Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 36 of 144
Found at i:9147980 original size:17 final size:18
Alignment explanation
Indices: 9147940--9147980 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
9147930 ATATTTTTTA
*
9147940 ATATTAAATATACATATT
1 ATATTAAATATAAATATT
*
9147958 -TTTTAAATA-AAATATT
1 ATATTAAATATAAATATT
9147974 ATATTAA
1 ATATTAA
9147981 TTTAATATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 3
0.76 0.12 0.12
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATTAAATATAAATATT
Found at i:9148687 original size:19 final size:20
Alignment explanation
Indices: 9148653--9148694 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
9148643 GTGGTAAATC
9148653 TTAAAATTTCATGTATAAAA
1 TTAAAATTTCATGTATAAAA
*
9148673 TTAAAATTT-ATGTATATAA
1 TTAAAATTTCATGTATAAAA
9148692 TTA
1 TTA
9148695 TGCATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (20 bp):
TTAAAATTTCATGTATAAAA
Found at i:9150877 original size:30 final size:30
Alignment explanation
Indices: 9150786--9150959 Score: 151
Period size: 30 Copynumber: 5.8 Consensus size: 30
9150776 AACTGGTATC
* *
9150786 TTTTGGAAA-TTTTGGGGTCAAAAATGGAAT
1 TTTTGGAAAGTTTAGGGGT-AAAAATGTAAT
** *
9150816 TTTT--AAACATTCGAGGGT-AAAATAGTAAT
1 TTTTGGAAAGTTTAG-GGGTAAAAAT-GTAAT
* **
9150845 TTTTGTG-AAGTTTAGGGGTTAAAACATAAT
1 TTTTG-GAAAGTTTAGGGGTAAAAATGTAAT
*
9150875 TTTTGGAAAGTTTGGGGGTAAAAATGTAAT
1 TTTTGGAAAGTTTAGGGGTAAAAATGTAAT
* *
9150905 TTTTGGAAAGTTTAGAGGTCAAAATGTAAT
1 TTTTGGAAAGTTTAGGGGTAAAAATGTAAT
* * *
9150935 TTTTGGAAACTTTAAGGGTCAAAAT
1 TTTTGGAAAGTTTAGGGGTAAAAAT
9150960 ATGATTTCTA
Statistics
Matches: 118, Mismatches: 18, Indels: 16
0.78 0.12 0.11
Matches are distributed among these distances:
28 8 0.07
29 12 0.10
30 89 0.75
31 9 0.08
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.37
Consensus pattern (30 bp):
TTTTGGAAAGTTTAGGGGTAAAAATGTAAT
Found at i:9150959 original size:60 final size:60
Alignment explanation
Indices: 9150786--9150960 Score: 180
Period size: 60 Copynumber: 2.9 Consensus size: 60
9150776 AACTGGTATC
* * *
9150786 TTTTGGAAA-TTTTGGGGTCAAAAATGGAATTTTT--AAACATTCGAGGGTAAAATAGTAAT
1 TTTTGGAAAGTTTAGGGGTC-AAAATGTAATTTTTGGAAAC-TTTGAGGGTAAAATAGTAAT
* ** * *
9150845 TTTTGTG-AAGTTTAGGGGTTAAAACATAATTTTTGGAAAGTTTGGGGGTAAAA-ATGTAAT
1 TTTTG-GAAAGTTTAGGGGTCAAAATGTAATTTTTGGAAACTTTGAGGGTAAAATA-GTAAT
* *
9150905 TTTTGGAAAGTTTAGAGGTCAAAATGTAATTTTTGGAAACTTTAAGGGTCAAAATA
1 TTTTGGAAAGTTTAGGGGTCAAAATGTAATTTTTGGAAACTTTGAGGGT-AAAATA
9150961 TGATTTCTAG
Statistics
Matches: 93, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
59 20 0.22
60 65 0.70
61 7 0.08
62 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.37
Consensus pattern (60 bp):
TTTTGGAAAGTTTAGGGGTCAAAATGTAATTTTTGGAAACTTTGAGGGTAAAATAGTAAT
Found at i:9152063 original size:3 final size:3
Alignment explanation
Indices: 9152057--9152102 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
9152047 TTTTTCTTCT
**
9152057 TTA TTA TTA TTA TTAA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9152103 ATGTTATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:9152875 original size:17 final size:17
Alignment explanation
Indices: 9152815--9152875 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 17
9152805 TTTTTATTTC
*
9152815 AAAATAAATTTAAACTC
1 AAAATAAATTTAAACTT
* ** *
9152832 CAAATAAGCTTAAATTT
1 AAAATAAATTTAAACTT
*
9152849 ACAATAAATTTAAACTT
1 AAAATAAATTTAAACTT
*
9152866 AAAATGAATT
1 AAAATAAATT
9152876 AAGATTTAAA
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (17 bp):
AAAATAAATTTAAACTT
Found at i:9152883 original size:34 final size:33
Alignment explanation
Indices: 9152817--9152883 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
9152807 TTTATTTCAA
*
9152817 AATAAATTTAAACTCCAAATAAGCTTAAATTTAC
1 AATAAATTTAAACTCAAAATAA-CTTAAATTTAC
*
9152851 AATAAATTTAAACTTAAAATGAA-TTAAGATTTA
1 AATAAATTTAAACTCAAAAT-AACTTAA-ATTTA
9152884 AAATCTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 4 0.14
34 23 0.79
35 2 0.07
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.34
Consensus pattern (33 bp):
AATAAATTTAAACTCAAAATAACTTAAATTTAC
Found at i:9153565 original size:209 final size:209
Alignment explanation
Indices: 9153199--9153872 Score: 1114
Period size: 209 Copynumber: 3.2 Consensus size: 209
9153189 TTCCAATGGT
* * *
9153199 TTGGTATCATTGATTTGGTCTACTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTC
1 TTGGTTTCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTC
*
9153264 AATCCGCTTCTCTGTATCTCATCAGGAAGAGGAATTTGGTCCACTTCTCAGTATCTCATCAGGAA
66 AATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAA
*
9153329 GCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCAAAGATT
131 GCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATT
9153394 TGCTCACTTGGAGC
196 TGCTCACTTGGAGC
* * *
9153408 TTGGTTTCATTGATTTGGTCTTCTTGTCAGTATCTTATTAGGAAGATGACCGCATCACTTGTTTC
1 TTGGTTTCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTC
* * * *
9153473 AATCCGCTTCTCTGTATCTCATTAGGAAGACGAATTTGATCTACTTCTCAGTATCTCATAAGGAA
66 AATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAA
* * * *
9153538 GCTAACCATTTTATTGCTTTGACCTGCTTCTCAGTATCTTATCAGGAAGTTAGGGTTCGAAGATT
131 GCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATT
9153603 TGCTCACTTGGAGC
196 TGCTCACTTGGAGC
* * **
9153617 TTGGTTTCATTGATTTGATCTTCTTCTCAGTATCTCATCAAGAAGATGACCATATCACTTGTTTC
1 TTGGTTTCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTC
*
9153682 AATCCGCTTCTCCGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAA
66 AATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAA
* *
9153747 GCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCCGGGGTTCGAAGATT
131 GCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATT
*
9153812 TGCTCACTTTGAGC
196 TGCTCACTTGGAGC
* *
9153826 TTGGCTTCATTGATTTGGTCTTCTTCTCAGTATCTCATCTGGAAGAT
1 TTGGTTTCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGAT
9153873 AACCAGCTCG
Statistics
Matches: 426, Mismatches: 39, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
209 426 1.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (209 bp):
TTGGTTTCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTC
AATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAGGAA
GCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATT
TGCTCACTTGGAGC
Found at i:9155945 original size:17 final size:17
Alignment explanation
Indices: 9155883--9155945 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 17
9155873 AATTTTTATT
9155883 TTAAAATAAATTTAAAC
1 TTAAAATAAATTTAAAC
** ** *
9155900 TCCAAATAAGCTTAAAT
1 TTAAAATAAATTTAAAC
*
9155917 TTACAATAAATTTAAAC
1 TTAAAATAAATTTAAAC
*
9155934 TTAAAATGAATT
1 TTAAAATAAATT
9155946 AAGATTTAAA
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.35
Consensus pattern (17 bp):
TTAAAATAAATTTAAAC
Found at i:9155953 original size:34 final size:33
Alignment explanation
Indices: 9155882--9155957 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 33
9155872 AAATTTTTAT
*
9155882 TTTAAAATAAATTTAAACTCCAAATAAGCTTAAA
1 TTTAAAATAAATTTAAACTCAAAATAA-CTTAAA
* *
9155916 TTTACAATAAATTTAAACTTAAAATGAA-TTAAGA
1 TTTAAAATAAATTTAAACTCAAAAT-AACTTAA-A
9155950 TTTAAAAT
1 TTTAAAAT
9155958 CTAAAATTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 4 0.11
34 30 0.83
35 2 0.06
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.36
Consensus pattern (33 bp):
TTTAAAATAAATTTAAACTCAAAATAACTTAAA
Found at i:9175129 original size:72 final size:72
Alignment explanation
Indices: 9175012--9175156 Score: 274
Period size: 72 Copynumber: 2.0 Consensus size: 72
9175002 CTGAATACCC
9175012 TATCGTGATGCATGTTGACTCCAACTTGAAGTGAGAGTCGAAGTTCCTTCCTAAACCAATCACAT
1 TATCGTGATGCATGTTGACTCCAACTTGAAGTGAGAGTCGAAGTTCCTTCCTAAACCAATCACAT
9175077 TTCTCTT
66 TTCTCTT
9175084 TATCGTGATGCATGTTGACTCCAAGC-TGAAGTGAGAGTCGAAGTTCCTTCCTAAACCAATCACA
1 TATCGTGATGCATGTTGACTCCAA-CTTGAAGTGAGAGTCGAAGTTCCTTCCTAAACCAATCACA
9175148 TTTCTCTT
65 TTTCTCTT
9175156 T
1 T
9175157 TTCATTTGTC
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
72 71 0.99
73 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (72 bp):
TATCGTGATGCATGTTGACTCCAACTTGAAGTGAGAGTCGAAGTTCCTTCCTAAACCAATCACAT
TTCTCTT
Found at i:9177443 original size:41 final size:41
Alignment explanation
Indices: 9177396--9177492 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 41
9177386 TTTCTCAAAA
*
9177396 AAAGTCAACAGGTTAA-AGTCAATGGTCAACGATCAA-AGTC
1 AAAGTCAAC-GGTTAATAGTCAATAGTCAACGATCAATAGTC
* * * *
9177436 AATAGTCAATGGTCAATGGTCAATAGTCAACGATCAATGGTC
1 AA-AGTCAACGGTTAATAGTCAATAGTCAACGATCAATAGTC
9177478 AAAGTCAACGGTTAA
1 AAAGTCAACGGTTAA
9177493 CGGGTCGGGT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
40 7 0.15
41 35 0.74
42 5 0.11
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (41 bp):
AAAGTCAACGGTTAATAGTCAATAGTCAACGATCAATAGTC
Found at i:9177459 original size:21 final size:21
Alignment explanation
Indices: 9177413--9177487 Score: 100
Period size: 20 Copynumber: 3.7 Consensus size: 21
9177403 ACAGGTTAAA
* *
9177413 GTCAATGGTCAACGATCAA-A
1 GTCAATAGTCAACGATCAATG
* *
9177433 GTCAATAGTCAATGGTCAATG
1 GTCAATAGTCAACGATCAATG
9177454 GTCAATAGTCAACGATCAATG
1 GTCAATAGTCAACGATCAATG
9177475 GTCAA-AGTCAACG
1 GTCAATAGTCAACG
9177488 GTTAACGGGT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 24 0.50
21 24 0.50
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (21 bp):
GTCAATAGTCAACGATCAATG
Found at i:9177479 original size:7 final size:7
Alignment explanation
Indices: 9177413--9177479 Score: 64
Period size: 7 Copynumber: 9.7 Consensus size: 7
9177403 ACAGGTTAAA
9177413 GTCAATG
1 GTCAATG
*
9177420 GTCAACG
1 GTCAATG
* *
9177427 ATCAA-A
1 GTCAATG
*
9177433 GTCAATA
1 GTCAATG
9177440 GTCAATG
1 GTCAATG
9177447 GTCAATG
1 GTCAATG
*
9177454 GTCAATA
1 GTCAATG
*
9177461 GTCAACG
1 GTCAATG
*
9177468 ATCAATG
1 GTCAATG
9177475 GTCAA
1 GTCAA
9177480 AGTCAACGGT
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
6 4 0.08
7 44 0.92
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (7 bp):
GTCAATG
Found at i:9186818 original size:11 final size:11
Alignment explanation
Indices: 9186777--9186819 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
9186767 AAAAAATTTT
*
9186777 AATAAATAAAA
1 AATAAATATAA
9186788 AATTAAATATTAA
1 AA-TAAATA-TAA
9186801 AAT-AATATAA
1 AATAAATATAA
9186811 AATAAATAT
1 AATAAATAT
9186820 TTTTTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 6 0.21
11 11 0.39
12 7 0.25
13 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AATAAATATAA
Found at i:9187576 original size:142 final size:142
Alignment explanation
Indices: 9187320--9187603 Score: 568
Period size: 142 Copynumber: 2.0 Consensus size: 142
9187310 ATTTTTTATA
9187320 CTTTTTGTAAAAATAATTTTATTTAGTAGTTTTCGAAGTGGATTATCGTGATTAAAAATTTTAAT
1 CTTTTTGTAAAAATAATTTTATTTAGTAGTTTTCGAAGTGGATTATCGTGATTAAAAATTTTAAT
9187385 TATTGAATATATTAATTTTAATTAATTAAAATTTTTCAACACTCTATCATGACATTATTCTACTT
66 TATTGAATATATTAATTTTAATTAATTAAAATTTTTCAACACTCTATCATGACATTATTCTACTT
9187450 CTAAATTACTAT
131 CTAAATTACTAT
9187462 CTTTTTGTAAAAATAATTTTATTTAGTAGTTTTCGAAGTGGATTATCGTGATTAAAAATTTTAAT
1 CTTTTTGTAAAAATAATTTTATTTAGTAGTTTTCGAAGTGGATTATCGTGATTAAAAATTTTAAT
9187527 TATTGAATATATTAATTTTAATTAATTAAAATTTTTCAACACTCTATCATGACATTATTCTACTT
66 TATTGAATATATTAATTTTAATTAATTAAAATTTTTCAACACTCTATCATGACATTATTCTACTT
9187592 CTAAATTACTAT
131 CTAAATTACTAT
9187604 AATCTTATGT
Statistics
Matches: 142, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
142 142 1.00
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.47
Consensus pattern (142 bp):
CTTTTTGTAAAAATAATTTTATTTAGTAGTTTTCGAAGTGGATTATCGTGATTAAAAATTTTAAT
TATTGAATATATTAATTTTAATTAATTAAAATTTTTCAACACTCTATCATGACATTATTCTACTT
CTAAATTACTAT
Found at i:9194180 original size:52 final size:52
Alignment explanation
Indices: 9194101--9194339 Score: 286
Period size: 52 Copynumber: 4.6 Consensus size: 52
9194091 TAAATGAAAA
*
9194101 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
9194153 AGGTCCGATAACAATGTGTCATTGTGAGTATATGAATCTTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
** * * * *
9194205 AGGTTTGATGGCTATGTGTCATTGTGAGTATATGAATCCTTTATGGATTAAG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
9194257 ATG-CTCGATGACTATGTGTCATCGTGAGCAGAT-AGATCCTTTTACGGATT-TA
1 AGGTC-CGATGACTATGTGTCATCGTGAGTATATGA-ATCC-TTTACGGATTATG
*
9194309 AGGTCCGATGACTTTGTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
9194340 TAAATAGGAA
Statistics
Matches: 156, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
51 1 0.01
52 145 0.93
53 10 0.06
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:9194327 original size:104 final size:104
Alignment explanation
Indices: 9194100--9194339 Score: 315
Period size: 104 Copynumber: 2.3 Consensus size: 104
9194090 GTAAATGAAA
* *
9194100 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATGAGGTCCGATAAC
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTAAGAGCTCCGATAAC
* * *
9194165 AATGTGTCATTGTGAGTATATGAATCTTTTACGGATTAT
66 AATGTGTCATCGTGAGCAGATGAATCTTTTACGGATTAT
* ** * * *
9194204 GAGGTTTGATGGCTATGTGTCATTGTGAGTATATGAATCCTTTATGGATTAAGATGCT-CGATGA
1 AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTAAGA-GCTCCGATAA
*
9194268 CTATGTGTCATCGTGAGCAGAT-AGATCCTTTTACGGATT-T
65 CAATGTGTCATCGTGAGCAGATGA-AT-CTTTTACGGATTAT
*
9194308 AAGGTCCGATGACTTTGTGTCATCGTGAGTAT
1 AAGGTCCGATGACTATGTGTCATCGTGAGTAT
9194340 TAAATAGGAA
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
103 1 0.01
104 100 0.87
105 14 0.12
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (104 bp):
AAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTAAGAGCTCCGATAAC
AATGTGTCATCGTGAGCAGATGAATCTTTTACGGATTAT
Found at i:9207218 original size:20 final size:20
Alignment explanation
Indices: 9207193--9207244 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
9207183 AGTCTTCAAG
* *
9207193 GTATCGGTAGAACTGTAGTT
1 GTATCGGTAGAAATGGAGTT
9207213 GTATCGGTAGAAATGGAGTT
1 GTATCGGTAGAAATGGAGTT
* *
9207233 CTACCGGTAGAA
1 GTATCGGTAGAA
9207245 GTCTCACTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.29
Consensus pattern (20 bp):
GTATCGGTAGAAATGGAGTT
Found at i:9207447 original size:33 final size:33
Alignment explanation
Indices: 9207393--9207458 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
9207383 AAATAGATTT
* * *
9207393 CTCCCCCATAATAGAAGTCATTTTGAAATTAAG
1 CTCCCCCATAATAAAAATCATTTTCAAATTAAG
*
9207426 CTCCCCC-TATATAAAAATCATTTTCAATTTAAG
1 CTCCCCCATA-ATAAAAATCATTTTCAAATTAAG
9207459 GCATAAAGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 2 0.07
33 26 0.93
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (33 bp):
CTCCCCCATAATAAAAATCATTTTCAAATTAAG
Found at i:9210358 original size:20 final size:20
Alignment explanation
Indices: 9210319--9210372 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
9210309 AGTCTTCAAG
* * *
9210319 GTATCGATAGAATTGTAGTT
1 GTATCGGTAGAAGTGGAGTT
9210339 GTATCGGTAGAAGTGGAGTT
1 GTATCGGTAGAAGTGGAGTT
* *
9210359 CTACCGGTAGAAGT
1 GTATCGGTAGAAGT
9210373 CCCACTGGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.28, C:0.09, G:0.31, T:0.31
Consensus pattern (20 bp):
GTATCGGTAGAAGTGGAGTT
Found at i:9212726 original size:60 final size:60
Alignment explanation
Indices: 9212614--9212753 Score: 183
Period size: 60 Copynumber: 2.3 Consensus size: 60
9212604 TTGAATCTAA
* * * * *
9212614 AAAAAAAGCTTAGGTGCCAAACTAGGAAGAAAATGTCAAGTTCAGGTGCCAAATTAGGTCC
1 AAAAAAAGTTTAGGTACCAAACTAGGAAGAAAATATCAAATTCAGGTACCAAATTAGGT-C
* * *
9212675 AAAAAAATTTTAGGTACCAAATTAGGAA-AAAATATCAAATTCAGGTACCAAATTGGGTC
1 AAAAAAAGTTTAGGTACCAAACTAGGAAGAAAATATCAAATTCAGGTACCAAATTAGGTC
*
9212734 AAAAAAAGTTTAAGTACCAA
1 AAAAAAAGTTTAGGTACCAA
9212754 GTTTAGGTAC
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
59 19 0.28
60 26 0.38
61 24 0.35
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (60 bp):
AAAAAAAGTTTAGGTACCAAACTAGGAAGAAAATATCAAATTCAGGTACCAAATTAGGTC
Found at i:9213064 original size:29 final size:30
Alignment explanation
Indices: 9213031--9213105 Score: 109
Period size: 29 Copynumber: 2.5 Consensus size: 30
9213021 TAGATATATA
9213031 TTATTTATAAAATTTAAAAT-ATTTTAAAT
1 TTATTTATAAAATTTAAAATCATTTTAAAT
*
9213060 TTATTTTTAAAATTTAAAATCATTTTAAAT
1 TTATTTATAAAATTTAAAATCATTTTAAAT
9213090 TT-TATTATAATAATTT
1 TTAT-TTATAA-AATTT
9213106 TATGTTACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 20 0.49
30 16 0.39
31 5 0.12
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (30 bp):
TTATTTATAAAATTTAAAATCATTTTAAAT
Found at i:9218765 original size:19 final size:19
Alignment explanation
Indices: 9218741--9218778 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9218731 ATAGTATTTG
9218741 ATGCTTCTGCAACCCTTTT
1 ATGCTTCTGCAACCCTTTT
* *
9218760 ATGCTTTTGCAATCCTTTT
1 ATGCTTCTGCAACCCTTTT
9218779 GTTTTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.26, G:0.11, T:0.47
Consensus pattern (19 bp):
ATGCTTCTGCAACCCTTTT
Found at i:9223434 original size:11 final size:11
Alignment explanation
Indices: 9223418--9223443 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9223408 TTATAAAAAA
9223418 TAATTTATTAT
1 TAATTTATTAT
9223429 TAATTTATTAT
1 TAATTTATTAT
9223440 TAAT
1 TAAT
9223444 ATTTAGAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TAATTTATTAT
Found at i:9226675 original size:110 final size:110
Alignment explanation
Indices: 9226464--9226792 Score: 343
Period size: 110 Copynumber: 3.0 Consensus size: 110
9226454 AAGCTGCCGG
* * * * * * * *
9226464 ATGGTTGAGGATCCACGACCCCTCGCAAATAAAAGTTGTCAAAGAAAATTGTGGATGCTTCGTAC
1 ATGGTTGAGGATCCACAATCCATCACAAATAAAAGATATCAAAGGAAATCGTGGATGCTTCGTAC
* * * * * *
9226529 ATATTGTCGCAGTTTGAATATGCTAACCTGTTAATACGCAGTGGA
66 ATATAGTCGCAGTTGGAATCTGCTAATCTGTGAATACACAGTGGA
* * * * *
9226574 ATGTTTGAGGATCCATAATCCATCACAAATAAAAGCTATCAAAGGAAATCATGGATGCTCCGTAC
1 ATGGTTGAGGATCCACAATCCATCACAAATAAAAGATATCAAAGGAAATCGTGGATGCTTCGTAC
* * * * *
9226639 ATATAGTCACAGTTGGAACCTACTAATCTGTGAATACATAGCGGA
66 ATATAGTCGCAGTTGGAATCTGCTAATCTGTGAATACACAGTGGA
* * * * * * * *
9226684 ATGGTTGAGGATCCACAATCCCTCGCAAATAAAAGATATTAGATGAAATCGTGAATGATTTGTAC
1 ATGGTTGAGGATCCACAATCCATCACAAATAAAAGATATCAAAGGAAATCGTGGATGCTTCGTAC
* * *
9226749 AAATAGTCGCAGTTGGAATCTGTTAATTTGTGAATACACAGTGG
66 ATATAGTCGCAGTTGGAATCTGCTAATCTGTGAATACACAGTGG
9226793 TCAAACATAT
Statistics
Matches: 175, Mismatches: 44, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
110 175 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (110 bp):
ATGGTTGAGGATCCACAATCCATCACAAATAAAAGATATCAAAGGAAATCGTGGATGCTTCGTAC
ATATAGTCGCAGTTGGAATCTGCTAATCTGTGAATACACAGTGGA
Found at i:9227171 original size:69 final size:69
Alignment explanation
Indices: 9226975--9227176 Score: 289
Period size: 69 Copynumber: 2.9 Consensus size: 69
9226965 ATTTAGTATG
* * * *
9226975 AACATAATCATTCACGGATTAAAATAATCATTCTTTAAGCAATCATATTCCATCAGTTATCATGA
1 AACATAATCATTCACGGATTAAAATAATCATTC-CTAAGCAATCATATTCCATCAATAATCATGG
9227040 GCATA
65 GCATA
* * * **
9227045 AACATAATCAATGATGGATT-AAATAATCATTCCTAAGCAATCATATTCCATTGATAATCATGGG
1 AACATAATCATTCACGGATTAAAATAATCATTCCTAAGCAATCATATTCCATCAATAATCATGGG
9227109 CATA
66 CATA
* *
9227113 AACATAATCATTCACCGATTAAAATAATCATTCCTAAGCAATCATATTCTATCAATAATCATGG
1 AACATAATCATTCACGGATTAAAATAATCATTCCTAAGCAATCATATTCCATCAATAATCATGG
9227177 TATTATTTAT
Statistics
Matches: 115, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
68 46 0.40
69 52 0.45
70 17 0.15
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (69 bp):
AACATAATCATTCACGGATTAAAATAATCATTCCTAAGCAATCATATTCCATCAATAATCATGGG
CATA
Found at i:9231330 original size:21 final size:22
Alignment explanation
Indices: 9231258--9231346 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 22
9231248 CAAATAATAT
*
9231258 TAAAAACAACAACAAAACAACA
1 TAAAAACAACACCAAAACAACA
* *
9231280 TAATAAA-ATCATTGCGAAAA-AACA
1 TAA-AAACAACA---CCAAAACAACA
9231304 -ATAAAACAACACC-AAACAACA
1 TA-AAAACAACACCAAAACAACA
9231325 TAAAAACAACACCAAAACAACA
1 TAAAAACAACACCAAAACAACA
9231347 CCAACAACAG
Statistics
Matches: 53, Mismatches: 5, Indels: 18
0.70 0.07 0.24
Matches are distributed among these distances:
20 3 0.06
21 16 0.30
22 15 0.28
23 7 0.13
24 8 0.15
25 4 0.08
ACGTcount: A:0.66, C:0.22, G:0.02, T:0.09
Consensus pattern (22 bp):
TAAAAACAACACCAAAACAACA
Found at i:9231331 original size:11 final size:11
Alignment explanation
Indices: 9231306--9231366 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
9231296 AAAAAACAAT
9231306 AAAACAACAC-
1 AAAACAACACA
* *
9231316 CAAACAACATA
1 AAAACAACACA
*
9231327 AAAACAACACC
1 AAAACAACACA
9231338 AAAACAACACCA
1 AAAACAACA-CA
* *
9231350 ACAACAGCACTA
1 AAAACAACAC-A
9231362 AAAAC
1 AAAAC
9231367 CCTCAAAATG
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
10 8 0.21
11 18 0.46
12 13 0.33
ACGTcount: A:0.64, C:0.31, G:0.02, T:0.03
Consensus pattern (11 bp):
AAAACAACACA
Found at i:9242743 original size:37 final size:37
Alignment explanation
Indices: 9242693--9242798 Score: 131
Period size: 37 Copynumber: 2.9 Consensus size: 37
9242683 TTACTACTAA
* *
9242693 TGTCGTCGCATGAGCACTTCTAGATTGCGCCCAAAAC
1 TGTCGTCGCATGAGCACTTCCAGATTGCACCCAAAAC
*
9242730 TGTCGTCGTATGAGCACTTCCAGATTGCACCCAAAAC
1 TGTCGTCGCATGAGCACTTCCAGATTGCACCCAAAAC
* * ** * *
9242767 TGTCGCCACATGAATATTTCCAGAATGCACCC
1 TGTCGTCGCATGAGCACTTCCAGATTGCACCC
9242799 TAGATTGTCA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
TGTCGTCGCATGAGCACTTCCAGATTGCACCCAAAAC
Found at i:9242907 original size:26 final size:26
Alignment explanation
Indices: 9242878--9242930 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
9242868 CACCCAGGAA
9242878 TGTCGCTACATGAACATGTCCAGAAT
1 TGTCGCTACATGAACATGTCCAGAAT
* * *
9242904 TGTCGTTGCATGAACGTGTCCAGAAT
1 TGTCGCTACATGAACATGTCCAGAAT
9242930 T
1 T
9242931 ACGCCCAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (26 bp):
TGTCGCTACATGAACATGTCCAGAAT
Found at i:9248368 original size:18 final size:18
Alignment explanation
Indices: 9248347--9248392 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
9248337 CTCCATAGGA
*
9248347 TCTTCCTCAGGATCC-TCT
1 TCTTCTTCAGGA-CCTTCT
9248365 TCTTCTTCAGGACCTTCT
1 TCTTCTTCAGGACCTTCT
9248383 TCTTCTTCAG
1 TCTTCTTCAG
9248393 CTTGCTATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 2 0.08
18 24 0.92
ACGTcount: A:0.11, C:0.35, G:0.11, T:0.43
Consensus pattern (18 bp):
TCTTCTTCAGGACCTTCT
Found at i:9263122 original size:21 final size:21
Alignment explanation
Indices: 9263083--9263141 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
9263073 ATAGTGCAGA
**
9263083 CTTCTAACGATACTTGTGACAG
1 CTTCTAACGATACAAGTGA-AG
*
9263105 -TTCTATCGATACAAGTGAAG
1 CTTCTAACGATACAAGTGAAG
* *
9263125 CTTCTACCGAAACAAGT
1 CTTCTAACGATACAAGT
9263142 CATCTTCTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (21 bp):
CTTCTAACGATACAAGTGAAG
Found at i:9268524 original size:22 final size:22
Alignment explanation
Indices: 9268499--9268557 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
9268489 TGCCAAAATG
9268499 TATCATATTTCATATAAGT-GCA
1 TATCATATTTCATATAA-TAGCA
* ** *
9268521 TATCTTATAACATATCATAGCA
1 TATCATATTTCATATAATAGCA
*
9268543 TATCAAATTTCATAT
1 TATCATATTTCATAT
9268558 CGGAGCATAT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (22 bp):
TATCATATTTCATATAATAGCA
Found at i:9268553 original size:44 final size:44
Alignment explanation
Indices: 9268499--9268671 Score: 186
Period size: 44 Copynumber: 3.9 Consensus size: 44
9268489 TGCCAAAATG
* * * *
9268499 TATCATATTTCATATAAGTGCATATCTTATAACATATCATAGCA
1 TATCAAATTTCATATAAGAGCATATCTTATAACATAACATAACA
** *
9268543 TATCAAATTTCATATCGGAGCATATCTTATAACATATCATAACA
1 TATCAAATTTCATATAAGAGCATATCTTATAACATAACATAACA
* * * *
9268587 TATCAAATATCATAT-CGAAGCATATCTTATAACATAACTTATCA
1 TATCAAATTTCATATAAG-AGCATATCTTATAACATAACATAACA
* * ** *
9268631 TGTCAGATTTCATATTGGACCATATCTTATAACATAACATA
1 TATCAAATTTCATATAAGAGCATATCTTATAACATAACATA
9268672 TCCTACCCTC
Statistics
Matches: 111, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
43 1 0.01
44 109 0.98
45 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (44 bp):
TATCAAATTTCATATAAGAGCATATCTTATAACATAACATAACA
Found at i:9268580 original size:12 final size:12
Alignment explanation
Indices: 9268563--9268628 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
9268553 CATATCGGAG
9268563 CATATCTTATAA
1 CATATCTTATAA
9268575 CATATC--ATAA
1 CATATCTTATAA
** *
9268585 CATATCAAATAT
1 CATATCTTATAA
* *
9268597 CATATC-GA-AG
1 CATATCTTATAA
9268607 CATATCTTATAA
1 CATATCTTATAA
*
9268619 CATAACTTAT
1 CATATCTTAT
9268629 CATGTCAGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
10 17 0.39
11 2 0.05
12 25 0.57
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.35
Consensus pattern (12 bp):
CATATCTTATAA
Found at i:9268622 original size:22 final size:22
Alignment explanation
Indices: 9268518--9268622 Score: 104
Period size: 22 Copynumber: 4.8 Consensus size: 22
9268508 TCATATAAGT
9268518 GCATATCTTATAACATATCATA
1 GCATATCTTATAACATATCATA
** ** **
9268540 GCATATCAAATTTCATATCGGA
1 GCATATCTTATAACATATCATA
9268562 GCATATCTTATAACATATCATA
1 GCATATCTTATAACATATCATA
* ** *
9268584 ACATATCAAATATCATATCGA-A
1 GCATATCTTATAACATATC-ATA
9268606 GCATATCTTATAACATA
1 GCATATCTTATAACATA
9268623 ACTTATCATG
Statistics
Matches: 62, Mismatches: 20, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
22 61 0.98
23 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (22 bp):
GCATATCTTATAACATATCATA
Found at i:9271703 original size:6 final size:6
Alignment explanation
Indices: 9271692--9271717 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9271682 GATAGTTAGA
9271692 ACATGG ACATGG ACATGG ACATGG AC
1 ACATGG ACATGG ACATGG ACATGG AC
9271718 GGTTGGACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.19, G:0.31, T:0.15
Consensus pattern (6 bp):
ACATGG
Found at i:9278803 original size:22 final size:22
Alignment explanation
Indices: 9278778--9278847 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
9278768 TGTCAGAATG
*
9278778 TATCATATTTCATATCGGAGCA
1 TATCATATTTCATATCAGAGCA
* ** * * *
9278800 TATCTTATAACATAGCATATCA
1 TATCATATTTCATATCAGAGCA
9278822 TATCATATTTCATATCAGAGCA
1 TATCATATTTCATATCAGAGCA
9278844 TATC
1 TATC
9278848 TTATAACATA
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.37
Consensus pattern (22 bp):
TATCATATTTCATATCAGAGCA
Found at i:9278826 original size:44 final size:44
Alignment explanation
Indices: 9278778--9278908 Score: 199
Period size: 44 Copynumber: 3.0 Consensus size: 44
9278768 TGTCAGAATG
*
9278778 TATCATATTTCATATCGGAGCATATCTTATAACATAGCATATCA
1 TATCATATTTCATATCAGAGCATATCTTATAACATAGCATATCA
*
9278822 TATCATATTTCATATCAGAGCATATCTTATAACATAACATATCA
1 TATCATATTTCATATCAGAGCATATCTTATAACATAGCATATCA
* * * * *
9278866 GATCAGATTTCATATCAAATCATATCTTATAACGTAGCATATC
1 TATCATATTTCATATCAGAGCATATCTTATAACATAGCATATC
9278909 CTACCCCCAT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 79 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (44 bp):
TATCATATTTCATATCAGAGCATATCTTATAACATAGCATATCA
Found at i:9278857 original size:22 final size:22
Alignment explanation
Indices: 9278788--9278857 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
9278778 TATCATATTT
*
9278788 CATATCGGAGCATATCTTATAA
1 CATATCAGAGCATATCTTATAA
* * * * **
9278810 CATAGCATATCATATCATATTT
1 CATATCAGAGCATATCTTATAA
9278832 CATATCAGAGCATATCTTATAA
1 CATATCAGAGCATATCTTATAA
9278854 CATA
1 CATA
9278858 ACATATCAGA
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.34
Consensus pattern (22 bp):
CATATCAGAGCATATCTTATAA
Found at i:9279039 original size:16 final size:16
Alignment explanation
Indices: 9279000--9279041 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
9278990 AACTTGAACA
*
9279000 ATTTCACTCG-ATTTG
1 ATTTCACTCGAATTTC
* *
9279015 ACTTGACTCGAATTTC
1 ATTTCACTCGAATTTC
9279031 ATTTCACTCGA
1 ATTTCACTCGA
9279042 CTTGATTCGA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (16 bp):
ATTTCACTCGAATTTC
Found at i:9281492 original size:22 final size:22
Alignment explanation
Indices: 9281467--9281510 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
9281457 ACAACTGAAA
9281467 CGATAAACACCTTAATCATCAT
1 CGATAAACACCTTAATCATCAT
9281489 CGATAAACACCTTAATCATCAT
1 CGATAAACACCTTAATCATCAT
9281511 GTCAACATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.27, G:0.05, T:0.27
Consensus pattern (22 bp):
CGATAAACACCTTAATCATCAT
Found at i:9285173 original size:26 final size:26
Alignment explanation
Indices: 9285115--9285174 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
9285105 AGCTCCCGCC
* * *
9285115 CTTAAAATAGATTTTTTTTTTAATTA
1 CTTAAAATAAAATTGTTTTTTAATTA
* * *
9285141 ATAAAAATAAAATTGTTTTTTAATTT
1 CTTAAAATAAAATTGTTTTTTAATTA
9285167 CTTAAAAT
1 CTTAAAAT
9285175 GATAAAAATT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (26 bp):
CTTAAAATAAAATTGTTTTTTAATTA
Found at i:9287092 original size:28 final size:29
Alignment explanation
Indices: 9287060--9287128 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 29
9287050 ATTAGTTTAT
* * * *
9287060 ATTTTATATTTT-TGAGGATTCAATTAAA
1 ATTTTATATTTTAAGAGAATTAAAATAAA
*
9287088 ATTTTATAATTTTAAGAGAATTAAAATATA
1 ATTTTAT-ATTTTAAGAGAATTAAAATAAA
9287118 ATTTTATATTT
1 ATTTTATATTT
9287129 ATTAATTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 7 0.21
29 9 0.26
30 18 0.53
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.51
Consensus pattern (29 bp):
ATTTTATATTTTAAGAGAATTAAAATAAA
Found at i:9288389 original size:21 final size:22
Alignment explanation
Indices: 9288348--9288391 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9288338 TTTAAAATAA
9288348 AAATATTGACCCACTATTGATC
1 AAATATTGACCCACTATTGATC
* *
9288370 AAATGTTGACCGAC-ATTGATC
1 AAATATTGACCCACTATTGATC
9288391 A
1 A
9288392 TCGTTGACCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (22 bp):
AAATATTGACCCACTATTGATC
Found at i:9289944 original size:31 final size:32
Alignment explanation
Indices: 9289904--9289966 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
9289894 TTTTTGAGTG
9289904 ATCAAATTAATTAAT-TTCACATTAAT-ATACT
1 ATCAAATTAATTAATATTCA-ATTAATAATACT
* *
9289935 ATCATATTAATTAATATTTAATTAATAATACT
1 ATCAAATTAATTAATATTCAATTAATAATACT
9289967 TTTATTATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (32 bp):
ATCAAATTAATTAATATTCAATTAATAATACT
Found at i:9303409 original size:13 final size:13
Alignment explanation
Indices: 9303391--9303415 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9303381 GTGCTCTTTC
9303391 TAACAAGCAATTG
1 TAACAAGCAATTG
9303404 TAACAAGCAATT
1 TAACAAGCAATT
9303416 AAGAGTGGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (13 bp):
TAACAAGCAATTG
Found at i:9309803 original size:3 final size:3
Alignment explanation
Indices: 9309795--9309855 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
9309785 ATTAAATCAA
9309795 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9309843 AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AA
9309856 GATAAACGAG
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9309953 original size:30 final size:30
Alignment explanation
Indices: 9309917--9310098 Score: 163
Period size: 30 Copynumber: 6.1 Consensus size: 30
9309907 ATTAAAACTA
**
9309917 GGTCAAATTTGAATTTTTGGAAAGTTTGCG
1 GGTCAAATTTGAATTTTTGGAAAGTTTAAG
* * * *
9309947 GGTCAAATTAGATTTTTTTGGAAAATTCAAG
1 GGTCAAATTTGA-ATTTTTGGAAAGTTTAAG
* * * **
9309978 GGTTAAATTGGAATTTTTGGAAGGTTCGA-
1 GGTCAAATTTGAATTTTTGGAAAGTTTAAG
* *
9310007 GGTCAAATTTAAATTTTTGGAAAGTTCAAG
1 GGTCAAATTTGAATTTTTGGAAAGTTTAAG
* *
9310037 GGTCAAATTTGAATGTTTGTAAAGTTT--G
1 GGTCAAATTTGAATTTTTGGAAAGTTTAAG
** *
9310065 GGATCAAATTCAAATTTTTAGAAAGTTTAAG
1 GG-TCAAATTTGAATTTTTGGAAAGTTTAAG
9310096 GGT
1 GGT
9310099 TAAAGTTAAA
Statistics
Matches: 121, Mismatches: 26, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
28 3 0.02
29 44 0.36
30 48 0.40
31 26 0.21
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.38
Consensus pattern (30 bp):
GGTCAAATTTGAATTTTTGGAAAGTTTAAG
Found at i:9310045 original size:59 final size:58
Alignment explanation
Indices: 9309917--9310098 Score: 195
Period size: 59 Copynumber: 3.1 Consensus size: 58
9309907 ATTAAAACTA
* * *
9309917 GGTCAAATTTGAATTTTTGGAAAGTTTGCGGGTCAAA-TTAGATTTTTTTGGAAAATTCAAG
1 GGTCAAATTTGAATTTTTGG-AAGGTT-CGGGTCAAATTTA-A-ATTTTTGGAAAGTTCAAG
* *
9309978 GGTTAAATTGGAATTTTTGGAAGGTTCGAGGTCAAATTTAAATTTTTGGAAAGTTCAAG
1 GGTCAAATTTGAATTTTTGGAAGGTTCG-GGTCAAATTTAAATTTTTGGAAAGTTCAAG
* * * * * * *
9310037 GGTCAAATTTGAATGTTTGTAAAGTTTGGGATCAAATTCAAATTTTTAGAAAGTTTAAG
1 GGTCAAATTTGAATTTTTGGAAGGTTCGGG-TCAAATTTAAATTTTTGGAAAGTTCAAG
9310096 GGT
1 GGT
9310099 TAAAGTTAAA
Statistics
Matches: 104, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
58 2 0.02
59 68 0.65
60 13 0.12
61 21 0.20
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.38
Consensus pattern (58 bp):
GGTCAAATTTGAATTTTTGGAAGGTTCGGGTCAAATTTAAATTTTTGGAAAGTTCAAG
Found at i:9310089 original size:29 final size:27
Alignment explanation
Indices: 9309917--9310092 Score: 84
Period size: 29 Copynumber: 6.0 Consensus size: 27
9309907 ATTAAAACTA
*
9309917 GGTCAAATTTGAATTTTTGGAAAGTTTGCG
1 GGTCAAATTTAAATTTTT-GAAAGTTT--G
* * *
9309947 GGTCAAA-TTAGATTTTTTTGGAAAATTCAAG
1 GGTCAAATTTA-A-ATTTTT-GAAAGTT--TG
* ** * *
9309978 GGTTAAATTGGAATTTTTGGAAGGTTCG
1 GGTCAAATTTAAATTTTT-GAAAGTTTG
*
9310006 AGGTCAAATTTAAATTTTTGGAAAGTTCAAG
1 -GGTCAAATTTAAATTTTT-GAAAGTT--TG
* *
9310037 GGTCAAATTTGAATGTTTGTAAAGTTTG
1 GGTCAAATTTAAATTTTTG-AAAGTTTG
*
9310065 GGATCAAATTCAAATTTTTAGAAAGTTT
1 GG-TCAAATTTAAATTTTT-GAAAGTTT
9310093 AAGGGTTAAA
Statistics
Matches: 113, Mismatches: 22, Indels: 23
0.72 0.14 0.15
Matches are distributed among these distances:
28 4 0.04
29 45 0.40
30 42 0.37
31 21 0.19
32 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (27 bp):
GGTCAAATTTAAATTTTTGAAAGTTTG
Found at i:9312094 original size:50 final size:50
Alignment explanation
Indices: 9312015--9312128 Score: 165
Period size: 50 Copynumber: 2.3 Consensus size: 50
9312005 AGATCCACCC
* *
9312015 TTGCGACTTCAATCTGCCCCTCTATAGCTTTAGGTGAATGAGATTCGCCA
1 TTGCGACTTCAATCTACCCCTCTACAGCTTTAGGTGAATGAGATTCGCCA
* * *
9312065 TTGCGACTTCAATCTATCCCTCTACAGCTTTAGGTGTATGAGATTTGCCA
1 TTGCGACTTCAATCTACCCCTCTACAGCTTTAGGTGAATGAGATTCGCCA
* *
9312115 TTGAGGCTTCAATC
1 TTGCGACTTCAATC
9312129 AGTTCCTCTA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (50 bp):
TTGCGACTTCAATCTACCCCTCTACAGCTTTAGGTGAATGAGATTCGCCA
Found at i:9312510 original size:12 final size:12
Alignment explanation
Indices: 9312493--9312524 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
9312483 TGAGAAGATA
9312493 TCAAAATATTAG
1 TCAAAATATTAG
*
9312505 TCAAAACATTAG
1 TCAAAATATTAG
9312517 TCAAAATA
1 TCAAAATA
9312525 ACAAATGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.28
Consensus pattern (12 bp):
TCAAAATATTAG
Found at i:9323537 original size:20 final size:20
Alignment explanation
Indices: 9323514--9323559 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
9323504 AAATTGAGTA
* * * *
9323514 AATAAATAACCAAATAAATG
1 AATAAAGAAACAAACAAACG
9323534 AATAAAGAAACAAACAAACG
1 AATAAAGAAACAAACAAACG
9323554 AATAAA
1 AATAAA
9323560 ATAATATACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.70, C:0.11, G:0.07, T:0.13
Consensus pattern (20 bp):
AATAAAGAAACAAACAAACG
Found at i:9323718 original size:30 final size:29
Alignment explanation
Indices: 9323682--9323893 Score: 176
Period size: 30 Copynumber: 7.1 Consensus size: 29
9323672 TTAAAACCGA
** *
9323682 GTCAAATTTGAATTTTTCAAAAGTTTATGG
1 GTCAAATTTGAATTTTTGGAAAGTTT-GGG
* * * *
9323712 GTCAAA-TTGAAATTTATAGAAAAATTTGGA
1 GTCAAATTTG-AATTT-TTGGAAAGTTTGGG
* * * *
9323742 GTCAAATTGGAATTTTTGTAAGGTTCGAGG
1 GTCAAATTTGAATTTTTGGAAAGTTTG-GG
*
9323772 GTCAAATTTGAA-TTTTGGAAAGCTTGGGG
1 GTCAAATTTGAATTTTTGGAAAG-TTTGGG
* **
9323801 GTTAAATTCAAATTTTTGGAAAGTTTGGG
1 GTCAAATTTGAATTTTTGGAAAGTTTGGG
**
9323830 TGTCAAATTCAAATTTTTGGAAAGTTTTGGG
1 -GTCAAATTTGAATTTTTGGAAAG-TTTGGG
9323861 AGTCAAATTTGAATTTTTGGAAAGTTTAGGG
1 -GTCAAATTTGAATTTTTGGAAAGTTT-GGG
9323892 GT
1 GT
9323894 TAAAGCATAA
Statistics
Matches: 149, Mismatches: 24, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
29 34 0.23
30 75 0.50
31 40 0.27
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (29 bp):
GTCAAATTTGAATTTTTGGAAAGTTTGGG
Found at i:9324896 original size:25 final size:25
Alignment explanation
Indices: 9324855--9324903 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
9324845 TATTTGGGTT
9324855 TAAAAAAAAGGATTATTTAGGCTTGG
1 TAAAAAAAA-GATTATTTAGGCTTGG
*
9324881 TAAAAAAAA-ATATATTTGGGCTT
1 TAAAAAAAAGAT-TATTTAGGCTT
9324904 TATTTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 10 0.48
26 9 0.43
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.33
Consensus pattern (25 bp):
TAAAAAAAAGATTATTTAGGCTTGG
Found at i:9325424 original size:18 final size:17
Alignment explanation
Indices: 9325377--9325425 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
9325367 ATTTACAGGT
9325377 ATAAATAATAAGAAAACA
1 ATAAATAATAA-AAAACA
* *
9325395 ATATATACATAAAATACA
1 ATAAATA-ATAAAAAACA
9325413 ATAAGATAATAAA
1 ATAA-ATAATAAA
9325426 TTGAGTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.22
Consensus pattern (17 bp):
ATAAATAATAAAAAACA
Found at i:9325449 original size:12 final size:12
Alignment explanation
Indices: 9325420--9325462 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
9325410 ACAATAAGAT
*
9325420 AATAAATTGAGTA
1 AATAAA-TGAATA
9325433 AATAAAT-AATCA
1 AATAAATGAAT-A
9325445 AATAAATGAATA
1 AATAAATGAATA
9325457 AATAAA
1 AATAAA
9325463 GAAACAAACG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 2 0.07
12 16 0.59
13 9 0.33
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (12 bp):
AATAAATGAATA
Found at i:9325475 original size:20 final size:20
Alignment explanation
Indices: 9325433--9325478 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
9325423 AAATTGAGTA
* * *
9325433 AATAAATAATCAAATAAATG
1 AATAAATAAACAAACAAACG
*
9325453 AATAAATAAAGAAACAAACG
1 AATAAATAAACAAACAAACG
9325473 AATAAA
1 AATAAA
9325479 ATAATATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.17
Consensus pattern (20 bp):
AATAAATAAACAAACAAACG
Found at i:9325694 original size:58 final size:59
Alignment explanation
Indices: 9325601--9325760 Score: 159
Period size: 58 Copynumber: 2.7 Consensus size: 59
9325591 AGTCAAATTT
* * *
9325601 GAATTTTTGGAAGTTTGAGGGTAAAATTTGAATTTTTTGAAAATTTGAGGGTC-ATT-A
1 GAATTTTTGGAAGTTCGAGGGTAAAATTTGAATTTTTGGAAAATTCGAGGGTCAATTCA
* *
9325658 GAATTTTTGGAAGGTTCG-GGGATCAAATTTGAATTTTTGGAAAGTTCGAGGGTCAAATTCA
1 GAATTTTTGGAA-GTTCGAGGG-TAAAATTTGAATTTTTGGAAAATTCGAGGGTC-AATTCA
* * **
9325719 -AATTTTTGGAAAGTTTTGA-GGTCAAATTAAAATTTTTGGAAA
1 GAATTTTTGG-AAG-TTCGAGGGTAAAATTTGAATTTTTGGAAA
9325761 GTTTTGGAGT
Statistics
Matches: 87, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
57 15 0.17
58 32 0.37
60 32 0.37
61 8 0.09
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (59 bp):
GAATTTTTGGAAGTTCGAGGGTAAAATTTGAATTTTTGGAAAATTCGAGGGTCAATTCA
Found at i:9325742 original size:88 final size:88
Alignment explanation
Indices: 9325593--9325759 Score: 230
Period size: 88 Copynumber: 1.9 Consensus size: 88
9325583 TAAAACTGAG
* ** *
9325593 TCAAATTTGAATTTTTGGAAGTTTGAGGGTAAAATTTGAATTTTTTGAAAATTTGAGGGTC-ATT
1 TCAAATTTGAATTTTTGGAAGTTCGAGGGTAAAATTCAAATTTTTGGAAAATTTGAGGGTCAATT
*
9325657 AGAATTTTTGGAAGGTTCGGGGA
66 AAAATTTTTGGAAGGTTCGGGGA
* *
9325680 TCAAATTTGAATTTTTGGAAAGTTCGAGGGTCAAATTCAAATTTTTGGAAAGTTTTGA-GGTCAA
1 TCAAATTTGAATTTTTGG-AAGTTCGAGGGTAAAATTCAAATTTTTGGAAA-ATTTGAGGGTC-A
9325744 ATTAAAATTTTTGGAA
63 ATTAAAATTTTTGGAA
9325760 AGTTTTGGAG
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
87 18 0.26
88 31 0.45
89 5 0.07
90 15 0.22
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.40
Consensus pattern (88 bp):
TCAAATTTGAATTTTTGGAAGTTCGAGGGTAAAATTCAAATTTTTGGAAAATTTGAGGGTCAATT
AAAATTTTTGGAAGGTTCGGGGA
Found at i:9325766 original size:30 final size:30
Alignment explanation
Indices: 9325592--9325764 Score: 194
Period size: 30 Copynumber: 5.9 Consensus size: 30
9325582 TTAAAACTGA
9325592 GTCAAATTTGAATTTTTGG-AAGTTTGAGG
1 GTCAAATTTGAATTTTTGGAAAGTTTGAGG
* * *
9325621 GTAAAATTTGAATTTTTTGAAAATTTGAGG
1 GTCAAATTTGAATTTTTGGAAAGTTTGAGG
* * *
9325651 GTC--ATTAGAATTTTTGGAAGGTTCG-GG
1 GTCAAATTTGAATTTTTGGAAAGTTTGAGG
*
9325678 GATCAAATTTGAATTTTTGGAAAGTTCGAGG
1 G-TCAAATTTGAATTTTTGGAAAGTTTGAGG
**
9325709 GTCAAATTCAAATTTTTGGAAAGTTTTGA-G
1 GTCAAATTTGAATTTTTGGAAAG-TTTGAGG
**
9325739 GTCAAATTAAAATTTTTGGAAAGTTT
1 GTCAAATTTGAATTTTTGGAAAGTTT
9325765 TGGAGTTAAA
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
27 3 0.02
28 19 0.15
29 20 0.16
30 74 0.60
31 7 0.06
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.40
Consensus pattern (30 bp):
GTCAAATTTGAATTTTTGGAAAGTTTGAGG
Found at i:9325783 original size:30 final size:30
Alignment explanation
Indices: 9325689--9325783 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
9325679 ATCAAATTTG
* *
9325689 AATTTTTGGAAAG-TTCGAGGGTCAAATTC-A
1 AATTTTTGGAAAGTTTTGA-GGTCAAA-GCAA
**
9325719 AATTTTTGGAAAGTTTTGAGGTCAAATTAA
1 AATTTTTGGAAAGTTTTGAGGTCAAAGCAA
* *
9325749 AATTTTTGGAAAGTTTTG-GAGTTAAAGCAT
1 AATTTTTGGAAAGTTTTGAG-GTCAAAGCAA
9325779 AATTT
1 AATTT
9325784 CGAAATAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
29 2 0.04
30 50 0.89
31 4 0.07
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (30 bp):
AATTTTTGGAAAGTTTTGAGGTCAAAGCAA
Found at i:9326512 original size:6 final size:6
Alignment explanation
Indices: 9326492--9326537 Score: 67
Period size: 6 Copynumber: 7.7 Consensus size: 6
9326482 TTGTATTTAT
*
9326492 AAAATA AATAATA AAAATA AAAATA AAAAT- AAAATA AAAACA AAAA
1 AAAATA AA-AATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
9326538 GAGAAATAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
5 5 0.14
6 26 0.70
7 6 0.16
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:9326525 original size:11 final size:11
Alignment explanation
Indices: 9326501--9326536 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
9326491 TAAAATAAAT
9326501 AATAAAAATAAA
1 AATAAAAAT-AA
9326513 AATAAAAATAA
1 AATAAAAATAA
*
9326524 AATAAAAACAA
1 AATAAAAATAA
9326535 AA
1 AA
9326537 AGAGAAATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:9326531 original size:18 final size:19
Alignment explanation
Indices: 9326492--9326531 Score: 66
Period size: 17 Copynumber: 2.2 Consensus size: 19
9326482 TTGTATTTAT
9326492 AAAATAAATAATAAAAATA
1 AAAATAAATAATAAAAATA
9326511 AAAATAAA-AAT-AAAATA
1 AAAATAAATAATAAAAATA
9326528 AAAA
1 AAAA
9326532 CAAAAAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 10 0.48
18 3 0.14
19 8 0.38
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (19 bp):
AAAATAAATAATAAAAATA
Found at i:9326544 original size:23 final size:23
Alignment explanation
Indices: 9326492--9326545 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
9326482 TTGTATTTAT
* *
9326492 AAAATAAATAATAAAAATAAAAATA
1 AAAAT-AA-AATAAAAACAAAAAGA
9326517 AAAATAAAATAAAAACAAAAAGA
1 AAAATAAAATAAAAACAAAAAGA
*
9326540 GAAATA
1 AAAATA
9326546 GTGTACTGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 19 0.73
24 2 0.08
25 5 0.19
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.15
Consensus pattern (23 bp):
AAAATAAAATAAAAACAAAAAGA
Found at i:9332954 original size:27 final size:27
Alignment explanation
Indices: 9332916--9333007 Score: 103
Period size: 27 Copynumber: 3.4 Consensus size: 27
9332906 GTGTGATTTT
* * *
9332916 CCATGATTATTGACCTGGCAGACTACC
1 CCATGTTTATTGTCCTGGCGGACTACC
* * * * *
9332943 CCATTTTTATTGTCCTAGTGGATTATC
1 CCATGTTTATTGTCCTGGCGGACTACC
9332970 CCATGTTTATTGTCCTGGCGGACTACC
1 CCATGTTTATTGTCCTGGCGGACTACC
*
9332997 CTATGTTTATT
1 CCATGTTTATT
9333008 TTCTCGACGG
Statistics
Matches: 51, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (27 bp):
CCATGTTTATTGTCCTGGCGGACTACC
Found at i:9333110 original size:67 final size:67
Alignment explanation
Indices: 9333031--9333270 Score: 293
Period size: 67 Copynumber: 3.6 Consensus size: 67
9333021 ATACAAATGA
* * * * *
9333031 TGCCATAGTCGAGCTATGGT-TATACACATCATACCCCATTTTTAATGTCTTGGCGAACTCTATA
1 TGCCATAGTCGAGCTATGGTCT-TACACATTATTCCCCATGTTTAATGTCCTGGCGAACTCTCTA
9333095 TGT
65 TGT
* * * *
9333098 TGCCATAGTCGAGCTATGGTCTTACACATTATTCTCCATGTTTAATGTCCTAGCGGACTCTCCAT
1 TGCCATAGTCGAGCTATGGTCTTACACATTATTCCCCATGTTTAATGTCCTGGCGAACTCTCTAT
9333163 GT
66 GT
* * * * * * *
9333165 TGTCATAGCCGAGCTACGATCTTACATATTATTCCACATGTTTAATGTCCTGGTGAACTCTCTAT
1 TGCCATAGTCGAGCTATGGTCTTACACATTATTCCCCATGTTTAATGTCCTGGCGAACTCTCTAT
9333230 GT
66 GT
* * *
9333232 TGCCATAGTTGAGCTATGGTCTTATAGATTATTCCCCAT
1 TGCCATAGTCGAGCTATGGTCTTACACATTATTCCCCAT
9333271 TACAGCCATC
Statistics
Matches: 144, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
67 143 0.99
68 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (67 bp):
TGCCATAGTCGAGCTATGGTCTTACACATTATTCCCCATGTTTAATGTCCTGGCGAACTCTCTAT
GT
Found at i:9335311 original size:63 final size:62
Alignment explanation
Indices: 9335213--9335336 Score: 221
Period size: 63 Copynumber: 2.0 Consensus size: 62
9335203 CGCTTCCACA
*
9335213 TGGAAGCGGTTTCTGAAATTTCCCCTAAAAACATCTCAACGTAGGCATGTTTTTGCAAAATG
1 TGGAAGCGGTTTCTGAAATTCCCCCTAAAAACATCTCAACGTAGGCATGTTTTTGCAAAATG
*
9335275 TGGAAGTGGTTTTCTGAAATTCCCCCTAAAAACATCTCAACGTAGGCATGTTTTTGCAAAAT
1 TGGAAGCGG-TTTCTGAAATTCCCCCTAAAAACATCTCAACGTAGGCATGTTTTTGCAAAAT
9335337 TGGCCTATTC
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
62 8 0.14
63 51 0.86
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (62 bp):
TGGAAGCGGTTTCTGAAATTCCCCCTAAAAACATCTCAACGTAGGCATGTTTTTGCAAAATG
Found at i:9338198 original size:20 final size:20
Alignment explanation
Indices: 9338170--9338304 Score: 71
Period size: 20 Copynumber: 6.7 Consensus size: 20
9338160 TGTTTCACTT
* *
9338170 GATTCAAATTTGCTACAATC
1 GATTTAAATTTGTTACAATC
9338190 GATTTAAATCTAT-TTA-AATC
1 GATTTAAAT-T-TGTTACAATC
* *
9338210 GATTTAAATTAGTTGCAATC
1 GATTTAAATTTGTTACAATC
* * **
9338230 AATTCAAAATCAGTTACAATC
1 GATT-TAAATTTGTTACAATC
* * *
9338251 -ATTTTAAATCT-ATATCAATT
1 GA-TTTAAATTTGTTA-CAATC
* * *
9338271 AATTTAAATCTGCTACAATC
1 GATTTAAATTTGTTACAATC
9338291 GATTTAAATTTGTT
1 GATTTAAATTTGTT
9338305 TCATCTTTAT
Statistics
Matches: 89, Mismatches: 17, Indels: 18
0.72 0.14 0.15
Matches are distributed among these distances:
19 5 0.06
20 62 0.70
21 21 0.24
22 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (20 bp):
GATTTAAATTTGTTACAATC
Found at i:9338204 original size:10 final size:10
Alignment explanation
Indices: 9338186--9338218 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
9338176 AATTTGCTAC
9338186 AATCGATTTA
1 AATCGATTTA
*
9338196 AATCTATTTA
1 AATCGATTTA
9338206 AATCGATTTA
1 AATCGATTTA
9338216 AAT
1 AAT
9338219 TAGTTGCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (10 bp):
AATCGATTTA
Found at i:9342647 original size:21 final size:24
Alignment explanation
Indices: 9342623--9342673 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
9342613 TTATGACTCA
*
9342623 CTCCAT-CTCTC-C-TCTTTATTT
1 CTCCATGCTCTCACATCCTTATTT
9342644 CTCC-TGCTCTCACATTCCTTATTT
1 CTCCATGCTCTCACA-TCCTTATTT
9342668 CTCCAT
1 CTCCAT
9342674 TTTGGTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
21 9 0.38
22 1 0.04
24 12 0.50
25 1 0.04
ACGTcount: A:0.12, C:0.39, G:0.02, T:0.47
Consensus pattern (24 bp):
CTCCATGCTCTCACATCCTTATTT
Found at i:9348155 original size:15 final size:15
Alignment explanation
Indices: 9348137--9348168 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9348127 ATAATACCTG
*
9348137 TCTTCATAGATATCA
1 TCTTCAAAGATATCA
9348152 TCTTCAAAGATATCA
1 TCTTCAAAGATATCA
9348167 TC
1 TC
9348169 ATAAATGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (15 bp):
TCTTCAAAGATATCA
Found at i:9353679 original size:25 final size:27
Alignment explanation
Indices: 9353641--9353690 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
9353631 AAGCTGAAAA
9353641 AGAGAGTTGAAAGTGA-AAA-AAAATC
1 AGAGAGTTGAAAGTGAGAAACAAAATC
* *
9353666 AGAGTGTTGTAAGTGAGAAACAAAA
1 AGAGAGTTGAAAGTGAGAAACAAAA
9353691 CTAGCAGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
26 3 0.14
27 4 0.19
ACGTcount: A:0.52, C:0.04, G:0.26, T:0.18
Consensus pattern (27 bp):
AGAGAGTTGAAAGTGAGAAACAAAATC
Found at i:9358320 original size:19 final size:19
Alignment explanation
Indices: 9358296--9358339 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
9358286 GGAGTAATAA
*
9358296 TGGCTCGTAAGAGC-ATTAC
1 TGGCTCGCAAGAGCGA-TAC
9358315 TGGCTCGCAAGAGCGATAC
1 TGGCTCGCAAGAGCGATAC
9358334 TGGCTC
1 TGGCTC
9358340 ATGGGAGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.23
Consensus pattern (19 bp):
TGGCTCGCAAGAGCGATAC
Found at i:9365272 original size:19 final size:19
Alignment explanation
Indices: 9365240--9365331 Score: 114
Period size: 19 Copynumber: 4.8 Consensus size: 19
9365230 AAAAGGAATT
* *
9365240 AGCAATACTAGCTCGTAAG
1 AGCATTACTGGCTCGTAAG
*
9365259 AGTATTACTGGCTCGTAAG
1 AGCATTACTGGCTCGTAAG
*
9365278 AGCAATACTGGCTCGTAAG
1 AGCATTACTGGCTCGTAAG
*
9365297 AGCATTACTGGCTCGCAAG
1 AGCATTACTGGCTCGTAAG
*
9365316 AGCGA-TACTAGCTCGT
1 AGC-ATTACTGGCTCGT
9365332 GGGTGCAACT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
19 62 0.98
20 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (19 bp):
AGCATTACTGGCTCGTAAG
Found at i:9365292 original size:38 final size:38
Alignment explanation
Indices: 9365240--9365331 Score: 148
Period size: 38 Copynumber: 2.4 Consensus size: 38
9365230 AAAAGGAATT
* *
9365240 AGCAATACTAGCTCGTAAGAGTATTACTGGCTCGTAAG
1 AGCAATACTAGCTCGTAAGAGCATTACTGGCTCGCAAG
*
9365278 AGCAATACTGGCTCGTAAGAGCATTACTGGCTCGCAAG
1 AGCAATACTAGCTCGTAAGAGCATTACTGGCTCGCAAG
*
9365316 AGCGATACTAGCTCGT
1 AGCAATACTAGCTCGT
9365332 GGGTGCAACT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (38 bp):
AGCAATACTAGCTCGTAAGAGCATTACTGGCTCGCAAG
Found at i:9369429 original size:16 final size:16
Alignment explanation
Indices: 9369408--9369442 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
9369398 GGGGATAGTT
9369408 CCTCGCCAAGTGCTTG
1 CCTCGCCAAGTGCTTG
9369424 CCTCGCCAAGTGCTTG
1 CCTCGCCAAGTGCTTG
9369440 CCT
1 CCT
9369443 ACACAAGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.40, G:0.23, T:0.26
Consensus pattern (16 bp):
CCTCGCCAAGTGCTTG
Found at i:9369449 original size:16 final size:16
Alignment explanation
Indices: 9369408--9369451 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
9369398 GGGGATAGTT
*
9369408 CCTCGCCAAGTGCTTG
1 CCTCGACAAGTGCTTG
*
9369424 CCTCGCCAAGTGCTTG
1 CCTCGACAAGTGCTTG
9369440 CCTAC-ACAAGTG
1 CCT-CGACAAGTG
9369452 TAGCACTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 25 0.96
17 1 0.04
ACGTcount: A:0.18, C:0.36, G:0.23, T:0.23
Consensus pattern (16 bp):
CCTCGACAAGTGCTTG
Found at i:9371885 original size:104 final size:104
Alignment explanation
Indices: 9371704--9371910 Score: 315
Period size: 104 Copynumber: 2.0 Consensus size: 104
9371694 AATCAAGCAG
* * *
9371704 ATGAATAGTATTACAATACTCATTTGATACCACTCAATCAGATCACTGTTATATCTATTCAATTC
1 ATGAATAGTATTACAATACTCATTTGATACCACCCAATCAAATCACTATTATATCTATTCAATTC
* *
9371769 TATTACAATTTTATTTCATTTCTATAAAGTTATTATTTC
66 TATTACAATTTTATTTCATTTCCATAAAATTATTATTTC
* * * * *
9371808 ATGAATATTATTACAATACTCATTTGATTCCACCCAATCAAATCACTATTATGTTTATTCAATTT
1 ATGAATAGTATTACAATACTCATTTGATACCACCCAATCAAATCACTATTATATCTATTCAATTC
*
9371873 TATTACAGTTTTATTTCATTTCCATAAAATTATTATTT
66 TATTACAATTTTATTTCATTTCCATAAAATTATTATTT
9371911 TATTACAATT
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
104 92 1.00
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (104 bp):
ATGAATAGTATTACAATACTCATTTGATACCACCCAATCAAATCACTATTATATCTATTCAATTC
TATTACAATTTTATTTCATTTCCATAAAATTATTATTTC
Found at i:9377882 original size:12 final size:13
Alignment explanation
Indices: 9377865--9377893 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
9377855 AAAGGAAGAG
9377865 AAGAAGAAA-TAA
1 AAGAAGAAACTAA
9377877 AAGAAGAAACTAA
1 AAGAAGAAACTAA
9377890 AAGA
1 AAGA
9377894 TAAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.72, C:0.03, G:0.17, T:0.07
Consensus pattern (13 bp):
AAGAAGAAACTAA
Found at i:9381484 original size:42 final size:42
Alignment explanation
Indices: 9381420--9381558 Score: 154
Period size: 47 Copynumber: 3.2 Consensus size: 42
9381410 ATCTTATTTA
*
9381420 TTATATTTTTTTCGTTTAGATCTTGTGTTTTACATATATATAT
1 TTATATTTTTTT-GTTTAGATCTTGTGTTTTACATAAATATAT
* * *
9381463 TTATATTTTTTTGTTCAGATCTGGTGTTTTACATAAAAAAAAATAT
1 TTATATTTTTTTGTTTAGATCTTGTGTTTTACAT----AAATATAT
* * *
9381509 ATTATATTTTTTTATTTAGATATTGTGTTTTACACAAATAT-T
1 -TTATATTTTTTTGTTTAGATCTTGTGTTTTACATAAATATAT
9381551 TTATATTT
1 TTATATTT
9381559 ATGTTATTTC
Statistics
Matches: 81, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
41 8 0.10
42 21 0.26
43 17 0.21
46 6 0.07
47 29 0.36
ACGTcount: A:0.29, C:0.06, G:0.09, T:0.56
Consensus pattern (42 bp):
TTATATTTTTTTGTTTAGATCTTGTGTTTTACATAAATATAT
Found at i:9381846 original size:77 final size:77
Alignment explanation
Indices: 9381679--9382424 Score: 898
Period size: 77 Copynumber: 9.7 Consensus size: 77
9381669 ATTAACATTG
* * * * *
9381679 AATAATTACT-TTTCGAGATTTATTCCT-CCTGTTCAACAGAATTTA-TTCGATTTTATTTTTTC
1 AATAATT-CTGTTTCAAGATTTATTCCTATC-ATTCAACAGAATTGATTTTGATTTTA---TTTC
9381741 C-AACAAGAATTAATTA
61 CAAACAAGAATTAATTA
* * * * *
9381757 AATAATTATATTTTAAGATTTATTCCTGTCATTCAACAGAATTGATTTTGATTTTGTTTCCAAAC
1 AATAATTCTGTTTCAAGATTTATTCCTATCATTCAACAGAATTGATTTTGATTTTATTTCCAAAC
*
9381822 AAGTATTAATTA
66 AAGAATTAATTA
* * * * ** * *
9381834 AATAATTCTATTTCAAAATTTATTCTTTTTGTTCAACAAAATTGATTTTGATTTTATTTCCAAAT
1 AATAATTCTGTTTCAAGATTTATTCCTATCATTCAACAGAATTGATTTTGATTTTATTTCCAAAC
9381899 AAGAATTAATTA
66 AAGAATTAATTA
* * * ** * *
9381911 AATAATTCTGCTTCAGGATTTATTCATGCCATTCAACAGAATTGATTTTGGTTTTGTTTCCAAAC
1 AATAATTCTGTTTCAAGATTTATTCCTATCATTCAACAGAATTGATTTTGATTTTATTTCCAAAC
*
9381976 AAGTATTAATTA
66 AAGAATTAATTA
* * *
9381988 AATAATTCTGTTTCAGGATTTATTCCTA-CTATTCAACAGAATTGATTTTAATTTTATTTCTAAA
1 AATAATTCTGTTTCAAGATTTATTCCTATC-ATTCAACAGAATTGATTTTGATTTTATTTCCAAA
9382052 CAAGAATTAATTA
65 CAAGAATTAATTA
* * *
9382065 AATAATTCTGCTTCAAGATTTATTCCTACCATTCAACAAAATTGATTTTGATTTTATTTCCAAAC
1 AATAATTCTGTTTCAAGATTTATTCCTATCATTCAACAGAATTGATTTTGATTTTATTTCCAAAC
9382130 AAGAATTAATTA
66 AAGAATTAATTA
* * * *
9382142 AATAATTCTGTTTTAAGATTTATTCCTATCGTTCAACAG-A--GATTTTGATTTTGTTTCTAAAC
1 AATAATTCTGTTTCAAGATTTATTCCTATCATTCAACAGAATTGATTTTGATTTTATTTCCAAAC
*
9382204 AAGTATTAATTA
66 AAGAATTAATTA
* * * ** * * *
9382216 AATAATTATGTTTCAAGATTTATTCATGTTGTTCAATATAATTGATTTTGATTTTATTTCCAAAT
1 AATAATTCTGTTTCAAGATTTATTCCTATCATTCAACAGAATTGATTTTGATTTTATTTCCAAAC
9382281 AAGAATTAATTA
66 AAGAATTAATTA
* * * *
9382293 AATAATTCTGTTTCAGGATTTATTCTTACCATTCAACATAATTGATTTTGATTTTATTTCCAAAC
1 AATAATTCTGTTTCAAGATTTATTCCTATCATTCAACAGAATTGATTTTGATTTTATTTCCAAAC
9382358 AAGAATTAATTA
66 AAGAATTAATTA
* *
9382370 TATAATTCTGTTTCAAGATTTATTCTTAAT-ATTCAACAGAATTGATTTTGATTTT
1 AATAATTCTGTTTCAAGATTTATTCCT-ATCATTCAACAGAATTGATTTTGATTTT
9382425 GTTTTAGAAT
Statistics
Matches: 579, Mismatches: 79, Indels: 21
0.85 0.12 0.03
Matches are distributed among these distances:
74 63 0.11
75 1 0.00
76 7 0.01
77 462 0.80
78 37 0.06
79 9 0.02
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.45
Consensus pattern (77 bp):
AATAATTCTGTTTCAAGATTTATTCCTATCATTCAACAGAATTGATTTTGATTTTATTTCCAAAC
AAGAATTAATTA
Found at i:9388893 original size:20 final size:20
Alignment explanation
Indices: 9388855--9388893 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9388845 CCATAATTAG
*
9388855 TCTTAATTAATCATTTTTAA
1 TCTTAATTAATCATATTTAA
9388875 TCTTAATTAAAT-ATATTTA
1 TCTTAATT-AATCATATTTA
9388894 CACTTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (20 bp):
TCTTAATTAATCATATTTAA
Found at i:9407544 original size:20 final size:20
Alignment explanation
Indices: 9407506--9407544 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9407496 CCATCATTAG
*
9407506 TCTTAATTAATCATTTTTAA
1 TCTTAATTAATCATATTTAA
9407526 TCTTAATTAAAT-ATATTTA
1 TCTTAATT-AATCATATTTA
9407545 CACATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (20 bp):
TCTTAATTAATCATATTTAA
Found at i:9408836 original size:21 final size:20
Alignment explanation
Indices: 9408798--9408836 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
9408788 CTGAGGTAGT
*
9408798 ACTTTAATTGTTGGCCATTC
1 ACTTTAATTGGTGGCCATTC
*
9408818 ACTTTAAATTGGTGTCCAT
1 ACTTT-AATTGGTGGCCAT
9408837 CTTGTAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.44
Consensus pattern (20 bp):
ACTTTAATTGGTGGCCATTC
Found at i:9418859 original size:59 final size:58
Alignment explanation
Indices: 9418643--9418852 Score: 208
Period size: 54 Copynumber: 3.8 Consensus size: 58
9418633 TCAAATCTTG
* ** * * * *
9418643 TTTATTTATATTGTTTCATTCAAATATTGTGATTTACATAAATATATATAAAAATATA
1 TTTATTTATATAGTTTTGTTCAAATCTTGTGTTTTACATAAATATATATATATATATA
* **
9418701 TTTA--TAT-TA-TTTTTTTCAAATCAGGTGTTTTACATAAATATATATATATAT-T-
1 TTTATTTATATAGTTTTGTTCAAATCTTGTGTTTTACATAAATATATATATATATATA
* *
9418753 TTTA--TAT-T-TTTTTGTTCAGAT-TTGGTGTTTTACAATAAATATATATATATATATA
1 TTTATTTATATAGTTTTGTTCAAATCTT-GTGTTTTAC-ATAAATATATATATATATATA
*
9418808 TTTATTTATATAGTTTTGTTCAGATCTTGTGTTTTACATAAATAT
1 TTTATTTATATAGTTTTGTTCAAATCTTGTGTTTTACATAAATAT
9418853 TTTATATTTA
Statistics
Matches: 128, Mismatches: 14, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
52 27 0.21
53 19 0.15
54 35 0.27
55 5 0.04
56 3 0.02
57 3 0.02
58 13 0.10
59 21 0.16
60 2 0.02
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (58 bp):
TTTATTTATATAGTTTTGTTCAAATCTTGTGTTTTACATAAATATATATATATATATA
Found at i:9423239 original size:29 final size:29
Alignment explanation
Indices: 9423179--9423241 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
9423169 AAAATAACAT
*
9423179 CACACAACAATCATATAACATAGACAGAA
1 CACACAACAATCATATAACACAGACAGAA
* * *
9423208 CACACAACAA-CATCTAGCACAGATAGAGA
1 CACACAACAATCATATAACACAGACAGA-A
9423237 CACAC
1 CACAC
9423242 CTCAAATTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 13 0.45
29 16 0.55
ACGTcount: A:0.51, C:0.29, G:0.10, T:0.11
Consensus pattern (29 bp):
CACACAACAATCATATAACACAGACAGAA
Found at i:9427462 original size:22 final size:22
Alignment explanation
Indices: 9427437--9427480 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9427427 GGGTTTTAAA
*
9427437 GGTTGGGCTCACA-TGGGCTATT
1 GGTTGGGCTAACATTGGG-TATT
*
9427459 GGTTTGGCTAACATTGGGTATT
1 GGTTGGGCTAACATTGGGTATT
9427481 TGAGGTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.16, C:0.14, G:0.34, T:0.36
Consensus pattern (22 bp):
GGTTGGGCTAACATTGGGTATT
Found at i:9430681 original size:46 final size:46
Alignment explanation
Indices: 9430614--9430706 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
9430604 TTGGTATTAG
* *
9430614 ATGAGATCTTTATTCTTGATTTACTCTTGGTCACTAAATATACCAA
1 ATGAGATCTTTATTCCTGATTTACTCATGGTCACTAAATATACCAA
*
9430660 ATGAGATGTTTATTCCTGATTTACTCATGGTCACTAAATATACCAA
1 ATGAGATCTTTATTCCTGATTTACTCATGGTCACTAAATATACCAA
9430706 A
1 A
9430707 GTCTTGCATT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (46 bp):
ATGAGATCTTTATTCCTGATTTACTCATGGTCACTAAATATACCAA
Found at i:9431242 original size:44 final size:45
Alignment explanation
Indices: 9431106--9431292 Score: 227
Period size: 45 Copynumber: 4.1 Consensus size: 45
9431096 GTCATTTGTC
* * *
9431106 TTGAAGCAACCATCCAATCTCTTACCCCTAATCTGGAGGGGCGGA
1 TTGAAGCAACCATCCAATCTTTTACCCCTAATCTAGAGGGGCAGA
** * **
9431151 TTGAAGTGACCATCCAATCTTTTACCCTTAATCTAGAATGGCAGA
1 TTGAAGCAACCATCCAATCTTTTACCCCTAATCTAGAGGGGCAGA
9431196 TTGAAGCAACCATCCAATCTTTT-CCCCTAATCTAGAGGGGCAGA
1 TTGAAGCAACCATCCAATCTTTTACCCCTAATCTAGAGGGGCAGA
* *
9431240 TTGAAGTC-ACCAAATCCAATCTTTTATCCCTAAATCCAG-GGGGCAGA
1 TTGAAG-CAACC--ATCCAATCTTTTACCCCT-AATCTAGAGGGGCAGA
9431287 TTGAAG
1 TTGAAG
9431293 TTACAACACC
Statistics
Matches: 122, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
44 27 0.22
45 59 0.48
46 12 0.10
47 18 0.15
48 6 0.05
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (45 bp):
TTGAAGCAACCATCCAATCTTTTACCCCTAATCTAGAGGGGCAGA
Found at i:9432115 original size:15 final size:15
Alignment explanation
Indices: 9432103--9432144 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
9432093 AGCATTTTAT
9432103 TTTTTTATTTTTTTG
1 TTTTTTATTTTTTTG
*
9432118 TTTATTTATTTTGTTG
1 TTT-TTTATTTTTTTG
*
9432134 TTATTTATTTT
1 TTTTTTATTTT
9432145 AATGTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.81
Consensus pattern (15 bp):
TTTTTTATTTTTTTG
Found at i:9432116 original size:16 final size:16
Alignment explanation
Indices: 9432097--9432144 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
9432087 TATTTTAGCA
*
9432097 TTTTATTTTTTTATTT
1 TTTTATTTATTTATTT
*
9432113 TTTTGTTTATTTATTT
1 TTTTATTTATTTATTT
* *
9432129 TGTT-GTTATTTATTT
1 TTTTATTTATTTATTT
9432144 T
1 T
9432145 AATGTCATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 11 0.39
16 17 0.61
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.81
Consensus pattern (16 bp):
TTTTATTTATTTATTT
Found at i:9432314 original size:12 final size:11
Alignment explanation
Indices: 9432286--9432313 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
9432276 TATATGTTAC
9432286 ATTTTTATGCT
1 ATTTTTATGCT
9432297 ATTTTTATGCT
1 ATTTTTATGCT
9432308 ATTTTT
1 ATTTTT
9432314 TCTTTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.68
Consensus pattern (11 bp):
ATTTTTATGCT
Found at i:9432469 original size:15 final size:15
Alignment explanation
Indices: 9432410--9432460 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
9432400 TATGATCCTA
*
9432410 TTATTAATTATTAACAT
1 TTATT-ATTATTTA-AT
*
9432427 TTAATTTTTATTTAAT
1 TT-ATTATTATTTAAT
9432443 TTATTATTATTT-AT
1 TTATTATTATTTAAT
9432457 TTAT
1 TTAT
9432461 GTGTTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 6 0.20
15 9 0.30
16 4 0.13
17 8 0.27
18 3 0.10
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATTATTATTTAAT
Found at i:9433271 original size:21 final size:21
Alignment explanation
Indices: 9433245--9433290 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
9433235 ACAGCCTAAG
9433245 CACACGGGTATGT-GATGTAGC
1 CACACGGGTATGTGGA-GTAGC
* *
9433266 CACACGTGTGTGTGGAGTAGC
1 CACACGGGTATGTGGAGTAGC
9433287 CACA
1 CACA
9433291 TGACCATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.22
Consensus pattern (21 bp):
CACACGGGTATGTGGAGTAGC
Found at i:9446113 original size:12 final size:12
Alignment explanation
Indices: 9446096--9446141 Score: 56
Period size: 13 Copynumber: 3.6 Consensus size: 12
9446086 TCAGTCACTT
*
9446096 GAAAAAAAATGA
1 GAAAAAAAAAGA
9446108 GAAAAAGAAAAGA
1 GAAAAA-AAAAGA
9446121 GAAAAGAAAAAGAA
1 GAAAA-AAAAAG-A
9446135 GAAAAAA
1 GAAAAAA
9446142 TTATATTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 6 0.20
13 17 0.57
14 7 0.23
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (12 bp):
GAAAAAAAAAGA
Found at i:9447692 original size:13 final size:14
Alignment explanation
Indices: 9447663--9447692 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9447653 TTCAGTACAT
9447663 TGACATTTAACCTC
1 TGACATTTAACCTC
9447677 TGACATTTAA-CTC
1 TGACATTTAACCTC
9447690 TGA
1 TGA
9447693 TTGTGTTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (14 bp):
TGACATTTAACCTC
Found at i:9449555 original size:6 final size:6
Alignment explanation
Indices: 9449544--9449580 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
9449534 AAATTTATTG
9449544 AGAAAA AGAAAA AGAAAA CAGAAAA AGAGAAA AGAAA
1 AGAAAA AGAAAA AGAAAA -AGAAAA AGA-AAA AGAAA
9449581 GAGGGCAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 17 0.59
7 12 0.41
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:9449568 original size:13 final size:12
Alignment explanation
Indices: 9449544--9449580 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 12
9449534 AAATTTATTG
9449544 AGAAAAAGAAAA
1 AGAAAAAGAAAA
9449556 AGAAAACAGAAAA
1 AGAAAA-AGAAAA
9449569 AGAGAAAAGAAA
1 AGA-AAAAGAAA
9449581 GAGGGCAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.26
13 14 0.61
14 3 0.13
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAAAA
Found at i:9451191 original size:16 final size:16
Alignment explanation
Indices: 9451170--9451200 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9451160 ACAAAGTGCT
9451170 AAACAGAAGCACACAC
1 AAACAGAAGCACACAC
9451186 AAACAGAAGCACACA
1 AAACAGAAGCACACA
9451201 AAGTGCTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.29, G:0.13, T:0.00
Consensus pattern (16 bp):
AAACAGAAGCACACAC
Found at i:9451350 original size:24 final size:26
Alignment explanation
Indices: 9451304--9451351 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
9451294 TCTACATGGG
9451304 CATAATCTCACATATTCATCATTTCT
1 CATAATCTCACATATTCATCATTTCT
* *
9451330 CATAATTTCATATA-TCA-CATTT
1 CATAATCTCACATATTCATCATTT
9451352 ACATTTCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 3 0.15
26 12 0.60
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (26 bp):
CATAATCTCACATATTCATCATTTCT
Found at i:9457975 original size:12 final size:12
Alignment explanation
Indices: 9457958--9457990 Score: 59
Period size: 11 Copynumber: 2.8 Consensus size: 12
9457948 CACAAACATG
9457958 CTCGTTTATTGA
1 CTCGTTTATTGA
9457970 CTCGTTTA-TGA
1 CTCGTTTATTGA
9457981 CTCGTTTATT
1 CTCGTTTATT
9457991 TATTAAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.52
Consensus pattern (12 bp):
CTCGTTTATTGA
Found at i:9458108 original size:23 final size:23
Alignment explanation
Indices: 9458081--9458161 Score: 94
Period size: 23 Copynumber: 3.5 Consensus size: 23
9458071 AACACTGTTT
9458081 ATGAACATGTTCGATTAAGTTAA
1 ATGAACATGTTCGATTAAGTTAA
**
9458104 ATGAACATGTTC-ATTTAA-TGTCC
1 ATGAACATGTTCGA-TTAAGT-TAA
*
9458127 ATGAACATATTCGATTAAGTTAA
1 ATGAACATGTTCGATTAAGTTAA
*
9458150 ATGGACATGTTC
1 ATGAACATGTTC
9458162 ATGAACATTA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
22 2 0.04
23 43 0.91
24 2 0.04
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (23 bp):
ATGAACATGTTCGATTAAGTTAA
Found at i:9458182 original size:15 final size:16
Alignment explanation
Indices: 9458162--9458194 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9458152 GGACATGTTC
*
9458162 ATGAACATTAA-ACAA
1 ATGAACATGAACACAA
9458177 ATGAACATGAACACAA
1 ATGAACATGAACACAA
9458193 AT
1 AT
9458195 AATTTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.58, C:0.15, G:0.09, T:0.18
Consensus pattern (16 bp):
ATGAACATGAACACAA
Found at i:9459777 original size:134 final size:134
Alignment explanation
Indices: 9459495--9459759 Score: 311
Period size: 134 Copynumber: 2.0 Consensus size: 134
9459485 ATTTATAAAG
* * * *** * *
9459495 CTAATCTTCAATTTTAATTGGTATATAACTCTAATATTGATTATGTGATTTAAGATACATAGAAT
1 CTAAACTTAAATTTTAATTGGTATATAACACTAATAAAAATTAAGTGATTTAAGATACATAAAAT
* * * * * **
9459560 TTTATTCAAGTAATAACATTATTTTACATCAATAAAATTAGGGCAATTTAAAAAAAATTAATACA
66 TCTATTCAACTAATAAAACTATTTTACATCAAAAAAATTAGCACAATTTAAAAAAAATTAATACA
9459625 AATA
131 AATA
* *
9459629 CTAAACTTAAATTTTAATTGGTATATAACACTAATAAAAATTAAGTGATAATTAAGATGCTTAAA
1 CTAAACTTAAATTTTAATTGGTATATAACACTAATAAAAATTAAGTGAT--TTAAGATACATAAA
* *
9459694 ATTCTATTCCACTAATAAAACTATTTTACAT-AAAAAAATTTAGCACAA-TTAAAAATAA-TAAT
64 ATTCTATTCAACTAATAAAACTATTTTACATCAAAAAAA-TTAGCACAATTTAAAAAAAATTAAT
9459756 ACAA
128 ACAA
9459760 TTTTAACCTT
Statistics
Matches: 109, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
134 50 0.46
135 15 0.14
136 44 0.40
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.36
Consensus pattern (134 bp):
CTAAACTTAAATTTTAATTGGTATATAACACTAATAAAAATTAAGTGATTTAAGATACATAAAAT
TCTATTCAACTAATAAAACTATTTTACATCAAAAAAATTAGCACAATTTAAAAAAAATTAATACA
AATA
Found at i:9460469 original size:21 final size:22
Alignment explanation
Indices: 9460422--9460469 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
9460412 TGTAAAATTA
*
9460422 TTAAATATTTGATTAAAATAAT
1 TTAAATATTTGATTAAAAAAAT
* *
9460444 ATAAATATTT-TTTAAAAAAAT
1 TTAAATATTTGATTAAAAAAAT
9460465 TTAAA
1 TTAAA
9460470 AATTAATATG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TTAAATATTTGATTAAAAAAAT
Found at i:9461101 original size:23 final size:23
Alignment explanation
Indices: 9461075--9461122 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
9461065 GTCACATGTA
9461075 GTTGAAATGTTAGTAAAATGTCT
1 GTTGAAATGTTAGTAAAATGTCT
9461098 GTTGAAATGTTAGTAAAATGTCT
1 GTTGAAATGTTAGTAAAATGTCT
9461121 GT
1 GT
9461123 AATGGGGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (23 bp):
GTTGAAATGTTAGTAAAATGTCT
Found at i:9461824 original size:25 final size:25
Alignment explanation
Indices: 9461786--9461899 Score: 138
Period size: 25 Copynumber: 4.6 Consensus size: 25
9461776 GTAAACTCGA
* *
9461786 GAATTCTATAGAAAGCCTTTGTGGC
1 GAATTCTCTGGAAAGCCTTTGTGGC
* *
9461811 GAATTCACTGGAAAGCCTTTGTGAC
1 GAATTCTCTGGAAAGCCTTTGTGGC
*
9461836 GAATTCTCTAGAAAGCCTTTGTGGC
1 GAATTCTCTGGAAAGCCTTTGTGGC
* * *
9461861 AAATTCTCTGAAAAGCCTTTGTGGT
1 GAATTCTCTGGAAAGCCTTTGTGGC
* *
9461886 GAATTATTTGGAAA
1 GAATTCTCTGGAAA
9461900 ATCCATAGAG
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 74 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (25 bp):
GAATTCTCTGGAAAGCCTTTGTGGC
Found at i:9461890 original size:50 final size:50
Alignment explanation
Indices: 9461786--9461883 Score: 160
Period size: 50 Copynumber: 2.0 Consensus size: 50
9461776 GTAAACTCGA
* *
9461786 GAATTCTATAGAAAGCCTTTGTGGCGAATTCACTGGAAAGCCTTTGTGAC
1 GAATTCTATAGAAAGCCTTTGTGGCAAATTCACTGAAAAGCCTTTGTGAC
* *
9461836 GAATTCTCTAGAAAGCCTTTGTGGCAAATTCTCTGAAAAGCCTTTGTG
1 GAATTCTATAGAAAGCCTTTGTGGCAAATTCACTGAAAAGCCTTTGTG
9461884 GTGAATTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (50 bp):
GAATTCTATAGAAAGCCTTTGTGGCAAATTCACTGAAAAGCCTTTGTGAC
Found at i:9465004 original size:27 final size:25
Alignment explanation
Indices: 9464957--9465011 Score: 58
Period size: 26 Copynumber: 2.1 Consensus size: 25
9464947 AGTTGATTTT
9464957 TTTCAAATCAAGTCGAGTGAAATGAAA
1 TTTCAAATCAAGTCGAGTG-AAT-AAA
* *
9464984 TTTC-AATCTAGTCGAATTGAATAAA
1 TTTCAAATCAAGTCG-AGTGAATAAA
9465009 TTT
1 TTT
9465012 GTTTGAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 6 0.24
26 12 0.48
27 7 0.28
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.35
Consensus pattern (25 bp):
TTTCAAATCAAGTCGAGTGAATAAA
Found at i:9473456 original size:433 final size:433
Alignment explanation
Indices: 9472647--9473513 Score: 1608
Period size: 433 Copynumber: 2.0 Consensus size: 433
9472637 AGAATTGCAC
*
9472647 AGAATGATTATTAATATCTTATCTCTCGTTCTGCTCAGCTAAAAATAAATCATGGTTTTCTTAAA
1 AGAATGATTATTAATATCCTATCTCTCGTTCTGCTCAGCTAAAAATAAATCATGGTTTTCTTAAA
*
9472712 TTAGATACAATTTCAGCTTTGAGTGCACAAGTATCCTCTTTAGCCAAGATTGTAAAGAACATGAA
66 TTAGATACAATTTCAGCTTTGAGTACACAAGTATCCTCTTTAGCCAAGATTGTAAAGAACATGAA
9472777 GGAGACAACTGATGTTGACCCTATTCAAGTGGCCCAACAGATGGATGTCCCGACATTTTCATGTG
131 GGAGACAACTGATGTTGACCCTATTCAAGTGGCCCAACAGATGGATGTCCCGACATTTTCATGTG
9472842 AAATTTACGGCGACAATCACAGTTATGAGGACTACCCACAACATGCTGAGAACGCATTTTATATT
196 AAATTTACGGCGACAATCACAGTTATGAGGACTACCCACAACATGCTGAGAACGCATTTTATATT
* *
9472907 AACAACATCAGAGGAAATTCTTATGGTAACTCATACAATAATTGAAATCCACAACCTTGGGGGAA
261 AACAACATCAGAGGAAATTCTTATGGTAACTCATACAATAATCGAAATCCACAACCTTAGGGGAA
*
9472972 TTATAATGCATTTACATATAGATATGGAAATTCTTCACAGCAAGAGAGTTATAGACAACGGAGTT
326 TTATAATGCATTTACATATAGATATGGAAATTCTTCACAGCAAGAGAGTTATAAACAACGGAGTT
9473037 ACAATTACAATCAGTAGCAGAATTATAATCATAATGCTCAGGT
391 ACAATTACAATCAGTAGCAGAATTATAATCATAATGCTCAGGT
*
9473080 AGAATGATTATTAATATCCTATCTCTCGTTCTGCTCAGCTAAAAATAAATCTTGGTTTTCTTAAA
1 AGAATGATTATTAATATCCTATCTCTCGTTCTGCTCAGCTAAAAATAAATCATGGTTTTCTTAAA
*
9473145 TTAGATACAATTTCATCTTTGAGTACACAAGTATCCTCTTTAGCCAAGATTGTAAAGAACATGAA
66 TTAGATACAATTTCAGCTTTGAGTACACAAGTATCCTCTTTAGCCAAGATTGTAAAGAACATGAA
*
9473210 GGAGACAACTGATGTTGACCCTATTCAAGTGGCCCAATAGATGGATGTCCCGACATTTTCATGTG
131 GGAGACAACTGATGTTGACCCTATTCAAGTGGCCCAACAGATGGATGTCCCGACATTTTCATGTG
*
9473275 AAATTTACGGCGACAATCACAGTTATGAGGACTGCCCACAACATGCTGAGAACGCATTTTATATT
196 AAATTTACGGCGACAATCACAGTTATGAGGACTACCCACAACATGCTGAGAACGCATTTTATATT
*
9473340 AACAACATTAGAGGAAATTCTTATGGTAACTCATACAATAATCGAAATCCACAACCTTAGGGGAA
261 AACAACATCAGAGGAAATTCTTATGGTAACTCATACAATAATCGAAATCCACAACCTTAGGGGAA
* * *
9473405 TTATAATGCATTTACATATAGATATGGAAATTCTTCACAGCAAGGGAGTTATAAATAAGGGAGTT
326 TTATAATGCATTTACATATAGATATGGAAATTCTTCACAGCAAGAGAGTTATAAACAACGGAGTT
*
9473470 ACAATTACAATCAGTAGCATAATTATAATCATAATGCTCAGGT
391 ACAATTACAATCAGTAGCAGAATTATAATCATAATGCTCAGGT
9473513 A
1 A
9473514 AATTTGCATC
Statistics
Matches: 420, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
433 420 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (433 bp):
AGAATGATTATTAATATCCTATCTCTCGTTCTGCTCAGCTAAAAATAAATCATGGTTTTCTTAAA
TTAGATACAATTTCAGCTTTGAGTACACAAGTATCCTCTTTAGCCAAGATTGTAAAGAACATGAA
GGAGACAACTGATGTTGACCCTATTCAAGTGGCCCAACAGATGGATGTCCCGACATTTTCATGTG
AAATTTACGGCGACAATCACAGTTATGAGGACTACCCACAACATGCTGAGAACGCATTTTATATT
AACAACATCAGAGGAAATTCTTATGGTAACTCATACAATAATCGAAATCCACAACCTTAGGGGAA
TTATAATGCATTTACATATAGATATGGAAATTCTTCACAGCAAGAGAGTTATAAACAACGGAGTT
ACAATTACAATCAGTAGCAGAATTATAATCATAATGCTCAGGT
Found at i:9480083 original size:21 final size:21
Alignment explanation
Indices: 9480057--9480107 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 21
9480047 GTTAGTTACA
*
9480057 TGCATTTTATTTAGTTGTCAT
1 TGCATTTTATTTAGTTGTCAC
*
9480078 TGCA--TT-TTTATTTGTCAC
1 TGCATTTTATTTAGTTGTCAC
9480096 TGCATTTTATTT
1 TGCATTTTATTT
9480108 GTTAGTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 14 0.56
19 2 0.08
20 2 0.08
21 7 0.28
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.59
Consensus pattern (21 bp):
TGCATTTTATTTAGTTGTCAC
Found at i:9503675 original size:19 final size:20
Alignment explanation
Indices: 9503639--9503676 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
9503629 ATCTCAACTC
**
9503639 AGCTCTATATTATTTTTATG
1 AGCTCTATATTAGATTTATG
9503659 AGCT-TATATTAGATTTAT
1 AGCTCTATATTAGATTTAT
9503677 AAATAGAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.53
Consensus pattern (20 bp):
AGCTCTATATTAGATTTATG
Found at i:9504397 original size:2 final size:2
Alignment explanation
Indices: 9504392--9504423 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9504382 TCATTTTTTC
9504392 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9504424 TAGTGTTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9506772 original size:2 final size:2
Alignment explanation
Indices: 9506759--9506791 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
9506749 CCTCCTAATT
*
9506759 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9506792 TCACACATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9525602 original size:19 final size:19
Alignment explanation
Indices: 9525566--9525603 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9525556 ATGGCTTATT
*
9525566 TTATATTTGTTTGAACATA
1 TTATATTTGTTTAAACATA
9525585 TTATATTT-TTTAAGACATA
1 TTATATTTGTTTAA-ACATA
9525604 AAGTGGGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (19 bp):
TTATATTTGTTTAAACATA
Found at i:9528902 original size:206 final size:206
Alignment explanation
Indices: 9528511--9528955 Score: 563
Period size: 206 Copynumber: 2.2 Consensus size: 206
9528501 ATTTGTACTT
* * *
9528511 AATCTCATAGAGTTAGTAGAGTTAAA-CTCGCAACTCCCACACAGATCGTGGACCTACATTCCCA
1 AATCTCTTAGAGTTAGTAGAGTTAAAGCTCACAACTCCCACACAGATCGTGAACCTACATTCCCA
* * * * * *
9528575 GCTGATGCTCAAAGGTTAGTTGATTTAAGATCAAAACATGAATTCTAAGTTTGTTGATTTAATAT
66 ACTGATGCTCAAAGGTTAGCTAATTTAAGATCAAAACATAAATTCTAAGTTTGCTGATTTAAGAT
* * ** * * *
9528640 GGCAACTCTTACACAACTCGTAGACTTACGTTCCCAGCTGATGTTTAAGCGTTAGCTGAGTTAAG
131 CGCAACTCCTACACAACTCACAGACATACGTTCCCAGCTAACGTTTAAGCGTTAGCTGAGTTAAG
**
9528705 CTTGCAACCTG
196 CTCACAACCTG
* * * * *
9528716 AATCTCTTAGAGTTAGTAGAGTTAAAGCTCATAACTCCCACATAGCTCGTGAACCTATATTCTCA
1 AATCTCTTAGAGTTAGTAGAGTTAAAGCTCACAACTCCCACACAGATCGTGAACCTACATTCCCA
* * * *
9528781 ACTGATGTTTAAAGGTTCA-CTAATTTAAGATCACAACCTAAATTCTAAGTTTGCTGATTTAAGA
66 ACTGATGCTCAAAGGTT-AGCTAATTTAAGATCAAAACATAAATTCTAAGTTTGCTGATTTAAGA
* * * *
9528845 TCGCAACTCCTACACAATTCACAGACATACGTTCCTAGTTAACGTTTAAGGGTTAGCTGAGTTAA
130 TCGCAACTCCTACACAACTCACAGACATACGTTCCCAGCTAACGTTTAAGCGTTAGCTGAGTTAA
* *
9528910 GCTCATAACCTT
195 GCTCACAACCTG
9528922 AATCTCTTAGAGTTAGTAGAGTT-AAGCTCACAAC
1 AATCTCTTAGAGTTAGTAGAGTTAAAGCTCACAAC
9528956 ATTAATCTCT
Statistics
Matches: 204, Mismatches: 34, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
205 35 0.17
206 168 0.82
207 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (206 bp):
AATCTCTTAGAGTTAGTAGAGTTAAAGCTCACAACTCCCACACAGATCGTGAACCTACATTCCCA
ACTGATGCTCAAAGGTTAGCTAATTTAAGATCAAAACATAAATTCTAAGTTTGCTGATTTAAGAT
CGCAACTCCTACACAACTCACAGACATACGTTCCCAGCTAACGTTTAAGCGTTAGCTGAGTTAAG
CTCACAACCTG
Done.