Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 206 of 210
Found at i:68488132 original size:141 final size:142
Alignment explanation
Indices: 68487961--68488243 Score: 559
Period size: 141 Copynumber: 2.0 Consensus size: 142
68487951 AATAATATTA
68487961 ATACCCCTAATAACAATAGTAATGCTAGTGAACTAAATGATTTTATAGCAATAATAACAAATAAA
1 ATACCCCTAATAACAATAGTAATGCTAGTGAACTAAATGATTTTATAGCAATAATAACAAATAAA
68488026 GGACTAAATTGGCGTTAAAGCAGTAATTTCGGGGAAAAATCTAAAATAAATAAAATGAAAGGACT
66 GGACTAAATTGGCGTTAAAGCAGTAATTTCGGGGAAAAATCTAAAATAAATAAAATGAAAGGACT
68488091 AAATTACAAAGC
131 AAATTACAAAGC
68488103 ATACCCCTAA-AACAATAGTAATGCTAGTGAACTAAATGATTTTATAGCAATAATAACAAATAAA
1 ATACCCCTAATAACAATAGTAATGCTAGTGAACTAAATGATTTTATAGCAATAATAACAAATAAA
68488167 GGACTAAATTGGCGTTAAAGCAGTAATTTCGGGGAAAAATCTAAAATAAATAAAATGAAAGGACT
66 GGACTAAATTGGCGTTAAAGCAGTAATTTCGGGGAAAAATCTAAAATAAATAAAATGAAAGGACT
68488232 AAATTACAAAGC
131 AAATTACAAAGC
68488244 GCGAATAACA
Statistics
Matches: 141, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
141 131 0.93
142 10 0.07
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.24
Consensus pattern (142 bp):
ATACCCCTAATAACAATAGTAATGCTAGTGAACTAAATGATTTTATAGCAATAATAACAAATAAA
GGACTAAATTGGCGTTAAAGCAGTAATTTCGGGGAAAAATCTAAAATAAATAAAATGAAAGGACT
AAATTACAAAGC
Found at i:68493670 original size:22 final size:22
Alignment explanation
Indices: 68493597--68493670 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
68493587 AAGTTACTAT
68493597 AGGAGATATGCTGAGAAAAACC
1 AGGAGATATGCTGAGAAAAACC
*
68493619 AGGAGA-AT--TGCA-AATAACTCC
1 AGGAGATATGCTG-AGAA-AA-ACC
68493640 AAAAGGAGATATGCTGAGAAAAACC
1 ---AGGAGATATGCTGAGAAAAACC
68493665 AGGAGA
1 AGGAGA
68493671 ATTAAAGAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 20
0.65 0.03 0.32
Matches are distributed among these distances:
19 4 0.10
20 3 0.08
21 4 0.10
22 12 0.30
24 6 0.15
25 4 0.10
26 3 0.08
27 4 0.10
ACGTcount: A:0.47, C:0.14, G:0.26, T:0.14
Consensus pattern (22 bp):
AGGAGATATGCTGAGAAAAACC
Found at i:68510759 original size:19 final size:18
Alignment explanation
Indices: 68510731--68510766 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
68510721 ACCTTGTCAC
68510731 CTTGCTTTCTCACACTTT
1 CTTGCTTTCTCACACTTT
*
68510749 CTTGACTTTCTCTCACTT
1 CTTG-CTTTCTCACACTT
68510767 CCAGCCATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.11, C:0.33, G:0.06, T:0.50
Consensus pattern (18 bp):
CTTGCTTTCTCACACTTT
Found at i:68525924 original size:4 final size:4
Alignment explanation
Indices: 68525915--68525939 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
68525905 TATCGTTCAC
68525915 TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT T
68525940 TTCTAGGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:68527393 original size:27 final size:26
Alignment explanation
Indices: 68527363--68527420 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
68527353 CATTAGACTG
* *
68527363 GTTGATTCATGAGCCGATACAAAACTA
1 GTTGATCCACGAGCCGATAC-AAACTA
* *
68527390 GTTGATCCGCGAGTCGATACAAACTA
1 GTTGATCCACGAGCCGATACAAACTA
68527416 GTTGA
1 GTTGA
68527421 ATAGGATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 11 0.41
27 16 0.59
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (26 bp):
GTTGATCCACGAGCCGATACAAACTA
Found at i:68537359 original size:287 final size:287
Alignment explanation
Indices: 68536827--68537402 Score: 931
Period size: 287 Copynumber: 2.0 Consensus size: 287
68536817 ATCGCGGTCT
* * *
68536827 TCATCGGCGATATTCTGGTTTACTTTAAGACCGAGGATGAGCATGATGAACAACTAAGAGTAGTG
1 TCATCGACAATATTCTAGTTTACTTTAAGACCGAGGATGAGCATGATGAACAACTAAGAGTAGTG
* * * *
68536892 CTTCAGATACTCTAAGAGAAGCAGCTCTATGCTAAGTTTAGCAAGTGTGAGTTCTGGTTGCGTGA
66 CTTCAGATACTCCAAGAGAAGCAACTCTATGCTAAGTTGAGCAAGTGTGAGCTCTGGTTGCGTGA
*
68536957 GGTAACTTTTCTGGGTCATGTGGTTTCCACTGAGGGGATTCAAGTTGATCTAAAGAAGATTGAAG
131 GGTAACTTTTCTGGGTCATATGGTTTCCACTGAGGGGATTCAAGTTGATCTAAAGAAGATTGAAG
** *
68537022 TTGCGTTTGATTGGAAGCAACCTAAGAATATATCTGAGATTCGTAGTTTTCTGGGTCTTGCGGGG
196 TTGCACTTGATTGGAAGCAACCTAAGAATATATCTGAGATTCGCAGTTTTCTGGGTCTTGCGGGG
*
68537087 TATTATCGGTGTTTTGTTGAGGGGTTC
261 TATTATCAGTGTTTTGTTGAGGGGTTC
68537114 TCATCGACAATATTCTAGTTTACTTTAAGACCGAGGATGAGCATGATGAACAACTAAGAGTAGTG
1 TCATCGACAATATTCTAGTTTACTTTAAGACCGAGGATGAGCATGATGAACAACTAAGAGTAGTG
* * *
68537179 CTTCAGATACTCCGAGGGAAGCAACTCTATGTTAAGTTGAGCAAGTGTGAGCTCTGGTTGCGTGA
66 CTTCAGATACTCCAAGAGAAGCAACTCTATGCTAAGTTGAGCAAGTGTGAGCTCTGGTTGCGTGA
** * *
68537244 GGTAACTTTTCTGGGTCATATGGTTTCTGCTGAGGGGATTCGAGTTGATCTGAAGAAGATTG-AG
131 GGTAACTTTTCTGGGTCATATGGTTTCCACTGAGGGGATTCAAGTTGATCTAAAGAAGATTGAAG
*
68537308 ATTGCACTTGATTGGAAGCAGA-CTAAGAATGTATCTGAGATTCGCAGTTTTCTGGGTCTTGCGG
196 -TTGCACTTGATTGGAAGCA-ACCTAAGAATATATCTGAGATTCGCAGTTTTCTGGGTCTTGCGG
*
68537372 GGTATTATCAGTGTTTTTTTGAGGGGTTC
259 GGTATTATCAGTGTTTTGTTGAGGGGTTC
68537401 TC
1 TC
68537403 TTTGATTGCA
Statistics
Matches: 266, Mismatches: 21, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
286 2 0.01
287 263 0.99
288 1 0.00
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (287 bp):
TCATCGACAATATTCTAGTTTACTTTAAGACCGAGGATGAGCATGATGAACAACTAAGAGTAGTG
CTTCAGATACTCCAAGAGAAGCAACTCTATGCTAAGTTGAGCAAGTGTGAGCTCTGGTTGCGTGA
GGTAACTTTTCTGGGTCATATGGTTTCCACTGAGGGGATTCAAGTTGATCTAAAGAAGATTGAAG
TTGCACTTGATTGGAAGCAACCTAAGAATATATCTGAGATTCGCAGTTTTCTGGGTCTTGCGGGG
TATTATCAGTGTTTTGTTGAGGGGTTC
Found at i:68541102 original size:26 final size:24
Alignment explanation
Indices: 68541067--68541115 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
68541057 TTTTATGAAC
* *
68541067 TTTTTATATTCTTTTTATTTTTTAT
1 TTTTTATATT-TTTATAATTTTTAT
68541092 TTTTGTATATTTTTATAATTTTTA
1 TTTT-TATATTTTTATAATTTTTA
68541116 AATTATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTTATATTTTTATAATTTTTAT
Found at i:68541724 original size:29 final size:30
Alignment explanation
Indices: 68541692--68541752 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
68541682 TCAATTTTTA
*
68541692 ATGTATAAAATTGCACA-AAATTAAAGTTC
1 ATGTATAAAATTGCACATAAACTAAAGTTC
*
68541721 ATGTATAACATTGCACATTAAACTAAAGTTC
1 ATGTATAAAATTGCACA-TAAACTAAAGTTC
68541752 A
1 A
68541753 ATTATAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 16 0.57
31 12 0.43
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (30 bp):
ATGTATAAAATTGCACATAAACTAAAGTTC
Found at i:68542379 original size:83 final size:82
Alignment explanation
Indices: 68542225--68542380 Score: 199
Period size: 83 Copynumber: 1.9 Consensus size: 82
68542215 TTGAACATAC
* *
68542225 ATCAATATTAATAATAAACGAATTAATTCGATTATATTTTAAGTAGAAATCGAATATCATTTTAA
1 ATCAATATTAATAATAAACGAATTAATTCGATTATATTATAAGTAGAAATCGAATAT-ATTTAAA
*
68542290 GAAAAAAAAGTCAACTTT
65 AAAAAAAAAGTCAACTTT
* * * * *
68542308 ATCAATTTTAATAATAAACGAATTTATTCTATTAT-TTATAAGTAGAAATGGAATAT-TTTCCAA
1 ATCAATATTAATAATAAACGAATTAATTCGATTATATTATAAGTAGAAATCGAATATATTT-AAA
*
68542371 AAATAAAAAG
65 AAAAAAAAAG
68542381 CTTCACGATT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 3 0.05
81 10 0.16
82 19 0.30
83 32 0.50
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (82 bp):
ATCAATATTAATAATAAACGAATTAATTCGATTATATTATAAGTAGAAATCGAATATATTTAAAA
AAAAAAAAGTCAACTTT
Found at i:68542857 original size:26 final size:25
Alignment explanation
Indices: 68542818--68542867 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
68542808 ATTTTTAGAA
68542818 TTTTTAAAAAATTTAAAATTTGAAT
1 TTTTTAAAAAATTTAAAATTTGAAT
* **
68542843 TTTTTATAAATATTTTGAATTTGAA
1 TTTTTA-AAAAATTTAAAATTTGAA
68542868 ATTTATTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (25 bp):
TTTTTAAAAAATTTAAAATTTGAAT
Found at i:68543791 original size:18 final size:19
Alignment explanation
Indices: 68543725--68543791 Score: 50
Period size: 18 Copynumber: 3.6 Consensus size: 19
68543715 CTATATAGAT
68543725 TTTTTA-ATTTTTTAC-AA
1 TTTTTATATTTTTTACAAA
****
68543742 TTTTTATAAAAAGTTACAAA
1 TTTTTAT-ATTTTTTACAAA
*
68543762 TTTTTATTTTTTTTAC-AA
1 TTTTTATATTTTTTACAAA
*
68543780 TTTTTCTATTTT
1 TTTTTATATTTT
68543792 CAATATTTTT
Statistics
Matches: 36, Mismatches: 11, Indels: 5
0.69 0.21 0.10
Matches are distributed among these distances:
17 6 0.17
18 12 0.33
19 9 0.25
20 9 0.25
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTTTATATTTTTTACAAA
Found at i:68544260 original size:29 final size:29
Alignment explanation
Indices: 68544226--68544282 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
68544216 ACACCTTTTT
*
68544226 ACTTTC-CCCAAATACTTTTACTTCCCCTC
1 ACTTTCTCCCAAA-ACTTTTACTACCCCTC
68544255 ACTTTCTCCCAAAACTTTTACTACCCCT
1 ACTTTCTCCCAAAACTTTTACTACCCCT
68544283 GTCATCCCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.23, C:0.40, G:0.00, T:0.37
Consensus pattern (29 bp):
ACTTTCTCCCAAAACTTTTACTACCCCTC
Found at i:68553131 original size:21 final size:21
Alignment explanation
Indices: 68553107--68553158 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
68553097 GTTTAACTTA
* *
68553107 TATGAGTTTCCGTTCAGCTCT
1 TATGAGTTTCCGTTCAACCCT
*
68553128 TATGAGCTTCCGTTCAACCCT
1 TATGAGTTTCCGTTCAACCCT
*
68553149 TATGGGTTTC
1 TATGAGTTTC
68553159 TGTTATCACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.15, C:0.25, G:0.19, T:0.40
Consensus pattern (21 bp):
TATGAGTTTCCGTTCAACCCT
Found at i:68555259 original size:12 final size:12
Alignment explanation
Indices: 68555242--68555266 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
68555232 GGTGTTCATT
68555242 CGGTTAACTGAC
1 CGGTTAACTGAC
68555254 CGGTTAACTGAC
1 CGGTTAACTGAC
68555266 C
1 C
68555267 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (12 bp):
CGGTTAACTGAC
Found at i:68555438 original size:9 final size:9
Alignment explanation
Indices: 68555424--68555504 Score: 101
Period size: 9 Copynumber: 8.9 Consensus size: 9
68555414 TTTGGTTAAA
68555424 AATTACCCG
1 AATTACCCG
68555433 AATTACCCG
1 AATTACCCG
68555442 AATTACCCG
1 AATTACCCG
68555451 AATTACCCG
1 AATTACCCG
*
68555460 AATTAACCG
1 AATTACCCG
* *
68555469 AATTAACCA
1 AATTACCCG
68555478 AATTA-CCG
1 AATTACCCG
*
68555486 AAAAATACCCG
1 --AATTACCCG
68555497 AATTACCC
1 AATTACCC
68555505 AAAATTTTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
8 2 0.03
9 55 0.86
10 4 0.06
11 3 0.05
ACGTcount: A:0.41, C:0.30, G:0.09, T:0.21
Consensus pattern (9 bp):
AATTACCCG
Found at i:68555668 original size:13 final size:13
Alignment explanation
Indices: 68555650--68555679 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
68555640 TTTTAGTTTT
68555650 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
68555663 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
68555676 ATTG
1 ATTG
68555680 AGTTTGGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:68560633 original size:21 final size:21
Alignment explanation
Indices: 68560601--68560658 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
68560591 GCTTCTGTTT
*
68560601 AACTCATATGAGTTTCCATTC
1 AACTCTTATGAGTTTCCATTC
* * *
68560622 AGCTCTTATGAGCTTCCGTTC
1 AACTCTTATGAGTTTCCATTC
*
68560643 AACTCTTATGGGTTTC
1 AACTCTTATGAGTTTC
68560659 TGTTTAGCAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.40
Consensus pattern (21 bp):
AACTCTTATGAGTTTCCATTC
Found at i:68560672 original size:42 final size:42
Alignment explanation
Indices: 68560571--68560673 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 42
68560561 TTATGTTTAC
* * * *
68560571 TTTCTATTTAGCTCTCACGAGCTTCTGTTTAACTCATATGAG
1 TTTCTATTTAGCTCTTATGAGCTTCCGTTCAACTCATATGAG
* * * *
68560613 TTTCCATTCAGCTCTTATGAGCTTCCGTTCAACTCTTATGGG
1 TTTCTATTTAGCTCTTATGAGCTTCCGTTCAACTCATATGAG
* *
68560655 TTTCTGTTTAGCACTTATG
1 TTTCTATTTAGCTCTTATG
68560674 TCCTTCTATT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (42 bp):
TTTCTATTTAGCTCTTATGAGCTTCCGTTCAACTCATATGAG
Found at i:68573274 original size:90 final size:90
Alignment explanation
Indices: 68573121--68573286 Score: 332
Period size: 90 Copynumber: 1.8 Consensus size: 90
68573111 CGGCGGATTC
68573121 ATTTCTAATCTGTTGTCTAATAACATTCGCTAACACTTACGCTTTTCTTTTCCTTCATCTACAAG
1 ATTTCTAATCTGTTGTCTAATAACATTCGCTAACACTTACGCTTTTCTTTTCCTTCATCTACAAG
68573186 ATTTTAGTGTCCCGGTGGACCATCA
66 ATTTTAGTGTCCCGGTGGACCATCA
68573211 ATTTCTAATCTGTTGTCTAATAACATTCGCTAACACTTACGCTTTTCTTTTCCTTCATCTACAAG
1 ATTTCTAATCTGTTGTCTAATAACATTCGCTAACACTTACGCTTTTCTTTTCCTTCATCTACAAG
68573276 ATTTTAGTGTC
66 ATTTTAGTGTC
68573287 TAATAACATT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 76 1.00
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.42
Consensus pattern (90 bp):
ATTTCTAATCTGTTGTCTAATAACATTCGCTAACACTTACGCTTTTCTTTTCCTTCATCTACAAG
ATTTTAGTGTCCCGGTGGACCATCA
Found at i:68574242 original size:21 final size:23
Alignment explanation
Indices: 68574217--68574262 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
68574207 AAAAACACAC
*
68574217 AAAACCCTTAA-ATTG-GTTCTA
1 AAAACCATTAACATTGTGTTCTA
*
68574238 AAAACCATTAACTTTGTGTTCTA
1 AAAACCATTAACATTGTGTTCTA
68574261 AA
1 AA
68574263 TCTTACACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 3 0.14
23 8 0.38
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (23 bp):
AAAACCATTAACATTGTGTTCTA
Found at i:68578868 original size:28 final size:26
Alignment explanation
Indices: 68578828--68578880 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
68578818 CTTTTCAATT
*
68578828 AATAAATTCTCTTTGAGTTTTTCTTTTC
1 AATAAATTCTC-TTAAG-TTTTCTTTTC
* *
68578856 AATAATTTTTCTTAAGTTTTCTTTT
1 AATAAATTCTCTTAAGTTTTCTTTT
68578881 AGAAGAGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 9 0.41
27 4 0.18
28 9 0.41
ACGTcount: A:0.23, C:0.11, G:0.06, T:0.60
Consensus pattern (26 bp):
AATAAATTCTCTTAAGTTTTCTTTTC
Found at i:68582806 original size:10 final size:10
Alignment explanation
Indices: 68582791--68582815 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
68582781 TATAACTTAC
68582791 AAATATGTAT
1 AAATATGTAT
68582801 AAATATGTAT
1 AAATATGTAT
68582811 AAATA
1 AAATA
68582816 CATAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (10 bp):
AAATATGTAT
Found at i:68582987 original size:30 final size:28
Alignment explanation
Indices: 68582953--68583014 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
68582943 TAAAAGCCCT
68582953 TTTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTT-AAAATTTACCGAAATGGGCC-A
** *
68582983 TTTTTTTATTATTTACCGGAATGGGCCA
1 TTTTTTTAAAATTTACCGAAATGGGCCA
68583011 TTTT
1 TTTT
68583015 CCGCGAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 5 0.17
29 17 0.59
30 7 0.24
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (28 bp):
TTTTTTTAAAATTTACCGAAATGGGCCA
Found at i:68583085 original size:17 final size:17
Alignment explanation
Indices: 68583063--68583097 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
68583053 CGTGACAGGA
68583063 CATCGCGTCCACGTCAG
1 CATCGCGTCCACGTCAG
68583080 CATCGCGTCCACGTCAG
1 CATCGCGTCCACGTCAG
68583097 C
1 C
68583098 TCGATTTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.43, G:0.23, T:0.17
Consensus pattern (17 bp):
CATCGCGTCCACGTCAG
Found at i:68586304 original size:17 final size:17
Alignment explanation
Indices: 68586264--68586305 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
68586254 CCCTATATAC
*
68586264 AATTATATTATTATAAT
1 AATTATATTTTTATAAT
*
68586281 -A-TATATTTTTATATT
1 AATTATATTTTTATAAT
68586296 AATTATATTT
1 AATTATATTT
68586306 AAGCTTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AATTATATTTTTATAAT
Found at i:68588523 original size:15 final size:16
Alignment explanation
Indices: 68588498--68588531 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
68588488 AAGATGAAGC
*
68588498 GTTTGATAAATTTAAA
1 GTTTGATAAATCTAAA
68588514 GTTT-ATAAATCTAAA
1 GTTTGATAAATCTAAA
68588529 GTT
1 GTT
68588532 GAACTTCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (16 bp):
GTTTGATAAATCTAAA
Found at i:68591958 original size:21 final size:21
Alignment explanation
Indices: 68591934--68591973 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
68591924 TGTACATTTC
68591934 CATAATAATTCATCTCAAATT
1 CATAATAATTCATCTCAAATT
* * *
68591955 CATATTATTTCATGTCAAA
1 CATAATAATTCATCTCAAA
68591974 ACTTTTCCCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (21 bp):
CATAATAATTCATCTCAAATT
Found at i:68592352 original size:26 final size:26
Alignment explanation
Indices: 68592287--68592357 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
68592277 AGTCATATCG
*
68592287 GGAAACTCTTG-AGAGCCATTAATCA
1 GGAAACTCTTGAAGAGCCATTAAACA
*** *
68592312 GGAAACTCACAAAGAGCCTTTAAACA
1 GGAAACTCTTGAAGAGCCATTAAACA
*
68592338 GGAAGCTCTTGAAGAGCCAT
1 GGAAACTCTTGAAGAGCCAT
68592358 ATAACGAGAC
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
25 8 0.23
26 27 0.77
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (26 bp):
GGAAACTCTTGAAGAGCCATTAAACA
Found at i:68594564 original size:20 final size:20
Alignment explanation
Indices: 68594541--68594582 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
68594531 AACTATTTAA
* *
68594541 ATAATATTAATTGAATAGTT
1 ATAATATTAAATGAATAATT
68594561 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
68594581 AT
1 AT
68594583 GTGTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:68597497 original size:21 final size:21
Alignment explanation
Indices: 68597473--68597535 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
68597463 CATAGAAGCA
* *
68597473 CATAAGTGCTAAACAGAAACC
1 CATAAGAGCTGAACAGAAACC
* * * *
68597494 CATAAGGGTTGAACAGAAGCT
1 CATAAGAGCTGAACAGAAACC
*
68597515 CATAAGAGCTGAACGGAAACC
1 CATAAGAGCTGAACAGAAACC
68597536 TAAAAGGGTT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.14
Consensus pattern (21 bp):
CATAAGAGCTGAACAGAAACC
Found at i:68597534 original size:42 final size:42
Alignment explanation
Indices: 68597467--68597657 Score: 206
Period size: 42 Copynumber: 4.6 Consensus size: 42
68597457 AGGCTGCATA
* * * * * *
68597467 GAAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTGAACA
1 GAAGCTCATAAGAGCTGAACTGAAACCCATAAGGGTTAAACT
* * *
68597509 GAAGCTCATAAGAGCTGAACGGAAACCTAAAAGGGTTAAACT
1 GAAGCTCATAAGAGCTGAACTGAAACCCATAAGGGTTAAACT
* * * *
68597551 GAAGCTTAAAATAGCTGAACTGAAACCCATTAGGGTTAAACT
1 GAAGCTCATAAGAGCTGAACTGAAACCCATAAGGGTTAAACT
*
68597593 GAAGCTCGA-AAGAGCTGAACTGAAACCCATTAGGGTTAAACT
1 GAAGCTC-ATAAGAGCTGAACTGAAACCCATAAGGGTTAAACT
* * *
68597635 GAAACTCATATGAG-TTAACTGAA
1 GAAGCTCATAAGAGCTGAACTGAA
68597658 GCTTATAAGA
Statistics
Matches: 127, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
41 9 0.07
42 117 0.92
43 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.19
Consensus pattern (42 bp):
GAAGCTCATAAGAGCTGAACTGAAACCCATAAGGGTTAAACT
Found at i:68597592 original size:21 final size:21
Alignment explanation
Indices: 68597568--68597639 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
68597558 AAAATAGCTG
68597568 AACTGAAACCCATTAGGGTTA
1 AACTGAAACCCATTAGGGTTA
* * * * * *
68597589 AACTGAAGCTCGA-AAGAGCTG
1 AACTGAAAC-CCATTAGGGTTA
68597610 AACTGAAACCCATTAGGGTTA
1 AACTGAAACCCATTAGGGTTA
68597631 AACTGAAAC
1 AACTGAAAC
68597640 TCATATGAGT
Statistics
Matches: 37, Mismatches: 12, Indels: 4
0.70 0.23 0.08
Matches are distributed among these distances:
20 2 0.05
21 33 0.89
22 2 0.05
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (21 bp):
AACTGAAACCCATTAGGGTTA
Found at i:68597651 original size:21 final size:21
Alignment explanation
Indices: 68597610--68597679 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
68597600 GAAAGAGCTG
* *
68597610 AACTGAAACCCAT-TAGGGTTA
1 AACTGAAACTCATAT-GAGTTA
68597631 AACTGAAACTCATATGAGTT-
1 AACTGAAACTCATATGAGTTA
* * * *
68597651 AACTGAAGCTTATAAGAGCTA
1 AACTGAAACTCATATGAGTTA
68597672 AACTGAAA
1 AACTGAAA
68597680 GCAAACATGG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 16 0.40
21 23 0.57
22 1 0.03
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (21 bp):
AACTGAAACTCATATGAGTTA
Found at i:68613629 original size:2 final size:2
Alignment explanation
Indices: 68613622--68613648 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
68613612 CATGTGCATA
68613622 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
68613649 ACACACATAT
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:68614442 original size:22 final size:22
Alignment explanation
Indices: 68614417--68614466 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
68614407 AATCCAAAAG
*
68614417 CATTTCTAAACATTCATT-TAA
1 CATTTCTAAACATCCATTCTAA
68614438 CCATTTCTAAACATCCATTCTAA
1 -CATTTCTAAACATCCATTCTAA
68614461 CATTTC
1 CATTTC
68614467 CACAATTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (22 bp):
CATTTCTAAACATCCATTCTAA
Found at i:68615311 original size:20 final size:20
Alignment explanation
Indices: 68615286--68615323 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
68615276 TGTTGTACAG
68615286 AGGCACCAAAGTGCAAACAA
1 AGGCACCAAAGTGCAAACAA
*
68615306 AGGCACCGAAGTGCAAAC
1 AGGCACCAAAGTGCAAAC
68615324 CTATACAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.26, G:0.24, T:0.05
Consensus pattern (20 bp):
AGGCACCAAAGTGCAAACAA
Found at i:68621205 original size:43 final size:43
Alignment explanation
Indices: 68621158--68622173 Score: 170
Period size: 43 Copynumber: 23.2 Consensus size: 43
68621148 CCTAGGCAGT
*
68621158 AGCGGAGTAGATCGAAGGCACTAACCTTGCCTCCCTCGGTGGC
1 AGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
* * * * * * * ** * ** *
68621201 AGCGGAGCAGGT-TAAAAAATTACAGATCTTATCTCCCTAGGCAGT
1 AGCGGAGTAGATCGAAGACACT--A-ACCTTGCCTCCCTCGGTGGC
68621246 AGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
1 AGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
* * * * * * * ** * ** *
68621289 AGCGGAGCAGGT-TAAAAAATTACAGATCTTATCTCCCTAGGCAGT
1 AGCGGAGTAGATCGAAGACACT--A-ACCTTGCCTCCCTCGGTGGC
68621334 AGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
1 AGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
* * ** * * * * *
68621377 AGCGGAGCAGGTTAAAAGATAGC-AGA-TTTGCCTTCCT-GTACTGAC
1 AGCGGAGTA-GATCGAAGACA-CTA-ACCTTGCCTCCCTCG--GTGGC
* * * * *
68621422 AGTGAAGCAAATCGAAGACATTAACCTTGCCTCCCTCGGTGGC
1 AGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
* * * * * * * ** * * ** *
68621465 AGCGGAGCAGGT-TAAAAAATTACAGATCTTATCTCCTTAGGCAGT
1 AGCGGAGTAGATCGAAGACACT--A-ACCTTGCCTCCCTCGGTGGC
68621510 AGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
1 AGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
* * ** * ** * * * *
68621553 AGCGGAGCAGGTTAAAGATAGC-AGATTTTACCTTCCT-GTACTGAC
1 AGCGGAGTAGATCGAAGACA-CTA-ACCTTGCCTCCCTCG--GTGGC
*** * * *
68621598 AGTAAAGCAAATCGAAGACATTAACCTTGCCTCCCTCGGTGGC
1 AGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
* * ** * * * * ** * ** *
68621641 AGCGGAGCAGGTTAAAAAAATTACAGATCTTATCTCCCTAGGCAGT
1 AGCGGAGTAGATCGAAGACACT--A-ACCTTGCCTCCCTCGGTGGC
68621687 AGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
1 AGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
* * * * * * * ** * ** *
68621730 AGCGGAGCAGGT-TAAAAAATTACAGATCTTATCTCCCTAGGCAGT
1 AGCGGAGTAGATCGAAGACACT--A-ACCTTGCCTCCCTCGGTGGC
68621775 AGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
1 AGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
* * ** * ** * * *
68621818 AGCGGAGCAGGTTAAAGATAGC-AGATTTTGCCTTCCT-GTACTGAC
1 AGCGGAGTAGATCGAAGACA-CTA-ACCTTGCCTCCCTCG--GTGGC
* * * * *
68621863 AGTGAAGCAAATCGAAGACATTAACCTTGCCTCCCTCGGTGGC
1 AGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
* * ** * * * * ** * * ***
68621906 AGCGGAGCAGGTTAAAAAATTACAAATCTTATCTCTCTAGG-CAT
1 AGCGGAGTA-GATCGAAGA-CACTAACCTTGCCTCCCTCGGTGGC
*
68621950 AGCGGAGTAGATCGAAGGCACTAACCTTGCCTCCCTCGGTGGC
1 AGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
* * ** * * * * ** * * ***
68621993 AGCGGAGCAGGTTAAAAAATTACAAATCTTATCTCTCTAGG-CAT
1 AGCGGAGTA-GATCGAAGA-CACTAACCTTGCCTCCCTCGGTGGC
*
68622037 AGCGGAGTAGATCGAAGGCACTAACCTTGCCTCCCTCGGTGGC
1 AGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
* * ** * * * * ** * * ***
68622080 AGCGGAGCAGGTTAAAAAATTACAAATCTTATCTCTCTAGG-CAT
1 AGCGGAGTA-GATCGAAGA-CACTAACCTTGCCTCCCTCGGTGGC
*
68622124 AGCGGAGTAGATCGAAGGCACTAACCTTGCCTCCCTCGGTGGC
1 AGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
68622167 AGCGGAG
1 AGCGGAG
68622174 CAGGTTAAAG
Statistics
Matches: 619, Mismatches: 306, Indels: 96
0.61 0.30 0.09
Matches are distributed among these distances:
42 62 0.10
43 210 0.34
44 118 0.19
45 181 0.29
46 48 0.08
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (43 bp):
AGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGC
Found at i:68621236 original size:88 final size:88
Alignment explanation
Indices: 68621135--68622182 Score: 1476
Period size: 88 Copynumber: 11.9 Consensus size: 88
68621125 TTGAAGATTT
* *
68621135 CAGATCTTGTCTCCCTAGGCAGTAGCGGAGTAGATCGAAGGCACTAACCTTGCCTCCCTCGGTGG
1 CAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGG
68621200 CAGCGGAGCAGGTTAAAAAATTA
66 CAGCGGAGCAGGTTAAAAAATTA
68621223 CAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGG
1 CAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGG
68621288 CAGCGGAGCAGGTTAAAAAATTA
66 CAGCGGAGCAGGTTAAAAAATTA
68621311 CAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGG
1 CAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGG
*
68621376 CAGCGGAGCAGGTTAAAAGA-TA
66 CAGCGGAGCAGGTTAAAAAATTA
** * * * * * * * * *
68621398 GCAGAT-TTGCCTTCCT-GTACTGACAGTGAAGCAAATCGAAGACATTAACCTTGCCTCCCTCGG
1 -CAGATCTTATCTCCCTAG-GCAG-TAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGG
68621461 TGGCAGCGGAGCAGGTTAAAAAATTA
63 TGGCAGCGGAGCAGGTTAAAAAATTA
*
68621487 CAGATCTTATCTCCTTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGG
1 CAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGG
*
68621552 CAGCGGAGCAGGTT-AAAGA-TA
66 CAGCGGAGCAGGTTAAAAAATTA
* * * * * * * *
68621573 GCAGATTTTACCTTCCTGTACTGACAGTA---AAGCAAATCGAAGACATTAACCTTGCCTCCCTC
1 -CAGATCTTATC-TCC-CTA--GGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTC
68621635 GGTGGCAGCGGAGCAGGTTAAAAAAATTA
61 GGTGGCAGCGGAGCAGGTT-AAAAAATTA
68621664 CAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGG
1 CAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGG
68621729 CAGCGGAGCAGGTTAAAAAATTA
66 CAGCGGAGCAGGTTAAAAAATTA
68621752 CAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGG
1 CAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGG
*
68621817 CAGCGGAGCAGGTT-AAAGA-TA
66 CAGCGGAGCAGGTTAAAAAATTA
* ** * * * * * * * * *
68621838 GCAGATTTTGCCTTCCT-GTACTGACAGTGAAGCAAATCGAAGACATTAACCTTGCCTCCCTCGG
1 -CAGATCTTATCTCCCTAG-GCAG-TAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGG
68621902 TGGCAGCGGAGCAGGTTAAAAAATTA
63 TGGCAGCGGAGCAGGTTAAAAAATTA
* * *
68621928 CAAATCTTATCTCTCTAGGCA-TAGCGGAGTAGATCGAAGGCACTAACCTTGCCTCCCTCGGTGG
1 CAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGG
68621992 CAGCGGAGCAGGTTAAAAAATTA
66 CAGCGGAGCAGGTTAAAAAATTA
* * *
68622015 CAAATCTTATCTCTCTAGGCA-TAGCGGAGTAGATCGAAGGCACTAACCTTGCCTCCCTCGGTGG
1 CAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGG
68622079 CAGCGGAGCAGGTTAAAAAATTA
66 CAGCGGAGCAGGTTAAAAAATTA
* * *
68622102 CAAATCTTATCTCTCTAGGCA-TAGCGGAGTAGATCGAAGGCACTAACCTTGCCTCCCTCGGTGG
1 CAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGG
68622166 CAGCGGAGCAGGTTAAA
66 CAGCGGAGCAGGTTAAA
68622183 GATGGTAGAT
Statistics
Matches: 863, Mismatches: 74, Indels: 47
0.88 0.08 0.05
Matches are distributed among these distances:
86 12 0.01
87 269 0.31
88 479 0.56
89 78 0.09
90 17 0.02
91 8 0.01
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (88 bp):
CAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGG
CAGCGGAGCAGGTTAAAAAATTA
Found at i:68621252 original size:45 final size:45
Alignment explanation
Indices: 68621201--68621340 Score: 133
Period size: 45 Copynumber: 3.2 Consensus size: 45
68621191 CCTCGGTGGC
68621201 AGCGGAGCAGGTTAAAAAATTACAGATCTTATCTCCCTAGGCAGT
1 AGCGGAGCAGGTTAAAAAATTACAGATCTTATCTCCCTAGGCAGT
* * ** * * * ** * ** *
68621246 AGCGGAGTA-GATCGAAGA-CACTA-ACCTTGCCTCCCTCGGTGGC
1 AGCGGAGCAGGTTAAAAAATTAC-AGATCTTATCTCCCTAGGCAGT
68621289 AGCGGAGCAGGTTAAAAAATTACAGATCTTATCTCCCTAGGCAGT
1 AGCGGAGCAGGTTAAAAAATTACAGATCTTATCTCCCTAGGCAGT
68621334 AGCGGAG
1 AGCGGAG
68621341 TAGATCGAAG
Statistics
Matches: 65, Mismatches: 26, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
43 23 0.35
44 12 0.18
45 30 0.46
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (45 bp):
AGCGGAGCAGGTTAAAAAATTACAGATCTTATCTCCCTAGGCAGT
Found at i:68621828 original size:441 final size:438
Alignment explanation
Indices: 68621168--68622182 Score: 1745
Period size: 441 Copynumber: 2.3 Consensus size: 438
68621158 AGCGGAGTAG
68621168 ATCGAAGGCACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAAATTACAGATCTTAT
1 ATCGAAGGCACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAAATTACAGATCTTAT
68621233 CTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCA
66 CTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCA
68621298 GGTTAAAAAATTACAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTG
131 GGTTAAAAAATTACAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTG
68621363 CCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAGATAGCAGA-TTTGCCTTCCTGTACTGACAGTGA
196 CCTCCCTCGGTGGCAGCGGAGCAGGTT-AAAGATAGCAGATTTTGCCTTCCTGTACTGACAGTGA
*
68621427 AGCAAATCGAAGACATTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAAATTACAGAT
260 AGCAAATCGAAGACATTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAAATTACAAAT
68621492 CTTATCTC-CTTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGC
325 CTTATCTCTC-TAGGCA-TAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGC
* * * * * *
68621556 GGAGCAGGTT-AAAGA-TAGCAGATTTTACCTTCCTGTACTG-ACAGTAAAGCAA
388 GGAGCAGGTTAAAAAATTA-CAAATCTTACC-T-CTCTA-GGCACAGCAAAGCAA
* *
68621608 ATCGAAGACATTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAAAATTACAGATCTTA
1 ATCGAAGGCACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTT-AAAAAATTACAGATCTTA
68621673 TCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGC
65 TCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGC
68621738 AGGTTAAAAAATTACAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTT
130 AGGTTAAAAAATTACAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTT
68621803 GCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAGATAGCAGATTTTGCCTTCCTGTACTGACAGTGA
195 GCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAGATAGCAGATTTTGCCTTCCTGTACTGACAGTGA
68621868 AGCAAATCGAAGACATTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAAATTACAAAT
260 AGCAAATCGAAGACATTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAAATTACAAAT
*
68621933 CTTATCTCTCTAGGCATAGCGGAGTAGATCGAAGGCACTAACCTTGCCTCCCTCGGTGGCAGCGG
325 CTTATCTCTCTAGGCATAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGG
* * ** * *
68621998 AGCAGGTTAAAAAATTACAAATCTTATCTCTCTAGGCATAGCGGAGTAG
390 AGCAGGTTAAAAAATTACAAATCTTACCTCTCTAGGCACAGCAAAGCAA
*
68622047 ATCGAAGGCACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAAATTACAAATCTTAT
1 ATCGAAGGCACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAAATTACAGATCTTAT
* *
68622112 CTCTCTAGGCA-TAGCGGAGTAGATCGAAGGCACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCA
66 CTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCA
68622176 GGTTAAA
131 GGTTAAA
68622183 GATGGTAGAT
Statistics
Matches: 548, Mismatches: 21, Indels: 15
0.94 0.04 0.03
Matches are distributed among these distances:
437 59 0.11
438 29 0.05
439 54 0.10
440 113 0.21
441 290 0.53
442 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (438 bp):
ATCGAAGGCACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAAATTACAGATCTTAT
CTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGAGCA
GGTTAAAAAATTACAGATCTTATCTCCCTAGGCAGTAGCGGAGTAGATCGAAGACACTAACCTTG
CCTCCCTCGGTGGCAGCGGAGCAGGTTAAAGATAGCAGATTTTGCCTTCCTGTACTGACAGTGAA
GCAAATCGAAGACATTAACCTTGCCTCCCTCGGTGGCAGCGGAGCAGGTTAAAAAATTACAAATC
TTATCTCTCTAGGCATAGCGGAGTAGATCGAAGACACTAACCTTGCCTCCCTCGGTGGCAGCGGA
GCAGGTTAAAAAATTACAAATCTTACCTCTCTAGGCACAGCAAAGCAA
Found at i:68622341 original size:43 final size:43
Alignment explanation
Indices: 68622280--68622900 Score: 285
Period size: 44 Copynumber: 14.7 Consensus size: 43
68622270 AAATCAATCC
* *
68622280 TATCTCCCTGAAGTTGCAGAGGAACGGATTAACATCCAGATCT
1 TATCTCTCTGAAGTTGCAGAGGAGCGGATTAACATCCAGATCT
* * ***
68622323 TATCTTTCTGAGGTTGCAGA-GAGCAGG--TCGTATCCAG-TCT
1 TATCTCTCTGAAGTTGCAGAGGAGC-GGATTAACATCCAGATCT
* * ** * *
68622363 TATCTCCCTGAAGTTGCAGTGGAGCAGGCAGAAGAAAT-CA-ATCC
1 TATCTCTCTGAAGTTGCAGAGGAGC-GG-ATTA-ACATCCAGATCT
*
68622407 TATCTCCCTGAAGTTGCAGAGGAGCGGATTAACATCCAGATCT
1 TATCTCTCTGAAGTTGCAGAGGAGCGGATTAACATCCAGATCT
* * ** *
68622450 TATCTTTCT-AAGATTGCAGA-GAGCAGA-TCGCATCCAG-GCT
1 TATCTCTCTGAAG-TTGCAGAGGAGCGGATTAACATCCAGATCT
* * ** *
68622490 TATCTCTCTGAAATTGCAGGAGAGCAGACAGAAGAA-AT-CA-ATCC
1 TATCTCTCTGAAGTTGCA-GAG-G-AG-CGGATTAACATCCAGATCT
* *
68622534 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCT
1 TATCTCTCTGAAGTTGCAGAGGAGCGGATTAACATCCAGATCT
* * **
68622577 TATCTTTCTGAGGTTGCAGA-GAGCAGG--TCGCATCCAG-TCT
1 TATCTCTCTGAAGTTGCAGAGGAGC-GGATTAACATCCAGATCT
* * ** * *
68622617 TATCTCTCTAAAGTTGCAGTGGAGCAGGCAGAAGAAAT-CA-ATCA
1 TATCTCTCTGAAGTTGCAGAGGAGC-GG-ATTA-ACATCCAGATCT
* * * **
68622661 TATCTCCCTGAAGTTGCAGCGGAGCGGATCAACATTTAGATCT
1 TATCTCTCTGAAGTTGCAGAGGAGCGGATTAACATCCAGATCT
* * * * **
68622704 TATCTTTCTGAGGTTGCAGA-GAGC-AAATCGCATCCAG-TCT
1 TATCTCTCTGAAGTTGCAGAGGAGCGGATTAACATCCAGATCT
* * * ** * *
68622744 TATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAAT-CA-ATCC
1 TATCTCTCTGAAGTTGCAGAGGAGC-G-GATTA-ACATCCAGATCT
* *
68622788 TATCT-TCCTGAAGTTGCAGTGGAGTGGATTAACATCCAGATCT
1 TATCTCT-CTGAAGTTGCAGAGGAGCGGATTAACATCCAGATCT
* * * **
68622831 TATCTTTCT-AAGATTACAGA-GAGCAGA-TCGCATCCAG-TCT
1 TATCTCTCTGAAG-TTGCAGAGGAGCGGATTAACATCCAGATCT
* * *
68622871 TATCTC-CTTAATGTTGCAGTGGAGTGGATT
1 TATCTCTCTGAA-GTTGCAGAGGAGCGGATT
68622901 GAAGCACCGA
Statistics
Matches: 430, Mismatches: 103, Indels: 91
0.69 0.17 0.15
Matches are distributed among these distances:
39 2 0.00
40 92 0.21
41 78 0.18
42 43 0.10
43 99 0.23
44 104 0.24
45 12 0.03
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
TATCTCTCTGAAGTTGCAGAGGAGCGGATTAACATCCAGATCT
Found at i:68622377 original size:83 final size:83
Alignment explanation
Indices: 68622280--68622900 Score: 313
Period size: 83 Copynumber: 7.4 Consensus size: 83
68622270 AAATCAATCC
* * *
68622280 TATCTCCCTGAAGTTGCAGAGGAACGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGA
1 TATCTCCCTGAAGTTGCAGAGGAGCGGATTAACATCCAGATCTTATCTCTCTGAAGTTGCAGAGA
* *
68622345 GCAGGTCGTATCCAGTCT
66 GCAGGTAGCATCCAGTCT
* ** * * *
68622363 TATCTCCCTGAAGTTGCAGTGGAGCAGGCAGAAGAAAT-CA-ATCCTATCTCCCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGAGGAGC-GG-ATTA-ACATCCAGATCTTATCTCTCTGAAGTTGCAG
*
68622426 AGGAGC-GGATTAACATCCAGATCT
63 A-GAGCAGG--TAGCATCCAG-TCT
** * ** * *
68622450 TATCTTTCT-AAGATTGCAGA-GAGCAGA-TCGCATCCAG-GCTTATCTCTCTGAAATTGCAGGA
1 TATCTCCCTGAAG-TTGCAGAGGAGCGGATTAACATCCAGATCTTATCTCTCTGAAGTTGCA-GA
* * * *
68622511 GAGCAGACAGAAGAAAT-CAATCC
64 GAGCAG---GTAG-CATCCAGTCT
* * *
68622534 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAGA
1 TATCTCCCTGAAGTTGCAGAGGAGCGGATTAACATCCAGATCTTATCTCTCTGAAGTTGCAGAGA
*
68622599 GCAGGTCGCATCCAGTCT
66 GCAGGTAGCATCCAGTCT
* * * ** * * *
68622617 TATCTCTCTAAAGTTGCAGTGGAGCAGGCAGAAGAAAT-CA-ATCATATCTCCCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGAGGAGC-GG-ATTA-ACATCCAGATCTTATCTCTCTGAAGTTGCAG
* * **
68622680 CGGAGC-GGATCAACATTTAGATCT
63 -AGAGCAGG-T-AGCATCCAG-TCT
** * * * ** * *
68622704 TATCTTTCTGAGGTTGCAGA-GAGC-AAATCGCATCCAG-TCTTATCTCCCTGAAGTTGCAGTGG
1 TATCTCCCTGAAGTTGCAGAGGAGCGGATTAACATCCAGATCTTATCTCTCTGAAGTTGCAG-AG
** * * *
68622766 AGCAGACAAAAGAAAT-CAATCC
65 AGCAG---GTAG-CATCCAGTCT
* * * * *
68622788 TATCTTCCTGAAGTTGCAGTGGAGTGGATTAACATCCAGATCTTATCTTTCT-AAGATTACAGAG
1 TATCTCCCTGAAGTTGCAGAGGAGCGGATTAACATCCAGATCTTATCTCTCTGAAG-TTGCAGAG
* *
68622852 AGCAGATCGCATCCAGTCT
65 AGCAGGTAGCATCCAGTCT
* * *
68622871 TATCT-CCTTAATGTTGCAGTGGAGTGGATT
1 TATCTCCCTGAA-GTTGCAGAGGAGCGGATT
68622901 GAAGCACCGA
Statistics
Matches: 402, Mismatches: 95, Indels: 82
0.69 0.16 0.14
Matches are distributed among these distances:
82 13 0.03
83 133 0.33
84 86 0.21
85 35 0.09
86 67 0.17
87 68 0.17
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (83 bp):
TATCTCCCTGAAGTTGCAGAGGAGCGGATTAACATCCAGATCTTATCTCTCTGAAGTTGCAGAGA
GCAGGTAGCATCCAGTCT
Found at i:68622917 original size:127 final size:127
Alignment explanation
Indices: 68622217--68622894 Score: 1063
Period size: 127 Copynumber: 5.3 Consensus size: 127
68622207 CTGACAGTGA
*
68622217 AGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTA
1 AGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTA
*
68622282 TCTCCCTGAAGTTGCAGAGGAACGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAG
66 TCTCCCTGAAGTTGCAGAGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAG
* * *
68622344 AGCAGGTCGTATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCAGAAGAAATCAATCCTA
1 AGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTA
* *
68622409 TCTCCCTGAAGTTGCAGAGGAGCGGATTAACATCCAGATCTTATCTTTCTAAGATTGCAGAG
66 TCTCCCTGAAGTTGCAGAGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAG
* * *
68622471 AGCAGATCGCATCCAGGCTTATCTCTCTGAAATTGCAG-GAGAGCAGACAGAAGAAATCAATCCT
1 AGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTG-GAGCAGACAGAAGAAATCAATCCT
*
68622535 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAG
65 ATCTCCCTGAAGTTGCAGAGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAG
* * * * *
68622598 AGCAGGTCGCATCCAGTCTTATCTCTCTAAAGTTGCAGTGGAGCAGGCAGAAGAAATCAATCATA
1 AGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTA
* * **
68622663 TCTCCCTGAAGTTGCAGCGGAGCGGATCAACATTTAGATCTTATCTTTCTGAGGTTGCAGAG
66 TCTCCCTGAAGTTGCAGAGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAG
* *
68622725 AGCAAATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAATCAATCCTA
1 AGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTA
* * * * * *
68622790 TCTTCCTGAAGTTGCAGTGGAGTGGATTAACATCCAGATCTTATCTTTCTAAGATTACAGAG
66 TCTCCCTGAAGTTGCAGAGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAG
*
68622852 AGCAGATCGCATCCAGTCTTATCT-CCTTAATGTTGCAGTGGAG
1 AGCAGATCGCATCCAGTCTTATCTCCCTGAA-GTTGCAGTGGAG
68622895 TGGATTGAAG
Statistics
Matches: 506, Mismatches: 42, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
126 6 0.01
127 499 0.99
128 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (127 bp):
AGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCCTA
TCTCCCTGAAGTTGCAGAGGAGCGGATTAACATCCAGATCTTATCTTTCTGAGGTTGCAGAG
Found at i:68624127 original size:12 final size:11
Alignment explanation
Indices: 68624112--68624142 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
68624102 TTTTTATTGT
68624112 TTATTATTATAA
1 TTATTATTAT-A
68624124 TTATTATTATA
1 TTATTATTATA
68624135 TTATTATT
1 TTATTATT
68624143 GTATGTACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTATTATA
Found at i:68627755 original size:138 final size:138
Alignment explanation
Indices: 68627585--68627861 Score: 446
Period size: 138 Copynumber: 2.0 Consensus size: 138
68627575 TAGATAAAAC
* **
68627585 TAATATATAAATTTGATTCATACAAATTATTAATTATATATATTTTACCAAATTTATTAATATAA
1 TAATATATAAATATGATTCATACAAAAAATTAATTATATATATTTTACCAAATTTATTAATATAA
* * *
68627650 ACAATTATATTAATTAATTTCGGTCAAAATATAAAATATATGGAAATTAATATTCTTTTGGAAAG
66 ACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGAAAAG
68627715 AATATAAT
131 AATATAAT
* *
68627723 TAATATATGAATATGATTCATACAAAAAATTAATTGTATATATTTTACCAAATTTATTAATATAA
1 TAATATATAAATATGATTCATACAAAAAATTAATTATATATATTTTACCAAATTTATTAATATAA
* * * *
68627788 ACAGTTCTATTAATTAATTTCGGTTAAAATATAAAAGACATGGAATTTAATATTCTTTTGAAAAG
66 ACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGAAAAG
68627853 AATATAAT
131 AATATAAT
68627861 T
1 T
68627862 CATTTTTTTC
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
138 127 1.00
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (138 bp):
TAATATATAAATATGATTCATACAAAAAATTAATTATATATATTTTACCAAATTTATTAATATAA
ACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGAAAAG
AATATAAT
Found at i:68627973 original size:75 final size:76
Alignment explanation
Indices: 68627837--68627988 Score: 225
Period size: 75 Copynumber: 2.0 Consensus size: 76
68627827 ATGGAATTTA
* * * *
68627837 ATATTCTTTTGAAAAGAATATAATTCATTTTTTTCTAAATTTTCATTTGTCTTCTCTATTAATAC
1 ATATTCTTTCGAAAAGAATATAATTCA-TTTTTTCTAAATTTCCATTTGCCTTCTCTATTAATAA
68627902 GAGAATAATCTT
65 GAGAATAATCTT
* *
68627914 ATATTCTTTCGGAAAGAATATAATTC-TTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAG
1 ATATTCTTTCGAAAAGAATATAATTCATTTTTTCTAAATTTCCATTTGCCTTCTCTATTAATAAG
*
68627978 GGAATAATCTT
66 AGAATAATCTT
68627989 GGTTTTCCTT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
75 44 0.65
77 24 0.35
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (76 bp):
ATATTCTTTCGAAAAGAATATAATTCATTTTTTCTAAATTTCCATTTGCCTTCTCTATTAATAAG
AGAATAATCTT
Found at i:68632074 original size:29 final size:29
Alignment explanation
Indices: 68632032--68632092 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
68632022 TTCTCCATGT
68632032 AAGAATGTTGTTTTCACATATAACTACTC
1 AAGAATGTTGTTTTCACATATAACTACTC
68632061 AAGAATGTTGTTTTCACATATAACTACTC
1 AAGAATGTTGTTTTCACATATAACTACTC
68632090 AAG
1 AAG
68632093 CTCTAAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (29 bp):
AAGAATGTTGTTTTCACATATAACTACTC
Found at i:68637181 original size:19 final size:18
Alignment explanation
Indices: 68637153--68637232 Score: 58
Period size: 20 Copynumber: 4.2 Consensus size: 18
68637143 AAATTACAAA
68637153 AAAAAT-TATACAGAATTAT
1 AAAAATATA-ACA-AATTAT
68637172 GAAAAATATAACAAATTAT
1 -AAAAATATAACAAATTAT
68637191 AAAAATTATTTAA-AAATTAT
1 AAAAA-TA--TAACAAATTAT
* *
68637211 AAATATATTAA-AAATTAC
1 AAAAATA-TAACAAATTAT
68637229 AAAA
1 AAAA
68637233 TATTATAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
18 18 0.34
19 10 0.19
20 20 0.38
21 5 0.09
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAAATATAACAAATTAT
Found at i:68637196 original size:18 final size:18
Alignment explanation
Indices: 68637166--68637242 Score: 77
Period size: 18 Copynumber: 4.1 Consensus size: 18
68637156 AATTATACAG
68637166 AATTATGAAAAATA-TAACA
1 AATTAT-AAAAATATTAA-A
68637185 AATTATAAAAATTATTTAAA
1 AATTATAAAAA-TA-TTAAA
*
68637205 AATTATAAATATATTAAA
1 AATTATAAAAATATTAAA
*
68637223 AATTA-CAAAATATTATAA
1 AATTATAAAAATATTA-AA
68637241 AA
1 AA
68637243 ACAAATTAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
17 8 0.16
18 19 0.37
19 10 0.20
20 11 0.22
21 3 0.06
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (18 bp):
AATTATAAAAATATTAAA
Found at i:68637241 original size:19 final size:19
Alignment explanation
Indices: 68637131--68637243 Score: 65
Period size: 19 Copynumber: 5.7 Consensus size: 19
68637121 AAATTTATTT
68637131 AAATATTATAGAAAATTACAAA
1 AAATATTATA-AAAATTAC--A
* * *
68637153 AAAAATTATACAGAATTATGA
1 AAATATTATA-AAAATTA-CA
*
68637174 AAA-A-TATAACAAATTATA
1 AAATATTATAA-AAATTACA
*
68637192 AAA-ATTATTTAAAAATTA-T
1 AAATATTA--TAAAAATTACA
68637211 AAATA-TATTAAAAATTACA
1 AAATATTA-TAAAAATTACA
68637230 AAATATTATAAAAA
1 AAATATTATAAAAA
68637244 CAAATTAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 19
0.74 0.08 0.19
Matches are distributed among these distances:
18 16 0.21
19 27 0.36
20 10 0.13
21 7 0.09
22 15 0.20
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.31
Consensus pattern (19 bp):
AAATATTATAAAAATTACA
Found at i:68645350 original size:23 final size:24
Alignment explanation
Indices: 68645294--68645356 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
68645284 TTATTAACAT
*
68645294 TGTTTGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTATA
* **
68645318 TGTTCATGAACATGTTCGTTTA-A
1 TGTTCGTGAACATGTTCAATTATA
68645341 TGTTCGTGAACATGTT
1 TGTTCGTGAACATGTT
68645357 TGATTAAGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 16 0.47
24 18 0.53
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.44
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCAATTATA
Found at i:68645363 original size:23 final size:23
Alignment explanation
Indices: 68645294--68645363 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
68645284 TTATTAACAT
* *
68645294 TGTTTGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCGATTA-A
* *
68645318 TGTTCATGAACATGTTCGTTTAA
1 TGTTCGTGAACATGTTCGATTAA
*
68645341 TGTTCGTGAACATGTTTGATTAA
1 TGTTCGTGAACATGTTCGATTAA
68645364 GTTAAATGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 21 0.54
24 18 0.46
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCGATTAA
Found at i:68646226 original size:24 final size:24
Alignment explanation
Indices: 68646199--68646251 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
68646189 TATCTCTATC
* *
68646199 TTTTATTTTTTGTATATTTTTAAA
1 TTTTATTTGTTATATATTTTTAAA
*
68646223 TTTTATTTGTTATATATTTTTAGA
1 TTTTATTTGTTATATATTTTTAAA
68646247 TTTTA
1 TTTTA
68646252 AAATTTTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.70
Consensus pattern (24 bp):
TTTTATTTGTTATATATTTTTAAA
Found at i:68646403 original size:17 final size:17
Alignment explanation
Indices: 68646372--68646418 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
68646362 TTATCTCTTA
68646372 CAAATTTTTTGAATTTTTT
1 CAAA-TTTTT-AATTTTTT
68646391 CAAATTTTTAATTTTTT
1 CAAATTTTTAATTTTTT
**
68646408 TTAATTTTTAA
1 CAAATTTTTAA
68646419 GAATGACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 17 0.65
18 5 0.19
19 4 0.15
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (17 bp):
CAAATTTTTAATTTTTT
Found at i:68649516 original size:97 final size:98
Alignment explanation
Indices: 68649404--68649599 Score: 385
Period size: 97 Copynumber: 2.0 Consensus size: 98
68649394 TTATATACAT
68649404 AGAATTTACTAATTTTAGCCTTAACTAATTTAACATAAAATTAAATAAAAATAAATAAATAATAA
1 AGAATTTACTAATTTTAGCCTTAACTAATTTAACATAAAATTAAATAAAAATAAATAAATAATAA
68649469 AATAAGACTTTTTTTTCTATTTTTGGCTTTTAC
66 AATAAGACTTTTTTTTCTATTTTTGGCTTTTAC
68649502 AGAATTTACT-ATTTTAGCCTTAACTAATTTAACATAAAATTAAATAAAAATAAATAAATAATAA
1 AGAATTTACTAATTTTAGCCTTAACTAATTTAACATAAAATTAAATAAAAATAAATAAATAATAA
68649566 AATAAGACTTTTTTTTCTATTTTTGGCTTTTAC
66 AATAAGACTTTTTTTTCTATTTTTGGCTTTTAC
68649599 A
1 A
68649600 AAGTCAAAAA
Statistics
Matches: 98, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
97 88 0.90
98 10 0.10
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (98 bp):
AGAATTTACTAATTTTAGCCTTAACTAATTTAACATAAAATTAAATAAAAATAAATAAATAATAA
AATAAGACTTTTTTTTCTATTTTTGGCTTTTAC
Found at i:68652603 original size:18 final size:18
Alignment explanation
Indices: 68652582--68652619 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
68652572 AATTTGGAAT
*
68652582 TTTTATAAA-TATTTTTAA
1 TTTTA-AAACTATTTTGAA
68652600 TTTTAAAACTATTTTGAA
1 TTTTAAAACTATTTTGAA
68652618 TT
1 TT
68652620 ATTTTGTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTTAAAACTATTTTGAA
Found at i:68658851 original size:29 final size:29
Alignment explanation
Indices: 68658819--68658874 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
68658809 AAAAAGCCCA
68658819 TTTTTTAAAAAATTACCGAAATGGGCCGG
1 TTTTTTAAAAAATTACCGAAATGGGCCGG
** * *
68658848 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAAAAAATTACCGAAATGGGCC
68658875 ATTTTCCGCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.38
Consensus pattern (29 bp):
TTTTTTAAAAAATTACCGAAATGGGCCGG
Found at i:68658879 original size:28 final size:28
Alignment explanation
Indices: 68658816--68658879 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
68658806 CAAAAAAAGC
68658816 CCATTTTTTAAAAAATTACCGAAATGGG
1 CCATTTTTTAAAAAATTACCGAAATGGG
* ** * *
68658844 CCGGTTTTTTAATTATTTACCGGAATGGG
1 CC-ATTTTTTAAAAAATTACCGAAATGGG
68658873 CCATTTT
1 CCATTTT
68658880 CCGCGAAATC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (28 bp):
CCATTTTTTAAAAAATTACCGAAATGGG
Found at i:68659177 original size:22 final size:21
Alignment explanation
Indices: 68659152--68659221 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 21
68659142 AAATTCAATA
68659152 TCAATTTCCTTCAAAAATTCTC
1 TCAA-TTCCTTCAAAAATTCTC
68659174 TCAATTCCATTCAAAAATTCTC
1 TCAATTCC-TTCAAAAATTCTC
** *
68659196 TCAAATTCCTTCTCAAATTCCC
1 TC-AATTCCTTCAAAAATTCTC
68659218 TCAA
1 TCAA
68659222 ACTCTCAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 6 0.14
22 31 0.72
23 6 0.14
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (21 bp):
TCAATTCCTTCAAAAATTCTC
Found at i:68659209 original size:12 final size:11
Alignment explanation
Indices: 68659188--68659262 Score: 65
Period size: 11 Copynumber: 7.3 Consensus size: 11
68659178 TTCCATTCAA
68659188 AAATT-CTCTC
1 AAATTCCTCTC
68659198 AAATTCCTTCTC
1 AAATTCC-TCTC
68659210 AAATTCC-CTC
1 AAATTCCTCTC
68659220 AAA---CTCTC
1 AAATTCCTCTC
68659228 AAATTCCT-TCC
1 AAATTCCTCT-C
*
68659239 AAAATCCTCTC
1 AAATTCCTCTC
*
68659250 AATTTCCT-TC
1 AAATTCCTCTC
68659260 AAA
1 AAA
68659263 AAATCTCCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
7 1 0.02
8 6 0.11
10 16 0.30
11 18 0.34
12 12 0.23
ACGTcount: A:0.32, C:0.33, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATTCCTCTC
Found at i:68659222 original size:22 final size:22
Alignment explanation
Indices: 68659152--68659262 Score: 63
Period size: 22 Copynumber: 5.2 Consensus size: 22
68659142 AAATTCAATA
* ** *
68659152 TCAATTTCCTTCAAAAATTCTC
1 TCAAATTCCTTCTCAAATTCCC
** *
68659174 TC-AATTCCATTCAAAAATTCTC
1 TCAAATTCC-TTCTCAAATTCCC
68659196 TCAAATTCCTTCTCAAATTCCC
1 TCAAATTCCTTCTCAAATTCCC
*
68659218 TCAAA---C-TCTCAAATTCCT
1 TCAAATTCCTTCTCAAATTCCC
* * *
68659236 TCCAAAATCC-TCTCAATTTCCT
1 T-CAAATTCCTTCTCAAATTCCC
68659258 TCAAA
1 TCAAA
68659263 AAATCTCCAA
Statistics
Matches: 77, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
18 12 0.16
19 5 0.06
21 9 0.12
22 45 0.58
23 6 0.08
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (22 bp):
TCAAATTCCTTCTCAAATTCCC
Found at i:68659228 original size:30 final size:30
Alignment explanation
Indices: 68659193--68659251 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
68659183 TTCAAAAATT
*
68659193 CTCTCAAATTCCTTCTCAAATTCC-CTCAAA
1 CTCTCAAATTCCTTC-CAAAATCCTCTCAAA
68659223 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAA
68659252 TTTCCTTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.31, C:0.37, G:0.00, T:0.32
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAAA
Found at i:68659371 original size:29 final size:29
Alignment explanation
Indices: 68659308--68659371 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
68659298 TAAATTTCAT
* *
68659308 TATTTTAAGAAAATTTTAAAATTTTTTAT
1 TATTTTAAAAAAATTTTAAAATTTTTTAA
*
68659337 TTTTTTAAAAATAATTTTAAAA-TTTTTAA
1 TATTTTAAAAA-AATTTTAAAATTTTTTAA
68659366 TATTTT
1 TATTTT
68659372 CAACAATGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
TATTTTAAAAAAATTTTAAAATTTTTTAA
Found at i:68659491 original size:14 final size:15
Alignment explanation
Indices: 68659462--68659495 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
68659452 AAATTTTAAA
68659462 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
68659477 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
68659491 TTTTA
1 TTTTA
68659496 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:68663796 original size:12 final size:12
Alignment explanation
Indices: 68663779--68663803 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
68663769 TCGTTCGCTC
68663779 TTAGATGGATAT
1 TTAGATGGATAT
68663791 TTAGATGGATAT
1 TTAGATGGATAT
68663803 T
1 T
68663804 GCCTGTAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (12 bp):
TTAGATGGATAT
Found at i:68667672 original size:18 final size:18
Alignment explanation
Indices: 68667651--68667688 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
68667641 TAAGTAGGGG
*
68667651 CTGAGCGGGTCACCTTAT
1 CTGAGCAGGTCACCTTAT
68667669 CTGAGCAGGTCACCTTAT
1 CTGAGCAGGTCACCTTAT
68667687 CT
1 CT
68667689 AAGTCCACGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.29, G:0.24, T:0.29
Consensus pattern (18 bp):
CTGAGCAGGTCACCTTAT
Found at i:68673412 original size:7 final size:7
Alignment explanation
Indices: 68673397--68673440 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
68673387 ATATACTACA
*
68673397 TTTAGTT
1 TTTAATT
68673404 TTTAATT
1 TTTAATT
68673411 TTTAATT
1 TTTAATT
68673418 TTTAA-T
1 TTTAATT
*
68673424 TTTAAGT
1 TTTAATT
*
68673431 TTTAAGT
1 TTTAATT
68673438 TTT
1 TTT
68673441 GTTTTACTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
6 6 0.17
7 29 0.83
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (7 bp):
TTTAATT
Found at i:68673565 original size:14 final size:14
Alignment explanation
Indices: 68673546--68673578 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
68673536 CTACCTCCGT
68673546 CCTCCACCGATCCA
1 CCTCCACCGATCCA
*
68673560 CCTCCATCGATCCA
1 CCTCCACCGATCCA
68673574 CCTCC
1 CCTCC
68673579 GGTCCTCCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.58, G:0.06, T:0.18
Consensus pattern (14 bp):
CCTCCACCGATCCA
Found at i:68675119 original size:7 final size:8
Alignment explanation
Indices: 68675093--68675117 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
68675083 TAAAATATTT
68675093 AAGTTAAA
1 AAGTTAAA
68675101 AAGTTAAA
1 AAGTTAAA
68675109 AAGTTAAA
1 AAGTTAAA
68675117 A
1 A
68675118 GTAATTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (8 bp):
AAGTTAAA
Found at i:68675225 original size:25 final size:25
Alignment explanation
Indices: 68675192--68675243 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
68675182 TTTTTTAAAG
*
68675192 AATTGATTGTTTGTAATTAAATTCA
1 AATTAATTGTTTGTAATTAAATTCA
68675217 AATTAATTGTTTGTAATTAAATTCA
1 AATTAATTGTTTGTAATTAAATTCA
68675242 AA
1 AA
68675244 CAAGTAATCT
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:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (25 bp):
AATTAATTGTTTGTAATTAAATTCA
Found at i:68675357 original size:9 final size:8
Alignment explanation
Indices: 68675342--68675371 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
68675332 AACTTTTAAG
68675342 TAAAAAAA
1 TAAAAAAA
68675350 TAAAAAAA
1 TAAAAAAA
68675358 T-AAAAAA
1 TAAAAAAA
68675365 TAAAAAA
1 TAAAAAA
68675372 CGGGTCGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
TAAAAAAA
Found at i:68675482 original size:19 final size:18
Alignment explanation
Indices: 68675448--68675488 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
68675438 GCCCATATTT
68675448 CGGGCTGAAATTTTTTTA
1 CGGGCTGAAATTTTTTTA
68675466 CGGGCTGAAATTTTTTTA
1 CGGGCTGAAATTTTTTTA
68675484 CGGGC
1 CGGGC
68675489 CCAGCCCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.20, C:0.15, G:0.27, T:0.39
Consensus pattern (18 bp):
CGGGCTGAAATTTTTTTA
Found at i:68676365 original size:11 final size:11
Alignment explanation
Indices: 68676349--68676373 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
68676339 TAAGTCTTGA
68676349 AATTAACACAT
1 AATTAACACAT
68676360 AATTAACACAT
1 AATTAACACAT
68676371 AAT
1 AAT
68676374 ATTAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (11 bp):
AATTAACACAT
Found at i:68676427 original size:91 final size:92
Alignment explanation
Indices: 68676309--68676492 Score: 352
Period size: 91 Copynumber: 2.0 Consensus size: 92
68676299 ATTTTATGTC
68676309 TTGAAACACTACATAATTAAAAACATTACATAAGTCTTGAAATTAACACATAATTAACACATAAT
1 TTGAAACACTA-ATAATTAAAAACATTACATAAGTCTTGAAATTAACACATAATTAACACATAAT
68676374 ATTAATTATTAAAGTTGATTAATTATTT
65 ATTAATTATTAAAGTTGATTAATTATTT
68676402 TTGAAACACT-ATAATTAAAAACATTACATAAGTCTTGAAATTAACACATAATTAACACATAATA
1 TTGAAACACTAATAATTAAAAACATTACATAAGTCTTGAAATTAACACATAATTAACACATAATA
68676466 TTAATTATTAAAGTTGATTAATTATTT
66 TTAATTATTAAAGTTGATTAATTATTT
68676493 AATTTCGAAC
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
91 81 0.89
93 10 0.11
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.37
Consensus pattern (92 bp):
TTGAAACACTAATAATTAAAAACATTACATAAGTCTTGAAATTAACACATAATTAACACATAATA
TTAATTATTAAAGTTGATTAATTATTT
Found at i:68676456 original size:11 final size:11
Alignment explanation
Indices: 68676440--68676464 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
68676430 TAAGTCTTGA
68676440 AATTAACACAT
1 AATTAACACAT
68676451 AATTAACACAT
1 AATTAACACAT
68676462 AAT
1 AAT
68676465 ATTAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (11 bp):
AATTAACACAT
Found at i:68677186 original size:6 final size:6
Alignment explanation
Indices: 68677175--68677209 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
68677165 TCATCACTCA
*
68677175 AAAACC AAAACC AAAACC AAAACC AAAACC CAAAC
1 AAAACC AAAACC AAAACC AAAACC AAAACC AAAAC
68677210 TTAAACTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACC
Found at i:68696447 original size:34 final size:35
Alignment explanation
Indices: 68696393--68696461 Score: 131
Period size: 34 Copynumber: 2.0 Consensus size: 35
68696383 ACAGAACTCG
68696393 AAATTTAAATCCGTAAATTTTCCCTAAAACTAGAC
1 AAATTTAAATCCGTAAATTTTCCCTAAAACTAGAC
68696428 AAATTTAAAT-CGTAAATTTTCCCTAAAACTAGAC
1 AAATTTAAATCCGTAAATTTTCCCTAAAACTAGAC
68696462 TCATATTCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 24 0.71
35 10 0.29
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (35 bp):
AAATTTAAATCCGTAAATTTTCCCTAAAACTAGAC
Found at i:68699438 original size:10 final size:10
Alignment explanation
Indices: 68699423--68699447 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
68699413 TTCATTAAAA
68699423 TATTATTTAT
1 TATTATTTAT
68699433 TATTATTTAT
1 TATTATTTAT
68699443 TATTA
1 TATTA
68699448 AAATATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TATTATTTAT
Found at i:68699574 original size:14 final size:15
Alignment explanation
Indices: 68699549--68699578 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
68699539 ACCTATCTCA
68699549 TTTTTGTAATTATTT
1 TTTTTGTAATTATTT
68699564 TTTTTGT-ATTATTT
1 TTTTTGTAATTATTT
68699578 T
1 T
68699579 GATAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (15 bp):
TTTTTGTAATTATTT
Found at i:68721128 original size:14 final size:15
Alignment explanation
Indices: 68721111--68721144 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
68721101 AATATTTATC
68721111 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
68721125 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
68721140 TAAAA
1 TAAAA
68721145 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:68722937 original size:3 final size:3
Alignment explanation
Indices: 68722929--68722962 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
68722919 CTGTACGTTC
68722929 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
68722963 AACAAAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:68724949 original size:29 final size:29
Alignment explanation
Indices: 68724916--68724973 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
68724906 TTTAGGTTTT
*
68724916 AAATT-TTAGGTTAATTGTTAATATTATTA
1 AAATTATTAGGTTAAAT-TTAATATTATTA
* *
68724945 AAATTATTATGTTAAATTTATTATTATTA
1 AAATTATTAGGTTAAATTTAATATTATTA
68724974 TTATTATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (29 bp):
AAATTATTAGGTTAAATTTAATATTATTA
Found at i:68724965 original size:23 final size:23
Alignment explanation
Indices: 68724931--68724977 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
68724921 TTAGGTTAAT
68724931 TGTTAATATTATTAAAATTATTA
1 TGTTAATATTATTAAAATTATTA
**
68724954 TGTTAA-ATTTATTATTATTATTA
1 TGTTAATA-TTATTAAAATTATTA
68724977 T
1 T
68724978 TATATTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
TGTTAATATTATTAAAATTATTA
Found at i:68724968 original size:3 final size:3
Alignment explanation
Indices: 68724962--68725007 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
68724952 TATGTTAAAT
* *
68724962 TTA TTA TTA TTA TTA TTA -TA TTA TTA TTT TTAA TTA -TA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
68725006 TT
1 TT
68725008 GAGTGAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 4 0.11
3 30 0.83
4 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:68724983 original size:14 final size:14
Alignment explanation
Indices: 68724966--68724998 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
68724956 TTAAATTTAT
68724966 TATTATTATTATTA
1 TATTATTATTATTA
*
68724980 TATTATTATTTTTA
1 TATTATTATTATTA
68724994 -ATTAT
1 TATTAT
68724999 ATAATTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:68724983 original size:17 final size:18
Alignment explanation
Indices: 68724959--68725007 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
68724949 TATTATGTTA
68724959 AATT-TATTATTATTATT
1 AATTATATTATTATTATT
*
68724976 -ATTATATTATTATTTTT
1 AATTATATTATTATTATT
*
68724993 AATTATATAATTATT
1 AATTATATTATTATT
68725008 GAGTGAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 3 0.11
17 12 0.43
18 13 0.46
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
AATTATATTATTATTATT
Found at i:68729598 original size:26 final size:26
Alignment explanation
Indices: 68729569--68729629 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
68729559 AGATTTTAAC
68729569 ATATTTATTT-ATATTTATTTAT-TGTT
1 ATATTTATTTAATATTT-TTTATGT-TT
*
68729595 ATATTTTTTTAATATTTTTTATGTTT
1 ATATTTATTTAATATTTTTTATGTTT
68729621 ATATATTAT
1 ATAT-TTAT
68729630 AGGTATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (26 bp):
ATATTTATTTAATATTTTTTATGTTT
Found at i:68731625 original size:17 final size:17
Alignment explanation
Indices: 68731603--68731637 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
68731593 AGACTTAACG
68731603 AAGAAAATCGGAACCCA
1 AAGAAAATCGGAACCCA
68731620 AAGAAAATCGGAACCCA
1 AAGAAAATCGGAACCCA
68731637 A
1 A
68731638 TACGTTAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.23, G:0.17, T:0.06
Consensus pattern (17 bp):
AAGAAAATCGGAACCCA
Found at i:68733348 original size:44 final size:44
Alignment explanation
Indices: 68733232--68733354 Score: 117
Period size: 44 Copynumber: 2.8 Consensus size: 44
68733222 CGACTTTAAC
* * * *
68733232 CTGCTCCATTGCAATTTCAGGGAGATAAGATTTGCCATCTTCAGT
1 CTGCTCTACTGCAACTTCA-GGAGATAAGACTTGCCATCTTCAGT
* *
68733277 TTGC-CTCACTGCAACTTCAGGAGGATAAGACTTG-CTTACTT-AGT
1 CTGCTCT-ACTGCAACTTCAGGA-GATAAGACTTGCCAT-CTTCAGT
*
68733321 CTGCTCTACTGCAACTTCATGGAGATAAGGCTTG
1 CTGCTCTACTGCAACTTCA-GGAGATAAGACTTG
68733355 GTGGCTTAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
44 34 0.52
45 31 0.48
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (44 bp):
CTGCTCTACTGCAACTTCAGGAGATAAGACTTGCCATCTTCAGT
Found at i:68733491 original size:132 final size:132
Alignment explanation
Indices: 68733341--68734065 Score: 1220
Period size: 132 Copynumber: 5.5 Consensus size: 132
68733331 GCAACTTCAT
* *
68733341 GGAGATAAGGCTTGGTGGCTTAAATATGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTT
1 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTT
* * *
68733406 TGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTACTC
66 CGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTC
68733471 AG
131 AG
* * *
68733473 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCTACTATCTTGGAAAGATAAGACTTT-CCATTT
1 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGA-TTTGCCGTCT
* * *
68733537 TCGATCTGCTCCACTA-TAGCTTAAGGAAATAAAATCTACAATCTTCAACCTTCTCCGTTGCTGC
65 TCGATCTGCTCCACTACT-GCTTAAGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGC
68733601 TCAG
129 TCAG
*
68733605 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCATTATCTTGGAAAGATAAGATTTGCCGTCTT
1 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTT
68733670 CGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTC
66 CGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTC
68733735 AG
131 AG
*
68733737 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCATTATCTTGGAAAGATAAGATTTGCCGTCTT
1 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTT
* * * *
68733802 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTTCTCTGCTGCTGTTC
66 CGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTC
68733867 AG
131 AG
68733869 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTT
1 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTT
* * *
68733934 CGACCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTC
66 CGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTC
68733999 AG
131 AG
* *
68734001 GGAGACAAGGCTTTGTGGCTTAAATCTGTTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTT
1 GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTT
68734066 TAGTCTGCCT
Statistics
Matches: 561, Mismatches: 28, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
131 4 0.01
132 553 0.99
133 4 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (132 bp):
GGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTT
CGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTC
AG
Found at i:68733699 original size:44 final size:44
Alignment explanation
Indices: 68733651--68733967 Score: 153
Period size: 44 Copynumber: 7.2 Consensus size: 44
68733641 TATCTTGGAA
* *
68733651 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAAGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * * * *
68733695 AGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** ** * * * *
68733739 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCATTA-T-CTT-GGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
*
68733783 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * * ** *
68733827 AGATAAGATCTACAATTTTCAACCTTCTCTGCTGCTG-TTCAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTT-AGGG
* ** ** * * *
68733871 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCGTCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* *
68733915 AGATAAGATTTGCCGTCTTCGACCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
68733959 AGATAAGAT
1 AGATAAGAT
68733968 CTACAATTTT
Statistics
Matches: 183, Mismatches: 76, Indels: 28
0.64 0.26 0.10
Matches are distributed among these distances:
42 11 0.06
43 10 0.05
44 146 0.80
45 10 0.05
46 6 0.03
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (44 bp):
AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:68749420 original size:28 final size:28
Alignment explanation
Indices: 68749380--68749435 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
68749370 TTAGGGCACG
68749380 ACATTCTAATTTCCTCAAAAATGAATTA
1 ACATTCTAATTTCCTCAAAAATGAATTA
68749408 ACATTCTAATTTCCTCAAAAATGAATTA
1 ACATTCTAATTTCCTCAAAAATGAATTA
68749436 GGCCAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.36
Consensus pattern (28 bp):
ACATTCTAATTTCCTCAAAAATGAATTA
Found at i:68751865 original size:25 final size:25
Alignment explanation
Indices: 68751831--68751879 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
68751821 GAGAACTATT
*
68751831 AAATAAGATGC-ATCCAGTGCTAAAA
1 AAATAAGATGCGA-CCAATGCTAAAA
68751856 AAATAAGATGCGACCAATGCTAAA
1 AAATAAGATGCGACCAATGCTAAA
68751880 GTTGACTCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.18
Consensus pattern (25 bp):
AAATAAGATGCGACCAATGCTAAAA
Found at i:68758613 original size:29 final size:29
Alignment explanation
Indices: 68758579--68758655 Score: 154
Period size: 29 Copynumber: 2.7 Consensus size: 29
68758569 AAACAATAAT
68758579 ATAAGTGACTAAAATGTAACATTTTAAAC
1 ATAAGTGACTAAAATGTAACATTTTAAAC
68758608 ATAAGTGACTAAAATGTAACATTTTAAAC
1 ATAAGTGACTAAAATGTAACATTTTAAAC
68758637 ATAAGTGACTAAAATGTAA
1 ATAAGTGACTAAAATGTAA
68758656 TCTGAAGTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (29 bp):
ATAAGTGACTAAAATGTAACATTTTAAAC
Found at i:68758674 original size:31 final size:29
Alignment explanation
Indices: 68758579--68758678 Score: 121
Period size: 29 Copynumber: 3.4 Consensus size: 29
68758569 AAACAATAAT
**
68758579 ATAAGTGACTAAAATGTAACATTTTAAAC
1 ATAAGTGACTAAAATGTAACATAGTAAAC
**
68758608 ATAAGTGACTAAAATGTAACATTTTAAAC
1 ATAAGTGACTAAAATGTAACATAGTAAAC
68758637 ATAAGTGACTAAAATGTAATC-TGAAGTAAAC
1 ATAAGTGACTAAAATGTAA-CAT--AGTAAAC
*
68758668 AAAAGTGACTA
1 ATAAGTGACTA
68758679 TGTTTATAGT
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
29 49 0.75
30 1 0.02
31 15 0.23
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (29 bp):
ATAAGTGACTAAAATGTAACATAGTAAAC
Found at i:68759373 original size:31 final size:29
Alignment explanation
Indices: 68759338--68759408 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
68759328 AATATTAAAA
*
68759338 TTATACATAAACTACGTTTTAATGTGTAATT
1 TTATACATAAACTACGATTT--TGTGTAATT
** **
68759369 TTATATGTAAACTTTGATTTTGTGTAATT
1 TTATACATAAACTACGATTTTGTGTAATT
68759398 TTATACATAAA
1 TTATACATAAA
68759409 ATTTTGATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
29 18 0.55
31 15 0.45
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (29 bp):
TTATACATAAACTACGATTTTGTGTAATT
Found at i:68759408 original size:29 final size:30
Alignment explanation
Indices: 68759360--68759418 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
68759350 TACGTTTTAA
**
68759360 TGTGTAATTTTATATGT-AAACTTTGATTT
1 TGTGTAATTTTATACATAAAACTTTGATTT
*
68759389 TGTGTAATTTTATACATAAAATTTTGATTT
1 TGTGTAATTTTATACATAAAACTTTGATTT
68759419 AATCCAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.54
Consensus pattern (30 bp):
TGTGTAATTTTATACATAAAACTTTGATTT
Found at i:68762974 original size:14 final size:15
Alignment explanation
Indices: 68762945--68762978 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
68762935 CTAATCGATT
68762945 TTTTTAGGGTAAAGG
1 TTTTTAGGGTAAAGG
*
68762960 TTTTTAGGGT-TAGG
1 TTTTTAGGGTAAAGG
68762974 TTTTT
1 TTTTT
68762979 TTAATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (15 bp):
TTTTTAGGGTAAAGG
Found at i:68762995 original size:23 final size:23
Alignment explanation
Indices: 68762960--68763004 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
68762950 AGGGTAAAGG
* * *
68762960 TTTTTAGGGTTAGGTTTTTTTAA
1 TTTTAAGGATTAGGGTTTTTTAA
68762983 TTTTAAGGATTAGGGTTTTTTA
1 TTTTAAGGATTAGGGTTTTTTA
68763005 GAAGGGTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.22, T:0.58
Consensus pattern (23 bp):
TTTTAAGGATTAGGGTTTTTTAA
Found at i:68769807 original size:6 final size:6
Alignment explanation
Indices: 68769796--68769828 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
68769786 TTCGGATTTG
68769796 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
68769829 CTTCTCTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:68771106 original size:109 final size:108
Alignment explanation
Indices: 68770897--68771217 Score: 461
Period size: 109 Copynumber: 3.0 Consensus size: 108
68770887 TAAAAAAGGG
* * *
68770897 AAAATATTTCAAAATAAGGTAATATTTTGCATTTGGAAATTCGAGGGACGTGCCCTAAGGTACTG
1 AAAAT-TTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
68770962 GGTTTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTT-A
65 GGTTTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTCA
* *
68771005 AAAACTTTTCAAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTATT
1 AAAA-TTTTC-AAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACT
* * *
68771070 GTGTTTCGATTTCTCTTTCGACCAAAT-GACTTAATATCCTTTTCA
64 GGGTTTCGATTTCTCGTTCGACCAAATAG-CTAAATATCCTTTTCA
*
68771115 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCACTAAGGTACTGG
1 AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
* *
68771180 GTTTCGATTTCAT-GTT-TAGCCAAATTGCTAAATATCCT
66 GTTTCGATTTC-TCGTTCGA-CCAAATAGCTAAATATCCT
68771218 CTTGAATTTT
Statistics
Matches: 191, Mismatches: 15, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
107 1 0.01
108 90 0.47
109 95 0.50
110 5 0.03
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (108 bp):
AAAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
GTTTCGATTTCTCGTTCGACCAAATAGCTAAATATCCTTTTCA
Found at i:68772495 original size:14 final size:14
Alignment explanation
Indices: 68772476--68772518 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
68772466 AAGCTGTAAT
*
68772476 TTTATTTTTTTGAA
1 TTTATTTTTTTAAA
*
68772490 TTTATTTTTTAAAA
1 TTTATTTTTTTAAA
68772504 TTTATTTTTTTAAA
1 TTTATTTTTTTAAA
68772518 T
1 T
68772519 AAAAAAATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (14 bp):
TTTATTTTTTTAAA
Found at i:68774855 original size:99 final size:100
Alignment explanation
Indices: 68774678--68774891 Score: 353
Period size: 99 Copynumber: 2.1 Consensus size: 100
68774668 CGGACATTGA
** *
68774678 TTTT-TATTTTAATATATTTGTACAAATTTTTTGAATATTTTTATATTATTTCATGTAATAAAAT
1 TTTTATATTTTAATATATTTGTACAAACATTTTGAATATTTTTATATTATTTCATATAATAAAAT
68774742 AAAAGGTTGTTTTGAATAAAGTAATTGTAATTTAC
66 AAAAGGTTGTTTTGAATAAAGTAATTGTAATTTAC
68774777 TTTTATATTTTAATATATTTGTACAAACATTTTGAATA-TTTTATATTA-TTCAATATAATAAAA
1 TTTTATATTTTAATATATTTGTACAAACATTTTGAATATTTTTATATTATTTC-ATATAATAAAA
*
68774840 TGAAAGGTTGTTTTGAATAAAGTAATTGTAATTTAC
65 TAAAAGGTTGTTTTGAATAAAGTAATTGTAATTTAC
68774876 TTTTATATTTTTAATA
1 TTTTATA-TTTTAATA
68774892 AAATATAAAT
Statistics
Matches: 108, Mismatches: 4, Indels: 5
0.92 0.03 0.04
Matches are distributed among these distances:
98 3 0.03
99 66 0.61
100 39 0.36
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.51
Consensus pattern (100 bp):
TTTTATATTTTAATATATTTGTACAAACATTTTGAATATTTTTATATTATTTCATATAATAAAAT
AAAAGGTTGTTTTGAATAAAGTAATTGTAATTTAC
Found at i:68774922 original size:99 final size:99
Alignment explanation
Indices: 68774720--68774930 Score: 250
Period size: 99 Copynumber: 2.1 Consensus size: 99
68774710 GAATATTTTT
*
68774720 ATATTATTTC-ATGTAATAAAATAAAAGGTTGTTTTGAATAAAGTAATTGTAATTTACTTTTATA
1 ATATTA-TTCAATATAATAAAATAAAAGGTTGTTTTGAATAAAGTAATTGTAATTTACTTTTATA
** * * ****
68774784 TTTTAATATATTTGTACAAACATTTTGAATATTTT
65 TTTTAATATAAATATACAAACATTTTAAATAGGAA
*
68774819 ATATTATTCAATATAATAAAATGAAAGGTTGTTTTGAATAAAGTAATTGTAATTTACTTTTATAT
1 ATATTATTCAATATAATAAAATAAAAGGTTGTTTTGAATAAAGTAATTGTAATTTACTTTTATA-
**
68774884 TTTTAATA-AAATATA-AATTATTTTAAATAAGGAA
65 TTTTAATATAAATATACAAACATTTTAAAT-AGGAA
*
68774918 ATATT-TTGAATAT
1 ATATTATTCAATAT
68774931 TTTTATATTA
Statistics
Matches: 96, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
98 20 0.21
99 68 0.71
100 8 0.08
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (99 bp):
ATATTATTCAATATAATAAAATAAAAGGTTGTTTTGAATAAAGTAATTGTAATTTACTTTTATAT
TTTAATATAAATATACAAACATTTTAAATAGGAA
Found at i:68777481 original size:126 final size:126
Alignment explanation
Indices: 68777256--68777543 Score: 497
Period size: 126 Copynumber: 2.3 Consensus size: 126
68777246 GCCAAATAGG
* * * *
68777256 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTTCTGACATTGCATCC
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTAACAATGCATCC
*
68777321 TGCTTGAAGCATTTTTTACACTATTTGCTCAGAAACATCTTCTAAAAATTATTTTTTCAAA
66 TGCTTGAAGCATTTTTGACACTATTTGCTCAGAAACATCTTCTAAAAATTATTTTTTCAAA
*
68777382 AACTACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTAACAATGCATCC
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTAACAATGCATCC
*
68777447 TGCTT-AAGGCGTTTTTGACACTATTTGCTCAGAAACATCTTCTAAAAATTATTTTTTCAAA
66 TGCTTGAA-GCATTTTTGACACTATTTGCTCAGAAACATCTTCTAAAAATTATTTTTTCAAA
68777508 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTT
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTT
68777544 TTTTAAATTA
Statistics
Matches: 153, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
125 2 0.01
126 151 0.99
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (126 bp):
AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTAACAATGCATCC
TGCTTGAAGCATTTTTGACACTATTTGCTCAGAAACATCTTCTAAAAATTATTTTTTCAAA
Found at i:68777823 original size:44 final size:44
Alignment explanation
Indices: 68777769--68777921 Score: 123
Period size: 44 Copynumber: 3.3 Consensus size: 44
68777759 TCAAGTAACT
68777769 CTAAACCCTAATTTATTTAATTTTTTTCTTAAAAATCCTAAACA
1 CTAAACCCTAATTTATTTAATTTTTTTCTTAAAAATCCTAAACA
* * * * *
68777813 CTAAATCCTAATCTAATTT--TTTTTAAATT-TATAATTAATTTACTCAAGTAACT
1 CTAAACCCTAAT-TTATTTAATTTTT---TTCT-TAA--AA-AT-C-CTA--AACA
68777866 CTAAACCCTAATTTATTTAATTTTTTTCTTAAAAATCCTAAACA
1 CTAAACCCTAATTTATTTAATTTTTTTCTTAAAAATCCTAAACA
*
68777910 CTAAATCCTAAT
1 CTAAACCCTAAT
68777922 CTAATTTTTT
Statistics
Matches: 83, Mismatches: 11, Indels: 30
0.67 0.09 0.24
Matches are distributed among these distances:
43 5 0.06
44 25 0.30
45 6 0.07
46 7 0.08
47 1 0.01
48 3 0.04
49 3 0.04
50 1 0.01
51 7 0.08
52 6 0.07
53 14 0.17
54 5 0.06
ACGTcount: A:0.39, C:0.17, G:0.01, T:0.44
Consensus pattern (44 bp):
CTAAACCCTAATTTATTTAATTTTTTTCTTAAAAATCCTAAACA
Found at i:68777858 original size:97 final size:97
Alignment explanation
Indices: 68777586--68777973 Score: 537
Period size: 97 Copynumber: 4.1 Consensus size: 97
68777576 CTTAAACCCC
* * * *
68777586 AAACCCTAATTTATTTAA-TTTTTTATTAAAAATCCTAAACATTAAACCCTAAT-TTA-TTTTCT
1 AAACCCTAATTTATTTAATTTTTTTCTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTTTT
* *
68777648 AAAAATTATAATTAATTTACTCAAGTAACCCT
66 AAAATTTATAATTAATTTACTCAAGTAACTCT
*
68777680 AAACCCTAATTTATTTGATTTTTTTTCTTAAAAA--C----C-CTAAACCCTAATCTAATTTTTT
1 AAACCCTAATTTATTT-AATTTTTTTCTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTTT
* *
68777738 AAAAATTTATACTTAATTTACTCAAGTAACTCT
65 TAAAATTTATAATTAATTTACTCAAGTAACTCT
*
68777771 AAACCCTAATTTATTTAATTTTTTTCTTAAAAATCCTAAACACTAAATCCTAATCTAATTTTTTT
1 AAACCCTAATTTATTTAATTTTTTTCTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTTTT
*
68777836 TAAATTTATAATTAATTTACTCAAGTAACTCT
66 AAAATTTATAATTAATTTACTCAAGTAACTCT
*
68777868 AAACCCTAATTTATTTAATTTTTTTCTTAAAAATCCTAAACACTAAATCCTAATCTAATTTTTTT
1 AAACCCTAATTTATTTAATTTTTTTCTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTTTT
* * * *
68777933 TAAATTTATAATTAATTTAATTAAGAAAAC-CT
66 AAAATTTATAATTAATTTACTCAAG-TAACTCT
68777965 AAACCCTAA
1 AAACCCTAA
68777974 ACCCTTATTT
Statistics
Matches: 265, Mismatches: 17, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
89 11 0.04
90 19 0.07
91 49 0.18
92 1 0.00
94 17 0.06
95 1 0.00
96 14 0.05
97 150 0.57
98 3 0.01
ACGTcount: A:0.40, C:0.16, G:0.01, T:0.43
Consensus pattern (97 bp):
AAACCCTAATTTATTTAATTTTTTTCTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTTTT
AAAATTTATAATTAATTTACTCAAGTAACTCT
Found at i:68778016 original size:188 final size:182
Alignment explanation
Indices: 68777542--68778016 Score: 440
Period size: 188 Copynumber: 2.5 Consensus size: 182
68777532 ACGTGGGAGC
* * * *
68777542 TTTTTTAAATTAAAAAATAATTTAATTAAGTGACCTTAAACCCCAAACCCTAATTTATTTAATTT
1 TTTTTTAAATTTATAATTAATTTAATTAA--GACC-TAAACCCTAAACCCTAATTTATTTAATTT
* *
68777607 TTTATTAAAAATCCTAAACATTAAACCCTAATTTATTTTCTAAAAATTATAATTAATTTACTCAA
63 TTTCTTAAAAACCCTAAA-A-T-----CTAATTTATTTTCTAAAAATTATAATTAATTTACTCAA
*
68777672 GTAACCCTAAACCCTAATTTATTTGATTTTTTTTCTTAAAAACCCTAAACCCTAATCTAATT
121 GTAACCCTAAACCCTAATTTATTTGAATTTTTTTCTTAAAAACCCTAAACCCTAATCTAATT
** * * * *
68777734 TTTTAAAAATTTATACTTAATTTACTCAAG---T-AACTCTAAACCCTAATTTATTTAATTTTTT
1 TTTTTTAAATTTATAATTAATTTAATTAAGACCTAAACCCTAAACCCTAATTTATTTAA-TTTTT
* * * * *
68777795 TCTTAAAAATCCTAAACACTAAATCCTAATCTAATTTTTTTTAAATTTATAATTAATTTACTCAA
65 TCTTAAAAACCCT----A--AAAT-CTAAT-TTA-TTTTCTAAAAATTATAATTAATTTACTCAA
* *
68777860 GTAACTCTAAACCCTAATTTATTT-AATTTTTTTCTTAAAAATCCTAAACACTAAATCCTAATCT
121 GTAACCCTAAACCCTAATTTATTTGAATTTTTTTCTTAAAAA--C----C-CTAAACCCTAATCT
68777924 AATT
179 AATT
*
68777928 TTTTTTAAATTTATAATTAATTTAATTAAGAAAACCTAAACCCTAAACCCTTATTTATTTAATTT
1 TTTTTTAAATTTATAATTAATTTAATTAAG---ACCTAAACCCTAAACCCTAATTTATTTAATTT
68777993 TTTCCTT-AAAACCCTAAAATCTAA
63 TTT-CTTAAAAACCCTAAAATCTAA
68778017 AAATCCCAAA
Statistics
Matches: 233, Mismatches: 26, Indels: 47
0.76 0.08 0.15
Matches are distributed among these distances:
185 22 0.09
186 24 0.10
187 18 0.08
188 50 0.21
189 1 0.00
190 3 0.01
191 1 0.00
192 23 0.10
193 5 0.02
194 46 0.20
196 1 0.00
200 14 0.06
201 25 0.11
ACGTcount: A:0.40, C:0.16, G:0.01, T:0.43
Consensus pattern (182 bp):
TTTTTTAAATTTATAATTAATTTAATTAAGACCTAAACCCTAAACCCTAATTTATTTAATTTTTT
CTTAAAAACCCTAAAATCTAATTTATTTTCTAAAAATTATAATTAATTTACTCAAGTAACCCTAA
ACCCTAATTTATTTGAATTTTTTTCTTAAAAACCCTAAACCCTAATCTAATT
Found at i:68805216 original size:31 final size:33
Alignment explanation
Indices: 68805181--68805251 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
68805171 AAAGATGAAA
68805181 ATGTAAC-AA-GTTGATAACATTAATGACTACT
1 ATGTAACAAATGTTGATAACATTAATGACTACT
* * * *
68805212 ATGTAACAAATTTTGATAACATTAGTTACTATT
1 ATGTAACAAATGTTGATAACATTAATGACTACT
68805245 ATGTAAC
1 ATGTAAC
68805252 TTTTGAAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 7 0.21
32 2 0.06
33 25 0.74
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (33 bp):
ATGTAACAAATGTTGATAACATTAATGACTACT
Found at i:68808208 original size:120 final size:118
Alignment explanation
Indices: 68808056--68808299 Score: 298
Period size: 120 Copynumber: 2.1 Consensus size: 118
68808046 TTTCACAGGC
* * * * *
68808056 AAGCCTACAAGAAAATTACTAACTGATTCCATCTTTATGTTTC-ATGTATTAGC-AAATATTTCC
1 AAGCCTACAAGAAAATTACTAACTGATTCCATCTTTA-GGTTCAATGCATTAACAAAAAAGTTCC
68808119 TTTAATCTTTCACTAATCTTTC-ACACCATTTTTTTCTCATTCATTACCTTCAGAAAT
65 TTTAATCTTTCACTAATCTTTCGA-ACC---TTTTTCTCATTCATTACCTTCAGAAAT
* * * *
68808176 AAGCCTGCAAGTAAA-TAGCTAATTGGTTCCATCTTTAGGTTCAATGCATTAACAAAAAAGTTCC
1 AAGCCTACAAGAAAATTA-CTAACTGATTCCATCTTTAGGTTCAATGCATTAACAAAAAAGTTCC
* * *
68808240 TTTAATCTTTCATTAATCTTTCGAACCTTTTTCTCATTCATTACTTTCATAAAT
65 TTTAATCTTTCACTAATCTTTCGAACCTTTTTCTCATTCATTACCTTCAGAAAT
68808294 AAGCCT
1 AAGCCT
68808300 TACTTCCAAT
Statistics
Matches: 108, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
118 31 0.29
119 6 0.06
120 38 0.35
121 32 0.30
122 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (118 bp):
AAGCCTACAAGAAAATTACTAACTGATTCCATCTTTAGGTTCAATGCATTAACAAAAAAGTTCCT
TTAATCTTTCACTAATCTTTCGAACCTTTTTCTCATTCATTACCTTCAGAAAT
Found at i:68810014 original size:8 final size:8
Alignment explanation
Indices: 68809997--68810101 Score: 138
Period size: 8 Copynumber: 12.4 Consensus size: 8
68809987 TTGGTTAAAA
*
68809997 ATTAATCG
1 ATTAACCG
68810005 ATTAACCG
1 ATTAACCG
*
68810013 ATTTAATCG
1 A-TTAACCG
68810022 ATTTAACCG
1 A-TTAACCG
68810031 ATTTAACCG
1 A-TTAACCG
68810040 ATTAACCG
1 ATTAACCG
68810048 ATTAACCG
1 ATTAACCG
68810056 ATTAACCG
1 ATTAACCG
68810064 ATTAAACCG
1 ATT-AACCG
68810073 ATTTAACCG
1 A-TTAACCG
68810082 ATTAACCG
1 ATTAACCG
68810090 ATTTAACCG
1 A-TTAACCG
68810099 ATT
1 ATT
68810102 TTAAATCACT
Statistics
Matches: 90, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
8 44 0.49
9 44 0.49
10 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.31
Consensus pattern (8 bp):
ATTAACCG
Found at i:68810020 original size:17 final size:18
Alignment explanation
Indices: 68810006--68810102 Score: 148
Period size: 17 Copynumber: 5.6 Consensus size: 18
68809996 AATTAATCGA
*
68810006 TTAACCGATTTAATCGAT
1 TTAACCGATTTAACCGAT
68810024 TTAACCGATTTAACCGA-
1 TTAACCGATTTAACCGAT
68810041 TTAACCGA-TTAACCGA-
1 TTAACCGATTTAACCGAT
*
68810057 TTAACCGATTAAACCGAT
1 TTAACCGATTTAACCGAT
68810075 TTAACCGA-TTAACCGAT
1 TTAACCGATTTAACCGAT
68810092 TTAACCGATTT
1 TTAACCGATTT
68810103 TAAATCACTA
Statistics
Matches: 73, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
16 16 0.22
17 31 0.42
18 26 0.36
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (18 bp):
TTAACCGATTTAACCGAT
Found at i:68810023 original size:9 final size:9
Alignment explanation
Indices: 68810006--68810102 Score: 148
Period size: 9 Copynumber: 11.2 Consensus size: 9
68809996 AATTAATCGA
68810006 TTAACCGAT
1 TTAACCGAT
*
68810015 TTAATCGAT
1 TTAACCGAT
68810024 TTAACCGAT
1 TTAACCGAT
68810033 TTAACCGA-
1 TTAACCGAT
68810041 TTAACCGA-
1 TTAACCGAT
68810049 TTAACCGA-
1 TTAACCGAT
68810057 TTAACCGAT
1 TTAACCGAT
*
68810066 TAAACCGAT
1 TTAACCGAT
68810075 TTAACCGA-
1 TTAACCGAT
68810083 TTAACCGAT
1 TTAACCGAT
68810092 TTAACCGAT
1 TTAACCGAT
68810101 TT
1 TT
68810103 TAAATCACTA
Statistics
Matches: 82, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
8 32 0.39
9 50 0.61
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (9 bp):
TTAACCGAT
Found at i:68810058 original size:51 final size:51
Alignment explanation
Indices: 68809997--68810101 Score: 167
Period size: 51 Copynumber: 2.1 Consensus size: 51
68809987 TTGGTTAAAA
* * *
68809997 ATTAATCGATTAACCGATTTAATCGATTTAACCGATTTAACCGA-TTAACCG
1 ATTAACCGATTAACCGATTAAACCGATTTAACCGA-TTAACCGATTTAACCG
68810048 ATTAACCGATTAACCGATTAAACCGATTTAACCGATTAACCGATTTAACCG
1 ATTAACCGATTAACCGATTAAACCGATTTAACCGATTAACCGATTTAACCG
68810099 ATT
1 ATT
68810102 TTAAATCACT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
50 8 0.16
51 42 0.84
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.31
Consensus pattern (51 bp):
ATTAACCGATTAACCGATTAAACCGATTTAACCGATTAACCGATTTAACCG
Found at i:68810170 original size:17 final size:17
Alignment explanation
Indices: 68810148--68810245 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
68810138 TTTGAATCAC
68810148 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
68810165 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
68810185 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * * *
68810202 TATGTAAGTCTTTAAATCAC
1 TACATAA---TTAAAAACAT
*
68810222 TATATAATTAAAAACAT
1 TACATAATTAAAAACAT
68810239 TACATAA
1 TACATAA
68810246 GTCTTAAAAT
Statistics
Matches: 57, Mismatches: 18, Indels: 12
0.66 0.21 0.14
Matches are distributed among these distances:
17 31 0.54
20 26 0.46
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:68810254 original size:20 final size:20
Alignment explanation
Indices: 68810118--68810254 Score: 76
Period size: 20 Copynumber: 7.3 Consensus size: 20
68810108 CACTACATAG
*
68810118 TTAAAAAAATTACATAAGTC
1 TTAAAAACATTACATAAGTC
** * *
68810138 TTTGAATCACTACATAA---
1 TTAAAAACATTACATAAGTC
68810155 TTAAAAACATTACATAAGTC
1 TTAAAAACATTACATAAGTC
** * *
68810175 TTTGAATCACTACATAA---
1 TTAAAAACATTACATAAGTC
**
68810192 TTAAAAACATTATGTAAGTC
1 TTAAAAACATTACATAAGTC
* * * *
68810212 TTTAAATCACTATATAA---
1 TTAAAAACATTACATAAGTC
68810229 TTAAAAACATTACATAAGTC
1 TTAAAAACATTACATAAGTC
68810249 TTAAAA
1 TTAAAA
68810255 TTATCACATA
Statistics
Matches: 81, Mismatches: 27, Indels: 18
0.64 0.21 0.14
Matches are distributed among these distances:
17 37 0.46
20 44 0.54
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (20 bp):
TTAAAAACATTACATAAGTC
Found at i:68810266 original size:37 final size:37
Alignment explanation
Indices: 68810101--68810271 Score: 245
Period size: 37 Copynumber: 4.6 Consensus size: 37
68810091 TTTAACCGAT
* *
68810101 TTTAAATCACTACATAGTTAAAAAAATTACATAAGTC
1 TTTAAATCACTACATAATTAAAAACATTACATAAGTC
*
68810138 TTTGAATCACTACATAATTAAAAACATTACATAAGTC
1 TTTAAATCACTACATAATTAAAAACATTACATAAGTC
* **
68810175 TTTGAATCACTACATAATTAAAAACATTATGTAAGTC
1 TTTAAATCACTACATAATTAAAAACATTACATAAGTC
*
68810212 TTTAAATCACTATATAATTAAAAACATTACATAAGTC
1 TTTAAATCACTACATAATTAAAAACATTACATAAGTC
* *
68810249 TTAAAATTA-TCACATAATTAAAA
1 TTTAAATCACT-ACATAATTAAAA
68810272 TGTAAGAATT
Statistics
Matches: 121, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
36 1 0.01
37 120 0.99
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (37 bp):
TTTAAATCACTACATAATTAAAAACATTACATAAGTC
Found at i:68810772 original size:45 final size:45
Alignment explanation
Indices: 68810721--68810828 Score: 207
Period size: 45 Copynumber: 2.4 Consensus size: 45
68810711 TAGCCATAAT
68810721 AATTACTGCTTTCATAAACTAGAAAGCCATAAATTCAAAAAGTGG
1 AATTACTGCTTTCATAAACTAGAAAGCCATAAATTCAAAAAGTGG
*
68810766 AATTACTGCTTTCATAAACTAGAAAGCCATAAATTCATAAAGTGG
1 AATTACTGCTTTCATAAACTAGAAAGCCATAAATTCAAAAAGTGG
68810811 AATTACTGCTTTCATAAA
1 AATTACTGCTTTCATAAA
68810829 TTCATAAATT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.30
Consensus pattern (45 bp):
AATTACTGCTTTCATAAACTAGAAAGCCATAAATTCAAAAAGTGG
Found at i:68810806 original size:23 final size:23
Alignment explanation
Indices: 68810731--68810806 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 23
68810721 AATTACTGCT
68810731 TTCATAAACTAGAAAGCCATAAA
1 TTCATAAACTAGAAAGCCATAAA
* * * *** ***
68810754 TTCAAAAAGTGGAATTAC-TGCT
1 TTCATAAACTAGAAAGCCATAAA
68810776 TTCATAAACTAGAAAGCCATAAA
1 TTCATAAACTAGAAAGCCATAAA
68810799 TTCATAAA
1 TTCATAAA
68810807 GTGGAATTAC
Statistics
Matches: 34, Mismatches: 18, Indels: 2
0.63 0.33 0.04
Matches are distributed among these distances:
22 13 0.38
23 21 0.62
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (23 bp):
TTCATAAACTAGAAAGCCATAAA
Found at i:68810827 original size:22 final size:22
Alignment explanation
Indices: 68810754--68810828 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 22
68810744 AAGCCATAAA
*
68810754 TTCAAAAAGTGGAATTACTGCT
1 TTCATAAAGTGGAATTACTGCT
* * *** ***
68810776 TTCATAAACTAGAAAGCCATAAA
1 TTCATAAAGTGGAATTAC-TGCT
68810799 TTCATAAAGTGGAATTACTGCT
1 TTCATAAAGTGGAATTACTGCT
68810821 TTCATAAA
1 TTCATAAA
68810829 TTCATAAATT
Statistics
Matches: 35, Mismatches: 17, Indels: 2
0.65 0.31 0.04
Matches are distributed among these distances:
22 21 0.60
23 14 0.40
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (22 bp):
TTCATAAAGTGGAATTACTGCT
Done.