Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 125 of 130
Found at i:25255570 original size:66 final size:66
Alignment explanation
Indices: 25255410--25255580 Score: 172
Period size: 66 Copynumber: 2.6 Consensus size: 66
25255400 CTCAATTCAG
* * * *
25255410 GTCA-TTTATTTTTCTAACTTGC-AGTTCAGTTTTGGTCACTTATTTTTTACTTCAACTCAGTCC
1 GTCATTTTATTTTTCTAACTTGCGA-TTCAATTTCGATCACTTATTTTTTACTTCAACTAAGTCC
25255473 AA
65 AA
* * * * *
25255475 GTCATTTTATTTTTTTGACCTGCGGTTCAATTTCGATCA-TTCATTTTTTATCTT-GACTAAGTC
1 GTCATTTTATTTTTCTAACTTGCGATTCAATTTCGATCACTT-ATTTTTTA-CTTCAACTAAGTC
*
25255538 TAA
64 CAA
* *
25255541 GTTATTTTATTTTTCTAACTTGCGATTCAATCTCG-TCACT
1 GTCATTTTATTTTTCTAACTTGCGATTCAATTTCGATCACT
25255581 CATCCTCGAT
Statistics
Matches: 85, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
65 9 0.11
66 73 0.86
67 3 0.04
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (66 bp):
GTCATTTTATTTTTCTAACTTGCGATTCAATTTCGATCACTTATTTTTTACTTCAACTAAGTCCA
A
Found at i:25256023 original size:19 final size:19
Alignment explanation
Indices: 25255980--25256024 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
25255970 TTGTTTGTCT
*
25255980 TATTTATGTATTTATCTTT
1 TATTTATGTATTTATCTTC
*
25255999 TTTTTATGT-TTTAGTCTTC
1 TATTTATGTATTTA-TCTTC
25256018 TATTTAT
1 TATTTAT
25256025 TTGGTTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (19 bp):
TATTTATGTATTTATCTTC
Found at i:25257176 original size:100 final size:99
Alignment explanation
Indices: 25256807--25257178 Score: 467
Period size: 100 Copynumber: 3.7 Consensus size: 99
25256797 ATTTTTTTTA
* * * * *
25256807 AATAATAAAATTTCAATTCTACTAAACTATTGGAGGATTTAAATTTTGAATTAAATCTTATCAAA
1 AATAATAAAATTTTAATTCTACCAAACTATTGGAGGATTTAAATATTGAATTAAGTCTTACCAAA
* * *
25256872 GTTTTAAAGGACTTAATGAATTTTTAAAAATAAT
66 CTATTAGAGGACTTAATGAATTTTTAAAAATAAT
* * * * *
25256906 AATAATAAAATTTTTAATTTTACTAAATTATTGAAGGATTTAAATATTGAATTAAGTCTTATCAA
1 AATAATAAAA-TTTTAATTCTACCAAACTATTGGAGGATTTAAATATTGAATTAAGTCTTACCAA
* * * *
25256971 ACTATTTGATGATTTTAATGAATTTTTTAATAATAAT
65 ACTATTAGAGGA-CTTAATGAA-TTTTTAAAAATAAT
* * * * *
25257008 AATAATAATAATTTTAATCCTACCAAATTATTGGAGGATTTAAATCTTGAATTAATTTTTACCAA
1 AATAATAA-AATTTTAATTCTACCAAACTATTGGAGGATTTAAATATTGAATTAAGTCTTACCAA
25257073 ACTATTAGAGGACTTAATGAATTTTTAAAAATAAT
65 ACTATTAGAGGACTTAATGAATTTTTAAAAATAAT
* *
25257108 AATAATAAAATTTTTAATTCTACCAAACTATTAGAGAATTTAAATATTGAATT-AGATCTTACCA
1 AATAATAAAA-TTTTAATTCTACCAAACTATTGGAGGATTTAAATATTGAATTAAG-TCTTACCA
25257172 AACTATT
64 AACTATT
25257179 CGGAGATCTG
Statistics
Matches: 235, Mismatches: 32, Indels: 11
0.85 0.12 0.04
Matches are distributed among these distances:
99 13 0.06
100 127 0.54
101 16 0.07
102 77 0.33
103 2 0.01
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (99 bp):
AATAATAAAATTTTAATTCTACCAAACTATTGGAGGATTTAAATATTGAATTAAGTCTTACCAAA
CTATTAGAGGACTTAATGAATTTTTAAAAATAAT
Found at i:25258424 original size:44 final size:45
Alignment explanation
Indices: 25258326--25258424 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 45
25258316 CACAACCCAT
* * *
25258326 ATATATAAAATCCAACATTATAATGCATGATTAATTTTACAATAA
1 ATATATAAAATCCAACATTATAATACATCATTAATCTTACAATAA
* * * * * *
25258371 AAACA-AAAATCTAACATTATAATATATCATTGATCTTA-TATAA
1 ATATATAAAATCCAACATTATAATACATCATTAATCTTACAATAA
25258414 ATATATAAAAT
1 ATATATAAAAT
25258425 TATAATATTA
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
43 7 0.17
44 32 0.76
45 3 0.07
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.35
Consensus pattern (45 bp):
ATATATAAAATCCAACATTATAATACATCATTAATCTTACAATAA
Found at i:25266992 original size:236 final size:236
Alignment explanation
Indices: 25266579--25267055 Score: 945
Period size: 236 Copynumber: 2.0 Consensus size: 236
25266569 CGGTGCAAAT
25266579 CACTTGAAACTGAGGTATGATCCCTTCTCCAACTAGCTTAAGTAAATGCAAGGAATAATGAGAAT
1 CACTTGAAACTGAGGTATGATCCCTTCTCCAACTAGCTTAAGTAAATGCAAGGAATAATGAGAAT
25266644 ATAAATGACATTACATCAGTTTGTGATGTACTTGATAGTTTGCTTGTATTATTGCTTTGTGGTTA
66 ATAAATGACATTACATCAGTTTGTGATGTACTTGATAGTTTGCTTGTATTATTGCTTTGTGGTTA
25266709 GCATGGAGACATGCTTTAGTAAAGTGTGAGAGTAATTGCCATTTTTATCTTGACATCAATGCCTT
131 GCATGGAGACATGCTTTAGTAAAGTGTGAGAGTAATTGCCATTTTTATCTTGACATCAATGCCTT
25266774 TATGAATGTTATCGATAAAACTTATTTTTACTGGGATGTTA
196 TATGAATGTTATCGATAAAACTTATTTTTACTGGGATGTTA
*
25266815 CACTTGAAACTGAGGTATGATCCCTTCTCCAACTAGCTTAAGTAAATGCAAGGAATAATGCGAAT
1 CACTTGAAACTGAGGTATGATCCCTTCTCCAACTAGCTTAAGTAAATGCAAGGAATAATGAGAAT
25266880 ATAAATGACATTACATCAGTTTGTGATGTACTTGATAGTTTGCTTGTATTATTGCTTTGTGGTTA
66 ATAAATGACATTACATCAGTTTGTGATGTACTTGATAGTTTGCTTGTATTATTGCTTTGTGGTTA
25266945 GCATGGAGACATGCTTTAGTAAAGTGTGAGAGTAATTGCCATTTTTATCTTGACATCAATGCCTT
131 GCATGGAGACATGCTTTAGTAAAGTGTGAGAGTAATTGCCATTTTTATCTTGACATCAATGCCTT
25267010 TATGAATGTTATCGATAAAACTTATTTTTACTGGGATGTTA
196 TATGAATGTTATCGATAAAACTTATTTTTACTGGGATGTTA
25267051 CACTT
1 CACTT
25267056 ATTTTGATTT
Statistics
Matches: 240, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
236 240 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (236 bp):
CACTTGAAACTGAGGTATGATCCCTTCTCCAACTAGCTTAAGTAAATGCAAGGAATAATGAGAAT
ATAAATGACATTACATCAGTTTGTGATGTACTTGATAGTTTGCTTGTATTATTGCTTTGTGGTTA
GCATGGAGACATGCTTTAGTAAAGTGTGAGAGTAATTGCCATTTTTATCTTGACATCAATGCCTT
TATGAATGTTATCGATAAAACTTATTTTTACTGGGATGTTA
Found at i:25271675 original size:57 final size:57
Alignment explanation
Indices: 25271613--25271755 Score: 196
Period size: 57 Copynumber: 2.5 Consensus size: 57
25271603 TTATCGACAG
* * * * * *
25271613 GTCTAGTGAATTGTTAAGAAATTATCTTTCATTGGTTTTAAATAAGCTTATTGATGC
1 GTCTAGTGAATTCTTAAAAAATTATCTTTCATTAGTCTTAAATAAGCTTATTAACGC
*
25271670 GTCTAGTGAATTCTTAAAAAATTATCTTTCATTAGTCTTAAATAAGCTTATTAACGG
1 GTCTAGTGAATTCTTAAAAAATTATCTTTCATTAGTCTTAAATAAGCTTATTAACGC
** *
25271727 GTCTAGCAAATTTTTAAAAAATTATCTTT
1 GTCTAGTGAATTCTTAAAAAATTATCTTT
25271756 TCACAGTTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 76 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (57 bp):
GTCTAGTGAATTCTTAAAAAATTATCTTTCATTAGTCTTAAATAAGCTTATTAACGC
Found at i:25275365 original size:2 final size:2
Alignment explanation
Indices: 25275360--25275392 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
25275350 ATATATATAT
*
25275360 AG AG AG AG AG AA AG AG AG AG AG -G AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
25275393 TTAAGATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:25276694 original size:27 final size:27
Alignment explanation
Indices: 25276657--25276723 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
25276647 TTTTGATTTG
*
25276657 AATTTAAATAATTATCTAAACATATTA
1 AATTTAAATAATTATCCAAACATATTA
*
25276684 AATTTACATAATTATCCAAACATATTA
1 AATTTAAATAATTATCCAAACATATTA
25276711 AATTTAAATAATT
1 AATTTAAATAATT
25276724 TATTAAATAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (27 bp):
AATTTAAATAATTATCCAAACATATTA
Found at i:25276844 original size:2 final size:2
Alignment explanation
Indices: 25276832--25276873 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
25276822 CTTTATATCC
25276832 TA TA CTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25276874 TAGATCACCA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25277166 original size:2 final size:2
Alignment explanation
Indices: 25277159--25277183 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25277149 AATTGCACTA
25277159 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
25277184 GGTCAAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25277403 original size:13 final size:13
Alignment explanation
Indices: 25277356--25277405 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
25277346 ATAAAATAAG
25277356 ATAATATTAT-TT
1 ATAATATTATGTT
*
25277368 ATAATATTATCTT
1 ATAATATTATGTT
**
25277381 ATCTTATTATGTT
1 ATAATATTATGTT
*
25277394 ATAATCTTATGT
1 ATAATATTATGT
25277406 ATCAAATAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
12 10 0.32
13 21 0.68
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (13 bp):
ATAATATTATGTT
Found at i:25292039 original size:7 final size:7
Alignment explanation
Indices: 25292016--25292054 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
25292006 TTTTATAAAA
25292016 TAAATTT
1 TAAATTT
25292023 TAATAATTT
1 T-A-AATTT
25292032 TAAATTT
1 TAAATTT
*
25292039 TAAAATT
1 TAAATTT
25292046 TAAATTT
1 TAAATTT
25292053 TA
1 TA
25292055 GTGCCCGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 20 0.71
8 2 0.07
9 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TAAATTT
Found at i:25292049 original size:14 final size:16
Alignment explanation
Indices: 25292016--25292054 Score: 64
Period size: 14 Copynumber: 2.6 Consensus size: 16
25292006 TTTTATAAAA
25292016 TAAATTTTAATAATTT
1 TAAATTTTAATAATTT
25292032 TAAATTTTAA-AA-TT
1 TAAATTTTAATAATTT
25292046 TAAATTTTA
1 TAAATTTTA
25292055 GTGCCCGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 11 0.48
15 2 0.09
16 10 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TAAATTTTAATAATTT
Found at i:25294406 original size:2 final size:2
Alignment explanation
Indices: 25294366--25294390 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25294356 ATGGAAAAAG
25294366 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
25294391 TTAGTTTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25298603 original size:44 final size:44
Alignment explanation
Indices: 25298540--25298625 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
25298530 AAATAAAATA
25298540 CAAGAATTATCAAATTTGTCATGTAGCATTAATTTTAATGTTCT
1 CAAGAATTATCAAATTTGTCATGTAGCATTAATTTTAATGTTCT
*
25298584 CAAGAATTGTCAAATTTGTCATGTAGCATTAATTTTAATGTT
1 CAAGAATTATCAAATTTGTCATGTAGCATTAATTTTAATGTT
25298626 ATTACAAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (44 bp):
CAAGAATTATCAAATTTGTCATGTAGCATTAATTTTAATGTTCT
Found at i:25303137 original size:73 final size:74
Alignment explanation
Indices: 25303058--25303210 Score: 220
Period size: 73 Copynumber: 2.1 Consensus size: 74
25303048 AAATTTTCAT
* * * * *
25303058 TATAATTTAACAA-TTTTGGCCTTTAATTATACGTAAAAATATTGAAATTTGCGTATGAATTATG
1 TATAATTTAACAACCTCTGGCCCTTAATTATACATAAAAATATTGAAATTTGCGTATGAATTATC
25303122 ACTTATACA
66 ACTTATACA
* *
25303131 TATAA-TTAACAACCTCTGGCCCTTAATTATACATAAAATTATTGAGATTTGCGTATGAATTATC
1 TATAATTTAACAACCTCTGGCCCTTAATTATACATAAAAATATTGAAATTTGCGTATGAATTATC
*
25303195 ACTTATGCA
66 ACTTATACA
25303204 TATAATT
1 TATAATT
25303211 AATGATGATT
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
72 7 0.10
73 62 0.89
74 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.40
Consensus pattern (74 bp):
TATAATTTAACAACCTCTGGCCCTTAATTATACATAAAAATATTGAAATTTGCGTATGAATTATC
ACTTATACA
Found at i:25303211 original size:73 final size:73
Alignment explanation
Indices: 25303074--25303212 Score: 224
Period size: 73 Copynumber: 1.9 Consensus size: 73
25303064 TTAACAATTT
* * *
25303074 TGGCCTTTAATTATACGTAAAAATATTGAAATTTGCGTATGAATTATGACTTATACATATAATTA
1 TGGCCCTTAATTATACATAAAAATATTGAAATTTGCGTATGAATTATCACTTATACATATAATTA
25303139 ACAACCTC
66 ACAACCTC
* * *
25303147 TGGCCCTTAATTATACATAAAATTATTGAGATTTGCGTATGAATTATCACTTATGCATATAATTA
1 TGGCCCTTAATTATACATAAAAATATTGAAATTTGCGTATGAATTATCACTTATACATATAATTA
25303212 A
66 A
25303213 TGATGATTGA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 60 1.00
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (73 bp):
TGGCCCTTAATTATACATAAAAATATTGAAATTTGCGTATGAATTATCACTTATACATATAATTA
ACAACCTC
Found at i:25303387 original size:24 final size:22
Alignment explanation
Indices: 25303333--25303388 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
25303323 AATGTTGCTC
25303333 TTAAATTTTAATATATTTTTAA
1 TTAAATTTTAATATATTTTTAA
*
25303355 TTATTATTTATAATA-ATTGTTTAA
1 TTA-AATTT-TAATATATT-TTTAA
25303379 TTTAAATTTT
1 -TTAAATTTT
25303389 TTTATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
22 3 0.11
23 8 0.29
24 14 0.50
25 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TTAAATTTTAATATATTTTTAA
Found at i:25311719 original size:3 final size:3
Alignment explanation
Indices: 25311711--25311758 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
25311701 ATTAGTTAGA
25311711 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25311758 A
1 A
25311759 TTATTATTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:25311763 original size:3 final size:3
Alignment explanation
Indices: 25311757--25311798 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
25311747 ATAATAATAA
25311757 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
25311799 GGAAGAAGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:25316426 original size:22 final size:22
Alignment explanation
Indices: 25316398--25316448 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
25316388 TATATTTTTA
25316398 AATTATTTAAATAAAAATATAT
1 AATTATTTAAATAAAAATATAT
* * * *
25316420 ATTTATTTTATTAAATATATAT
1 AATTATTTAAATAAAAATATAT
25316442 AATTATT
1 AATTATT
25316449 ATTAAAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATTATTTAAATAAAAATATAT
Found at i:25316430 original size:27 final size:26
Alignment explanation
Indices: 25316381--25316436 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
25316371 TAAAAAATAT
*
25316381 ATAAAAATATATTTTTAAATTATTTAA
1 ATAAAAATATATATTTAAATTA-TTAA
**
25316408 ATAAAAATATATATTTATTTTATTAA
1 ATAAAAATATATATTTAAATTATTAA
25316434 ATA
1 ATA
25316437 TATATAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
ATAAAAATATATATTTAAATTATTAA
Found at i:25316437 original size:20 final size:20
Alignment explanation
Indices: 25316412--25316454 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
25316402 ATTTAAATAA
*
25316412 AAATATATATTTATT-TTATT
1 AAATATATA-TAATTATTATT
25316432 AAATATATATAATTATTATT
1 AAATATATATAATTATTATT
25316452 AAA
1 AAA
25316455 ATTTTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AAATATATATAATTATTATT
Found at i:25322576 original size:17 final size:19
Alignment explanation
Indices: 25322546--25322580 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
25322536 TAACTTAATA
25322546 ATATAATGTATATATTTTT
1 ATATAATGTATATATTTTT
25322565 ATATAAT-T-TATATTTT
1 ATATAATGTATATATTTT
25322581 AATTTTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (19 bp):
ATATAATGTATATATTTTT
Found at i:25329833 original size:2 final size:2
Alignment explanation
Indices: 25329826--25329868 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
25329816 GAACAAAAGA
25329826 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25329868 A
1 A
25329869 AACATTAGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25330335 original size:3 final size:3
Alignment explanation
Indices: 25330327--25330359 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
25330317 AAAGAACTAA
25330327 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25330360 GTTCACTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:25330548 original size:3 final size:3
Alignment explanation
Indices: 25330540--25330570 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
25330530 TGTTATCTTT
25330540 TAA TAA TAA TAA TAA TAA TAA TAA TATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
25330571 ATAGATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:25331604 original size:38 final size:38
Alignment explanation
Indices: 25331553--25331625 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
25331543 AGTTGTTTTG
*
25331553 AATTTCGGATTTAAC-CTAAATTATTCGTTCACTTTTCA
1 AATTTCGGATTTAACTC-AAATAATTCGTTCACTTTTCA
* *
25331591 AATTTTGGATTTAACTCAAATAATTTGTTCACTTT
1 AATTTCGGATTTAACTCAAATAATTCGTTCACTTT
25331626 ATGAGGTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
38 30 0.97
39 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.47
Consensus pattern (38 bp):
AATTTCGGATTTAACTCAAATAATTCGTTCACTTTTCA
Found at i:25337269 original size:2 final size:2
Alignment explanation
Indices: 25337262--25337291 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
25337252 CAGTACATAA
25337262 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25337292 GTCATCGCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25342330 original size:19 final size:19
Alignment explanation
Indices: 25342306--25342363 Score: 116
Period size: 19 Copynumber: 3.1 Consensus size: 19
25342296 TTGTCAAAGC
25342306 TTCTTGGAAGTGATGACAA
1 TTCTTGGAAGTGATGACAA
25342325 TTCTTGGAAGTGATGACAA
1 TTCTTGGAAGTGATGACAA
25342344 TTCTTGGAAGTGATGACAA
1 TTCTTGGAAGTGATGACAA
25342363 T
1 T
25342364 CTGCAGTTCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (19 bp):
TTCTTGGAAGTGATGACAA
Found at i:25342944 original size:13 final size:14
Alignment explanation
Indices: 25342921--25342953 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
25342911 AATAGACATA
*
25342921 AGAAAACAAAAAAC
1 AGAAAAAAAAAAAC
25342935 A-AAAAAAAAAAAC
1 AGAAAAAAAAAAAC
25342948 AGAAAA
1 AGAAAA
25342954 TGAGGTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.85, C:0.09, G:0.06, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAAAAAC
Found at i:25343577 original size:19 final size:20
Alignment explanation
Indices: 25343541--25343592 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
25343531 ATAGTGTAAA
* *
25343541 ATATTA-AACTTTATATATTT
1 ATATTATAA-TTTAAATATAT
25343561 ATATTAT-ATTTAAATATAT
1 ATATTATAATTTAAATATAT
25343580 ATATTATAATTTA
1 ATATTATAATTTA
25343593 TCTCAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
ATATTATAATTTAAATATAT
Found at i:25343600 original size:24 final size:23
Alignment explanation
Indices: 25343552--25343602 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
25343542 TATTAAACTT
*
25343552 TATATATTTATATTATATTTAAA
1 TATATATTTATATTATATCTAAA
*
25343575 TATATATATTATAATT-TATCTCAA
1 TATATAT-TTAT-ATTATATCTAAA
25343599 TATA
1 TATA
25343603 AAATTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.29
24 14 0.58
25 3 0.12
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
TATATATTTATATTATATCTAAA
Found at i:25346149 original size:11 final size:10
Alignment explanation
Indices: 25346135--25346180 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
25346125 ATTATTTTAT
25346135 TTTATAAAAA
1 TTTATAAAAA
25346145 TTT-TAAAAA
1 TTTATAAAAA
*
25346154 TATATAAAAA
1 TTTATAAAAA
*
25346164 TTGATAAAAA
1 TTTATAAAAA
*
25346174 TATATAA
1 TTTATAA
25346181 TTAAATTCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (10 bp):
TTTATAAAAA
Found at i:25346187 original size:22 final size:20
Alignment explanation
Indices: 25346137--25346180 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
25346127 TATTTTATTT
*
25346137 TATAAAAATT-TTAAAAATA
1 TATAAAAATTGATAAAAATA
25346156 TATAAAAATTGATAAAAATA
1 TATAAAAATTGATAAAAATA
25346176 TATAA
1 TATAA
25346181 TTAAATTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
TATAAAAATTGATAAAAATA
Found at i:25347300 original size:2 final size:2
Alignment explanation
Indices: 25347293--25347330 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
25347283 TTTGAATGTA
* *
25347293 AC AC AC AC AC AC AC AC AC AC AC AC AA AC AT AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
25347331 GCACGCGCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.45, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:25375613 original size:20 final size:20
Alignment explanation
Indices: 25375588--25375625 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
25375578 AGATTAACAT
*
25375588 AGAACAAATGCACCTGGTCA
1 AGAACAAAAGCACCTGGTCA
*
25375608 AGAACAAAAGCACGTGGT
1 AGAACAAAAGCACCTGGT
25375626 TTAGACCCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (20 bp):
AGAACAAAAGCACCTGGTCA
Found at i:25380298 original size:15 final size:15
Alignment explanation
Indices: 25380278--25380316 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
25380268 CAAAACTAAT
25380278 ATATTTATTTAAAAA
1 ATATTTATTTAAAAA
25380293 ATATTTA--TAAAAA
1 ATATTTATTTAAAAA
25380306 A-A-TTATTTAAA
1 ATATTTATTTAAA
25380317 CATATAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
11 3 0.14
12 1 0.05
13 11 0.50
15 7 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATTTATTTAAAAA
Found at i:25385558 original size:4 final size:4
Alignment explanation
Indices: 25385551--25385577 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
25385541 TATATATATA
25385551 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
25385578 ATTCAAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:25386981 original size:35 final size:35
Alignment explanation
Indices: 25386942--25387008 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
25386932 ATATCATAGA
25386942 ATTTTAGGCTATAGAAAGCTATGATGTCTTATGGG
1 ATTTTAGGCTATAGAAAGCTATGATGTCTTATGGG
* *
25386977 ATTTTAGGCTATAGAAAGTTTTGATGTCTTAT
1 ATTTTAGGCTATAGAAAGCTATGATGTCTTAT
25387009 ACATATTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.42
Consensus pattern (35 bp):
ATTTTAGGCTATAGAAAGCTATGATGTCTTATGGG
Found at i:25395616 original size:28 final size:28
Alignment explanation
Indices: 25395555--25395617 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
25395545 TTACATATAT
* *
25395555 ATAAATTAAAAATAAAAATTATATATGTA
1 ATAAAATAAAAATAAAAATTATATA-GAA
25395584 A-AAAATAAAAATAAAAATTATAT-GAAA
1 ATAAAATAAAAATAAAAATTATATAG-AA
25395611 ATAAAAT
1 ATAAAAT
25395618 TTTAGTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.07
28 26 0.87
29 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (28 bp):
ATAAAATAAAAATAAAAATTATATAGAA
Found at i:25396790 original size:27 final size:24
Alignment explanation
Indices: 25396727--25396790 Score: 62
Period size: 27 Copynumber: 2.6 Consensus size: 24
25396717 AATATTATTC
25396727 ATTTTAA-TTT-AAAAATCTCATA
1 ATTTTAATTTTAAAAAATCTCATA
25396749 ATTTT-ATCTTATAAAAAACGTCTCATAA
1 ATTTTAAT-TT-TAAAAAA--TCTCAT-A
25396777 ATTTTAATTTTAAA
1 ATTTTAATTTTAAA
25396791 TCTCTACATA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
21 1 0.03
22 5 0.15
23 2 0.06
24 1 0.03
25 5 0.15
27 10 0.29
28 8 0.24
29 2 0.06
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (24 bp):
ATTTTAATTTTAAAAAATCTCATA
Found at i:25401094 original size:2 final size:2
Alignment explanation
Indices: 25401087--25401113 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25401077 TGTATAAATC
25401087 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
25401114 ATTTTGTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25405167 original size:46 final size:49
Alignment explanation
Indices: 25405071--25405168 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 49
25405061 TCGTCTCAAA
25405071 ATATTTATTATATATTAATTTTTATTAAATTAAAAATTTTTAATTTTAAT
1 ATATTTA-TATATATTAATTTTTATTAAATTAAAAATTTTTAATTTTAAT
25405121 ATATTTA-ATAT-TTAATTTTTA-T-AATT-AAAATTTTATAATTTTTAAT
1 ATATTTATATATATTAATTTTTATTAAATTAAAAATTTT-TAA-TTTTAAT
25405167 AT
1 AT
25405169 CAAAAAATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
44 8 0.17
45 7 0.15
46 10 0.22
47 10 0.22
48 4 0.09
50 7 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (49 bp):
ATATTTATATATATTAATTTTTATTAAATTAAAAATTTTTAATTTTAAT
Found at i:25405216 original size:22 final size:20
Alignment explanation
Indices: 25405170--25405227 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
25405160 TTTTAATATC
* *
25405170 AAAAAATAAAAAAAAAATTT
1 AAAATATAAAAAAAAAAGTT
*
25405190 AAAATATAAAAAATAAGAGTT
1 AAAATATAAAAAA-AAAAGTT
25405211 ATAAATATTAAAAAAAA
1 A-AAATA-TAAAAAAAA
25405228 TAGACATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 12 0.38
21 6 0.19
22 7 0.22
23 7 0.22
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.22
Consensus pattern (20 bp):
AAAATATAAAAAAAAAAGTT
Found at i:25409574 original size:4 final size:4
Alignment explanation
Indices: 25409565--25409640 Score: 62
Period size: 4 Copynumber: 20.8 Consensus size: 4
25409555 GTCCAATTGA
25409565 TTAT TTAT TTAT TTAT TTA- TTAT TTA- TTA- TTA- TTA- TTA- TTA-
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
*
25409606 TTA- TTA- TTAT TTGGTT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TT--AT TTAT TTAT TTAT TTAT TTA
25409641 GGCTAATTAT
Statistics
Matches: 66, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
3 27 0.41
4 36 0.55
6 3 0.05
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:25409582 original size:12 final size:11
Alignment explanation
Indices: 25409565--25409640 Score: 74
Period size: 9 Copynumber: 7.3 Consensus size: 11
25409555 GTCCAATTGA
25409565 TTATTTATTTAT
1 TTATTTA-TTAT
25409577 TTATTTATTAT
1 TTATTTATTAT
25409588 TTA-TTATTA-
1 TTATTTATTAT
25409597 TTA-TTATTA-
1 TTATTTATTAT
25409606 TTA-TTATTAT
1 TTATTTATTAT
**
25409616 TTGGTT-TTAT
1 TTATTTATTAT
25409626 TTATTTATTTAT
1 TTATTTA-TTAT
25409638 TTA
1 TTA
25409641 GGCTAATTAT
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
9 18 0.32
10 16 0.28
11 9 0.16
12 14 0.25
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (11 bp):
TTATTTATTAT
Found at i:25409594 original size:3 final size:3
Alignment explanation
Indices: 25409581--25409616 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
25409571 ATTTATTTAT
25409581 TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
25409617 TGGTTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:25410043 original size:10 final size:11
Alignment explanation
Indices: 25410023--25410048 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
25410013 AAACAAACAT
25410023 TTTTTGAAAAA
1 TTTTTGAAAAA
25410034 TTTTTGAAAAA
1 TTTTTGAAAAA
25410045 TTTT
1 TTTT
25410049 CAAATTTCGA
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:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (11 bp):
TTTTTGAAAAA
Found at i:25410569 original size:9 final size:10
Alignment explanation
Indices: 25410557--25410593 Score: 53
Period size: 9 Copynumber: 4.0 Consensus size: 10
25410547 GGTTTTTTTA
25410557 TATT-TTATT
1 TATTATTATT
25410566 TATTATTA-T
1 TATTATTATT
25410575 TATTATTA-T
1 TATTATTATT
25410584 TATTATTATT
1 TATTATTATT
25410594 GTCTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 22 0.85
10 4 0.15
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TATTATTATT
Found at i:25410571 original size:3 final size:3
Alignment explanation
Indices: 25410565--25410593 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
25410555 TATATTTTAT
25410565 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
25410594 GTCTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:25410797 original size:58 final size:57
Alignment explanation
Indices: 25410723--25411192 Score: 547
Period size: 58 Copynumber: 8.0 Consensus size: 57
25410713 TGAAAATAAA
* *
25410723 AAAATAAAAATTTTAAAAACATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTA
1 AAAAT-AAAATTTTAAAAA-ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* *
25410782 AAAATCAAATTTTAAAAAAATAGTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAATAAAATTTT-AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* *
25410840 AAAATTAAATTTTAAAAAAATATTTTTAA-GAGAAAGTTGAAAATATCAATTTTTCTTG
1 AAAATAAAATTTT-AAAAAATATTTTTAAGGA-AAAGTTGAAAGTATCAATTTTTCTTG
* *
25410898 AAAATAAAATTTTAAGAAAAAAATATTGTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTG
1 AAAATAAAATTTT----AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* *
25410959 AAAGTAAAATTTCTAAAAAATATTTTTTTAA--AAAAATTGAAAGTATCAATTTTTCTTG
1 AAAATAAAATTT-TAAAAAATA--TTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* * *
25411017 AAAATAAAATTTTTTTAAAAATATTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAATAAAA--TTTTAAAAAATA-TTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* * *
25411077 AAAATAAAAATTTCTAAAAAATATTTTTTAGAAAAAGTAGAAAGTATCAA-TTTTCTTTG
1 AAAAT-AAAATTT-TAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTC-TTG
* * *
25411136 AAAATAAAAATTTCT-AAAAATA-CTTTAAAGAAAAGTTGAAAGCATCAATTTTTCTTG
1 AAAAT-AAAATTT-TAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
25411193 CATAAAAGCA
Statistics
Matches: 366, Mismatches: 28, Indels: 36
0.85 0.07 0.08
Matches are distributed among these distances:
57 25 0.07
58 172 0.47
59 64 0.17
60 48 0.13
61 54 0.15
62 3 0.01
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (57 bp):
AAAATAAAATTTTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
Found at i:25410977 original size:119 final size:114
Alignment explanation
Indices: 25410723--25411192 Score: 545
Period size: 119 Copynumber: 4.0 Consensus size: 114
25410713 TGAAAATAAA
*
25410723 AAAATAAAAATTTTAAAAACATATTTTTAAG-GAAAAGTT-AAAAGTATCAATTTTTCTTAAAAA
1 AAAAT-AAAATTTTAAAAA-ATATTTTTAAGAG-AAAGTTGAAAA-TATCAATTTTTCTTGAAAA
*
25410786 TCAAATTTTAAAAAAATAGTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
62 TAAAATTTTAAAAAAATA-TTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
*
25410840 AAAATTAAATTTTAAAAAAATATTTTTAAGAGAAAGTTGAAAATATCAATTTTTCTTGAAAATAA
1 AAAATAAAATTTT-AAAAAATATTTTTAAGAGAAAGTTGAAAATATCAATTTTTCTTGAAAATAA
*
25410905 AATTTTAAGAAAAAAATATTGTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTG
65 AATTTT---AAAAAAATATT-TTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* * *
25410959 AAAGTAAAATTTCTAAAAAATATTTTTTTAA-A-AAAATTGAAAGTATCAATTTTTCTTGAAAAT
1 AAAATAAAATTT-TAAAAAATA--TTTTTAAGAGAAAGTTGAAAATATCAATTTTTCTTGAAAAT
* * * *
25411022 AAAATTTTTTTAAAAATATTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
63 AAAA---TTTTAAAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
* * * *
25411077 AAAATAAAAATTTCTAAAAAATATTTTTTAGAAAAAGTAGAAAGTATCAA-TTTTCTTTGAAAAT
1 AAAAT-AAAATTT-TAAAAAATATTTTTAAGAGAAAGTTGAAAATATCAATTTTTC-TTGAAAAT
* ** * * *
25411141 AAAAATTTCTAAAAATACTTTAAAGAAAAGTTGAAAGCATCAATTTTTCTTG
63 AAAATTTTAAAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
25411193 CATAAAAGCA
Statistics
Matches: 309, Mismatches: 27, Indels: 35
0.83 0.07 0.09
Matches are distributed among these distances:
116 88 0.28
117 21 0.07
118 42 0.14
119 145 0.47
120 2 0.01
121 7 0.02
122 4 0.01
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (114 bp):
AAAATAAAATTTTAAAAAATATTTTTAAGAGAAAGTTGAAAATATCAATTTTTCTTGAAAATAAA
ATTTTAAAAAAATATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
Found at i:25411001 original size:177 final size:176
Alignment explanation
Indices: 25410654--25411192 Score: 599
Period size: 177 Copynumber: 3.0 Consensus size: 176
25410644 AATTTTTTAA
** *
25410654 AAAATAAAATTTCAAAAAATATATATTTTTAAGGGAAAGTTGAAAGTATCAA-TTTTCTTTGAAA
1 AAAATAAAATTTTTAAAAA-A-ATATTTTTAAGAGAAAGTTGAAAGTATCAATTTTTC-TTGAAA
* * * *
25410718 ATAAAAAAATAAAAATTTTAAAAACATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTAA
63 AT-AAAAATTTAAAA----AAAAA-ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGA
* * *
25410783 AAATCAAATTT-TAAAAAAATAGTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
122 AAATAAAATTTCT-AAAAAATATTTTTAA--AAAAATTGAAAGTATCAATTTTTCTTG
* *
25410840 AAAATTAAA-TTTTAAAAAAATATTTTTAAGAGAAAGTTGAAAATATCAATTTTTCTTGAAAATA
1 AAAATAAAATTTTTAAAAAAATATTTTTAAGAGAAAGTTGAAAGTATCAATTTTTCTTGAAAATA
* * * * *
25410904 AAATTTTAAGAAAAAAATATTGTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAAGTAAAAT
66 AAAATTTAAAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAT
25410969 TTCTAAAAAATATTTTTTTAAAAAAATTGAAAGTATCAATTTTTCTTG
131 TTCTAAAAAATA--TTTTTAAAAAAATTGAAAGTATCAATTTTTCTTG
** * *
25411017 AAAATAAAATTTTTTTAAAAATATTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
1 AAAATAAAATTTTTAAAAAAATA-TTTTTAAGAGAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
** * * *
25411082 AAAAATTT--CTAAAAAATATTTTTTAGAAAAAGTAGAAAGTATCAA-TTTTCTTTGAAAATAAA
65 AAAAATTTAAAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTC-TTGAAAAT-AA
* *
25411144 AATTTCT-AAAAATA-CTTTAAAGAAAAGTTGAAAGCATCAATTTTTCTTG
128 AATTTCTAAAAAATATTTTTAAA-AAAA-TTGAAAGTATCAATTTTTCTTG
25411193 CATAAAAGCA
Statistics
Matches: 309, Mismatches: 34, Indels: 30
0.83 0.09 0.08
Matches are distributed among these distances:
174 6 0.02
175 4 0.01
176 26 0.08
177 131 0.42
178 26 0.08
179 51 0.17
182 8 0.03
183 36 0.12
184 6 0.02
185 7 0.02
186 8 0.03
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (176 bp):
AAAATAAAATTTTTAAAAAAATATTTTTAAGAGAAAGTTGAAAGTATCAATTTTTCTTGAAAATA
AAAATTTAAAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAT
TTCTAAAAAATATTTTTAAAAAAATTGAAAGTATCAATTTTTCTTG
Found at i:25411037 original size:17 final size:18
Alignment explanation
Indices: 25411006--25411039 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25410996 TGAAAGTATC
*
25411006 AATTTTTCTTGAAAATAA
1 AATTTTTCTTAAAAATAA
25411024 AATTTTT-TTAAAAATA
1 AATTTTTCTTAAAAATA
25411040 TTTTTTGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (18 bp):
AATTTTTCTTAAAAATAA
Found at i:25415038 original size:9 final size:9
Alignment explanation
Indices: 25415024--25415167 Score: 73
Period size: 9 Copynumber: 15.3 Consensus size: 9
25415014 AATATGAGAG
25415024 AAAAAAAGA
1 AAAAAAAGA
25415033 AAAAAAA-A
1 AAAAAAAGA
* * *
25415041 TAAAACATA
1 AAAAAAAGA
25415050 AAAAAAAGA
1 AAAAAAAGA
25415059 TAAAATAGATA-A
1 -AAAA-A-A-AGA
25415071 AAAAAAAGA
1 AAAAAAAGA
*
25415080 AAAAAATGA
1 AAAAAAAGA
25415089 AAGAAAATA-A
1 AA-AAAA-AGA
25415099 AAAATGAAAG-
1 AAAA--AAAGA
25415109 AAAAAAAGA
1 AAAAAAAGA
* *
25415118 GAAAAAATA
1 AAAAAAAGA
* *
25415127 ATAAAAATA
1 AAAAAAAGA
25415136 ATAAAAAAGA
1 A-AAAAAAGA
*
25415146 AATGAAAATGA
1 AA--AAAAAGA
25415157 AAAAAAA-A
1 AAAAAAAGA
25415165 AAA
1 AAA
25415168 GAAGACTCAA
Statistics
Matches: 105, Mismatches: 15, Indels: 31
0.70 0.10 0.21
Matches are distributed among these distances:
8 15 0.14
9 48 0.46
10 24 0.23
11 15 0.14
12 2 0.02
13 1 0.01
ACGTcount: A:0.81, C:0.01, G:0.09, T:0.10
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:25415073 original size:21 final size:20
Alignment explanation
Indices: 25415049--25415133 Score: 77
Period size: 21 Copynumber: 4.2 Consensus size: 20
25415039 AATAAAACAT
*
25415049 AAAAAAAAGATAAAATAGATA
1 AAAAAAAAGAAAAAATA-ATA
*
25415070 AAAAAAAAG-AAAAA-AATG
1 AAAAAAAAGAAAAAATAATA
* *
25415088 AAAGAAAATAAAAAATGAA-A
1 AAAAAAAAGAAAAAAT-AATA
25415108 GAAAAAAAGAGAAAAAATAATA
1 -AAAAAAA-AGAAAAAATAATA
25415130 AAAA
1 AAAA
25415134 TAATAAAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
18 9 0.18
19 6 0.12
20 4 0.08
21 23 0.45
22 9 0.18
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (20 bp):
AAAAAAAAGAAAAAATAATA
Found at i:25415113 original size:18 final size:18
Alignment explanation
Indices: 25415024--25415164 Score: 84
Period size: 18 Copynumber: 7.9 Consensus size: 18
25415014 AATATGAGAG
*
25415024 AAAAAAAGAAAAAAAAAT
1 AAAAAATGAAAAAAAAAT
*
25415042 AAAACAT-AAAAAAAAGAT
1 AAAAAATGAAAAAAAA-AT
*
25415060 AAAATAGAT-AAAAAAAAAGA
1 AAAA-A-ATGAAAAAAAAA-T
*
25415080 AAAAAATG-AAAGAAAAT
1 AAAAAATGAAAAAAAAAT
*
25415097 AAAAAATG--AAAGAAA-
1 AAAAAATGAAAAAAAAAT
* *
25415112 AAAAGA-GAAAAAATAAT
1 AAAAAATGAAAAAAAAAT
25415129 AAAAATAAT-AAAAAAGAAAT
1 -AAAA-AATGAAAAAA-AAAT
*
25415149 -GAAAATGAAAAAAAAA
1 AAAAAATGAAAAAAAAA
25415165 AAAGAAGACT
Statistics
Matches: 96, Mismatches: 14, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
14 1 0.01
15 5 0.05
16 10 0.10
17 22 0.23
18 32 0.33
19 9 0.09
20 17 0.18
ACGTcount: A:0.80, C:0.01, G:0.09, T:0.10
Consensus pattern (18 bp):
AAAAAATGAAAAAAAAAT
Found at i:25415113 original size:38 final size:37
Alignment explanation
Indices: 25415028--25415167 Score: 119
Period size: 38 Copynumber: 3.7 Consensus size: 37
25415018 TGAGAGAAAA
* *
25415028 AAAGAAAAAAA-AATAAAACATAAAAAAAAGATAAAATAG
1 AAAGAAAAAAAGAA-AAAA-ATAAAAAAAATAAAAAAT-G
*
25415067 ATAA-AAAAAAAGAAAAAAATGAAAGAAAATAAAAAATG
1 A-AAGAAAAAAAGAAAAAAAT-AAAAAAAATAAAAAATG
* *
25415105 AAAGAAAAAAAGAGAAAAAATAATAAAAATAATAAA--
1 AAAGAAAAAAAGA-AAAAAATAAAAAAAATAAAAAATG
25415141 AAAGAAATGAAAATGAAAAAAA-AAAAA
1 AAAGAAA--AAAA-GAAAAAAATAAAAA
25415168 GAAGACTCAA
Statistics
Matches: 86, Mismatches: 7, Indels: 18
0.77 0.06 0.16
Matches are distributed among these distances:
36 7 0.08
37 6 0.07
38 35 0.41
39 34 0.40
40 4 0.05
ACGTcount: A:0.80, C:0.01, G:0.09, T:0.10
Consensus pattern (37 bp):
AAAGAAAAAAAGAAAAAAATAAAAAAAATAAAAAATG
Found at i:25416268 original size:21 final size:21
Alignment explanation
Indices: 25416239--25416294 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
25416229 AAGAATCTTT
*
25416239 AAATAAGAATCTTTGAGTGTC
1 AAATAAGAATCTTTGAATGTC
* * *
25416260 AAATGAGAATCTTTGAATTTT
1 AAATAAGAATCTTTGAATGTC
*
25416281 AAATCAGAATCTTT
1 AAATAAGAATCTTT
25416295 AAGATGTGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (21 bp):
AAATAAGAATCTTTGAATGTC
Found at i:25416373 original size:58 final size:58
Alignment explanation
Indices: 25416258--25416412 Score: 193
Period size: 58 Copynumber: 2.7 Consensus size: 58
25416248 TCTTTGAGTG
* * * * * *
25416258 TCAAATGAGAATCTTTGAATTTTAAATCAGAATCTTTAAGATGTGAAACCTAAAATTTA
1 TCAAATGTGAATCTTCGAA-TTCAAATGAGAATTTTTGAGATGTGAAACCTAAAATTTA
* * * *
25416317 TCAAATGTGAATCTTCGAATTCAAATGAGAATTTTTGATATGTGAAATCTGAAATTTG
1 TCAAATGTGAATCTTCGAATTCAAATGAGAATTTTTGAGATGTGAAACCTAAAATTTA
* *
25416375 TCGAATGTGAATCTTCGAATTGAAATGAGAATTTTTGA
1 TCAAATGTGAATCTTCGAATTCAAATGAGAATTTTTGA
25416413 ATTTTAAATG
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
58 67 0.80
59 17 0.20
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (58 bp):
TCAAATGTGAATCTTCGAATTCAAATGAGAATTTTTGAGATGTGAAACCTAAAATTTA
Found at i:25416406 original size:20 final size:21
Alignment explanation
Indices: 25416378--25416430 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
25416368 AAATTTGTCG
*
25416378 AATGTGAATCTTCGAA-TTGA
1 AATGAGAATCTTCGAATTTGA
* * *
25416398 AATGAGAATTTTTGAATTTTA
1 AATGAGAATCTTCGAATTTGA
25416419 AATGAGAATCTT
1 AATGAGAATCTT
25416431 TGAGTTGTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (21 bp):
AATGAGAATCTTCGAATTTGA
Found at i:25416678 original size:114 final size:114
Alignment explanation
Indices: 25416495--25416733 Score: 415
Period size: 114 Copynumber: 2.1 Consensus size: 114
25416485 TTTTGAACTT
**
25416495 TTGGATGTGAATCTCCAAAATTCAAACGAAAAGCTTTGAACTCAACTTTTGGATGCGAATCTCTA
1 TTGGATGTGAATCTCCAAAATTCAAACGAAAAGCTTTGAACTCAACTTTTAAATGCGAATCTCTA
*
25416560 AATTTTTAAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTC
66 AATTTTTAAGTGAGAACCTTTAAACTTAGATGTGAAACTCTAAGATTTC
*
25416609 TTGGATGTGAATCTCCAAAATTGAAACGAAAAGCTTTGAACTCAACTTTTAAATGCGAATCTCTA
1 TTGGATGTGAATCTCCAAAATTCAAACGAAAAGCTTTGAACTCAACTTTTAAATGCGAATCTCTA
* *
25416674 AATTTTTTAGTGAGTACCTTTAAACTTAGATGTGAAACTCTAAGATTTC
66 AATTTTTAAGTGAGAACCTTTAAACTTAGATGTGAAACTCTAAGATTTC
*
25416723 TTGAATGTGAA
1 TTGGATGTGAA
25416734 CCTTTTGAAT
Statistics
Matches: 118, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 118 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (114 bp):
TTGGATGTGAATCTCCAAAATTCAAACGAAAAGCTTTGAACTCAACTTTTAAATGCGAATCTCTA
AATTTTTAAGTGAGAACCTTTAAACTTAGATGTGAAACTCTAAGATTTC
Found at i:25416750 original size:114 final size:114
Alignment explanation
Indices: 25416499--25416764 Score: 397
Period size: 114 Copynumber: 2.3 Consensus size: 114
25416489 GAACTTTTGG
* **
25416499 ATGTGAATCTCCAAAATTCAAACGAAAAGCTTTGAACTCAACTTTTGGATGCGAATCTCTAAATT
1 ATGTGAACCTCCAAAATTCAAACGAAAAGCTTTGAACTCAACTTTTAAATGCGAATCTCTAAATT
* *
25416564 TTTAAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTCTTGG
66 TTTAAGTGAGAACCTTTAAACTTAGATGTGAAACTCTAAGATTTCTTGA
* *
25416613 ATGTGAATCTCCAAAATTGAAACGAAAAGCTTTGAACTCAACTTTTAAATGCGAATCTCTAAATT
1 ATGTGAACCTCCAAAATTCAAACGAAAAGCTTTGAACTCAACTTTTAAATGCGAATCTCTAAATT
* *
25416678 TTTTAGTGAGTACCTTTAAACTTAGATGTGAAACTCTAAGATTTCTTGA
66 TTTAAGTGAGAACCTTTAAACTTAGATGTGAAACTCTAAGATTTCTTGA
**** * *
25416727 ATGTGAACCTTTTGAATTCAAACGAAAAACTTTAAACT
1 ATGTGAACCTCCAAAATTCAAACGAAAAGCTTTGAACT
25416765 TTTGGATGAA
Statistics
Matches: 137, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
114 137 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (114 bp):
ATGTGAACCTCCAAAATTCAAACGAAAAGCTTTGAACTCAACTTTTAAATGCGAATCTCTAAATT
TTTAAGTGAGAACCTTTAAACTTAGATGTGAAACTCTAAGATTTCTTGA
Found at i:25416776 original size:21 final size:21
Alignment explanation
Indices: 25416750--25416793 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
25416740 GAATTCAAAC
* *
25416750 GAAAAACTTTAAACTTTTGGAT
1 GAAAATCTTTAAA-TGTTGGAT
25416772 GAAAATCTTTAAATGTTGGAT
1 GAAAATCTTTAAATGTTGGAT
25416793 G
1 G
25416794 TGAGTCTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (21 bp):
GAAAATCTTTAAATGTTGGAT
Found at i:25417044 original size:43 final size:44
Alignment explanation
Indices: 25416991--25417125 Score: 130
Period size: 44 Copynumber: 3.1 Consensus size: 44
25416981 CGATGAGCCT
* * *
25416991 TTTACTTTTCAAAA-TTATGGTGCCTTT-ATTTAGAGGAGCTTTA
1 TTTATTTTTCAAAAGTCATGGAGCCTTTGA-TTAGAGGAGCTTTA
* * *
25417034 TTTATTTTTCAAAAGTCGTTGAGCCTTTGATTAGAGGAGCTTTG
1 TTTATTTTTCAAAAGTCATGGAGCCTTTGATTAGAGGAGCTTTA
* * * * * *
25417078 TTTATTTTTCTCAAAGTCATTGAGCCTCTGTTTAGAAGAACTTTA
1 TTTATTTTTC-AAAAGTCATGGAGCCTTTGATTAGAGGAGCTTTA
25417123 TTT
1 TTT
25417126 TTTAAAAAAA
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
43 13 0.17
44 32 0.42
45 31 0.41
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.46
Consensus pattern (44 bp):
TTTATTTTTCAAAAGTCATGGAGCCTTTGATTAGAGGAGCTTTA
Found at i:25417113 original size:45 final size:44
Alignment explanation
Indices: 25417019--25417125 Score: 142
Period size: 45 Copynumber: 2.4 Consensus size: 44
25417009 GGTGCCTTTA
* *
25417019 TTTAGAGGAGCTTTATTTATTTTTCAAAAGTCGTTGAGCCTTTG
1 TTTAGAGGAGCTTTATTTATTTTTCAAAAGTCATTGAGCCTCTG
* * *
25417063 ATTAGAGGAGCTTTGTTTATTTTTCTCAAAGTCATTGAGCCTCTG
1 TTTAGAGGAGCTTTATTTATTTTTC-AAAAGTCATTGAGCCTCTG
* *
25417108 TTTAGAAGAACTTTATTT
1 TTTAGAGGAGCTTTATTT
25417126 TTTAAAAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 23 0.43
45 30 0.57
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.45
Consensus pattern (44 bp):
TTTAGAGGAGCTTTATTTATTTTTCAAAAGTCATTGAGCCTCTG
Found at i:25417480 original size:17 final size:19
Alignment explanation
Indices: 25417444--25417487 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
25417434 TCATTTGTTC
25417444 TTATTTATCTTCAATTTTT
1 TTATTTATCTTCAATTTTT
*
25417463 TTATTTATC-T-ATTTTTT
1 TTATTTATCTTCAATTTTT
25417480 TTATTTAT
1 TTATTTAT
25417488 AGGATTTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 14 0.58
18 1 0.04
19 9 0.38
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (19 bp):
TTATTTATCTTCAATTTTT
Found at i:25418385 original size:8 final size:7
Alignment explanation
Indices: 25418373--25418431 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 7
25418363 TTTTTTCATT
25418373 TTATTTA
1 TTATTTA
25418380 TATATTTA
1 T-TATTTA
25418388 TTA-TTA
1 TTATTTA
25418394 TTA-TTA
1 TTATTTA
25418400 TTA-TTA
1 TTATTTA
25418406 TTATTATTA
1 TTA-T-TTA
*
25418415 TTATTTG
1 TTATTTA
25418422 TCTATTTA
1 T-TATTTA
25418430 TT
1 TT
25418432 TATTGATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
6 18 0.40
7 7 0.16
8 14 0.31
9 6 0.13
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (7 bp):
TTATTTA
Found at i:25418393 original size:3 final size:3
Alignment explanation
Indices: 25418385--25418419 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
25418375 ATTTATATAT
25418385 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
25418420 TGTCTATTTA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:25418580 original size:66 final size:67
Alignment explanation
Indices: 25418480--25418611 Score: 205
Period size: 66 Copynumber: 2.0 Consensus size: 67
25418470 TAATTTTCTT
* * *
25418480 AAAAATAAAAATTTAAAAATATATAATTTTAAGAAAAAGTTGAAAGTATCAATTTTT-TTTAAAA
1 AAAAATAAAAATTTAAAAACATAT-ATTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTGAAAA
25418544 TAA
65 TAA
25418547 AAAAATAAAAATTTTAAAAACATAT-TTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTGAAAA
1 AAAAATAAAAA-TTTAAAAACATATATTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTGAAAA
25418611 T
65 T
25418612 TAAATTTTAA
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
66 30 0.50
67 18 0.30
68 12 0.20
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (67 bp):
AAAAATAAAAATTTAAAAACATATATTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTGAAAAT
AA
Found at i:25418713 original size:58 final size:60
Alignment explanation
Indices: 25418473--25418839 Score: 384
Period size: 59 Copynumber: 6.1 Consensus size: 60
25418463 TTTTCAATAA
* *
25418473 TTTTCTTAAAAATAAAAA--TTTAAAAATATATAATTTTAAGAAAAAGTTGAAAGTATCAAT
1 TTTTCTTGAAAATAAAAATTTTTAAAAA-ATAT-TTTTTAAGAAAAAGTTGAAAGTATCAAT
* *
25418533 TTTT-TTTAAAATAAAAAAATAAAAATTTTAAAAACATA-TTTTTAAGAAAAAATTGAAAGTATC
1 TTTTCTTGAAAAT--AAAAAT-----TTTTAAAAA-ATATTTTTTAAGAAAAAGTTGAAAGTATC
25418596 AAT
58 AAT
* * * * *
25418599 TTTTCTTGAAAAT-TAAA-TTTTAAAAAAAATGTTTTTAA-AGGAAAGTTAAAAATATCAAT
1 TTTTCTTGAAAATAAAAATTTTTAAAAAATAT-TTTTTAAGA-AAAAGTTGAAAGTATCAAT
25418658 TTTTCTTGAAAAT-AAAATTTTTAAAAAATATTTTTTAAG-AAAAGTTGAAAGTATCAAT
1 TTTTCTTGAAAATAAAAATTTTTAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAAT
* * * *
25418716 TTTTCTTAAAAATAAAAAATTCTAAAAAATATTTTTT-AGGAAAAGTTGAAAGTATCAA-
1 TTTTCTTGAAAATAAAAATTTTTAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAAT
**
25418774 TTTTCTTTGAAAATAAAAATTTTT--AAAA-ATGCTTTAAGAAAAAGTTGAAAGTATCAAT
1 TTTTC-TTGAAAATAAAAATTTTTAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAAT
25418832 TTTTCTTG
1 TTTTCTTG
25418840 TATAAAAGCG
Statistics
Matches: 262, Mismatches: 25, Indels: 43
0.79 0.08 0.13
Matches are distributed among these distances:
56 5 0.02
57 29 0.11
58 50 0.19
59 106 0.40
60 16 0.06
61 5 0.02
64 3 0.01
66 30 0.11
67 7 0.03
68 11 0.04
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (60 bp):
TTTTCTTGAAAATAAAAATTTTTAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAAT
Found at i:25418721 original size:117 final size:117
Alignment explanation
Indices: 25418548--25418839 Score: 375
Period size: 117 Copynumber: 2.5 Consensus size: 117
25418538 TTAAAATAAA
* *
25418548 AAAATAAAAATTTTAAAAACATA-TTTTTAAGAAAAAATTGAAAGTATCAATTTTTCTTGAAAAT
1 AAAATAAAATTTTTAAAAA-ATATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
* *
25418612 -TAAATTTTAAAAAAAATGTTTTTAAAGG-AAAGTTAAAAATATCAATTTT-TCTTG
65 AAAAATTCTAAAAAAAAT-TTTTT--AGGAAAAGTTAAAAATATCAATTTTCT-TTG
*
25418666 AAAATAAAATTTTTAAAAAATATTTTTTAAG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATA
1 AAAATAAAATTTTTAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-
* * *
25418730 AAAAATTCTAAAAAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTCTTTG
65 AAAAATTCTAAAAAAAATTTTTTAGGAAAAGTTAAAAATATCAATTTTCTTTG
**
25418783 AAAATAAAAATTTTT--AAAA-ATGCTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAAT-AAAATTTTTAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTG
25418840 TATAAAAGCG
Statistics
Matches: 156, Mismatches: 11, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
115 8 0.05
116 33 0.21
117 60 0.38
118 41 0.26
119 14 0.09
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (117 bp):
AAAATAAAATTTTTAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATA
AAAATTCTAAAAAAAATTTTTTAGGAAAAGTTAAAAATATCAATTTTCTTTG
Found at i:25424208 original size:25 final size:25
Alignment explanation
Indices: 25424180--25424227 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
25424170 TAAAAACTTT
25424180 AATTATAAAAATACATA-ATCAAAAA
1 AATTATAAAAATA-ATATATCAAAAA
*
25424205 AATTATACAAATAATATATCAAA
1 AATTATAAAAATAATATATCAAA
25424228 TAATAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (25 bp):
AATTATAAAAATAATATATCAAAAA
Found at i:25430556 original size:20 final size:22
Alignment explanation
Indices: 25430531--25430576 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
25430521 AGTTAAAATT
*
25430531 AATATATTATAAAAT-T-TATA
1 AATATATTAAAAAATATATATA
25430551 AATATATTAAAAAATATATATA
1 AATATATTAAAAAATATATATA
25430573 AATA
1 AATA
25430577 ATAATTTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.61
21 1 0.04
22 8 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AATATATTAAAAAATATATATA
Found at i:25432222 original size:14 final size:13
Alignment explanation
Indices: 25432202--25432240 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
25432192 AAATACCTTA
25432202 TTTTTCTTCTTTC
1 TTTTTCTTCTTTC
* *
25432215 TCTTTTCTTATTTG
1 T-TTTTCTTCTTTC
25432229 TTTTTCTTCTTT
1 TTTTTCTTCTTT
25432241 TTTCATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTTTCTTCTTTC
Found at i:25432238 original size:23 final size:23
Alignment explanation
Indices: 25432198--25432244 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
25432188 ATGAAAATAC
25432198 CTTATTTTTCTTCTTTCTCTTTT
1 CTTATTTTTCTTCTTTCTCTTTT
* *
25432221 CTTATTTGTTTTTC-TTCTTTTTT
1 CTTATTT-TTCTTCTTTCTCTTTT
25432244 C
1 C
25432245 ATAATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.74
Consensus pattern (23 bp):
CTTATTTTTCTTCTTTCTCTTTT
Found at i:25432359 original size:20 final size:20
Alignment explanation
Indices: 25432334--25432400 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 20
25432324 TTTAGAAATC
25432334 TATTTTCTAAAATTATGATA
1 TATTTTCTAAAATTATGATA
25432354 TATTTTC-AAAA--AT-A-A
1 TATTTTCTAAAATTATGATA
*
25432369 -ATTTT-TAAAATTTATGTTA
1 TATTTTCTAAAA-TTATGATA
*
25432388 TATTTTCAAAAAT
1 TATTTTCTAAAAT
25432401 AAATTTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 16
0.67 0.04 0.29
Matches are distributed among these distances:
14 9 0.24
15 1 0.03
16 1 0.03
17 4 0.11
19 5 0.14
20 13 0.35
21 4 0.11
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.49
Consensus pattern (20 bp):
TATTTTCTAAAATTATGATA
Found at i:25432379 original size:33 final size:34
Alignment explanation
Indices: 25432335--25432410 Score: 127
Period size: 34 Copynumber: 2.2 Consensus size: 34
25432325 TTAGAAATCT
25432335 ATTTTCTAAAA-TTATGATATATTTTCAAAAATAA
1 ATTTT-TAAAATTTATGATATATTTTCAAAAATAA
*
25432369 ATTTTTAAAATTTATGTTATATTTTCAAAAATAA
1 ATTTTTAAAATTTATGATATATTTTCAAAAATAA
25432403 ATTTTTAA
1 ATTTTTAA
25432411 GAAATTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
33 5 0.12
34 35 0.88
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.49
Consensus pattern (34 bp):
ATTTTTAAAATTTATGATATATTTTCAAAAATAA
Found at i:25434985 original size:23 final size:23
Alignment explanation
Indices: 25434952--25434997 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
25434942 GACTTGATGG
25434952 AAGTTTCTTACTTACGAAAGTAT
1 AAGTTTCTTACTTACGAAAGTAT
*
25434975 AAGTTTTTTACTTACGAAAGTAT
1 AAGTTTCTTACTTACGAAAGTAT
25434998 TTATCATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (23 bp):
AAGTTTCTTACTTACGAAAGTAT
Found at i:25438723 original size:44 final size:44
Alignment explanation
Indices: 25438673--25438759 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
25438663 TATATGAAAT
*
25438673 ATGAAATTATTCATATAGTTCATATTACACTT-GTATAACTTAGC
1 ATGAAATTATTCATATAATTCATATTACACTTAG-ATAACTTAGC
25438717 ATGAAATTATTCATATAATTCATATTACACTTAGATAACTTAG
1 ATGAAATTATTCATATAATTCATATTACACTTAGATAACTTAG
25438760 TATCGCCAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
44 40 0.98
45 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (44 bp):
ATGAAATTATTCATATAATTCATATTACACTTAGATAACTTAGC
Found at i:25439596 original size:86 final size:86
Alignment explanation
Indices: 25439451--25439708 Score: 390
Period size: 86 Copynumber: 3.0 Consensus size: 86
25439441 TTAATTTACT
* * * * *
25439451 TATACACACAATATATTGGGATATAAAGCAAGTTATATCATACTGGGATATTAAACTTTGAATAG
1 TATACACACTATATATTCGGATATAAAGCAAGCTATATTATGCTGGGATATTAAACTTTGAATAG
25439516 AAGTTAATTTACTTTAGATCA
66 AAGTTAATTTACTTTAGATCA
* * *
25439537 TATACACACTATATATCCGGATATAAAGCAAGCAATATTATGCTTGGATATTAAACTTTGAATAG
1 TATACACACTATATATTCGGATATAAAGCAAGCTATATTATGCTGGGATATTAAACTTTGAATAG
* **
25439602 AAGTTAATTTACTTGAGATTG
66 AAGTTAATTTACTTTAGATCA
* *
25439623 TATATACAATATATATTCGGATATAAAGCAAGCTATATTATGCTGGGATATTAAACTTTGAATAG
1 TATACACACTATATATTCGGATATAAAGCAAGCTATATTATGCTGGGATATTAAACTTTGAATAG
*
25439688 AAGTTAATTTACTATAGATCA
66 AAGTTAATTTACTTTAGATCA
25439709 CAAACACTAC
Statistics
Matches: 152, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 152 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.35
Consensus pattern (86 bp):
TATACACACTATATATTCGGATATAAAGCAAGCTATATTATGCTGGGATATTAAACTTTGAATAG
AAGTTAATTTACTTTAGATCA
Found at i:25451198 original size:13 final size:13
Alignment explanation
Indices: 25451180--25451212 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
25451170 AGGCTCTACA
25451180 GTATGCCTTCTAG
1 GTATGCCTTCTAG
25451193 GTATGCCTTCTAG
1 GTATGCCTTCTAG
25451206 GTATGCC
1 GTATGCC
25451213 ATTTGATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.36
Consensus pattern (13 bp):
GTATGCCTTCTAG
Found at i:25464295 original size:15 final size:16
Alignment explanation
Indices: 25464253--25464297 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
25464243 TTATTACGTT
25464253 TTTAATATAA-ATATAAA
1 TTTAA-ATAATATAT-AA
25464270 TTTAAAT-ATATATAA
1 TTTAAATAATATATAA
25464285 -TTAAATAATATAT
1 TTTAAATAATATAT
25464298 TAAACAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.23
15 9 0.35
16 6 0.23
17 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTAAATAATATATAA
Found at i:25469399 original size:23 final size:23
Alignment explanation
Indices: 25469373--25469443 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 23
25469363 CCTAATTCAC
25469373 AAGCAAGAATTGAATAATGATGT
1 AAGCAAGAATTGAATAATGATGT
*
25469396 AAGCCATCA-AATTGAATAATGATGC
1 AAG-CA--AGAATTGAATAATGATGT
**
25469421 GTGCAAGAATTGAATAATGATGT
1 AAGCAAGAATTGAATAATGATGT
25469444 GAAATGAGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
22 1 0.03
23 18 0.45
24 4 0.10
25 16 0.40
26 1 0.03
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.27
Consensus pattern (23 bp):
AAGCAAGAATTGAATAATGATGT
Found at i:25475269 original size:18 final size:18
Alignment explanation
Indices: 25475204--25475270 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
25475194 ATTGAATGTT
*
25475204 ATTTTAAATTATATATAA
1 ATTTTAAATAATATATAA
* * *
25475222 ATTAATTAAATTAAAATTTGA
1 ATT--TTAAA-TAATATATAA
* *
25475243 ATTTCAAATAATATCTAA
1 ATTTTAAATAATATATAA
25475261 ATTTTAAATA
1 ATTTTAAATA
25475271 TTTTTTAGCT
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
18 19 0.51
19 4 0.11
20 5 0.14
21 9 0.24
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (18 bp):
ATTTTAAATAATATATAA
Found at i:25478028 original size:32 final size:31
Alignment explanation
Indices: 25477985--25478056 Score: 99
Period size: 32 Copynumber: 2.3 Consensus size: 31
25477975 ATATATTGAT
* *
25477985 TTATATGTTTATATCATATAATATATTAAAA
1 TTATATATTTATATCATATAATATATAAAAA
**
25478016 TATATATATTTATATCATATTTTATATAAAAA
1 T-TATATATTTATATCATATAATATATAAAAA
25478048 TTATATATT
1 TTATATATT
25478057 ATAATTTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
31 9 0.25
32 27 0.75
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (31 bp):
TTATATATTTATATCATATAATATATAAAAA
Found at i:25478039 original size:12 final size:12
Alignment explanation
Indices: 25478015--25478082 Score: 52
Period size: 12 Copynumber: 5.6 Consensus size: 12
25478005 ATATATTAAA
25478015 ATATATATATTT
1 ATATATATATTT
25478027 ATATCATAT-TTT
1 ATAT-ATATATTT
* *
25478039 ATATA-AAAATT
1 ATATATATATTT
25478050 ATATATTATAATTT
1 ATATA-TAT-ATTT
25478064 ATAT-TGATATTT
1 ATATAT-ATATTT
*
25478076 AAATATA
1 ATATATA
25478083 AAAAATATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
10 1 0.02
11 8 0.18
12 20 0.45
13 8 0.18
14 7 0.16
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (12 bp):
ATATATATATTT
Found at i:25478067 original size:37 final size:36
Alignment explanation
Indices: 25478015--25478122 Score: 98
Period size: 39 Copynumber: 2.9 Consensus size: 36
25478005 ATATATTAAA
*
25478015 ATATA-TAT-ATTTATATCATATTTTATATAAAAATT
1 ATATATTATAATTTATAT-ATATTTTATATAAAAAAT
*
25478050 ATATATTATAATTTATATTGATATTTAAATATAAAAAAT
1 ATATATTATAATTTATA-T-ATATTT-TATATAAAAAAT
*
25478089 ATTTTATTA-AATTTATATATAATTATTAT-TAAAA
1 A-TATATTATAATTTATATAT-ATT-TTATATAAAA
25478123 TTTAAATTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
35 5 0.08
36 3 0.05
37 14 0.23
38 13 0.21
39 20 0.33
40 6 0.10
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (36 bp):
ATATATTATAATTTATATATATTTTATATAAAAAAT
Found at i:25478082 original size:39 final size:38
Alignment explanation
Indices: 25477992--25478106 Score: 102
Period size: 39 Copynumber: 3.2 Consensus size: 38
25477982 GATTTATATG
**
25477992 TTTATA-TCATA--TAATATATTAAA-ATATA-TAT-A
1 TTTATATTCATATTTAATATAAAAAATATATATTATAA
* *
25478024 TTTATA-TCATATTTTATATAAAAATTATATATTATAA
1 TTTATATTCATATTTAATATAAAAAATATATATTATAA
* *
25478061 TTTATATTGATATTTAAATATAAAAAATATTTTATTA-AA
1 TTTATATTCATATTT-AATATAAAAAATA-TATATTATAA
25478100 TTTATAT
1 TTTATAT
25478107 ATAATTATTA
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
32 11 0.16
34 8 0.12
35 5 0.07
36 3 0.04
37 7 0.10
38 7 0.10
39 20 0.30
40 6 0.09
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (38 bp):
TTTATATTCATATTTAATATAAAAAATATATATTATAA
Found at i:25478369 original size:5 final size:5
Alignment explanation
Indices: 25478357--25478393 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
25478347 ATGAGCAACT
* *
25478357 CTCTG CCCTG CCCTG CTCTG CTCTG CTCTG CTCTG CT
1 CTCTG CTCTG CTCTG CTCTG CTCTG CTCTG CTCTG CT
25478394 GTTCTCCTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.00, C:0.46, G:0.19, T:0.35
Consensus pattern (5 bp):
CTCTG
Found at i:25479284 original size:3 final size:3
Alignment explanation
Indices: 25479276--25479316 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
25479266 TTTAAAATTA
25479276 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
25479317 CAGATTGTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:25480266 original size:24 final size:23
Alignment explanation
Indices: 25480216--25480272 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
25480206 TATATATTTA
25480216 ATAAATAATTTTTTATTAAATAAT
1 ATAAATAATTTTTTA-TAAATAAT
*
25480240 ATAAATAATTATTTTA-GAATAATT
1 ATAAATAATT-TTTTATAAATAA-T
*
25480264 ATAATTAAT
1 ATAAATAAT
25480273 ATGTTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 5 0.17
24 19 0.66
25 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
ATAAATAATTTTTTATAAATAAT
Found at i:25483861 original size:29 final size:29
Alignment explanation
Indices: 25483803--25483858 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
25483793 GTAATTATTA
25483803 TTATTATTTAATTTAAATTCTAATATTTG
1 TTATTATTTAATTTAAATTCTAATATTTG
* * *
25483832 TTATT-TTTATTTTCAATTGTAATATTT
1 TTATTATTTAATTTAAATTCTAATATTT
25483859 TGTATAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (29 bp):
TTATTATTTAATTTAAATTCTAATATTTG
Found at i:25485712 original size:6 final size:6
Alignment explanation
Indices: 25485701--25485726 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
25485691 TTTCCCCCCA
25485701 CAATGG CAATGG CAATGG CAATGG CA
1 CAATGG CAATGG CAATGG CAATGG CA
25485727 CAACCAAATC
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:0.35, C:0.19, G:0.31, T:0.15
Consensus pattern (6 bp):
CAATGG
Found at i:25486232 original size:23 final size:22
Alignment explanation
Indices: 25486197--25486262 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
25486187 ATTTTTAATT
25486197 TTATTAAATTTAAA-TATGATTA
1 TTATTAAATTTAAATTAT-ATTA
25486219 TTATTAAAATTTAAATTATATTA
1 TTATT-AAATTTAAATTATATTA
* *
25486242 TT-TTATATATTATATTATATT
1 TTATTAAAT-TTAAATTATATT
25486263 TATATCTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
21 3 0.08
22 18 0.46
23 15 0.38
24 3 0.08
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTATTAAATTTAAATTATATTA
Found at i:25486250 original size:12 final size:12
Alignment explanation
Indices: 25486235--25486267 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
25486225 AAATTTAAAT
*
25486235 TATATTATTTTA
1 TATATTATATTA
25486247 TATATTATATTA
1 TATATTATATTA
25486259 TAT-TTATAT
1 TATATTATAT
25486268 CTTATTATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TATATTATATTA
Found at i:25486253 original size:17 final size:18
Alignment explanation
Indices: 25486233--25486272 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
25486223 TAAAATTTAA
25486233 ATTATATTAT-TTTATAT
1 ATTATATTATATTTATAT
25486250 ATTATATTATATTTATAT
1 ATTATATTATATTTATAT
*
25486268 CTTAT
1 ATTAT
25486273 TATCGTGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTATATTATATTTATAT
Found at i:25487111 original size:11 final size:11
Alignment explanation
Indices: 25487088--25487119 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
25487078 GAGATTTATG
25487088 AATTTTTTT--
1 AATTTTTTTAA
25487097 AATTTTTTTAA
1 AATTTTTTTAA
25487108 AATTTTTTTAA
1 AATTTTTTTAA
25487119 A
1 A
25487120 CTTATAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
11 12 0.57
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
AATTTTTTTAA
Found at i:25500653 original size:25 final size:25
Alignment explanation
Indices: 25500622--25500673 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
25500612 CATTTAAATA
*
25500622 TTAATAAATTTTAAAATAAAATATT
1 TTAATAAATTTCAAAATAAAATATT
25500647 TTAATAAATTTCAAAATAAAATATT
1 TTAATAAATTTCAAAATAAAATATT
25500672 TT
1 TT
25500674 TTCTTTCAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
TTAATAAATTTCAAAATAAAATATT
Found at i:25501857 original size:20 final size:21
Alignment explanation
Indices: 25501813--25501867 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
25501803 ATGATACCCT
* *
25501813 TTTGTAATAATTTTTATAACA
1 TTTGTATTAATTTTGATAACA
*
25501834 TTTGTATTAATTTTGGTAAC-
1 TTTGTATTAATTTTGATAACA
25501854 TTTG-ATGTAATTTT
1 TTTGTAT-TAATTTT
25501868 AATTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.07
20 11 0.37
21 17 0.57
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.56
Consensus pattern (21 bp):
TTTGTATTAATTTTGATAACA
Found at i:25501882 original size:18 final size:18
Alignment explanation
Indices: 25501859--25501905 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
25501849 GTAACTTTGA
25501859 TGTAAT-TTTAATTATTTT
1 TGTAATATTTAA-TATTTT
25501877 TGTAATAATTTAATATTTT
1 TGTAAT-ATTTAATATTTT
25501896 T-TATATATTT
1 TGTA-ATATTT
25501906 TGATAACCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 12 0.46
19 9 0.35
20 5 0.19
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (18 bp):
TGTAATATTTAATATTTT
Found at i:25511196 original size:16 final size:16
Alignment explanation
Indices: 25511177--25511209 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
25511167 TTAATAAAAG
25511177 AAACGTTTCTTGAATA
1 AAACGTTTCTTGAATA
25511193 AAACGTTTCTTGAATA
1 AAACGTTTCTTGAATA
25511209 A
1 A
25511210 GACAAAGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (16 bp):
AAACGTTTCTTGAATA
Found at i:25519467 original size:16 final size:17
Alignment explanation
Indices: 25519431--25519467 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
25519421 TATTAAAATG
*
25519431 AAAAAATTTTATGTATC
1 AAAAAATTTTATGTATA
25519448 AAAAAATTTTAT-T-TA
1 AAAAAATTTTATGTATA
25519463 AAAAA
1 AAAAA
25519468 TAATAATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 6 0.32
16 1 0.05
17 12 0.63
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
AAAAAATTTTATGTATA
Found at i:25519774 original size:24 final size:24
Alignment explanation
Indices: 25519729--25519775 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
25519719 GACTATAATT
* * *
25519729 TAAATTTAATATATATTTAATATC
1 TAAAATTAATATAAATTAAATATC
*
25519753 TAAAATTAATTTAAATTAAATAT
1 TAAAATTAATATAAATTAAATAT
25519776 TATAATTTCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
TAAAATTAATATAAATTAAATATC
Found at i:25520430 original size:15 final size:16
Alignment explanation
Indices: 25520408--25520446 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
25520398 TATAAGATTG
*
25520408 ATTTTTTTCAAATTAA
1 ATTTTTTTAAAATTAA
25520424 ATTTTTTTAAAATTAA
1 ATTTTTTTAAAATTAA
25520440 ATTTTTT
1 ATTTTTT
25520447 GTCAGATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTTTTAAAATTAA
Found at i:25520950 original size:20 final size:20
Alignment explanation
Indices: 25520927--25521017 Score: 65
Period size: 20 Copynumber: 4.9 Consensus size: 20
25520917 ATATCAAACT
*
25520927 TGATAATTTAAAATATAATA
1 TGATAATATAAAATATAATA
*
25520947 TGATAATATAATATATAAT-
1 TGATAATATAAAATATAATA
*
25520966 TTA-AATATAATACA-ATAATA
1 TGATAATATAA-A-ATATAATA
25520986 TG---ATAT-AAATATAATA
1 TGATAATATAAAATATAATA
*
25521002 TG--AATATAAGATATAA
1 TGATAATATAAAATATAA
25521018 AAATAACATG
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
15 1 0.02
16 9 0.15
17 5 0.08
18 18 0.31
19 7 0.12
20 19 0.32
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.37
Consensus pattern (20 bp):
TGATAATATAAAATATAATA
Found at i:25520956 original size:13 final size:13
Alignment explanation
Indices: 25520938--25521004 Score: 57
Period size: 13 Copynumber: 4.9 Consensus size: 13
25520928 GATAATTTAA
25520938 AATATAATATGAT
1 AATATAATATGAT
25520951 AATATAATAT-AT
1 AATATAATATGAT
* *
25520963 AATTTAAATATAAT
1 AATAT-AATATGAT
25520977 ACA-ATAATATGATAT
1 A-ATATAATATG--AT
25520992 AAATATAATATGA
1 -AATATAATATGA
25521005 ATATAAGATA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
12 6 0.14
13 20 0.45
14 5 0.11
15 4 0.09
16 9 0.20
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (13 bp):
AATATAATATGAT
Found at i:25520975 original size:31 final size:31
Alignment explanation
Indices: 25520929--25521010 Score: 96
Period size: 31 Copynumber: 2.6 Consensus size: 31
25520919 ATCAAACTTG
*
25520929 ATAATTTAAAATATAATATGATAATATAATAT
1 ATAATTT-AAATATAATATAATAATATAATAT
* *
25520961 ATAATTTAAATATAATACAATAATATGATAT
1 ATAATTTAAATATAATATAATAATATAATAT
*
25520992 A-AATAT-AATATGAATATAA
1 ATAATTTAAATAT-AATATAA
25521011 GATATAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
29 5 0.11
30 10 0.23
31 22 0.50
32 7 0.16
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (31 bp):
ATAATTTAAATATAATATAATAATATAATAT
Found at i:25520994 original size:24 final size:23
Alignment explanation
Indices: 25520939--25521023 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 23
25520929 ATAATTTAAA
* *
25520939 ATATAATATGATAATATAATATATA
1 ATATAA-AT-ATAATACAATATATG
*
25520964 ATTTAAATATAATACAATAATATG
1 ATATAAATATAATACAAT-ATATG
* *
25520988 ATATAAATATAATATGAATATAAG
1 ATATAAATATAATA-CAATATATG
*
25521012 ATATAAAAATAA
1 ATATAAATATAA
25521024 CATGATTTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
23 9 0.18
24 34 0.67
25 8 0.16
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (23 bp):
ATATAAATATAATACAATATATG
Found at i:25521001 original size:16 final size:18
Alignment explanation
Indices: 25520939--25521017 Score: 72
Period size: 18 Copynumber: 4.3 Consensus size: 18
25520929 ATAATTTAAA
*
25520939 ATATAATATGATAATATAAT
1 ATATAATATG--AATATAAG
* * *
25520959 ATATAATTTAAATATAAT
1 ATATAATATGAATATAAG
*
25520977 ACAATAATATG-ATATAA-
1 A-TATAATATGAATATAAG
25520994 ATATAATATGAATATAAG
1 ATATAATATGAATATAAG
25521012 ATATAA
1 ATATAA
25521018 AAATAACATG
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
16 8 0.16
17 7 0.14
18 21 0.42
19 6 0.12
20 8 0.16
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.37
Consensus pattern (18 bp):
ATATAATATGAATATAAG
Found at i:25521002 original size:11 final size:11
Alignment explanation
Indices: 25520938--25521010 Score: 65
Period size: 11 Copynumber: 6.2 Consensus size: 11
25520928 GATAATTTAA
25520938 AATATAATATGAT
1 AATATAA-AT-AT
25520951 AATATAATATAT
1 AATATAA-ATAT
*
25520963 AATTTAAATAT
1 AATATAAATAT
*
25520974 AATACAATAATAT
1 AATA-TA-AATAT
*
25520987 GATATAAATAT
1 AATATAAATAT
*
25520998 AATATGAATAT
1 AATATAAATAT
25521009 AA
1 AA
25521011 GATATAAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
11 23 0.45
12 10 0.20
13 18 0.35
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (11 bp):
AATATAAATAT
Found at i:25524263 original size:22 final size:20
Alignment explanation
Indices: 25524235--25524278 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
25524225 TTGTATATAT
25524235 TATTTAATATAAAATTTTAATA
1 TATTTAA-AT-AAATTTTAATA
*
25524257 TATTTAAGTAAATTTTAATA
1 TATTTAAATAAATTTTAATA
25524277 TA
1 TA
25524279 AAATTATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.62
21 1 0.05
22 7 0.33
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TATTTAAATAAATTTTAATA
Found at i:25527345 original size:15 final size:16
Alignment explanation
Indices: 25527323--25527361 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
25527313 TATAAGATTG
*
25527323 ATTTTTTTCAAATTAA
1 ATTTTTTTAAAATTAA
25527339 ATTTTTTTAAAATTAA
1 ATTTTTTTAAAATTAA
25527355 ATTTTTT
1 ATTTTTT
25527362 GTCAGATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTTTTAAAATTAA
Found at i:25527508 original size:41 final size:40
Alignment explanation
Indices: 25527417--25527508 Score: 91
Period size: 41 Copynumber: 2.3 Consensus size: 40
25527407 ATTTATTGTT
* * *
25527417 TAATTTAT-ATTTATATATTATATTAATAAAATTATTATG
1 TAATATATAATTTATATATTATATTAATAAAAATATTATA
*
25527456 TAATATTTAATTTAATATATTA-ACTTAAT-AAAATATTATA
1 TAATATATAATTT-ATATATTATA-TTAATAAAAATATTATA
*
25527496 TTTATATATAATT
1 -TAATATATAATT
25527509 AAGATACATT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
39 6 0.14
40 14 0.33
41 23 0.53
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (40 bp):
TAATATATAATTTATATATTATATTAATAAAAATATTATA
Found at i:25527862 original size:20 final size:20
Alignment explanation
Indices: 25527839--25527930 Score: 65
Period size: 20 Copynumber: 4.9 Consensus size: 20
25527829 ATATCAAACT
*
25527839 TGATAATTTAAAATATAATA
1 TGATAATATAAAATATAATA
*
25527859 TGATAATATAATATATAAT-
1 TGATAATATAAAATATAATA
* *
25527878 TTAAAATATAATACA-ATAATA
1 TGATAATATAA-A-ATATAATA
25527899 TG---ATAT-AAATATAATA
1 TGATAATATAAAATATAATA
*
25527915 TG--AATATAAGATATAA
1 TGATAATATAAAATATAA
25527931 AAATAACATG
Statistics
Matches: 59, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
15 1 0.02
16 9 0.15
17 5 0.08
18 11 0.19
19 9 0.15
20 22 0.37
21 2 0.03
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.37
Consensus pattern (20 bp):
TGATAATATAAAATATAATA
Found at i:25527877 original size:32 final size:32
Alignment explanation
Indices: 25527841--25527905 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
25527831 ATCAAACTTG
**
25527841 ATAATTTAAAATATAATATGATAATATAATAT
1 ATAATTTAAAATATAATACAATAATATAATAT
*
25527873 ATAATTTAAAATATAATACAATAATATGATAT
1 ATAATTTAAAATATAATACAATAATATAATAT
25527905 A
1 A
25527906 AATATAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (32 bp):
ATAATTTAAAATATAATACAATAATATAATAT
Found at i:25527889 original size:24 final size:22
Alignment explanation
Indices: 25527861--25527984 Score: 72
Period size: 24 Copynumber: 5.3 Consensus size: 22
25527851 ATATAATATG
25527861 ATAATATAATATATAATTTAAAA
1 ATAATATAATATA-AATTTAAAA
* * * *
25527884 TATAATACAATAATATGATATAAAT
1 -ATAATATAAT-ATA-AATTTAAAA
*
25527909 ATAATATGAATATAAGATATAAAA
1 ATAATAT-AATATAA-ATTTAAAA
* * *
25527933 ATAACATGATTTAAAATTTTAAAA
1 ATAATATAATAT-AAA-TTTAAAA
25527957 ATAAT-TACATATAAATTTAATAA
1 ATAATATA-ATATAAATTTAA-AA
25527980 A-AATA
1 ATAATA
25527985 AAAAAAATAT
Statistics
Matches: 78, Mismatches: 14, Indels: 17
0.72 0.13 0.16
Matches are distributed among these distances:
22 8 0.10
23 11 0.14
24 46 0.59
25 13 0.17
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.35
Consensus pattern (22 bp):
ATAATATAATATAAATTTAAAA
Found at i:25527936 original size:40 final size:41
Alignment explanation
Indices: 25527847--25527947 Score: 102
Period size: 40 Copynumber: 2.5 Consensus size: 41
25527837 CTTGATAATT
* *
25527847 TAAAATATAATATG--AT-AATATAATATATAATTTAAAATA
1 TAAAA-ATAATATGATATAAATATAATATAGAATATAAAATA
*
25527886 TAATACAATAATATGATATAAATATAATAT-GAATATAAGATA
1 TAA-A-AATAATATGATATAAATATAATATAGAATATAAAATA
* *
25527928 TAAAAATAACATGATTTAAA
1 TAAAAATAATATGATATAAA
25527948 ATTTTAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
39 3 0.06
40 23 0.44
41 2 0.04
42 14 0.27
43 10 0.19
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (41 bp):
TAAAAATAATATGATATAAATATAATATAGAATATAAAATA
Found at i:25529381 original size:17 final size:16
Alignment explanation
Indices: 25529359--25529417 Score: 59
Period size: 17 Copynumber: 3.7 Consensus size: 16
25529349 TAATAATTGT
25529359 ATTATATTTTATATAAA
1 ATTATA-TTTATATAAA
*
25529376 ATTATATGT-TAT-AA
1 ATTATATTTATATAAA
*
25529390 TTTATATTTATATAAA
1 ATTATATTTATATAAA
*
25529406 AATATAATTTAT
1 ATTAT-ATTTAT
25529418 TTATTTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 9 0.26
15 6 0.18
16 7 0.21
17 12 0.35
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATTATATTTATATAAA
Done.