
** * *
49708197 TTAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCACATCTA
66 GCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCTA
*
49708262 GTCTTATCTCCCTGAAGTTTCAGTGGAGCAGACTAAGTAAGCAAAGTCTTATCCCCCTGAAGTTA
131 GTCTTATCTCCCTGAAG--T---T---G-AGACTAAGTAAGCAAAGCCTTATCCCCCTGAAGTTA
*
49708327 CAGTGGGGCAAGCTGAAGATGGC
187 CAGTGGGACAAGCTGAAGATGGC
* * *
49708350 GAATCTCATCTCCTTGAAGTTGTAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTT
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTT
* * * * * * * **
49708415 GCAATGGAGTGGATTAAAAACGCAGGTCTTATCTTTCTGAAGTTGTAGAAAGCAGATCGTATCTA
66 GCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCTA
49708480 GTCTTATCTCCCTGAAGTT-AGACTAAGTAAGCAAAGCCTTATCCCCCCTGAAGTTACAGTGGGA
131 GTCTTATCTCCCTGAAGTTGAGACTAAGTAAGCAAAGCCTTAT-CCCCCTGAAGTTACAGTGGGA
*
49708544 CAGGCTGAAGATGGC
195 CAAGCTGAAGATGGC
*
49708559 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAAGCCAATAATCCTATCTCCCTGAAGTT
1 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTT
* * * * *
49708624 GCAGTGCAGTGGATTAAAATTACAGATCTTATCTCTCTGAAGGTGCAGTAGAGTAGATCACATCG
66 GCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCACATCT
*
49708689 GGTCTTATCTCCCTGAAGTTG
130 AGTCTTATCTCCCTGAAGTTG
49708710 CAGTGGAGCA
Statistics
Matches: 316, Mismatches: 41, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
208 22 0.07
209 134 0.42
210 30 0.09
213 1 0.00
216 1 0.00
218 128 0.41
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (209 bp):
GAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTT
GCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCTA
GTCTTATCTCCCTGAAGTTGAGACTAAGTAAGCAAAGCCTTATCCCCCTGAAGTTACAGTGGGAC
AAGCTGAAGATGGC
Found at i:49708657 original size:44 final size:40
Alignment explanation
Indices: 49708561--49708714 Score: 110
Period size: 44 Copynumber: 3.6 Consensus size: 40
49708551 AAGATGGCGA
* * ** *
49708561 ATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAAGCCAATA
1 ATCTTATCTCCCTGAAGTTGCAGT-GAGTAGA-TAAAATC-A-G
* *
49708605 ATCCTATCTCCCTGAAGTTGCAGTGCAGTGGATTAAAATTACAG
1 ATCTTATCTCCCTGAAGTTGCAGTG-AGTAGA-TAAAA-T-CAG
* * * * *
49708649 ATCTTATCTCTCTGAAGGTGCAGTAGAGTAGATCACATCGG
1 ATCTTATCTCCCTGAAGTTGCAGT-GAGTAGATAAAATCAG
*
49708690 GTCTTATCTCCCTGAAGTTGCAGTG
1 ATCTTATCTCCCTGAAGTTGCAGTG
49708715 GAGCAGACTG
Statistics
Matches: 89, Mismatches: 17, Indels: 12
0.75 0.14 0.10
Matches are distributed among these distances:
40 1 0.01
41 23 0.26
42 1 0.01
43 4 0.04
44 57 0.64
45 2 0.02
46 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (40 bp):
ATCTTATCTCCCTGAAGTTGCAGTGAGTAGATAAAATCAG
Found at i:49708802 original size:44 final size:43
Alignment explanation
Indices: 49708694--49708804 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 43
49708684 CATCGGGTCT
* * * * *
49708694 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGTAAGAAGTCT
1 TATCTCCCTAAAGTTGCAGTGGAGCAGACTGAATAACAAATCC
* * * *
49708737 TATCCCCCTAAAATTACAGTGGGGCAGACTGAATAAACAAATCC
1 TATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAT-AACAAATCC
*
49708781 TATCTCCCTAAAGTTGTAGTGGAG
1 TATCTCCCTAAAGTTGCAGTGGAG
49708805 TGGATTAGAA
Statistics
Matches: 53, Mismatches: 14, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
43 28 0.53
44 25 0.47
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (43 bp):
TATCTCCCTAAAGTTGCAGTGGAGCAGACTGAATAACAAATCC
Found at i:49710543 original size:27 final size:27
Alignment explanation
Indices: 49710474--49710553 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 27
49710464 AATAATGTAA
49710474 TTATTATTATTTTATATATATGT-TAAT
1 TTATT-TTATTTTATATATATGTATAAT
*
49710501 TATTTTTTATAATTTATATATATGTATAGAT
1 T-TATTTTAT--TTTATATATATGTATA-AT
49710532 TTATTTT-TTTTATATATATGTA
1 TTATTTTATTTTATATATATGTA
49710554 CATGTAAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
27 19 0.41
28 3 0.07
29 14 0.30
30 7 0.15
31 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (27 bp):
TTATTTTATTTTATATATATGTATAAT
Found at i:49710547 original size:29 final size:28
Alignment explanation
Indices: 49710486--49710550 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
49710476 ATTATTATTT
*
49710486 TATATATATGTTAATTATTTTTTATAATT
1 TATATATATGTTAATTATTTTTTAT-ATA
*
49710515 TATATATATGTATAGATTTATTTTTTTTATA
1 TATATATATGT-TA-A-TTATTTTTTATATA
49710546 TATAT
1 TATAT
49710551 GTACATGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 11 0.35
30 2 0.06
31 8 0.26
32 10 0.32
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.62
Consensus pattern (28 bp):
TATATATATGTTAATTATTTTTTATATA
Found at i:49728772 original size:32 final size:31
Alignment explanation
Indices: 49728727--49728822 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
49728717 CTTAGATAAT
49728727 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
49728758 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
49728790 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
49728821 TT
1 TT
49728823 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:49729176 original size:4 final size:4
Alignment explanation
Indices: 49729126--49729160 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
49729116 TCTATCCTTT
*
49729126 TTTA TTTA TGTA TTTA TTTA TTTA TTTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
49729161 ACTAATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:49734268 original size:31 final size:31
Alignment explanation
Indices: 49734232--49734326 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
49734222 CTTAGATAAT
49734232 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
49734263 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
*
49734294 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
49734325 TT
1 TT
49734327 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:49734683 original size:29 final size:27
Alignment explanation
Indices: 49734635--49734692 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
49734625 ATCCTTTTTA
49734635 TTTATTTATTTATTTATTATTTAACTAAT
1 TTTATTTATTTATTTATTATTT--CTAAT
49734664 TTTATTTATTCTCA-TT-TTATTTCTAAT
1 TTTATTTATT-T-ATTTATTATTTCTAAT
49734691 TT
1 TT
49734693 GTGTTTCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
27 7 0.26
29 16 0.59
30 3 0.11
31 1 0.04
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTATTTATTTATTTATTATTTCTAAT
Found at i:49739592 original size:39 final size:39
Alignment explanation
Indices: 49739497--49739758 Score: 318
Period size: 39 Copynumber: 6.6 Consensus size: 39
49739487 TTGAATGATG
*
49739497 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
49739535 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
*
49739576 TCCGAGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
49739615 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
49739654 TACGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
49739693 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
49739732 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
49739759 AACGAGGAGC
Statistics
Matches: 200, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
39 129 0.64
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:49746360 original size:26 final size:26
Alignment explanation
Indices: 49746331--49746380 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
49746321 AATTAATGCA
* *
49746331 AATTAAATTTAAATATTGAATGTTCT
1 AATTAAACTGAAATATTGAATGTTCT
*
49746357 AATTCAACTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
49746381 TTCTTTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTCT
Found at i:49748492 original size:26 final size:26
Alignment explanation
Indices: 49748453--49748502 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
49748443 AATTAATACA
49748453 AATTAAACTAAAATATTGAATGTTCT
1 AATTAAACTAAAATATTGAATGTTCT
*
49748479 AATTAAACTGAAATATTGAATGTT
1 AATTAAACTAAAATATTGAATGTT
49748503 TTCTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (26 bp):
AATTAAACTAAAATATTGAATGTTCT
Found at i:49750525 original size:26 final size:26
Alignment explanation
Indices: 49750496--49750545 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
49750486 AATTAATGCA
49750496 AATTAAACTGAAATATTGAATGTTCT
1 AATTAAACTGAAATATTGAATGTTCT
49750522 AATTAAACTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
49750546 TTTTTATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTCT
Found at i:49754468 original size:24 final size:26
Alignment explanation
Indices: 49754431--49754478 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
49754421 AATTAATGCA
*
49754431 AATTAAACTGAAATCTTGAATGTTCT
1 AATTAAACTGAAATATTGAATGTTCT
49754457 AATT-AACT-AAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
49754479 GTAACGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.62
25 4 0.19
26 4 0.19
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTCT
Found at i:49756554 original size:26 final size:26
Alignment explanation
Indices: 49756525--49756574 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
49756515 AATTAATGCA
*
49756525 AATTAAACTGAAATCTTGAATGTTCT
1 AATTAAACTGAAATATTGAATGTTCT
49756551 AATTAAACTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
49756575 TGTAACGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTCT
Found at i:49758729 original size:26 final size:26
Alignment explanation
Indices: 49758700--49758749 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
49758690 AATTAATGCA
*
49758700 AATTAAACTGAAATCTTGAATGTTCT
1 AATTAAACTGAAATATTGAATGTTCT
49758726 AATTAAACTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
49758750 GTAACGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTCT
Found at i:49760841 original size:26 final size:26
Alignment explanation
Indices: 49760812--49760861 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
49760802 AATTAATGCA
*
49760812 AATTAAACTGAAATCTTGAATGTTCT
1 AATTAAACTGAAATATTGAATGTTCT
49760838 AATTAAACTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
49760862 GTAACGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTCT
Found at i:49762951 original size:26 final size:26
Alignment explanation
Indices: 49762922--49762971 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
49762912 AATTAATGCA
*
49762922 AATTAAACTGAAATCTTGAATGTTCT
1 AATTAAACTGAAATATTGAATGTTCT
49762948 AATTAAACTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
49762972 GTAACGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTCT
Found at i:49765061 original size:26 final size:26
Alignment explanation
Indices: 49765032--49765081 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
49765022 AATTAATGCA
*
49765032 AATTAAACTGAAATCTTGAATGTTCT
1 AATTAAACTGAAATATTGAATGTTCT
49765058 AATTAAACTGAAATATTGAATGTT
1 AATTAAACTGAAATATTGAATGTT
49765082 GTAACGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
AATTAAACTGAAATATTGAATGTTCT
Found at i:49777249 original size:26 final size:22
Alignment explanation
Indices: 49777220--49777283 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 22
49777210 TTATCGGCAT
49777220 TATGTGGTGGTTTATCAACGATGTGC
1 TATGTGGTGGTTTATC-A-G-TGT-C
* * *
49777246 TATGTGATTGTTCATCAGTGTC
1 TATGTGGTGGTTTATCAGTGTC
*
49777268 TATGTGGTGGCTTATC
1 TATGTGGTGGTTTATC
49777284 CAAAAACTGG
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
22 13 0.42
23 3 0.10
24 1 0.03
25 1 0.03
26 13 0.42
ACGTcount: A:0.17, C:0.12, G:0.28, T:0.42
Consensus pattern (22 bp):
TATGTGGTGGTTTATCAGTGTC
Found at i:49779673 original size:33 final size:33
Alignment explanation
Indices: 49779636--49779713 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
49779626 TAGTTTGTTG
49779636 GGACAATAAACACAAAACAAAGATAGTCCT-CCA
1 GGACAATAAACACAAAACAAAGATAGT-CTGCCA
* * * * *
49779669 GGACAGTAAACACGAAACAGAGATAGTTTGTCA
1 GGACAATAAACACAAAACAAAGATAGTCTGCCA
49779702 GGACAATAAACA
1 GGACAATAAACA
49779714 TGAGGTAAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 1 0.03
33 37 0.97
ACGTcount: A:0.49, C:0.19, G:0.18, T:0.14
Consensus pattern (33 bp):
GGACAATAAACACAAAACAAAGATAGTCTGCCA
Found at i:49789172 original size:27 final size:27
Alignment explanation
Indices: 49789119--49789174 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
49789109 AAAGGTTGTT
* *
49789119 AAATGATCATAATACCCTTATAAGGTA
1 AAATGATCATAATACCCCTAGAAGGTA
* * *
49789146 AAATGATCGTAATGCCCCTAGAGGGTA
1 AAATGATCATAATACCCCTAGAAGGTA
49789173 AA
1 AA
49789175 TGACTATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (27 bp):
AAATGATCATAATACCCCTAGAAGGTA
Found at i:49789187 original size:26 final size:27
Alignment explanation
Indices: 49789158--49789210 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
49789148 ATGATCGTAA
49789158 TGCCCCTAGAGGGTAAATGACT-ATTT
1 TGCCCCTAGAGGGTAAATGACTGATTT
* *
49789184 TGCCCCTCGATGGTAAATGACTGATTT
1 TGCCCCTAGAGGGTAAATGACTGATTT
49789211 GTGCTATGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (27 bp):
TGCCCCTAGAGGGTAAATGACTGATTT
Found at i:49794692 original size:22 final size:22
Alignment explanation
Indices: 49794664--49794707 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
49794654 TAAATTTGTA
*
49794664 AAAATTCATTATAAAAATAATT
1 AAAATTCAATATAAAAATAATT
**
49794686 AAAATTCAATATATTAATAATT
1 AAAATTCAATATAAAAATAATT
49794708 TAAGTGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATTCAATATAAAAATAATT
Found at i:49794738 original size:20 final size:21
Alignment explanation
Indices: 49794715--49794753 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
49794705 ATTTAAGTGA
49794715 AAATTAATT-ATTTT-ATAATT
1 AAATT-ATTAATTTTGATAATT
49794735 AAATTATTAATTTTGATAA
1 AAATTATTAATTTTGATAA
49794754 AATTTACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 10 0.59
21 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
AAATTATTAATTTTGATAATT
Found at i:49797532 original size:13 final size:13
Alignment explanation
Indices: 49797516--49797591 Score: 84
Period size: 13 Copynumber: 5.8 Consensus size: 13
49797506 ATTCATTTAA
*
49797516 CATTTCATATGTC
1 CATTTCATATATC
*
49797529 CATTTCA-AGTAAC
1 CATTTCATA-TATC
49797542 CATTTCATATATC
1 CATTTCATATATC
*
49797555 TATTTCGATATAAT-
1 CATTTC-ATAT-ATC
49797569 CATTTCATATATC
1 CATTTCATATATC
49797582 CATTTCATAT
1 CATTTCATAT
49797592 CACCATTTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
12 3 0.06
13 38 0.72
14 10 0.19
15 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.04, T:0.45
Consensus pattern (13 bp):
CATTTCATATATC
Found at i:49802734 original size:33 final size:33
Alignment explanation
Indices: 49802688--49802752 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
49802678 AAGTTTAAGT
* *
49802688 GGTGGGTCAAGTCACTGATAAGAAATGATATTG
1 GGTGAGTCAAGTCACTGATAAGAAAGGATATTG
49802721 GGTGAGTCAAGTCACTGATAAGAAAGGATATT
1 GGTGAGTCAAGTCACTGATAAGAAAGGATATT
49802753 AGGTTTTGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.35, C:0.09, G:0.29, T:0.26
Consensus pattern (33 bp):
GGTGAGTCAAGTCACTGATAAGAAAGGATATTG
Found at i:49816389 original size:23 final size:22
Alignment explanation
Indices: 49816338--49816389 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
49816328 CCTCGTCTTT
*
49816338 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
49816360 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
49816383 TTCTTTT
1 TTCTTTT
49816390 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:49819787 original size:370 final size:370
Alignment explanation
Indices: 49819087--49819821 Score: 1168
Period size: 370 Copynumber: 2.0 Consensus size: 370
49819077 TTATTATATT
* * * *
49819087 GAATTGCTTAATAGCTAGAATTGATGCCTCTAGTAGACAATCTAGATTAACAAGACAGAGAGGAG
1 GAATTGCTTAATAGCTAGAATTGATGCCTCTAGTAGAAAATCTAGATAAAAAAGACAAAGAGGAG
*
49819152 AGTTTATACTTAATAGTTCGATATAATTGTACCAAGTAGTGAGATTAAGAGAAGAACTACTTGTC
66 AGTTTATACTTAATAGTTCGACATAATTGTACCAAGTAGTGAGATTAAGAGAAGAACTACTTGTC
* * * * *
49819217 AAAGTGAGATTGAGAGAAGAACTTAGGTTGTAATTTCAAATTAGGATGAGACTGAGAGGAGATTC
131 AAAGTGAGACTGAGAGAAGAACTTAGGTTGCAATTCCAAATTAGGATGAGACTAAGACGAGATTC
* * *
49819282 TAGTGAGGAGTGACAAGTGATCTAATCGGGATAGGTTATTGTCTTAGTTAGTAATCGACTAATCA
196 TAGTGAGGAGTGACAAGCGATCTAATCGGGATAGGTTATTGGCTTAATTAGTAATCGACTAATCA
* * * * *
49819347 ATCAACCATCGTTTTTATCATTTTCGTAGTCGAATACAATAGGAAGAAATCTTAGTTTAGGTAGT
261 ATCAACCATCATTTTTATCATTTGCATAGTCGAATACAACAGGAAGAAATCTTAATTTAGGTAGT
49819412 TTAATTGATAATTTAGAATTAGTCTCATT-TATTTTCATACGCTA
326 TTAATTGATAATTTAGAATTAGTCTCATTATATTTTCATACGCTA
*
49819456 GAATTGCTTAATACGCTAGAATTGATGCCTCTAGTGGAAAATCTAGATAAAAAAGACAAAGAGGA
1 GAATTGCTTAATA-GCTAGAATTGATGCCTCTAGTAGAAAATCTAGATAAAAAAGACAAAGAGGA
* **** *
49819521 GAGTTTATCCTTAATAGTTCGACATAATTGTATTGGGTAGTGAGATTGAGAGAAGAACTACTTGT
65 GAGTTTATACTTAATAGTTCGACATAATTGTACCAAGTAGTGAGATTAAGAGAAGAACTACTTGT
* *
49819586 CTAAGTGAGACTGAGAGAAGAACTTA-GTTGGCAATTCCGAATTAGGATGAGACTAAGACGAGAT
130 CAAAGTGAGACTGAGAGAAGAACTTAGGTT-GCAATTCCAAATTAGGATGAGACTAAGACGAGAT
* *
49819650 TCTAGTGAGGAGTGGCAAGCGATCTAATCGGGATAGGTTATTGGCTTAATTAGTAATTGACTAAT
194 TCTAGTGAGGAGTGACAAGCGATCTAATCGGGATAGGTTATTGGCTTAATTAGTAATCGACTAAT
49819715 CAATCAACCATCATTTTTATCATTTGCATAGTCGAATACAACAGGAAGAAATCTTAATTTAGGTA
259 CAATCAACCATCATTTTTATCATTTGCATAGTCGAATACAACAGGAAGAAATCTTAATTTAGGTA
*
49819780 TTTTAATTGATAATTTAGAATTAGTCTCATTATATTTTCATA
324 GTTTAATTGATAATTTAGAATTAGTCTCATTATATTTTCATA
49819822 TCTAGTTTGC
Statistics
Matches: 333, Mismatches: 30, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
369 16 0.05
370 307 0.92
371 10 0.03
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (370 bp):
GAATTGCTTAATAGCTAGAATTGATGCCTCTAGTAGAAAATCTAGATAAAAAAGACAAAGAGGAG
AGTTTATACTTAATAGTTCGACATAATTGTACCAAGTAGTGAGATTAAGAGAAGAACTACTTGTC
AAAGTGAGACTGAGAGAAGAACTTAGGTTGCAATTCCAAATTAGGATGAGACTAAGACGAGATTC
TAGTGAGGAGTGACAAGCGATCTAATCGGGATAGGTTATTGGCTTAATTAGTAATCGACTAATCA
ATCAACCATCATTTTTATCATTTGCATAGTCGAATACAACAGGAAGAAATCTTAATTTAGGTAGT
TTAATTGATAATTTAGAATTAGTCTCATTATATTTTCATACGCTA
Found at i:49821328 original size:24 final size:24
Alignment explanation
Indices: 49821296--49821346 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
49821286 TAAAATGAGT
49821296 TTATTAAACAAATGAAAACACTTA
1 TTATTAAACAAATGAAAACACTTA
49821320 TTATTAAACAAATGAAAACACTTA
1 TTATTAAACAAATGAAAACACTTA
49821344 TTA
1 TTA
49821347 ATCATAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.53, C:0.12, G:0.04, T:0.31
Consensus pattern (24 bp):
TTATTAAACAAATGAAAACACTTA
Found at i:49824421 original size:13 final size:12
Alignment explanation
Indices: 49824403--49824449 Score: 76
Period size: 13 Copynumber: 3.8 Consensus size: 12
49824393 ACTAGCTCTC
49824403 TTTTTTTCAAAT
1 TTTTTTTCAAAT
49824415 TTTTTTTCACAAT
1 TTTTTTTCA-AAT
49824428 TTTTTTTCAAAAT
1 TTTTTTTC-AAAT
49824441 TTTTTTTCA
1 TTTTTTTCA
49824450 CAACTTGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 10 0.30
13 22 0.67
14 1 0.03
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTTTTTCAAAT
Found at i:49824440 original size:26 final size:25
Alignment explanation
Indices: 49824403--49824452 Score: 91
Period size: 26 Copynumber: 2.0 Consensus size: 25
49824393 ACTAGCTCTC
49824403 TTTTTTTCAAATTTTTTTTCACAAT
1 TTTTTTTCAAATTTTTTTTCACAAT
49824428 TTTTTTTCAAAATTTTTTTTCACAA
1 TTTTTTTC-AAATTTTTTTTCACAA
49824453 CTTGATATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTTTTTCAAATTTTTTTTCACAAT
Found at i:49827547 original size:19 final size:18
Alignment explanation
Indices: 49827511--49827550 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
49827501 TTTCCACTCG
*
49827511 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
49827529 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
49827548 TTT
1 TTT
49827551 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:49828623 original size:13 final size:12
Alignment explanation
Indices: 49828605--49828652 Score: 69
Period size: 13 Copynumber: 3.8 Consensus size: 12
49828595 ACTAGCTCTC
49828605 TTTTTTTCAAATT
1 TTTTTTTCAAA-T
49828618 TTTTTTTCACAAT
1 TTTTTTTCA-AAT
49828631 TTTTTTTCAAAAT
1 TTTTTTTC-AAAT
49828644 TTTTTTTCA
1 TTTTTTTCA
49828653 CAACTTGATA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.03
13 29 0.88
14 3 0.09
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTTTTCAAAT
Found at i:49828641 original size:26 final size:26
Alignment explanation
Indices: 49828605--49828655 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
49828595 ACTAGCTCTC
*
49828605 TTTTTTTCAAATTTTTTTTTCACAAT
1 TTTTTTTCAAAATTTTTTTTCACAAT
49828631 TTTTTTTCAAAATTTTTTTTCACAA
1 TTTTTTTCAAAATTTTTTTTCACAA
49828656 CTTGATATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTTTTTCAAAATTTTTTTTCACAAT
Found at i:49831026 original size:16 final size:16
Alignment explanation
Indices: 49830993--49831025 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49830983 TCGTTAGACC
*
49830993 TTATTTTGTTTTTATT
1 TTATTTTCTTTTTATT
49831009 TTATTTTCTTTTT-TT
1 TTATTTTCTTTTTATT
49831024 TT
1 TT
49831026 TTTGCATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.85
Consensus pattern (16 bp):
TTATTTTCTTTTTATT
Found at i:49831721 original size:12 final size:12
Alignment explanation
Indices: 49831704--49831731 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
49831694 ACCTGTAATC
49831704 AAAATTAATCCA
1 AAAATTAATCCA
49831716 AAAATTAATCCA
1 AAAATTAATCCA
49831728 AAAA
1 AAAA
49831732 CCAAAAGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATTAATCCA
Found at i:49832618 original size:14 final size:13
Alignment explanation
Indices: 49832599--49832642 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 13
49832589 AGGATTAATA
49832599 TATTATAACATTGT
1 TATTATAACA-TGT
49832613 TATTATAACACTGT
1 TATTATAACA-TGT
*
49832627 TATTATAGCATGT
1 TATTATAACATGT
49832640 TAT
1 TAT
49832643 GAAACAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
13 6 0.21
14 22 0.79
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.48
Consensus pattern (13 bp):
TATTATAACATGT
Found at i:49835481 original size:35 final size:35
Alignment explanation
Indices: 49835437--49835506 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
49835427 ATATTGTTTT
*
49835437 CACGGTGTCACCCCGAAAGACCTATATACCATTTA
1 CACGATGTCACCCCGAAAGACCTATATACCATTTA
* * *
49835472 CACGATGTCACCCTGAATGACCTATATATCATTTA
1 CACGATGTCACCCCGAAAGACCTATATACCATTTA
49835507 TACGGTGTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (35 bp):
CACGATGTCACCCCGAAAGACCTATATACCATTTA
Found at i:49835806 original size:16 final size:18
Alignment explanation
Indices: 49835775--49835809 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
49835765 CAGATCAAGT
49835775 ATACAGATATTTCATATC
1 ATACAGATATTTCATATC
49835793 ATACAG-TA-TTCATATC
1 ATACAGATATTTCATATC
49835809 A
1 A
49835810 GGAATTCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 2 0.12
18 6 0.35
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (18 bp):
ATACAGATATTTCATATC
Found at i:49844574 original size:40 final size:40
Alignment explanation
Indices: 49844530--49844791 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
49844520 GCTCCTCGTT
* *
49844530 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
49844570 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
49844610 CAAATGCCTTCGGG-CTTAACCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
49844649 CAAATGCCTTTGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
49844688 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
49844727 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
49844768 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49844792 CATCATTCAA
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 126 0.62
40 64 0.32
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:49865587 original size:21 final size:24
Alignment explanation
Indices: 49865561--49865609 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
49865551 TTTAATATCT
49865561 TTATCATAT-C-GA-TTTAAAATA
1 TTATCATATCCTGATTTTAAAATA
*
49865582 TTATCATATCCTGATTTTGAAATA
1 TTATCATATCCTGATTTTAAAATA
49865606 TTAT
1 TTAT
49865610 ATTAAATAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 9 0.38
22 1 0.04
23 2 0.08
24 12 0.50
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (24 bp):
TTATCATATCCTGATTTTAAAATA
Found at i:49866350 original size:32 final size:32
Alignment explanation
Indices: 49866311--49866377 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
49866301 TTTCTGGTTG
* * *
49866311 TGTGGGATGGATGAATTTATGTGCAATTTGGT
1 TGTGGGATAGATGAACTTATGTGCAATTTGCT
* *
49866343 TGTGGGATAGATGCACTTGTGTGCAATTTGCT
1 TGTGGGATAGATGAACTTATGTGCAATTTGCT
49866375 TGT
1 TGT
49866378 ATTGTAAGGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.19, C:0.07, G:0.33, T:0.40
Consensus pattern (32 bp):
TGTGGGATAGATGAACTTATGTGCAATTTGCT
Found at i:49866667 original size:20 final size:21
Alignment explanation
Indices: 49866635--49866674 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
49866625 ATTAAGATTC
49866635 AACTATAAACCATACAATTTT
1 AACTATAAACCATACAATTTT
*
49866656 AACTAT-AACCATACGATTT
1 AACTATAAACCATACAATTT
49866675 AATTGGAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.33
Consensus pattern (21 bp):
AACTATAAACCATACAATTTT
Found at i:49873448 original size:28 final size:29
Alignment explanation
Indices: 49873417--49873473 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
49873407 TTAGTAAGTT
* **
49873417 TTAATAAAAATGTGTATTAA-GGACTAAA
1 TTAAGAAAAATGTAAATTAAGGGACTAAA
*
49873445 TTAAGAAAAGTGTAAATTAAGGGACTAAA
1 TTAAGAAAAATGTAAATTAAGGGACTAAA
49873474 ATGTGAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.28
Consensus pattern (29 bp):
TTAAGAAAAATGTAAATTAAGGGACTAAA
Found at i:49874040 original size:43 final size:43
Alignment explanation
Indices: 49873986--49874114 Score: 142
Period size: 43 Copynumber: 3.0 Consensus size: 43
49873976 CATAGGATTT
49873986 TCGATATGTGTTATCGTGTAAGACCACGTCTGGGACATTGGTA
1 TCGATATGTGTTATCGTGTAAGACCACGTCTGGGACATTGGTA
* * *
49874029 TCGACT-TGTGTT-TACGTGTAAGACC-CTATCTGGGACAGT-GCA
1 TCGA-TATGTGTTAT-CGTGTAAGACCAC-GTCTGGGACATTGGTA
* *
49874071 TCGATATGTGATTA-CATGTAAGACCACGTCTGGGACGTTGGTA
1 TCGATATGTG-TTATCGTGTAAGACCACGTCTGGGACATTGGTA
49874114 T
1 T
49874115 TGTACGAGTT
Statistics
Matches: 70, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
41 1 0.01
42 31 0.44
43 37 0.53
44 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (43 bp):
TCGATATGTGTTATCGTGTAAGACCACGTCTGGGACATTGGTA
Found at i:49874092 original size:42 final size:42
Alignment explanation
Indices: 49873986--49874106 Score: 131
Period size: 42 Copynumber: 2.8 Consensus size: 42
49873976 CATAGGATTT
* * *
49873986 TCGATATGTGTTATCGTGTAAGACCACGTCTGGGACATTGGTA
1 TCGATATGTGTTA-CGTGTAAGACCACATCTGGGACAGTGGCA
49874029 TCGACT-TGTGTTTACGTGTAAGACC-CTATCTGGGACAGT-GCA
1 TCGA-TATGTG-TTACGTGTAAGACCAC-ATCTGGGACAGTGGCA
* *
49874071 TCGATATGTGATTACATGTAAGACCACGTCTGGGAC
1 TCGATATGTG-TTACGTGTAAGACCACATCTGGGAC
49874107 GTTGGTATTG
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
41 1 0.01
42 32 0.48
43 30 0.45
44 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (42 bp):
TCGATATGTGTTACGTGTAAGACCACATCTGGGACAGTGGCA
Found at i:49874975 original size:23 final size:23
Alignment explanation
Indices: 49874948--49875051 Score: 91
Period size: 24 Copynumber: 4.4 Consensus size: 23
49874938 ATGAGTTGAA
* *
49874948 CCAATTTGTTACATATATGCTGT
1 CCAATTTGTTACATAAATGCTGC
* * * *
49874971 CCAATTTTGATGCTTAAATGCTAC
1 CCAA-TTTGTTACATAAATGCTGC
* *
49874995 CCAATTTGTTACATATATGCTGT
1 CCAATTTGTTACATAAATGCTGC
* * *
49875018 CCAATTTTGATGCTTAAATGCTGC
1 CCAA-TTTGTTACATAAATGCTGC
49875042 CCAATTTGTT
1 CCAATTTGTT
49875052 GTCCAATTTG
Statistics
Matches: 61, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
23 26 0.43
24 35 0.57
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.41
Consensus pattern (23 bp):
CCAATTTGTTACATAAATGCTGC
Found at i:49874991 original size:24 final size:24
Alignment explanation
Indices: 49874964--49875048 Score: 100
Period size: 24 Copynumber: 3.6 Consensus size: 24
49874954 TGTTACATAT
*
49874964 ATGCTGTCCAATTTTGATGCTTAA
1 ATGCTGCCCAATTTTGATGCTTAA
* * * * *
49874988 ATGCTACCCAA-TTTGTTACATAT
1 ATGCTGCCCAATTTTGATGCTTAA
*
49875011 ATGCTGTCCAATTTTGATGCTTAA
1 ATGCTGCCCAATTTTGATGCTTAA
49875035 ATGCTGCCCAATTT
1 ATGCTGCCCAATTT
49875049 GTTGTCCAAT
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
23 17 0.36
24 30 0.64
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (24 bp):
ATGCTGCCCAATTTTGATGCTTAA
Found at i:49875002 original size:47 final size:47
Alignment explanation
Indices: 49874948--49875051 Score: 199
Period size: 47 Copynumber: 2.2 Consensus size: 47
49874938 ATGAGTTGAA
49874948 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTAC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTAC
*
49874995 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTGC
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTAC
49875042 CCAATTTGTT
1 CCAATTTGTT
49875052 GTCCAATTTG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.41
Consensus pattern (47 bp):
CCAATTTGTTACATATATGCTGTCCAATTTTGATGCTTAAATGCTAC
Found at i:49875055 original size:36 final size:36
Alignment explanation
Indices: 49875015--49875088 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
49875005 ACATATATGC
*
49875015 TGTCCAATTTTGATGCTTAAATGCTGCCCAATTTGT
1 TGTCCAATTTGGATGCTTAAATGCTGCCCAATTTGT
49875051 TGTCCAATTTGGATGCTTAAATGCTGCCCAATTTGT
1 TGTCCAATTTGGATGCTTAAATGCTGCCCAATTTGT
49875087 TG
1 TG
49875089 CATATATGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (36 bp):
TGTCCAATTTGGATGCTTAAATGCTGCCCAATTTGT
Found at i:49875120 original size:83 final size:83
Alignment explanation
Indices: 49874968--49875124 Score: 235
Period size: 83 Copynumber: 1.9 Consensus size: 83
49874958 ACATATATGC
* *
49874968 TGTCCAATTTTGATGCTTAAATGCTACCCAATTTGTTACATATATGCTGTCCAATTTTGATGCTT
1 TGTCCAATTTGGATGCTTAAATGCTACCCAATTTGTTACATATATGCTGTCCAATTTTGATGCTA
49875033 AAATGCTGCCCAATTTGT
66 AAATGCTGCCCAATTTGT
* * * * *
49875051 TGTCCAATTTGGATGCTTAAATGCTGCCCAATTTGTTGCATATATGCTGTCTAGTTTTGGTG-TA
1 TGTCCAATTTGGATGCTTAAATGCTACCCAATTTGTTACATATATGCTGTCCAATTTTGATGCT-
49875115 AAAATGCTGC
65 AAAATGCTGC
49875125 TCAAACTGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
82 1 0.02
83 65 0.98
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (83 bp):
TGTCCAATTTGGATGCTTAAATGCTACCCAATTTGTTACATATATGCTGTCCAATTTTGATGCTA
AAATGCTGCCCAATTTGT
Found at i:49877871 original size:16 final size:16
Alignment explanation
Indices: 49877852--49877883 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
49877842 CCAATTACAA
49877852 CCAAAACTAAACTAAG
1 CCAAAACTAAACTAAG
49877868 CCAAAACTAAACTAAG
1 CCAAAACTAAACTAAG
49877884 TCCCGGAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.25, G:0.06, T:0.12
Consensus pattern (16 bp):
CCAAAACTAAACTAAG
Found at i:49878362 original size:11 final size:11
Alignment explanation
Indices: 49878344--49878375 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
49878334 ATATTTTGAA
49878344 GCTGTTGATTT
1 GCTGTTGATTT
*
49878355 GTTGTTGATTT
1 GCTGTTGATTT
49878366 GCTGTTGATT
1 GCTGTTGATT
49878376 AAGAGTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.09, C:0.06, G:0.28, T:0.56
Consensus pattern (11 bp):
GCTGTTGATTT
Found at i:49880971 original size:13 final size:13
Alignment explanation
Indices: 49880953--49880977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49880943 ACACTCAAAT
49880953 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
49880966 TTCTCAAAAGCA
1 TTCTCAAAAGCA
49880978 ATAAAGAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:49884263 original size:25 final size:26
Alignment explanation
Indices: 49884227--49884276 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
49884217 TTGTAAAACA
*
49884227 GAACAATATCTTTAGA-AATTTTCTG
1 GAACAATATCTTCAGAGAATTTTCTG
*
49884252 GAACAATCTCTTCAGAGAATTTTCT
1 GAACAATATCTTCAGAGAATTTTCT
49884277 CTCTACAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (26 bp):
GAACAATATCTTCAGAGAATTTTCTG
Found at i:49896658 original size:4 final size:4
Alignment explanation
Indices: 49896649--49896716 Score: 118
Period size: 4 Copynumber: 17.0 Consensus size: 4
49896639 TAGTATGCTC
49896649 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT
1 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT
* *
49896697 CTAT CAAT CTAT CAAT CTAT
1 CTAT CTAT CTAT CTAT CTAT
49896717 ATATATATAT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 60 1.00
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (4 bp):
CTAT
Found at i:49896721 original size:2 final size:2
Alignment explanation
Indices: 49896714--49896739 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49896704 TCTATCAATC
49896714 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
49896740 GAGAGAGAGA
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):
TA
Found at i:49896744 original size:2 final size:2
Alignment explanation
Indices: 49896739--49896771 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
49896729 ATATATATAT
*
49896739 AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
49896772 CATTAGACTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:49901932 original size:49 final size:49
Alignment explanation
Indices: 49901855--49902036 Score: 197
Period size: 49 Copynumber: 3.7 Consensus size: 49
49901845 TATCTGAATA
49901855 TGATGGGCCACTGGTAGGGCATGTTAGTTGCTAACTAAATTGGCGTATG
1 TGATGGGCCACTGGTAGGGCATGTTAGTTGCTAACTAAATTGGCGTATG
* * * * * * *
49901904 TGTTGGGCCACTAGTAGGGCGTGCTAGTTGCTAACCAAGTTGGCG-AAG
1 TGATGGGCCACTGGTAGGGCATGTTAGTTGCTAACTAAATTGGCGTATG
* *
49901952 ATGATGGGCCACTGGTAGGACATGTTAGTTGCTAA-TCAAATTGGCATATG
1 -TGATGGGCCACTGGTAGGGCATGTTAGTTGCTAACT-AAATTGGCGTATG
* * *** *
49902002 TGCTGAGTTTCTGGTAAGGCATGTTAGTTGCTAAC
1 TGATGGGCCACTGGTAGGGCATGTTAGTTGCTAAC
49902037 CAGCCTGACG
Statistics
Matches: 106, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
48 2 0.02
49 102 0.96
50 2 0.02
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.30
Consensus pattern (49 bp):
TGATGGGCCACTGGTAGGGCATGTTAGTTGCTAACTAAATTGGCGTATG
Found at i:49902030 original size:98 final size:98
Alignment explanation
Indices: 49901854--49902038 Score: 255
Period size: 98 Copynumber: 1.9 Consensus size: 98
49901844 ATATCTGAAT
* * * *
49901854 ATGATGGGCCACTGGTAGGGCATGTTAGTTGCTAACTAAATTGGCGTATGTGTTGGGCCACTAGT
1 ATGATGGGCCACTGGTAGGACATGTTAGTTGCTAACTAAATTGGCATATGTGCTGAGCCACTAGT
* *
49901919 AGGGCGTGCTAGTTGCTAACCAAGTTGGCGAAG
66 AAGGCATGCTAGTTGCTAACCAAGTTGGCGAAG
*** *
49901952 ATGATGGGCCACTGGTAGGACATGTTAGTTGCTAA-TCAAATTGGCATATGTGCTGAGTTTCTGG
1 ATGATGGGCCACTGGTAGGACATGTTAGTTGCTAACT-AAATTGGCATATGTGCTGAGCCACTAG
*
49902016 TAAGGCATGTTAGTTGCTAACCA
65 TAAGGCATGCTAGTTGCTAACCA
49902039 GCCTGACGTT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
97 1 0.01
98 74 0.99
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.30
Consensus pattern (98 bp):
ATGATGGGCCACTGGTAGGACATGTTAGTTGCTAACTAAATTGGCATATGTGCTGAGCCACTAGT
AAGGCATGCTAGTTGCTAACCAAGTTGGCGAAG
Found at i:49903754 original size:50 final size:50
Alignment explanation
Indices: 49903612--49903908 Score: 283
Period size: 50 Copynumber: 5.8 Consensus size: 50
49903602 GATAATAACA
* ** * * *
49903612 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * **
49903661 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * ** *
49903711 TGCCCATGCCATGTCCCAGACATAGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
49903761 AGCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
49903811 TGCCAACGCCATGTCCTAAACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* *
49903867 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
49903909 TTACCCAAAT
Statistics
Matches: 204, Mismatches: 36, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
48 1 0.00
49 38 0.19
50 124 0.61
53 2 0.01
56 39 0.19
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:49907116 original size:9 final size:9
Alignment explanation
Indices: 49907102--49907134 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
49907092 GTTAAACGAA
49907102 TCGAGTTAT
1 TCGAGTTAT
*
49907111 TCGAGTTAA
1 TCGAGTTAT
49907120 TCGAGTTAT
1 TCGAGTTAT
49907129 TCGAGT
1 TCGAGT
49907135 CAACTCGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:49907123 original size:18 final size:18
Alignment explanation
Indices: 49907100--49907134 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
49907090 GAGTTAAACG
49907100 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
49907118 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
49907135 CAACTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:49907306 original size:29 final size:29
Alignment explanation
Indices: 49907271--49907329 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
49907261 ATTTTTCCCT
* *
49907271 CAAAATTTTTACTCCTTCCCAGTTTCTCC
1 CAAAATTTTTACTCCTTCCCACTTCCTCC
49907300 CAAAATTTTTACTCCTTCCCACTTCCTCC
1 CAAAATTTTTACTCCTTCCCACTTCCTCC
49907329 C
1 C
49907330 CTAAACAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.20, C:0.39, G:0.02, T:0.39
Consensus pattern (29 bp):
CAAAATTTTTACTCCTTCCCACTTCCTCC
Found at i:49907405 original size:29 final size:30
Alignment explanation
Indices: 49907372--49907429 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
49907362 AATTTTTTAT
*
49907372 TTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTCCCCCAAAACTTTTACTCCCTTCCCAC
*
49907401 TTTCCCCTAAAACTTTTACTCCCTTCCCA
1 TTTCCCCCAAAACTTTTACTCCCTTCCCA
49907430 TCCCACCCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.21, C:0.43, G:0.00, T:0.36
Consensus pattern (30 bp):
TTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:49911113 original size:7 final size:7
Alignment explanation
Indices: 49911101--49911139 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
49911091 TTTCCAGGTC
49911101 TTTTTCA
1 TTTTTCA
49911108 TTTTTCA
1 TTTTTCA
49911115 TTTTTCA
1 TTTTTCA
49911122 TTTTTCA
1 TTTTTCA
*
49911129 TTTTCCA
1 TTTTTCA
49911136 TTTT
1 TTTT
49911140 GGAGAAAACC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTTCA
Found at i:49911215 original size:57 final size:58
Alignment explanation
Indices: 49911110--49911244 Score: 184
Period size: 58 Copynumber: 2.3 Consensus size: 58
49911100 CTTTTTCATT
* * *
49911110 TTTCATTT-TTCATTTTTCATTTTCCATTTTGGAGAAAACCACATTCATTTCCAAATGA
1 TTTCATTTCTCCA-TTTTCATTTTCCATTTTGGAGAAAACCACAGTCATTTCCAAACGA
* * *
49911168 TTTCATTTCTCCATTTTCATTTT-TATTTTGGAGAAAACCATAGTCATTTCCAAACGT
1 TTTCATTTCTCCATTTTCATTTTCCATTTTGGAGAAAACCACAGTCATTTCCAAACGA
49911225 TTCTCATTTCTCCATTTTCA
1 TT-TCATTTCTCCATTTTCA
49911245 CTATTTCTAT
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
57 31 0.45
58 35 0.51
59 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.07, T:0.47
Consensus pattern (58 bp):
TTTCATTTCTCCATTTTCATTTTCCATTTTGGAGAAAACCACAGTCATTTCCAAACGA
Found at i:49911229 original size:51 final size:54
Alignment explanation
Indices: 49911112--49911221 Score: 132
Period size: 57 Copynumber: 2.0 Consensus size: 54
49911102 TTTTCATTTT
* *
49911112 TCATTTTTCATTTTTCATTTTCCATTTTGGAGAAAACCACATTCATTTCCAAATGA
1 TCATTTCTCA-TTTTCATTTTCCATTTTGGAGAAAACCACAGTCATTTCCAAA-GA
* *
49911168 TTTCATTTCTCCATTTTCATTTT-TATTTTGGAGAAAACCATAGTCATTTCCAAA
1 --TCATTTCT-CATTTTCATTTTCCATTTTGGAGAAAACCACAGTCATTTCCAAA
49911222 CGTTTCTCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
57 28 0.60
58 17 0.36
59 2 0.04
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.45
Consensus pattern (54 bp):
TCATTTCTCATTTTCATTTTCCATTTTGGAGAAAACCACAGTCATTTCCAAAGA
Found at i:49913270 original size:33 final size:28
Alignment explanation
Indices: 49913206--49913262 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
49913196 TTTAGCTATT
49913206 TATCTTAAGTACATTATATATTATTTTA
1 TATCTTAAGTACATTATATATTATTTTA
49913234 TATCTTAAGTACATTATATATTATTTTA
1 TATCTTAAGTACATTATATATTATTTTA
49913262 T
1 T
49913263 CTTATATCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (28 bp):
TATCTTAAGTACATTATATATTATTTTA
Found at i:49919404 original size:16 final size:16
Alignment explanation
Indices: 49919370--49919409 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
49919360 AATATATAAA
* *
49919370 TTATCTAATTAATTTT
1 TTATCTAATTAAATAT
*
49919386 TTATTTAATTAAATAT
1 TTATCTAATTAAATAT
49919402 TTATCTAA
1 TTATCTAA
49919410 ATTTTAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATCTAATTAAATAT
Found at i:49927936 original size:54 final size:54
Alignment explanation
Indices: 49927810--49927938 Score: 163
Period size: 54 Copynumber: 2.4 Consensus size: 54
49927800 ATCTCATAGA
* *
49927810 CCGTGTAACTCACTGACTTGACTCACACAACCGTGTTGCAGGCCGTGTGCTAGT
1 CCGTGTAACTCACTGACTTGACTCACACAACCATGTCGCAGGCCGTGTGCTAGT
* * * * *
49927864 CCGTGTAACCCACTGACTTGGCTCACACAGCCATGTCGTAGGTCGTGTGCTAG-
1 CCGTGTAACTCACTGACTTGACTCACACAACCATGTCGCAGGCCGTGTGCTAGT
49927917 CCTGTGTAACTCA-TGGACTTGA
1 CC-GTGTAACTCACT-GACTTGA
49927939 GACACACGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
53 3 0.05
54 61 0.95
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.26
Consensus pattern (54 bp):
CCGTGTAACTCACTGACTTGACTCACACAACCATGTCGCAGGCCGTGTGCTAGT
Found at i:49929765 original size:42 final size:42
Alignment explanation
Indices: 49929718--49929797 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
49929708 GACACTAGCC
* *
49929718 CATGTCCTTGCCCGTATGGCTCACATGGCCTGGACACATGTA
1 CATGTCCTTGCCCGTATAGCTCACACGGCCTGGACACATGTA
* * *
49929760 CATGTCCTTGCCCGTGTAGCTCATACGGTCTGGACACA
1 CATGTCCTTGCCCGTATAGCTCACACGGCCTGGACACA
49929798 CGCCTATGTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.19, C:0.31, G:0.24, T:0.26
Consensus pattern (42 bp):
CATGTCCTTGCCCGTATAGCTCACACGGCCTGGACACATGTA
Found at i:49929807 original size:42 final size:39
Alignment explanation
Indices: 49929697--49929813 Score: 108
Period size: 42 Copynumber: 2.8 Consensus size: 39
49929687 ATTTATATGC
*
49929697 CATACGGCTTGGACACTAGCCCATGTCCTTGCCCGTATGGCT
1 CATACGGC-TGGACAC-AG-CCATGTCCTTGCCCGTATAGCT
* * * *
49929739 CACATGGCCTGGACACATGTACATGTCCTTGCCCGTGTAGCT
1 CATACGG-CTGGACACA-G-CCATGTCCTTGCCCGTATAGCT
49929781 CATACGGTCTGGACACACGCCTATGTCCTTGCC
1 CATACGG-CTGGACACA-GCC-ATGTCCTTGCC
49929814 TTTGTGACTT
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
41 2 0.03
42 58 0.95
43 1 0.02
ACGTcount: A:0.18, C:0.33, G:0.23, T:0.26
Consensus pattern (39 bp):
CATACGGCTGGACACAGCCATGTCCTTGCCCGTATAGCT
Found at i:49930023 original size:105 final size:105
Alignment explanation
Indices: 49929824--49930026 Score: 275
Period size: 104 Copynumber: 1.9 Consensus size: 105
49929814 TTTGTGACTT
* *
49929824 ACACGGCCTGGGCACACGCCCATGTCCTCTGTGCGTGTGGTTCTAAAACATAAATAATAAGTTAC
1 ACACGGCCTGGGCACACGCCCATGTCCTCTGTGCGTGTGGTACTAAAACACAAATAATAAGTTAC
* * *
49929889 ACGGTCTGGACACACGCCCGTGTCCTTGCCCGTATACCTC
66 ACGGCCTAGACAAACGCCCGTGTCCTTGCCCGTATACCTC
* ** * *
49929929 ACACGGCCTGGGCATACGCCCATGTCC-CTG-GCTGTGTGGTACTAAGTCACAAATAGTGAGTTA
1 ACACGGCCTGGGCACACGCCCATGTCCTCTGTGC-GTGTGGTACTAAAACACAAATAATAAGTTA
*
49929992 CACGGCCTAGACAAACGCTCGTGTCCTTTGCCCGT
65 CACGGCCTAGACAAACGCCCGTGTCC-TTGCCCGT
49930027 GTGAACCCTG
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
103 2 0.02
104 49 0.58
105 34 0.40
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.24
Consensus pattern (105 bp):
ACACGGCCTGGGCACACGCCCATGTCCTCTGTGCGTGTGGTACTAAAACACAAATAATAAGTTAC
ACGGCCTAGACAAACGCCCGTGTCCTTGCCCGTATACCTC
Found at i:49931546 original size:42 final size:41
Alignment explanation
Indices: 49931496--49931603 Score: 137
Period size: 42 Copynumber: 2.6 Consensus size: 41
49931486 CCACACAACT
*
49931496 TGGACACACGCTCATGTCCTTGCCCGTATGGCTCACACT-GTC
1 TGGACACACGC-CATGTCCTTGCCCGTATAGCTCACA-TGGTC
* *
49931538 TGGACACACGCCCATGTCCTTGCCCGTGTAGCTCATATGGTC
1 TGGACACACG-CCATGTCCTTGCCCGTATAGCTCACATGGTC
*
49931580 TGGACAAACGCCTATGTCCTTGCC
1 TGGACACACGCC-ATGTCCTTGCC
49931604 TATTTGACTT
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
41 3 0.05
42 55 0.93
43 1 0.02
ACGTcount: A:0.18, C:0.34, G:0.22, T:0.26
Consensus pattern (41 bp):
TGGACACACGCCATGTCCTTGCCCGTATAGCTCACATGGTC
Found at i:49933500 original size:20 final size:20
Alignment explanation
Indices: 49933475--49933522 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
49933465 AAATGATATT
49933475 GATACTTTGTGAAAG-GTATC
1 GATACTTTGT-AAAGAGTATC
*
49933495 GATACTTTGTTAAGAGTATC
1 GATACTTTGTAAAGAGTATC
*
49933515 AATACTTT
1 GATACTTT
49933523 TGATTTTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (20 bp):
GATACTTTGTAAAGAGTATC
Found at i:49942229 original size:40 final size:41
Alignment explanation
Indices: 49942167--49942243 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
49942157 AGGTTAAAAT
* *
49942167 ATGTGTAAGTTTATTATATATATTATAAT-ATAAAATCTTA
1 ATGTGTAAGTATATTATATATATGATAATAATAAAATCTTA
*
49942207 ATGTTTAAGTATA-TATATTATATGATAATAATAAAAT
1 ATGTGTAAGTATATTATA-TATATGATAATAATAAAAT
49942244 AAGTAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 4 0.12
40 21 0.66
41 7 0.22
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.45
Consensus pattern (41 bp):
ATGTGTAAGTATATTATATATATGATAATAATAAAATCTTA
Found at i:49942270 original size:4 final size:4
Alignment explanation
Indices: 49942253--49942306 Score: 56
Period size: 4 Copynumber: 12.8 Consensus size: 4
49942243 TAAGTAATAA
*
49942253 AAAG AAAT AAAG AAAG AAAG AATAG AAACG AAACAG AAAG -AAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AA-AG AAA-G -AA-AG AAAG AAAG AAAG
49942300 AAAG AAA
1 AAAG AAA
49942307 TGAGAATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
3 3 0.07
4 29 0.67
5 7 0.16
6 3 0.07
7 1 0.02
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (4 bp):
AAAG
Found at i:49943215 original size:41 final size:40
Alignment explanation
Indices: 49943159--49943293 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 40
49943149 GACTTCGAGT
*
49943159 CGATGAGACACTGGGTGTCAATTAATTACTTCAGATTTATT
1 CGATGAGACACTGGGTGTCAATT-ATTACTTCAGATTTATC
* * * *
49943200 CGATGAGGCACTGGGTGCCAA-T-TTACTTC-GGTTTAAC
1 CGATGAGACACTGGGTGTCAATTATTACTTCAGATTTATC
* * *
49943237 CGATGAGATACTGGGTGTCAATTTACTACTTCA-AATTATC
1 CGATGAGACACTGGGTGTCAA-TTATTACTTCAGATTTATC
* *
49943277 CGATGAGGCACTAGGTG
1 CGATGAGACACTGGGTG
49943294 CCAAGCTGGT
Statistics
Matches: 75, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
37 23 0.31
38 7 0.09
39 1 0.01
40 25 0.33
41 19 0.25
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAATTATTACTTCAGATTTATC
Found at i:49943250 original size:37 final size:38
Alignment explanation
Indices: 49943159--49943263 Score: 122
Period size: 37 Copynumber: 2.7 Consensus size: 38
49943149 GACTTCGAGT
**
49943159 CGATGAGACACTGGGTGTCAATTAATTACTTCAGATTTATT
1 CGATGAGACACTGGGTGTCAA-T--TTACTTCAGATTTAAC
* * *
49943200 CGATGAGGCACTGGGTGCCAATTTACTTC-GGTTTAAC
1 CGATGAGACACTGGGTGTCAATTTACTTCAGATTTAAC
*
49943237 CGATGAGATACTGGGTGTCAATTTACT
1 CGATGAGACACTGGGTGTCAATTTACT
49943264 ACTTCAAATT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
37 29 0.52
38 7 0.12
40 1 0.02
41 19 0.34
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAATTTACTTCAGATTTAAC
Found at i:49943484 original size:16 final size:16
Alignment explanation
Indices: 49943448--49943502 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
49943438 ATTGAGACAC
49943448 ATGAATTG-TGTAT-T
1 ATGAATTGATGTATGT
49943462 CATGAATTGA-GTATGGT
1 -ATGAATTGATGTAT-GT
*
49943479 ATGAA-TGATGTATTT
1 ATGAATTGATGTATGT
49943494 ATGAATTGA
1 ATGAATTGA
49943503 ATAATTGAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
15 21 0.62
16 12 0.35
17 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.42
Consensus pattern (16 bp):
ATGAATTGATGTATGT
Found at i:49946475 original size:20 final size:20
Alignment explanation
Indices: 49946410--49946476 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
49946400 ATATTACATG
49946410 ATATT-TAATTAATAATTATT
1 ATATTATAA-TAATAATTATT
* *
49946430 A-AGTTTTAATATTAAATTA-T
1 ATA-TTATAATAAT-AATTATT
*
49946450 AAATTATAATAATAATTATT
1 ATATTATAATAATAATTATT
49946470 ATATTAT
1 ATATTAT
49946477 GAAATAAGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
19 6 0.16
20 23 0.61
21 9 0.24
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (20 bp):
ATATTATAATAATAATTATT
Found at i:49947543 original size:23 final size:23
Alignment explanation
Indices: 49947516--49947626 Score: 97
Period size: 23 Copynumber: 5.0 Consensus size: 23
49947506 GGCTTTGCCG
*
49947516 ATCAGACACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
49947539 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* * **
49947562 TTCAGGCACCTCGTGTGTCG--T
1 ATCAGGCACTTTATGTGTCGTAT
* ** *
49947583 ATCAGGCACCTCGTGTGTTGT-T
1 ATCAGGCACTTTATGTGTCGTAT
*
49947605 -TCAGGCA-TCTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
49947626 A
1 A
49947627 CTAATTAGGT
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
20 7 0.10
21 27 0.37
22 1 0.01
23 38 0.52
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:49947587 original size:21 final size:21
Alignment explanation
Indices: 49947528--49947625 Score: 90
Period size: 21 Copynumber: 4.5 Consensus size: 21
49947518 CAGACACTTT
* *
49947528 ATGTGTCGTATATCAGGCACTTT
1 ATGTGTCG--TATCAGGCACCTC
49947551 ATGTGTCGTATTTCAGGCACCTC
1 ATGTGTCGTA--TCAGGCACCTC
*
49947574 GTGTGTCGTATCAGGCACCTC
1 ATGTGTCGTATCAGGCACCTC
* * * *
49947595 GTGTGTTGTTTCAGGCATCT-
1 ATGTGTCGTATCAGGCACCTC
49947615 ATGTGTCGTAT
1 ATGTGTCGTAT
49947626 ACTAATTAGG
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
20 8 0.12
21 30 0.47
23 26 0.41
ACGTcount: A:0.16, C:0.20, G:0.26, T:0.38
Consensus pattern (21 bp):
ATGTGTCGTATCAGGCACCTC
Found at i:49947600 original size:44 final size:41
Alignment explanation
Indices: 49947527--49947625 Score: 99
Period size: 44 Copynumber: 2.3 Consensus size: 41
49947517 TCAGACACTT
* *
49947527 TATGTGTCGTATATCAGGCACTTTATGTGTCGTATTTCAGGCACC
1 TATGTGTCG--TATCAGGCACCTCATGTGT--TATTTCAGGCACC
* * * *
49947572 TCGTGTGTCGTATCAGGCACCTCGTGTGTTGTTTCAGGCATC
1 T-ATGTGTCGTATCAGGCACCTCATGTGTTATTTCAGGCACC
49947614 TATGTGTCGTAT
1 TATGTGTCGTAT
49947626 ACTAATTAGG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
41 10 0.22
42 12 0.26
44 16 0.35
45 1 0.02
46 7 0.15
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.38
Consensus pattern (41 bp):
TATGTGTCGTATCAGGCACCTCATGTGTTATTTCAGGCACC
Found at i:49959241 original size:31 final size:31
Alignment explanation
Indices: 49959180--49959580 Score: 236
Period size: 31 Copynumber: 13.0 Consensus size: 31
49959170 ATCCAATGCT
* *
49959180 CAAATC-AATTCAACAATATATATATTCATATA
1 CAAATCAAATTCAGCAATGTATA-A-TCATATA
* * *
49959212 CGAATCAAATTCGGCAATGTATAATCATATG
1 CAAATCAAATTCAGCAATGTATAATCATATA
* *
49959243 CAAATCAAATT-GGCAATGTATAACCATATA
1 CAAATCAAATTCAGCAATGTATAATCATATA
** *
49959273 TGAATCAAGTTC-GACAATGTATAATCATATA
1 CAAATCAAATTCAG-CAATGTATAATCATATA
* * * *
49959304 CGAAT-TAATTCGGTAACT-TAT-ATCCATATA
1 CAAATCAAATTCAGCAA-TGTATAAT-CATATA
* * * *
49959334 CAATTGAAATTCAACAATGTATAACCATATA
1 CAAATCAAATTCAGCAATGTATAATCATATA
* * * *
49959365 CAAATTAATTTTAGCAAAGTATAATCATATA
1 CAAATCAAATTCAGCAATGTATAATCATATA
* * * **
49959396 CGAGTC-AATTCTGCAACT-TATCTTCATATA
1 CAAATCAAATTCAGCAA-TGTATAATCATATA
* * *
49959426 CAAATCAATTTC-GATAATGTATAACCATATA
1 CAAATCAAATTCAG-CAATGTATAATCATATA
* * *
49959457 CAAAT-AAATTTCAGCAATTTACAACCATATA
1 CAAATCAAA-TTCAGCAATGTATAATCATATA
*
49959488 CAAAT-TAATTCAGCAACT-TAT-ATCCATATA
1 CAAATCAAATTCAGCAA-TGTATAAT-CATATA
* * *
49959518 CAATTCAATTTCAACAATGTATAA-CTATATA
1 CAAATCAAATTCAGCAATGTATAATC-ATATA
* * * *
49959549 CAAATTAATTTTAGCAATGTATAATTATATA
1 CAAATCAAATTCAGCAATGTATAATCATATA
49959580 C
1 C
49959581 GAATTAATTC
Statistics
Matches: 285, Mismatches: 62, Indels: 45
0.73 0.16 0.11
Matches are distributed among these distances:
29 3 0.01
30 92 0.32
31 168 0.59
32 9 0.03
33 13 0.05
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (31 bp):
CAAATCAAATTCAGCAATGTATAATCATATA
Found at i:49959331 original size:61 final size:59
Alignment explanation
Indices: 49959200--49959602 Score: 207
Period size: 61 Copynumber: 6.6 Consensus size: 59
49959190 CAACAATATA
* * * *
49959200 TATATTCATATACGAATCAAATTCGGCAATGTATAATCATATGCAAATCAAATTGGCAATG
1 TATATCCATATA-GAATCAAATTCGACAATGTATAATCATATACAAAT-TAATTGGCAATG
* * * *
49959261 TATAACCATATATGAATCAAGTTCGACAATGTATAATCATATACGAATTAATTCGGTAACT-
1 TATATCCATATA-GAATCAAATTCGACAATGTATAATCATATACAAATTAATT-GGCAA-TG
* * * * * *
49959322 TATATCCATATACAATTGAAATTCAACAATGTATAACCATATACAAATTAATTTTAGCAAAG
1 TATATCCATATAGAA-TCAAATTCGACAATGTATAATCATATACAAATTAA--TTGGCAATG
* ** * **
49959384 TATAAT-CATATACGAGTC-AATTCTG-CAACT-TATCTTCATATACAAATCAATTTCGATAATG
1 TAT-ATCCATATA-GAATCAAATTC-GACAA-TGTATAATCATATACAAATTAA-TT-GGCAATG
* * * * * *
49959445 TATAACCATATACAAAT-AAATTTC-AGCAATTTACAACCATATACAAATTAATTCAGCAACT-
1 TATATCCATATA-GAATCAAA-TTCGA-CAATGTATAATCATATACAAATTAATT-GGCAA-TG
* * * *
49959506 TATATCCATATACAATTCAATTTCAACAATGTATAA-CTATATACAAATTAATTTTAGCAATG
1 TATATCCATATAGAA-TCAAATTCGACAATGTATAATC-ATATACAAATTAA--TTGGCAATG
* * *
49959568 TATAAT-TATATACGAAT-TAATTCGACAATATATAA
1 TAT-ATCCATATA-GAATCAAATTCGACAATGTATAA
49959603 AACAATCAAA
Statistics
Matches: 262, Mismatches: 53, Indels: 54
0.71 0.14 0.15
Matches are distributed among these distances:
60 13 0.05
61 184 0.70
62 54 0.21
63 11 0.04
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.33
Consensus pattern (59 bp):
TATATCCATATAGAATCAAATTCGACAATGTATAATCATATACAAATTAATTGGCAATG
Found at i:49959352 original size:92 final size:92
Alignment explanation
Indices: 49959200--49959591 Score: 407
Period size: 92 Copynumber: 4.3 Consensus size: 92
49959190 CAACAATATA
* * * * * **
49959200 TATATTCATATACGAATCAAATTCGGCAA-TGTATAAT-CATATGCAAATCAAATT-GGCAATGT
1 TATAATCATATACGAAT-TAATTCGGCAACT-TAT-ATCCATATACAATTCAATTTCAACAATGT
** * *
49959262 ATAACCATATATGAATCAAGTTCGA-CAATG
63 ATAACCATATACAAATTAA-TTCTAGCAATG
* * *
49959292 TATAATCATATACGAATTAATTCGGTAACTTATATCCATATACAATTGAAATTCAACAATGTATA
1 TATAATCATATACGAATTAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAATGTATA
* *
49959357 ACCATATACAAATTAATTTTAGCAAAG
66 ACCATATACAAATTAATTCTAGCAATG
* * * * * * * *
49959384 TATAATCATATACGAGTCAATTCTGCAACTTATCTTCATATACAAATCAATTTCGATAATGTATA
1 TATAATCATATACGAATTAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAATGTATA
* *
49959449 ACCATATACAAATAAATT-TCAGCAATT
66 ACCATATACAAATTAATTCT-AGCAATG
* * * *
49959476 TACAACCATATACAAATTAATTCAGCAACTTATATCCATATACAATTCAATTTCAACAATGTATA
1 TATAATCATATACGAATTAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAATGTATA
* *
49959541 ACTATATACAAATTAATTTTAGCAATG
66 ACCATATACAAATTAATTCTAGCAATG
*
49959568 TATAATTATATACGAATTAATTCG
1 TATAATCATATACGAATTAATTCG
49959592 ACAATATATA
Statistics
Matches: 247, Mismatches: 47, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
90 2 0.01
91 30 0.12
92 214 0.87
93 1 0.00
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.34
Consensus pattern (92 bp):
TATAATCATATACGAATTAATTCGGCAACTTATATCCATATACAATTCAATTTCAACAATGTATA
ACCATATACAAATTAATTCTAGCAATG
Found at i:49963940 original size:33 final size:33
Alignment explanation
Indices: 49963898--49964094 Score: 124
Period size: 33 Copynumber: 5.4 Consensus size: 33
49963888 GTGGATTCAG
49963898 CACTTAGCAACCACCAATGATTCGGGGAATCAA
1 CACTTAGCAACCACCAATGATTCGGGGAATCAA
** * *
49963931 CACTTAGCAACCCCTTTTCACATTCAAAAATACAGTGGAATCAA
1 CACTTAGCAA---C----CAC---CAATGATTC-GGGGAATCAA
*
49963975 CACTTAGCAACCACCAATGAATCGGGGAATCAA
1 CACTTAGCAACCACCAATGATTCGGGGAATCAA
* * * *
49964008 CACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAG
1 CACTTAGCAACCAC---CA-A--T--GATTCGG-GGAATCAA
*
49964050 CACTTAACAACCACCAATGATTCGGGGAATCAA
1 CACTTAGCAACCACCAATGATTCGGGGAATCAA
49964083 CACTTAGCAACC
1 CACTTAGCAACC
49964095 CCTTGGGGGA
Statistics
Matches: 124, Mismatches: 20, Indels: 40
0.67 0.11 0.22
Matches are distributed among these distances:
33 49 0.40
34 11 0.09
36 4 0.03
37 4 0.03
38 1 0.01
39 3 0.02
40 3 0.02
41 6 0.05
42 18 0.15
43 6 0.05
44 19 0.15
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (33 bp):
CACTTAGCAACCACCAATGATTCGGGGAATCAA
Found at i:49964015 original size:77 final size:76
Alignment explanation
Indices: 49963888--49964098 Score: 334
Period size: 75 Copynumber: 2.8 Consensus size: 76
49963878 TCCGTTATCG
*
49963888 GTGGATTCAGCACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCTTTTCACA
1 GTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCTTTTCACA
49963953 TTCAAAAATACA
66 TT-AAAAATACA
* *
49963965 GTGGAATCAACACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCC-TTTCACA
1 GTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCTTTTCACA
* * *
49964029 TTTAAGATACG
66 TTAAAAATACA
* *
49964040 GTGGGATCAGCACTTAACAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCTT
1 GTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCTT
49964099 GGGGGAATCA
Statistics
Matches: 123, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
75 59 0.48
76 10 0.08
77 54 0.44
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (76 bp):
GTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCTTTTCACA
TTAAAAATACA
Found at i:49964107 original size:27 final size:27
Alignment explanation
Indices: 49964073--49964125 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
49964063 CCAATGATTC
*
49964073 GGGGAATCAACACTTAGCAACCCCTTG
1 GGGGAATCAACACGTAGCAACCCCTTG
*
49964100 GGGGAATCAGCACGTAGCAACCCCTT
1 GGGGAATCAACACGTAGCAACCCCTT
49964126 TCATATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.28, C:0.30, G:0.25, T:0.17
Consensus pattern (27 bp):
GGGGAATCAACACGTAGCAACCCCTTG
Found at i:49964156 original size:102 final size:102
Alignment explanation
Indices: 49963998--49964198 Score: 305
Period size: 102 Copynumber: 2.0 Consensus size: 102
49963988 CCAATGAATC
* * * *
49963998 GGGGAATCAACACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAACAACCA
1 GGGGAATCAACACGTAGCAACCCCTTTCACATTTAAAATACGGTGGAATCAACACTTAACAACCA
49964063 CCAATG-ATTCGGGGAATCAACACTTAGCAACCCCTTG
66 CCAATGAATT-GGGGAATCAACACTTAGCAACCCCTTG
* * *
49964100 GGGGAATCAGCACGTAGCAACCCCTTTCATATTTAAAATACGGTGGAATCAACACTTAGCAACCA
1 GGGGAATCAACACGTAGCAACCCCTTTCACATTTAAAATACGGTGGAATCAACACTTAACAACCA
* *
49964165 CTAATGAATTGGGGAATCAGCACTTAGCAACCCC
66 CCAATGAATTGGGGAATCAACACTTAGCAACCCC
49964199 CTTTATATTC
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
102 86 0.97
103 3 0.03
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (102 bp):
GGGGAATCAACACGTAGCAACCCCTTTCACATTTAAAATACGGTGGAATCAACACTTAACAACCA
CCAATGAATTGGGGAATCAACACTTAGCAACCCCTTG
Found at i:49978169 original size:61 final size:63
Alignment explanation
Indices: 49978074--49978206 Score: 189
Period size: 61 Copynumber: 2.1 Consensus size: 63
49978064 GTTCACTCAC
* * *
49978074 TATCTTCGTATCACTAATACATAGTATAATCTTATTTTATT-TGACTCCAGAACCTATTTAT-
1 TATCTTCTTATCACTAATACATACTATAATCTTATTTTATTGTGACTCCAGAACCTATGTATA
** *
49978135 TATCTTCTTATCACTGGTACATACTATAATCTTATTTTATTGTGACTCCATAACCTATGTATA
1 TATCTTCTTATCACTAATACATACTATAATCTTATTTTATTGTGACTCCAGAACCTATGTATA
*
49978198 TATCCTCTT
1 TATCTTCTT
49978207 TGAAAGAGCT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
61 37 0.59
62 18 0.29
63 8 0.13
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.45
Consensus pattern (63 bp):
TATCTTCTTATCACTAATACATACTATAATCTTATTTTATTGTGACTCCAGAACCTATGTATA
Found at i:49978793 original size:33 final size:33
Alignment explanation
Indices: 49978751--49978813 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
49978741 GGAGTTAGTG
49978751 CTAACTCCACAATTTTTTGAAACATTGTACGCA
1 CTAACTCCACAATTTTTTGAAACATTGTACGCA
49978784 CTAACTCCACAATTTTTTGAAACATTGTAC
1 CTAACTCCACAATTTTTTGAAACATTGTAC
49978814 AAAGGGAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.35
Consensus pattern (33 bp):
CTAACTCCACAATTTTTTGAAACATTGTACGCA
Found at i:49994381 original size:125 final size:125
Alignment explanation
Indices: 49994165--49994533 Score: 621
Period size: 125 Copynumber: 3.0 Consensus size: 125
49994155 TTAGGTCCTA
*** * * *
49994165 GAAGAAATAATTTCAAGTTGACGTTTGTGATCAAATAGTATAAAATCGCTTCTAGTAGGATGCTA
1 GAAGAAATAATTTCTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTA
* *
49994230 TTTGAGAAGAATTTGTGAAATTGCGCCCTCGTGGACGCGCTTTTGCTATAGTAGGTCACG
66 TTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACG
* *
49994290 GAAGAAATAATTTTTTTTTGACGTTTTTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTA
1 GAAGAAATAATTTCTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTA
*
49994355 TTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATG
66 TTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACG
*
49994415 GAAGAAGTAATTTCTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTA
1 GAAGAAATAATTTCTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTA
*
49994480 TTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGATGCGCTTTTGCTACAGTAG
66 TTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
49994534 CATGTTTGAG
Statistics
Matches: 230, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 230 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (125 bp):
GAAGAAATAATTTCTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTA
TTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACG
Found at i:49997775 original size:45 final size:45
Alignment explanation
Indices: 49997711--49997798 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
49997701 TTTTATTACA
* *
49997711 TCAAATAAACTTTTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAATAAAATTTTATTTTATTACATAAAATAATATCAAAATAAC
49997756 TCAAA-AAAATTTCTATTTTATTACATAAAATAATATCAAAATA
1 TCAAATAAAATTT-TATTTTATTACATAAAATAATATCAAAATA
49997799 TTCAAAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 6 0.15
45 34 0.85
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (45 bp):
TCAAATAAAATTTTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:50000122 original size:22 final size:22
Alignment explanation
Indices: 50000097--50000170 Score: 98
Period size: 22 Copynumber: 3.3 Consensus size: 22
50000087 AAATATGGAT
50000097 TTGAGA-GAATTTTG-GAAGGAAA
1 TTGAGAGGAA-TTTGAG-AGGAAA
*
50000119 TTGAGAGGAAATTGAGAGGAAA
1 TTGAGAGGAATTTGAGAGGAAA
50000141 TTGAGAGGAATTTGAGAGGAAA
1 TTGAGAGGAATTTGAGAGGAAA
50000163 TTTGAGAG
1 -TTGAGAG
50000171 AGGATTAGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
22 36 0.77
23 11 0.23
ACGTcount: A:0.41, C:0.00, G:0.35, T:0.24
Consensus pattern (22 bp):
TTGAGAGGAATTTGAGAGGAAA
Found at i:50000127 original size:11 final size:11
Alignment explanation
Indices: 50000113--50000170 Score: 98
Period size: 11 Copynumber: 5.2 Consensus size: 11
50000103 GAATTTTGGA
50000113 AGGAAATTGAG
1 AGGAAATTGAG
50000124 AGGAAATTGAG
1 AGGAAATTGAG
50000135 AGGAAATTGAG
1 AGGAAATTGAG
*
50000146 AGGAATTTGAG
1 AGGAAATTGAG
50000157 AGGAAATTTGAG
1 AGGAAA-TTGAG
50000169 AG
1 AG
50000171 AGGATTAGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
11 37 0.84
12 7 0.16
ACGTcount: A:0.43, C:0.00, G:0.36, T:0.21
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:50000134 original size:33 final size:33
Alignment explanation
Indices: 50000095--50000171 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 33
50000085 TTAAATATGG
*
50000095 ATTTGAGAGAATTTTG-GAAGGAAATTGAGAGGAA
1 ATTTGAGAGAA-ATTGAG-AGGAAATTGAGAGGAA
*
50000129 A-TTGAGAGGAAATTGAGAGGAATTTGAGAGGAA
1 ATTTGAGA-GAAATTGAGAGGAAATTGAGAGGAA
50000162 ATTTGAGAGA
1 ATTTGAGAGA
50000172 GGATTAGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
33 27 0.71
34 11 0.29
ACGTcount: A:0.42, C:0.00, G:0.34, T:0.25
Consensus pattern (33 bp):
ATTTGAGAGAAATTGAGAGGAAATTGAGAGGAA
Found at i:50012694 original size:21 final size:21
Alignment explanation
Indices: 50012669--50012711 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
50012659 ATTATATTTC
50012669 TTAAACAATAAT-AAAAATTAT
1 TTAAA-AATAATAAAAAATTAT
*
50012690 TTAAAAATTATAAAAAATTAT
1 TTAAAAATAATAAAAAATTAT
50012711 T
1 T
50012712 AACTATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
TTAAAAATAATAAAAAATTAT
Found at i:50012696 original size:11 final size:11
Alignment explanation
Indices: 50012680--50012740 Score: 51
Period size: 11 Copynumber: 6.0 Consensus size: 11
50012670 TAAACAATAA
50012680 TAAAAATTATT
1 TAAAAATTATT
50012691 TAAAAATTA-T
1 TAAAAATTATT
*
50012701 AAAAAATTA-T
1 TAAAAATTATT
*
50012711 T---AACTATT
1 TAAAAATTATT
*
50012719 TAAAAATTAAT
1 TAAAAATTATT
*
50012730 TAAAAAATATT
1 TAAAAATTATT
50012741 ATTATGAAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
7 4 0.10
8 2 0.05
10 10 0.26
11 23 0.59
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (11 bp):
TAAAAATTATT
Found at i:50012727 original size:28 final size:29
Alignment explanation
Indices: 50012687--50012741 Score: 87
Period size: 28 Copynumber: 1.9 Consensus size: 29
50012677 TAATAAAAAT
50012687 TATTTAAAAATT-A-TAAAAAATTATTAAC
1 TATTTAAAAATTAATTAAAAAA-TATTAAC
50012715 TATTTAAAAATTAATTAAAAAATATTA
1 TATTTAAAAATTAATTAAAAAATATTA
50012742 TTATGAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 12 0.48
29 6 0.24
30 7 0.28
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (29 bp):
TATTTAAAAATTAATTAAAAAATATTAAC
Found at i:50013134 original size:19 final size:19
Alignment explanation
Indices: 50013102--50013140 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
50013092 TCATTCTGGA
50013102 TGTTATTTTAAATAAATTT
1 TGTTATTTTAAATAAATTT
50013121 TGTTAATTTT-AATAAATTT
1 TGTT-ATTTTAAATAAATTT
50013140 T
1 T
50013141 ATAATTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TGTTATTTTAAATAAATTT
Found at i:50013154 original size:19 final size:19
Alignment explanation
Indices: 50013106--50013147 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
50013096 TCTGGATGTT
*
50013106 ATTTTAAATAAATTTTGTTA
1 ATTTT-AATAAATTTTGATA
50013126 ATTTTAATAAATTTT-ATA
1 ATTTTAATAAATTTTGATA
50013144 ATTT
1 ATTT
50013148 CTTATAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 10 0.48
20 5 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
ATTTTAATAAATTTTGATA
Found at i:50015858 original size:49 final size:50
Alignment explanation
Indices: 50015738--50015859 Score: 228
Period size: 50 Copynumber: 2.5 Consensus size: 50
50015728 TAAGAATATT
50015738 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAAATA
*
50015788 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTC-AAATTA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAAATA
50015837 AACTATTTTGTATTTTATTACAT
1 AACTATTTTGTATTTTATTACAT
50015860 TAATATAAAC
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
49 28 0.39
50 43 0.61
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.44
Consensus pattern (50 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAAATA
Found at i:50018161 original size:11 final size:11
Alignment explanation
Indices: 50018147--50018244 Score: 55
Period size: 11 Copynumber: 9.3 Consensus size: 11
50018137 GAGAAATTTA
50018147 AGAGGAAATTG
1 AGAGGAAATTG
*
50018158 AGAGCAAATTG
1 AGAGGAAATTG
**
50018169 AGATTAAA-T-
1 AGAGGAAATTG
* *
50018178 A-TGG-ATTTG
1 AGAGGAAATTG
50018187 AGA-GAAATTTG
1 AGAGGAAA-TTG
*
50018198 -GAAGGAAAATG
1 AG-AGGAAATTG
* * *
50018209 AGAGCAATTTA
1 AGAGGAAATTG
50018220 AGAGGAAATTG
1 AGAGGAAATTG
50018231 AGAGGAAATTG
1 AGAGGAAATTG
50018242 AGA
1 AGA
50018245 AAATAATTGA
Statistics
Matches: 62, Mismatches: 17, Indels: 16
0.65 0.18 0.17
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 3 0.05
11 49 0.79
12 5 0.08
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.22
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:50019704 original size:21 final size:21
Alignment explanation
Indices: 50019678--50019732 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
50019668 AGCTGTTTTG
50019678 CTTCCCTCGCTGCAGCCTCTA
1 CTTCCCTCGCTGCAGCCTCTA
* *
50019699 CTTCCCTCGCTACAGCCTCTG
1 CTTCCCTCGCTGCAGCCTCTA
**
50019720 CTTCTTTCGCTGC
1 CTTCCCTCGCTGC
50019733 CGGATCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.07, C:0.45, G:0.15, T:0.33
Consensus pattern (21 bp):
CTTCCCTCGCTGCAGCCTCTA
Found at i:50019800 original size:66 final size:66
Alignment explanation
Indices: 50019717--50019859 Score: 182
Period size: 66 Copynumber: 2.2 Consensus size: 66
50019707 GCTACAGCCT
* * *
50019717 CTGCTTCTTTCGCTGCCGGATCTACTTTAAGTTGCT-GCTGGAGTTGTTCATA-CTTTCATTGAA
1 CTGCTTCTCTCGCTGCCGCATCTACTTTAAGTTG-TAGCTGGAGTTCTTCATATCTTT-ATTGAA
50019780 CCC
64 CCC
* * *
50019783 CTGCTTCTCTCGCTGCCGCATCTGCTTTAAGTTGTAGTTGGAGTTCTTCATATCTTTTTTGAACC
1 CTGCTTCTCTCGCTGCCGCATCTACTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTATTGAACC
*
50019848 T
66 C
*
50019849 CAGCTTCTCTC
1 CTGCTTCTCTC
50019860 AATGTTGCCT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
65 1 0.01
66 62 0.93
67 4 0.06
ACGTcount: A:0.14, C:0.27, G:0.18, T:0.41
Consensus pattern (66 bp):
CTGCTTCTCTCGCTGCCGCATCTACTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTATTGAACC
C
Found at i:50025339 original size:34 final size:34
Alignment explanation
Indices: 50025301--50025406 Score: 105
Period size: 34 Copynumber: 3.2 Consensus size: 34
50025291 TATTACAAGG
50025301 GTAAGTTTTTCACTTATAAGTATTATTTCACTAT
1 GTAAGTTTTTCACTTATAAGTATTATTTCACTAT
* ** * * *
50025335 GTAAG---TTAAGATATGA-TATATATTT-ACAAGG
1 GTAAGTTTTTCACTTATAAGTAT-TATTTCACTA-T
50025366 GTAAGTTTTTCACTTATAAGTATTATTTCACTAT
1 GTAAGTTTTTCACTTATAAGTATTATTTCACTAT
50025400 GTAAGTT
1 GTAAGTT
50025407 AAGATATGAT
Statistics
Matches: 53, Mismatches: 12, Indels: 14
0.67 0.15 0.18
Matches are distributed among these distances:
30 6 0.11
31 17 0.32
34 24 0.45
35 6 0.11
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.45
Consensus pattern (34 bp):
GTAAGTTTTTCACTTATAAGTATTATTTCACTAT
Found at i:50025369 original size:65 final size:65
Alignment explanation
Indices: 50025293--50025425 Score: 266
Period size: 65 Copynumber: 2.0 Consensus size: 65
50025283 TCAGCAGATA
50025293 TTACAAGGGTAAGTTTTTCACTTATAAGTATTATTTCACTATGTAAGTTAAGATATGATATATAT
1 TTACAAGGGTAAGTTTTTCACTTATAAGTATTATTTCACTATGTAAGTTAAGATATGATATATAT
50025358 TTACAAGGGTAAGTTTTTCACTTATAAGTATTATTTCACTATGTAAGTTAAGATATGATATATAT
1 TTACAAGGGTAAGTTTTTCACTTATAAGTATTATTTCACTATGTAAGTTAAGATATGATATATAT
50025423 TTA
1 TTA
50025426 TGTATTATGT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.44
Consensus pattern (65 bp):
TTACAAGGGTAAGTTTTTCACTTATAAGTATTATTTCACTATGTAAGTTAAGATATGATATATAT
Found at i:50027871 original size:16 final size:16
Alignment explanation
Indices: 50027850--50027880 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50027840 GTAAATGGAG
50027850 TTAGGGATTTCAGAAC
1 TTAGGGATTTCAGAAC
*
50027866 TTAGGGATTTTAGAA
1 TTAGGGATTTCAGAA
50027881 GAGGAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (16 bp):
TTAGGGATTTCAGAAC
Found at i:50029813 original size:795 final size:798
Alignment explanation
Indices: 50028292--50030097 Score: 2886
Period size: 795 Copynumber: 2.2 Consensus size: 798
50028282 AATAAACGCC
* *
50028292 ACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAGCGCTGCTAATTTTGCAATTTATTTTATTT
1 ACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAGCGCCGCTAATTTTTCAATTTATTTTATTT
*
50028357 GTCTTTATTTATAAGTTTAATGATTTTTAATAGA---TTT-TTTT-ATAATTGTTATGACATTAT
66 GTCTTTATTTATAAGTTTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTTATGACATTAT
* *
50028417 TTTAAATTGATACATTAATATGCATTTATAAAATTATTTCAATTTTATGCAGTATATATAATATA
131 TTTAAATTGATACATTAATATGAATTTATAAAATTATTTCAATTTTATGCAGTATGTATAATATA
50028482 TAACATATATGCATAGATATATATCGTGGCATATATTATATATATAACCCTGTCACTTATAATCC
196 TAACATATATGCATAGATATATATCGTGGCA-ATATTATATATATAACCCTGTCACTTATAATCC
50028547 TATATACTAGTGACATAATAAGAAGTAAAAAGCAGAAAGAATTTTAATTTTTTTTTTGCTTTTGT
260 TATATACTAGTGACATAATAAGAAGTAAAAAGCAGAAAGAATTTTAATTTTTTTTTTGCTTTTGT
* *
50028612 ACCCTAAAACCCGAAGCTATTAATCCCTATAGCCCGTAAACATTAAAATTAAAGGCTAAACCCTA
325 ACCCTAAAACCCCAAGCTATTAATCCCTATAACCCGTAAACATTAAAATTAAAGGCTAAACCCTA
* *
50028677 GCTAACTCGTATTCTTCATGCAAATCCGAACGCAAAAACCAAGCATTGTAACATTCAAATCAATA
390 GCTAACTCATATTCTTCATGCAAATCCGAACACAAAAACCAAGCATTGTAACATTCAAATCAATA
* *
50028742 AAGGTGAACCATAAACCATAAACAACAAGCCGTAAAACAGTAAATTTGATCATTAATATATCTTA
455 AAGGTAAACCATAAACCATAAACAACAAGCCGTAAAACAATAAATTTGATCATTAATATATCTTA
* *
50028807 TAAGCCGTAAACCTCGCATTAAAATTAACATGTAAACTCAAACCCTAAACCCCATTCCTCAAGCC
520 TAAGCCATAAACCTCGCATTAAAACTAACATGTAAACTCAAACCCTAAACCCCATTCCTCAAGCC
* * *
50028872 GTAAACCTAAACCCTAAACCCTAAACATAAAATTATAATCCTAAATTAATAAATATTATGTATCA
585 GTAAAACTAAACCCAAAACCCTAAACATAAAATTATAATCCTAAATTAATAAACATTATGTATCA
* * *
50028937 AACCCTAAAACCCCAAACCGTATGCAACAAAACTTAAATATTAATCTCAATACCCTAAAATACAT
650 AACCCTAAAACCCCAAACCGTATACAACAAAACTTAAATATTAATCCCAAAACCCTAAAATACAT
* * *
50029002 AACTTTCATTTGCGGCGTTTTTA-CAAAAAACGCCGCTAATACCAATAAACAGTATAAAAACGAA
715 AACTTTAATTTGCGGCGTTTTTATAAAAAAACGCCGCTAATACCAATAAACAGTATAAAAACAAA
50029066 GTCG-T-TT-CA-G-T-T-
780 GTCGTTGTTACATGTTATA
*
50029078 ACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAACGCCGCTAATTTTTCAATTTATTTTATTT
1 ACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAGCGCCGCTAATTTTTCAATTTATTTTATTT
*
50029143 GTCTTTATTTATAAGTCTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTTATGACATTAT
66 GTCTTTATTTATAAGTTTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTTATGACATTAT
*
50029208 TTTAAATTGATACATTAATATGAATTTATAAAATTATTTCAATTTTATGCGGTATGTATAATATA
131 TTTAAATTGATACATTAATATGAATTTATAAAATTATTTCAATTTTATGCAGTATGTATAATATA
*
50029273 TAACATATATGCATAGATATATATCGTGGC-ATATTATATATATAACCCTGTCTCTTATAATCCT
196 TAACATATATGCATAGATATATATCGTGGCAATATTATATATATAACCCTGTCACTTATAATCCT
50029337 ATATACTAGTGACATAATAAGAAGTAAAAAGCAGAAAGAATTTTAATTTTAATTTTTTTTTTTGC
261 ATATACTAGTGACATAATAAGAAGTAAAAAGCAGAAAG------AATTTTAA-TTTTTTTTTTGC
50029402 TTTTGTACCCTAAAACCCCAAGCTATTAATCCCTATAACCCGTAAACATTAAAATTAAAGGCTAA
319 TTTTGTACCCTAAAACCCCAAGCTATTAATCCCTATAACCCGTAAACATTAAAATTAAAGGCTAA
50029467 ACCCTAGCTAACTCATATTCTTCATGCAAATCCGAACACAAAAACCAAGCATTGTAACATTCAAA
384 ACCCTAGCTAACTCATATTCTTCATGCAAATCCGAACACAAAAACCAAGCATTGTAACATTCAAA
* *
50029532 TCAATAAGGGTAAACCATAAACCATAAACATCAAG-CGTAAAACAATAAATTTGATCATTAATAT
449 TCAATAAAGGTAAACCATAAACCATAAACAACAAGCCGTAAAACAATAAATTTGATCATTAATAT
50029596 ATCTTATAAGCCATAAACCTCGCATTAAAACTAACATGTAAACTCAAACCCTAAACCCCATTCCT
514 ATCTTATAAGCCATAAACCTCGCATTAAAACTAACATGTAAACTCAAACCCTAAACCCCATTCCT
* *
50029661 CAAGCTGTAAAACTAAACCCAAAACCCTAAACATAAAATTGTAATCCTAAATTAATAAACATTAT
579 CAAGCCGTAAAACTAAACCCAAAACCCTAAACATAAAATTATAATCCTAAATTAATAAACATTAT
** * *
50029726 GTATTGAACCCTAAAACCCCAAACCGTATACAATAAAACTTAAATATTAATCCCAAAACCCTACA
644 GTATCAAACCCTAAAACCCCAAACCGTATACAACAAAACTTAAATATTAATCCCAAAACCCTAAA
50029791 ATACATAACTTTAATTTGCGGCGTTTTTATAAAAAAACGCCGCTAATACCAATAAACAGTATAAA
709 ATACATAACTTTAATTTGCGGCGTTTTTATAAAAAAACGCCGCTAATACCAATAAACAGTATAAA
50029856 AACAAAGTCGTTTCGGTTACACATTTTGCGGCGTTTTTGCAATAAA
774 AACAAAGTCG-TT--GTT--ACA---T-----G---TT---AT--A
* *
50029902 CGCCACAAAACTTGTTCTATAGCGGCGTTTTCTGTATAAGCGCCGCTAATTTTTTAATTTATTTT
1 ----ACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAGCGCCGCTAATTTTTCAATTTATTTT
50029967 ATTTGTCTTTATTTATAAGTTTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTTATGACA
62 ATTTGTCTTTATTTATAAGTTTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTTATGACA
50030032 TTATTTTAAATTGATACATTAATATGAATTTATAAAATTATTTCAATTTTATGCAGTATGTATAA
127 TTATTTTAAATTGATACATTAATATGAATTTATAAAATTATTTCAATTTTATGCAGTATGTATAA
50030097 T
192 T
50030098 TTAAATATAA
Statistics
Matches: 936, Mismatches: 39, Indels: 48
0.91 0.04 0.05
Matches are distributed among these distances:
786 94 0.10
789 74 0.08
790 4 0.00
791 111 0.12
795 245 0.26
796 213 0.23
798 1 0.00
801 2 0.00
804 2 0.00
813 1 0.00
817 1 0.00
821 1 0.00
828 187 0.20
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (798 bp):
ACAAATCTTGTTCTATAGCGGCGTTTTCTGTATAAGCGCCGCTAATTTTTCAATTTATTTTATTT
GTCTTTATTTATAAGTTTAATGATTTTTAGTAGATTTTTTATTTTGATAATTGTTATGACATTAT
TTTAAATTGATACATTAATATGAATTTATAAAATTATTTCAATTTTATGCAGTATGTATAATATA
TAACATATATGCATAGATATATATCGTGGCAATATTATATATATAACCCTGTCACTTATAATCCT
ATATACTAGTGACATAATAAGAAGTAAAAAGCAGAAAGAATTTTAATTTTTTTTTTGCTTTTGTA
CCCTAAAACCCCAAGCTATTAATCCCTATAACCCGTAAACATTAAAATTAAAGGCTAAACCCTAG
CTAACTCATATTCTTCATGCAAATCCGAACACAAAAACCAAGCATTGTAACATTCAAATCAATAA
AGGTAAACCATAAACCATAAACAACAAGCCGTAAAACAATAAATTTGATCATTAATATATCTTAT
AAGCCATAAACCTCGCATTAAAACTAACATGTAAACTCAAACCCTAAACCCCATTCCTCAAGCCG
TAAAACTAAACCCAAAACCCTAAACATAAAATTATAATCCTAAATTAATAAACATTATGTATCAA
ACCCTAAAACCCCAAACCGTATACAACAAAACTTAAATATTAATCCCAAAACCCTAAAATACATA
ACTTTAATTTGCGGCGTTTTTATAAAAAAACGCCGCTAATACCAATAAACAGTATAAAAACAAAG
TCGTTGTTACATGTTATA
Found at i:50030814 original size:40 final size:38
Alignment explanation
Indices: 50030710--50030858 Score: 138
Period size: 40 Copynumber: 3.7 Consensus size: 38
50030700 TGTTACTCTA
* *
50030710 TTGCGGCGCTTTTTGTAAAACGCCGCTAATGCTTGGTTT
1 TTGCGGCG-TTTTTGTAAAACGCCGCTAATGCTCGATTT
* * *
50030749 TCGTGGCGTTTTT-TATGTAACGCCGCTAATGCTCGATATT
1 TTGCGGCGTTTTTGTA--AAACGCCGCTAATGCTCGAT-TT
*
50030789 TTGCGGCGTTTTTCGTAAAATGCCGCTAATGCTCGATTT
1 TTGCGGCGTTTTT-GTAAAACGCCGCTAATGCTCGATTT
* * *
50030828 TTAGTGGCATTTTTTGTCCAAACGCCGCTAA
1 TT-GCGGC-GTTTTTGT-AAAACGCCGCTAA
50030859 AAGCGCCACT
Statistics
Matches: 89, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
37 2 0.02
38 5 0.06
39 27 0.30
40 37 0.42
41 16 0.18
42 2 0.02
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (38 bp):
TTGCGGCGTTTTTGTAAAACGCCGCTAATGCTCGATTT
Found at i:50030841 original size:79 final size:79
Alignment explanation
Indices: 50030710--50030858 Score: 187
Period size: 79 Copynumber: 1.9 Consensus size: 79
50030700 TGTTACTCTA
* * *
50030710 TTGCGGCGCTTTTTGTAAAACGCCGCTAATGCTTGGTTTTCGTGGCGTTTTTTATGT-AACGCCG
1 TTGCGGCGCTTTTTGTAAAACGCCGCTAATGCTCGGTTTTAGTGGCGATTTTT-TGTCAACGCCG
50030774 CTAATGCTCGATATT
65 CTAATGCTCGATATT
* *
50030789 TTGCGGCG-TTTTTCGTAAAATGCCGCTAATGCTCGATTTTTAGTGGC-ATTTTTTGTCCAAACG
1 TTGCGGCGCTTTTT-GTAAAACGCCGCTAATGCTCG-GTTTTAGTGGCGATTTTTTGT-C-AACG
50030852 CCGCTAA
62 CCGCTAA
50030859 AAGCGCCACT
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
78 8 0.13
79 32 0.53
80 9 0.15
81 11 0.18
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (79 bp):
TTGCGGCGCTTTTTGTAAAACGCCGCTAATGCTCGGTTTTAGTGGCGATTTTTTGTCAACGCCGC
TAATGCTCGATATT
Found at i:50033925 original size:20 final size:19
Alignment explanation
Indices: 50033899--50033950 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 19
50033889 AGCAATGAAT
50033899 CTGTTCACCAAGAGATACAA
1 CTGTTCA-CAAGAGATACAA
* *
50033919 TTGTTCA-AA-AGGTACAA
1 CTGTTCACAAGAGATACAA
50033936 CTGTTCATCAAGAGA
1 CTGTTCA-CAAGAGA
50033951 CATAACTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
17 13 0.52
18 2 0.08
19 2 0.08
20 8 0.32
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (19 bp):
CTGTTCACAAGAGATACAA
Found at i:50035425 original size:20 final size:21
Alignment explanation
Indices: 50035377--50035425 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
50035367 AAAAATAATA
50035377 AAATCTAATTAGTTATAAAATT
1 AAAT-TAATTAGTTATAAAATT
** *
50035399 ATTTTAATTA-TTATTAAATT
1 AAATTAATTAGTTATAAAATT
50035419 AAATTAA
1 AAATTAA
50035426 AAGTCACATC
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
20 14 0.64
21 6 0.27
22 2 0.09
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
AAATTAATTAGTTATAAAATT
Done.