Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 82 of 276
Found at i:25260505 original size:40 final size:40
Alignment explanation
Indices: 25260461--25260647 Score: 275
Period size: 40 Copynumber: 4.7 Consensus size: 40
25260451 CCAACCCAAT
* * * ** *
25260461 TGCCTTCGGGATTTAGCTCGGATGTAACAACCAGCACAAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
* * *
25260501 TGCCTTCGGGACTTAACCCAGAATTAGCAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
25260541 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
25260581 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCATGAA
1 TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
*
25260621 TGCCTTCGGGACTTAACCCGGATATAA
1 TGCCTTCGGGACTTAACCCGGAAATAA
25260648 TCCTCAATTG
Statistics
Matches: 134, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 134 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAA
Found at i:25266520 original size:37 final size:37
Alignment explanation
Indices: 25266479--25266552 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
25266469 CGTTTACACA
25266479 TAATAGCCTCAGACGATACACATTCCCGAGCATATCT
1 TAATAGCCTCAGACGATACACATTCCCGAGCATATCT
* * *
25266516 TAATAGCCTTAGACGATACATATTCTCGAGCATATCT
1 TAATAGCCTCAGACGATACACATTCCCGAGCATATCT
25266553 GCTAAGTCGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (37 bp):
TAATAGCCTCAGACGATACACATTCCCGAGCATATCT
Found at i:25268252 original size:40 final size:40
Alignment explanation
Indices: 25268208--25268472 Score: 440
Period size: 40 Copynumber: 6.6 Consensus size: 40
25268198 AACCCAATTA
* * ** *
25268208 CCTTCGGGATTTAGCCCGGATGTAACAACCAGCACAAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
* *
25268248 CCTTCGGGACTTAACCCGGAAATAGCGACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
*
25268288 CCTTCGGGGCTTAACCCGGAAATAACAACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
25268328 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
25268368 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
*
25268408 CCTTCGGGACTTAACCCGGAAATAACAACCAGCATGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
*
25268448 CCTTCGGGACTTAACCCGGATATAA
1 CCTTCGGGACTTAACCCGGAAATAA
25268473 TCCTCAATTG
Statistics
Matches: 212, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 212 1.00
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.17
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
Found at i:25286412 original size:42 final size:44
Alignment explanation
Indices: 25286346--25286492 Score: 111
Period size: 47 Copynumber: 3.2 Consensus size: 44
25286336 TATAGTTCAA
** *
25286346 CTATGGTCTTACACATCTTTACATA-A-TGATGCCATATCCCAG
1 CTATGGTCTTACACATAATCACATACACTGATGCCATATCCCAG
* *
25286388 CTATGGTCTTACACGTAATCACATATCTCACTGATGTCATATCCCAG
1 CTATGGTCTTACACATAATCACATA---CACTGATGCCATATCCCAG
* * ** *
25286435 ATATGGTCTTATACAGTAGCAT-GTATCACACCGATGCCATATCCCAG
1 CTATGGTCTTACACA-TA--ATCACAT-ACACTGATGCCATATCCCAG
*
25286482 ATATGGTCTTA
1 CTATGGTCTTA
25286493 TATAGTAGCA
Statistics
Matches: 84, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
42 21 0.25
46 1 0.01
47 55 0.65
48 2 0.02
49 2 0.02
50 3 0.04
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (44 bp):
CTATGGTCTTACACATAATCACATACACTGATGCCATATCCCAG
Found at i:25286429 original size:47 final size:47
Alignment explanation
Indices: 25286372--25286544 Score: 204
Period size: 47 Copynumber: 3.7 Consensus size: 47
25286362 CTTTACATAA
* * *
25286372 TGATGCCATATCCCAGCTATGGTCTTACAC-GTAATCACATATCTCAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGT-AGCACATATCACAC
* * **
25286419 TGATGTCATATCCCAGATATGGTCTTATACAGTAGCATGTATCACAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCACAC
* * * **
25286466 CGATGCCATATCCCAGATATGGTCTTATATAGTAGCATTTATCACAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCACAC
* *
25286513 CGATGCCATATCCCAGATATGGTCTTATACAG
1 TGATGCCATATCCCAGATATGGTCTTACACAG
25286545 AAATCACTTG
Statistics
Matches: 113, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
47 111 0.98
48 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (47 bp):
TGATGCCATATCCCAGATATGGTCTTACACAGTAGCACATATCACAC
Found at i:25286481 original size:94 final size:94
Alignment explanation
Indices: 25286373--25286544 Score: 247
Period size: 94 Copynumber: 1.8 Consensus size: 94
25286363 TTTACATAAT
* * * * * *
25286373 GATGCCATATCCCAGCTATGGTCTTACA-CGTAATCACATATCTCACTGATGTCATATCCCAGAT
1 GATGCCATATCCCAGATATGGTCTTACATAGT-AGCACATATCACACCGATGCCATATCCCAGAT
25286437 ATGGTCTTATACAGTAGCATGTATCACACC
65 ATGGTCTTATACAGTAGCATGTATCACACC
* **
25286467 GATGCCATATCCCAGATATGGTCTTATATAGTAGCATTTATCACACCGATGCCATATCCCAGATA
1 GATGCCATATCCCAGATATGGTCTTACATAGTAGCACATATCACACCGATGCCATATCCCAGATA
25286532 TGGTCTTATACAG
66 TGGTCTTATACAG
25286545 AAATCACTTG
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
94 66 0.97
95 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (94 bp):
GATGCCATATCCCAGATATGGTCTTACATAGTAGCACATATCACACCGATGCCATATCCCAGATA
TGGTCTTATACAGTAGCATGTATCACACC
Found at i:25286560 original size:7 final size:7
Alignment explanation
Indices: 25286548--25286576 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
25286538 TATACAGAAA
25286548 TCACTTG
1 TCACTTG
25286555 TCACTTG
1 TCACTTG
25286562 TCACTTG
1 TCACTTG
25286569 TCACTTG
1 TCACTTG
25286576 T
1 T
25286577 AGCCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:25286610 original size:31 final size:31
Alignment explanation
Indices: 25286575--25286783 Score: 310
Period size: 31 Copynumber: 6.7 Consensus size: 31
25286565 CTTGTCACTT
* *
25286575 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* ** *
25286606 GTAGCTGGTGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
25286637 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
25286668 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
25286699 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
25286730 GTAGCTGAAACTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
25286761 GTAGCTGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCA
25286784 GTTGTCATTT
Statistics
Matches: 162, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 162 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:25286867 original size:50 final size:50
Alignment explanation
Indices: 25286761--25286937 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
25286751 CACTGATCAG
* * * *
25286761 GTAGCTGAAGCTACCACTTTTCAGTTGTCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
* *
25286812 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
25286862 GTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
25286912 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
25286938 GTTTCCATGG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:25289292 original size:8 final size:8
Alignment explanation
Indices: 25289279--25289307 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
25289269 GGAATCAAGA
25289279 ATTTTTTT
1 ATTTTTTT
25289287 ATTTTTTT
1 ATTTTTTT
25289295 ATTTTTTT
1 ATTTTTTT
25289303 ATTTT
1 ATTTT
25289308 CTGGACTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
ATTTTTTT
Found at i:25291172 original size:8 final size:8
Alignment explanation
Indices: 25291159--25291187 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
25291149 GGAATCAAGA
25291159 ATTTTTTT
1 ATTTTTTT
25291167 ATTTTTTT
1 ATTTTTTT
25291175 ATTTTTTT
1 ATTTTTTT
25291183 ATTTT
1 ATTTT
25291188 CTGGACTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
ATTTTTTT
Found at i:25293016 original size:31 final size:31
Alignment explanation
Indices: 25292981--25293191 Score: 296
Period size: 31 Copynumber: 6.8 Consensus size: 31
25292971 CTTGTCACTT
* *
25292981 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* ** *
25293012 GTAGCTGGTGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
25293043 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
25293074 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
25293105 GTAGCAGAAGCTACTACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
25293136 GTAGCTGAAACTACCACTTTTCGCTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
25293167 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
25293192 TGTCATTTGT
Statistics
Matches: 160, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 160 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:25293273 original size:50 final size:50
Alignment explanation
Indices: 25293167--25293393 Score: 337
Period size: 50 Copynumber: 4.5 Consensus size: 50
25293157 CGCTGATCAG
* * * * *
25293167 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
* *
25293218 GTAGCCTAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
* * *
25293268 GTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
* *
25293318 GTAGCCGAAGCTATCACTTGTCACTTTCACTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
25293368 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
25293394 GTTTCCATGG
Statistics
Matches: 158, Mismatches: 18, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 136 0.86
51 22 0.14
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
Found at i:25305620 original size:19 final size:18
Alignment explanation
Indices: 25305555--25305636 Score: 76
Period size: 20 Copynumber: 4.3 Consensus size: 18
25305545 TAATTTTTTA
*
25305555 TTTTAAATGCTTTATAAT
1 TTTTAAATTCTTTATAAT
*
25305573 TTTTACAATTCTTT-TGAAAA
1 TTTTA-AATTCTTTAT--AAT
25305593 TTTTAAATTCTTTATAAT
1 TTTTAAATTCTTTATAAT
* *
25305611 TTTTATAATTTTTTTTTAAT
1 TTTTA-AA-TTCTTTATAAT
25305631 TTTTAA
1 TTTTAA
25305637 TTAATTGTCA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
18 13 0.25
19 18 0.34
20 22 0.42
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTTAAATTCTTTATAAT
Found at i:25305634 original size:9 final size:9
Alignment explanation
Indices: 25305565--25305623 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 9
25305555 TTTTAAATGC
25305565 TTTATAATT
1 TTTATAATT
*
25305574 TTTACAATT
1 TTTATAATT
*
25305583 CTTT-TGAAAAT
1 -TTTAT--AATT
25305594 TTTA-AATT
1 TTTATAATT
25305602 CTTTATAATT
1 -TTTATAATT
25305612 TTTATAATT
1 TTTATAATT
25305621 TTT
1 TTT
25305624 TTTTAATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
8 3 0.08
9 24 0.60
10 10 0.25
11 3 0.08
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (9 bp):
TTTATAATT
Found at i:25305636 original size:38 final size:37
Alignment explanation
Indices: 25305548--25305633 Score: 111
Period size: 38 Copynumber: 2.3 Consensus size: 37
25305538 GCAGGATTAA
25305548 TTTTTT-ATTTTAAATGCTTTATAATTTTTACAATTC
1 TTTTTTAATTTTAAATGCTTTATAATTTTTACAATTC
** * * *
25305584 TTTTGAAAATTTTAAATTCTTTATAATTTTTATAATTT
1 TTTT-TTAATTTTAAATGCTTTATAATTTTTACAATTC
25305622 TTTTTTAATTTT
1 TTTTTTAATTTT
25305634 TAATTAATTG
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
36 4 0.10
37 6 0.15
38 31 0.76
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (37 bp):
TTTTTTAATTTTAAATGCTTTATAATTTTTACAATTC
Found at i:25306616 original size:10 final size:10
Alignment explanation
Indices: 25306601--25306694 Score: 63
Period size: 9 Copynumber: 9.5 Consensus size: 10
25306591 TCCACGGTCA
*
25306601 AAAAATCATT
1 AAAAATTATT
25306611 AAAAATTATT
1 AAAAATTATT
*
25306621 TAAAATTA-T
1 AAAAATTATT
*
25306630 AAAAA-AATT
1 AAAAATTATT
25306639 AAAAA-TA-T
1 AAAAATTATT
* *
25306647 AAAAAATAGTA
1 AAAAATTA-TT
25306658 AAAAATTATTT
1 AAAAATTA-TT
25306669 AGAAAATT-TT
1 A-AAAATTATT
*
25306679 AAAATTTATTT
1 AAAAATTA-TT
25306690 AAAAA
1 AAAAA
25306695 AATATAAAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 13
0.73 0.12 0.14
Matches are distributed among these distances:
8 7 0.11
9 19 0.29
10 19 0.29
11 15 0.23
12 6 0.09
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAAATTATT
Found at i:25306640 original size:17 final size:17
Alignment explanation
Indices: 25306620--25306652 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25306610 TAAAAATTAT
*
25306620 TTAAAATTATAAAAAAA
1 TTAAAAATATAAAAAAA
25306637 TTAAAAATATAAAAAA
1 TTAAAAATATAAAAAA
25306653 TAGTAAAAAA
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:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAAAATATAAAAAAA
Found at i:25306660 original size:17 final size:17
Alignment explanation
Indices: 25306621--25306660 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
25306611 AAAAATTATT
*
25306621 TAAAATTATAAAAAAAT
1 TAAAATTATAAAAAAAG
*
25306638 TAAAAATATAAAAAATAG
1 TAAAATTATAAAAAA-AG
25306656 TAAAA
1 TAAAA
25306661 AATTATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
TAAAATTATAAAAAAAG
Found at i:25306702 original size:21 final size:21
Alignment explanation
Indices: 25306622--25306705 Score: 65
Period size: 21 Copynumber: 4.2 Consensus size: 21
25306612 AAAATTATTT
25306622 AAAATTA--TAAAAAAAT-TA
1 AAAATTATTTAAAAAAATATA
25306640 AAAA-TA--T-AAAAAATAGTAA
1 AAAATTATTTAAAAAAATA-T-A
* * *
25306659 AAAATTATTTAGAAAATTTTA
1 AAAATTATTTAAAAAAATATA
*
25306680 AAATTTATTTAAAAAAATATA
1 AAAATTATTTAAAAAAATATA
25306701 AAAAT
1 AAAAT
25306706 ATACAAAGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
16 7 0.14
17 3 0.06
18 5 0.10
19 5 0.10
20 2 0.04
21 22 0.43
22 2 0.04
23 5 0.10
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
AAAATTATTTAAAAAAATATA
Found at i:25307105 original size:18 final size:19
Alignment explanation
Indices: 25307072--25307108 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
25307062 AAAAATGAAA
25307072 AAAAATTAGTAAAGTATTTC
1 AAAAATTAG-AAAGTATTTC
25307092 AAAAATTA-AAAGTATTT
1 AAAAATTAGAAAGTATTT
25307109 TTAATCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (19 bp):
AAAAATTAGAAAGTATTTC
Found at i:25307261 original size:46 final size:42
Alignment explanation
Indices: 25307174--25307264 Score: 121
Period size: 46 Copynumber: 2.1 Consensus size: 42
25307164 TATCAAAATC
*
25307174 TATAATATATAACAACATTCTTATTGATACAAAAATCTATAA
1 TATAATATATAACAACATTCATATTGATACAAAAATCTATAA
25307216 TATATATATATAACAACATATCCAT-TTGAATAACAAAAATCTATAA
1 TATA-ATATATAACAACAT-T-CATATTG-AT-ACAAAAATCTATAA
25307262 TAT
1 TAT
25307265 GTAATTGTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
42 4 0.09
43 14 0.33
44 4 0.09
45 4 0.09
46 17 0.40
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.35
Consensus pattern (42 bp):
TATAATATATAACAACATTCATATTGATACAAAAATCTATAA
Found at i:25317094 original size:19 final size:19
Alignment explanation
Indices: 25317054--25317094 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
25317044 ATTTTTATAA
* *
25317054 TTTATTTAATTTTAAATAT
1 TTTATTGAATTTTAAAGAT
*
25317073 TTTATTGAATTTTAAAGGT
1 TTTATTGAATTTTAAAGAT
25317092 TTT
1 TTT
25317095 TAAAATTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
TTTATTGAATTTTAAAGAT
Found at i:25318554 original size:28 final size:28
Alignment explanation
Indices: 25318510--25318566 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
25318500 ATTTTTATAT
*
25318510 TTCTGATGTCGTGATAGCTTAATCTAGC
1 TTCTGATGTCGTAATAGCTTAATCTAGC
25318538 TTCTGATGTCGTAATAGCTTAATCTAGC
1 TTCTGATGTCGTAATAGCTTAATCTAGC
25318566 T
1 T
25318567 ATCTCGGGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (28 bp):
TTCTGATGTCGTAATAGCTTAATCTAGC
Found at i:25319416 original size:24 final size:23
Alignment explanation
Indices: 25319346--25319417 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 23
25319336 TGAGCTAATG
*
25319346 GATTAATGGCTCTTTTAAGCTTCCC
1 GATT-ATGGCTC-TTTAAGCTTCCA
*
25319371 GA-TATTGGCTCGCTTGAA-CTTCCA
1 GATTA-TGGCT--CTTTAAGCTTCCA
25319395 GATTATGGCTCTTATAAGCTTCC
1 GATTATGGCTCTT-TAAGCTTCC
25319418 CATTCAAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
22 3 0.08
23 3 0.08
24 23 0.61
25 8 0.21
26 1 0.03
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (23 bp):
GATTATGGCTCTTTAAGCTTCCA
Found at i:25321824 original size:7 final size:7
Alignment explanation
Indices: 25321812--25321836 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
25321802 AGAGAGCATT
25321812 GATATGA
1 GATATGA
25321819 GATATGA
1 GATATGA
25321826 GATATGA
1 GATATGA
25321833 GATA
1 GATA
25321837 GTAATGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (7 bp):
GATATGA
Found at i:25323571 original size:122 final size:122
Alignment explanation
Indices: 25323423--25323786 Score: 705
Period size: 120 Copynumber: 3.0 Consensus size: 122
25323413 AGCATTATTA
25323423 ACATATTGAAACTAATCATATATATATATACATATTATGATACATATCATTTATTTCATTATATC
1 ACATATTGAAACTAATCATATATATATATACATATTATGATACATATCATTTATTTCATTATATC
25323488 AATTTTCCATGTACCATAGTTTCCATGTATCACTATCTCATTGAGTTTCATATAAAT
66 AATTTTCCATGTACCATAGTTTCCATGTATCACTATCTCATTGAGTTTCATATAAAT
25323545 ACATATTGAAACTAATC--ATATATATATACATATTATGATACATATCATTTATTTCATTATATC
1 ACATATTGAAACTAATCATATATATATATACATATTATGATACATATCATTTATTTCATTATATC
25323608 AATTTTCCATGTACCATAGTTTCCATGTATCACTATCTCATTGAGTTTCATATAAAT
66 AATTTTCCATGTACCATAGTTTCCATGTATCACTATCTCATTGAGTTTCATATAAAT
25323665 ACATATTGAAACTAATCATATATATATATACATATTATGATACATATCATTTATTTCATTATATC
1 ACATATTGAAACTAATCATATATATATATACATATTATGATACATATCATTTATTTCATTATATC
*
25323730 AATTTTCTATGTACCATAGTTTCCATGTATCACTATCTCATTGAGTTTCATATAAAT
66 AATTTTCCATGTACCATAGTTTCCATGTATCACTATCTCATTGAGTTTCATATAAAT
25323787 GTGTCTTAAT
Statistics
Matches: 239, Mismatches: 1, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
120 120 0.50
122 119 0.50
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.43
Consensus pattern (122 bp):
ACATATTGAAACTAATCATATATATATATACATATTATGATACATATCATTTATTTCATTATATC
AATTTTCCATGTACCATAGTTTCCATGTATCACTATCTCATTGAGTTTCATATAAAT
Found at i:25325857 original size:66 final size:66
Alignment explanation
Indices: 25325777--25325902 Score: 171
Period size: 66 Copynumber: 1.9 Consensus size: 66
25325767 GTCGGTAGCC
** * *
25325777 TCACACGGCCTAGCACACGGGTGTGTCGCTTGGCTGTATGTCACAAGTCAGTATGCTCACCATTT
1 TCACACGGCCTAGCACACGGGCATGTCGCTTGGCTGTATGACACAAGTCAGTAAGCTCACCATTT
25325842 T
66 T
* * * * *
25325843 TCACATGGCTTAGCATACGGGCATGTCGCTTGGCTGTGTGACCCAAGTCAGTAAGCTCAC
1 TCACACGGCCTAGCACACGGGCATGTCGCTTGGCTGTATGACACAAGTCAGTAAGCTCAC
25325903 TAGTTTAAGC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 51 1.00
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (66 bp):
TCACACGGCCTAGCACACGGGCATGTCGCTTGGCTGTATGACACAAGTCAGTAAGCTCACCATTT
T
Found at i:25326045 original size:40 final size:40
Alignment explanation
Indices: 25325985--25326065 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
25325975 CCTTTGAAAA
25325985 ATTTCCATGTTTTCCAAAAAATTCTTTGAGTACTCGGTTT
1 ATTTCCATGTTTTCCAAAAAATTCTTTGAGTACTCGGTTT
* *
25326025 ATTTCCATGTTTTTCGAAAAATTCTTTGAGTACTCGGTTT
1 ATTTCCATGTTTTCCAAAAAATTCTTTGAGTACTCGGTTT
25326065 A
1 A
25326066 GTCCTGACTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.46
Consensus pattern (40 bp):
ATTTCCATGTTTTCCAAAAAATTCTTTGAGTACTCGGTTT
Found at i:25330415 original size:33 final size:33
Alignment explanation
Indices: 25330378--25330455 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
25330368 ATAACCTAGT
* ** *
25330378 TATGGTCTTTTTAGTT-GATTGCCATAGTTCAGC
1 TATGGTCTTATTA-TTCGATTGCCATAGCCCAAC
25330411 TATGGTCTTATTATTCGATTGCCATAGCCCAAC
1 TATGGTCTTATTATTCGATTGCCATAGCCCAAC
25330444 TATGGTCTTATT
1 TATGGTCTTATT
25330456 CAGCAACTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 2 0.05
33 38 0.95
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.44
Consensus pattern (33 bp):
TATGGTCTTATTATTCGATTGCCATAGCCCAAC
Found at i:25330952 original size:43 final size:42
Alignment explanation
Indices: 25330881--25331012 Score: 151
Period size: 43 Copynumber: 3.1 Consensus size: 42
25330871 TCACATAAAG
* * *
25330881 CTCATACAATGCC-ATATCCCAGATATGGTCTTACATGTTAT
1 CTCATACAATGCCAATGTCCCAGACATGGTCTTACATGTAAT
* *
25330922 CTCATATCAATGCCAATGTCCCAGACATGGTCTTACACGAAAT
1 CTCATA-CAATGCCAATGTCCCAGACATGGTCTTACATGTAAT
* *
25330965 CAT-ATAACGATGCCAATGTCACAGACATGGTCTTACATGTAAT
1 C-TCAT-ACAATGCCAATGTCCCAGACATGGTCTTACATGTAAT
*
25331008 TTCAT
1 CTCAT
25331013 CTTGGTAATC
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
41 6 0.08
42 8 0.11
43 60 0.79
44 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (42 bp):
CTCATACAATGCCAATGTCCCAGACATGGTCTTACATGTAAT
Found at i:25331800 original size:48 final size:48
Alignment explanation
Indices: 25331747--25331839 Score: 186
Period size: 48 Copynumber: 1.9 Consensus size: 48
25331737 GAGTTAAAAT
25331747 CGTACCTATTTGAGCAAAAACACCATGGCCGAATGTCAAGCTCTTAAC
1 CGTACCTATTTGAGCAAAAACACCATGGCCGAATGTCAAGCTCTTAAC
25331795 CGTACCTATTTGAGCAAAAACACCATGGCCGAATGTCAAGCTCTT
1 CGTACCTATTTGAGCAAAAACACCATGGCCGAATGTCAAGCTCTT
25331840 TAATGGCTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (48 bp):
CGTACCTATTTGAGCAAAAACACCATGGCCGAATGTCAAGCTCTTAAC
Found at i:25350599 original size:15 final size:15
Alignment explanation
Indices: 25350576--25350610 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
25350566 AGTGGGAAAT
*
25350576 AAAGTGATATGAGAG
1 AAAGAGATATGAGAG
*
25350591 AAAGAGATATGTGAG
1 AAAGAGATATGAGAG
25350606 AAAGA
1 AAAGA
25350611 TAGAGAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.31, T:0.17
Consensus pattern (15 bp):
AAAGAGATATGAGAG
Found at i:25355338 original size:3 final size:3
Alignment explanation
Indices: 25355332--25355366 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
25355322 GTCTTGTGTT
25355332 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
25355367 GGGCCAATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:25355487 original size:3 final size:3
Alignment explanation
Indices: 25355479--25355513 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
25355469 GTCGGCTATT
25355479 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
25355514 TTTCCTGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:25355949 original size:14 final size:15
Alignment explanation
Indices: 25355932--25355961 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
25355922 TGGGGTTTTT
25355932 TTTTCTTT-TGCTTG
1 TTTTCTTTCTGCTTG
25355946 TTTTCTTTCTGCTTG
1 TTTTCTTTCTGCTTG
25355961 T
1 T
25355962 GTTGTTTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.00, C:0.17, G:0.13, T:0.70
Consensus pattern (15 bp):
TTTTCTTTCTGCTTG
Found at i:25357908 original size:12 final size:12
Alignment explanation
Indices: 25357891--25357917 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25357881 TGGTTATATA
25357891 TTCAATGAAATT
1 TTCAATGAAATT
25357903 TTCAATGAAATT
1 TTCAATGAAATT
25357915 TTC
1 TTC
25357918 TTACTTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (12 bp):
TTCAATGAAATT
Found at i:25360549 original size:62 final size:62
Alignment explanation
Indices: 25360452--25360574 Score: 228
Period size: 62 Copynumber: 2.0 Consensus size: 62
25360442 TAGAACAAAA
25360452 GATTATAGATAGCCGATTAAAACTGAAAAATAGTTCTACAATTAACCCTTATCAGTCAAACG
1 GATTATAGATAGCCGATTAAAACTGAAAAATAGTTCTACAATTAACCCTTATCAGTCAAACG
* *
25360514 GATTATAGGTAGCCGATTAAAACTGAAAAATAGTTCTACAATTAACCCTTATCATTCAAAC
1 GATTATAGATAGCCGATTAAAACTGAAAAATAGTTCTACAATTAACCCTTATCAGTCAAAC
25360575 AACCCTAAAG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.28
Consensus pattern (62 bp):
GATTATAGATAGCCGATTAAAACTGAAAAATAGTTCTACAATTAACCCTTATCAGTCAAACG
Found at i:25362287 original size:19 final size:18
Alignment explanation
Indices: 25362255--25362296 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
25362245 ATTTAGTAAC
25362255 ATAATATTTAAAATTATAT
1 ATAATATTTAAAATT-TAT
* *
25362274 ATAATTTTTTAAATTTAT
1 ATAATATTTAAAATTTAT
25362292 A-AATA
1 ATAATA
25362297 AAATATACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 3 0.15
18 4 0.20
19 13 0.65
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATAATATTTAAAATTTAT
Found at i:25362568 original size:54 final size:54
Alignment explanation
Indices: 25362504--25362611 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
25362494 CATAACACAA
*
25362504 AACCTAGTAAGACATGATGAAAATTGATAAAATAAGAGTGATAACAACATAGCG
1 AACCTAGTAAGACATGATGAAAATTGATAAAATAAGAGTGACAACAACATAGCG
25362558 AACCTAGTAAGACATGATGAAAATTGATAAAATAAGAGTGACAACAACATAGCG
1 AACCTAGTAAGACATGATGAAAATTGATAAAATAAGAGTGACAACAACATAGCG
25362612 TCCAATCTTC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (54 bp):
AACCTAGTAAGACATGATGAAAATTGATAAAATAAGAGTGACAACAACATAGCG
Found at i:25364762 original size:13 final size:13
Alignment explanation
Indices: 25364744--25364774 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
25364734 ATATTGATAA
*
25364744 TAATAAATTAAGT
1 TAATAAATTAAAT
25364757 TAATAAATTAAAT
1 TAATAAATTAAAT
25364770 TAATA
1 TAATA
25364775 CTCAATCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (13 bp):
TAATAAATTAAAT
Found at i:25365233 original size:21 final size:22
Alignment explanation
Indices: 25365198--25365241 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
25365188 AATATTTGTA
*
25365198 TATTTGTTATTATTTATCTATG
1 TATTTGTTATTATTTATATATG
*
25365220 TATTT-TTTTTATTTATATATG
1 TATTTGTTATTATTTATATATG
25365241 T
1 T
25365242 TACAATACGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.68
Consensus pattern (22 bp):
TATTTGTTATTATTTATATATG
Found at i:25369031 original size:20 final size:19
Alignment explanation
Indices: 25369006--25369045 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25368996 ATAAATAATA
*
25369006 TATATTATATAATATATTTT
1 TATATTA-ACAATATATTTT
*
25369026 TATATTAGCAATATATTTT
1 TATATTAACAATATATTTT
25369045 T
1 T
25369046 TGAACTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (19 bp):
TATATTAACAATATATTTT
Found at i:25369443 original size:13 final size:14
Alignment explanation
Indices: 25369416--25369444 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25369406 GAATTTTATA
25369416 TTTAAAAATATAAT
1 TTTAAAAATATAAT
25369430 TTTAAAAATA-AAT
1 TTTAAAAATATAAT
25369443 TT
1 TT
25369445 CATCAGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTAAAAATATAAT
Found at i:25369709 original size:20 final size:22
Alignment explanation
Indices: 25369651--25369698 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
25369641 TCATTTTGAC
* *
25369651 ATAATAAACTTAAT-TTTTTTAA
1 ATAATAAA-ATAATATTATTTAA
25369673 ATAATAAAATAATATTATTTAA
1 ATAATAAAATAATATTATTTAA
25369695 ATAA
1 ATAA
25369699 AAATATCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATAATAAAATAATATTATTTAA
Found at i:25370372 original size:21 final size:21
Alignment explanation
Indices: 25370343--25370383 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
25370333 AATAATTTAA
25370343 ATTTAAATTATTT-TTAATTTC
1 ATTTAAATT-TTTATTAATTTC
*
25370364 ATTTCAATTTTTATTAATTT
1 ATTTAAATTTTTATTAATTT
25370384 AAAATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTAAATTTTTATTAATTTC
Found at i:25371300 original size:16 final size:16
Alignment explanation
Indices: 25371276--25371310 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
25371266 GATTCTCACT
*
25371276 AATTTATCTAAACTCG
1 AATTGATCTAAACTCG
25371292 AATTGATCTAAACTCG
1 AATTGATCTAAACTCG
25371308 AAT
1 AAT
25371311 CCCACCATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (16 bp):
AATTGATCTAAACTCG
Found at i:25372137 original size:30 final size:30
Alignment explanation
Indices: 25372101--25372158 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
25372091 AATTTAAATA
*
25372101 AAAAACTTTTCAAATTGTTCAACTACCAAT
1 AAAAACTTTTCAAATTGTTCAACCACCAAT
25372131 AAAAACTTTTCAAATTGTTCAACCACCA
1 AAAAACTTTTCAAATTGTTCAACCACCA
25372159 TTTCATAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.43, C:0.22, G:0.03, T:0.31
Consensus pattern (30 bp):
AAAAACTTTTCAAATTGTTCAACCACCAAT
Found at i:25372399 original size:44 final size:40
Alignment explanation
Indices: 25372346--25372434 Score: 97
Period size: 40 Copynumber: 2.1 Consensus size: 40
25372336 TTTTCATGTT
*
25372346 ATTTATACAAAATGATAAATATCCAATAAATAATGAAATATATA
1 ATTTATACAAAACGA-AAA-A--CAATAAATAATGAAATATATA
* * * *
25372390 ATTTGTACAAAACGACAAACAATATATAATGAAATATATT
1 ATTTATACAAAACGAAAAACAATAAATAATGAAATATATA
25372430 ATTTA
1 ATTTA
25372435 AAAATAATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
40 23 0.59
42 1 0.03
43 2 0.05
44 13 0.33
ACGTcount: A:0.54, C:0.08, G:0.06, T:0.33
Consensus pattern (40 bp):
ATTTATACAAAACGAAAAACAATAAATAATGAAATATATA
Found at i:25384309 original size:31 final size:31
Alignment explanation
Indices: 25384271--25384330 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
25384261 TAGCTTTAAA
25384271 TCTTTAATTACTTTGACCTGATTCTTTTTAC
1 TCTTTAATTACTTTGACCTGATTCTTTTTAC
25384302 TCTTTAATTACTTTGACCTGATTCTTTTT
1 TCTTTAATTACTTTGACCTGATTCTTTTT
25384331 TTATCTCTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.18, C:0.18, G:0.07, T:0.57
Consensus pattern (31 bp):
TCTTTAATTACTTTGACCTGATTCTTTTTAC
Found at i:25384789 original size:27 final size:28
Alignment explanation
Indices: 25384758--25384811 Score: 67
Period size: 27 Copynumber: 1.9 Consensus size: 28
25384748 TTTACTACTT
25384758 GGGTC-AAAGGTAAATTTT-TTTTTATTG
1 GGGTCGAAA-GTAAATTTTATTTTTATTG
*
25384785 GGGTCGAAATTAAATTTTAATTTTTAT
1 GGGTCGAAAGTAAATTTT-ATTTTTAT
25384812 GATTGTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 13 0.57
28 3 0.13
29 7 0.30
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.48
Consensus pattern (28 bp):
GGGTCGAAAGTAAATTTTATTTTTATTG
Found at i:25385025 original size:16 final size:15
Alignment explanation
Indices: 25384983--25385029 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
25384973 ATTTAATCAC
*
25384983 ATAAAAATTGAAATT
1 ATAAAAATTAAAATT
*
25384998 -TCAAAATTTAAAATT
1 AT-AAAAATTAAAATT
25385013 ATAAAAATATAAAATT
1 ATAAAAAT-TAAAATT
25385029 A
1 A
25385030 CCCTATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 1 0.04
15 16 0.62
16 9 0.35
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (15 bp):
ATAAAAATTAAAATT
Found at i:25394585 original size:45 final size:45
Alignment explanation
Indices: 25394465--25394585 Score: 197
Period size: 45 Copynumber: 2.7 Consensus size: 45
25394455 AGGGGGTGGC
* *
25394465 GGGGGTGCTGATGATGAACCAGTTGTGAGTGGGGGTGGTGGGGGT
1 GGGGGTGCTGATGATGAACCAGTTGTGGGTGGCGGTGGTGGGGGT
*
25394510 GGGGGTGCTGATGATGAACCAGTAGTGGGTGGCGGTGGTGGGGGT
1 GGGGGTGCTGATGATGAACCAGTTGTGGGTGGCGGTGGTGGGGGT
* *
25394555 GGGGGGGCTGATGATGAACCAGTTGAGGGTG
1 GGGGGTGCTGATGATGAACCAGTTGTGGGTG
25394586 AGGGTGAGGG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.15, C:0.08, G:0.55, T:0.22
Consensus pattern (45 bp):
GGGGGTGCTGATGATGAACCAGTTGTGGGTGGCGGTGGTGGGGGT
Found at i:25397401 original size:19 final size:17
Alignment explanation
Indices: 25397369--25397416 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
25397359 AAAACAATAC
25397369 AAAACAAAGA-CAAAAGAA
1 AAAACAAA-ACCAAAA-AA
25397387 GAAAACAAAACCAAAAAA
1 -AAAACAAAACCAAAAAA
*
25397405 AAAAAAAAACCA
1 AAAACAAAACCA
25397417 GACCTTGTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 11 0.41
18 3 0.11
19 13 0.48
ACGTcount: A:0.79, C:0.15, G:0.06, T:0.00
Consensus pattern (17 bp):
AAAACAAAACCAAAAAA
Found at i:25397412 original size:29 final size:29
Alignment explanation
Indices: 25397351--25397413 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
25397341 AAAAACAGCT
* * *
25397351 AAAAGAAAAAAACAATACAAAACAAAGAC
1 AAAAGAAAAAAACAAAACAAAACAAAAAA
* *
25397380 AAAAGAAGAAAACAAAACCAAAAAAAAAAA
1 AAAAGAAAAAAACAAAA-CAAAACAAAAAA
25397410 AAAA
1 AAAA
25397414 CCAGACCTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.81, C:0.11, G:0.06, T:0.02
Consensus pattern (29 bp):
AAAAGAAAAAAACAAAACAAAACAAAAAA
Found at i:25405819 original size:48 final size:48
Alignment explanation
Indices: 25405712--25405807 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
25405702 AAAGAAAAAA
25405712 ATAAGAGCAGAAAATAAAATATTGAACATATCCATTTTTTTTCAACCC
1 ATAAGAGCAGAAAATAAAATATTGAACATATCCATTTTTTTTCAACCC
25405760 ATAAGAGCAGAAAATAAAATATTGAACATATCCATTTTTTTTCAACCC
1 ATAAGAGCAGAAAATAAAATATTGAACATATCCATTTTTTTTCAACCC
25405808 TGTAAAGCAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (48 bp):
ATAAGAGCAGAAAATAAAATATTGAACATATCCATTTTTTTTCAACCC
Found at i:25408498 original size:9 final size:9
Alignment explanation
Indices: 25408484--25408509 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
25408474 AAGGGTTCAT
25408484 TTTGGTATA
1 TTTGGTATA
25408493 TTTGGTATA
1 TTTGGTATA
25408502 TTTGGTAT
1 TTTGGTAT
25408510 TTAACCTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.23, T:0.58
Consensus pattern (9 bp):
TTTGGTATA
Found at i:25416659 original size:17 final size:19
Alignment explanation
Indices: 25416637--25416675 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
25416627 TAAATTTTAA
*
25416637 AAAATATACT-TAA-GTTT
1 AAAATATAATATAATGTTT
25416654 AAAATATAATATAATGTTT
1 AAAATATAATATAATGTTT
25416673 AAA
1 AAA
25416676 TAAAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (19 bp):
AAAATATAATATAATGTTT
Found at i:25416794 original size:18 final size:18
Alignment explanation
Indices: 25416736--25416794 Score: 61
Period size: 19 Copynumber: 3.4 Consensus size: 18
25416726 TTTAGTTCAC
*
25416736 ATTTATTATTTTTTT-A-
1 ATTTTTTATTTTTTTAAT
* *
25416752 A-TTTTTATTGTTATATAT
1 ATTTTTTATTTTTTTA-AT
25416770 ATTTTTTATTTTTTTAAT
1 ATTTTTTATTTTTTTAAT
25416788 ATTTTTT
1 ATTTTTT
25416795 TAATATTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 10 0.29
16 1 0.03
17 1 0.03
18 10 0.29
19 12 0.35
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (18 bp):
ATTTTTTATTTTTTTAAT
Found at i:25429343 original size:39 final size:39
Alignment explanation
Indices: 25429300--25429433 Score: 153
Period size: 39 Copynumber: 3.4 Consensus size: 39
25429290 ACCAGCTCGA
* * * *
25429300 AGCCTGCGAGA-CTTTAGCCCGGACATATTTGCAGCACGT
1 AGCCTGCG-GACCTTAAGCCCGGACATAATTCCAGCACAT
* * *
25429339 AGCCTACGGACCTTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGCCCGGACATAATTCCAGCACAT
* * *
25429378 AGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGCCCGGACATAATTCCAGCACAT
*
25429417 AGCCTGCGGACCCTAAG
1 AGCCTGCGGACCTTAAG
25429434 TCTGGATCAC
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 2 0.02
39 83 0.98
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGCCCGGACATAATTCCAGCACAT
Found at i:25429434 original size:39 final size:39
Alignment explanation
Indices: 25429331--25429440 Score: 184
Period size: 39 Copynumber: 2.8 Consensus size: 39
25429321 GACATATTTG
* * *
25429331 CAGCACGTAGCCTACGGACCTTAAGTCCGGATATAATTC
1 CAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTC
25429370 CAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTC
1 CAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTC
*
25429409 CAGCACATAGCCTGCGGACCCTAAGTCTGGAT
1 CAGCACATAGCCTGCGGACCCTAAGTCCGGAT
25429441 CACTGTTTGA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (39 bp):
CAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTC
Found at i:25437565 original size:21 final size:22
Alignment explanation
Indices: 25437539--25437585 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
25437529 CTCTGCTCAA
*
25437539 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
25437560 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
25437582 ACTC
1 ACTC
25437586 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:25453619 original size:29 final size:29
Alignment explanation
Indices: 25453583--25453641 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
25453573 ACCCCTCACC
25453583 AAATAATAGTAATTAAATTCATTAAGTTA
1 AAATAATAGTAATTAAATTCATTAAGTTA
**
25453612 AAATAATAGTCGTTAAATTCATTAAGTTA
1 AAATAATAGTAATTAAATTCATTAAGTTA
25453641 A
1 A
25453642 TTTTTTCTAT
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:0.49, C:0.05, G:0.08, T:0.37
Consensus pattern (29 bp):
AAATAATAGTAATTAAATTCATTAAGTTA
Found at i:25455678 original size:46 final size:49
Alignment explanation
Indices: 25455582--25455682 Score: 129
Period size: 46 Copynumber: 2.1 Consensus size: 49
25455572 AATGAACTAC
* *
25455582 GTCTTACACGTAATCACATATCATATATCGATGTCATAGCCCAGCTATG
1 GTCTTACACGTAATCACATATCATATATCGATGCCATAGCCCAGATATG
* *
25455631 GTCTTACACG-AATCACATATC-T-CA-CTGATGCCATATCCCAGATATG
1 GTCTTACACGTAATCACATATCATATATC-GATGCCATAGCCCAGATATG
25455677 GTCTTA
1 GTCTTA
25455683 TACGGAAATC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
45 1 0.02
46 24 0.51
47 1 0.02
48 11 0.23
49 10 0.21
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (49 bp):
GTCTTACACGTAATCACATATCATATATCGATGCCATAGCCCAGATATG
Found at i:25455756 original size:31 final size:31
Alignment explanation
Indices: 25455711--25455859 Score: 208
Period size: 31 Copynumber: 4.8 Consensus size: 31
25455701 CTTGTCACTT
* **
25455711 GTAGCCGAAGCTACCACTATTCACAAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * * *
25455742 GTAGCCGGATCTACCATTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
25455773 GTAGTCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
25455804 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
25455835 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
25455860 TGTAATTTGT
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 103 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:25455940 original size:50 final size:51
Alignment explanation
Indices: 25455835--25455963 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
25455825 CACTGATCAG
* * *
25455835 GTAGCCGAAGCTACCACTTTTCACTTGTAATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTAACTTGTCATTGATCAGATAAGT
* *
25455886 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCATTTATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTAACTTGTCATTGATCAGATAAGT
*
25455936 GTAGCCGAAGCTATCATTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
25455964 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 46 0.65
51 25 0.35
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTAACTTGTCATTGATCAGATAAGT
Found at i:25459407 original size:8 final size:8
Alignment explanation
Indices: 25459394--25459418 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
25459384 TGGGTTTTGA
25459394 TGTTGTTT
1 TGTTGTTT
25459402 TGTTGTTT
1 TGTTGTTT
25459410 TGTTGTTT
1 TGTTGTTT
25459418 T
1 T
25459419 TTTGGTGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (8 bp):
TGTTGTTT
Found at i:25461849 original size:20 final size:21
Alignment explanation
Indices: 25461826--25461869 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
25461816 TAAGGTTTGG
*
25461826 GGTTTGAAG-TTCAAAGTTCA
1 GGTTTCAAGATTCAAAGTTCA
*
25461846 GG-TTCAAGATTCAAGGTTCA
1 GGTTTCAAGATTCAAAGTTCA
25461866 GGTT
1 GGTT
25461870 AAAAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
19 5 0.25
20 14 0.70
21 1 0.05
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.34
Consensus pattern (21 bp):
GGTTTCAAGATTCAAAGTTCA
Found at i:25469870 original size:69 final size:68
Alignment explanation
Indices: 25469777--25469906 Score: 233
Period size: 69 Copynumber: 1.9 Consensus size: 68
25469767 TGAAGTGAGC
*
25469777 TTATATCTTTTTGTGATTTCATATCTCATATATAAGATATGTAGATCATATAAGGATCCGTAGTG
1 TTATATCTTTTTGTGATTTCATATCTCATATATAAGATATGTAAATCATATAAGGATCCGTAGTG
25469842 ATT
66 ATT
*
25469845 TTATATCTTTTTTGTGATTTTATATCTCATATATAAGATATGTAAATCATATAAGGATCCGT
1 TTATATC-TTTTTGTGATTTCATATCTCATATATAAGATATGTAAATCATATAAGGATCCGT
25469907 GAAAAGTAAC
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
68 7 0.12
69 52 0.88
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (68 bp):
TTATATCTTTTTGTGATTTCATATCTCATATATAAGATATGTAAATCATATAAGGATCCGTAGTG
ATT
Found at i:25470204 original size:15 final size:15
Alignment explanation
Indices: 25470184--25470221 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
25470174 AACGGTCGAT
25470184 TAAATTTGAGTTTTA
1 TAAATTTGAGTTTTA
25470199 TAAATTTGAGTTTTA
1 TAAATTTGAGTTTTA
25470214 TAGAATTT
1 TA-AATTT
25470222 TAAGATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (15 bp):
TAAATTTGAGTTTTA
Found at i:25472331 original size:20 final size:19
Alignment explanation
Indices: 25472308--25472371 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
25472298 GAATTAAGTT
25472308 ATATATTTTTAAATTTTAAA
1 ATAT-TTTTTAAATTTTAAA
**
25472328 ATATTAAATTAAATTTTAAA
1 ATATT-TTTTAAATTTTAAA
* **
25472348 TTATTTTTTGAAAAGTTAAA
1 ATATTTTTT-AAATTTTAAA
25472368 ATAT
1 ATAT
25472372 AATTTTATTA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
19 3 0.09
20 31 0.91
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
ATATTTTTTAAATTTTAAA
Found at i:25473230 original size:19 final size:20
Alignment explanation
Indices: 25473184--25473242 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 20
25473174 ATGCTACATC
25473184 AGTATTCTTATCCTGAATTTCA
1 AGTATT-TTAT-CTGAATTTCA
*
25473206 AG-ATTTTATCTGAATTT-T
1 AGTATTTTATCTGAATTTCA
*
25473224 AGTATTTTAATTTGAATTT
1 AGTATTTT-ATCTGAATTT
25473243 GATTTTTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 2 0.06
19 13 0.39
20 13 0.39
21 3 0.09
22 2 0.06
ACGTcount: A:0.29, C:0.08, G:0.10, T:0.53
Consensus pattern (20 bp):
AGTATTTTATCTGAATTTCA
Found at i:25475256 original size:19 final size:20
Alignment explanation
Indices: 25475218--25475257 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25475208 TAAAATAATT
**
25475218 TATAATACATCTACTTTTAA
1 TATAATACAAATACTTTTAA
25475238 TATAATACAAATA-TTTTAA
1 TATAATACAAATACTTTTAA
25475257 T
1 T
25475258 TATTTATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (20 bp):
TATAATACAAATACTTTTAA
Found at i:25475289 original size:18 final size:17
Alignment explanation
Indices: 25475245--25475285 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
25475235 TAATATAATA
*
25475245 CAAATATTTTAATTATT
1 CAAATATTTGAATTATT
*
25475262 TATAATATTTGAATTATT
1 CA-AATATTTGAATTATT
25475280 CAAATA
1 CAAATA
25475286 ATTTATATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (17 bp):
CAAATATTTGAATTATT
Found at i:25475370 original size:8 final size:8
Alignment explanation
Indices: 25475357--25475390 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
25475347 CTATTTAGAA
25475357 ATTATTTT
1 ATTATTTT
*
25475365 ATTATTAT
1 ATTATTTT
25475373 ATTATTTT
1 ATTATTTT
25475381 ATATATTTT
1 AT-TATTTT
25475390 A
1 A
25475391 ATTACGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
ATTATTTT
Found at i:25480703 original size:19 final size:20
Alignment explanation
Indices: 25480660--25480704 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
25480650 AACAGAGGAG
25480660 ACAAAA-AAATAAATAATAA
1 ACAAAATAAATAAATAATAA
25480679 AC-AAATAAATAAATAA-AA
1 ACAAAATAAATAAATAATAA
25480697 ACAAAATA
1 ACAAAATA
25480705 CAGGGAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.16
Consensus pattern (20 bp):
ACAAAATAAATAAATAATAA
Found at i:25486337 original size:32 final size:32
Alignment explanation
Indices: 25486299--25486363 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
25486289 AGTAAGGAAA
25486299 TTCGCAACCCTCCTTTACTACCCAAGTCTTAC
1 TTCGCAACCCTCCTTTACTACCCAAGTCTTAC
*
25486331 TTCGCAACCCTCCTTTACTACCCCAGTCTTAC
1 TTCGCAACCCTCCTTTACTACCCAAGTCTTAC
25486363 T
1 T
25486364 CTAAAGGCCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.20, C:0.42, G:0.06, T:0.32
Consensus pattern (32 bp):
TTCGCAACCCTCCTTTACTACCCAAGTCTTAC
Found at i:25488599 original size:22 final size:22
Alignment explanation
Indices: 25488574--25488617 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
25488564 CAATGCGTAA
25488574 CCCAATTTTGGCCCAAAAAGTT
1 CCCAATTTTGGCCCAAAAAGTT
25488596 CCCAATTTTGGCCCAAAAAGTT
1 CCCAATTTTGGCCCAAAAAGTT
25488618 TATCTAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (22 bp):
CCCAATTTTGGCCCAAAAAGTT
Found at i:25489548 original size:21 final size:21
Alignment explanation
Indices: 25489518--25489573 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
25489508 AATAGCGGTG
*
25489518 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
25489539 GCGGTAAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGTA
25489560 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
25489574 AACAATAGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.09, G:0.34, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:25489970 original size:143 final size:141
Alignment explanation
Indices: 25489704--25489971 Score: 312
Period size: 143 Copynumber: 1.9 Consensus size: 141
25489694 TTACTTTTTT
*
25489704 AAAATTATTAAAATATGTGAATTTATAAATTCATTTAATAAAATATTAAAATGTATCTTCCAATA
1 AAAATAATTAAAATATGTGAATTTATAAATTCATTTAATAAAATATTAAAATGTATCTTCCAATA
* ** * ** **
25489769 TTTTATTATAAATATATTAATGAATTATATAATCAATTTAAATTATTTATTAGATAAAATGATAA
66 TTTTATTATAAATAAAAAAATAAATTATATAATCAAAATAAATTATAAATT--ATAAAATGATAA
25489834 TTATTTTTAAATC
129 TTATTTTTAAATC
* *
25489847 AAAATAATTAAAAATATGTGAATTTATAAATTCATTTAAT-AAATATTAAAATGTATCTTTCGAT
1 AAAATAATT-AAAATATGTGAATTTATAAATTCATTTAATAAAATATTAAAATGTATCTTCCAAT
*
25489911 ATTTTACTATATAAAGTAAAAAAATTAACATT-TTTAAATCAAAAT-AATTA-AAATT-TAAAAT
65 ATTTTA-T-TATAAA-TAAAAAAA-TAA-ATTATAT-AATCAAAATAAATTATAAATTATAAAAT
25489972 AAATAATCTA
Statistics
Matches: 106, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
143 42 0.40
144 31 0.29
145 6 0.06
146 8 0.08
147 9 0.08
148 10 0.09
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (141 bp):
AAAATAATTAAAATATGTGAATTTATAAATTCATTTAATAAAATATTAAAATGTATCTTCCAATA
TTTTATTATAAATAAAAAAATAAATTATATAATCAAAATAAATTATAAATTATAAAATGATAATT
ATTTTTAAATC
Found at i:25491282 original size:26 final size:26
Alignment explanation
Indices: 25491235--25491285 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
25491225 TTGATATAGT
* *
25491235 TATATATTTATTATATATTATAAAAA
1 TATATATTTATTAAATAATATAAAAA
25491261 TATATAATTT-TTAAATAATATAAAA
1 TATAT-ATTTATTAAATAATATAAAA
25491286 TAAATTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TATATATTTATTAAATAATATAAAAA
Found at i:25492898 original size:44 final size:45
Alignment explanation
Indices: 25492801--25492906 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 45
25492791 AACAGAAATG
* * *
25492801 AGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGGCTTTGGAGACAAGAATA
*
25492847 AGCCATGTAAGTCCATATT-ATATATGGAC-TTGGAGACAAGAATA
1 AGCCATGTAAGTCCATATTAAAATATGG-CTTTGGAGACAAGAATA
**
25492891 ATTCATGTAAGTCCAT
1 AGCCATGTAAGTCCAT
25492907 GTCAAAGACA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
44 33 0.62
45 1 0.02
46 19 0.36
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
AGCCATGTAAGTCCATATTAAAATATGGCTTTGGAGACAAGAATA
Found at i:25500238 original size:46 final size:44
Alignment explanation
Indices: 25500179--25500293 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
25500169 ACAGGACAGA
* *
25500179 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
25500225 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
25500269 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
25500294 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:25500274 original size:44 final size:45
Alignment explanation
Indices: 25500179--25500312 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
25500169 ACAGGACAGA
* *
25500179 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
25500225 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
25500269 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
25500313 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:25504637 original size:34 final size:34
Alignment explanation
Indices: 25504594--25504664 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
25504584 AGTGACGTAG
*
25504594 GGCCAGTTCTGCATTGCTTTTCAAAAGCACTTCT
1 GGCCAGTTCTGCATTGCATTTCAAAAGCACTTCT
25504628 GGCCAGTTCTGCATTGCATTTCAAAAGCACTTCT
1 GGCCAGTTCTGCATTGCATTTCAAAAGCACTTCT
25504662 GGC
1 GGC
25504665 TCCAAAAGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (34 bp):
GGCCAGTTCTGCATTGCATTTCAAAAGCACTTCT
Found at i:25505196 original size:13 final size:13
Alignment explanation
Indices: 25505180--25505241 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
25505170 TTTAAATCAA
25505180 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
* *
25505193 ACTTCTCAAAAAT
1 ACTTTTCAAAAAC
* *
25505206 ATTTTTC--ACAC
1 ACTTTTCAAAAAC
25505217 TACTTTTCAAAAAC
1 -ACTTTTCAAAAAC
*
25505231 ACTTTTTAAAA
1 ACTTTTCAAAA
25505242 GCATTGCCAA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
11 2 0.05
12 6 0.16
13 26 0.70
14 3 0.08
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.37
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:25506318 original size:59 final size:58
Alignment explanation
Indices: 25506207--25506363 Score: 224
Period size: 59 Copynumber: 2.7 Consensus size: 58
25506197 AGGGGTTGGA
* * *
25506207 CTGGTACTTGTGGCTTGCGGTTGCTTTTAGAGCCCAAACAAATTCAATCCTTGACATG
1 CTGGTACTTGTGGCTTGCGGTTGCTTTTAGTGCCAAAACAAATTCAACCCTTGACATG
* * * *
25506265 CTGGTTCTTGTGGCTTGTGGTTTACTTTTAGTGCCAAAACAAATTTAACCCTTGACATG
1 CTGGTACTTGTGGCTTGCGG-TTGCTTTTAGTGCCAAAACAAATTCAACCCTTGACATG
**
25506324 CTGGTGGTTGTGGCTTGCGGTTGCTTTTAGTGCCAAAACA
1 CTGGTACTTGTGGCTTGCGGTTGCTTTTAGTGCCAAAACA
25506364 TAGCAACTTT
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
58 37 0.43
59 50 0.57
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (58 bp):
CTGGTACTTGTGGCTTGCGGTTGCTTTTAGTGCCAAAACAAATTCAACCCTTGACATG
Found at i:25507791 original size:780 final size:780
Alignment explanation
Indices: 25506285--25507850 Score: 3105
Period size: 780 Copynumber: 2.0 Consensus size: 780
25506275 TGGCTTGTGG
*
25506285 TTTACTTTTAGTGCCAAAACAAATTTAACCCTTGACATGCTGGTGGTTGTGGCTTGCGGTTGCTT
1 TTTACATTTAGTGCCAAAACAAATTTAACCCTTGACATGCTGGTGGTTGTGGCTTGCGGTTGCTT
25506350 TTAGTGCCAAAACATAGCAACTTTTCTGTAATTGTGTTCAACGTCACACATTTTGAAGCTTCATT
66 TTAGTGCCAAAACATAGCAACTTTTCTGTAATTGTGTTCAACGTCACACATTTTGAAGCTTCATT
25506415 TTCTTTGATTATTTCGAACCTCAGTTTCATATGCTTATTTCAGATGTATGGTTGCCAAGTTAATG
131 TTCTTTGATTATTTCGAACCTCAGTTTCATATGCTTATTTCAGATGTATGGTTGCCAAGTTAATG
25506480 GCTTTGTTTTCCTTGTACAAGATCCAGCATTGAGTTGTTATAGTTGATTCCAATCATACATGCAA
196 GCTTTGTTTTCCTTGTACAAGATCCAGCATTGAGTTGTTATAGTTGATTCCAATCATACATGCAA
25506545 TTAATCCTGGTTTTTAACAGAGCAGTGGTTGTCTTGGATGCTTTCAGTCATCTAAGGGTCTAACT
261 TTAATCCTGGTTTTTAACAGAGCAGTGGTTGTCTTGGATGCTTTCAGTCATCTAAGGGTCTAACT
25506610 ACTCAACACTGGAAATTGAAGAGATCTAGCTTTTCTGAAGATTTCTGGAGTAGCAGTGCATGTGA
326 ACTCAACACTGGAAATTGAAGAGATCTAGCTTTTCTGAAGATTTCTGGAGTAGCAGTGCATGTGA
*
25506675 AATCGAAAATAGTCCTCTCAAGCCCCAAAGAAGCATTTCATCAATCAGCATATCAAGTCATTCCC
391 AATCGAAAATAGTCCACTCAAGCCCCAAAGAAGCATTTCATCAATCAGCATATCAAGTCATTCCC
25506740 TTGACCTTTCTGGCAGCACTAGCTTTCCTTCTGAATTTGTAAATCATGGCAAGTTCATATGTCTT
456 TTGACCTTTCTGGCAGCACTAGCTTTCCTTCTGAATTTGTAAATCATGGCAAGTTCATATGTCTT
25506805 AGACAATCAACCTCTTTTTTTGGTAATCATATCAAAGTAAAATTTCTCAATGGAATTTTTGTATT
521 AGACAATCAACCTCTTTTTTTGGTAATCATATCAAAGTAAAATTTCTCAATGGAATTTTTGTATT
25506870 TGCAGGCCTTCTTCTTTGGAACCAAACAAGGCAACAATGGGTTGGAAATAAAAAGTCTGAGAAGT
586 TGCAGGCCTTCTTCTTTGGAACCAAACAAGGCAACAATGGGTTGGAAATAAAAAGTCTGAGAAGT
25506935 GGACACAACCTCGAGAATCCATGTTAAGGTTAGAAATTTTCATTGTTTTTCATAATTTTAAAGTA
651 GGACACAACCTCGAGAATCCATGTTAAGGTTAGAAATTTTCATTGTTTTTCATAATTTTAAAGTA
25507000 GAGAACAGATTAATTAGGATAAAGAGAATGCAAAAATCCTCTAGAATACCCTGATTGACAAACTT
716 GAGAACAGATTAATTAGGATAAAGAGAATGCAAAAATCCTCTAGAATACCCTGATTGACAAACTT
25507065 TTTACATTTAGTGCCAAAACAAATTTAACCCTTGACATGCTGGTGGTTGTGGCTTGCGGTTGCTT
1 TTTACATTTAGTGCCAAAACAAATTTAACCCTTGACATGCTGGTGGTTGTGGCTTGCGGTTGCTT
25507130 TTAGTGCCAAAACATAGCAACTTTTCTGTAATTGTGTTCAACGTCACACATTTTGAAGCTTCATT
66 TTAGTGCCAAAACATAGCAACTTTTCTGTAATTGTGTTCAACGTCACACATTTTGAAGCTTCATT
25507195 TTCTTTGATTATTTCGAACCTCAGTTTCATATGCTTATTTCAGATGTATGGTTGCCAAGTTAATG
131 TTCTTTGATTATTTCGAACCTCAGTTTCATATGCTTATTTCAGATGTATGGTTGCCAAGTTAATG
*
25507260 GCTTTGTTTTCCTTGTACAAGATCCAGCATTGAGTTGTTATAGTTGATTCCAATCATACATGCGA
196 GCTTTGTTTTCCTTGTACAAGATCCAGCATTGAGTTGTTATAGTTGATTCCAATCATACATGCAA
25507325 TTAATCCTGGTTTTTAACAGAGCAGTGGTTGTCTTGGATGCTTTCAGTCATCTAAGGGTCTAACT
261 TTAATCCTGGTTTTTAACAGAGCAGTGGTTGTCTTGGATGCTTTCAGTCATCTAAGGGTCTAACT
25507390 ACTCAACACTGGAAATTGAAGAGATCTAGCTTTTCTGAAGATTTCTGGAGTAGCAGTGCATGTGA
326 ACTCAACACTGGAAATTGAAGAGATCTAGCTTTTCTGAAGATTTCTGGAGTAGCAGTGCATGTGA
25507455 AATCGAAAATAGTCCACTCAAGCCCCAAAGAAGCATTTCATCAATCAGCATATCAAGTCATTCCC
391 AATCGAAAATAGTCCACTCAAGCCCCAAAGAAGCATTTCATCAATCAGCATATCAAGTCATTCCC
25507520 TTGACCTTTCTGGCAGCACTAGCTTTCCTTCTGAATTTGTAAATCATGGCAAGTTCATATGTCTT
456 TTGACCTTTCTGGCAGCACTAGCTTTCCTTCTGAATTTGTAAATCATGGCAAGTTCATATGTCTT
25507585 AGACAATCAACCTCTTTTTTTGGTAATCATATCAAAGTAAAATTTCTCAATGGAATTTTTGTATT
521 AGACAATCAACCTCTTTTTTTGGTAATCATATCAAAGTAAAATTTCTCAATGGAATTTTTGTATT
25507650 TGCAGGCCTTCTTCTTTGGAACCAAACAAGGCAACAATGGGTTGGAAATAAAAAGTCTGAGAAGT
586 TGCAGGCCTTCTTCTTTGGAACCAAACAAGGCAACAATGGGTTGGAAATAAAAAGTCTGAGAAGT
25507715 GGACACAACCTCGAGAATCCATGTTAAGGTTAGAAATTTTCATTGTTTTTCATAATTTTAAAGTA
651 GGACACAACCTCGAGAATCCATGTTAAGGTTAGAAATTTTCATTGTTTTTCATAATTTTAAAGTA
25507780 GAGAACAGATTAATTAGGATAAAGAGAATGCAAAAATCCTCTAGAATACCCTGATTGACAAACTT
716 GAGAACAGATTAATTAGGATAAAGAGAATGCAAAAATCCTCTAGAATACCCTGATTGACAAACTT
25507845 TTTACA
1 TTTACA
25507851 CGATCTTGTT
Statistics
Matches: 783, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
780 783 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (780 bp):
TTTACATTTAGTGCCAAAACAAATTTAACCCTTGACATGCTGGTGGTTGTGGCTTGCGGTTGCTT
TTAGTGCCAAAACATAGCAACTTTTCTGTAATTGTGTTCAACGTCACACATTTTGAAGCTTCATT
TTCTTTGATTATTTCGAACCTCAGTTTCATATGCTTATTTCAGATGTATGGTTGCCAAGTTAATG
GCTTTGTTTTCCTTGTACAAGATCCAGCATTGAGTTGTTATAGTTGATTCCAATCATACATGCAA
TTAATCCTGGTTTTTAACAGAGCAGTGGTTGTCTTGGATGCTTTCAGTCATCTAAGGGTCTAACT
ACTCAACACTGGAAATTGAAGAGATCTAGCTTTTCTGAAGATTTCTGGAGTAGCAGTGCATGTGA
AATCGAAAATAGTCCACTCAAGCCCCAAAGAAGCATTTCATCAATCAGCATATCAAGTCATTCCC
TTGACCTTTCTGGCAGCACTAGCTTTCCTTCTGAATTTGTAAATCATGGCAAGTTCATATGTCTT
AGACAATCAACCTCTTTTTTTGGTAATCATATCAAAGTAAAATTTCTCAATGGAATTTTTGTATT
TGCAGGCCTTCTTCTTTGGAACCAAACAAGGCAACAATGGGTTGGAAATAAAAAGTCTGAGAAGT
GGACACAACCTCGAGAATCCATGTTAAGGTTAGAAATTTTCATTGTTTTTCATAATTTTAAAGTA
GAGAACAGATTAATTAGGATAAAGAGAATGCAAAAATCCTCTAGAATACCCTGATTGACAAACTT
Found at i:25509715 original size:12 final size:13
Alignment explanation
Indices: 25509685--25509725 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
25509675 TTAAAATCTA
25509685 TAATTAAAAATAT
1 TAATTAAAAATAT
*
25509698 TTATTAAAAAT-T
1 TAATTAAAAATAT
25509710 TAATT--AAATAT
1 TAATTAAAAATAT
25509721 TAATT
1 TAATT
25509726 TAATAACTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 4 0.16
11 6 0.24
12 5 0.20
13 10 0.40
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTAAAAATAT
Found at i:25520882 original size:10 final size:10
Alignment explanation
Indices: 25520867--25520894 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
25520857 TTAGGGGTTT
25520867 AATTTTTTTA
1 AATTTTTTTA
25520877 AATTTTTTTA
1 AATTTTTTTA
25520887 AATTTTTT
1 AATTTTTT
25520895 ATGCATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
AATTTTTTTA
Found at i:25524619 original size:11 final size:11
Alignment explanation
Indices: 25524603--25524628 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
25524593 GTTGTGTTCA
25524603 TTTTATTTTAT
1 TTTTATTTTAT
25524614 TTTTATTTTAT
1 TTTTATTTTAT
25524625 TTTT
1 TTTT
25524629 TTCTAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:25525348 original size:14 final size:14
Alignment explanation
Indices: 25525331--25525357 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25525321 AAAGAAGGTG
25525331 AGAATCATAGTTCA
1 AGAATCATAGTTCA
25525345 AGAATCATAGTTC
1 AGAATCATAGTTC
25525358 CCAAATGCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (14 bp):
AGAATCATAGTTCA
Found at i:25529826 original size:20 final size:21
Alignment explanation
Indices: 25529787--25529829 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
25529777 ATTTCCCTAT
25529787 AATTTTATAATATTTCTAATA
1 AATTTTATAATATTTCTAATA
* *
25529808 AATTTTA-AATTTTTTTAATA
1 AATTTTATAATATTTCTAATA
25529828 AA
1 AA
25529830 AATTGCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
AATTTTATAATATTTCTAATA
Found at i:25530226 original size:20 final size:20
Alignment explanation
Indices: 25530184--25530225 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
25530174 ATCAATAAAA
25530184 TTTATAATTTTCCTATATTT
1 TTTATAATTTTCCTATATTT
*
25530204 TTTATAATTTTTCTA-ATTT
1 TTTATAATTTTCCTATATTT
25530223 TTT
1 TTT
25530226 TTTAAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTATAATTTTCCTATATTT
Found at i:25537977 original size:5 final size:6
Alignment explanation
Indices: 25537961--25537986 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
25537951 TCTACATCTT
25537961 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
25537987 GAATATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:25538716 original size:17 final size:18
Alignment explanation
Indices: 25538685--25538731 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
25538675 TTATTTATAT
* *
25538685 AAATAAATGAGATA-TTA
1 AAATAAATAATATATTTA
25538702 AAATAAATAATATATTTA
1 AAATAAATAATATATTTA
*
25538720 ACAT-AATAATAT
1 AAATAAATAATAT
25538732 TGTTTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 20 0.77
18 6 0.23
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (18 bp):
AAATAAATAATATATTTA
Found at i:25543903 original size:19 final size:21
Alignment explanation
Indices: 25543881--25543922 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
25543871 AACAGTATAG
25543881 ATAATTA-TATATAAT-TAAT
1 ATAATTATTATATAATATAAT
*
25543900 ATAATTATTTTATAATATAAT
1 ATAATTATTATATAATATAAT
25543921 AT
1 AT
25543923 TCAGACCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 7 0.35
21 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAATTATTATATAATATAAT
Found at i:25544628 original size:29 final size:29
Alignment explanation
Indices: 25544591--25544655 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
25544581 AAATTTTAAA
* *
25544591 TTAATAATAAT-AAAATTATATTTTAATTTT
1 TTAA-AATAATAAAAATT-TAATTTAATATT
25544621 TTAAAATAATAAAAATTTAATTTAATATT
1 TTAAAATAATAAAAATTTAATTTAATATT
25544650 TTAAAA
1 TTAAAA
25544656 ATTATAACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 22 0.69
30 10 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
TTAAAATAATAAAAATTTAATTTAATATT
Found at i:25544657 original size:30 final size:30
Alignment explanation
Indices: 25544591--25544670 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
25544581 AAATTTTAAA
* *
25544591 TTAATAATAAT-AAAATTATATTTTAATTT
1 TTAAAAATAATAAAAATTATAATTTAATTT
*
25544620 TTTAAAATAATAAAAATT-TAATTTAATATT
1 TTAAAAATAATAAAAATTATAATTTAAT-TT
* *
25544650 TTAAAAATTATAACAA-TATAA
1 TTAAAAATAATAAAAATTATAA
25544671 ATTATTAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
29 18 0.43
30 24 0.57
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (30 bp):
TTAAAAATAATAAAAATTATAATTTAATTT
Found at i:25550368 original size:18 final size:18
Alignment explanation
Indices: 25550345--25550398 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
25550335 TGGCTGAAGT
*
25550345 TCTTCTTCCTCCTCCTCA
1 TCTTCTTCCTCTTCCTCA
* *
25550363 TCTTCTTCCTCTTCTTCC
1 TCTTCTTCCTCTTCCTCA
*
25550381 TCCTCTTCCTCTTCCTCA
1 TCTTCTTCCTCTTCCTCA
25550399 CCCTCATCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.04, C:0.48, G:0.00, T:0.48
Consensus pattern (18 bp):
TCTTCTTCCTCTTCCTCA
Found at i:25550375 original size:6 final size:6
Alignment explanation
Indices: 25550348--25550397 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
25550338 CTGAAGTTCT
* * * * *
25550348 TCTTCC TCCTCC TCATCT TCTTCC TCTTCT TCCTCC TCTTCC TCTTCC
1 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC
25550396 TC
1 TC
25550398 ACCCTCATCA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.02, C:0.50, G:0.00, T:0.48
Consensus pattern (6 bp):
TCTTCC
Found at i:25550377 original size:9 final size:9
Alignment explanation
Indices: 25550345--25550394 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
25550335 TGGCTGAAGT
25550345 TCTTCTTCC
1 TCTTCTTCC
* * *
25550354 TCCTCCTCA
1 TCTTCTTCC
25550363 TCTTCTTCC
1 TCTTCTTCC
25550372 TCTTCTTCC
1 TCTTCTTCC
*
25550381 TCCTCTTCC
1 TCTTCTTCC
25550390 TCTTC
1 TCTTC
25550395 CTCACCCTCA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.02, C:0.48, G:0.00, T:0.50
Consensus pattern (9 bp):
TCTTCTTCC
Found at i:25556729 original size:13 final size:13
Alignment explanation
Indices: 25556711--25556740 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
25556701 TTTTAGGTTA
25556711 AATTATACAATTT
1 AATTATACAATTT
25556724 AATTATACAATTT
1 AATTATACAATTT
25556737 AATT
1 AATT
25556741 TAACCTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTATACAATTT
Found at i:25560326 original size:19 final size:19
Alignment explanation
Indices: 25560302--25560339 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
25560292 ATTTCTTCTA
25560302 CATGGTCTTTTGATCCTTC
1 CATGGTCTTTTGATCCTTC
25560321 CATGGTCTTTTGATCCTTC
1 CATGGTCTTTTGATCCTTC
25560340 AACTAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.16, T:0.47
Consensus pattern (19 bp):
CATGGTCTTTTGATCCTTC
Found at i:25564426 original size:13 final size:13
Alignment explanation
Indices: 25564408--25564432 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25564398 AAATCTGTTT
25564408 TGAGTGCTGCTCA
1 TGAGTGCTGCTCA
25564421 TGAGTGCTGCTC
1 TGAGTGCTGCTC
25564433 TTGTTAAGGC
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:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (13 bp):
TGAGTGCTGCTCA
Found at i:25565036 original size:157 final size:157
Alignment explanation
Indices: 25564857--25565166 Score: 566
Period size: 157 Copynumber: 2.0 Consensus size: 157
25564847 ATAAGAATAT
* *
25564857 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATGTTTTTAATAATAATTATGTTA
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
* *
25564922 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
25564987 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
*
25565014 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
25565079 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
25565144 TAATCATTTACCAAAACAAATTT
131 TAATAATTTACCAAAACAAATTT
25565167 ATGCTAAGAG
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 147 1.00
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTA
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:25565054 original size:18 final size:17
Alignment explanation
Indices: 25565026--25565060 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25565016 ATTATTAAGA
*
25565026 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
25565043 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
25565061 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:25565317 original size:16 final size:16
Alignment explanation
Indices: 25565296--25565347 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
25565286 GATTTGCTAT
25565296 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
25565312 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
25565328 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
25565344 TACA
1 TACA
25565348 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:25567744 original size:132 final size:132
Alignment explanation
Indices: 25567095--25567747 Score: 588
Period size: 132 Copynumber: 5.0 Consensus size: 132
25567085 TTCACAATTA
* * * ** ** * *
25567095 TTTAAAATGAAGGCGATGTTCGATACTTGGTGATTCGTGGAATCGTGCCCTAAT-GTGCTGGGTC
1 TTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCT-ATCGTGCTGGGTT
* * **
25567159 GCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGTCTTT-TAAAA
65 GCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTCGGAATTTCACTCATGT-TTTCTAAAA
*
25567223 ATTC
129 ACTC
* * * * * * *
25567227 TTTAAAACGAAGGCAAGGTTTAATATTTGGTAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTG
1 TTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTG
* ** * *
25567292 CAATTTCTCGTTT-TCTCAAAATAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAA
66 CAATTTCTCGTTTGT-TCAAAATAATCGAATATCCCTTCGGAATTTCACTCATGTTTTCTAAAAA
25567356 -TCC
130 CT-C
** * * * * *
25567359 TTTAAAACGAAGGCAATACTCAGTGTTTGACAATT-TGGGAATCATGTCCTATCGTGCTGGGTTG
1 TTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTG
** * * * * *
25567423 TGATTTCTCGTTTGTTCAAAACAATTGAATATTCCTTTAGG-TTTTCACTCATGTTTT-TAAGAA
66 CAATTTCTCGTTTGTTCAAAATAATCGAATA-TCCCTTCGGAATTTCACTCATGTTTTCT-A-AA
*
25567486 AACCC
128 AACTC
* *
25567491 TTTAAAACGAAGGCGATGTTCAATGTTTGGCAATTC-GAGAATCGTGCCCTATCGTGCTGGGTTG
1 TTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTG
** * * * ** *
25567555 CGCTTTTTCATTTGTTCGAAACGATCGAAGATCCCTTCGGAATTTCACTCACT-TTTTCTAAAAA
66 CAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTCGGAATTTCACTCA-TGTTTTCTAAAAA
25567619 CTC
130 CTC
* * * * * *
25567622 TTTAAAACGAAAGAAATGTTCGATGTTAT-GCAATTCGGGGAATAGTACCCTATCGTGATGGGTT
1 TTTAAAACGAAGGCAATGTTCAATGTT-TGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTT
* * * * * *
25567686 GCAATCTCCCGTTTGTTCAAAATAATCGAATATCTCTTCGGAAGTTCACTCGTATTTTCTAA
65 GCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTCGGAATTTCACTCATGTTTTCTAA
25567748 GGTGAGGCAA
Statistics
Matches: 421, Mismatches: 84, Indels: 32
0.78 0.16 0.06
Matches are distributed among these distances:
130 1 0.00
131 109 0.26
132 309 0.73
133 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (132 bp):
TTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTG
CAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTCGGAATTTCACTCATGTTTTCTAAAAAC
TC
Found at i:25571072 original size:20 final size:20
Alignment explanation
Indices: 25571036--25571076 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
25571026 TATCACAAAA
*
25571036 TTTAAAATAGCATATATAAG
1 TTTAAAATAACATATATAAG
25571056 TTTAAAATAAACAATATATAA
1 TTTAAAAT-AAC-ATATATAA
25571077 AAAACTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 2 0.11
22 8 0.44
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (20 bp):
TTTAAAATAACATATATAAG
Found at i:25571159 original size:9 final size:10
Alignment explanation
Indices: 25571112--25571160 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
25571102 AATAATTTGT
25571112 AATGATATAA
1 AATGATATAA
25571122 AAT-A-A-AA
1 AATGATATAA
* *
25571129 CATTATATAA
1 AATGATATAA
25571139 AATGATATAA
1 AATGATATAA
25571149 AATGA-ATAA
1 AATGATATAA
25571158 AAT
1 AAT
25571161 ATAAGATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
7 4 0.12
8 2 0.06
9 9 0.27
10 18 0.55
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (10 bp):
AATGATATAA
Found at i:25571450 original size:21 final size:21
Alignment explanation
Indices: 25571426--25571474 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
25571416 TAGAAGTAAC
25571426 AATAAAATAATAATAATAATA
1 AATAAAATAATAATAATAATA
* ** *
25571447 AATAATACCATAGTAATAATA
1 AATAAAATAATAATAATAATA
25571468 AA-AAAAT
1 AATAAAAT
25571475 GTCCAATTAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (21 bp):
AATAAAATAATAATAATAATA
Found at i:25571905 original size:7 final size:7
Alignment explanation
Indices: 25571888--25571924 Score: 65
Period size: 7 Copynumber: 5.1 Consensus size: 7
25571878 AATGACGCCT
25571888 CCTTCTCC
1 CCTT-TCC
25571896 CCTTTCC
1 CCTTTCC
25571903 CCTTTCC
1 CCTTTCC
25571910 CCTTTCC
1 CCTTTCC
25571917 CCTTTCC
1 CCTTTCC
25571924 C
1 C
25571925 TTGGTTACGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 25 0.86
8 4 0.14
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (7 bp):
CCTTTCC
Found at i:25575276 original size:20 final size:20
Alignment explanation
Indices: 25575240--25575282 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
25575230 CCAAACACCA
*
25575240 AAAAAGTAAATCATTTCCGG
1 AAAAAGTAAATCATTTCCAG
25575260 AAAAA-TAAATCATTTTCCAG
1 AAAAAGTAAATCA-TTTCCAG
25575280 AAA
1 AAA
25575283 TTATTTTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (20 bp):
AAAAAGTAAATCATTTCCAG
Found at i:25579691 original size:12 final size:12
Alignment explanation
Indices: 25579674--25579700 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25579664 TTAAATTACC
25579674 TGTTTGAGTTCA
1 TGTTTGAGTTCA
25579686 TGTTTGAGTTCA
1 TGTTTGAGTTCA
25579698 TGT
1 TGT
25579701 CTCACACGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.07, G:0.26, T:0.52
Consensus pattern (12 bp):
TGTTTGAGTTCA
Found at i:25582052 original size:20 final size:20
Alignment explanation
Indices: 25582016--25582054 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25582006 TACAATAATA
*
25582016 TTTAATTAAATATATAAAAT
1 TTTAATTAAATAAATAAAAT
25582036 TTTAA-TAAATTAAATAAAA
1 TTTAATTAAA-TAAATAAAA
25582055 ACATCATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTAATTAAATAAATAAAAT
Found at i:25582105 original size:15 final size:15
Alignment explanation
Indices: 25582077--25582118 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25582067 TATTTGTTCA
*
25582077 AATTAATCTT-ATTT
1 AATTAATATTAATTT
25582091 AATTTAAT-TTAATTT
1 AA-TTAATATTAATTT
25582106 AATTAATATTAAT
1 AATTAATATTAAT
25582119 ATTTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTAATATTAATTT
Found at i:25583286 original size:14 final size:15
Alignment explanation
Indices: 25583260--25583293 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
25583250 AGGTTATTTA
25583260 TTTAATAAGAATAAT
1 TTTAATAAGAATAAT
25583275 TTTAATAA-AATAAT
1 TTTAATAAGAATAAT
*
25583289 ATTAA
1 TTTAA
25583294 ATTTTCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
TTTAATAAGAATAAT
Found at i:25589456 original size:8 final size:8
Alignment explanation
Indices: 25589437--25589466 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
25589427 GGAAAGAAGA
25589437 TTTCTA-T
1 TTTCTATT
25589444 TTTCTATT
1 TTTCTATT
25589452 TTTCTATT
1 TTTCTATT
25589460 TTTCTAT
1 TTTCTAT
25589467 CCCTTTAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTCTATT
Found at i:25605112 original size:4 final size:4
Alignment explanation
Indices: 25605103--25605132 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
25605093 TATTGAAACC
25605103 CAAT CAAT CAAT CAAT CAAT CAAT CCAAT C
1 CAAT CAAT CAAT CAAT CAAT CAAT -CAAT C
25605133 TCCTCTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (4 bp):
CAAT
Done.