Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 24 of 187
Found at i:7834893 original size:29 final size:29
Alignment explanation
Indices: 7834860--7834917 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
7834850 CATTAGACTA
7834860 AATATAATATGAATATTAAAAGAAGATGT
1 AATATAATATGAATATTAAAAGAAGATGT
*
7834889 AATATAATATGAATGTTAAAAGAAGATGT
1 AATATAATATGAATATTAAAAGAAGATGT
7834918 CAAACTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (29 bp):
AATATAATATGAATATTAAAAGAAGATGT
Found at i:7835593 original size:14 final size:16
Alignment explanation
Indices: 7835576--7835607 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
7835566 TAAATTTTAA
7835576 ATATTT-TATTT-ATT
1 ATATTTATATTTAATT
7835590 ATATTTATATTTAATT
1 ATATTTATATTTAATT
7835606 AT
1 AT
7835608 TTAACTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 5 0.31
16 5 0.31
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATATTTATATTTAATT
Found at i:7852552 original size:15 final size:15
Alignment explanation
Indices: 7852532--7852569 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
7852522 CTTTTTCGGC
7852532 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
7852547 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
7852562 CGATTTGC
1 CGATTTGC
7852570 GTCATCGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.08, C:0.26, G:0.21, T:0.45
Consensus pattern (15 bp):
CGATTTGCTCTCTGT
Found at i:7858543 original size:15 final size:15
Alignment explanation
Indices: 7858508--7858559 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
7858498 TTAAGAATTT
*
7858508 TATTAAATTAT-ATA
1 TATTTAATTATAATA
7858522 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
7858536 TATTTAATAATAAT-
1 TATTTAATTATAATA
7858550 TATGTTAATT
1 TAT-TTAATT
7858560 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:7858643 original size:120 final size:120
Alignment explanation
Indices: 7858430--7858795 Score: 723
Period size: 120 Copynumber: 3.0 Consensus size: 120
7858420 TATTAAATTA
7858430 TATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAA
1 TATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAA
7858495 TTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAAT
66 TTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAAT
7858550 TATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAA
1 TATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAA
7858615 TTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAAT
66 TTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAAT
7858670 TATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAA
1 TATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAA
*
7858735 TCATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAAT
66 TTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAAT
7858790 TATGTT
1 TATGTT
7858796 TAAATATGAT
Statistics
Matches: 245, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 245 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (120 bp):
TATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAA
TTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAAT
Found at i:7858663 original size:15 final size:15
Alignment explanation
Indices: 7858628--7858679 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
7858618 TTAAGAATTT
*
7858628 TATTAAATTAT-ATA
1 TATTTAATTATAATA
7858642 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
7858656 TATTTAATAATAAT-
1 TATTTAATTATAATA
7858670 TATGTTAATT
1 TAT-TTAATT
7858680 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:7858778 original size:16 final size:16
Alignment explanation
Indices: 7858757--7858798 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
7858747 TTATTAAATT
*
7858757 ATATATTTTAATTATA
1 ATATATTTTAATAATA
7858773 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
7858788 AT-TATGTTTAA
1 ATATAT-TTTAA
7858799 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:7858783 original size:15 final size:15
Alignment explanation
Indices: 7858748--7858789 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
7858738 TTAAGAATTT
*
7858748 TATTAAATTAT-ATA
1 TATTTAATTATAATA
7858762 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
7858776 TATTTAATAATAAT
1 TATTTAATTATAAT
7858790 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:7858917 original size:157 final size:157
Alignment explanation
Indices: 7858732--7859048 Score: 517
Period size: 157 Copynumber: 2.0 Consensus size: 157
7858722 ATAAGAATAT
* * * *
7858732 TAATCATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATCATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGGTT
* * *
7858797 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAACCTTATTAAAATTTAAATAACAATAACAA
*
7858862 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
* * *
7858889 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATGGGTTTAATAATAATTATGGTT
1 TAATCATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGGTT
*
7858954 AAATATGATTAAAATATTTATTATTGATAATAATAACCTTATTAAAATTTATATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAACCTTATTAAAATTTAAATAACAATAACAA
*
7859019 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
7859046 TAA
1 TAA
7859049 GGGTATTCTA
Statistics
Matches: 147, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
157 147 1.00
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.43
Consensus pattern (157 bp):
TAATCATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGGTT
AAATATGATTAAAATATTTATTATTGATAATAATAACCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:7859192 original size:16 final size:16
Alignment explanation
Indices: 7859171--7859206 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
7859161 GATTTGCTAT
7859171 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
7859187 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
7859203 TACA
1 TACA
7859207 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:7868119 original size:15 final size:15
Alignment explanation
Indices: 7868095--7868137 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
7868085 AGTGTTTTTA
*
7868095 ATTAATTAAAAATAT
1 ATTAAATAAAAATAT
7868110 ATTAAAT-AAAATA-
1 ATTAAATAAAAATAT
*
7868123 ATTATATAAAAATAT
1 ATTAAATAAAAATAT
7868138 TCAAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 6 0.25
14 12 0.50
15 6 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATTAAATAAAAATAT
Found at i:7868131 original size:13 final size:14
Alignment explanation
Indices: 7868103--7868148 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
7868093 TAATTAATTA
7868103 AAAATATATTAAAT
1 AAAATATATTAAAT
*
7868117 AAAATA-ATTATAT
1 AAAATATATTAAAT
*
7868130 AAAA-ATATTCAAAA
1 AAAATATATT-AAAT
7868144 AAAAT
1 AAAAT
7868149 TGAATAGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
12 1 0.04
13 13 0.50
14 12 0.46
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAATATATTAAAT
Found at i:7871252 original size:13 final size:13
Alignment explanation
Indices: 7871234--7871265 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7871224 ACACTTCTCA
7871234 AAAGCACTTTTCT
1 AAAGCACTTTTCT
*
7871247 ACAGCACTTTTCT
1 AAAGCACTTTTCT
7871260 AAAGCA
1 AAAGCA
7871266 TTGCCAAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.31
Consensus pattern (13 bp):
AAAGCACTTTTCT
Found at i:7873311 original size:54 final size:54
Alignment explanation
Indices: 7873134--7873337 Score: 228
Period size: 54 Copynumber: 3.8 Consensus size: 54
7873124 TCCTTTGAAT
** ** * * *
7873134 TTGGCTGTTGCAAAAGATGATGTTACACTAGCAGCTAATGTTTGTCCTTCGAAC
1 TTGGCTGTCACAAAAGACAATGTTACACTAACAGCTAATGTTTCTCCTTCAAAC
* ** * *
7873188 TTGTCTGTCACAAAAGATGATGTTATACGAACAGCTAATGTTTCTCCTTCAAAC
1 TTGGCTGTCACAAAAGACAATGTTACACTAACAGCTAATGTTTCTCCTTCAAAC
* * *
7873242 TTGGCTGACACAAAAGACAATGTTACACTAGCAGCTAATGCTTCTCCTTCAAAC
1 TTGGCTGTCACAAAAGACAATGTTACACTAACAGCTAATGTTTCTCCTTCAAAC
* ** * *
7873296 TTGGCAGTCGTAAAAGACAATGCTACACTAACAACTAATGTT
1 TTGGCTGTCACAAAAGACAATGTTACACTAACAGCTAATGTT
7873338 AAAGAGAACA
Statistics
Matches: 126, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 126 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (54 bp):
TTGGCTGTCACAAAAGACAATGTTACACTAACAGCTAATGTTTCTCCTTCAAAC
Found at i:7877497 original size:16 final size:16
Alignment explanation
Indices: 7877476--7877530 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
7877466 TAAAATTAAA
7877476 AATTTATATTATTTTT
1 AATTTATATTATTTTT
*
7877492 AATTTAATATT-TTTATA
1 AATTT-ATATTATTT-TT
*
7877509 AATTT-TATATATTGTT
1 AATTTATAT-TATTTTT
7877525 AATTTA
1 AATTTA
7877531 ACACTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
15 3 0.10
16 15 0.48
17 13 0.42
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
AATTTATATTATTTTT
Found at i:7885045 original size:14 final size:14
Alignment explanation
Indices: 7885000--7885057 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
7884990 CATTATTAGT
7885000 TTAATAAATAAT-A
1 TTAATAAATAATAA
* *
7885013 TTATTATAATTAA-AT
1 TTA--ATAAATAATAA
7885028 TTAAATAAA-AATAA
1 TT-AATAAATAATAA
7885042 TTAATAAATAATAA
1 TTAATAAATAATAA
7885056 TT
1 TT
7885058 GGGGATATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 11
0.70 0.08 0.22
Matches are distributed among these distances:
13 11 0.31
14 14 0.40
15 9 0.26
16 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAATAAATAATAA
Found at i:7902766 original size:4 final size:4
Alignment explanation
Indices: 7902757--7902816 Score: 111
Period size: 4 Copynumber: 15.0 Consensus size: 4
7902747 TTTCTCTAAG
7902757 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
7902805 CATG CATA CATA
1 CATA CATA CATA
7902817 TGTCATATTC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 54 1.00
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:7904321 original size:2 final size:2
Alignment explanation
Indices: 7904314--7904345 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7904304 TGTGATACAA
*
7904314 AT AT AT AT AT GT 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
7904346 GCAAATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7907138 original size:43 final size:43
Alignment explanation
Indices: 7907043--7907340 Score: 393
Period size: 43 Copynumber: 7.0 Consensus size: 43
7907033 TTGCGGCGTT
* * * *
7907043 AGGTCATGTTCTTTAGCAGCACTTTT-ACAAAAACGCCGCTAA
1 AGGTCATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* * *
7907085 AGGTCATGTTCTTTAGTGGCGCTTTTTCCACAAATGCCGCTAA
1 AGGTCATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* *
7907128 AGGCCATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCACTAA
1 AGGTCATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
**
7907171 AGGTCATGTTCTTTAGCGGCG-TTTTTTCACAAACGCCGCTAA
1 AGGTCATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* * * *
7907213 AAGTCATGTTCTTTAGCGACGCTGTTCTCACAAACGCCGCTAA
1 AGGTCATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* * *
7907256 AGATCATGTTCTTTAGCGGTGCTTTTCCCACAAACACCGCTAA
1 AGGTCATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
* * *
7907299 AGGTCTTATTCTTTAGCGGCGCTTTTCCCACAAACGTCGCTA
1 AGGTCATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTA
7907341 TTGTTTGGTG
Statistics
Matches: 222, Mismatches: 32, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
42 60 0.27
43 162 0.73
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (43 bp):
AGGTCATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
Found at i:7907209 original size:85 final size:86
Alignment explanation
Indices: 7907043--7907340 Score: 402
Period size: 85 Copynumber: 3.5 Consensus size: 86
7907033 TTGCGGCGTT
* * * * *
7907043 AGGTCATGTTCTTTAGCAGCACTTTT-ACAAAAACGCCGCTAAAGGTCATGTTCTTTAGTGGCGC
1 AGGTCATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC
*
7907107 TTTTTCCACAAATGCCGCTAA
66 TTTTTCCACAAACGCCGCTAA
* *
7907128 AGGCCATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGGTCATGTTCTTTAGCGGCG-
1 AGGTCATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC
*
7907192 TTTTTTCACAAACGCCGCTAA
66 TTTTTCCACAAACGCCGCTAA
* * * * * *
7907213 AAGTCATGTTCTTTAGCGACGCTGTTCTCACAAACGCCGCTAAAGATCATGTTCTTTAGCGGTGC
1 AGGTCATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC
* *
7907278 TTTTCCCACAAACACCGCTAA
66 TTTTTCCACAAACGCCGCTAA
* * *
7907299 AGGTCTTATTCTTTAGCGGCGCTTTTCCCACAAACGTCGCTA
1 AGGTCATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTA
7907341 TTGTTTGGTG
Statistics
Matches: 184, Mismatches: 27, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
85 98 0.53
86 86 0.47
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (86 bp):
AGGTCATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC
TTTTTCCACAAACGCCGCTAA
Found at i:7907211 original size:128 final size:128
Alignment explanation
Indices: 7907043--7907340 Score: 391
Period size: 128 Copynumber: 2.3 Consensus size: 128
7907033 TTGCGGCGTT
* ** * * * *
7907043 AGGTCATGTTCTTTAGCAGCACTTTTACAAAAACGCCGCTAAAGGTCATGTTCTTTAGTGGCGCT
1 AGGTCATGTTCTTTAGCGGCGTTTTTACACAAACGCCGCTAAAAGTCATGTTCTTTAGCGACGCT
* * * *
7907108 -TTTTCCACAAATGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCACTAA
66 GTTCT-CACAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTTCCCACAAACACCACTAA
*
7907171 AGGTCATGTTCTTTAGCGGCGTTTTTTCACAAACGCCGCTAAAAGTCATGTTCTTTAGCGACGCT
1 AGGTCATGTTCTTTAGCGGCGTTTTTACACAAACGCCGCTAAAAGTCATGTTCTTTAGCGACGCT
* * *
7907236 GTTCTCACAAACGCCGCTAAAGATCATGTTCTTTAGCGGTGCTTTTCCCACAAACACCGCTAA
66 GTTCTCACAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTTCCCACAAACACCACTAA
* * ** *
7907299 AGGTCTTATTCTTTAGCGGCGCTTTTCCCACAAACGTCGCTA
1 AGGTCATGTTCTTTAGCGGCG-TTTTTACACAAACGCCGCTA
7907341 TTGTTTGGTG
Statistics
Matches: 148, Mismatches: 20, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
128 128 0.86
129 20 0.14
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (128 bp):
AGGTCATGTTCTTTAGCGGCGTTTTTACACAAACGCCGCTAAAAGTCATGTTCTTTAGCGACGCT
GTTCTCACAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTTCCCACAAACACCACTAA
Found at i:7908321 original size:21 final size:21
Alignment explanation
Indices: 7908295--7908334 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
7908285 AGTTGGTCGC
7908295 ATGAAATTAAAGAAAAGAATA
1 ATGAAATTAAAGAAAAGAATA
7908316 ATGAAATTAAAGAAAAGAA
1 ATGAAATTAAAGAAAAGAA
7908335 AAGAATAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.17
Consensus pattern (21 bp):
ATGAAATTAAAGAAAAGAATA
Found at i:7910509 original size:81 final size:81
Alignment explanation
Indices: 7910373--7910553 Score: 290
Period size: 81 Copynumber: 2.2 Consensus size: 81
7910363 CCCGACCCCT
* * * *
7910373 AACCCCTAACCCCTAACGCCTACACCTTATTTAATATATAAATTAAAAACACTAATTAATCTAAA
1 AACCCCAAATCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAACACTAATTAATCTAAA
*
7910438 TCCTAAACCATAACCC
66 CCCTAAACCATAACCC
* * *
7910454 GACCCCGAATCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAATACTAATTAATCTAAA
1 AACCCCAAATCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAACACTAATTAATCTAAA
7910519 CCCTAAACCATAACCC
66 CCCTAAACCATAACCC
7910535 AACCCCAAATCCCTAACCC
1 AACCCCAAATCCCTAACCC
7910554 TTAACCATAT
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 91 1.00
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.24
Consensus pattern (81 bp):
AACCCCAAATCCCTAACCCCTAAACCTTATTTAATATATAAATTAAAAACACTAATTAATCTAAA
CCCTAAACCATAACCC
Found at i:7915712 original size:17 final size:17
Alignment explanation
Indices: 7915690--7915724 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
7915680 CGTCCAGACT
*
7915690 AAACCTTTATCGACACA
1 AAACCTTTATCAACACA
7915707 AAACCTTTATCAACACA
1 AAACCTTTATCAACACA
7915724 A
1 A
7915725 TGAAAACCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.29, G:0.03, T:0.23
Consensus pattern (17 bp):
AAACCTTTATCAACACA
Found at i:7921459 original size:20 final size:21
Alignment explanation
Indices: 7921429--7921477 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
7921419 TGGGCTATTA
7921429 AATTAAATTTAATAGTAAAAT
1 AATTAAATTTAATAGTAAAAT
* *
7921450 AATT-AATTTAATATTAAATT
1 AATTAAATTTAATAGTAAAAT
*
7921470 AATAAAAT
1 AATTAAAT
7921478 AATTAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
AATTAAATTTAATAGTAAAAT
Found at i:7922301 original size:17 final size:17
Alignment explanation
Indices: 7922279--7922311 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7922269 TCTCAGATTT
7922279 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
7922296 TGATACCCATATCTTT
1 TGATACCCATATCTTT
7922312 GACTTTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:7927135 original size:3 final size:3
Alignment explanation
Indices: 7927047--7927123 Score: 59
Period size: 3 Copynumber: 24.0 Consensus size: 3
7927037 TTACTATTTA
* *
7927047 ATT ATTT ATT ATT ATT A-T ATT A-T ATT ATT ACTT GTTT ATC ATT ATTT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT A-TT -ATT ATT ATT A-TT
7927094 ATTT ATTT ATTT ATT ATT ATT ATT ATT ATT
1 A-TT A-TT A-TT ATT ATT ATT ATT ATT ATT
7927124 GAAATTATTA
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
2 4 0.06
3 38 0.59
4 22 0.34
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:7928237 original size:7 final size:7
Alignment explanation
Indices: 7928212--7928244 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
7928202 AGTGATGTGA
7928212 AAAAATG
1 AAAAATG
7928219 AAAAGATG
1 AAAA-ATG
7928227 -AAAATG
1 AAAAATG
7928233 AAAAATG
1 AAAAATG
7928240 AAAAA
1 AAAAA
7928245 ATGGAGAGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 3 0.12
7 18 0.75
8 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:7928589 original size:19 final size:19
Alignment explanation
Indices: 7928552--7928591 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
7928542 GCAAATGTTC
*
7928552 TTTCATTCTTTACGTTTTT
1 TTTCATTCTTTACGATTTT
7928571 TTTCATTCTTT-CAGATTTT
1 TTTCATTCTTTAC-GATTTT
7928590 TT
1 TT
7928592 CTGCCAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.12, C:0.15, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTCATTCTTTACGATTTT
Found at i:7931074 original size:19 final size:18
Alignment explanation
Indices: 7931050--7931095 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
7931040 AACGTCTCTT
*
7931050 TTTGCATTCATTTCATGCA
1 TTTGCATTCATTACAT-CA
7931069 TTTGCATTTCATTACATCA
1 TTTGCA-TTCATTACATCA
*
7931088 TATGCATT
1 TTTGCATT
7931096 AGACACCGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 13 0.54
20 9 0.38
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.48
Consensus pattern (18 bp):
TTTGCATTCATTACATCA
Found at i:7933027 original size:19 final size:19
Alignment explanation
Indices: 7932990--7933029 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
7932980 GCAAACGTTC
*
7932990 TTTCATTCTTTACGTTTTT
1 TTTCATTCTTTACGATTTT
7933009 TTTCATTCTTT-CAGATTTT
1 TTTCATTCTTTAC-GATTTT
7933028 TT
1 TT
7933030 CTGCCAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.12, C:0.15, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTCATTCTTTACGATTTT
Found at i:7933970 original size:7 final size:7
Alignment explanation
Indices: 7933945--7933979 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
7933935 AGTGATGTGA
7933945 AAAAATG
1 AAAAATG
7933952 AAAAGATG
1 AAAA-ATG
7933960 -AAAATG
1 AAAAATG
7933966 AAAAATG
1 AAAAATG
7933973 AAAAATG
1 AAAAATG
7933980 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 3 0.12
7 20 0.77
8 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:7935832 original size:266 final size:264
Alignment explanation
Indices: 7935314--7935944 Score: 883
Period size: 266 Copynumber: 2.4 Consensus size: 264
7935304 TAGACAGCGA
* ** *
7935314 AGCAGATCAAAGATGAC-AGATTTTACCTCCCCGTGGTTACAGTGGAGTACATTGAAGCCAATAA
1 AGCAGATCAAAGATGGCGA-ATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
* * * * *
7935378 TTCTACTTCCCTGGGCAACAGTGGAGTAGATTGAATATTTCAGATCCTATCTCCCTAAGCAGTAG
65 TTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCCTACCTCCCTAAGCAGCAG
* *
7935443 TGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCAGT
130 CGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCAGT
* * * *
7935508 AATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGT
195 AATTCTATCTCCCTGGGCAACAGTGGAATAGATTAAAGATTACAGATCTTGCCTCCCTAAGCAGT
7935573 AGTGG
260 AGTGG
*
7935578 AGCAGATCAAAGATGGCGAATTTTACCTCCTTGTGGTTACAGTGGAGCACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCGAATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * *
7935643 TCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTTCCTGCAATC-GAC
66 TCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCCTACCTCCCT--AAGCAG-C
* *
7935707 AGCGAAGCAGATCGAATATGGCAGATTTTACCTCCCTGA-GGTTACAGTGGAGTACATTGAAGCC
128 AGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCT-ATGGTTACAGTGGAGTACATTGAAGCC
7935771 AGTAATTCTATCTCCCTGGGCAACAGTGGAATAGATTAAAGATTACAGATCTTGCCTCCCTAAGC
192 AGTAATTCTATCTCCCTGGGCAACAGTGGAATAGATTAAAGATTACAGATCTTGCCTCCCTAAGC
7935836 AGTAGTGG
257 AGTAGTGG
* * *** *
7935844 AGCAGATCGAAGATGGCGGATTTTACCTCCTTGAAATTACAGTGGAGTATATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCGAATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * * *
7935909 TCTA-TCTCCCCGGTCGGCAGTGGAATCGATAGAAGA
66 TCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGA
7935945 AAGCAGATCT
Statistics
Matches: 327, Mismatches: 34, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
264 106 0.32
265 3 0.01
266 217 0.66
267 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (264 bp):
AGCAGATCAAAGATGGCGAATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCCTACCTCCCTAAGCAGCAGC
GAAGCAGATCAAAGATGGCAGATTTTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCAGTA
ATTCTATCTCCCTGGGCAACAGTGGAATAGATTAAAGATTACAGATCTTGCCTCCCTAAGCAGTA
GTGG
Found at i:7935930 original size:132 final size:132
Alignment explanation
Indices: 7935314--7935944 Score: 840
Period size: 132 Copynumber: 4.8 Consensus size: 132
7935304 TAGACAGCGA
* ** * *
7935314 AGCAGATCAAAGATGACAGATTTTACCTCCCCGTGGTTACAGTGGAGTACATTGAAGCCAATAAT
1 AGCAGATCAAAGATGGCAGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * * **
7935379 TCTA-CTTCCCTGGGCAACAGTGGAGTAGATTGAATATTTCAGATCCTATCTCCCTAAGCAGTAG
66 TCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAG
7935443 TGG
130 TGG
*
7935446 AGCAGATCAAAGATGGCAGATTTTACCTCCCT-ATGGTTACAGTGGAGTACATTGAAGCCAGTAA
1 AGCAGATCAAAGATGGCAGATTTTACCTCCTTGA-GGTTACAGTGGAGTACATTGAAGCCAGTAA
*
7935510 TTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG
65 TTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAG
7935575 TGG
130 TGG
* *
7935578 AGCAGATCAAAGATGGC-GAATTTTACCTCCTTGTGGTTACAGTGGAGCACATTGAAGCCAGTAA
1 AGCAGATCAAAGATGGCAG-ATTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAA
* *
7935642 TTCTA-CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTTCCTGCAATC-G
65 TTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCT--AAGCAG
* * *
7935705 ACAGCGA
127 -TAGTGG
* * *
7935712 AGCAGATCGAATATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCAGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
7935777 TCTATCTCCCTGGGCAACAGTGGAATAGATTAAAGATTACAGATCTTGCCTCCCTAAGCAGTAGT
66 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGT
7935842 GG
131 GG
* * ** *
7935844 AGCAGATCGAAGATGGCGGATTTTACCTCCTTGAAATTACAGTGGAGTATATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCAGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * * *
7935909 TCTATCTCCCCGGTCGGCAGTGGAATCGATAGAAGA
66 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGA
7935945 AAGCAGATCT
Statistics
Matches: 444, Mismatches: 44, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
131 2 0.00
132 324 0.73
133 3 0.01
134 113 0.25
135 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (132 bp):
AGCAGATCAAAGATGGCAGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGT
GG
Found at i:7936067 original size:44 final size:44
Alignment explanation
Indices: 7936019--7936136 Score: 148
Period size: 45 Copynumber: 2.7 Consensus size: 44
7936009 TATCGGTAGC
* * * * *
7936019 GAAGTGGATCGAATATACAGATCTTATCTTTCTATATTGGTGGT
1 GAAGTAGATCGAAGATACAGATCTTATCTTCCCATACTGGTGGT
* *
7936063 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGT
1 GAAGTAGATCGAAGATA-CAGATCTTATCTTCCCATACTGGTGGT
7936108 GAAGTAGATCGAAGATACA-AGTCTTATCT
1 GAAGTAGATCGAAGATACAGA-TCTTATCT
7936137 CCCTGAAGTT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 1 0.02
44 23 0.37
45 39 0.62
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (44 bp):
GAAGTAGATCGAAGATACAGATCTTATCTTCCCATACTGGTGGT
Found at i:7936095 original size:89 final size:89
Alignment explanation
Indices: 7935972--7936136 Score: 201
Period size: 89 Copynumber: 1.9 Consensus size: 89
7935962 ATGTATTGGC
* * * *
7935972 GTGAAGTAGATCAAAGATAACAGGTCATGCCTTCCTATA-TCGGTAGCGAAGTGGATCGAATATA
1 GTGAAGTAGATCAAAGATAACAGATCATGCCTTCCCATACT-GGTAGCGAAGTAGATCGAAGATA
7936036 C-AGATCTTATCTTTCTATATTGGTG
65 CAAG-TCTTATCTTTCTATATTGGTG
* * * * *
7936061 GTGAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGATA
1 GTGAAGTAGATCAAAGATAA-CAGATCATGCCTTCCCATACTGGTAGCGAAGTAGATCGAAGATA
7936125 CAAGTCTTATCT
65 CAAGTCTTATCT
7936137 CCCTGAAGTT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
88 2 0.03
89 59 0.92
90 3 0.05
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (89 bp):
GTGAAGTAGATCAAAGATAACAGATCATGCCTTCCCATACTGGTAGCGAAGTAGATCGAAGATAC
AAGTCTTATCTTTCTATATTGGTG
Found at i:7936105 original size:45 final size:44
Alignment explanation
Indices: 7935940--7936122 Score: 179
Period size: 44 Copynumber: 4.1 Consensus size: 44
7935930 GGAATCGATA
* * *
7935940 GAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAGAAA-CAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* * * * * * * *
7935984 AAAGATAACAGGTCATGCCTTCCTATATCGGTAGCGAAGTGGATC
1 GAAGA-AACAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* * * *
7936029 GAATATACAGATCTTATCTTTCTATATTGGTGGTGAAGTAGATC
1 GAAGAAACAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* *
7936073 GAAGAAAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC
1 GAAGAAA-CAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
7936118 GAAGA
1 GAAGA
7936123 TACAAGTCTT
Statistics
Matches: 108, Mismatches: 28, Indels: 5
0.77 0.20 0.04
Matches are distributed among these distances:
44 55 0.51
45 53 0.49
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (44 bp):
GAAGAAACAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
Found at i:7937712 original size:19 final size:19
Alignment explanation
Indices: 7937688--7937756 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
7937678 ATTTTACTAT
7937688 TTATTATTATTATATTA-TA
1 TTATTATTATT-TATTATTA
* *
7937707 TTATTACTTGTTTATCATTA
1 TTATTA-TTATTTATTATTA
7937727 TTATTTATT-TTTATTATTA
1 TTA-TTATTATTTATTATTA
7937746 TTATTATTATT
1 TTATTATTATT
7937757 GAAATTATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
18 5 0.12
19 24 0.56
20 11 0.26
21 3 0.07
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (19 bp):
TTATTATTATTTATTATTA
Found at i:7937768 original size:3 final size:3
Alignment explanation
Indices: 7937688--7937756 Score: 70
Period size: 3 Copynumber: 22.7 Consensus size: 3
7937678 ATTTTACTAT
* *
7937688 TTA TTA TTA TTA -TA TTA -TA TTA TTA CTTGT TTA TCA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TT-A TTA TTA TTA TTA -TTA
*
7937734 TTT TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
7937757 GAAATTATTA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
2 4 0.07
3 44 0.80
4 7 0.13
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7938608 original size:7 final size:7
Alignment explanation
Indices: 7938583--7938615 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
7938573 AGTGATGTGA
7938583 AAAAATG
1 AAAAATG
7938590 AAAAGATG
1 AAAA-ATG
7938598 -AAAATG
1 AAAAATG
7938604 AAAAATG
1 AAAAATG
7938611 AAAAA
1 AAAAA
7938616 ATGGAGAGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 3 0.12
7 18 0.75
8 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:7942748 original size:16 final size:16
Alignment explanation
Indices: 7942724--7942755 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7942714 TTTCATTTGC
*
7942724 ATTGTATCCATGGTTT
1 ATTGCATCCATGGTTT
7942740 ATTGCATCCATGGTTT
1 ATTGCATCCATGGTTT
7942756 GTGGCTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCATCCATGGTTT
Found at i:7945198 original size:21 final size:20
Alignment explanation
Indices: 7945158--7945205 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
7945148 AATCCTAAAC
7945158 CTTGAACCATAAATTCGAAT
1 CTTGAACCATAAATTCGAAT
* *
7945178 CTTGAATCATGAATCTCGAAT
1 CTTGAACCATAAAT-TCGAAT
7945199 CTTGAAC
1 CTTGAAC
7945206 TAACAGACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.31
Consensus pattern (20 bp):
CTTGAACCATAAATTCGAAT
Found at i:7945310 original size:34 final size:34
Alignment explanation
Indices: 7945218--7945310 Score: 82
Period size: 34 Copynumber: 2.7 Consensus size: 34
7945208 ACAGACCAAT
* * ** *
7945218 TTTAAGGTTTAGGATTTAGGATTCAAGATTCTGTGT
1 TTTAAGG-TTAGGTTTTA-GATTCAAGACTCTAAGA
*
7945254 TTTAAGATTAGGTTTTCA-ATTCAAGACT-TAAGA
1 TTTAAGGTTAGGTTTT-AGATTCAAGACTCTAAGA
7945287 TTTAAGGTTAAGGTTTTAGATTCA
1 TTTAAGGTT-AGGTTTTAGATTCA
7945311 GGATTGAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
33 11 0.23
34 21 0.45
35 8 0.17
36 7 0.15
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.43
Consensus pattern (34 bp):
TTTAAGGTTAGGTTTTAGATTCAAGACTCTAAGA
Found at i:7950080 original size:5 final size:5
Alignment explanation
Indices: 7950070--7950095 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7950060 AAATATATAT
7950070 AATAA AATAA AATAA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AATAA A
7950096 TACGAAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:7950427 original size:75 final size:73
Alignment explanation
Indices: 7950336--7951157 Score: 726
Period size: 75 Copynumber: 10.8 Consensus size: 73
7950326 GTGCAGCCCA
* * *
7950336 AGGCTCAAGTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTTA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATACCTCA
7950401 GCGTGACTCG
64 GCGTGACTCG
* * **
7950411 AGGCTCAACTCACCTCTCGCATTATGAGTTAATTTTTTTGAAAAACAGAAAAAG-AAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATACCTCA
* * *
7950475 GCATG-GTCCA
64 GCGTGACT-CG
*
7950485 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAATTGAATATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAACAGAAATTGAAAATACCTC
*
7950550 AGCGTGACCCG
63 AGCGTGACTCG
* * * * * *
7950561 AAGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTTTTGAAAACCAAAAATTGAAAAATACAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAACAGAAATTG-AAAATACCT
7950626 C-GACGTGACTCG
62 CAG-CGTGACTCG
* *
7950638 AGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTTAAAAGAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT--GA-AAATACCT
*
7950702 CAGCGTGTGACCCG
62 CAGC--GTGACTCG
* ** *
7950716 AGGCTGAACTCACCTCTCGTGATATGAGTTGATTTTT-AAAAATAGAAATTTAAAAGAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT----GAAA-A---
* * *
7950780 CGTACCTCGGTATGTGACCCG
57 --TACCTCAG--CGTGACTCG
** *
7950801 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATGGAAACTT-AAAATACCTCCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTGAAAATACCTCAG
*
7950865 CGTACGACACG
65 CGT--GACTCG
* * **
7950876 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAATAGAAATTGAAAATACCTTGGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGC
*
7950941 ATGTGACCCG
66 --GTGACTCG
* * * **
7950951 AGGCCCAACTCACTTCTAGCAATATGAGTTGAGCTTTGAAAAACAGAAACTT-AAAATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTGAAAATACCTCAG
7951015 CGTGCGAC-CTG
65 CGT--GACTC-G
* * *
7951026 AGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGCAATTGAAAACTACCTCGG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAA-TACCTCAG
*
7951091 CGTGTGC-CAG
65 CGTG-ACTC-G
* * * *
7951101 AGGCTCAACTCACCCCTCGCATTATGAGTTGATTTTTGAAAAAATAAAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTGAAAA
7951158 ATAATTCTTA
Statistics
Matches: 632, Mismatches: 77, Indels: 75
0.81 0.10 0.10
Matches are distributed among these distances:
73 13 0.02
74 58 0.09
75 289 0.46
76 101 0.16
77 48 0.08
78 52 0.08
79 2 0.00
80 5 0.01
81 3 0.00
85 49 0.08
86 12 0.02
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (73 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGC
GTGACTCG
Found at i:7951106 original size:225 final size:222
Alignment explanation
Indices: 7950336--7951157 Score: 836
Period size: 225 Copynumber: 3.6 Consensus size: 222
7950326 GTGCAGCCCA
* **
7950336 AGGCTCAAGTCACCTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTTA
1 AGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCG
* * **
7950401 GCGTGACTCGAGGCTCAACTCACCTCTCGCATTATGAGTTAATTTTTTTGAAAAACAGAAAAAG-
65 GCGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGA
* *
7950465 AAATACCTCAGCATG-G-TCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAA
128 AAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTGAA
* *
7950528 AAACAGAAATTGAATATACCTCAGCGT-GACCCG
189 AAACAGAAATTAAAAATACCTCAGCGTGGACCCG
* * * * *
7950561 AAGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTTTTGAAAACCAAAAATTGAAAAATACAT
1 AGGCTCAACTCACCTCTCGCATTATGAGTTGA--TTTTTTGAAAAACAGAAATTG-AAAATACCT
* *
7950626 CGACGTGACTCGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTTA
63 CGGCGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT-
* * * ** *
7950690 AAAGAAATACCTCAGCGTGTGACCCGAGGCTGAACTCACCTCTCGTGATATGAGTTGATTTTTAA
126 -GA-AAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAA
* *
7950755 AAATAGAAATTTAAAAGAAATACCTCGTACCTCGGTATGTGACCCG
189 AAACAGAAA-TT--AA-AAATACCTC--A--GC-G--TG-GACCCG
* ** *
7950801 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATGGAAACTT-AAAATACCTCC
1 AGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAACAGAAA-TTGAAAATACCTCG
* * *
7950864 GCGTACGACACGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAATAGAAATTGA
65 GCGT--GACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGA
** * * * *
7950929 AAATACCTTGGCATGTGACCCGAGGCCCAACTCACTTCTAGCAATATGAGTTGAGCTTTGAAAAA
128 AAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAA
*
7950994 CAGAAACTT-AAAATACCTCAGCGTGCGACCTG
192 CAGAAA-TTAAAAATACCTCAGCGTG-GACCCG
*
7951026 AGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAAACAGCAATTGAAAACTACCTCG
1 AGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAA-TACCTCG
* * * * *
7951090 GCGTGTGC-CAGAGGCTCAACTCACCCCTCGCATTATGAGTTGATTTTTGAAAAAATAAAAATTG
65 GCGTG-ACTC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTG
7951154 AAAA
127 AAAA
7951158 ATAATTCTTA
Statistics
Matches: 498, Mismatches: 67, Indels: 63
0.79 0.11 0.10
Matches are distributed among these distances:
224 14 0.03
225 128 0.26
226 47 0.09
227 61 0.12
228 3 0.01
229 14 0.03
230 3 0.01
231 39 0.08
232 9 0.02
233 2 0.00
235 46 0.09
236 29 0.06
237 13 0.03
238 46 0.09
239 9 0.02
240 35 0.07
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (222 bp):
AGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCGG
CGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAA
TACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGA
AATTAAAAATACCTCAGCGTGGACCCG
Found at i:7959396 original size:19 final size:19
Alignment explanation
Indices: 7959372--7959533 Score: 101
Period size: 19 Copynumber: 8.7 Consensus size: 19
7959362 CAACTTTTTC
*
7959372 TTTTTTTGAAAATACGAAT
1 TTTTTTTGAAAACACGAAT
* *
7959391 TTTTTTTAAAATACAAGAA-
1 TTTTTTTGAAA-ACACGAAT
* *
7959410 --TTTTAG-AAACACGAAA
1 TTTTTTTGAAAACACGAAT
*
7959426 TTTTTTTAAAAACACGAA-
1 TTTTTTTGAAAACACGAAT
**
7959444 -AATTTTG-AAACACGAGAT
1 TTTTTTTGAAAACACGA-AT
7959462 TTTTTTTGAAAACACGAATT
1 TTTTTTTGAAAACACGAA-T
*
7959482 TTCTTTTTG-AAACAC-AAA
1 TT-TTTTTGAAAACACGAAT
* *
7959500 ATTTTTT-AAAACACAAAAT
1 TTTTTTTGAAAACAC-GAAT
7959519 TTATTTTTGAAAACA
1 TT-TTTTTGAAAACA
7959534 TAAAAATTTT
Statistics
Matches: 110, Mismatches: 17, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
15 6 0.05
16 10 0.09
17 20 0.18
18 5 0.05
19 30 0.27
20 27 0.25
21 12 0.11
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (19 bp):
TTTTTTTGAAAACACGAAT
Found at i:7959410 original size:20 final size:18
Alignment explanation
Indices: 7959372--7959483 Score: 63
Period size: 18 Copynumber: 6.2 Consensus size: 18
7959362 CAACTTTTTC
7959372 TTTTTTTGAAAATACGAA
1 TTTTTTTGAAAATACGAA
*
7959390 TTTTTTTTAAAATACAAGAA
1 TTTTTTTGAAAATAC--GAA
* *
7959410 --TTTTAG-AAACACGAAA
1 TTTTTTTGAAAATACG-AA
* *
7959426 TTTTTTTAAAAACACGAA
1 TTTTTTTGAAAATACGAA
** *
7959444 -AATTTTG-AAACACGAGA
1 TTTTTTTGAAAATACGA-A
*
7959461 TTTTTTTTGAAAACACGAA
1 -TTTTTTTGAAAATACGAA
7959480 TTTT
1 TTTT
7959484 CTTTTTGAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
15 1 0.01
16 10 0.14
17 10 0.14
18 28 0.38
19 13 0.18
20 11 0.15
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (18 bp):
TTTTTTTGAAAATACGAA
Found at i:7959431 original size:35 final size:34
Alignment explanation
Indices: 7959375--7959520 Score: 109
Period size: 35 Copynumber: 4.1 Consensus size: 34
7959365 CTTTTTCTTT
* * *
7959375 TTTTGAAAATACGAATTTTTTTTAAAATACA-AGAA
1 TTTTG-AAACACGAAATTTTTTTAAAA-ACACAAAA
7959410 TTTTAGAAACACGAAATTTTTTTAAAAACACGAAAA
1 TTTT-GAAACACGAAATTTTTTTAAAAACAC-AAAA
* * **
7959446 TTTTGAAACACGAGATTTTTTTTGAAAACACGAATTTTCT
1 TTTTGAAACACGA-AATTTTTTTAAAAACAC-AA----AA
*
7959486 TTTTGAAACAC-AAAATTTTTT-AAAACACAAAA
1 TTTTGAAACACGAAATTTTTTTAAAAACACAAAA
7959518 TTT
1 TTT
7959521 ATTTTTGAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
32 3 0.03
34 3 0.03
35 32 0.35
36 28 0.30
37 7 0.08
38 7 0.08
39 1 0.01
40 11 0.12
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (34 bp):
TTTTGAAACACGAAATTTTTTTAAAAACACAAAA
Found at i:7959448 original size:36 final size:37
Alignment explanation
Indices: 7959387--7959479 Score: 120
Period size: 36 Copynumber: 2.6 Consensus size: 37
7959377 TTGAAAATAC
* *
7959387 GAATTTTTTTTAAAATAC-AAGAATTTTAGAAACACGA
1 GAATTTTTTTAAAAACACGAAGAATTTT-GAAACACGA
7959424 -AATTTTTTTAAAAACACGAA-AATTTTGAAACACGA
1 GAATTTTTTTAAAAACACGAAGAATTTTGAAACACGA
* *
7959459 GATTTTTTTTGAAAACACGAA
1 GAATTTTTTTAAAAACACGAA
7959480 TTTTCTTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
35 9 0.18
36 39 0.78
37 2 0.04
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (37 bp):
GAATTTTTTTAAAAACACGAAGAATTTTGAAACACGA
Found at i:7959511 original size:17 final size:17
Alignment explanation
Indices: 7959485--7959520 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
7959475 ACGAATTTTC
*
7959485 TTTTTGAAACACAAAAT
1 TTTTTAAAACACAAAAT
7959502 TTTTTAAAACACAAAAT
1 TTTTTAAAACACAAAAT
7959519 TT
1 TT
7959521 ATTTTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (17 bp):
TTTTTAAAACACAAAAT
Found at i:7959538 original size:21 final size:20
Alignment explanation
Indices: 7959446--7959543 Score: 89
Period size: 20 Copynumber: 5.0 Consensus size: 20
7959436 AACACGAAAA
* *
7959446 TTTTG-AAACACGAGATTTT
1 TTTTGAAAACACAAAATTTT
* *
7959465 TTTTGAAAACACGAATTTTCT
1 TTTTGAAAACACAAAATTT-T
7959486 TTTTG-AAACACAAAA--TT
1 TTTTGAAAACACAAAATTTT
7959503 TTTT-AAAACACAAAATTTAT
1 TTTTGAAAACACAAAATTT-T
*
7959523 TTTTGAAAACATAAAAATTTT
1 TTTTGAAAACA-CAAAATTTT
7959544 GATAAAATAC
Statistics
Matches: 66, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
17 15 0.23
18 1 0.02
19 6 0.09
20 24 0.36
21 13 0.20
22 7 0.11
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (20 bp):
TTTTGAAAACACAAAATTTT
Found at i:7959626 original size:18 final size:18
Alignment explanation
Indices: 7959569--7959757 Score: 106
Period size: 18 Copynumber: 10.6 Consensus size: 18
7959559 ACGAGGATTT
7959569 TTTTTG-AAACATGAAAA
1 TTTTTGAAAACATGAAAA
* * *
7959586 TTTATTAAAAACGAT-CAAT
1 TTT-TTGAAAAC-ATGAAAA
7959605 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACATGAAAA
**
7959623 TTTTTGAAAGAC--GGGAA
1 TTTTTGAAA-ACATGAAAA
* * *
7959640 TTTTTAAAAACACGGGAAATT
1 TTTTTGAAAACA--TGAAA-A
**
7959661 TTTTTGAAAACACAAAAA
1 TTTTTGAAAACATGAAAA
*
7959679 TTTTTG-AAACACTG-GAA
1 TTTTTGAAAACA-TGAAAA
* *
7959696 -TTTTGAAAACACGAAGA
1 TTTTTGAAAACATGAAAA
*
7959713 TTTTTG-AAACATGAGAA
1 TTTTTGAAAACATGAAAA
* *
7959730 TTTTTGAAAACACGAAAT
1 TTTTTGAAAACATGAAAA
*
7959748 TTTTTTAAAA
1 TTTTTGAAAA
7959758 TACAAGAATT
Statistics
Matches: 128, Mismatches: 29, Indels: 29
0.69 0.16 0.16
Matches are distributed among these distances:
16 8 0.06
17 43 0.34
18 48 0.38
19 14 0.11
20 4 0.03
21 11 0.09
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (18 bp):
TTTTTGAAAACATGAAAA
Found at i:7959688 original size:17 final size:17
Alignment explanation
Indices: 7959661--7959777 Score: 65
Period size: 17 Copynumber: 6.7 Consensus size: 17
7959651 ACGGGAAATT
7959661 TTTTTGAAAACACAAAAA
1 TTTTTG-AAACACAAAAA
***
7959679 TTTTTGAAACACTGGAA
1 TTTTTGAAACACAAAAA
* *
7959696 -TTTTGAAAACACGAAGA
1 TTTTTG-AAACACAAAAA
** *
7959713 TTTTTGAAACATGAGAA
1 TTTTTGAAACACAAAAA
**
7959730 TTTTTGAAAACACGAAATT
1 TTTTTG-AAACAC-AAAAA
* * *
7959749 TTTTTAAAATACAAGAA
1 TTTTTGAAACACAAAAA
*
7959766 TTTTAGAAACAC
1 TTTTTGAAACAC
7959778 GAATTTTTTT
Statistics
Matches: 72, Mismatches: 23, Indels: 9
0.69 0.22 0.09
Matches are distributed among these distances:
16 5 0.07
17 40 0.56
18 21 0.29
19 6 0.08
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.32
Consensus pattern (17 bp):
TTTTTGAAACACAAAAA
Found at i:7959705 original size:34 final size:35
Alignment explanation
Indices: 7959569--7959752 Score: 144
Period size: 35 Copynumber: 5.1 Consensus size: 35
7959559 ACGAGGATTT
* *
7959569 TTTTTGAAACATGAAAATTTATT-AAAA-ACGATCAAT
1 TTTTTGAAACATGAGAATTT-TTGAAAACACGA--AAA
* * **
7959605 TTTTTGAAAACATGAAAATTTTTG-AAAGACGGGAA
1 TTTTTG-AAACATGAGAATTTTTGAAAACACGAAAA
* * * *
7959640 TTTTTAAAAACACGGGAAATTTTTTTGAAAACACAAAAA
1 TTTTT-GAAACATGAG-AA--TTTTTGAAAACACGAAAA
*
7959679 TTTTTGAAACACTG-GAA-TTTTGAAAACACGAAGA
1 TTTTTGAAACA-TGAGAATTTTTGAAAACACGAAAA
*
7959713 TTTTTGAAACATGAGAATTTTTGAAAACACGAAAT
1 TTTTTGAAACATGAGAATTTTTGAAAACACGAAAA
7959748 TTTTT
1 TTTTT
7959753 TAAAATACAA
Statistics
Matches: 120, Mismatches: 17, Indels: 23
0.75 0.11 0.14
Matches are distributed among these distances:
33 2 0.02
34 29 0.24
35 32 0.27
36 13 0.11
37 19 0.16
38 12 0.10
39 13 0.11
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (35 bp):
TTTTTGAAACATGAGAATTTTTGAAAACACGAAAA
Found at i:7959894 original size:17 final size:17
Alignment explanation
Indices: 7959873--7959919 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
7959863 TATTGCTTTT
7959873 TTTTTGAAACACGATAAA
1 TTTTTGAAACACGA-AAA
* *
7959891 -TTTTGAGAATATGAAAA
1 TTTTTGA-AACACGAAAA
7959908 TTTTTGAAACAC
1 TTTTTGAAACAC
7959920 AATTTTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.36
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:7960566 original size:10 final size:10
Alignment explanation
Indices: 7960547--7960629 Score: 66
Period size: 10 Copynumber: 8.2 Consensus size: 10
7960537 ACTGTTAAAA
*
7960547 TTTTTCCTTC
1 TTTTTTCTTC
7960557 TTTTTTCTTC
1 TTTTTTCTTC
*
7960567 TTTTTCCTTTC
1 TTTTTTC-TTC
7960578 TCTTTCTTCTTC
1 T-TTT-TTCTTC
*
7960590 CTTTTTCTTC
1 TTTTTTCTTC
7960600 ---TTTCTT-
1 TTTTTTCTTC
7960606 TTTGTTTCTCTC
1 TTT-TTTCT-TC
7960618 TTTTTTCTTC
1 TTTTTTCTTC
7960628 TT
1 TT
7960630 CTTTGGCAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
7 6 0.10
10 30 0.50
11 13 0.22
12 9 0.15
13 2 0.03
ACGTcount: A:0.00, C:0.25, G:0.01, T:0.73
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:7960584 original size:17 final size:19
Alignment explanation
Indices: 7960556--7960608 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
7960546 ATTTTTCCTT
7960556 CTTTT-TTC-TTCTTTTTC
1 CTTTTCTTCTTTCTTTTTC
*
7960573 C-TTTC-TCTTTCTTCTTC
1 CTTTTCTTCTTTCTTTTTC
7960590 CTTTTTCTTCTTTCTTTTT
1 C-TTTTCTTCTTTCTTTTT
7960609 GTTTCTCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
16 5 0.17
17 10 0.34
19 4 0.14
20 10 0.34
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
CTTTTCTTCTTTCTTTTTC
Found at i:7960588 original size:7 final size:7
Alignment explanation
Indices: 7960554--7960629 Score: 61
Period size: 7 Copynumber: 11.1 Consensus size: 7
7960544 AAATTTTTCC
*
7960554 TTCTTTT
1 TTCTTCT
7960561 TTCTTCT
1 TTCTTCT
7960568 TT-TTCCT
1 TTCTT-CT
7960575 TTC-TCT
1 TTCTTCT
7960581 TTCTTCT
1 TTCTTCT
*
7960588 TCCTT-T
1 TTCTTCT
7960594 TTCTTCT
1 TTCTTCT
7960601 TTCTT-T
1 TTCTTCT
*
7960607 TTGTTTCT
1 TT-CTTCT
* *
7960615 CTCTTTT
1 TTCTTCT
7960622 TTCTTCT
1 TTCTTCT
7960629 T
1 T
7960630 CTTTGGCAAC
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
6 15 0.28
7 37 0.69
8 2 0.04
ACGTcount: A:0.00, C:0.25, G:0.01, T:0.74
Consensus pattern (7 bp):
TTCTTCT
Found at i:7960614 original size:14 final size:13
Alignment explanation
Indices: 7960554--7960633 Score: 65
Period size: 13 Copynumber: 6.0 Consensus size: 13
7960544 AAATTTTTCC
*
7960554 TTCTTTTTTCTTCT
1 TTCTTCTTTCTT-T
*
7960568 TT-TTCCTTTCTCT
1 TTCTT-CTTTCTTT
*
7960581 TTCTTCTTCCTTT
1 TTCTTCTTTCTTT
7960594 TTCTTCTTTCTTT
1 TTCTTCTTTCTTT
* *
7960607 TTGTTTCTCTCTTTT
1 TT-CTTCTTTC-TTT
7960622 TTCTTC-TTCTTT
1 TTCTTCTTTCTTT
7960634 GGCAACCCCG
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
12 3 0.06
13 27 0.51
14 18 0.34
15 5 0.09
ACGTcount: A:0.00, C:0.25, G:0.01, T:0.74
Consensus pattern (13 bp):
TTCTTCTTTCTTT
Found at i:7960631 original size:17 final size:16
Alignment explanation
Indices: 7960553--7960601 Score: 62
Period size: 17 Copynumber: 3.0 Consensus size: 16
7960543 AAAATTTTTC
*
7960553 CTTCTTTTTTCTTCTT
1 CTTCCTTTTTCTTCTT
* *
7960569 TTTCCTTTCTCTTTCTT
1 CTTCCTTTTTC-TTCTT
7960586 CTTCCTTTTTCTTCTT
1 CTTCCTTTTTCTTCTT
7960602 TCTTTTTGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
CTTCCTTTTTCTTCTT
Found at i:7960701 original size:30 final size:29
Alignment explanation
Indices: 7960656--7960713 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
7960646 TGTAATTTAT
*
7960656 AAAAAAATTAGGGGTCAAGATGCAAATTC
1 AAAAAAATTAAGGGTCAAGATGCAAATTC
* *
7960685 AAAAAAAGTTAAGGGTCAATATGTAAATT
1 AAAAAAA-TTAAGGGTCAAGATGCAAATT
7960714 TGGAAAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.50, C:0.07, G:0.19, T:0.24
Consensus pattern (29 bp):
AAAAAAATTAAGGGTCAAGATGCAAATTC
Found at i:7960937 original size:14 final size:14
Alignment explanation
Indices: 7960920--7960954 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
7960910 CATAATTTTT
* *
7960920 AAATATATATAATA
1 AAATAAATAAAATA
7960934 AAATAAATAAAATA
1 AAATAAATAAAATA
7960948 AAATAAA
1 AAATAAA
7960955 ATACGAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATAAATAAAATA
Found at i:7962431 original size:101 final size:101
Alignment explanation
Indices: 7962316--7962601 Score: 475
Period size: 101 Copynumber: 2.8 Consensus size: 101
7962306 AAAGTGATGG
*
7962316 TCACGTTTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
*
7962381 TATGTGCAGGCTACTATGCGTATCGAATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCGAATAGCTTCGA
7962417 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
*
7962482 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCGAATAGCTTCGA
* * * *
7962518 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
*
7962582 ACTATGTGCATGCTACTATG
64 ACTATGTGCAGGCTACTATG
7962602 TGAATCCGCA
Statistics
Matches: 175, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
101 137 0.78
102 34 0.19
103 4 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGAATAGCTTCGA
Found at i:7962436 original size:51 final size:50
Alignment explanation
Indices: 7962323--7962601 Score: 267
Period size: 51 Copynumber: 5.5 Consensus size: 50
7962313 TGGTCACGTT
* * * * * * *
7962323 TGTAGTACTATGTGTAGGCTACTACGTGTACCAGAAT-GATAGGTCGCATG
1 TGTAGTACTATGTGCAGGCTACTATGCGTACC-GAATAGTTCGATCACATG
* *
7962373 TGTAGTACTATGTGCAGGCTACTATGCGTATCGAATAGCTTCGATCACGTG
1 TGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAG-TTCGATCACATG
* * * * * * *
7962424 TGTAGTACTATGTGTAGGCTACTACGTGTACCAGAAT-GATAGGTCGCATG
1 TGTAGTACTATGTGCAGGCTACTATGCGTACC-GAATAGTTCGATCACATG
* *
7962474 TGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGATCACGTG
1 TGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAG-TTCGATCACATG
* * * * *
7962525 TGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCACATG
1 TGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGT--TCGATCACATG
*
7962576 TGTAGTACTATGTGCATGCTACTATG
1 TGTAGTACTATGTGCAGGCTACTATG
7962602 TGAATCCGCA
Statistics
Matches: 188, Mismatches: 34, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
49 7 0.04
50 67 0.36
51 109 0.58
52 5 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTTCGATCACATG
Found at i:7962603 original size:26 final size:26
Alignment explanation
Indices: 7962523--7962603 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
7962513 TTCGATCACG
*
7962523 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCATGCTACTA
* * *
7962549 CGTGTA-T-CGGATAGTG-ATGGTCAC-A
1 TGTGTAGTAC-TAT-GTGCATGCT-ACTA
7962574 TGTGTAGTACTATGTGCATGCTACTA
1 TGTGTAGTACTATGTGCATGCTACTA
7962600 TGTG
1 TGTG
7962604 AATCCGCATC
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
24 1 0.02
25 17 0.41
26 22 0.54
27 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCATGCTACTA
Found at i:7962719 original size:42 final size:43
Alignment explanation
Indices: 7962611--7962822 Score: 265
Period size: 43 Copynumber: 5.0 Consensus size: 43
7962601 GTGAATCCGC
7962611 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
* * * *
7962654 ATCCTT-AACTGTGAAAGG-GGTTGCTATGTGCTGATTCC-CTGT
1 ATCATTGAA-TAT-AAAGGTGGTTGCTAAGTGCTGATTCCACCGT
7962696 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
* * * *
7962739 ATCCTTGACTGTGAAAGG-GGTTGCTATGTGCTGATTCC-CCGT
1 ATCATTGAATAT-AAAGGTGGTTGCTAAGTGCTGATTCCACCGT
* *
7962781 ATCATCGATTAT-AAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
7962823 GTAACGGTTA
Statistics
Matches: 144, Mismatches: 17, Indels: 17
0.81 0.10 0.10
Matches are distributed among these distances:
40 4 0.03
41 24 0.17
42 47 0.33
43 59 0.41
44 10 0.07
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
Found at i:7962754 original size:85 final size:85
Alignment explanation
Indices: 7962611--7962822 Score: 381
Period size: 85 Copynumber: 2.5 Consensus size: 85
7962601 GTGAATCCGC
7962611 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTAACTGTGAAAGGGGTT
1 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTAACTGTGAAAGGGGTT
*
7962676 GCTATGTGCTGATTCCCTGT
66 GCTATGTGCTGATTCCCCGT
*
7962696 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGACTGTGAAAGGGGTT
1 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTAACTGTGAAAGGGGTT
7962761 GCTATGTGCTGATTCCCCGT
66 GCTATGTGCTGATTCCCCGT
* *
7962781 ATCATCGATTAT-AAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
7962823 GTAACGGTTA
Statistics
Matches: 123, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
84 30 0.24
85 93 0.76
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (85 bp):
ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTAACTGTGAAAGGGGTT
GCTATGTGCTGATTCCCCGT
Found at i:7965869 original size:29 final size:29
Alignment explanation
Indices: 7965810--7965893 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 29
7965800 TATAAAAAAA
* *
7965810 TTACATTTTGGCCCCTAAACTTTTTCAAAT
1 TTACATTTTGACCCCT-AACTTTTTTAAAT
*
7965840 TTACATTTTGACCCCTAACTTTTTTGAAT
1 TTACATTTTGACCCCTAACTTTTTTAAAT
* * * * *
7965869 TTGCATCTTAACCCTTAATTTTTTT
1 TTACATTTTGACCCCTAACTTTTTT
7965894 TATAAATTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
29 31 0.67
30 15 0.33
ACGTcount: A:0.24, C:0.21, G:0.06, T:0.49
Consensus pattern (29 bp):
TTACATTTTGACCCCTAACTTTTTTAAAT
Found at i:7966507 original size:25 final size:23
Alignment explanation
Indices: 7966480--7966540 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 23
7966470 AAGAAGAATA
7966480 AAAAAGAGAGAAAAAAGAAAGAAG
1 AAAAAGA-AGAAAAAAGAAAGAAG
*
7966504 AAAAGGAAGAAAAAAGGGAAAG--G
1 AAAAAGAAGAAAAAA--GAAAGAAG
*
7966527 AAAAAGAAGGAAAA
1 AAAAAGAAGAAAAA
7966541 TTTTAACAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 21 0.66
24 6 0.19
25 5 0.16
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (23 bp):
AAAAAGAAGAAAAAAGAAAGAAG
Found at i:7966515 original size:16 final size:17
Alignment explanation
Indices: 7966494--7966540 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
7966484 AGAGAGAAAA
7966494 AAGAAAGAA-GAAAAGG
1 AAGAAAGAAGGAAAAGG
* *
7966510 AAGAAAAAAGGGAAAGG
1 AAGAAAGAAGGAAAAGG
7966527 AA-AAAGAAGGAAAA
1 AAGAAAGAAGGAAAA
7966541 TTTTAACAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 18 0.69
17 8 0.31
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (17 bp):
AAGAAAGAAGGAAAAGG
Found at i:7966523 original size:12 final size:11
Alignment explanation
Indices: 7966479--7966520 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
7966469 GAAGAAGAAT
7966479 AAAAAA-GAGAG
1 AAAAAAGGA-AG
*
7966490 AAAAAAGAAAG
1 AAAAAAGGAAG
7966501 AAGAAAAGGAAG
1 AA-AAAAGGAAG
7966513 AAAAAAGG
1 AAAAAAGG
7966521 GAAAGGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (11 bp):
AAAAAAGGAAG
Found at i:7967401 original size:18 final size:19
Alignment explanation
Indices: 7967380--7967423 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
7967370 TCGTGTTTCT
7967380 AAAATTCTTGTATTTTAAA
1 AAAATTCTTGTATTTTAAA
* *
7967399 AAAATT-TTGTGTTTT-CA
1 AAAATTCTTGTATTTTAAA
7967416 AAAATTCT
1 AAAATTCT
7967424 CATGTTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 7 0.32
18 9 0.41
19 6 0.27
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.48
Consensus pattern (19 bp):
AAAATTCTTGTATTTTAAA
Found at i:7967429 original size:18 final size:18
Alignment explanation
Indices: 7967339--7967544 Score: 142
Period size: 17 Copynumber: 11.5 Consensus size: 18
7967329 AATTTTCTCA
*
7967339 TTTCAAAAATTCTCGCGT
1 TTTCAAAAATTCTCGTGT
* *
7967357 TTCCAAAAAAAAT-TCGTG-
1 TTTC--AAAAATTCTCGTGT
* * *
7967375 TTTCTAAAATTCTTGTAT
1 TTTCAAAAATTCTCGTGT
* *
7967393 TTTAAAAAAATT-TTGTGT
1 TTT-CAAAAATTCTCGTGT
*
7967411 TTTCAAAAATTCTCATG-
1 TTTCAAAAATTCTCGTGT
7967428 TTTCAAAAA-TCTTCGTGT
1 TTTCAAAAATTC-TCGTGT
7967446 TTTC-AAAATT-TCAGTG-
1 TTTCAAAAATTCTC-GTGT
* *
7967462 TTTCAAAAATTTTTGTGT
1 TTTCAAAAATTCTCGTGT
*
7967480 TTTCAAAAAAATTTCCCGTGT
1 TTTC--AAAAA-TTCTCGTGT
* *
7967501 TTTTAAAAATTCTCGT-C
1 TTTCAAAAATTCTCGTGT
*
7967518 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTCTCGTGT
7967536 TTTCAAAAA
1 TTTCAAAAA
7967545 ATTGACCGTT
Statistics
Matches: 146, Mismatches: 25, Indels: 34
0.71 0.12 0.17
Matches are distributed among these distances:
16 13 0.09
17 53 0.36
18 45 0.31
19 15 0.10
20 11 0.08
21 9 0.06
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (18 bp):
TTTCAAAAATTCTCGTGT
Found at i:7967582 original size:56 final size:55
Alignment explanation
Indices: 7967445--7967580 Score: 161
Period size: 56 Copynumber: 2.5 Consensus size: 55
7967435 AATCTTCGTG
* * **
7967445 TTTTCAAAATT-TCAGTGTTTCAAAAATTTTTGTGTTTTCAAAAAAATTTCCCGTGT
1 TTTTAAAAATTCTC-GTGTTTCAAAAATTTTCGTGTTTTCAAAAAAATTGACCG-GT
*
7967501 TTTTAAAAATTCTCGTCTTTCAAAAATTTTCGTGTTTTC-AAAAAATTGACC-GT
1 TTTTAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAAAATTGACCGGT
* *
7967554 TTTTAATAAATTTTTGTGTTTCAAAAA
1 TTTTAA-AAATTCTCGTGTTTCAAAAA
7967581 AAATCCTCGT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
53 8 0.11
54 17 0.24
55 10 0.14
56 33 0.47
57 2 0.03
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (55 bp):
TTTTAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAAAATTGACCGGT
Found at i:7967644 original size:17 final size:18
Alignment explanation
Indices: 7967622--7967657 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
7967612 TTTCAAAAAT
*
7967622 AAATTTTGTGTTT-TAAA
1 AAATTTCGTGTTTCTAAA
7967639 AAATTTCGTGTTTCTAAA
1 AAATTTCGTGTTTCTAAA
7967657 A
1 A
7967658 CTCTTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (18 bp):
AAATTTCGTGTTTCTAAA
Found at i:7970712 original size:19 final size:19
Alignment explanation
Indices: 7970690--7970727 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
7970680 ATTTAATTAT
7970690 TATATT-TAAATATAATTTA
1 TATATTCTAAATA-AATTTA
*
7970709 TATATTCTAATTAAATTTA
1 TATATTCTAAATAAATTTA
7970728 ATAAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TATATTCTAAATAAATTTA
Found at i:7980235 original size:15 final size:15
Alignment explanation
Indices: 7980211--7980314 Score: 145
Period size: 15 Copynumber: 6.9 Consensus size: 15
7980201 TAACTTTGGG
*
7980211 GGTGGCGGCTATGGA
1 GGTGGTGGCTATGGA
*
7980226 GGTGGTGGCTATGGC
1 GGTGGTGGCTATGGA
* *
7980241 GGTGGTGGCTACGGC
1 GGTGGTGGCTATGGA
7980256 GGTGGTGGCTATGGA
1 GGTGGTGGCTATGGA
*
7980271 GGCGGTGGCTATGGA
1 GGTGGTGGCTATGGA
* *
7980286 GGCGGTGGCTATGGT
1 GGTGGTGGCTATGGA
7980301 GGTGGTGGCTATGG
1 GGTGGTGGCTATGG
7980315 CAGAAATGCT
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 81 1.00
ACGTcount: A:0.10, C:0.12, G:0.54, T:0.24
Consensus pattern (15 bp):
GGTGGTGGCTATGGA
Found at i:7985031 original size:23 final size:24
Alignment explanation
Indices: 7984999--7985081 Score: 80
Period size: 23 Copynumber: 3.4 Consensus size: 24
7984989 CATCTCAAAA
*
7984999 AATTATAAAA-AATTAATATATAT
1 AATTAAAAAATAATTAATATATAT
*
7985022 AATTAAAAAATAA-AAATATATAT
1 AATTAAAAAATAATTAATATATAT
**
7985045 AAAAAATAAAAGTAATTAAATATATAT
1 AATTAA-AAAA-TAATT-AATATATAT
7985072 AAATTAAAAA
1 -AATTAAAAA
7985082 TTATTAAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
23 22 0.47
24 6 0.13
25 3 0.06
27 12 0.26
28 4 0.09
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.31
Consensus pattern (24 bp):
AATTAAAAAATAATTAATATATAT
Found at i:7985040 original size:19 final size:19
Alignment explanation
Indices: 7985002--7985055 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 19
7984992 CTCAAAAAAT
* *
7985002 TATAAAAAATTAATATATA
1 TATAAAAAATAAAAATATA
7985021 TAATTAAAAAATAAAAATATA
1 T-A-TAAAAAATAAAAATATA
7985042 TATAAAAAATAAAA
1 TATAAAAAATAAAA
7985056 GTAATTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 13 0.42
20 2 0.06
21 16 0.52
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
TATAAAAAATAAAAATATA
Found at i:7985079 original size:25 final size:24
Alignment explanation
Indices: 7984998--7985098 Score: 73
Period size: 25 Copynumber: 4.1 Consensus size: 24
7984988 ACATCTCAAA
*
7984998 AAATTATAAAAAATT-AATATATAT
1 AAATTA-AAATAATTAAATATATAT
*
7985022 -AATTAAAA-AATAAAAATATATAT
1 AAATTAAAATAAT-TAAATATATAT
*
7985045 AAAAAATAAAAGTAATTAAATATATAT
1 --AAATTAAAA-TAATTAAATATATAT
* * *
7985072 AAATTAAAAATTATTAAAAAAATAT
1 AAATT-AAAATAATTAAATATATAT
7985097 AA
1 AA
7985099 TAAAAACAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
21 3 0.05
22 3 0.05
23 14 0.23
25 18 0.29
26 11 0.18
27 10 0.16
28 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (24 bp):
AAATTAAAATAATTAAATATATAT
Found at i:7985096 original size:27 final size:28
Alignment explanation
Indices: 7984996--7985102 Score: 84
Period size: 27 Copynumber: 3.9 Consensus size: 28
7984986 TTACATCTCA
*
7984996 AAAAATTATAAAAAATTAATATATATAATT
1 AAAAATTATTAAAAA-TAATATATA-AATT
* *
7985026 AAAAA--A-TAAAAATATATATAAAAAAT
1 AAAAATTATTAAAAATA-ATATATAAATT
* *
7985052 AAAAGTAATT--AAAT-ATATATAAATT
1 AAAAATTATTAAAAATAATATATAAATT
7985077 AAAAATTATTAAAAA-AATATAATAAA
1 AAAAATTATTAAAAATAATAT-ATAAA
7985103 AACAAACCTT
Statistics
Matches: 61, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
25 17 0.28
26 9 0.15
27 22 0.36
28 7 0.11
29 1 0.02
30 5 0.08
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (28 bp):
AAAAATTATTAAAAATAATATATAAATT
Found at i:7985312 original size:21 final size:21
Alignment explanation
Indices: 7985286--7985326 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
7985276 CCTAATCCCA
7985286 TAATTT-TCAAAAAAAATTACC
1 TAATTTAT-AAAAAAAATTACC
7985307 TAATTTGATAAAAAAAATTA
1 TAATTT-ATAAAAAAAATTA
7985327 TTTTCGGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 11 0.61
23 1 0.06
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (21 bp):
TAATTTATAAAAAAAATTACC
Found at i:8011248 original size:15 final size:15
Alignment explanation
Indices: 8011228--8011261 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
8011218 AAAGAAAGTC
8011228 CAAACTTAATGTCCA
1 CAAACTTAATGTCCA
*
8011243 CAAACTTAATGTCCT
1 CAAACTTAATGTCCA
8011258 CAAA
1 CAAA
8011262 ACCAGTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.26, G:0.06, T:0.26
Consensus pattern (15 bp):
CAAACTTAATGTCCA
Found at i:8015061 original size:50 final size:50
Alignment explanation
Indices: 8014946--8015194 Score: 300
Period size: 50 Copynumber: 4.8 Consensus size: 50
8014936 GATAATAACA
* * ** * *
8014946 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
8014997 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
8015047 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
8015097 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTC---TCATC-T-CGG
* *
8015152 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
8015195 TTACCCAAAT
Statistics
Matches: 172, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
50 94 0.55
51 33 0.19
53 4 0.02
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:8015132 original size:100 final size:104
Alignment explanation
Indices: 8014945--8015194 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 104
8014935 TGATAATAAC
* ** * *
8014945 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* *
8015010 TCCCAGACATGGTCTTATAGGGGACCTC-TCATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTTCATCTTAAGG
*
8015047 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
*
8015111 CCCAGACATGGTCTTACAGGGGACCTCTTATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACCTC-T-TCATCTTAAGG
*
8015152 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
8015195 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
100 48 0.36
101 36 0.27
103 4 0.03
104 1 0.01
105 2 0.02
106 41 0.31
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (104 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTTCATCTTAAGG
Found at i:8015310 original size:13 final size:13
Alignment explanation
Indices: 8015289--8015320 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8015279 GCTTGGATCA
*
8015289 TCATCAAATAAAT
1 TCATAAAATAAAT
8015302 TCATAAAATAAAT
1 TCATAAAATAAAT
8015315 TCATAA
1 TCATAA
8015321 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:8018709 original size:23 final size:23
Alignment explanation
Indices: 8018672--8018715 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
8018662 TTACTTGATT
*
8018672 TTTTAGAAACCTTTTTACATTCC
1 TTTTAGAAACCTTTTCACATTCC
**
8018695 TTTTAGAAATTTTTTCACATT
1 TTTTAGAAACCTTTTCACATT
8018716 ATAAGTAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.52
Consensus pattern (23 bp):
TTTTAGAAACCTTTTCACATTCC
Found at i:8018804 original size:77 final size:76
Alignment explanation
Indices: 8018706--8018876 Score: 234
Period size: 76 Copynumber: 2.2 Consensus size: 76
8018696 TTTAGAAATT
* * * * * **
8018706 TTTTCACATTATAAGTAATGTTTCATGTGTTAAGTAATTTTTTAATGTTTTACGAATTACTTAAT
1 TTTTCACATTTTAAGTAATGTTTCATATATAAAGTAATTTTTCAA-AATTTACGAATTACTTAAT
*
8018771 TTCTTAAAAACC
65 TTATTAAAAACC
*
8018783 TTTTCACATTTTAAGTGATGTTTCATATATAAAGTAATTTTTCAAAATTTACGAATTACTTAATT
1 TTTTCACATTTTAAGTAATGTTTCATATATAAAGTAATTTTTCAAAATTTACGAATTACTTAATT
*
8018848 TATTAGAAACC
66 TATTAAAAACC
*
8018859 TTTTCGCATTTTAAGTAA
1 TTTTCACATTTTAAGTAA
8018877 CATTTAATGT
Statistics
Matches: 82, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
76 43 0.52
77 39 0.48
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.47
Consensus pattern (76 bp):
TTTTCACATTTTAAGTAATGTTTCATATATAAAGTAATTTTTCAAAATTTACGAATTACTTAATT
TATTAAAAACC
Found at i:8018869 original size:76 final size:77
Alignment explanation
Indices: 8018697--8018876 Score: 236
Period size: 77 Copynumber: 2.4 Consensus size: 77
8018687 TACATTCCTT
** * * * * * **
8018697 TTAGAAATTTTTTCACATTATAAGTAATGTTTCATGTGTTAAGTAATTTTTTAATGTTTTACGAA
1 TTAGAAACCTTTTCACATTTTAAGTAATGTTTCATATATAAAGTAATTTTTCAATAATTTACGAA
*
8018762 TTACTTAATTTC
66 TTACTTAATTTA
* *
8018774 TTAAAAACCTTTTCACATTTTAAGTGATGTTTCATATATAAAGTAATTTTTCAA-AATTTACGAA
1 TTAGAAACCTTTTCACATTTTAAGTAATGTTTCATATATAAAGTAATTTTTCAATAATTTACGAA
8018838 TTACTTAATTTA
66 TTACTTAATTTA
*
8018850 TTAGAAACCTTTTCGCATTTTAAGTAA
1 TTAGAAACCTTTTCACATTTTAAGTAA
8018877 CATTTAATGT
Statistics
Matches: 88, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
76 43 0.49
77 45 0.51
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (77 bp):
TTAGAAACCTTTTCACATTTTAAGTAATGTTTCATATATAAAGTAATTTTTCAATAATTTACGAA
TTACTTAATTTA
Found at i:8018896 original size:76 final size:76
Alignment explanation
Indices: 8018754--8018901 Score: 206
Period size: 76 Copynumber: 1.9 Consensus size: 76
8018744 TTTTTAATGT
* * ** *
8018754 TTTACGAATTACTTAATTTCTTAAAAACCTTTTCACATTTTAAGTGATGTTTCATATATAAAGTA
1 TTTACGAATTACTTAATTTATTAAAAACCTTTTCACATTTTAAGTAACATTTAATATATAAAGTA
8018819 ATTTTTCAAAA
66 ATTTTTCAAAA
* * * * *
8018830 TTTACGAATTACTTAATTTATTAGAAACCTTTTCGCATTTTAAGTAACATTTAATGTATTATGTA
1 TTTACGAATTACTTAATTTATTAAAAACCTTTTCACATTTTAAGTAACATTTAATATATAAAGTA
8018895 ATTTTTC
66 ATTTTTC
8018902 TTAGAAATCT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
76 62 1.00
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.47
Consensus pattern (76 bp):
TTTACGAATTACTTAATTTATTAAAAACCTTTTCACATTTTAAGTAACATTTAATATATAAAGTA
ATTTTTCAAAA
Found at i:8023730 original size:20 final size:21
Alignment explanation
Indices: 8023702--8023741 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8023692 CGCTTTTTGG
*
8023702 ATAAGATATATT-ATTTAATA
1 ATAAAATATATTAATTTAATA
*
8023722 ATAAAATATTTTAATTTAAT
1 ATAAAATATATTAATTTAAT
8023742 TTTAAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (21 bp):
ATAAAATATATTAATTTAATA
Found at i:8025403 original size:19 final size:21
Alignment explanation
Indices: 8025381--8025427 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
8025371 TTATGAAACT
*
8025381 TAATGCATG-TG-ATGAAATG
1 TAATGCATGATGAATGAAAAG
8025400 TAATGC-TGATGAATGAAAAG
1 TAATGCATGATGAATGAAAAG
8025420 TGAATGCA
1 T-AATGCA
8025428 AAAAGAGGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.09
19 8 0.35
20 8 0.35
21 5 0.22
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.28
Consensus pattern (21 bp):
TAATGCATGATGAATGAAAAG
Found at i:8034543 original size:21 final size:21
Alignment explanation
Indices: 8034519--8034566 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
8034509 AAAAAATATA
*
8034519 TTTTAAACAATTTTCTATACTT
1 TTTTAAACAA-TTTATATACTT
*
8034541 TTTTAAATAATTTATATA-TT
1 TTTTAAACAATTTATATACTT
8034561 TTTTAA
1 TTTTAA
8034567 TAAATATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 7 0.29
22 9 0.38
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTAAACAATTTATATACTT
Found at i:8034547 original size:22 final size:20
Alignment explanation
Indices: 8034514--8034566 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
8034504 TTTTTAAAAA
* *
8034514 ATATATTTTAAACAATTTTCT
1 ATATTTTTTAAACAA-TTTAT
*
8034535 ATACTTTTTTAAATAATTTAT
1 ATA-TTTTTTAAACAATTTAT
8034556 ATATTTTTTAA
1 ATATTTTTTAA
8034567 TAAATATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.29
21 10 0.36
22 10 0.36
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATTTTTTAAACAATTTAT
Found at i:8036260 original size:18 final size:18
Alignment explanation
Indices: 8036237--8036273 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8036227 TTAGTAATAC
* *
8036237 TTTTATCTCAAATGTATT
1 TTTTATCCCAAAAGTATT
8036255 TTTTATCCCAAAAGTATT
1 TTTTATCCCAAAAGTATT
8036273 T
1 T
8036274 CTGAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.51
Consensus pattern (18 bp):
TTTTATCCCAAAAGTATT
Found at i:8056435 original size:18 final size:19
Alignment explanation
Indices: 8056407--8056455 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
8056397 AAGTTTATAA
* *
8056407 TATTTTATATTATGTTATT
1 TATTATATATTATGTAATT
8056426 T-TTATATATTATGTAATT
1 TATTATATATTATGTAATT
*
8056444 TATTACATATTA
1 TATTATATATTA
8056456 AAAAATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (19 bp):
TATTATATATTATGTAATT
Found at i:8059625 original size:25 final size:27
Alignment explanation
Indices: 8059583--8059634 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 27
8059573 TCATACTTAT
* *
8059583 TATTAAATATATATAAATTTTAGTATA
1 TATTAAATATATATAAATATTAATATA
*
8059610 TATTTAATAT-TA-AAATATTAATATA
1 TATTAAATATATATAAATATTAATATA
8059635 AATATTTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 11 0.50
26 2 0.09
27 9 0.41
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (27 bp):
TATTAAATATATATAAATATTAATATA
Found at i:8059639 original size:27 final size:27
Alignment explanation
Indices: 8059609--8059699 Score: 73
Period size: 27 Copynumber: 3.4 Consensus size: 27
8059599 ATTTTAGTAT
8059609 ATATTTAATATTAAAATATTAATATAA
1 ATATTTAATATTAAAATATTAATATAA
* * *
8059636 ATATTT-TTCAATAAAATA-TAA-AAAA
1 ATATTTAAT-ATTAAAATATTAATATAA
* *
8059661 GATTATTTAAAATTCAAA-ATTAATATAA
1 -A-TATTTAATATTAAAATATTAATATAA
8059689 ATATTATAATA
1 ATATT-TAATA
8059700 AAATTGTAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
25 3 0.06
26 10 0.21
27 32 0.67
28 3 0.06
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (27 bp):
ATATTTAATATTAAAATATTAATATAA
Found at i:8060868 original size:31 final size:29
Alignment explanation
Indices: 8060830--8060911 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 29
8060820 AAATATTAAA
8060830 ATTATACATGAATTTTAATTTAATGTGTAAT
1 ATTATACATGAATTTTAATTT--TGTGTAAT
* *
8060861 ATTATACAGGATTTTTAATTTTGTGTAAT
1 ATTATACATGAATTTTAATTTTGTGTAAT
* * *
8060890 TTTATAAATGAAATTTTGATTT
1 ATTATACATG-AATTTTAATTT
8060912 GGTTTAATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 15 0.35
30 9 0.21
31 19 0.44
ACGTcount: A:0.35, C:0.02, G:0.11, T:0.51
Consensus pattern (29 bp):
ATTATACATGAATTTTAATTTTGTGTAAT
Found at i:8061084 original size:32 final size:32
Alignment explanation
Indices: 8061048--8061108 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
8061038 TGTGTACAGT
*
8061048 TGAACCAAAATCAAAGTTTCATGTATATATTA
1 TGAACCAAAATCAAAGTTTCATCTATATATTA
** **
8061080 TGAACCGCAATTTAAGTTTCATCTATATA
1 TGAACCAAAATCAAAGTTTCATCTATATA
8061109 ATGGCACCAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (32 bp):
TGAACCAAAATCAAAGTTTCATCTATATATTA
Found at i:8064730 original size:31 final size:31
Alignment explanation
Indices: 8064671--8064733 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
8064661 ATTTCAATCA
*
8064671 TTATACTTTTCGAATTGGTAAATTTTAGTCC
1 TTATACTTTTCGAATTGGTAAATATTAGTCC
**
8064702 TTATACTTTTC-AATTTTTGAAATATTAGTCC
1 TTATACTTTTCGAATTGGT-AAATATTAGTCC
8064733 T
1 T
8064734 GGCTCAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.51
Consensus pattern (31 bp):
TTATACTTTTCGAATTGGTAAATATTAGTCC
Found at i:8064793 original size:34 final size:33
Alignment explanation
Indices: 8064754--8064821 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 33
8064744 ATAGCAGTTA
8064754 AATCATTTTAAGTCCTATACTTTTCAAAAATTTG
1 AATCATTTTAAGTCCTATACTTTTC-AAAATTTG
*
8064788 AATCATTTTAAGTCCTATACTTTTCGAAATTTG
1 AATCATTTTAAGTCCTATACTTTTCAAAATTTG
8064821 A
1 A
8064822 TGATCCATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 8 0.24
34 25 0.76
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (33 bp):
AATCATTTTAAGTCCTATACTTTTCAAAATTTG
Found at i:8074990 original size:4 final size:4
Alignment explanation
Indices: 8074981--8075006 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
8074971 GGCAGCTTTC
8074981 TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TA
8075007 TATATCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:8083269 original size:12 final size:12
Alignment explanation
Indices: 8083252--8083279 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
8083242 CTAAATCCTT
8083252 TCTCTAATATTC
1 TCTCTAATATTC
8083264 TCTCTAATATTC
1 TCTCTAATATTC
8083276 TCTC
1 TCTC
8083280 AAATTCCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (12 bp):
TCTCTAATATTC
Found at i:8084503 original size:7 final size:7
Alignment explanation
Indices: 8084491--8084516 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8084481 TAGTCGATTG
8084491 GTATTTA
1 GTATTTA
8084498 GTATTTA
1 GTATTTA
8084505 GTATTTA
1 GTATTTA
8084512 GTATT
1 GTATT
8084517 ATGTATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:8086444 original size:25 final size:25
Alignment explanation
Indices: 8086410--8086459 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
8086400 GTAGCTCCAG
8086410 ATAAAAATAATTTAGTGACTCTGAC
1 ATAAAAATAATTTAGTGACTCTGAC
8086435 ATAAAAATAATTTAGTGACTCTGAC
1 ATAAAAATAATTTAGTGACTCTGAC
8086460 TCGGATAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (25 bp):
ATAAAAATAATTTAGTGACTCTGAC
Found at i:8086891 original size:46 final size:40
Alignment explanation
Indices: 8086838--8087139 Score: 230
Period size: 37 Copynumber: 7.7 Consensus size: 40
8086828 TTTGAGTACT
8086838 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGT-GT-GC--TA--TACACTTA
* *
8086884 TCTGATCACG-AAACAAAGTGATAAGTG-G-T-TACACTTA
1 TCTGATCAAGTGAA-AAAGTGATAAGTGTGCTATACACTTA
* *
8086921 TCTGATCACG-AAATAAAGTGATAAGTG-G-T-TACACTTA
1 TCTGATCAAGTGAA-AAAGTGATAAGTGTGCTATACACTTA
*
8086958 TCTGATCAAGTGACAAAGTGATAA--GTGCTA-A-ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGTGCTATACACTTA
* *
8086994 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGT-GT-GC--TA--TACACTTA
*
8087040 TCTGATCAAGTGACAAAGTGATAA--GTGC--TACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGTGCTATACACTTA
**
8087076 TCTGATCAAGTGGCAAAGTGATAAGTG-G-T-TACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGTGCTATACACTTA
*
8087113 TCTGATCAAG-AAACAAAGTGATAAGTG
1 TCTGATCAAGTGAA-AAAGTGATAAGTG
8087140 ATCATACGTA
Statistics
Matches: 225, Mismatches: 12, Indels: 47
0.79 0.04 0.17
Matches are distributed among these distances:
35 1 0.00
36 60 0.27
37 97 0.43
38 2 0.01
39 2 0.01
40 3 0.01
42 4 0.02
43 3 0.01
45 4 0.02
46 49 0.22
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (40 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGTGCTATACACTTA
Found at i:8086917 original size:37 final size:37
Alignment explanation
Indices: 8086876--8087139 Score: 316
Period size: 37 Copynumber: 6.9 Consensus size: 37
8086866 TAGCTTTAGC
* *
8086876 TACACTTATCTGATCACGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
* * *
8086913 TACACTTATCTGATCACGAAATAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
* *
8086950 TACACTTATCTGATCAAGTGACAAAGTGATAAGT-GC
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
*
8086986 TAAACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGT-G--G---T
* *
8087029 AGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT-GC
1 ---TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
* *
8087068 TACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
*
8087105 TACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTG
8087140 ATCATACGTA
Statistics
Matches: 199, Mismatches: 17, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
36 66 0.33
37 99 0.50
40 1 0.01
42 1 0.01
46 32 0.16
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
Found at i:8087093 original size:82 final size:82
Alignment explanation
Indices: 8086838--8087104 Score: 345
Period size: 82 Copynumber: 3.4 Consensus size: 82
8086828 TTTGAGTACT
* * * **
8086838 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCACGAAACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
* *
8086903 GATAAGTGGTTACACTTA
66 GATAAGT-GCTAAACTTA
* * *
8086921 TCTGATCACGAAATAAAGTGATAAGT-G--G---T---TACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
8086977 GATAAGTGCTAAACTTA
66 GATAAGTGCTAAACTTA
8086994 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
*
8087059 GATAAGTGCTACACTTA
66 GATAAGTGCTAAACTTA
* *
8087076 TCTGATCAAGTGGCAAAGTGATAAGTGGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGT
8087105 TACACTTATC
Statistics
Matches: 160, Mismatches: 15, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
73 31 0.19
74 32 0.20
76 1 0.01
77 1 0.01
79 1 0.01
80 1 0.01
82 71 0.44
83 22 0.14
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGCTAAACTTA
Found at i:8088139 original size:18 final size:18
Alignment explanation
Indices: 8088098--8088132 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8088088 GCCAAGGGCG
*
8088098 TATCCTAACCCTTTTATA
1 TATCCTAACCCTTATATA
8088116 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
8088133 GTTTCCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:8092164 original size:97 final size:96
Alignment explanation
Indices: 8092051--8092280 Score: 241
Period size: 96 Copynumber: 2.4 Consensus size: 96
8092041 GTAACCCTAC
* * * *
8092051 ACCCCAAACCCTAATTTATTTAAATTTTTACTTAAAAATCCTAAACACTAAACGCTAAACTAATT
1 ACCCTAAACCCTAATTTATTT-AATTTTTACTTAAAAACCCTAAACACTAAACCCTAAACTAAAT
**
8092116 TATTAAAA-ATTTATAATTAGTTTACTT-AAGTA
65 T-TTAAAATATTTATAATTAAATTA-TTCAAGTA
* * * * * *
8092148 ACCTTGAACCCTAATTTATTTGAATTTTTCCTT-AAAACCCTTAACTCTAAACCCTAATCTAAAT
1 ACCCTAAACCCTAATTTATTT-AATTTTTACTTAAAAACCCTAAACACTAAACCCTAAACTAAAT
* *
8092212 TTTAAAATTTTTTTAATTAAATTATTCAAGTA
65 TTTAAAATATTTATAATTAAATTATTCAAGTA
* * * *
8092244 ACCCTAAACCCTAAGTTAATTGATTTTTTCTTAAAAA
1 ACCCTAAACCCTAATTTATTTAATTTTTACTTAAAAA
8092281 ACAATAAACA
Statistics
Matches: 109, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
95 17 0.16
96 64 0.59
97 28 0.26
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (96 bp):
ACCCTAAACCCTAATTTATTTAATTTTTACTTAAAAACCCTAAACACTAAACCCTAAACTAAATT
TTAAAATATTTATAATTAAATTATTCAAGTA
Found at i:8092422 original size:15 final size:15
Alignment explanation
Indices: 8092380--8092427 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
8092370 TTTTCCTCTT
* *
8092380 AAACCCTAAACTTAA
1 AAACCCTAACCCTAA
*
8092395 AAACACTAAAACCCTAA
1 AAACCCT--AACCCTAA
8092412 AAACCCTAACCCTAA
1 AAACCCTAACCCTAA
8092427 A
1 A
8092428 CTAATAACCC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 15 0.56
17 12 0.44
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (15 bp):
AAACCCTAACCCTAA
Found at i:8096355 original size:25 final size:25
Alignment explanation
Indices: 8096321--8096369 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
8096311 ATATCAAAAT
8096321 AATAATA-TTTTTATCAAAAAATAAC
1 AATAATATTTTTTAT-AAAAAATAAC
8096346 AATAATATTTTTTATAAAAAATAA
1 AATAATATTTTTTATAAAAAATAA
8096370 ATTTAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (25 bp):
AATAATATTTTTTATAAAAAATAAC
Found at i:8099139 original size:19 final size:20
Alignment explanation
Indices: 8099092--8099145 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
8099082 TTTGACAATT
* *
8099092 TTTAAATAATTTTTTATATA
1 TTTATATAAATTTTTATATA
*
8099112 TTT-TTTAAATTTTTA-ATA
1 TTTATATAAATTTTTATATA
*
8099130 TTTATATAAAATTTTA
1 TTTATATAAATTTTTA
8099146 GATTTTATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 6 0.21
19 19 0.68
20 3 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTATATAAATTTTTATATA
Found at i:8100081 original size:17 final size:19
Alignment explanation
Indices: 8100040--8100083 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
8100030 TTTACTCAAA
*
8100040 CTTATTTTTCAAGTCTCAT
1 CTTATTTTTTAAGTCTCAT
8100059 -TT-TTTTTTAA-TCTC-T
1 CTTATTTTTTAAGTCTCAT
8100074 CTTATTTTTT
1 CTTATTTTTT
8100084 GAATGAGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
15 1 0.05
16 6 0.27
17 13 0.59
18 2 0.09
ACGTcount: A:0.16, C:0.16, G:0.02, T:0.66
Consensus pattern (19 bp):
CTTATTTTTTAAGTCTCAT
Found at i:8102484 original size:15 final size:15
Alignment explanation
Indices: 8102464--8102497 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
8102454 TAATTTCATC
8102464 ATTTTAGTAGTTTAT
1 ATTTTAGTAGTTTAT
8102479 ATTTTAGTAGTTTAT
1 ATTTTAGTAGTTTAT
8102494 ATTT
1 ATTT
8102498 CAATCGAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.62
Consensus pattern (15 bp):
ATTTTAGTAGTTTAT
Found at i:8106167 original size:29 final size:27
Alignment explanation
Indices: 8106120--8106177 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
8106110 CTTATTTTTC
*
8106120 AATTAAATTTAGTTCTTAACCTTTTAAAA
1 AATTAAATTTAGATCTTAA--TTTTAAAA
8106149 AATTAAATTTA-ATCATTAATTTTAAAA
1 AATTAAATTTAGATC-TTAATTTTAAAA
8106176 AA
1 AA
8106178 AAGAGTCGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 10 0.37
28 2 0.07
29 15 0.56
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (27 bp):
AATTAAATTTAGATCTTAATTTTAAAA
Found at i:8128536 original size:30 final size:31
Alignment explanation
Indices: 8128491--8128564 Score: 82
Period size: 30 Copynumber: 2.4 Consensus size: 31
8128481 TTAATAGTCT
* * *
8128491 ATATCTTTATAATTTTTA-AAGGGTTAAATTA-
1 ATAT-TTTATCATTTTTAGAA-GGTCAAAATAC
8128522 ATATTTTATCATTTTTAGAAGGTCAAAATAC
1 ATATTTTATCATTTTTAGAAGGTCAAAATAC
8128553 A-ATTTTATCATT
1 ATATTTTATCATT
8128565 ACTAATTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
30 31 0.82
31 7 0.18
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (31 bp):
ATATTTTATCATTTTTAGAAGGTCAAAATAC
Found at i:8139843 original size:4 final size:4
Alignment explanation
Indices: 8139834--8139859 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
8139824 GTTATTATTA
8139834 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
8139860 TTCTCTATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Done.