Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 33 of 126
Found at i:10049652 original size:20 final size:20
Alignment explanation
Indices: 10049595--10049668 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
10049585 CTCCAGTGAG
* *
10049595 ACTTCTACCGGTAGAACTCC
1 ACTTCTACCGATACAACTCC
* * *
10049615 ACTTTTACCGGTAGAACTCC
1 ACTTCTACCGATACAACTCC
**
10049635 ACTTCTACCGATACAACTAT
1 ACTTCTACCGATACAACTCC
*
10049655 AGTTCTACCGATAC
1 ACTTCTACCGATAC
10049669 CTTGAAGACT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.28
Consensus pattern (20 bp):
ACTTCTACCGATACAACTCC
Found at i:10052915 original size:17 final size:18
Alignment explanation
Indices: 10052888--10052921 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
10052878 GTATGTCACG
10052888 TTAACAATTAATTAATTT
1 TTAACAATTAATTAATTT
10052906 TTAA-AATTAATTAATT
1 TTAACAATTAATTAATT
10052922 ACTGAAATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAACAATTAATTAATTT
Found at i:10060783 original size:43 final size:44
Alignment explanation
Indices: 10060725--10060816 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 44
10060715 GTGTTAAATC
* * *
10060725 ATTTAACTATCATTTGTTATTATATTAAATTATTT-AAATATTT
1 ATTTAAATATAATTTGTAATTATATTAAATTATTTGAAATATTT
* * **
10060768 ATTTAAATATAATTTGTAATTATATTTAATTTTTTGTTATATTT
1 ATTTAAATATAATTTGTAATTATATTAAATTATTTGAAATATTT
10060812 ATTTA
1 ATTTA
10060817 TCATTAATTA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 30 0.73
44 11 0.27
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (44 bp):
ATTTAAATATAATTTGTAATTATATTAAATTATTTGAAATATTT
Found at i:10060793 original size:23 final size:22
Alignment explanation
Indices: 10060725--10060796 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 22
10060715 GTGTTAAATC
* *
10060725 ATTTAACTATCATTTGTTATTAT
1 ATTTAAATAT-ATTTGTAATTAT
* *
10060748 A-TTAAAT-TATTT-AAATATTT
1 ATTTAAATATATTTGTAAT-TAT
10060768 ATTTAAATATAATTTGTAATTAT
1 ATTTAAATAT-ATTTGTAATTAT
10060791 ATTTAA
1 ATTTAA
10060797 TTTTTTGTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
19 2 0.05
20 7 0.18
21 7 0.18
22 6 0.16
23 13 0.34
24 3 0.08
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (22 bp):
ATTTAAATATATTTGTAATTAT
Found at i:10061162 original size:31 final size:31
Alignment explanation
Indices: 10061104--10061162 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
10061094 TATACACATA
* *
10061104 AAATTTTAATTGTGGTTTAAATGTATATTTG
1 AAATTTTAATTGTGATTTAAATATATATTTG
* *
10061135 AAATTTTAATTTTGATTTAATTATATAT
1 AAATTTTAATTGTGATTTAAATATATAT
10061163 ATTTTATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (31 bp):
AAATTTTAATTGTGATTTAAATATATATTTG
Found at i:10066715 original size:27 final size:27
Alignment explanation
Indices: 10066661--10066716 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
10066651 TTTTCATTTG
*
10066661 AAATTAAAAAATTATATATCAAATTTA
1 AAATTAAAAAATTATATATCAAAGTTA
* * * *
10066688 AAATTAAAAAGTTTTATCTTAAAGTTA
1 AAATTAAAAAATTATATATCAAAGTTA
10066715 AA
1 AA
10066717 CATATACATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (27 bp):
AAATTAAAAAATTATATATCAAAGTTA
Found at i:10071973 original size:29 final size:28
Alignment explanation
Indices: 10071948--10072000 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
10071938 ACTTTTGGAT
10071948 ACTCGAG-GGGCAAAATGGTAATTTTGG
1 ACTCGAGAGGGCAAAATGGTAATTTTGG
* *
10071975 ACTTGTGAGGGCAAAATGGTAATTTT
1 ACTCGAGAGGGCAAAATGGTAATTTT
10072001 TGGTAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.09, G:0.30, T:0.30
Consensus pattern (28 bp):
ACTCGAGAGGGCAAAATGGTAATTTTGG
Found at i:10072066 original size:29 final size:28
Alignment explanation
Indices: 10072036--10072136 Score: 100
Period size: 29 Copynumber: 3.5 Consensus size: 28
10072026 ATTAGGGTTA
*
10072036 AAAATGG-AATTTTGGAAAGTTCGGGGGT
1 AAAATGGTAATTTTGGAAA-TTCGGGGAT
*
10072064 AAAATGGTAATTTTTGGTGAAA-TCGGGGTT
1 AAAATGGTAA-TTTT-G-GAAATTCGGGGAT
*
10072094 AAAAATAG-AATTTTGGAAAATTCGGGGAT
1 -AAAATGGTAATTTTGG-AAATTCGGGGAT
10072123 AAAATGGTAATTTT
1 AAAATGGTAATTTT
10072137 TAGAAGTTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
27 1 0.02
28 17 0.28
29 19 0.31
30 13 0.21
31 7 0.11
32 4 0.07
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.33
Consensus pattern (28 bp):
AAAATGGTAATTTTGGAAATTCGGGGAT
Found at i:10072094 original size:59 final size:59
Alignment explanation
Indices: 10072002--10072137 Score: 200
Period size: 59 Copynumber: 2.3 Consensus size: 59
10071992 GGTAATTTTT
* * * * *
10072002 GGTAAAATGGTAGTTTTTGATGGAATTAGGGTTAAAAATGGAATTTTGGAAAGTTCGGG
1 GGTAAAATGGTAATTTTTGATGAAATCAGGGTTAAAAATAGAATTTTGGAAAATTCGGG
* *
10072061 GGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTGGAAAATTCGGG
1 GGTAAAATGGTAATTTTTGATGAAATCAGGGTTAAAAATAGAATTTTGGAAAATTCGGG
*
10072120 GATAAAATGGTAATTTTT
1 GGTAAAATGGTAATTTTT
10072138 AGAAGTTTTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 69 1.00
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.35
Consensus pattern (59 bp):
GGTAAAATGGTAATTTTTGATGAAATCAGGGTTAAAAATAGAATTTTGGAAAATTCGGG
Found at i:10072174 original size:28 final size:29
Alignment explanation
Indices: 10072122--10072192 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
10072112 AATTCGGGGA
*
10072122 TAAAATGGTAATTTTTAGAAGTTTT-GGGT
1 TAAAAT-GTAATTTTTAGAAATTTTAGGGT
10072151 TAAAATGTAATTTTCT-GAAATTTTAGGGT
1 TAAAATGTAATTTT-TAGAAATTTTAGGGT
*
10072180 TAAAATGCAATTT
1 TAAAATGTAATTT
10072193 CTGGACTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 15 0.39
29 23 0.61
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (29 bp):
TAAAATGTAATTTTTAGAAATTTTAGGGT
Found at i:10072491 original size:162 final size:162
Alignment explanation
Indices: 10072293--10072765 Score: 793
Period size: 162 Copynumber: 2.9 Consensus size: 162
10072283 GTAAATCTTG
* *
10072293 AAAAATTCTTGGGCTAATTTGGTAATTAAATAAAAGTTGATTTAGGGATTAAATTAAAACAAATC
1 AAAAATTCTTGGGCCAATTTCGTAATTAAATAAAAGTTGATTTAGGGATTAAATTAAAACAAATC
*
10072358 AAAAGTAACAAGGACTAGATGTATAAATAAACCAAAAGGTGACACGTGGCAACCTCTGGTGCAGT
66 AAAAGTAACAAGGACTAGATGTATAAATAAGCCAAAAGGTGACACGTGGCAACCTCTGGTGCAGT
10072423 CAAACAGTCAAAGGACTAATTTATAAACCCTA
131 CAAACAGTCAAAGGACTAATTTATAAACCCTA
* *
10072455 AAAAATTCATGGGCCAATTTCGTAATTAAATAAAAGTTGATTTAGGAATTAAATTAAAACAAATC
1 AAAAATTCTTGGGCCAATTTCGTAATTAAATAAAAGTTGATTTAGGGATTAAATTAAAACAAATC
* * ***
10072520 AAAAGTAACAAGGACTAGATGTATAAATGAGCTAAAAGGTGACACGTGGCAGTTTCTGGTGCAGT
66 AAAAGTAACAAGGACTAGATGTATAAATAAGCCAAAAGGTGACACGTGGCAACCTCTGGTGCAGT
*
10072585 CAAACAGTCAAAAGACTAATTTATAAACCCTA
131 CAAACAGTCAAAGGACTAATTTATAAACCCTA
* * * *
10072617 AAAAATTCTTGAGCCAATTTTGTCATTAAATAAAAGTTGATTTAGGGATTAAATTAAAACAAATT
1 AAAAATTCTTGGGCCAATTTCGTAATTAAATAAAAGTTGATTTAGGGATTAAATTAAAACAAATC
* *
10072682 AAAAGTAACAAGGACTAGATGTATAAATAAGCCAAAATGTGACACGTGGCAACCTCTGGTGCAAT
66 AAAAGTAACAAGGACTAGATGTATAAATAAGCCAAAAGGTGACACGTGGCAACCTCTGGTGCAGT
10072747 CAAACAGTCAAAGGACTAA
131 CAAACAGTCAAAGGACTAA
10072766 ATTGAAAGCT
Statistics
Matches: 286, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
162 286 1.00
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.26
Consensus pattern (162 bp):
AAAAATTCTTGGGCCAATTTCGTAATTAAATAAAAGTTGATTTAGGGATTAAATTAAAACAAATC
AAAAGTAACAAGGACTAGATGTATAAATAAGCCAAAAGGTGACACGTGGCAACCTCTGGTGCAGT
CAAACAGTCAAAGGACTAATTTATAAACCCTA
Found at i:10073540 original size:3 final size:3
Alignment explanation
Indices: 10073532--10073556 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10073522 TTTAATATAA
10073532 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
10073557 ACGGCCATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:10073602 original size:3 final size:3
Alignment explanation
Indices: 10073589--10073664 Score: 62
Period size: 3 Copynumber: 24.7 Consensus size: 3
10073579 AATATCATAT
* * *
10073589 TTA TTA TTTA TTA TTA TTA TTA TAA CTA TTA TTA ATA TTCA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
** * * *
10073636 GGA TTA TTA GTA ATA TTA TGA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10073665 GTCATTGATG
Statistics
Matches: 56, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
3 50 0.89
4 6 0.11
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:10073643 original size:25 final size:24
Alignment explanation
Indices: 10073589--10073659 Score: 70
Period size: 25 Copynumber: 2.9 Consensus size: 24
10073579 AATATCATAT
* *
10073589 TTATTATTTATTATTATTATTATAA
1 TTATTA-TTAATATTATTATTAGAA
* *
10073614 CTATTATTAATATTCATTATTAGGA
1 TTATTATTAATATT-ATTATTAGAA
* *
10073639 TTATTAGTAATATTATGATTA
1 TTATTATTAATATTATTATTA
10073660 TTATTGTCAT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
24 13 0.34
25 25 0.66
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.55
Consensus pattern (24 bp):
TTATTATTAATATTATTATTAGAA
Found at i:10074330 original size:6 final size:6
Alignment explanation
Indices: 10074307--10074398 Score: 64
Period size: 6 Copynumber: 15.5 Consensus size: 6
10074297 TTTTATTATT
* **
10074307 AATTTA AATTTT AA-TTA AATTTA AATTTA AA-GCA AATTTA AATTTTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AA--TTTA
* ** ***
10074355 CATTTA AATTTA AA-ACA AATTTA AATTTA ACCATA AATTTA AAT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AAT
10074399 CTTGTTCAAA
Statistics
Matches: 63, Mismatches: 18, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
5 10 0.16
6 48 0.76
8 5 0.08
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.43
Consensus pattern (6 bp):
AATTTA
Found at i:10074363 original size:31 final size:32
Alignment explanation
Indices: 10074307--10074383 Score: 111
Period size: 31 Copynumber: 2.4 Consensus size: 32
10074297 TTTTATTATT
*
10074307 AATTTAAATTTTAATTAAATTTAAATTTAAAGCA
1 AATTTAAA-TTT-ATTAAATTTAAATTTAAAACA
*
10074341 AATTTAAATTT-TTACATTTAAATTTAAAACA
1 AATTTAAATTTATTAAATTTAAATTTAAAACA
10074372 AATTTAAATTTA
1 AATTTAAATTTA
10074384 ACCATAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
31 29 0.73
33 3 0.08
34 8 0.20
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (32 bp):
AATTTAAATTTATTAAATTTAAATTTAAAACA
Found at i:10074394 original size:18 final size:17
Alignment explanation
Indices: 10074307--10074398 Score: 82
Period size: 17 Copynumber: 5.5 Consensus size: 17
10074297 TTTTATTATT
* **
10074307 AATTTAAATTTTAATTA
1 AATTTAAATTTAAAACA
*
10074324 AATTTAAATTTAAAGCA
1 AATTTAAATTTAAAACA
**
10074341 AATTTAAATTT-TTAC-
1 AATTTAAATTTAAAACA
10074356 -ATTTAAATTTAAAACA
1 AATTTAAATTTAAAACA
* *
10074372 AATTTAAATTTAACCATA
1 AATTTAAATTTAA-AACA
10074390 AATTTAAAT
1 AATTTAAAT
10074399 CTTGTTCAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
14 10 0.16
15 2 0.03
16 1 0.02
17 37 0.61
18 11 0.18
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.43
Consensus pattern (17 bp):
AATTTAAATTTAAAACA
Found at i:10089047 original size:19 final size:20
Alignment explanation
Indices: 10089001--10089047 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
10088991 TATGGAAACA
* *
10089001 TTAAGTTTAAGATAATTTTT
1 TTAATTTTAAAATAATTTTT
* *
10089021 TGAGTTTTAAAAT-ATTTTT
1 TTAATTTTAAAATAATTTTT
10089040 TTAATTTT
1 TTAATTTT
10089048 TAATTTATGA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.60
Consensus pattern (20 bp):
TTAATTTTAAAATAATTTTT
Found at i:10089048 original size:20 final size:20
Alignment explanation
Indices: 10089001--10089050 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
10088991 TATGGAAACA
*
10089001 TTAAG-TTTAAGATAATTTT
1 TTAAGTTTTAAAATAATTTT
* *
10089020 TTGAGTTTTAAAATATTTTT
1 TTAAGTTTTAAAATAATTTT
*
10089040 TTAATTTTTAA
1 TTAAGTTTTAA
10089051 TTTATGAGAC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TTAAGTTTTAAAATAATTTT
Found at i:10093342 original size:11 final size:11
Alignment explanation
Indices: 10093328--10093374 Score: 58
Period size: 11 Copynumber: 4.0 Consensus size: 11
10093318 TGATTGGTTG
10093328 ATTATTTTATT
1 ATTATTTTATT
10093339 ATTATTTTATT
1 ATTATTTTATT
*
10093350 ATAAGATATTTATT
1 AT--TAT-TTTATT
10093364 ATTATTTTATT
1 ATTATTTTATT
10093375 TGATTAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
11 19 0.61
12 2 0.06
13 2 0.06
14 8 0.26
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:10095709 original size:6 final size:6
Alignment explanation
Indices: 10095698--10095788 Score: 128
Period size: 6 Copynumber: 15.2 Consensus size: 6
10095688 GATGGCTGAT
* * * *
10095698 GATGCA GATGCA GATGCA GGTGCA GGTGCA GGTGCA GATGCA GGTGCA
1 GATGCA GATGCA GATGCA GATGCA GATGCA GATGCA GATGCA GATGCA
* *
10095746 GATGCA GGTGCA GGTGCA GATGCA GATGCA GATGCA GATGCA G
1 GATGCA GATGCA GATGCA GATGCA GATGCA GATGCA GATGCA G
10095789 CTTGTCACGG
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 79 1.00
ACGTcount: A:0.26, C:0.16, G:0.41, T:0.16
Consensus pattern (6 bp):
GATGCA
Found at i:10098287 original size:29 final size:30
Alignment explanation
Indices: 10098231--10098300 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 30
10098221 AATTAGTAAA
* *
10098231 GATAAAATTATACTTTAACCCTTAAAAATT
1 GATAAAATTATAATTTAACCCTTAAAAAAT
* * *
10098261 GATAAAATT-TAATTTAATCTTTTAAAAAT
1 GATAAAATTATAATTTAACCCTTAAAAAAT
*
10098290 -ATAAAAATATA
1 GATAAAATTATA
10098301 GACTATTCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 7 0.21
29 17 0.52
30 9 0.27
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.39
Consensus pattern (30 bp):
GATAAAATTATAATTTAACCCTTAAAAAAT
Found at i:10098765 original size:20 final size:20
Alignment explanation
Indices: 10098723--10098765 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
10098713 TATTCAAATA
* *
10098723 ATTATTTTTATTTATTTCGT
1 ATTATTTTTAATTATTTCAT
10098743 ATTATATTTTAATTATTT-AT
1 ATTAT-TTTTAATTATTTCAT
10098763 ATT
1 ATT
10098766 TGAAATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
ATTATTTTTAATTATTTCAT
Found at i:10116108 original size:5 final size:5
Alignment explanation
Indices: 10116098--10116131 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
10116088 TAAAAAATAA
10116098 TTCTT TTCTT TTCTT TTCTTT TTCTTT TTCTT TT
1 TTCTT TTCTT TTCTT TTC-TT TTC-TT TTCTT TT
10116132 TTGCCACAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 17 0.61
6 11 0.39
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTCTT
Found at i:10116113 original size:10 final size:10
Alignment explanation
Indices: 10116098--10116131 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
10116088 TAAAAAATAA
10116098 TTCTTTTCTT
1 TTCTTTTCTT
10116108 TTCTTTTCTTT
1 TTCTTTTC-TT
10116119 TTCTTTTTCTT
1 TTC-TTTTCTT
10116130 TT
1 TT
10116132 TTGCCACAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.36
11 9 0.41
12 5 0.23
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTCTTTTCTT
Found at i:10116122 original size:6 final size:6
Alignment explanation
Indices: 10116101--10116132 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
10116091 AAAATAATTC
10116101 TTTTC- TTTTC- TTTTCT TTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
10116133 TGCCACAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:10116180 original size:21 final size:23
Alignment explanation
Indices: 10116156--10116198 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
10116146 ATTTTACTTC
10116156 ATTATA-TTTTA-AATAGATTTT
1 ATTATATTTTTAGAATAGATTTT
10116177 ATTATATTTTTAGAATAGATTT
1 ATTATATTTTTAGAATAGATTT
10116199 AACGGTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
22 5 0.25
23 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (23 bp):
ATTATATTTTTAGAATAGATTTT
Found at i:10116983 original size:56 final size:56
Alignment explanation
Indices: 10116894--10117019 Score: 157
Period size: 56 Copynumber: 2.2 Consensus size: 56
10116884 AATACGAATA
* * *
10116894 AAAAATATCTTTTTGGGTGTTTTCCACCCAATAGCCTACGTCACCTTTTCC-AAATTT
1 AAAAATAT-TTTTTGAGTGTTTTCCACCCAATAGCCTACATCA-CATTTCCTAAATTT
* * *
10116951 AAAAATATTTTTTGAGTGTTTGT-CATCTAATAGCCTACATCACATTTCCTATATTT
1 AAAAATATTTTTTGAGTGTTT-TCCACCCAATAGCCTACATCACATTTCCTAAATTT
10117007 AAAAATATTTTTT
1 AAAAATATTTTTT
10117020 TGGATGTTGG
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
55 6 0.10
56 46 0.75
57 9 0.15
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (56 bp):
AAAAATATTTTTTGAGTGTTTTCCACCCAATAGCCTACATCACATTTCCTAAATTT
Found at i:10117593 original size:59 final size:58
Alignment explanation
Indices: 10117527--10117661 Score: 168
Period size: 59 Copynumber: 2.3 Consensus size: 58
10117517 TGGTAAACAT
** * * *
10117527 AAAAAAATATTTTTATATTT-GGAAAAGATGGTGTAAGTCATTAGG-TAGTAAACATCCGA
1 AAAAAAATATTTTTATATTTAAAAAAAG-TGGTGTAAGCCATT-GGATAGCAAACA-CCCA
*
10117586 AAAAAAATATTTTTAAATTTAAAAAAAGTGGTGTAAGCCATTGGATAGCAAACACCCA
1 AAAAAAATATTTTTATATTTAAAAAAAGTGGTGTAAGCCATTGGATAGCAAACACCCA
10117644 AAAAAAATATTTTT-TATT
1 AAAAAAATATTTTTATATT
10117662 CTTATTTTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
57 3 0.04
58 19 0.28
59 40 0.60
60 5 0.07
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (58 bp):
AAAAAAATATTTTTATATTTAAAAAAAGTGGTGTAAGCCATTGGATAGCAAACACCCA
Found at i:10124626 original size:28 final size:28
Alignment explanation
Indices: 10124586--10124639 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
10124576 TATATCCGAT
*
10124586 TTACTCCCTGTTGACCTAAAGGTCATGC
1 TTACTCCCTGTTGACCCAAAGGTCATGC
10124614 TTACTCCCTGTTGACCCAAAGGTCAT
1 TTACTCCCTGTTGACCCAAAGGTCAT
10124640 AATGCTCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.31
Consensus pattern (28 bp):
TTACTCCCTGTTGACCCAAAGGTCATGC
Found at i:10124712 original size:36 final size:36
Alignment explanation
Indices: 10124614--10124712 Score: 162
Period size: 36 Copynumber: 2.8 Consensus size: 36
10124604 AAGGTCATGC
*
10124614 TTACTCCCTGTTGACCCAAAGGTCATAATGCTCATT
1 TTACTCCCTGTTGACCCAAAGGTCATGATGCTCATT
*
10124650 TTACTCCCCGTTGACCCAAAGGTCATGATGCTCATT
1 TTACTCCCTGTTGACCCAAAGGTCATGATGCTCATT
* *
10124686 TTACTTCCTGTTGACCTAAAGGTCATG
1 TTACTCCCTGTTGACCCAAAGGTCATG
10124713 CCTGTTACCA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 58 1.00
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.33
Consensus pattern (36 bp):
TTACTCCCTGTTGACCCAAAGGTCATGATGCTCATT
Found at i:10132234 original size:21 final size:21
Alignment explanation
Indices: 10132210--10132268 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
10132200 TTTTCACTAA
*
10132210 TTTAATATATAAAATATTTAT
1 TTTAATATATAAAATATTGAT
*
10132231 TTT-ATTTACTAAAA-ATTGAT
1 TTTAATATA-TAAAATATTGAT
*
10132251 TATAATATGATAAAATAT
1 TTTAATAT-ATAAAATAT
10132269 AGAACTCAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
20 11 0.37
21 16 0.53
22 3 0.10
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (21 bp):
TTTAATATATAAAATATTGAT
Found at i:10132605 original size:19 final size:19
Alignment explanation
Indices: 10132581--10132621 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
10132571 CATTAATTTT
10132581 AAAAAATATTTTT-AGAATA
1 AAAAAATATTTTTGAG-ATA
10132600 AAAAAATATTTTTGAGATA
1 AAAAAATATTTTTGAGATA
10132619 AAA
1 AAA
10132622 GTATTGCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (19 bp):
AAAAAATATTTTTGAGATA
Found at i:10137730 original size:3 final size:3
Alignment explanation
Indices: 10137722--10137746 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10137712 TATTTCTCAG
10137722 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
10137747 TTTCTTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:10143893 original size:21 final size:22
Alignment explanation
Indices: 10143843--10143895 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
10143833 TATTAAATCT
10143843 TAAATTTTAAATCTCGAATCCC
1 TAAATTTTAAATCTCGAATCCC
* *
10143865 -GAATTTTAAATCTTGAA-CCC
1 TAAATTTTAAATCTCGAATCCC
*
10143885 TAAACTTTAAA
1 TAAATTTTAAA
10143896 CCCAAAATCC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.36
Consensus pattern (22 bp):
TAAATTTTAAATCTCGAATCCC
Found at i:10143966 original size:13 final size:14
Alignment explanation
Indices: 10143943--10143985 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
10143933 GAACCTCAAA
10143943 CTCGAATCTTAAAC
1 CTCGAATCTTAAAC
10143957 CTCGAA-CTTAAAC
1 CTCGAATCTTAAAC
** *
10143970 CTTAAATCTTGAAC
1 CTCGAATCTTAAAC
10143984 CT
1 CT
10143986 TATACTCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (14 bp):
CTCGAATCTTAAAC
Found at i:10153037 original size:16 final size:17
Alignment explanation
Indices: 10153009--10153055 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
10152999 CTGTTCCACC
10153009 TATTT-AAATAATATG-T
1 TATTTCAAA-AATATGAT
10153025 TATTTCAAAAATATGAT
1 TATTTCAAAAATATGAT
* *
10153042 AATTACAAAAATAT
1 TATTTCAAAAATAT
10153056 TATGCTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (17 bp):
TATTTCAAAAATATGAT
Found at i:10161128 original size:20 final size:20
Alignment explanation
Indices: 10161091--10161129 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10161081 ATATTCTTAT
* **
10161091 TATAATTTTTATTCTTTTTA
1 TATAATTTTAATGATTTTTA
10161111 TATAATTTTAATGATTTTT
1 TATAATTTTAATGATTTTT
10161130 TATTCTTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (20 bp):
TATAATTTTAATGATTTTTA
Found at i:10162679 original size:565 final size:563
Alignment explanation
Indices: 10161536--10162972 Score: 1651
Period size: 565 Copynumber: 2.5 Consensus size: 563
10161526 CGATCAGCTA
* * *
10161536 ATTTACGATCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGAACTAGTTCTAAGCAT
1 ATTTACGTTCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGACCTA--TATAAGCAT
* * *
10161601 -GCCAAAGATTATTTTCAACTAGCTAATTCTGACCTCTTTGCCCTTCAGAGCAAGTTAGATGCTT
64 GGCTAGAGATT-TTTTCAACTAGCTAATT-TGACCTC-TTGCCCTTCAGAGCAAGTTAGATGCTA
** * * * * *
10161665 GAGATGATGAAAATAGGCATGTTGAGGAAGAAGTCAAAACTGACCTTGAAAGGAGGATG-A-AGG
126 GAGATGATGAATGTAGACATGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAGGAGGAAGAGG
* * * *
10161728 AATTAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTCTCTTT-ACCATACATTTGAAAG
191 AATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTT-T-TTTCACCGTACATCTG-AAC
* * *
10161792 GAAGCTTGAAATGGATCGATCTAC-TAAAAAAACAGGAACTTTCTGAAATCCTTTAGCTGATTTA
253 GAAGCTTGAAATGGATCGATCTACTTAAAAAAACAGAAACTTTCTGAAATCATTTAGCTAATTTA
* * * *
10161856 CGATCACGACCTTCTACTTACAAGATTATACGAATCTCACGATTTGCTAATTTACTATCAAAATA
318 CGACCACGACCTTCTACCTACAAGATTATACGAATCTCACGATTCGCTAATTTACGATCAAAATA
* *
10161921 GTCATTTTTAAAGCTCACTGATTTTCGATCACGACTTTAGTTCATTGATATACGATCATGAACAC
383 GTCATTTTTAAAGCTCACTGATTTTCGATCACGACTTTAATTCATTGATATACGATAATGAACAC
* *
10161986 TTCATTAAGAGTTCTCCAATTTACGATCGCAACTCCACTTAAATAATTCGCTGATTTACGATGAC
448 TTCATTAAGAGTTCTCCAATTTACGATCGCAACTCCACTTAAATAATTCGCTGACTTACGATCAC
* * *
10162051 AACAATCATTTTTAAAGCTCACTGATTTAAAATCACGACTTCAGTTCATTG
513 AACAATCAGTTTTAAAGCTCACTAATTTAAAATCACAACTTCAGTTCATTG
* * *
10162102 ATTTATGTTCATGAACACTTCTTGGTTCACAAGAAATGTAAATTTGTTGACCTA-AT-AGCATGG
1 ATTTACGTTCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGACCTATATAAGCATGG
* **
10162165 CTAGAGATTTTTTCAACTAGCTAATTTGGCCTCTATGCCCTTCAGAGTGAGTTAGATGCTAGAGA
66 CTAGAGATTTTTTCAACTAGCTAATTTGACCTCT-TGCCCTTCAGAGCAAGTTAGATGCTAGAGA
* *
10162230 TGATGACTGTAGAC-GGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAGGAGGACAGAGGAAT
130 TGATGAATGTAGACATGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAGGAGGA-AGAGGAAT
* *
10162294 CCATTTTGTTACATTTTCTTTGTGAGGCTGAAGCTACTTTTTTCACCGTACATCTGAACTGAAGC
194 CAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTTTTTCACCGTACATCTGAAC-GAAGC
* *
10162359 TTAAAATGGATCGATCTACTTAAAAAAGCAAGAAACTTTCTGAAAT-ATTTCAGCTAATTTACGA
258 TTGAAATGGATCGATCTACTTAAAAAAAC-AGAAACTTTCTGAAATCATTT-AGCTAATTTACGA
* * * * * * * *
10162423 CCACGA-CTTCTACCTGC-AGTATTTTACGAATCTCATGGTTCGTTGATTTACGATCATAACT-T
321 CCACGACCTTCTACCTACAAG-ATTATACGAATCTCACGATTCGCTAATTTACGATCA-AAATAG
* * ** * * *
10162485 TCATTTTTAAAGCTCGCTAGTTTTTTTTATCATG-GTTTCAATTCATTGATTTACGATAATGAAC
384 TCATTTTTAAAGCTCACT-G-ATTTTCGATCACGACTTT-AATTCATTGATATACGATAATGAAC
* * * *
10162549 ACTTCATTAATAGTT-TGCCAATTTACGATCGCAACTCCACTTAAGTAGTTTGCTGACTTACGAT
446 ACTTCATTAAGAGTTCT-CCAATTTACGATCGCAACTCCACTTAAATAATTCGCTGACTTACGAT
* * * * *
10162613 CACAA-ATGTCAGTTTTAGAGCTCCCTAATTTACAATCACAACTTCAGTTTATTG
510 CACAACA-ATCAGTTTTAAAGCTCACTAATTTAAAATCACAACTTCAGTTCATTG
*
10162667 ATTTACGTTCATGAACACTTCTTGGTTTC-GAAGGAATGTAAATTTGCTGACCTAATTATAAGCA
1 ATTTACGTTCATGAACACTTCTTGG-TTCACAAGGAATGTAAATTTGCTGACCT-A-TATAAGCA
* * ** * *
10162731 TGG-TAAGAGATGATTTTCAAATAGCTTGTTTTGACCTCTTCGCCTTTCGGAGCAAGTTAGATGC
63 TGGCT-AGAGAT-TTTTTCAACTAGC-TAATTTGACCTCTT-GCCCTTCAGAGCAAGTTAGATGC
* * *
10162795 TA-AGGATGATGAATGTAGACATGTTGAGAAAGAACTCAAAACTAACCATGAAAGAAGGAGCATA
124 TAGA-GATGATGAATGTAGACATGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAGGAGGA-A
* * * *
10162859 GAGGAATCAATTATGTTAAATTGTCTTTGTGAGGCTGAAG---C-TTCTTCATCCGTACATCTTA
187 GAGGAATCAATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTTTTTCA-CCGTACATC-TG
* * * *
10162920 AACGAGGCTTGAAATGGATCGATCT-GTTAAAAAAAACATGGAACTTTTTGAAA
250 AACGAAGCTTGAAATGGATCGATCTACTT-AAAAAAACA-GAAACTTTCTGAAA
10162973 AGCTTCAACT
Statistics
Matches: 741, Mismatches: 98, Indels: 61
0.82 0.11 0.07
Matches are distributed among these distances:
560 36 0.05
561 48 0.06
562 59 0.08
563 117 0.16
564 41 0.06
565 176 0.24
566 53 0.07
568 12 0.02
569 62 0.08
570 17 0.02
571 46 0.06
572 74 0.10
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (563 bp):
ATTTACGTTCATGAACACTTCTTGGTTCACAAGGAATGTAAATTTGCTGACCTATATAAGCATGG
CTAGAGATTTTTTCAACTAGCTAATTTGACCTCTTGCCCTTCAGAGCAAGTTAGATGCTAGAGAT
GATGAATGTAGACATGTTGAGGAAGAACTCAAAACTAACCTTGAAAGAAGGAGGAAGAGGAATCA
ATTTTGTTACATTGTCTTTGTGAGGCTGAAGCTACTTTTTTCACCGTACATCTGAACGAAGCTTG
AAATGGATCGATCTACTTAAAAAAACAGAAACTTTCTGAAATCATTTAGCTAATTTACGACCACG
ACCTTCTACCTACAAGATTATACGAATCTCACGATTCGCTAATTTACGATCAAAATAGTCATTTT
TAAAGCTCACTGATTTTCGATCACGACTTTAATTCATTGATATACGATAATGAACACTTCATTAA
GAGTTCTCCAATTTACGATCGCAACTCCACTTAAATAATTCGCTGACTTACGATCACAACAATCA
GTTTTAAAGCTCACTAATTTAAAATCACAACTTCAGTTCATTG
Found at i:10163349 original size:371 final size:370
Alignment explanation
Indices: 10162664--10163419 Score: 913
Period size: 371 Copynumber: 2.0 Consensus size: 370
10162654 CTTCAGTTTA
* * * * *
10162664 TTGATTTACGTTCATGAACACTTCTTGGTTTCGAAGGAATGTAAATTTGCTGACCTAATTATAAG
1 TTGATTTACGATCATGAACACTTCTTAGTTTCCAAGGAATGTAAATTTGCTAAACTAATTATAAG
** * ** *
10162729 CATGGTAAGAGATGATTTTCAAATAGCTTGTTTTGACCTCTTCGCCTTTCGGAGCAAGTTAGATG
66 CATGACAAGAGATGATTTCCAAATAGCTAATTTTGACCTCTTCGCCCTTCGGAGCAAGTTAGATG
* * *
10162794 CTAAGGATGATGAATGTAGACATGTTGAGAAAGAACTCAAAACTAACCATGAAAGAAGGAGCATA
131 CTAAGGATGATGAATATAGACATGTTAAGAAAGAACTCAAAACTAACCATGAAAGAAGGAGCACA
* * *
10162859 GAGGAATCAATTATGTTAAATTGTCTTTGTGAGGCTGAAGCTTCTTCATCCGTACATCTTAAACG
196 GAGGAATCAATTATGTTAAATTGTCTTTGTAAGGCTAAAGCTTCTTCATCCGTACATCTGAAACG
* * ** * *
10162924 AGGCTTGAAATGGATCGATCTGTTAAAAAAAACATGGAACTTTTTGAAAAGCTTCAACTGATTTA
261 AGGCCTGAAATGGATCAATCTACT-AAAAAAACAAGGAACTTTCTGAAAAGCTTCAACTGATTTA
* * *
10162989 CAGTCATAACATTCTACTTATAGGATTTTACGAATCTCACGGTCAG
325 CAATCACAACATTCTACTTAAAGGATTTTACGAATCTCACGGTCAG
* * *
10163035 TTGATTTACGATCATGAACACTTCTTAG-TTCACAATGAATGTAAATTTGCTAAACTAGTTCTAA
1 TTGATTTACGATCATGAACACTTCTTAGTTTC-CAAGGAATGTAAATTTGCTAAACTAATTATAA
* * *
10163099 GCATGACAAGAGATTATTTCCAACTAGCTAATTTTGACCT-TTCTGCCCTTCTGAGCAAGTTAGA
65 GCATGACAAGAGATGATTTCCAAATAGCTAATTTTGACCTCTTC-GCCCTTCGGAGCAAGTTAGA
* * * * *
10163163 TGCT-AGAGATGATGAATATAGGCGTGTTAAGGAAGAACTCAAAATTGA-CATTGAAAGAAGGAA
129 TGCTAAG-GATGATGAATATAGACATGTTAAGAAAGAACTCAAAACTAACCA-TGAAAGAAGG-A
*
10163226 G-ACAGAGGAATCAATT-TTTTACAA-TGTCTTTGTAAGGCTAAAGCTACCTCTCTTCA-CCGTA
191 GCACAGAGGAATCAATTATGTTA-AATTGTCTTTGTAAGGCTAAAG----CT-TCTTCATCCGTA
* *
10163287 -GTCTGAAATGAGGCCTGAAATGGATCAATCTACT-AAAAAACAAGGAACTTTCT-AACAAGCTT
250 CATCTGAAACGAGGCCTGAAATGGATCAATCTACTAAAAAAACAAGGAACTTTCTGAA-AAGCTT
** * * *
10163349 CAGTTGATTTACAATCACAACCTTCTACTTAAAGGATTTTACGAATCTCACTGTCCG
314 CAACTGATTTACAATCACAACATTCTACTTAAAGGATTTTACGAATCTCACGGTCAG
10163406 TTGATTTACGATCA
1 TTGATTTACGATCA
10163420 CAACTGTTAT
Statistics
Matches: 328, Mismatches: 45, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
370 33 0.10
371 253 0.77
372 2 0.01
373 27 0.08
374 7 0.02
375 6 0.02
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (370 bp):
TTGATTTACGATCATGAACACTTCTTAGTTTCCAAGGAATGTAAATTTGCTAAACTAATTATAAG
CATGACAAGAGATGATTTCCAAATAGCTAATTTTGACCTCTTCGCCCTTCGGAGCAAGTTAGATG
CTAAGGATGATGAATATAGACATGTTAAGAAAGAACTCAAAACTAACCATGAAAGAAGGAGCACA
GAGGAATCAATTATGTTAAATTGTCTTTGTAAGGCTAAAGCTTCTTCATCCGTACATCTGAAACG
AGGCCTGAAATGGATCAATCTACTAAAAAAACAAGGAACTTTCTGAAAAGCTTCAACTGATTTAC
AATCACAACATTCTACTTAAAGGATTTTACGAATCTCACGGTCAG
Found at i:10174527 original size:27 final size:27
Alignment explanation
Indices: 10174497--10174549 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
10174487 TTAGAGTTAG
*
10174497 AAGAAGAAAAAGGAAA-TAGAGAGAAAA
1 AAGAAG-AAAAGGAAACTAGAAAGAAAA
*
10174524 AAGAAGAAGAGGAAACTAGAAAGAAA
1 AAGAAGAAAAGGAAACTAGAAAGAAA
10174550 GGAAGGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.68, C:0.02, G:0.26, T:0.04
Consensus pattern (27 bp):
AAGAAGAAAAGGAAACTAGAAAGAAAA
Found at i:10178461 original size:28 final size:28
Alignment explanation
Indices: 10178430--10178491 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
10178420 ATATATTTTG
10178430 ATTTAATCTTTATATTTTTAATTTT-AAA
1 ATTTAATCTTTAT-TTTTTAATTTTAAAA
* *
10178458 ATTTAGTCTTTATTTTTTGATTTTAAAA
1 ATTTAATCTTTATTTTTTAATTTTAAAA
10178486 ATTTAA
1 ATTTAA
10178492 ATGTAGTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 10 0.33
28 20 0.67
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (28 bp):
ATTTAATCTTTATTTTTTAATTTTAAAA
Found at i:10182416 original size:36 final size:38
Alignment explanation
Indices: 10182349--10182421 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
10182339 TATTTTATAT
* *
10182349 TTTTAATTATATATTATTTATTTTAGTTTTTTAAAATC
1 TTTTAATTATATATTATGTATTATAGTTTTTTAAAATC
*
10182387 TTTTATATTATATA-TATGTATTAT-GTTTTTAAAAA
1 TTTTA-ATTATATATTATGTATTATAGTTTTTTAAAA
10182422 AATATATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 10 0.32
38 13 0.42
39 8 0.26
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (38 bp):
TTTTAATTATATATTATGTATTATAGTTTTTTAAAATC
Found at i:10183737 original size:22 final size:23
Alignment explanation
Indices: 10183698--10183742 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
10183688 TGGCAGACTA
10183698 TGTCTCAAGACCATCTGC-CAAT
1 TGTCTCAAGACCATCTGCTCAAT
*
10183720 TGTCTCTAGA-CATACTGCTCAAT
1 TGTCTCAAGACCAT-CTGCTCAAT
10183743 ATTTGAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 3 0.15
22 13 0.65
23 4 0.20
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (23 bp):
TGTCTCAAGACCATCTGCTCAAT
Found at i:10187591 original size:19 final size:19
Alignment explanation
Indices: 10187567--10187606 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10187557 ATTAAAAAAT
*
10187567 ATTTTAAT-AGTTTTTTTTA
1 ATTTTAATGA-TTTTTTATA
10187586 ATTTTAATGATTTTTTATA
1 ATTTTAATGATTTTTTATA
10187605 AT
1 AT
10187607 GCTTTGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (19 bp):
ATTTTAATGATTTTTTATA
Found at i:10192925 original size:18 final size:18
Alignment explanation
Indices: 10192898--10192933 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
10192888 AAATTTTTAC
*
10192898 AATTCGAATAAATCAAAT
1 AATTCAAATAAATCAAAT
*
10192916 AATTCAAATAACTCAAAT
1 AATTCAAATAAATCAAAT
10192934 GACATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.28
Consensus pattern (18 bp):
AATTCAAATAAATCAAAT
Found at i:10193054 original size:19 final size:19
Alignment explanation
Indices: 10193008--10193062 Score: 76
Period size: 18 Copynumber: 2.9 Consensus size: 19
10192998 TCAACAAAAT
*
10193008 AATTCAAAATATTTTTAAA
1 AATTCAAAATATTTATAAA
10193027 AA-TCAAAATATTTATAAA
1 AATTCAAAATATTTATAAA
* *
10193045 AATTCCAAATTTTTATAA
1 AATTCAAAATATTTATAA
10193063 TTTTTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
18 17 0.53
19 15 0.47
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTCAAAATATTTATAAA
Found at i:10193112 original size:16 final size:16
Alignment explanation
Indices: 10193077--10193126 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
10193067 TTTAAATTAT
**
10193077 AAAATTTAAAATTCTAA
1 AAAATTTAAAA-AATAA
10193094 AAAATATTAAAAAATAA
1 AAAAT-TTAAAAAATAA
*
10193111 AAAATTTAAATAATAA
1 AAAATTTAAAAAATAA
10193127 TTTTAAGGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 10 0.34
17 13 0.45
18 6 0.21
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAATTTAAAAAATAA
Found at i:10197236 original size:19 final size:20
Alignment explanation
Indices: 10197169--10197243 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 20
10197159 GTAAAAAATA
10197169 TAAACATTTTCATAAAATA--
1 TAAA-ATTTTCATAAAATATT
* *
10197188 AAAAATATATCATAAAATCATT
1 TAAAAT-TTTCATAAAAT-ATT
10197210 TAAAATTTTCATAAAAT-TT
1 TAAAATTTTCATAAAATATT
*
10197229 TAAGATTTTC-TAAAA
1 TAAAATTTTCATAAAA
10197244 AATCTAGATT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 7 0.15
19 24 0.51
20 1 0.02
21 10 0.21
22 5 0.11
ACGTcount: A:0.52, C:0.08, G:0.01, T:0.39
Consensus pattern (20 bp):
TAAAATTTTCATAAAATATT
Found at i:10200523 original size:23 final size:23
Alignment explanation
Indices: 10200493--10200546 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
10200483 TGTTGGGCAA
10200493 CAGTAAGCACACACAGTGCGAAT
1 CAGTAAGCACACACAGTGCGAAT
*
10200516 CAGTAAGCATACACAGTGCGAAT
1 CAGTAAGCACACACAGTGCGAAT
10200539 CAGTAAGC
1 CAGTAAGC
10200547 GCGCTAGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (23 bp):
CAGTAAGCACACACAGTGCGAAT
Found at i:10210880 original size:69 final size:69
Alignment explanation
Indices: 10210805--10210945 Score: 183
Period size: 69 Copynumber: 2.0 Consensus size: 69
10210795 ATGGAATGGC
* * *
10210805 ATTATCTTATTTATTCTTAAACATATAATAAAAATATAAACCGCAATTTTATGGATATGATTTTA
1 ATTATCTTATTTATTCATAAACATATAATAAAAATATAAACCGCAAATTTATGGACATGATTTTA
10210870 GATA
66 GATA
* * * * * * * *
10210874 ATTATCTTCTTTATTGATAGACATATCATAAAATTATAAATCTCAAATTTATGGACATGGTTTTA
1 ATTATCTTATTTATTCATAAACATATAATAAAAATATAAACCGCAAATTTATGGACATGATTTTA
10210939 GATA
66 GATA
10210943 ATT
1 ATT
10210946 TGAGGACTAA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.43
Consensus pattern (69 bp):
ATTATCTTATTTATTCATAAACATATAATAAAAATATAAACCGCAAATTTATGGACATGATTTTA
GATA
Found at i:10211058 original size:29 final size:29
Alignment explanation
Indices: 10211004--10211059 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
10210994 TCCGGAGTCA
* *
10211004 TTTTAATTTTCAATTTACTTTTTTTGTTT
1 TTTTAATTTTAAATTTACTTTATTTGTTT
*
10211033 TTTTATTTTTAAATTTA-TATTATTTGT
1 TTTTAATTTTAAATTTACT-TTATTTGT
10211060 CAAACTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 1 0.04
29 22 0.96
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (29 bp):
TTTTAATTTTAAATTTACTTTATTTGTTT
Found at i:10211976 original size:26 final size:26
Alignment explanation
Indices: 10211947--10211996 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
10211937 TATTAAATAG
* *
10211947 TAATAGAATATTGATTGTGTATTTCT
1 TAATAGAATATTGAATGTATATTTCT
*
10211973 TAATAGAATGTTGAATGTATATTT
1 TAATAGAATATTGAATGTATATTT
10211997 TTTTATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (26 bp):
TAATAGAATATTGAATGTATATTTCT
Found at i:10224625 original size:27 final size:29
Alignment explanation
Indices: 10224572--10224627 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
10224562 TTATATTTAG
* *
10224572 AATTTAGTGTCTATATTTTATCTTGACAT
1 AATTTAGTCTCTATATTTTATCATGACAT
*
10224601 AATTTAGTCTCTTTATTTT-T-ATGACAT
1 AATTTAGTCTCTATATTTTATCATGACAT
10224628 CGTTAGTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.25
28 1 0.04
29 17 0.71
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.54
Consensus pattern (29 bp):
AATTTAGTCTCTATATTTTATCATGACAT
Found at i:10226023 original size:30 final size:31
Alignment explanation
Indices: 10225988--10226045 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
10225978 TTTTTGGTCC
10225988 AATTTGATACTCAAACTTGACA-TTTTTCCT
1 AATTTGATACTCAAACTTGACACTTTTTCCT
* *
10226018 AATTTGTTACTTAAACTTGACACTTTTT
1 AATTTGATACTCAAACTTGACACTTTTT
10226046 TTTTAAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.29, C:0.17, G:0.07, T:0.47
Consensus pattern (31 bp):
AATTTGATACTCAAACTTGACACTTTTTCCT
Found at i:10226035 original size:89 final size:92
Alignment explanation
Indices: 10225930--10226115 Score: 245
Period size: 91 Copynumber: 2.1 Consensus size: 92
10225920 TTAATATAAC
* * **
10225930 ATTTGATACTTGAACTTGACAC-TTTTTATT-AATTTGGTACCTAAACTTTTTTTGGTCCAATTT
1 ATTTGATACTTAAACTTGACACTTTTTTATTAAAGTTGGTACCTAAACTTTTTGAGGTCCAATTT
10225993 -GATACTCAAACTTGAC-ATTTTTCCTA
66 GGA-ACTCAAACTTGACTATTTTTCCTA
* * * *
10226019 ATTTGTTACTTAAACTTGACACTTTTTTTTTAAAGTTGGTACTTCAACTTTTTGAGGTCCAATTT
1 ATTTGATACTTAAACTTGACACTTTTTTATTAAAGTTGGTACCTAAACTTTTTGAGGTCCAATTT
* *
10226084 GGAACTTAAACTTGACTCTTTTTCCTA
66 GGAACTCAAACTTGACTATTTTTCCTA
10226111 ATTTG
1 ATTTG
10226116 GTACCTATTT
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
89 20 0.24
90 7 0.08
91 40 0.48
92 16 0.19
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (92 bp):
ATTTGATACTTAAACTTGACACTTTTTTATTAAAGTTGGTACCTAAACTTTTTGAGGTCCAATTT
GGAACTCAAACTTGACTATTTTTCCTA
Found at i:10226434 original size:61 final size:58
Alignment explanation
Indices: 10226298--10226457 Score: 196
Period size: 61 Copynumber: 2.7 Consensus size: 58
10226288 AAATGCTTAG
* ** *
10226298 GTACCAAATTAGGAAAAAATACCAAGTTCAGGTACCAAATTCGGTTCAAAAAAGTTTA
1 GTACCAAATTAGGAAAAAGTGTCAAGTTCAGGTACCAAATTCGGGTCAAAAAAGTTTA
* * * *
10226356 GATACAAAATTAAGAAAAAGTGTCAAGTTCAAGTATCAAATT-GGGTCAAAAAAAAAGTTTA
1 G-TACCAAATTAGGAAAAAGTGTCAAGTTCAGGTACCAAATTCGGGTC---AAAAAAGTTTA
10226417 TGTACCAAATTAGGAAAAAGTGTCAAGTTCAGGTACCAAAT
1 -GTACCAAATTAGGAAAAAGTGTCAAGTTCAGGTACCAAAT
10226458 CTTATATTAA
Statistics
Matches: 85, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
58 5 0.06
59 33 0.39
61 46 0.54
62 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.24
Consensus pattern (58 bp):
GTACCAAATTAGGAAAAAGTGTCAAGTTCAGGTACCAAATTCGGGTCAAAAAAGTTTA
Found at i:10234553 original size:43 final size:43
Alignment explanation
Indices: 10234483--10234569 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
10234473 AACATGAATA
* *
10234483 CCAAACACTTCAACCCTAAATCCCAAACTCATAA-CCTATAACC
1 CCAAACACTTAAACCCTAAATCCCAAACCCATAACCCTA-AACC
* *
10234526 CCAAACACTTAAATCTTAAA-CCTCAAACCCATAACCCTAAACC
1 CCAAACACTTAAACCCTAAATCC-CAAACCCATAACCCTAAACC
10234569 C
1 C
10234570 TTGAATTCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 2 0.05
43 32 0.84
44 4 0.11
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (43 bp):
CCAAACACTTAAACCCTAAATCCCAAACCCATAACCCTAAACC
Found at i:10234560 original size:36 final size:37
Alignment explanation
Indices: 10234510--10234584 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 37
10234500 AAATCCCAAA
*
10234510 CTCATAACCTATAACCCCAAACACTTAAA-TCTTAAAC
1 CTCATAACCCATAACCCCAAACACTTAAATTC-TAAAC
* * *
10234547 CTCA-AACCCATAACCCTAAACCCTTGAATTCTAAAC
1 CTCATAACCCATAACCCCAAACACTTAAATTCTAAAC
10234583 CT
1 CT
10234585 AAATCTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 27 0.82
37 6 0.18
ACGTcount: A:0.40, C:0.35, G:0.01, T:0.24
Consensus pattern (37 bp):
CTCATAACCCATAACCCCAAACACTTAAATTCTAAAC
Found at i:10234568 original size:21 final size:20
Alignment explanation
Indices: 10234483--10234569 Score: 59
Period size: 21 Copynumber: 4.1 Consensus size: 20
10234473 AACATGAATA
*
10234483 CCAAACACTTCAACCCTAAATC
1 CCAAACACAT-AACCCTAAA-C
*
10234505 CCAAACTCATAA-CCTATAACC
1 CCAAACACATAACCCTA-AA-C
* * *
10234526 CCAAACACTTAAATCTTAAAC
1 CCAAACACAT-AACCCTAAAC
*
10234547 CTCAAACCCATAACCCTAAAC
1 C-CAAACACATAACCCTAAAC
10234568 CC
1 CC
10234570 TTGAATTCTA
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
20 5 0.10
21 24 0.47
22 19 0.37
23 3 0.06
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (20 bp):
CCAAACACATAACCCTAAAC
Found at i:10240061 original size:18 final size:20
Alignment explanation
Indices: 10240020--10240074 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
10240010 CCACGTTAGT
*
10240020 AAATGATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
10240040 AAATTATTTTAAAA-TA-TA
1 AAATTATTTTAAAATTATTA
10240058 AAATTA--TTAAAATTATT
1 AAATTATTTTAAAATTATT
10240075 TTAAAAGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 9 0.28
19 2 0.06
20 13 0.41
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
AAATTATTTTAAAATTATTA
Found at i:10240067 original size:27 final size:28
Alignment explanation
Indices: 10240029--10240086 Score: 109
Period size: 27 Copynumber: 2.1 Consensus size: 28
10240019 TAAATGATTT
10240029 TAAAATTATTAAAATTATTTTAAAA-TA
1 TAAAATTATTAAAATTATTTTAAAAGTA
10240056 TAAAATTATTAAAATTATTTTAAAAGTA
1 TAAAATTATTAAAATTATTTTAAAAGTA
10240084 TAA
1 TAA
10240087 TCATCATCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 25 0.83
28 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (28 bp):
TAAAATTATTAAAATTATTTTAAAAGTA
Found at i:10240080 original size:11 final size:9
Alignment explanation
Indices: 10240028--10240074 Score: 62
Period size: 9 Copynumber: 5.2 Consensus size: 9
10240018 GTAAATGATT
10240028 TTAAAATTA
1 TTAAAATTA
10240037 TTAAAATTA
1 TTAAAATTA
10240046 TTTTAAAA-TA
1 --TTAAAATTA
10240056 -TAAAATTA
1 TTAAAATTA
10240064 TTAAAATTA
1 TTAAAATTA
10240073 TT
1 TT
10240075 TTAAAAGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
7 5 0.15
8 2 0.06
9 19 0.56
10 2 0.06
11 6 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
TTAAAATTA
Found at i:10240414 original size:27 final size:27
Alignment explanation
Indices: 10240390--10240443 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
10240380 ATACACTTCA
10240390 AAAACTTATAGTTCTTGCAATACTTGC
1 AAAACTTATAGTTCTTGCAATACTTGC
*
10240417 AAAACTTATGGTTCTTGCAATACTTGC
1 AAAACTTATAGTTCTTGCAATACTTGC
10240444 TGTTTGGACC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (27 bp):
AAAACTTATAGTTCTTGCAATACTTGC
Found at i:10241043 original size:20 final size:20
Alignment explanation
Indices: 10241018--10241094 Score: 55
Period size: 20 Copynumber: 3.5 Consensus size: 20
10241008 GATGATGATT
10241018 ATAATTTTAAAATATTTTTA
1 ATAATTTTAAAATATTTTTA
*
10241038 ATAATTTATATTTTAAAAATTAATTTA
1 ATAATTT-TA----AAATATT--TTTA
*
10241065 ATTAATTTTAAAATAATTTTA
1 A-TAATTTTAAAATATTTTTA
*
10241086 ACAATTTTA
1 ATAATTTTA
10241095 TATTTTTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
20 14 0.31
21 7 0.16
23 5 0.11
25 6 0.13
27 7 0.16
28 6 0.13
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (20 bp):
ATAATTTTAAAATATTTTTA
Found at i:10241046 original size:27 final size:26
Alignment explanation
Indices: 10241016--10241105 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 26
10241006 TAGATGATGA
10241016 TTATAATTTTAAAATATTTTTAATAAT
1 TTATAATTTTAAAATA-TTTTAATAAT
10241043 TTAT-ATTTTAAAA-A--TTAAT--T
1 TTATAATTTTAAAATATTTTAATAAT
* *
10241063 TAATTAATTTTAAAATAATTTTAACAATT
1 TTA-TAATTTTAAAAT-ATTTTAATAA-T
*
10241092 TTATATTTTTAAAA
1 TTATAATTTTAAAA
10241106 AATAATTTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 17
0.70 0.06 0.24
Matches are distributed among these distances:
20 3 0.06
21 1 0.02
22 14 0.28
24 1 0.02
25 1 0.02
26 13 0.26
27 4 0.08
28 10 0.20
29 3 0.06
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (26 bp):
TTATAATTTTAAAATATTTTAATAAT
Found at i:10241086 original size:48 final size:50
Alignment explanation
Indices: 10241019--10241113 Score: 149
Period size: 48 Copynumber: 1.9 Consensus size: 50
10241009 ATGATGATTA
* * *
10241019 TAATTTTAAAATATTTTTAATAA-TTTATA-TTTTAAAAATTAATTTAAT
1 TAATTTTAAAATAATTTTAACAATTTTATATTTTTAAAAAATAATTTAAT
10241067 TAATTTTAAAATAATTTTAACAATTTTATATTTTTAAAAAATAATTT
1 TAATTTTAAAATAATTTTAACAATTTTATATTTTTAAAAAATAATTT
10241114 TAAAATCATT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
48 21 0.50
49 6 0.14
50 15 0.36
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (50 bp):
TAATTTTAAAATAATTTTAACAATTTTATATTTTTAAAAAATAATTTAAT
Found at i:10241091 original size:29 final size:29
Alignment explanation
Indices: 10241059--10241116 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
10241049 TTTAAAAATT
10241059 AATTTAATTAATTTT-AAAATAATTTTAAC
1 AATTTAA-TAATTTTAAAAATAATTTTAAC
* *
10241088 AATTTTATATTTTTAAAAAATAATTTTAA
1 AATTTAATAATTTT-AAAAATAATTTTAA
10241117 AATCATTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 6 0.24
30 13 0.52
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (29 bp):
AATTTAATAATTTTAAAAATAATTTTAAC
Found at i:10244091 original size:41 final size:41
Alignment explanation
Indices: 10244043--10244128 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
10244033 AGTTGTTTTC
* * *
10244043 GAATTCAATTATACAACATTGTAGCTTGTCTTTTAGTATCT
1 GAATTCAATTATACAACACTATAGCTTGTCTTTTAGTATAT
10244084 GAATTCAATTATACAACACTATAGCTTGTCTTTTAGTATAT
1 GAATTCAATTATACAACACTATAGCTTGTCTTTTAGTATAT
10244125 GAAT
1 GAAT
10244129 CACCCATTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.42
Consensus pattern (41 bp):
GAATTCAATTATACAACACTATAGCTTGTCTTTTAGTATAT
Found at i:10248428 original size:30 final size:31
Alignment explanation
Indices: 10248371--10248428 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
10248361 AACTTAATCC
**
10248371 TCAACATTTTAAAAGGAATCAAATTTGTCCA
1 TCAACATTTTAAAAACAATCAAATTTGTCCA
*
10248402 TCAACTTTTTAAAAACAATC-AATTTGT
1 TCAACATTTTAAAAACAATCAAATTTGT
10248429 TGTTTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (31 bp):
TCAACATTTTAAAAACAATCAAATTTGTCCA
Found at i:10251348 original size:17 final size:17
Alignment explanation
Indices: 10251326--10251377 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
10251316 GGACCCAAAC
10251326 TATTTTGAAATTAAATT
1 TATTTTGAAATTAAATT
*
10251343 TATTTT-AATTTTAAATT
1 TATTTTGAA-ATTAAATT
*
10251360 TATTTTG-AATTCAATT
1 TATTTTGAAATTAAATT
10251376 TA
1 TA
10251378 ACTTTGAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 10 0.33
17 20 0.67
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (17 bp):
TATTTTGAAATTAAATT
Found at i:10251383 original size:17 final size:17
Alignment explanation
Indices: 10251363--10251395 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10251353 TTAAATTTAT
10251363 TTTGAATTCAATTTAAC
1 TTTGAATTCAATTTAAC
*
10251380 TTTGAATTTAATTTAA
1 TTTGAATTCAATTTAA
10251396 ATTTAACATT
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:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (17 bp):
TTTGAATTCAATTTAAC
Found at i:10253026 original size:30 final size:29
Alignment explanation
Indices: 10252993--10253217 Score: 272
Period size: 30 Copynumber: 7.6 Consensus size: 29
10252983 AGTTGTTCAG
* **
10252993 AAATTACATTTTGACCCCAAAATTTTCTGG
1 AAATTACATTTTGACCCCAAAACTTTC-CA
*
10253023 AAATTTCATTTTGACCCCAAAACTTTCTCA
1 AAATTACATTTTGACCCCAAAACTTTC-CA
*
10253053 AAATTATATTTTGA-CCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAAC-TTTCCA
* * *
10253082 AAATTATATTTTGACCCCGAAACTTTCTAA
1 AAATTACATTTTGACCCCAAAACTTTC-CA
10253112 AAATTACATTTTGACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAAC-TTTCCA
* *
10253142 AAATTATATTTTGACCCCGAAACTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTCCA
*
10253171 AAATTACATTTTGACTCCAAAACCTTTCCA
1 AAATTACATTTTGACCCCAAAA-CTTTCCA
*
10253201 AAATTTCATTTTTGACC
1 AAATTACA-TTTTGACC
10253218 TTGTTTTTAC
Statistics
Matches: 171, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
29 53 0.31
30 107 0.63
31 11 0.06
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.36
Consensus pattern (29 bp):
AAATTACATTTTGACCCCAAAACTTTCCA
Found at i:10253144 original size:89 final size:89
Alignment explanation
Indices: 10252993--10253217 Score: 312
Period size: 89 Copynumber: 2.5 Consensus size: 89
10252983 AGTTGTTCAG
* **
10252993 AAATTACATTTTGACCCCAAAATTTTCTGGAAATTTCATTTTGACCCCAAAACTTTCTCAAAATT
1 AAATTACATTTTGACCCCAAAACTTTCTAAAAATTTCATTTTGACCCCAAAACTTTCTCAAAATT
10253058 ATATTTTGA-CCCAAAACTTTTCCA
66 ATATTTTGACCCCAAAAC-TTTCCA
* * *
10253082 AAATTATATTTTGACCCCGAAACTTTCTAAAAATTACATTTTGACCCCAAAACTTT-TCCAAAAT
1 AAATTACATTTTGACCCCAAAACTTTCTAAAAATTTCATTTTGACCCCAAAACTTTCT-CAAAAT
*
10253146 TATATTTTGACCCCGAAACTTTCCA
65 TATATTTTGACCCCAAAACTTTCCA
* *
10253171 AAATTACATTTTGACTCCAAAACCTTTC-CAAAATTTCATTTTTGACC
1 AAATTACATTTTGACCCCAAAA-CTTTCTAAAAATTTCA-TTTTGACC
10253218 TTGTTTTTAC
Statistics
Matches: 120, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
88 1 0.01
89 99 0.82
90 20 0.17
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.36
Consensus pattern (89 bp):
AAATTACATTTTGACCCCAAAACTTTCTAAAAATTTCATTTTGACCCCAAAACTTTCTCAAAATT
ATATTTTGACCCCAAAACTTTCCA
Found at i:10253212 original size:59 final size:60
Alignment explanation
Indices: 10252993--10253205 Score: 317
Period size: 59 Copynumber: 3.6 Consensus size: 60
10252983 AGTTGTTCAG
** *
10252993 AAATTACATTTTGACCCCAAAA-TTTTCTGGAAATT-TCATTTTGACCCCAAAACTTTCTCA
1 AAATTACATTTTGACCCCAAAACTTTTC-CAAAATTAT-ATTTTGACCCCGAAACTTTCTCA
* *
10253053 AAATTATATTTTGA-CCCAAAACTTTTCCAAAATTATATTTTGACCCCGAAACTTTCTAA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCCCGAAACTTTCTCA
10253112 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCCCGAAACTTTC-CA
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCCCGAAACTTTCTCA
* *
10253171 AAATTACATTTTGACTCCAAAACCTTTCCAAAATT
1 AAATTACATTTTGACCCCAAAACTTTTCCAAAATT
10253206 TCATTTTTGA
Statistics
Matches: 141, Mismatches: 9, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
59 80 0.57
60 61 0.43
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (60 bp):
AAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCCCGAAACTTTCTCA
Found at i:10254307 original size:3 final size:3
Alignment explanation
Indices: 10254299--10254331 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
10254289 AAAATGTGTT
10254299 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10254332 TATTAGACTT
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):
ATA
Found at i:10254829 original size:16 final size:18
Alignment explanation
Indices: 10254815--10254874 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 18
10254805 GAAAATTTTC
10254815 ATTTTT-TAGTTTTTTAA
1 ATTTTTATAGTTTTTTAA
**
10254832 ATTTTTATAGTTTTCAAA
1 ATTTTTATAGTTTTTTAA
*
10254850 TAGTTTTTATAATTTTTATAA
1 -A-TTTTTATAGTTTTT-TAA
10254871 ATTT
1 ATTT
10254875 ATATTTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 6 0.18
18 9 0.26
19 4 0.12
20 13 0.38
21 2 0.06
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (18 bp):
ATTTTTATAGTTTTTTAA
Found at i:10255481 original size:23 final size:21
Alignment explanation
Indices: 10255454--10255501 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 21
10255444 TTAAATTTTC
10255454 AAAAATAAAAATTAAAAAACTTT
1 AAAAATAAAAA-TAAAAAA-TTT
*
10255477 AAAAATAAAAATAAAATATTT
1 AAAAATAAAAATAAAAAATTT
10255498 AAAA
1 AAAA
10255502 GTTCTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 7 0.29
22 6 0.25
23 11 0.46
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAAATAAAAATAAAAAATTT
Found at i:10256145 original size:19 final size:20
Alignment explanation
Indices: 10256121--10256164 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
10256111 CTTTAAATTG
* *
10256121 TTTTATTTGTAATATTA-TA
1 TTTTATTTATAAAATTATTA
10256140 TTTTATTTATAAAATTATTA
1 TTTTATTTATAAAATTATTA
10256160 TTTTA
1 TTTTA
10256165 ATATATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTATTTATAAAATTATTA
Found at i:10256187 original size:33 final size:34
Alignment explanation
Indices: 10256123--10256187 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
10256113 TTAAATTGTT
* *
10256123 TTATTTGTAATATTATATTTTATTTATAAAATTA
1 TTATTTGTAATATTATATTTCATTTAGAAAATTA
10256157 TTATTT-TAATA-TATATTTCATGTTAGAAAAT
1 TTATTTGTAATATTATATTTCAT-TTAGAAAAT
10256188 GAGAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 9 0.32
33 13 0.46
34 6 0.21
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (34 bp):
TTATTTGTAATATTATATTTCATTTAGAAAATTA
Found at i:10256401 original size:29 final size:30
Alignment explanation
Indices: 10256324--10256401 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 30
10256314 TTTAAAAATC
*
10256324 AAGACTAAATTGATAGAATGTGTAAGGTTG
1 AAGACTAAATTGATAGAATGTGTAAGATTG
* * * *
10256354 AGAGA-TAAATTTG-TTGAAT-TTTTAGATTT
1 A-AGACTAAA-TTGATAGAATGTGTAAGATTG
10256383 AAGACTAAATTGATAGAAT
1 AAGACTAAATTGATAGAAT
10256402 CTATAAAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
28 6 0.16
29 16 0.42
30 10 0.26
31 6 0.16
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.36
Consensus pattern (30 bp):
AAGACTAAATTGATAGAATGTGTAAGATTG
Found at i:10259796 original size:80 final size:79
Alignment explanation
Indices: 10259674--10260026 Score: 510
Period size: 80 Copynumber: 4.4 Consensus size: 79
10259664 CTAGCTGAAT
* * ** *
10259674 AACCGCAAAAGTGAGCCCAACTCTAGTTGGATT-AACTAACAAATATCCGTCAAATCCTAGCACC
1 AACCGCAAATGTGAGCCCAGCTCTAGTCAG-TTAAACTAACAAATATCCGTCAAATCTTAGCACC
10259738 TAGTGCTTAGCGGATA
65 -AGTGCTTAGCGGATA
** *
10259754 AACCGCAAATGTGAGCCCAGCTCTAGTCAGTTAAACCGACAAATATCCATCAAATCTTAGCACCC
1 AACCGCAAATGTGAGCCCAGCTCTAGTCAGTTAAACTAACAAATATCCGTCAAATCTTAGCA-CC
10259819 AGTGCTTAGCGGATA
65 AGTGCTTAGCGGATA
*
10259834 AACCGCAAATGTGAGCTCAGCTCTAGTCAGTTAAACTAACAAATATCCGTCAAATCTTAGCACCA
1 AACCGCAAATGTGAGCCCAGCTCTAGTCAGTTAAACTAACAAATATCCGTCAAATCTTAGCACCA
10259899 GTGCTTAGCGGATA
66 GTGCTTAGCGGATA
* ** * *
10259913 AACAGCAAATGTGAGCCCAGCTCTAGTTGGTTAAACTGACAAATATCCGTCAAATCTTGGCATCC
1 AACCGCAAATGTGAGCCCAGCTCTAGTCAGTTAAACTAACAAATATCCGTCAAATCTTAGCA-CC
* *
10259978 AGTGCCTAACGGATA
65 AGTGCTTAGCGGATA
*
10259993 AACCGCAATTGTGAGCCCAGCTCTAGTCAGTTAA
1 AACCGCAAATGTGAGCCCAGCTCTAGTCAGTTAA
10260027 CTGACAACAT
Statistics
Matches: 246, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
79 75 0.30
80 169 0.69
81 2 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (79 bp):
AACCGCAAATGTGAGCCCAGCTCTAGTCAGTTAAACTAACAAATATCCGTCAAATCTTAGCACCA
GTGCTTAGCGGATA
Found at i:10259966 original size:159 final size:160
Alignment explanation
Indices: 10259674--10260026 Score: 539
Period size: 159 Copynumber: 2.2 Consensus size: 160
10259664 CTAGCTGAAT
* * **
10259674 AACCGCAAAAGTGAGCCCAACTCTAGTTGGATT-AACTAACAAATATCCGTCAAATCCTAGCACC
1 AACCGCAAATGTGAGCCCAGCTCTAGTCAG-TTAAACTAACAAATATCCGTCAAATCCTAGCACC
*
10259738 TAGTGCTTAGCGGATAAACCGCAAATGTGAGCCCAGCTCTAGTCAGTTAAACCGACAAATATCCA
65 TAGTGCTTAGCGGATAAACAGCAAATGTGAGCCCAGCTCTAGTCAGTTAAACCGACAAATATCCA
* *
10259803 TCAAATCTTAGCACCCAGTGCTTAGCGGATA
130 TCAAATCTTAGCACCCAGTGCCTAACGGATA
* *
10259834 AACCGCAAATGTGAGCTCAGCTCTAGTCAGTTAAACTAACAAATATCCGTCAAATCTTAGCACC-
1 AACCGCAAATGTGAGCCCAGCTCTAGTCAGTTAAACTAACAAATATCCGTCAAATCCTAGCACCT
** * *
10259898 AGTGCTTAGCGGATAAACAGCAAATGTGAGCCCAGCTCTAGTTGGTTAAACTGACAAATATCCGT
66 AGTGCTTAGCGGATAAACAGCAAATGTGAGCCCAGCTCTAGTCAGTTAAACCGACAAATATCCAT
* *
10259963 CAAATCTTGGCATCCAGTGCCTAACGGATA
131 CAAATCTTAGCACCCAGTGCCTAACGGATA
*
10259993 AACCGCAATTGTGAGCCCAGCTCTAGTCAGTTAA
1 AACCGCAAATGTGAGCCCAGCTCTAGTCAGTTAA
10260027 CTGACAACAT
Statistics
Matches: 175, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
159 120 0.69
160 55 0.31
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (160 bp):
AACCGCAAATGTGAGCCCAGCTCTAGTCAGTTAAACTAACAAATATCCGTCAAATCCTAGCACCT
AGTGCTTAGCGGATAAACAGCAAATGTGAGCCCAGCTCTAGTCAGTTAAACCGACAAATATCCAT
CAAATCTTAGCACCCAGTGCCTAACGGATA
Found at i:10262480 original size:40 final size:40
Alignment explanation
Indices: 10262405--10262558 Score: 155
Period size: 40 Copynumber: 3.9 Consensus size: 40
10262395 TTTGGATGTG
* * **
10262405 TTATCACTGAACTGGCAGTGACACTGTAATTACTACAATA
1 TTATTACTGAACTGGCAGTGACACTATAAACACTACAATA
* *
10262445 TTATTATTGAACTGGCAGTGAGACTATAAACACTACAATA
1 TTATTACTGAACTGGCAGTGACACTATAAACACTACAATA
* * * * * **
10262485 TTATTACTGAACTGGCAGTGAAACTGTAAGCGCTGCAACG
1 TTATTACTGAACTGGCAGTGACACTATAAACACTACAATA
* * * *
10262525 TTATTACTGTACTAGCCGTGACACTGTAAACACT
1 TTATTACTGAACTGGCAGTGACACTATAAACACT
10262559 TATAAACAAC
Statistics
Matches: 94, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 94 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (40 bp):
TTATTACTGAACTGGCAGTGACACTATAAACACTACAATA
Found at i:10262555 original size:80 final size:80
Alignment explanation
Indices: 10262405--10262558 Score: 182
Period size: 80 Copynumber: 1.9 Consensus size: 80
10262395 TTTGGATGTG
* ** * * * *
10262405 TTATCACTGAACTGGCAGTGACACTGTAATTACTACAATATTATTATTGAACTGGCAGTGAGACT
1 TTATCACTGAACTGGCAGTGAAACTGTAAGCACTACAACATTATTACTGAACTAGCAGTGACACT
10262470 ATAAACACTACAATA
66 ATAAACACTACAATA
* * * * * *
10262485 TTATTACTGAACTGGCAGTGAAACTGTAAGCGCTGCAACGTTATTACTGTACTAGCCGTGACACT
1 TTATCACTGAACTGGCAGTGAAACTGTAAGCACTACAACATTATTACTGAACTAGCAGTGACACT
*
10262550 GTAAACACT
66 ATAAACACT
10262559 TATAAACAAC
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
80 60 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (80 bp):
TTATCACTGAACTGGCAGTGAAACTGTAAGCACTACAACATTATTACTGAACTAGCAGTGACACT
ATAAACACTACAATA
Found at i:10266391 original size:27 final size:28
Alignment explanation
Indices: 10266338--10266392 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
10266328 AGAGTTTTGG
*
10266338 GAGAGTAAAATTTGGGGGAAAGTAAATAA
1 GAGAGTAAAATTT-GGGGAAAGAAAATAA
* *
10266367 GAGAGTAAAATTT-TGGAAGGAAAATA
1 GAGAGTAAAATTTGGGGAAAGAAAATA
10266393 TTCAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 10 0.43
29 13 0.57
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (28 bp):
GAGAGTAAAATTTGGGGAAAGAAAATAA
Found at i:10273330 original size:17 final size:17
Alignment explanation
Indices: 10273287--10273336 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
10273277 AACGAATCTG
*
10273287 ATATATTTATTATATCA-
1 ATATATATATTATAT-AT
* *
10273304 ATAAAAATATTATATAT
1 ATATATATATTATATAT
10273321 ATATATATATTA-ATAT
1 ATATATATATTATATAT
10273337 TTATGGAATG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 5 0.19
17 22 0.81
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATATATATTATATAT
Found at i:10275086 original size:27 final size:28
Alignment explanation
Indices: 10275054--10275108 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
10275044 TGTAATTCAT
*
10275054 CGACATTT-AACGAATAACTTGCATGGC
1 CGACATTTAAACGAAGAACTTGCATGGC
*
10275081 CGACATTTAAATGAAGAACTTGCATGGC
1 CGACATTTAAACGAAGAACTTGCATGGC
10275109 TCGATCTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (28 bp):
CGACATTTAAACGAAGAACTTGCATGGC
Found at i:10276817 original size:34 final size:34
Alignment explanation
Indices: 10276772--10276840 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
10276762 TGTGTCTTGT
*
10276772 AAGTCGCGTTTTCTTCCCTCTAATTTTCAACCTA
1 AAGTCGCGTTTTCTTCCCTCCAATTTTCAACCTA
*
10276806 AAGTCGTGTTTTCTTCCCTCCAATTTTCAACCTA
1 AAGTCGCGTTTTCTTCCCTCCAATTTTCAACCTA
10276840 A
1 A
10276841 CCTTATGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.22, C:0.29, G:0.09, T:0.41
Consensus pattern (34 bp):
AAGTCGCGTTTTCTTCCCTCCAATTTTCAACCTA
Found at i:10278341 original size:23 final size:24
Alignment explanation
Indices: 10278313--10278357 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
10278303 AGAAAAGATC
10278313 TTTCTTTCCA-GTGTTTGTTCCCT
1 TTTCTTTCCAGGTGTTTGTTCCCT
* *
10278336 TTTCTTTGCAGGTTTTTGTTCC
1 TTTCTTTCCAGGTGTTTGTTCC
10278358 TTGATTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.04, C:0.22, G:0.16, T:0.58
Consensus pattern (24 bp):
TTTCTTTCCAGGTGTTTGTTCCCT
Found at i:10278573 original size:6 final size:6
Alignment explanation
Indices: 10278564--10278590 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10278554 TCGGTGGAGC
10278564 AATGGG AATGGG AATGGG AATGGG AAT
1 AATGGG AATGGG AATGGG AATGGG AAT
10278591 TTGTTTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.44, T:0.19
Consensus pattern (6 bp):
AATGGG
Found at i:10286145 original size:16 final size:17
Alignment explanation
Indices: 10286111--10286147 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
10286101 TAAAAAACAT
10286111 AAATTATATATTTATTA
1 AAATTATATATTTATTA
10286128 AAATT-TAT-TTTATATA
1 AAATTATATATTTAT-TA
10286144 AAAT
1 AAAT
10286148 AATTAAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.26
16 9 0.47
17 5 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AAATTATATATTTATTA
Found at i:10302060 original size:25 final size:23
Alignment explanation
Indices: 10302020--10302066 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
10302010 CCAATTAAGA
10302020 AATTATTGTTTAAATTTAATTTT
1 AATTATTGTTTAAATTTAATTTT
*
10302043 AATTATCTTTTTAGAATTTAATTT
1 AATTAT-TGTTTA-AATTTAATTT
10302067 GGATTCAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 5 0.24
25 10 0.48
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (23 bp):
AATTATTGTTTAAATTTAATTTT
Found at i:10305947 original size:33 final size:33
Alignment explanation
Indices: 10305909--10305988 Score: 160
Period size: 33 Copynumber: 2.4 Consensus size: 33
10305899 GTTACACTGG
10305909 CCACTCTACCCTCCATAGTAAACTCCTTTTCAC
1 CCACTCTACCCTCCATAGTAAACTCCTTTTCAC
10305942 CCACTCTACCCTCCATAGTAAACTCCTTTTCAC
1 CCACTCTACCCTCCATAGTAAACTCCTTTTCAC
10305975 CCACTCTACCCTCC
1 CCACTCTACCCTCC
10305989 GGCTTTCATC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.23, C:0.46, G:0.03, T:0.29
Consensus pattern (33 bp):
CCACTCTACCCTCCATAGTAAACTCCTTTTCAC
Found at i:10310180 original size:39 final size:39
Alignment explanation
Indices: 10310126--10310303 Score: 135
Period size: 39 Copynumber: 4.6 Consensus size: 39
10310116 CTGGGGTTAA
*
10310126 CAACTGAGATTTTTCTTCAGTGCATTCTATCGGTGCCAG
1 CAACTGAGATTTTTCTTCAGTGCACTCTATCGGTGCCAG
* * * **
10310165 CAACTGAGATTTTTCTTCA--GCAAGTTCTATTGGCGTTAG
1 CAACTGAGATTTTTCTTCAGTGC-A-CTCTATCGGTGCCAG
* * * * * *
10310204 CGAGTGAGATTTTTCTTCAGTGTACTCTTTTGGTGCCAC
1 CAACTGAGATTTTTCTTCAGTGCACTCTATCGGTGCCAG
* * * * * *
10310243 CAACTGGGATTTTTCTTCAATGTACTCTTTCGGTGTCAT
1 CAACTGAGATTTTTCTTCAGTGCACTCTATCGGTGCCAG
* * *
10310282 CAGCTGAGGTTTCTCTTCAGTG
1 CAACTGAGATTTTTCTTCAGTG
10310304 TACTGAACAG
Statistics
Matches: 110, Mismatches: 25, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
37 2 0.02
38 1 0.01
39 105 0.95
40 1 0.01
41 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (39 bp):
CAACTGAGATTTTTCTTCAGTGCACTCTATCGGTGCCAG
Found at i:10312714 original size:49 final size:49
Alignment explanation
Indices: 10312630--10312724 Score: 120
Period size: 49 Copynumber: 1.9 Consensus size: 49
10312620 GATTATACGG
* ** * *
10312630 TCATGGGTTGACGTATAACTAGGGCTTCCATTTGACGATGGTTATGCAT
1 TCATGGGTTGAAGTATAACTAGGGCAGCCAGTTGACAATGGTTATGCAT
*
10312679 TCATGGGTTGAAGTATAACTCGGG-AGCCTAGTTGACAATGGTTATG
1 TCATGGGTTGAAGTATAACTAGGGCAGCC-AGTTGACAATGGTTATG
10312725 TAGTCACAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 2 0.05
49 37 0.95
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (49 bp):
TCATGGGTTGAAGTATAACTAGGGCAGCCAGTTGACAATGGTTATGCAT
Found at i:10323299 original size:161 final size:161
Alignment explanation
Indices: 10323028--10323359 Score: 549
Period size: 161 Copynumber: 2.1 Consensus size: 161
10323018 TATCACTTAT
* * * *
10323028 TTTCATTTACCCATTAGTTAACCATGTCACTATACCACATATTTTAACAGACCATTTATTCATTG
1 TTTCATTTACCCATTAGTGAACCATGTCACTAAACCACATATTTTAACAGACCATTTATTCACTA
*
10323093 ATCTATCGTAATTCGGTGTAGCAGATTAAACTAGTTTTTGCATTTGAGGAGCTTGAATACAAGCA
66 ATCTATCGTAATTCGGTGTAGCAGATTAAACTAGTTTTCGCATTTGAGGAGCTTGAATACAAGCA
10323158 CTTTTGTTATGCTTTAGTCGAGTTTTTATAA
131 CTTTTGTTATGCTTTAGTCGAGTTTTTATAA
*
10323189 TTTCATTTACCCATTAGGTGAA-CATGTCACTAAACCACATATTTTAACAGACCATTTGTTCACT
1 TTTCATTTACCCATTA-GTGAACCATGTCACTAAACCACATATTTTAACAGACCATTTATTCACT
* * *
10323253 AATCTGTCGTAATTCGGTGTAGCAGATTAAACTAGTTTTCGCATTTGAGGTGCTTGAGTACAAGC
65 AATCTATCGTAATTCGGTGTAGCAGATTAAACTAGTTTTCGCATTTGAGGAGCTTGAATACAAGC
* *
10323318 ACTTTTGTTATGTTTTAGTTGAGTTTTTATAA
130 ACTTTTGTTATGCTTTAGTCGAGTTTTTATAA
10323350 TTTCATTTAC
1 TTTCATTTAC
10323360 ATTCAATAAA
Statistics
Matches: 159, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
161 155 0.97
162 4 0.03
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (161 bp):
TTTCATTTACCCATTAGTGAACCATGTCACTAAACCACATATTTTAACAGACCATTTATTCACTA
ATCTATCGTAATTCGGTGTAGCAGATTAAACTAGTTTTCGCATTTGAGGAGCTTGAATACAAGCA
CTTTTGTTATGCTTTAGTCGAGTTTTTATAA
Found at i:10323472 original size:22 final size:22
Alignment explanation
Indices: 10323447--10323493 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
10323437 AGTGAGTGTG
*
10323447 CAAGAAATTATTAAAGGGAGTA
1 CAAGAAATCATTAAAGGGAGTA
*
10323469 CAAGAAATCATTAGAGGGAGTA
1 CAAGAAATCATTAAAGGGAGTA
10323491 CAA
1 CAA
10323494 ACTCAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.09, G:0.23, T:0.19
Consensus pattern (22 bp):
CAAGAAATCATTAAAGGGAGTA
Found at i:10327249 original size:20 final size:19
Alignment explanation
Indices: 10327221--10327287 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
10327211 CCACGTTAGC
* *
10327221 AAATGATTTTATAATTATTA
1 AAATTATTTTATAAATA-TA
*
10327241 AAATTATTTTTTAAATATA
1 AAATTATTTTATAAATATA
*
10327260 AAATTATTTTTTAAAATATA
1 AAATTATTTTAT-AAATATA
*
10327280 AATTTATT
1 AAATTATT
10327288 AAAATTATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.33
20 28 0.67
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (19 bp):
AAATTATTTTATAAATATA
Found at i:10327263 original size:19 final size:20
Alignment explanation
Indices: 10327239--10327287 Score: 82
Period size: 19 Copynumber: 2.5 Consensus size: 20
10327229 TTATAATTAT
10327239 TAAAATTATTTTTT-AAATA
1 TAAAATTATTTTTTAAAATA
10327258 TAAAATTATTTTTTAAAATA
1 TAAAATTATTTTTTAAAATA
*
10327278 TAAATTTATT
1 TAAAATTATT
10327288 AAAATTATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TAAAATTATTTTTTAAAATA
Found at i:10327289 original size:16 final size:17
Alignment explanation
Indices: 10327265--10327297 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10327255 ATATAAAATT
*
10327265 ATTTTTTAAAA-TATAA
1 ATTTATTAAAATTATAA
10327281 ATTTATTAAAATTATAA
1 ATTTATTAAAATTATAA
10327298 TCATCATCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTATTAAAATTATAA
Found at i:10329183 original size:196 final size:196
Alignment explanation
Indices: 10328849--10329231 Score: 660
Period size: 196 Copynumber: 2.0 Consensus size: 196
10328839 GGAATTATCC
*
10328849 CAAAATTGGTATGGCCTATCCATGAACACCTTAATTCCGGACTATGAGGTCCAGAGATAAGTAGT
1 CAAAATTGGTATGGCCTATCCATGAACACCTTAACTCCGGACTATGAGGTCCAGAGATAAGTAGT
* *
10328914 TCTTGTCGACTCGTTAGTTTAGTGGAATATCGAGAGATCTTGCTAGGGTGACAGCTAGTTGATTG
66 TCTTGCCGACTCGTTAGTTTAGTGGAATATCAAGAGATCTTGCTAGGGTGACAGCTAGTTGATTG
*
10328979 AATAGAAACCCGAAGCAATAGTAGTTACGATCACCAAAGCGAGCTAATCACCTATACCAATTTAT
131 AATAGAAACCCGAAGCAATAGTAGTTACGATCACCAAAGCGAGCTAATCACCCATACCAATTTAT
10329044 T
196 T
* *
10329045 CAAAATTGGTATGGTCTATCCATGAACACCTTAACTCCGGACTATGAGGTCGAGAGATAAGTAGT
1 CAAAATTGGTATGGCCTATCCATGAACACCTTAACTCCGGACTATGAGGTCCAGAGATAAGTAGT
*
10329110 TCTTGCCGACTCGTTAGTTTAGTGGAATATCAAGAGATCTTGCTAGGGTGAC-GATTAGTTGATT
66 TCTTGCCGACTCGTTAGTTTAGTGGAATATCAAGAGATCTTGCTAGGGTGACAG-CTAGTTGATT
* * *
10329174 GAATAGAAACTCGAAGCGATAGTAGTTACGATCACCAAAGTGAGCTAATCACCCATAC
130 GAATAGAAACCCGAAGCAATAGTAGTTACGATCACCAAAGCGAGCTAATCACCCATAC
10329232 TTAGATTTGA
Statistics
Matches: 176, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
195 1 0.01
196 175 0.99
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (196 bp):
CAAAATTGGTATGGCCTATCCATGAACACCTTAACTCCGGACTATGAGGTCCAGAGATAAGTAGT
TCTTGCCGACTCGTTAGTTTAGTGGAATATCAAGAGATCTTGCTAGGGTGACAGCTAGTTGATTG
AATAGAAACCCGAAGCAATAGTAGTTACGATCACCAAAGCGAGCTAATCACCCATACCAATTTAT
T
Found at i:10331480 original size:18 final size:18
Alignment explanation
Indices: 10331453--10331487 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10331443 TTAAAAATTA
* *
10331453 TAAAAGTATATTAATATT
1 TAAAAATATATAAATATT
10331471 TAAAAATATATAAATAT
1 TAAAAATATATAAATAT
10331488 AATTTATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
TAAAAATATATAAATATT
Found at i:10331599 original size:6 final size:6
Alignment explanation
Indices: 10331588--10331630 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
10331578 GGGAAAAATG
* * *
10331588 AATAAA AATAAA AATAAA AATAAA AATAAT CATAAA ACTAAA A
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA A
10331631 TGTATATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:10338424 original size:6 final size:6
Alignment explanation
Indices: 10338415--10338452 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
10338405 GAACACTATC
10338415 CATTTA CATTTA CATTTA CATTTA CATTTA CATTTA CA
1 CATTTA CATTTA CATTTA CATTTA CATTTA CATTTA CA
10338453 CATTCCAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.47
Consensus pattern (6 bp):
CATTTA
Found at i:10346245 original size:21 final size:22
Alignment explanation
Indices: 10346214--10346254 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
10346204 ATATGTTAAA
10346214 AAAAATGTTTCAATTATAATTT
1 AAAAATGTTTCAATTATAATTT
*
10346236 AAAAAT-TTTCTATTATAAT
1 AAAAATGTTTCAATTATAAT
10346255 ACTTGAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (22 bp):
AAAAATGTTTCAATTATAATTT
Found at i:10349503 original size:16 final size:18
Alignment explanation
Indices: 10349464--10349497 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10349454 TAAGTTTATA
10349464 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
10349481 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
10349498 AATTTACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:10355650 original size:6 final size:6
Alignment explanation
Indices: 10355639--10355665 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10355629 TGTTGTTGCC
10355639 CCCACA CCCACA CCCACA CCCACA CCC
1 CCCACA CCCACA CCCACA CCCACA CCC
10355666 TCATCATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.70, G:0.00, T:0.00
Consensus pattern (6 bp):
CCCACA
Found at i:10369180 original size:22 final size:22
Alignment explanation
Indices: 10369114--10369183 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
10369104 TTTATTTTAG
*
10369114 ATTTGAGTTATTCAAATTTAAT
1 ATTTGAGTTATTTAAATTTAAT
* ***
10369136 A-TCGAGATTATTTGGGTTTAAT
1 ATTTGAG-TTATTTAAATTTAAT
*
10369158 ATTTGAGTTATTTAAATTAAAT
1 ATTTGAGTTATTTAAATTTAAT
10369180 ATTT
1 ATTT
10369184 TTGTTAAAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
21 4 0.11
22 28 0.78
23 4 0.11
ACGTcount: A:0.34, C:0.03, G:0.13, T:0.50
Consensus pattern (22 bp):
ATTTGAGTTATTTAAATTTAAT
Found at i:10372032 original size:27 final size:27
Alignment explanation
Indices: 10371997--10372061 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
10371987 TACTACTACT
* * *
10371997 ATATATATAATTGATATTATATTATA-G
1 ATAT-TATAATAGATATAATATTACATG
*
10372024 ATTATTATAAAAGATATAATATTACATG
1 A-TATTATAATAGATATAATATTACATG
10372052 ATATTATAAT
1 ATATTATAAT
10372062 GTTTAACCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
27 26 0.84
28 5 0.16
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.45
Consensus pattern (27 bp):
ATATTATAATAGATATAATATTACATG
Found at i:10372313 original size:27 final size:27
Alignment explanation
Indices: 10372269--10372341 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 27
10372259 CAATATGTCA
*
10372269 TATAA-TATTAATGA-AATAAT-ATATTT
1 TATAATTATTAAT-ATAATAATAATA-AT
10372295 TATAATTATTAATATAATAATAATAAT
1 TATAATTATTAATATAATAATAATAAT
*
10372322 TAT-ATTATATATTATAATAA
1 TATAATTAT-TAATATAATAA
10372342 AAGATATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 11 0.27
27 27 0.66
28 3 0.07
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (27 bp):
TATAATTATTAATATAATAATAATAAT
Found at i:10372322 original size:21 final size:21
Alignment explanation
Indices: 10372296--10372341 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
10372286 AATATATTTT
10372296 ATAATTATTAATATA-ATAATA
1 ATAATTA-TAATATATATAATA
* *
10372317 ATAATTATATTATATATTATA
1 ATAATTATAATATATATAATA
10372338 ATAA
1 ATAA
10372342 AAGATATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATAATTATAATATATATAATA
Found at i:10372349 original size:24 final size:23
Alignment explanation
Indices: 10372301--10372349 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
10372291 ATTTTATAAT
*
10372301 TATTAATATAATAATAATAATTA
1 TATTAATATAATAATAATAAATA
*
10372324 TATTATATATTATAATAA-AAGATA
1 TATTA-ATATAATAATAATAA-ATA
10372348 TA
1 TA
10372350 ATATCAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TATTAATATAATAATAATAAATA
Found at i:10372622 original size:21 final size:19
Alignment explanation
Indices: 10372586--10372628 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
10372576 ATTATTTGGG
10372586 TTTGAGTTTAGTATAATATA
1 TTTGAGTTTAGTATAA-ATA
10372606 TTTGAGTTTTA-TAATAAATA
1 TTTGAG-TTTAGT-ATAAATA
10372626 TTT
1 TTT
10372629 TAAAATATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (19 bp):
TTTGAGTTTAGTATAAATA
Found at i:10375261 original size:23 final size:24
Alignment explanation
Indices: 10375213--10375271 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 24
10375203 TTTGATTTTA
* *
10375213 TATTTTTAAATATAAATAAATCAA-
1 TATTTTTATAT-TGAATAAATCAAT
*
10375237 T-TTTTTATATTGAATAAATATAAT
1 TATTTTTATATTGAATAAAT-CAAT
10375261 TATTTTTATAT
1 TATTTTTATAT
10375272 ACAATATGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 8 0.28
23 10 0.34
24 2 0.07
25 9 0.31
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TATTTTTATATTGAATAAATCAAT
Found at i:10375897 original size:130 final size:129
Alignment explanation
Indices: 10375644--10375904 Score: 398
Period size: 130 Copynumber: 2.0 Consensus size: 129
10375634 GTTAGTTCCT
* * * * *
10375644 CGAGTCTTGATCGCATTCTGTATGGGTTCGTATATGTATAATGTGGGCGAACTCAAGATGAGGAC
1 CGAGTCTTGATCACACTCTATATGGGTTCGTATATGTATAATATCGGCGAACTCAAGATGAGGAC
*
10375709 GCATAATATGGGTTCACATACACATGGTTCGAATCCTGTATATGCAAACCTGCTTGAGTATACA
66 GCATAATATGGGTTCACATACACATGGTTCGAATCCTGTATATGCAAACCCGCTTGAGTATACA
*
10375773 CGAGTCTTGATCCACACTCTATATGGGTTCGTATATGTATAATATCGGCGAAC-CTAAGATGGGG
1 CGAGTCTTGAT-CACACTCTATATGGGTTCGTATATGTATAATATCGGCGAACTC-AAGATGAGG
* * * *
10375837 ATGCATAATATGGGTTCACATACATATGGTTCGAATCCTGTATATGCGAACCCGTTTGAGTATAC
64 ACGCATAATATGGGTTCACATACACATGGTTCGAATCCTGTATATGCAAACCCGCTTGAGTATAC
10375902 A
129 A
10375903 CG
1 CG
10375905 TGTTAACCCT
Statistics
Matches: 119, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
129 12 0.10
130 107 0.90
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (129 bp):
CGAGTCTTGATCACACTCTATATGGGTTCGTATATGTATAATATCGGCGAACTCAAGATGAGGAC
GCATAATATGGGTTCACATACACATGGTTCGAATCCTGTATATGCAAACCCGCTTGAGTATACA
Found at i:10383933 original size:23 final size:23
Alignment explanation
Indices: 10383885--10383942 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
10383875 TGATCTAAGG
* *
10383885 AAAAATAAAAGAAACTGAATTAA
1 AAAAATAAAAGAAAATGAACTAA
10383908 AAAAATAAAAGAAAATAGAACTAA
1 AAAAATAAAAGAAAAT-GAACTAA
*
10383932 AAGAAGTAAAA
1 AA-AAATAAAA
10383943 AATAGGGAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 15 0.50
24 8 0.27
25 7 0.23
ACGTcount: A:0.72, C:0.03, G:0.10, T:0.14
Consensus pattern (23 bp):
AAAAATAAAAGAAAATGAACTAA
Found at i:10384778 original size:19 final size:19
Alignment explanation
Indices: 10384754--10384796 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
10384744 AAATATAAAT
10384754 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
10384773 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
10384792 TAAAT
1 TAAAT
10384797 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:10385544 original size:102 final size:103
Alignment explanation
Indices: 10385362--10385552 Score: 289
Period size: 102 Copynumber: 1.9 Consensus size: 103
10385352 TTATTTTGTG
* *
10385362 AATTTTTTCCTTTTTTTTTCTTTAAGAATACATTGTACCTTTTGACGCGAAATGAAATGACACCC
1 AATTTTTTCCTTTCTTTTTCTTTAAGAATACATTGTACCTTTTGACGCGAAATGAAATGACAACC
*
10385427 AAGCACTCCATCCCGGTTACTCAGCCCAACATGCTCTC
66 AAGCACTCCACCCCGGTTACTCAGCCCAACATGCTCTC
* * *
10385465 AATTTTTTTCTTCTCTTTTT-TTT-AGAATGCATTAG-ACCTTTTGACGCGAAGTGAAATGACAA
1 AATTTTTTCCTT-TCTTTTTCTTTAAGAATACATT-GTACCTTTTGACGCGAAATGAAATGACAA
10385527 CCAAGCACTCCACCCCGGTTACTCAG
64 CCAAGCACTCCACCCCGGTTACTCAG
10385553 TCTAACACAT
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
102 59 0.74
103 15 0.19
104 6 0.08
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (103 bp):
AATTTTTTCCTTTCTTTTTCTTTAAGAATACATTGTACCTTTTGACGCGAAATGAAATGACAACC
AAGCACTCCACCCCGGTTACTCAGCCCAACATGCTCTC
Found at i:10385589 original size:102 final size:102
Alignment explanation
Indices: 10385377--10385589 Score: 254
Period size: 102 Copynumber: 2.1 Consensus size: 102
10385367 TTTCCTTTTT
* * *
10385377 TTTTC-TTTAAGAATACATTGTACCTTTTGACGCGAAATGAAATGACACCCAAGCACTCCATCCC
1 TTTTCTTTTTAGAATACATTGTACCTTTTGACGCGAAATGAAATGACAACCAAGCACTCCACCCC
** * * *
10385441 GGTTACTCAGCCCAACATGCTCTCAATTTTTTTCTTC
66 GGTTACTCAGCCCAACACACTCTCAATTTATTTATTA
* *
10385478 TCTTT-TTTTTAGAATGCATTAG-ACCTTTTGACGCGAAGTGAAATGACAACCAAGCACTCCACC
1 T-TTTCTTTTTAGAATACATT-GTACCTTTTGACGCGAAATGAAATGACAACCAAGCACTCCACC
* * *
10385541 CCGGTTACTCAGTCTAACACATTC-CAAATTTATTTATTA
64 CCGGTTACTCAGCCCAACACACTCTC-AATTTATTTATTA
10385580 TTTTCTTTTT
1 TTTTCTTTTT
10385590 TTTTATTCGG
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
101 5 0.05
102 88 0.94
103 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (102 bp):
TTTTCTTTTTAGAATACATTGTACCTTTTGACGCGAAATGAAATGACAACCAAGCACTCCACCCC
GGTTACTCAGCCCAACACACTCTCAATTTATTTATTA
Done.