Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 72 of 136
Found at i:23676069 original size:17 final size:19
Alignment explanation
Indices: 23676037--23676072 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
23676027 AAATCGATAG
23676037 GCATCAAAATTCAACATCT
1 GCATCAAAATTCAACATCT
23676056 GCATC-AAA-TCAACATCT
1 GCATCAAAATTCAACATCT
23676073 TCCTACAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.42, C:0.28, G:0.06, T:0.25
Consensus pattern (19 bp):
GCATCAAAATTCAACATCT
Found at i:23701309 original size:43 final size:43
Alignment explanation
Indices: 23701234--23701375 Score: 189
Period size: 43 Copynumber: 3.3 Consensus size: 43
23701224 AAAGGTGTTA
*
23701234 GTCTTTAGCGGCGTTTTTTGGTATAAGCGCCGCTATAGA-CTAGG
1 GTCTTTAGCGGCG-TTTTTGGTAAAAGCGCCGCTATAGATC-AGG
23701278 GTCTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGG
1 GTCTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGG
* * ***
23701321 GTCTTTAGTGGCGTTTGTGACCGAAA-CGCCGCTATAGATCAGG
1 GTCTTTAGCGGCGTTTTTG-GTAAAAGCGCCGCTATAGATCAGG
23701364 GTCTTTAGCGGC
1 GTCTTTAGCGGC
23701376 ACTTTTCCCA
Statistics
Matches: 89, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
43 72 0.81
44 17 0.19
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (43 bp):
GTCTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGG
Found at i:23701391 original size:43 final size:41
Alignment explanation
Indices: 23701261--23701401 Score: 131
Period size: 43 Copynumber: 3.3 Consensus size: 41
23701251 TTGGTATAAG
* ***
23701261 CGCCGCTATAGA-CTAGGGTCTTTAGCGGCGTTTTTGGTAAAA
1 CGCCGCTATAGATC-AGGGTCTTTAGCGGC-CTTTTACCAAAA
* * *
23701303 GCGCCGCTATAGATCAGGGTCTTTAGTGGCGTTTGTGACCGAAA
1 -CGCCGCTATAGATCAGGGTCTTTAGCGGCCTTT-T-ACCAAAA
*
23701347 CGCCGCTATAGATCAGGGTCTTTAGCGGCACTTTTCCCACAAA
1 CGCCGCTATAGATCAGGGTCTTTAGCGGC-CTTTTACCA-AAA
*
23701390 CGCCGCAATAGA
1 CGCCGCTATAGA
23701402 CCCTGATCTA
Statistics
Matches: 82, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
42 5 0.06
43 70 0.85
44 7 0.09
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (41 bp):
CGCCGCTATAGATCAGGGTCTTTAGCGGCCTTTTACCAAAA
Found at i:23701416 original size:43 final size:43
Alignment explanation
Indices: 23701369--23701529 Score: 191
Period size: 43 Copynumber: 3.7 Consensus size: 43
23701359 TCAGGGTCTT
* * *
23701369 TAGCGGCACTTTTCCCACAAACGCCGC-AATAGACCCTGATCTA
1 TAGCGGCGCTTTTACCAAAAACGCCGCTAA-AGACCCTGATCTA
**** * *
23701412 TAGCGGCGCTTCGGTCACAAACGCCACTAAAGACCCTGATCTA
1 TAGCGGCGCTTTTACCAAAAACGCCGCTAAAGACCCTGATCTA
*
23701455 TAGCGGCGCTTTTACCAAAAACGCCGCTAAATACCCT-AGTCTA
1 TAGCGGCGCTTTTACCAAAAACGCCGCTAAAGACCCTGA-TCTA
*
23701498 TAGCGGCGCTTATACCAAAAACGCCGCTAAAG
1 TAGCGGCGCTTTTACCAAAAACGCCGCTAAAG
23701530 GTATTACTCT
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
42 1 0.01
43 98 0.97
44 2 0.02
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.20
Consensus pattern (43 bp):
TAGCGGCGCTTTTACCAAAAACGCCGCTAAAGACCCTGATCTA
Found at i:23701434 original size:86 final size:86
Alignment explanation
Indices: 23701344--23701508 Score: 199
Period size: 86 Copynumber: 1.9 Consensus size: 86
23701334 TTTGTGACCG
* * * * * * *
23701344 AAACGCCGCTATAGATCAGGGTCTTTAGCGGCACTTTTCCCACAAACGCCGC-AATAGACCCT-G
1 AAACGCCACTAAAGACCAGGATCTATAGCGGCACTTTTACCAAAAACGCCGCTAA-AGACCCTAG
23701407 ATCTATAGCGGCGCTTCGGTCAC
65 -TCTATAGCGGCGCTTCGGTCAC
** * *
23701430 AAACGCCACTAAAGACCCTGATCTATAGCGGCGCTTTTACCAAAAACGCCGCTAAATACCCTAGT
1 AAACGCCACTAAAGACCAGGATCTATAGCGGCACTTTTACCAAAAACGCCGCTAAAGACCCTAGT
23701495 CTATAGCGGCGCTT
66 CTATAGCGGCGCTT
23701509 ATACCAAAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
86 63 0.95
87 3 0.05
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (86 bp):
AAACGCCACTAAAGACCAGGATCTATAGCGGCACTTTTACCAAAAACGCCGCTAAAGACCCTAGT
CTATAGCGGCGCTTCGGTCAC
Found at i:23701571 original size:42 final size:43
Alignment explanation
Indices: 23701456--23701590 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 43
23701446 CCTGATCTAT
* * *
23701456 AGCGGCGCTTTTACCAAAAACGCCGCTAAA--TACCCTAGTCTAT-
1 AGCGGCGCTTATACCAAAAACGCCGCTAAAGCTA--TTACTCT-TC
*
23701499 AGCGGCGCTTATACCAAAAACGCCGCTAAAGGTATTACTCTTC
1 AGCGGCGCTTATACCAAAAACGCCGCTAAAGCTATTACTCTTC
* * * * *
23701542 AGCGGCGCTTCTA-CTAAAGCGCCGGTAAAGCTCTTACTCTTC
1 AGCGGCGCTTATACCAAAAACGCCGCTAAAGCTATTACTCTTC
23701584 AGCGGCG
1 AGCGGCG
23701591 TTTGTGATAT
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
42 32 0.40
43 46 0.57
45 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.23
Consensus pattern (43 bp):
AGCGGCGCTTATACCAAAAACGCCGCTAAAGCTATTACTCTTC
Found at i:23708529 original size:23 final size:23
Alignment explanation
Indices: 23708503--23708550 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
23708493 AAATAGAATA
23708503 TGGCTTTGAGATCAGCATAGTAC
1 TGGCTTTGAGATCAGCATAGTAC
23708526 TGGCTTTGAGATCAGCATAGTAC
1 TGGCTTTGAGATCAGCATAGTAC
23708549 TG
1 TG
23708551 AGCTATCCAT
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:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (23 bp):
TGGCTTTGAGATCAGCATAGTAC
Found at i:23710224 original size:3 final size:3
Alignment explanation
Indices: 23710216--23710279 Score: 85
Period size: 3 Copynumber: 21.3 Consensus size: 3
23710206 AAGCTATTAT
* * *
23710216 ATA ATA ATA AT- ATG ATA AGTA ACA ATG ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA
23710261 ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
23710280 AATTACTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.04
3 49 0.91
4 3 0.06
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:23711207 original size:131 final size:132
Alignment explanation
Indices: 23710972--23711235 Score: 521
Period size: 131 Copynumber: 2.0 Consensus size: 132
23710962 TTTCCTCTTT
23710972 TTTGATTTTAAAGAAGAGAAATCGAAATAAAAAAAAACTATGAAAAGTAAAAGAAAACAGGAGAA
1 TTTGATTTTAAAGAAGAGAAATCGAAATAAAAAAAAACTATGAAAAGTAAAAGAAAACAGGAGAA
23711037 TAAAAGGCAAAATCACCTTGAAACCTTTTTTATTTCTTTTGTTGATATGTGTTTTTTGATACAAA
66 TAAAAGGCAAAATCACCTTGAAACCTTTTTTATTTCTTTTGTTGATATGTGTTTTTTGATACAAA
23711102 AA
131 AA
23711104 TTTGATTTT-AAGAAGAGAAATCGAAATAAAAAAAAACTATGAAAAGTAAAAGAAAACAGGAGAA
1 TTTGATTTTAAAGAAGAGAAATCGAAATAAAAAAAAACTATGAAAAGTAAAAGAAAACAGGAGAA
23711168 TAAAAGGCAAAATCACCTTGAAACCTTTTTTATTTCTTTTGTTGATATGTGTTTTTTGATACAAA
66 TAAAAGGCAAAATCACCTTGAAACCTTTTTTATTTCTTTTGTTGATATGTGTTTTTTGATACAAA
23711233 AA
131 AA
23711235 T
1 T
23711236 CGGAAAAAAG
Statistics
Matches: 132, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
131 123 0.93
132 9 0.07
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.31
Consensus pattern (132 bp):
TTTGATTTTAAAGAAGAGAAATCGAAATAAAAAAAAACTATGAAAAGTAAAAGAAAACAGGAGAA
TAAAAGGCAAAATCACCTTGAAACCTTTTTTATTTCTTTTGTTGATATGTGTTTTTTGATACAAA
AA
Found at i:23712207 original size:3 final size:3
Alignment explanation
Indices: 23712199--23712262 Score: 85
Period size: 3 Copynumber: 21.3 Consensus size: 3
23712189 AAGCTATTAT
* * *
23712199 ATA ATA ATA AT- ATG ATA AGTA ACA ATG ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA
23712244 ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
23712263 AATTACTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.04
3 49 0.91
4 3 0.06
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:23717561 original size:40 final size:40
Alignment explanation
Indices: 23717501--23717581 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
23717491 AGAATTTGTT
* *
23717501 TGCTCTAAAGCCTTGTCCATCTTGTCTATGGGAAGCATGC
1 TGCTCTAAAACCTTGACCATCTTGTCTATGGGAAGCATGC
* *
23717541 TGCTCTAAAACTTTGACCATCTTGTCTATGTGAAGCATGC
1 TGCTCTAAAACCTTGACCATCTTGTCTATGGGAAGCATGC
23717581 T
1 T
23717582 TCTTTTAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (40 bp):
TGCTCTAAAACCTTGACCATCTTGTCTATGGGAAGCATGC
Found at i:23721910 original size:59 final size:59
Alignment explanation
Indices: 23721844--23721993 Score: 182
Period size: 59 Copynumber: 2.5 Consensus size: 59
23721834 TATTTTTAAA
* * *
23721844 AAAATATTACTCAATTACATAAATTACTATAAT-TTT-T-GTGATATTTTGTGTAATTACAT
1 AAAATATTACTCAATTACATAAATTACTACAATATTTATAGTG-T-TTTT-TATAAATACAT
* *
23721903 AAAATATTACTAAATTACATAAATTATTACAATATTTATAGTGTTTTTTATAAATACAT
1 AAAATATTACTCAATTACATAAATTACTACAATATTTATAGTGTTTTTTATAAATACAT
*
23721962 AAAATATTA-TCTAATTACACAAATTACTACAA
1 AAAATATTACTC-AATTACATAAATTACTACAA
23721994 ATCTAATATT
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
58 1 0.01
59 66 0.84
60 7 0.09
61 2 0.03
62 3 0.04
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (59 bp):
AAAATATTACTCAATTACATAAATTACTACAATATTTATAGTGTTTTTTATAAATACAT
Found at i:23721920 original size:20 final size:20
Alignment explanation
Indices: 23721895--23721932 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23721885 TATTTTGTGT
23721895 AATTACATAAAATATTACTA
1 AATTACATAAAATATTACTA
*
23721915 AATTACATAAATTATTAC
1 AATTACATAAAATATTAC
23721933 AATATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (20 bp):
AATTACATAAAATATTACTA
Found at i:23722343 original size:11 final size:11
Alignment explanation
Indices: 23722329--23722376 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
23722319 TTTCTTGCTA
23722329 TTTTTTACTAT
1 TTTTTTACTAT
*
23722340 TTTTTTGCTAT
1 TTTTTTACTAT
* **
23722351 TTTCTTGTTAT
1 TTTTTTACTAT
23722362 TTTTTTCACTAT
1 TTTTTT-ACTAT
23722374 TTT
1 TTT
23722377 GCTACCATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 24 0.80
12 6 0.20
ACGTcount: A:0.12, C:0.10, G:0.04, T:0.73
Consensus pattern (11 bp):
TTTTTTACTAT
Found at i:23722347 original size:21 final size:22
Alignment explanation
Indices: 23722317--23722376 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
23722307 AAACTATTAT
23722317 TTTTTCTTGCTATTTT-TTACTA
1 TTTTT-TTGCTATTTTCTTACTA
**
23722339 TTTTTTTGCTATTTTCTTGTTA
1 TTTTTTTGCTATTTTCTTACTA
*
23722361 TTTTTTTCACTATTTT
1 TTTTTTT-GCTATTTT
23722377 GCTACCATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.30
22 16 0.48
23 7 0.21
ACGTcount: A:0.12, C:0.12, G:0.05, T:0.72
Consensus pattern (22 bp):
TTTTTTTGCTATTTTCTTACTA
Found at i:23722365 original size:23 final size:22
Alignment explanation
Indices: 23722311--23722376 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
23722301 AAAAAAAAAC
23722311 TATTATTTTTTCTTGCTATTTTT
1 TATTATTTTTT-TTGCTATTTTT
*
23722334 TACTA-TTTTTTTGCTATTTTCT
1 TATTATTTTTTTTGCTATTTT-T
* **
23722356 TGTTATTTTTTTCACTATTTT
1 TATTATTTTTTTTGCTATTTT
23722377 GCTACCATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 10 0.28
22 9 0.25
23 17 0.47
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.71
Consensus pattern (22 bp):
TATTATTTTTTTTGCTATTTTT
Found at i:23724669 original size:26 final size:25
Alignment explanation
Indices: 23724640--23724737 Score: 74
Period size: 26 Copynumber: 3.7 Consensus size: 25
23724630 TATCAAAAAT
23724640 AATAAAAGAAATAATAAAATAGTGAA
1 AATAAAAGAAATAATAAAATA-TGAA
* * *
23724666 AATAATAGAAAAAATTAAATAT-AA
1 AATAAAAGAAATAATAAAATATGAA
*
23724690 AATAATAACGATTATAATAAAA-ATGCACA
1 AATAA-AA-GA-AATAATAAAATATG-A-A
23724719 AATAAAAGAATATGAATAA
1 AATAAAAGAA-AT-AATAA
23724738 TCTATTTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
24 7 0.12
25 2 0.04
26 22 0.39
27 11 0.20
28 8 0.14
29 6 0.11
ACGTcount: A:0.66, C:0.03, G:0.08, T:0.22
Consensus pattern (25 bp):
AATAAAAGAAATAATAAAATATGAA
Found at i:23728685 original size:24 final size:24
Alignment explanation
Indices: 23728653--23728700 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
23728643 ATGACTGTTT
23728653 AATAAACCCCAATTGCTATTGGGC
1 AATAAACCCCAATTGCTATTGGGC
23728677 AATAAACCCCAATTGCTATTGGGC
1 AATAAACCCCAATTGCTATTGGGC
23728701 CATTCTGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (24 bp):
AATAAACCCCAATTGCTATTGGGC
Found at i:23730152 original size:21 final size:20
Alignment explanation
Indices: 23730127--23730169 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
23730117 TAACGAGAAT
23730127 AATAACAAACATTAAAAATAA
1 AATAACAAACA-TAAAAATAA
* * *
23730148 AATAATAACCATAATAATAA
1 AATAACAAACATAAAAATAA
23730168 AA
1 AA
23730170 AGACACAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (20 bp):
AATAACAAACATAAAAATAA
Found at i:23731873 original size:13 final size:13
Alignment explanation
Indices: 23731852--23731939 Score: 99
Period size: 13 Copynumber: 6.7 Consensus size: 13
23731842 TTCGGTTATG
23731852 TTGTTTTAATATA
1 TTGTTTTAATATA
*
23731865 GTT-TTTTAATAAA
1 -TTGTTTTAATATA
23731878 TTGTTTTAATATA
1 TTGTTTTAATATA
*
23731891 TTGTTATAATATA
1 TTGTTTTAATATA
*
23731904 CTT-TTATAATTATA
1 -TTGTTTTAA-TATA
23731918 TTGTTTTAATATA
1 TTGTTTTAATATA
*
23731931 ATGTTTTAA
1 TTGTTTTAA
23731940 CTTTTAAATT
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
12 2 0.03
13 50 0.77
14 13 0.20
ACGTcount: A:0.34, C:0.01, G:0.07, T:0.58
Consensus pattern (13 bp):
TTGTTTTAATATA
Found at i:23731928 original size:40 final size:39
Alignment explanation
Indices: 23731852--23731935 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 39
23731842 TTCGGTTATG
* * *
23731852 TTGTTTTAATATAGTTTTTTAATAAATTGTTTTAATATA
1 TTGTTATAATATACTTTTATAATAAATTGTTTTAATATA
*
23731891 TTGTTATAATATACTTTTATAATTATATTGTTTTAATATA
1 TTGTTATAATATACTTTTATAA-TAAATTGTTTTAATATA
*
23731931 ATGTT
1 TTGTT
23731936 TTAACTTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 19 0.49
40 20 0.51
ACGTcount: A:0.33, C:0.01, G:0.07, T:0.58
Consensus pattern (39 bp):
TTGTTATAATATACTTTTATAATAAATTGTTTTAATATA
Found at i:23732129 original size:16 final size:16
Alignment explanation
Indices: 23732108--23732139 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23732098 ATTTTTAATG
23732108 TAATATACTGTTTTAA
1 TAATATACTGTTTTAA
23732124 TAATATACTGTTTTAA
1 TAATATACTGTTTTAA
23732140 AATTTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (16 bp):
TAATATACTGTTTTAA
Found at i:23733266 original size:115 final size:112
Alignment explanation
Indices: 23733070--23733291 Score: 345
Period size: 115 Copynumber: 2.0 Consensus size: 112
23733060 TAAAAATCAC
* **
23733070 AAAACCCCCAAAAACTTTTGATTTTTTTTGGTTTCGAAAACCCTAAAAATCACCAAACCCTCTAC
1 AAAAACCCCAAAAACTTTCAATTTTTTTTGGTTTCGAAAACCCTAAAAATCACCAAACCCTCTAC
* *
23733135 CCACGGCGGCGAAGTACAAACTTTCAGTGAGTTTTTTTGAAAATCGT
66 CCACGGCGGCGAAGTACAAACGTTCAGTAAGTTTTTTTGAAAATCGT
*
23733182 AAAAACCCCAAAAACTTTCAATTTTGTTTTTGGGTTTTGAAAACCCTAAAAATCACCAAACCCTC
1 AAAAACCCCAAAAACTTTCAA-TTT-TTTTT-GGTTTCGAAAACCCTAAAAATCACCAAACCCTC
* *
23733247 TACCCACGGCGGTGGAGTACAAACGTTCAGTAAGTTTTTTTGAAA
63 TACCCACGGCGGCGAAGTACAAACGTTCAGTAAGTTTTTTTGAAA
23733292 CCTTTCTCTC
Statistics
Matches: 99, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
112 18 0.18
113 3 0.03
114 5 0.05
115 73 0.74
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (112 bp):
AAAAACCCCAAAAACTTTCAATTTTTTTTGGTTTCGAAAACCCTAAAAATCACCAAACCCTCTAC
CCACGGCGGCGAAGTACAAACGTTCAGTAAGTTTTTTTGAAAATCGT
Found at i:23734063 original size:10 final size:10
Alignment explanation
Indices: 23734033--23734065 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
23734023 GCCCAATACC
23734033 TTAAACCCAAA
1 TTAAACCC-AA
23734044 TT-AACCCAA
1 TTAAACCCAA
23734053 TTAAACCCAA
1 TTAAACCCAA
23734063 TTA
1 TTA
23734066 TATTGGCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.19
10 15 0.71
11 2 0.10
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.24
Consensus pattern (10 bp):
TTAAACCCAA
Found at i:23736168 original size:10 final size:10
Alignment explanation
Indices: 23736139--23736187 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
23736129 CCAGAGAAAC
23736139 TTTTTATTTTA
1 TTTTT-TTTTA
* *
23736150 GTTTGTTTTA
1 TTTTTTTTTA
23736160 TTTTTTTTTA
1 TTTTTTTTTA
*
23736170 TTTTTTTTTG
1 TTTTTTTTTA
23736180 TTTTTTTT
1 TTTTTTTT
23736188 CATTCGGTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
10 30 0.91
11 3 0.09
ACGTcount: A:0.08, C:0.00, G:0.06, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:23736170 original size:25 final size:24
Alignment explanation
Indices: 23736139--23736187 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
23736129 CCAGAGAAAC
23736139 TTTTTATTTTAGTTTGTTTTATTTT
1 TTTTTATTTTAGTTTGTTTT-TTTT
**
23736164 TTTTTATTTTTTTTTGTTTTTTTT
1 TTTTTATTTTAGTTTGTTTTTTTT
23736188 CATTCGGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.08, C:0.00, G:0.06, T:0.86
Consensus pattern (24 bp):
TTTTTATTTTAGTTTGTTTTTTTT
Found at i:23736662 original size:21 final size:20
Alignment explanation
Indices: 23736608--23736663 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
23736598 ATATTTATCA
* *
23736608 TTATACCATTATTTATTATTG
1 TTATATCATTA-TTATTATGG
*
23736629 TTATATTATTTATTATTATGG
1 TTATATCA-TTATTATTATGG
23736650 TTATTATCATTATT
1 TTA-TATCATTATT
23736664 TCTATATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 22 0.76
22 7 0.24
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (20 bp):
TTATATCATTATTATTATGG
Found at i:23736766 original size:25 final size:26
Alignment explanation
Indices: 23736693--23736782 Score: 87
Period size: 25 Copynumber: 3.5 Consensus size: 26
23736683 GGTTTTTACA
*
23736693 ATATATATATATATATGCATTTTTTT
1 ATATATATATATATACGCATTTTTTT
* * * * *
23736719 -TATGTAT-TAAACACACATATTTTT
1 ATATATATATATATACGCATTTTTTT
23736743 ATATATA-ATATATACGCATTTTTTT
1 ATATATATATATATACGCATTTTTTT
*
23736768 AAAATATATATATAT
1 -ATATATATATATAT
23736783 TTTAAAGCTT
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
24 12 0.25
25 24 0.50
26 6 0.12
27 6 0.12
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (26 bp):
ATATATATATATATACGCATTTTTTT
Found at i:23748570 original size:132 final size:133
Alignment explanation
Indices: 23748384--23748743 Score: 528
Period size: 132 Copynumber: 2.7 Consensus size: 133
23748374 TCATAGATAC
*
23748384 CAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTATCTTCATGTAC
1 CAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTATCTTCATGTAC
* *
23748449 TGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTATATCGGTAGCG-AGGGGATCGAAT
66 TGGCGTGAAGTAGATCAAAGATAGCAGATCCTATCTTCCTATATCGGTAGCGAAGGGGATCGAAT
23748513 ATA
131 ATA
* * * *
23748516 CAGATCTTGTC-TCCCTATACTGGTGGTGGAA-TAGATCGAAGAAAACATATCTTATCTTCATGT
1 CAGATCTTGCCTTCCC-ATACTGGTGGT-GAAGCAGATCGAAGAAAGCAGATCTTATCTTCATGT
* * * *
23748579 ACTGGTGTGAAGTAGATCAAAGATAGCAGATCCTATCTTTCTATATTGGTAGCGAAGTGGATCGA
64 ACTGGCGTGAAGTAGATCAAAGATAGCAGATCCTATCTTCCTATATCGGTAGCGAAGGGGATCGA
23748644 ATATA
129 ATATA
* * *
23748649 CAAATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTAC
1 CAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTATCTTCATGTAC
* * *
23748714 TGGCGTGATGTAGATCAGAGATACCAGATC
66 TGGCGTGAAGTAGATCAAAGATAGCAGATC
23748744 TTGCCTTCCC
Statistics
Matches: 201, Mismatches: 22, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
131 4 0.02
132 101 0.50
133 92 0.46
134 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (133 bp):
CAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTATCTTCATGTAC
TGGCGTGAAGTAGATCAAAGATAGCAGATCCTATCTTCCTATATCGGTAGCGAAGGGGATCGAAT
ATA
Found at i:23748767 original size:133 final size:132
Alignment explanation
Indices: 23748387--23748768 Score: 518
Period size: 133 Copynumber: 2.9 Consensus size: 132
23748377 TAGATACCAG
*
23748387 ATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTATCTTCATGTACTGG
1 ATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTATCTTCATGTACTGG
*
23748452 CGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTATATCGGTAGCG-AGGGGATCGAATATA
66 CGTGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCTATAT-GGTAGCGAAGGGGATCGAATATA
*
23748516 CAG
130 CAA
* * * *
23748519 ATCTTGTC-TCCCTATACTGGTGGTGGAA-TAGATCGAAGAAAACATATCTTATCTTCATGTACT
1 ATCTTGCCTTCCC-ATACTGGTGGT-GAAGCAGATCGAAGAAAGCAGATCTTATCTTCATGTACT
* * * *
23748582 GGTGTGAAGTAGATCAAAGATAGCAGATCCTATCTTTCTATATTGGTAGCGAAGTGGATCGAATA
64 GGCGTGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCTATA-TGGTAGCGAAGGGGATCGAATA
23748647 TACAA
128 TACAA
* *
23748652 ATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGG
1 ATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTATCTTCATGTACTGG
* * * * * * *
23748717 CGTGATGTAGATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAG
66 CGTGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCTATA-TGGTAGCGAAG
23748769 CAGATCAAAG
Statistics
Matches: 216, Mismatches: 28, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
131 4 0.02
132 97 0.45
133 111 0.51
134 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
ATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAGAAAGCAGATCTTATCTTCATGTACTGG
CGTGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCTATATGGTAGCGAAGGGGATCGAATATAC
AA
Found at i:23748808 original size:89 final size:89
Alignment explanation
Indices: 23748332--23748825 Score: 414
Period size: 89 Copynumber: 5.6 Consensus size: 89
23748322 GAGCAGGTTG
* * * *
23748332 AAAGATAA-CAGATCCTGTCTTCATGTACTGGCTTGAAGTAGATCATAGATACCAGATCTTGCCT
1 AAAGA-AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCT
23748396 TCCCATACTGGTGGCGAAGCAGATC
65 TCCCATACTGGTGGCGAAGCAGATC
* * * * * * *
23748421 GAAGAAAGCAGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTT
* * **
23748486 CCTATA-TCGGTAGCG-AGGGGATC
66 CCCATACT-GGTGGCGAAGCAGATC
* * * * * * * * * **
23748509 GAATATA-CAGATCTTGTCTCCCTATACTGGTGGTGGAA-TAGATC-GAAGAAAACATATCTTAT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGG-CGT-GAAGTAGATCAG-AGATAACAGATCTTGC
*** * *
23748571 CTTCATGTACTGGT-GTGAAGTAGATC
63 CTTCCCATACTGGTGGCGAAGCAGATC
* * * * * * * * *
23748597 AAAGATAGCAGATCCTATCTTTC-TATATTGGTAGCGAAGTGGATC-GA-ATATACAAATCTTGC
1 AAAGAAAGCAGATCTTGTC-TTCATGTACTGG-CGTGAAGTAGATCAGAGATA-ACAGATCTTGC
*
23748659 CTTCCCATACTGGTGGTGAAGCAGATC
63 CTTCCCATACTGGTGGCGAAGCAGATC
* *
23748686 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGATGTAGATCAGAGATACCAGATCTTGCCTT
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTT
23748751 CCCATACTGGTGGCGAAGCAGATC
66 CCCATACTGGTGGCGAAGCAGATC
* * ** *
23748775 AAAGAAAGCAGATCTTGTTTTCATGTACCGGCGTGAAACAGATCAAAGATA
1 AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATA
23748826 GTAGGTCTTG
Statistics
Matches: 323, Mismatches: 67, Indels: 30
0.77 0.16 0.07
Matches are distributed among these distances:
87 23 0.07
88 88 0.27
89 207 0.64
90 5 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (89 bp):
AAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGCCTT
CCCATACTGGTGGCGAAGCAGATC
Found at i:23748811 original size:133 final size:132
Alignment explanation
Indices: 23748384--23748823 Score: 490
Period size: 133 Copynumber: 3.3 Consensus size: 132
23748374 TCATAGATAC
* * * *
23748384 CAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTATCTTCATGTAC
1 CAGATCTTGTCTTCCTATACTGGTGGTGAAGCAGATCAAAGAAAGCAGATCTTATCTTCATGTAC
* *
23748449 TGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTATATCGGTAGCG-AGGGGATCGAAT
66 TGGCGTGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCTATAT-GGTAGCGAAGCGGATCGAAT
23748513 ATA
130 ATA
* * * * *
23748516 CAGATCTTGTCTCCCTATACTGGTGGTGGAA-TAGATCGAAGAAAACATATCTTATCTTCATGTA
1 CAGATCTTGTCTTCCTATACTGGTGGT-GAAGCAGATCAAAGAAAGCAGATCTTATCTTCATGTA
* * * *
23748580 CTGGTGTGAAGTAGATCAAAGATAGCAGATCCTATCTTTCTATATTGGTAGCGAAGTGGATCGAA
65 CTGGCGTGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCTATA-TGGTAGCGAAGCGGATCGAA
23748645 TATA
129 TATA
* * * *
23748649 CAAATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTAC
1 CAGATCTTGTCTTCCTATACTGGTGGTGAAGCAGATCAAAGAAAGCAGATCTTATCTTCATGTAC
* * * * * * * * * *
23748714 TGGCGTGATGTAGATCAGAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAG
66 TGGCGTGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCTATA-TGGTAGCGAAGCGGATCGAAT
*
23748779 AAA
130 ATA
* * * * * *
23748782 GCAGATCTTGTTTTCATGTACCGG-CGTGAAACAGATCAAAGA
1 -CAGATCTTGTCTTCCTATACTGGTGGTGAAGCAGATCAAAGA
23748824 TAGTAGGTCT
Statistics
Matches: 257, Mismatches: 46, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
132 103 0.40
133 138 0.54
134 16 0.06
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (132 bp):
CAGATCTTGTCTTCCTATACTGGTGGTGAAGCAGATCAAAGAAAGCAGATCTTATCTTCATGTAC
TGGCGTGAAGTAGATCAAAGATAGCAGATCCTGTCTTCCTATATGGTAGCGAAGCGGATCGAATA
TA
Found at i:23748854 original size:222 final size:223
Alignment explanation
Indices: 23748516--23748930 Score: 530
Period size: 222 Copynumber: 1.9 Consensus size: 223
23748506 ATCGAATATA
* * * * *
23748516 CAGATCTTGTCTCCCTATACTGGTGGTGGAATAGATCGAAGAAAACATATCTTATCTTCATGTAC
1 CAGATCTTGCCTCCCTATACTGGTGGTCGAACAGATCAAAGAAAACAGATCTTATCTTCATGTAC
* * ** * *
23748581 TGGTGTGAAGTAGATCAAAGATAGCAGATCCTATCTTTCTATATTGGTAGCGAAGTGGATCGAAT
66 CGGCGTGAAACAGATCAAAGATAGCAGATCCTATCTTCCTATATCGGTAGCGAAGTGGATCGAAT
* * * *
23748646 ATACAAATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCAAAG-AAAGCAGATCTTGTCTTCAT
131 ATACAAATCTTACCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAAACAGATCTTGCCTTCAT
23748710 GTACTGGCGTGATGTAGATCAGAGATAC
196 GTACTGGCGTGATGTAGATCAGAGATAC
* * *
23748738 CAGATCTTGCCTTCCC-ATACTGGTGG-CGAAGCAGATCAAAGAAAGCAGATCTTGTTTTCATGT
1 CAGATCTTGCC-TCCCTATACTGGTGGTCGAA-CAGATCAAAGAAAACAGATCTTATCTTCATGT
* * * * *
23748801 ACCGGCGTGAAACAGATCAAAGATAGTAGGTCTTGTCTTCCTATATCGGTAGCGAAGTGGATTGA
64 ACCGGCGTGAAACAGATCAAAGATAGCAGATCCTATCTTCCTATATCGGTAGCGAAGTGGATCGA
* * * * * *
23748866 ATATACAGATTTTATCTTCCCATACTGGTGGCGAAGTAGATCGAGGAAAAACAGATCTTGCCTTC
129 ATATACAAATCTTACCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAAACAGATCTTGCCTTC
23748931 CTATACTGAC
Statistics
Matches: 161, Mismatches: 29, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
221 3 0.02
222 138 0.86
223 20 0.12
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (223 bp):
CAGATCTTGCCTCCCTATACTGGTGGTCGAACAGATCAAAGAAAACAGATCTTATCTTCATGTAC
CGGCGTGAAACAGATCAAAGATAGCAGATCCTATCTTCCTATATCGGTAGCGAAGTGGATCGAAT
ATACAAATCTTACCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAAACAGATCTTGCCTTCAT
GTACTGGCGTGATGTAGATCAGAGATAC
Found at i:23750213 original size:5 final size:5
Alignment explanation
Indices: 23750174--23750207 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
23750164 CAGAGAAACT
* *
23750174 TTTTA TTTTA GTTTG TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
23750208 TGTTTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:23750693 original size:21 final size:20
Alignment explanation
Indices: 23750639--23750694 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
23750629 ATATTTATCA
* *
23750639 TTATACCATTATTTATTATTG
1 TTATATCATTA-TTATTATGG
*
23750660 TTATATTATTTATTATTATGG
1 TTATATCA-TTATTATTATGG
23750681 TTATTATCATTATT
1 TTA-TATCATTATT
23750695 TCTATATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 22 0.76
22 7 0.24
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (20 bp):
TTATATCATTATTATTATGG
Found at i:23750797 original size:25 final size:26
Alignment explanation
Indices: 23750724--23750813 Score: 87
Period size: 25 Copynumber: 3.5 Consensus size: 26
23750714 GGTTTTTACA
*
23750724 ATATATATATATATATGCATTTTTTT
1 ATATATATATATATACGCATTTTTTT
* * * * *
23750750 -TATGTAT-TAAACACACATATTTTT
1 ATATATATATATATACGCATTTTTTT
23750774 ATATATA-ATATATACGCATTTTTTT
1 ATATATATATATATACGCATTTTTTT
*
23750799 AAAATATATATATAT
1 -ATATATATATATAT
23750814 TTTAAAGCTT
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
24 12 0.25
25 24 0.50
26 6 0.12
27 6 0.12
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (26 bp):
ATATATATATATATACGCATTTTTTT
Found at i:23753918 original size:8 final size:8
Alignment explanation
Indices: 23753905--23753929 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
23753895 TAATCTGGAA
23753905 AACCAAAC
1 AACCAAAC
23753913 AACCAAAC
1 AACCAAAC
23753921 AACCAAAC
1 AACCAAAC
23753929 A
1 A
23753930 TCCTTATGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (8 bp):
AACCAAAC
Found at i:23757325 original size:16 final size:16
Alignment explanation
Indices: 23757283--23757334 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 16
23757273 NNNNNNGAAG
23757283 TAAAAGTTTAGGGGGAAAA
1 TAAAAGTTT-GGGGG--AA
*
23757302 TAAAAAGTTTTGGGGAA
1 T-AAAAGTTTGGGGGAA
23757319 TAAAAGTTTGGGGGAA
1 TAAAAGTTTGGGGGAA
23757335 AGTAAATAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 14 0.47
17 3 0.10
19 5 0.17
20 8 0.27
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.25
Consensus pattern (16 bp):
TAAAAGTTTGGGGGAA
Found at i:23757732 original size:9 final size:9
Alignment explanation
Indices: 23757712--23757748 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
23757702 TATAGTTTAA
*
23757712 TATTCCAAT
1 TATTCGAAT
*
23757721 TATTCGAGT
1 TATTCGAAT
23757730 TATTCGAAT
1 TATTCGAAT
23757739 TATTCGAAT
1 TATTCGAAT
23757748 T
1 T
23757749 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:23757815 original size:9 final size:9
Alignment explanation
Indices: 23757801--23757831 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
23757791 TCGAGTTGAT
23757801 TCGAATAAC
1 TCGAATAAC
23757810 TCGAATAAC
1 TCGAATAAC
23757819 TCGAATAAC
1 TCGAATAAC
23757828 TCGA
1 TCGA
23757832 TTCGTTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.23
Consensus pattern (9 bp):
TCGAATAAC
Found at i:23758762 original size:9 final size:9
Alignment explanation
Indices: 23758745--23758790 Score: 83
Period size: 9 Copynumber: 5.1 Consensus size: 9
23758735 TGAGTTTTCG
23758745 AATTCGAAT
1 AATTCGAAT
*
23758754 AACTCGAAT
1 AATTCGAAT
23758763 AATTCGAAT
1 AATTCGAAT
23758772 AATTCGAAT
1 AATTCGAAT
23758781 AATTCGAAT
1 AATTCGAAT
23758790 A
1 A
23758791 TGANNNNNNN
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:23759634 original size:5 final size:5
Alignment explanation
Indices: 23759624--23759649 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
23759614 CTAGAAAATT
23759624 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
23759650 CGAATGCTTA
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:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:23759954 original size:23 final size:23
Alignment explanation
Indices: 23759923--23759966 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
23759913 ATTTTAAAAA
23759923 TTTTAAAAA-AAAATGAAAATTAT
1 TTTTAAAAATAAAAT-AAAATTAT
*
23759946 TTTTTAAAATAAAATAAAATT
1 TTTTAAAAATAAAATAAAATT
23759967 GATATGTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
TTTTAAAAATAAAATAAAATTAT
Found at i:23764096 original size:21 final size:21
Alignment explanation
Indices: 23764055--23764116 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 21
23764045 GTTAAAATAC
*
23764055 AATCAACTTTTTAA-ATTTTTA
1 AATCAAATTTTTAATA-TTTTA
*
23764076 CATCAAATTTTTAATATTTTA
1 AATCAAATTTTTAATATTTTA
23764097 AATACATAAATTTTTAATAT
1 AAT-C--AAATTTTTAATAT
23764117 GTTCTGGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 19 0.56
22 2 0.06
24 13 0.38
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (21 bp):
AATCAAATTTTTAATATTTTA
Found at i:23765159 original size:1 final size:1
Alignment explanation
Indices: 23765153--23765185 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
23765143 CTCTTAAAGC
23765153 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
23765186 TACACATGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:23770466 original size:370 final size:371
Alignment explanation
Indices: 23769774--23770468 Score: 1275
Period size: 370 Copynumber: 1.9 Consensus size: 371
23769764 ATATATGTAT
* * *
23769774 CCAAAGATAATATGAAAGAAATTGTATGGAGCATTTACCTAAAAACAACATAAAATAAGTTGTAG
1 CCAAAGATAACATGAAAGAAATTGTAAGGAGCATTTACCTAAAAACAACAAAAAATAAGTTGTAG
23769839 GAAGCCACAAGGAGATGAATTTGATCTAAGGGATATAGAATTGGTATTGCATATTTAGGTTGCAG
66 GAAGCCACAAGGAGATGAATTTGATCTAAGGGATATAGAATTGGTATTGCATATTTAGGTTGCAG
* *
23769904 AATTGTGACTACAAAATCTAAGTTACATAATCTGAGGTTTATGGCTGCAGAATTGATGTTGCATT
131 AATTGTGACTACAAAATCTAAGTTACATAATCTGAGGTTTATGGCTGCAAAATTGAGGTTGCATT
*
23769969 TCATGGTCATAAAATCATTATCACATAATCATCATAGAATTAAGGTTGCAAAATTGTCACCACAA
196 TCATGGTCATAAAATCATTATCACATAATCATCATAGAAATAAGGTTGCAAAATTGTCACCACAA
23770034 AATTTGAGCTACAAAATATGAGTGTTGATGGAACTTTAAGAGACCCAAAAATAACATGAGTATTG
261 AATTTGAGCTACAAAATATGAGTGTTGATGGAACTTTAAGAGACCCAAAAATAACATGAGTATTG
23770099 AAGGAGCTTCAAGAAGCCAAAAAATAAAGGAAGCTTCAAAAAAAAA
326 AAGGAGCTTCAAGAAGCCAAAAAATAAAGGAAGCTTCAAAAAAAAA
*
23770145 CCAAA-ATAACATGAAAGAAATTGTAAGGAGCATTTACCTAAAAACAACAAAAAATAGGTTGTAG
1 CCAAAGATAACATGAAAGAAATTGTAAGGAGCATTTACCTAAAAACAACAAAAAATAAGTTGTAG
* *
23770209 GAAGCCACAAGGAGATGAATTTGATCTAAGGGATATAGAATTGGTATTGTATATTTGGGTTGCAG
66 GAAGCCACAAGGAGATGAATTTGATCTAAGGGATATAGAATTGGTATTGCATATTTAGGTTGCAG
*
23770274 AATTGTGACTACAAACTCTAAGTTACATAATCTGAGGTTTATGGCTGCAAAATTGAGGTTGCATT
131 AATTGTGACTACAAAATCTAAGTTACATAATCTGAGGTTTATGGCTGCAAAATTGAGGTTGCATT
*
23770339 TCATGGTCATAAAATCATTATCACATAATCATCATAGAAATAGGGTTGCAAAATTGTCACCACAA
196 TCATGGTCATAAAATCATTATCACATAATCATCATAGAAATAAGGTTGCAAAATTGTCACCACAA
*
23770404 AATTTGAGCTACAAAATATGAGTGTTGATGGAACTTTAGGAGACCCAAAAATAACATGAGTATTG
261 AATTTGAGCTACAAAATATGAGTGTTGATGGAACTTTAAGAGACCCAAAAATAACATGAGTATTG
23770469 GGCTGCAATT
Statistics
Matches: 312, Mismatches: 12, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
370 307 0.98
371 5 0.02
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (371 bp):
CCAAAGATAACATGAAAGAAATTGTAAGGAGCATTTACCTAAAAACAACAAAAAATAAGTTGTAG
GAAGCCACAAGGAGATGAATTTGATCTAAGGGATATAGAATTGGTATTGCATATTTAGGTTGCAG
AATTGTGACTACAAAATCTAAGTTACATAATCTGAGGTTTATGGCTGCAAAATTGAGGTTGCATT
TCATGGTCATAAAATCATTATCACATAATCATCATAGAAATAAGGTTGCAAAATTGTCACCACAA
AATTTGAGCTACAAAATATGAGTGTTGATGGAACTTTAAGAGACCCAAAAATAACATGAGTATTG
AAGGAGCTTCAAGAAGCCAAAAAATAAAGGAAGCTTCAAAAAAAAA
Found at i:23774542 original size:22 final size:22
Alignment explanation
Indices: 23774517--23774575 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
23774507 AAAAACAAAA
*
23774517 AAAAAAG-AGAAAAGAAAGAAG
1 AAAAAAGAAAAAAAGAAAGAAG
*
23774538 GAAAAAGAAAAAAAGAAAGAAG
1 AAAAAAGAAAAAAAGAAAGAAG
*
23774560 AAAAGAAAAAAAAAAG
1 AAAA-AAGAAAAAAAG
23774576 GAGAGGTCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 6 0.19
22 16 0.50
23 10 0.31
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (22 bp):
AAAAAAGAAAAAAAGAAAGAAG
Found at i:23774546 original size:19 final size:18
Alignment explanation
Indices: 23774519--23774577 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 18
23774509 AAACAAAAAA
23774519 AAAAGAGAAAAGAAAGAAGG
1 AAAA-AGAAAA-AAAGAAGG
*
23774539 AAAAAGAAAAAAAGAAAGA
1 AAAAAGAAAAAAAG-AAGG
*
23774558 AGAAAAGAAAAAAAAAAGG
1 A-AAAAGAAAAAAAGAAGG
23774577 A
1 A
23774578 GAGGTCAAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 4 0.12
19 14 0.41
20 16 0.47
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAAAGAAGG
Found at i:23774556 original size:26 final size:26
Alignment explanation
Indices: 23774508--23774574 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
23774498 AATTGTTAAA
* *
23774508 AAAACAAAAAAAAAAGAGAAAAGAA-
1 AAAAGAAAAAAAAAAAAGAAAAGAAG
*
23774533 AGAAGGAAAAAGAAAAAAAG-AAAGAAG
1 A-AAAGAAAAA-AAAAAAAGAAAAGAAG
23774560 AAAAGAAAAAAAAAA
1 AAAAGAAAAAAAAAA
23774575 GGAGAGGTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 6 0.17
26 21 0.60
27 8 0.23
ACGTcount: A:0.82, C:0.01, G:0.16, T:0.00
Consensus pattern (26 bp):
AAAAGAAAAAAAAAAAAGAAAAGAAG
Found at i:23775889 original size:44 final size:44
Alignment explanation
Indices: 23775821--23776121 Score: 142
Period size: 44 Copynumber: 6.8 Consensus size: 44
23775811 AGGCCATTAG
* * *
23775821 TCCTATCTCCTTGAA-CAGCAGTGGAGTAGGTTGAAGATTACAGA
1 TCCTATCTCCCT-AAGCAGTAGTGGAGTAGATTGAAGATTACAGA
* * *
23775865 TCCTGTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGT-GA-A
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGAT--TACAGA
* * * **
23775909 TCTTATCTTCCC-AAG--GTAGTAAGGAAGCAGATTTAA-ACCACCAG-
1 TCCTATC-TCCCTAAGCAGTAGT--GG-AGTAGATTGAAGATTA-CAGA
* * *
23775953 TCATATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGCACA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTACAGA
* * ** *
23775997 TCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGT-GA-A
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGAT--TACAGA
* * * * * **
23776041 TCTTATCTTCTTAAGGTAGTAG-GGAAGTAGATTTAA-ACCACTAG-
1 TCCTATCTCCCTAA-GCAGTAGTGG-AGTAGATTGAAGATTAC-AGA
* *
23776085 TCCTATCTCCCTAAGTAGTAGTGGAGCAGATTGAAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGA
23776122 CAGTGAATCT
Statistics
Matches: 190, Mismatches: 43, Indels: 48
0.68 0.15 0.17
Matches are distributed among these distances:
42 5 0.03
43 33 0.17
44 117 0.62
45 28 0.15
46 7 0.04
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTACAGA
Found at i:23776048 original size:88 final size:88
Alignment explanation
Indices: 23775956--23776133 Score: 193
Period size: 88 Copynumber: 2.0 Consensus size: 88
23775946 CCACCAGTCA
* *
23775956 TATCTCCCTAA-GCAGTAGTGG-AGTAGATTGAAGATTGCAC-A-TCCTGTCTCCCTAAGCAGTA
1 TATCTCCCTAAGGCAGTAG-GGAAGTAGATTGAA-A--CCACTAGTCCTATCTCCCTAAGCAGTA
**
23776017 GTGGAGCAGATCAAAGATGGTGAATCT
62 GTGGAGCAGATCAAAGACAGTGAATCT
* * * * *
23776044 TATCTTCTTAAGGTAGTAGGGAAGTAGATTTAAACCACTAGTCCTATCTCCCTAAGTAGTAGTGG
1 TATCTCCCTAAGGCAGTAGGGAAGTAGATTGAAACCACTAGTCCTATCTCCCTAAGCAGTAGTGG
**
23776109 AGCAGATTGAAGACAGTGAATCT
66 AGCAGATCAAAGACAGTGAATCT
23776132 TA
1 TA
23776134 CTTTCCCGGG
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
86 3 0.04
87 1 0.01
88 55 0.73
89 16 0.21
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (88 bp):
TATCTCCCTAAGGCAGTAGGGAAGTAGATTGAAACCACTAGTCCTATCTCCCTAAGCAGTAGTGG
AGCAGATCAAAGACAGTGAATCT
Found at i:23776061 original size:132 final size:132
Alignment explanation
Indices: 23775840--23776121 Score: 447
Period size: 132 Copynumber: 2.1 Consensus size: 132
23775830 CTTGAACAGC
* * * *
23775840 AGTGGAGTAGGTTGAAGATTACAGATCCTGTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGG
1 AGTGGAGTAGATTGAAGATTACACATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
23775905 TGAATCTTATCTTCCCAAGGTAGTAAGGAAGCAGATTTAAACCACCAGTCATATCTCCCTAAGCA
66 TGAATCTTATCTTCCCAAGGTAGTAAGGAAGCAGATTTAAACCACCAGTCATATCTCCCTAAGCA
23775970 GT
131 GT
*
23775972 AGTGGAGTAGATTGAAGATTGCACATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
1 AGTGGAGTAGATTGAAGATTACACATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
** * * * * *
23776037 TGAATCTTATCTTCTTAAGGTAGTAGGGAAGTAGATTTAAACCACTAGTCCTATCTCCCTAAGTA
66 TGAATCTTATCTTCCCAAGGTAGTAAGGAAGCAGATTTAAACCACCAGTCATATCTCCCTAAGCA
23776102 GT
131 GT
*
23776104 AGTGGAGCAGATTGAAGA
1 AGTGGAGTAGATTGAAGA
23776122 CAGTGAATCT
Statistics
Matches: 137, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 137 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (132 bp):
AGTGGAGTAGATTGAAGATTACACATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
TGAATCTTATCTTCCCAAGGTAGTAAGGAAGCAGATTTAAACCACCAGTCATATCTCCCTAAGCA
GT
Found at i:23776218 original size:50 final size:50
Alignment explanation
Indices: 23776159--23776318 Score: 178
Period size: 50 Copynumber: 3.2 Consensus size: 50
23776149 CAAGGGGAAC
*
23776159 AGATTGAAGCTACAATGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
* * * ** *** * * * *
23776209 AGATTGAAGCCACAACGGTGGATCTTATTTCTTTGGCAGTGC-ATTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATT-AAAA
*
23776259 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTACAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
23776309 AGATTGAAGC
1 AGATTGAAGC
23776319 CACTGTTAGA
Statistics
Matches: 82, Mismatches: 26, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
49 3 0.04
50 76 0.93
51 3 0.04
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAA
Found at i:23777717 original size:50 final size:49
Alignment explanation
Indices: 23777564--23778278 Score: 421
Period size: 50 Copynumber: 14.3 Consensus size: 49
23777554 TCTAACAGCC
* * * *
23777564 ACAACGGCGAATCTTAATTCTCTGGCAGTGCAGTGGAATAGATTGAAGCT
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGT-GAACAAATTGAAGCT
** * * * * * * *
23777614 ACAACGGCGAATCTTGTTTCCCCGACATTACAATTAA-AAGATTGAAGCC
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGAACAA-ATTGAAGCT
* * * *
23777663 ACAACGACGAATCTTATTTCTCTGGCGGTGCAGTGGAACAAATTGAAGCT
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGT-GAACAAATTGAAGCT
* * * * * * * *
23777713 ACAACAGCGAATCTTGCTTCCCCGACA-TAGCAATTAAAAAGATTGAAGCC
1 ACAACGGCGAATCTTACTTCCCTGGCAGT-GCAGTGAACAA-ATTGAAGCT
* * *
23777763 ACAACGGCGAATCTTATTTCTCTGGCAGTGCAGTGGAACAGATTGAAGCT
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGT-GAACAAATTGAAGCT
* * * * * * * * *
23777813 ACAACAGTGAATCTTGCTTCCCCGACATTGCAATTAA-AAGGATTGAAGCC
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGAACAA--ATTGAAGCT
* * *
23777863 ACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTAGATCAGATTGAAGCT
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGT-GAACAAATTGAAGCT
* * * * * * *
23777913 ACAACGGCGAATCTTGCTTCCCCGACATTGCAATTAA-AAGGATTGAAGCC
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGAACAA--ATTGAAGCT
* * *
23777963 ACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTAGATCAGATTGAAGCT
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGT-GAACAAATTGAAGCT
* * * * * * * * *
23778013 ACAACGGCGAATCTTGCTTCCCCGACATTGTAATTAAGAAGATTGAAGCC
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGAACAA-ATTGAAGCT
** * * * * * * *
23778063 ACAACAACGAATCTTACCTCCCTAGCGGTGTAGTGGAATAGATTAAAGCT
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGT-GAACAAATTGAAGCT
* * * * * * * * *
23778113 ACAATGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCC
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGAACAA-ATTGAAGCT
* * ** *
23778163 ACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAGTAGATTGAAGCT
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGT-GAACAAATTGAAGCT
* * * * * * * * *
23778213 ACAACGTCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCC
1 ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGAACAA-ATTGAAGCT
*
23778263 ACAACGGTGAATCTTA
1 ACAACGGCGAATCTTA
23778279 TCTCCTTGAA
Statistics
Matches: 483, Mismatches: 162, Indels: 40
0.71 0.24 0.06
Matches are distributed among these distances:
48 3 0.01
49 50 0.10
50 415 0.86
51 13 0.03
52 2 0.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (49 bp):
ACAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGAACAAATTGAAGCT
Found at i:23777799 original size:100 final size:100
Alignment explanation
Indices: 23777560--23778278 Score: 1089
Period size: 100 Copynumber: 7.2 Consensus size: 100
23777550 GCGATCTAAC
* * * *
23777560 AGCCACAACGGCGAATCTTAATTCTCTGGCAGTGCAGTGGAATAGATTGAAGCTACAACGGCGAA
1 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
* *
23777625 TCTTGTTTCCCCGACATTACAATT-AAAAGATTGA
66 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
* * * * *
23777659 AGCCACAACGACGAATCTTATTTCTCTGGCGGTGCAGTGGAACAAATTGAAGCTACAACAGCGAA
1 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
*
23777724 TCTTGCTTCCCCGACATAGCAATTAAAAAGATTGA
66 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
* * * * *
23777759 AGCCACAACGGCGAATCTTATTTCTCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACAGTGAA
1 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
*
23777824 TCTTGCTTCCCCGACATTGCAATTAAAAGGATTGA
66 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
* *
23777859 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTAGATCAGATTGAAGCTACAACGGCGAA
1 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
*
23777924 TCTTGCTTCCCCGACATTGCAATTAAAAGGATTGA
66 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
* *
23777959 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTAGATCAGATTGAAGCTACAACGGCGAA
1 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
* *
23778024 TCTTGCTTCCCCGACATTGTAATTAAGAAGATTGA
66 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
** * * * * * *
23778059 AGCCACAACAACGAATCTTACCTCCCTAGCGGTGTAGTGGAATAGATTAAAGCTACAATGGCGAA
1 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
23778124 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
66 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
* ** *
23778159 AGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCAGTGGAGTAGATTGAAGCTACAACGTCGAA
1 AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
23778224 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
66 TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
*
23778259 AGCCACAACGGTGAATCTTA
1 AGCCACAACGGCGAATCTTA
23778279 TCTCCTTGAA
Statistics
Matches: 572, Mismatches: 47, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
99 80 0.14
100 492 0.86
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (100 bp):
AGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAA
TCTTGCTTCCCCGACATTGCAATTAAAAAGATTGA
Found at i:23780061 original size:3 final size:3
Alignment explanation
Indices: 23780053--23780091 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
23780043 ATTAATCTTG
23780053 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23780092 GGTATTAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:23780482 original size:17 final size:17
Alignment explanation
Indices: 23780460--23780492 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23780450 ATGTACTTAT
23780460 TTATATATATATGTATG
1 TTATATATATATGTATG
*
23780477 TTATATCTATATGTAT
1 TTATATATATATGTAT
23780493 ATATGCATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (17 bp):
TTATATATATATGTATG
Found at i:23780687 original size:35 final size:36
Alignment explanation
Indices: 23780616--23780696 Score: 105
Period size: 35 Copynumber: 2.3 Consensus size: 36
23780606 TACCCCTTTT
*
23780616 TACATACATA-GTTTTTATATTTTATAATTTGTATA
1 TACATACATATGTTTTTATATTTTATAATTTGCATA
*
23780651 TACATACATATTTTTTATATATTTTATAA-TT-CATA
1 TACATACATATGTTTT-TATATTTTATAATTTGCATA
*
23780686 TACATATATAT
1 TACATACATAT
23780697 ATATATCCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
35 23 0.56
36 6 0.15
37 12 0.29
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (36 bp):
TACATACATATGTTTTTATATTTTATAATTTGCATA
Found at i:23780769 original size:51 final size:51
Alignment explanation
Indices: 23780647--23780785 Score: 137
Period size: 51 Copynumber: 2.8 Consensus size: 51
23780637 TTATAATTTG
23780647 TATATACATAC-ATAT-TT-TTTATATATTTTATAA-TTCATATACATATA
1 TATATACATACTATATGTTCTTTATATATTTTATAATTTCATATACATATA
* * * * *
23780694 TATATATATCCACATGTATG-TCTTT-TATACTTTATAATTTCAATGTACATATT
1 TATATACAT--AC-TATATGTTCTTTATATATTTTATAATTTC-ATATACATATA
* *
23780747 TATATACATACTTTATGTTCTTTATATTTTTTATAATTT
1 TATATACATACTATATGTTCTTTATATATTTTATAATTT
23780786 TGCTTATTTC
Statistics
Matches: 73, Mismatches: 9, Indels: 15
0.75 0.09 0.15
Matches are distributed among these distances:
47 8 0.11
49 2 0.03
50 5 0.07
51 22 0.30
52 19 0.26
53 17 0.23
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.53
Consensus pattern (51 bp):
TATATACATACTATATGTTCTTTATATATTTTATAATTTCATATACATATA
Found at i:23785143 original size:51 final size:51
Alignment explanation
Indices: 23785067--23785165 Score: 189
Period size: 51 Copynumber: 1.9 Consensus size: 51
23785057 TAAAAACCTA
23785067 CAATATATACCTAAATACAGAATATCACTAACAATCAGAAACATTTAAATC
1 CAATATATACCTAAATACAGAATATCACTAACAATCAGAAACATTTAAATC
*
23785118 CAATATATACCTAAATACAGAATATCACTAACAGTCAGAAACATTTAA
1 CAATATATACCTAAATACAGAATATCACTAACAATCAGAAACATTTAA
23785166 GATTTACATC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.51, C:0.19, G:0.05, T:0.25
Consensus pattern (51 bp):
CAATATATACCTAAATACAGAATATCACTAACAATCAGAAACATTTAAATC
Found at i:23791179 original size:19 final size:19
Alignment explanation
Indices: 23791144--23791191 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
23791134 TTTTAATAAA
*
23791144 ATTTATAAATATAATTTC-
1 ATTTATAAAAATAATTTCT
*
23791162 ATTTATTAAAAATTATTTCT
1 ATTTA-TAAAAATAATTTCT
23791182 ATTTTATAAA
1 A-TTTATAAA
23791192 CATTTTATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 5 0.20
19 11 0.44
20 5 0.20
21 4 0.16
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTATAAAAATAATTTCT
Found at i:23806671 original size:10 final size:11
Alignment explanation
Indices: 23806645--23806670 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23806635 AATGATGACC
23806645 AAAAACATACT
1 AAAAACATACT
23806656 AAAAACATACT
1 AAAAACATACT
23806667 AAAA
1 AAAA
23806671 CTTGAATGAT
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:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAACATACT
Found at i:23825287 original size:64 final size:64
Alignment explanation
Indices: 23825218--23825358 Score: 158
Period size: 64 Copynumber: 2.2 Consensus size: 64
23825208 GCGACCTGGG
* *
23825218 CACACGCCCGTGTCCCCTGCCTGTGTGACTCCAAATCTGAACTCAT-GAAGTTACATGGCCTAGA
1 CACACGCTCGTGTCCCCTGCCTGTGTGACTCCAAATCTGAACTC-TGGAAGTTACACGGCCTAGA
* * * * ** * ** *
23825282 CACACGCTCGTTTGCCTTGTCTGTGTGACTTTAAATCTTAACTCTGGGCGTTACACGGCCTGGA
1 CACACGCTCGTGTCCCCTGCCTGTGTGACTCCAAATCTGAACTCTGGAAGTTACACGGCCTAGA
23825346 CACACGCTCGTGT
1 CACACGCTCGTGT
23825359 GACTTACCCG
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
63 1 0.02
64 62 0.98
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.28
Consensus pattern (64 bp):
CACACGCTCGTGTCCCCTGCCTGTGTGACTCCAAATCTGAACTCTGGAAGTTACACGGCCTAGA
Found at i:23825389 original size:64 final size:64
Alignment explanation
Indices: 23825240--23825403 Score: 154
Period size: 64 Copynumber: 2.6 Consensus size: 64
23825230 TCCCCTGCCT
* * * * **
23825240 GTGTGACTCC-AAATCTGAACTCATGA-AGTTACATGGCCTAGACACACGCTCGTTTGCCTTGTC
1 GTGTGAC-CCTAAATCTAAACTCA-GAGAGTTACACGGCCTAGACACACGCTCGTGTGACTTACC
*
23825303 T
64 C
** * * * * *
23825304 GTGTGACTTTAAATCTTAACTCTGGGCGTTACACGGCCTGGACACACGCTCGTGTGACTTACCC
1 GTGTGACCCTAAATCTAAACTCAGAGAGTTACACGGCCTAGACACACGCTCGTGTGACTTACCC
23825368 GTGTGACCCTAAAT-TAAAACTCAGAGAGTTACACGG
1 GTGTGACCCTAAATCT-AAACTCAGAGAGTTACACGG
23825404 TCCACCCTAC
Statistics
Matches: 78, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
63 2 0.03
64 76 0.97
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (64 bp):
GTGTGACCCTAAATCTAAACTCAGAGAGTTACACGGCCTAGACACACGCTCGTGTGACTTACCC
Found at i:23827275 original size:15 final size:15
Alignment explanation
Indices: 23827230--23827275 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
23827220 AGTTCCTATG
23827230 TAGGGTTCACACATA
1 TAGGGTTCACACATA
* * *
23827245 CATGGTTCGCACATA
1 TAGGGTTCACACATA
23827260 TAGGGTTCACACATA
1 TAGGGTTCACACATA
23827275 T
1 T
23827276 GATTGGTTGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (15 bp):
TAGGGTTCACACATA
Found at i:23830882 original size:15 final size:15
Alignment explanation
Indices: 23830862--23830895 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
23830852 ATTTAACTTA
23830862 ACTAATTTAATTGCT
1 ACTAATTTAATTGCT
23830877 ACTAATTTAATTGCT
1 ACTAATTTAATTGCT
23830892 ACTA
1 ACTA
23830896 CTTGAACGAG
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:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (15 bp):
ACTAATTTAATTGCT
Found at i:23831109 original size:20 final size:23
Alignment explanation
Indices: 23831081--23831131 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 23
23831071 GTTTTTTACT
*
23831081 AAAATAATA-CAAAAGAA-ATA-
1 AAAAAAATACCAAAAGAATATAC
*
23831101 AAAAAAATACCAAAATAATATAC
1 AAAAAAATACCAAAAGAATATAC
23831124 AAAAAAAT
1 AAAAAAAT
23831132 TATTTACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 8 0.31
21 7 0.27
22 3 0.12
23 8 0.31
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.16
Consensus pattern (23 bp):
AAAAAAATACCAAAAGAATATAC
Found at i:23831115 original size:11 final size:10
Alignment explanation
Indices: 23831081--23831131 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
23831071 GTTTTTTACT
*
23831081 AAAATAATAC
1 AAAAAAATAC
23831091 AAAAGAAATA-
1 AAAA-AAATAC
23831101 AAAAAAATACC
1 AAAAAAATA-C
23831112 AAAATAATATAC
1 AAAA-AA-ATAC
23831124 AAAAAAAT
1 AAAAAAAT
23831132 TATTTACCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
9 5 0.14
10 10 0.29
11 10 0.29
12 7 0.20
13 3 0.09
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.16
Consensus pattern (10 bp):
AAAAAAATAC
Found at i:23831276 original size:27 final size:27
Alignment explanation
Indices: 23831242--23831319 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
23831232 GGAGGGTTCC
* * *
23831242 TGATTGGCGGCACCAAAGGTGCCAATG
1 TGATTGGCGGCACCGATGGTGCCAAGG
23831269 TGATTGGCGGCACCGATGGTGCCAAGG
1 TGATTGGCGGCACCGATGGTGCCAAGG
*
23831296 AGATTGGCGGCACCGATGGTGCCA
1 TGATTGGCGGCACCGATGGTGCCA
23831320 TACTAAGTGG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.22, C:0.23, G:0.37, T:0.18
Consensus pattern (27 bp):
TGATTGGCGGCACCGATGGTGCCAAGG
Found at i:23831330 original size:27 final size:27
Alignment explanation
Indices: 23831246--23831335 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
23831236 GGTTCCTGAT
* * * * *
23831246 TGGCGGCACCAAAGGTGCCAATGTGAT
1 TGGCGGCACCGATGGTGCCAACGAGAG
* *
23831273 TGGCGGCACCGATGGTGCCAAGGAGAT
1 TGGCGGCACCGATGGTGCCAACGAGAG
*
23831300 TGGCGGCACCGATGGTGCCATACTA-AG
1 TGGCGGCACCGATGGTGCCA-ACGAGAG
23831327 TGGCGGCAC
1 TGGCGGCAC
23831336 TACTCGTGTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 53 0.96
28 2 0.04
ACGTcount: A:0.22, C:0.24, G:0.37, T:0.17
Consensus pattern (27 bp):
TGGCGGCACCGATGGTGCCAACGAGAG
Found at i:23838095 original size:4 final size:4
Alignment explanation
Indices: 23838088--23838282 Score: 87
Period size: 4 Copynumber: 44.8 Consensus size: 4
23838078 CCTCTTCTTC
* *
23838088 TTCT TTCT TT-T TT-T TTCT CTCT TCTCAT TTCCTT TTCT TTCC TTCGTT
1 TTCT TTCT TTCT TTCT TTCT TTCT T-TC-T TT-C-T TTCT TTCT TTC--T
*
23838136 TTCT TTCT TTTT TTCT TCTCCT TTCCTT TTCT TTCCT CTT-T TTCT TTCT
1 TTCT TTCT TTCT TTCT T-T-CT TT-C-T TTCT TT-CT -TTCT TTCT TTCT
*
23838185 TT-T TTCT TCTCCT TTCCTT TTCT TTCC TTC- TT-T TTCT TTCT TTCT
1 TTCT TTCT T-T-CT TT-C-T TTCT TTCT TTCT TTCT TTCT TTCT TTCT
* * *
23838230 TTCCT CTCCT TTCCTT TTCT TTCTT TTCCT TCCT TTAT TTCT TTCT TTCT
1 TT-CT -TTCT TT-C-T TTCT TTC-T TT-CT TTCT TTCT TTCT TTCT TTCT
23838280 TTC
1 TTC
23838283 CCTCTCCTTC
Statistics
Matches: 153, Mismatches: 14, Indels: 48
0.71 0.07 0.22
Matches are distributed among these distances:
3 15 0.10
4 83 0.54
5 27 0.18
6 28 0.18
ACGTcount: A:0.01, C:0.29, G:0.01, T:0.69
Consensus pattern (4 bp):
TTCT
Found at i:23838095 original size:10 final size:10
Alignment explanation
Indices: 23838082--23838254 Score: 75
Period size: 10 Copynumber: 17.5 Consensus size: 10
23838072 TCCTTCCCTC
23838082 TTCTTCTTCT
1 TTCTTCTTCT
23838092 TTCTT-TT-T
1 TTCTTCTTCT
23838100 TT-TTCTCTCT
1 TTCTTCT-TCT
* *
23838110 TCTCAT-TTCC
1 T-TCTTCTTCT
*
23838120 TT-TTCTTTCC
1 TTCTTC-TTCT
23838130 TTCGTT-TTCT
1 TTC-TTCTTCT
23838140 TTCTT-TT-T
1 TTCTTCTTCT
*
23838148 TTCTTCTCCT
1 TTCTTCTTCT
23838158 TTCCTT-TTCT
1 TT-CTTCTTCT
*
23838168 TTCCTCTT-T
1 TTCTTCTTCT
*
23838177 TTCTTTCTTTT
1 TTC-TTCTTCT
*
23838188 TTCTTCTCCT
1 TTCTTCTTCT
23838198 TTCCTT-TTCT
1 TT-CTTCTTCT
23838208 TTCCTTCTT-T
1 TT-CTTCTTCT
23838218 TTCTTTCTTTCT
1 TTC-TTC-TTCT
* *
23838230 TTCCTCTCCT
1 TTCTTCTTCT
23838240 TTCCTT-TTCT
1 TT-CTTCTTCT
23838250 TTCTT
1 TTCTT
23838255 TTCCTTCCTT
Statistics
Matches: 127, Mismatches: 15, Indels: 43
0.69 0.08 0.23
Matches are distributed among these distances:
7 2 0.02
8 11 0.09
9 19 0.15
10 68 0.54
11 20 0.16
12 7 0.06
ACGTcount: A:0.01, C:0.29, G:0.01, T:0.69
Consensus pattern (10 bp):
TTCTTCTTCT
Found at i:23838120 original size:45 final size:44
Alignment explanation
Indices: 23838071--23838231 Score: 127
Period size: 45 Copynumber: 3.6 Consensus size: 44
23838061 TTTTTTTTCC
23838071 TTCCTTCCCTCTTCTTC-TTCTTTCTTTTTTTTTCTCTCTTCTCAT
1 TTCCTTCCCTCTTCTTCTTTCTTTCTTTTTTTTTCTC-CTT-TCAT
** *
23838116 TTCCTTTTCT-TTCCTTCGTTTTCTTTCTTTTTTTCTTCTCCTTTCCT
1 TTCCTTCCCTCTT-CTTC--TTTCTTTCTTTTTTT-TTCTCCTTTCAT
* * * *
23838163 TTTCTT---TCCTCTT-TTTCTTTCTTTTTTCTTCTCCTTTCCTT
1 TTCCTTCCCTCTTCTTCTTTCTTTCTTTTTTTTTCTCCTTT-CAT
* * *
23838204 TTCTTTCCTTCTTTTTCTTTCTTTCTTT
1 TTCCTTCCCTCTTCTTCTTTCTTTCTTT
23838232 CCTCTCCTTT
Statistics
Matches: 94, Mismatches: 11, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
40 9 0.10
41 20 0.21
44 11 0.12
45 24 0.26
47 8 0.09
48 17 0.18
49 5 0.05
ACGTcount: A:0.01, C:0.30, G:0.01, T:0.69
Consensus pattern (44 bp):
TTCCTTCCCTCTTCTTCTTTCTTTCTTTTTTTTTCTCCTTTCAT
Found at i:23838161 original size:42 final size:42
Alignment explanation
Indices: 23838049--23838252 Score: 260
Period size: 42 Copynumber: 4.9 Consensus size: 42
23838039 TAAAAATTAC
**
23838049 CTTTTT-TTTCTTTTTTT-TT-TCC-TTCCTTCCCTCTT-CTT
1 CTTTTTCTTTCTTTTTTTCTTCTCCTTTCCTTTTCT-TTCCTT
* *
23838087 CTTCTTTCTTTTTTTTTCTCTCTTCTCATTTCCTTTTCTTTCCTT
1 CTT-TTTCTTTCTTTTT-T-TCTTCTCCTTTCCTTTTCTTTCCTT
*
23838132 CGTTTTCTTTCTTTTTTTCTTCTCCTTTCCTTTTCTTTCC-T
1 CTTTTTCTTTCTTTTTTTCTTCTCCTTTCCTTTTCTTTCCTT
23838173 CTTTTTCTTTC-TTTTTTCTTCTCCTTTCCTTTTCTTTCCTT
1 CTTTTTCTTTCTTTTTTTCTTCTCCTTTCCTTTTCTTTCCTT
* *
23838214 CTTTTTCTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTTC
1 CTTTTTCTTTCTTTTTTTCTTCTCCTTTCCTTTTCTTTC
23838253 TTTTCCTTCC
Statistics
Matches: 146, Mismatches: 10, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
38 3 0.02
39 3 0.02
40 36 0.25
41 24 0.16
42 48 0.33
43 3 0.02
44 16 0.11
45 13 0.09
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.69
Consensus pattern (42 bp):
CTTTTTCTTTCTTTTTTTCTTCTCCTTTCCTTTTCTTTCCTT
Found at i:23838193 original size:82 final size:83
Alignment explanation
Indices: 23838054--23838252 Score: 275
Period size: 82 Copynumber: 2.4 Consensus size: 83
23838044 ATTACCTTTT
* * *
23838054 TTTTCTTT-TTTTTTTCCT-TCCTTCCCTCTTC-TTCTTCTTTCTTTTTTTTTCTCTCTTCTCAT
1 TTTTCTTTCTTTTTTTCCTCTCCTTTCCTTTTCTTTCCTCTTTCTTTTTTTTTCTCTCTTCTCAT
23838116 TTCCTTTTCTTTCCTTCG
66 TTCCTTTTCTTTCCTTCG
*
23838134 TTTTCTTTCTTTTTTTCTTCTCCTTTCCTTTTCTTTCCTCTTT-TTCTTTCTTTT-T-TCTTCTC
1 TTTTCTTTCTTTTTTTCCTCTCCTTTCCTTTTCTTTCCTCTTTCTT-TTT-TTTTCTCTCTTCTC
* *
23838196 CTTTCCTTTTCTTTCCTTCT
64 ATTTCCTTTTCTTTCCTTCG
*
23838216 TTTTCTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTTC
1 TTTTCTTTCTTTTTTTCCTCTCCTTTCCTTTTCTTTC
23838253 TTTTCCTTCC
Statistics
Matches: 106, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
80 8 0.08
81 9 0.08
82 73 0.69
83 12 0.11
84 4 0.04
ACGTcount: A:0.01, C:0.30, G:0.01, T:0.69
Consensus pattern (83 bp):
TTTTCTTTCTTTTTTTCCTCTCCTTTCCTTTTCTTTCCTCTTTCTTTTTTTTTCTCTCTTCTCAT
TTCCTTTTCTTTCCTTCG
Found at i:23838271 original size:42 final size:41
Alignment explanation
Indices: 23838051--23838283 Score: 239
Period size: 42 Copynumber: 5.8 Consensus size: 41
23838041 AAAATTACCT
* * * * *
23838051 TTTTTTTCTTT-TTTTTTTCCT-TCCTTCCCTCTTCTTCTTC
1 TTTTTTTCTTTCTTTCTTTCTTCTCCTTTCCTTTTCTT-TCC
* * *
23838091 TTTCTTT-TTT-TTTCTCTCTTCTCATTTCCTTTTCTTTCC
1 TTTTTTTCTTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTCC
* *
23838130 TTCGTTTTCTTTCTTTTTTTCTTCTCCTTTCCTTTTCTTTCC
1 TT-TTTTTCTTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTCC
*
23838172 TCTTTTTCTTTCTTT-TTTCTTCTCCTTTCCTTTTCTTTCC
1 TTTTTTTCTTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTCC
*
23838212 TTCTTTTTCTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTT-C
1 TT-TTTTTCTTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTCC
* *
23838253 TTTTCCTTCCTTTATTTCTTTCTT-T-CTTTCC
1 TTTT--TTTCTTTCTTTCTTTCTTCTCCTTTCC
23838284 CTCTCCTTCT
Statistics
Matches: 165, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
39 14 0.08
40 55 0.33
41 32 0.19
42 64 0.39
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (41 bp):
TTTTTTTCTTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTCC
Found at i:23838282 original size:82 final size:81
Alignment explanation
Indices: 23838048--23838283 Score: 270
Period size: 82 Copynumber: 2.9 Consensus size: 81
23838038 ATAAAAATTA
* * * * *
23838048 CCTTTTTTTTCTTT-TTTTTTTCCT-TCCTTCCCTCTTC-TTCTTCTTTCTT-TTTTTTTCTCTC
1 CCTTCTTTTTCTTTCTTTTTTTCCTCTCCTTTCCTTTTCTTTC-T-TTTCTTCTTTATTTCTTTC
23838109 TTCTCATTTCCTTTTCTTT
64 TTCTC-TTTCCTTTTCTTT
* * *
23838128 CCTTCGTTTTCTTTCTTTTTTTCTTCTCCTTTCCTTTTCTTTCCTCTTT-TTCTTTCTTT-TTTC
1 CCTTCTTTTTCTTTCTTTTTTTCCTCTCCTTTCCTTTTCTTT-CT-TTTCTTCTTTATTTCTTTC
23838191 TTCTCCTTTCCTTTTCTTT
64 TTCT-CTTTCCTTTTCTTT
*
23838210 CCTTCTTTTTCTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTTCTTTTCCTTCCTTTATTTCTTTC
1 CCTTCTTTTTCTTTCTTTTTTTCCTCTCCTTTCCTTTTCTTTCTTTT-CTT-CTTTATTTCTTTC
23838275 TT-TCTTTCC
64 TTCTCTTTCC
23838284 CTCTCCTTCT
Statistics
Matches: 135, Mismatches: 11, Indels: 18
0.82 0.07 0.11
Matches are distributed among these distances:
80 15 0.11
81 11 0.08
82 80 0.59
83 22 0.16
84 7 0.05
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (81 bp):
CCTTCTTTTTCTTTCTTTTTTTCCTCTCCTTTCCTTTTCTTTCTTTTCTTCTTTATTTCTTTCTT
CTCTTTCCTTTTCTTT
Found at i:23838495 original size:12 final size:12
Alignment explanation
Indices: 23838478--23838503 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23838468 CCGTGCAGGC
23838478 TTTTTTTTGTTT
1 TTTTTTTTGTTT
23838490 TTTTTTTTGTTT
1 TTTTTTTTGTTT
23838502 TT
1 TT
23838504 GGTATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTTTTTTGTTT
Found at i:23841458 original size:3 final size:3
Alignment explanation
Indices: 23841450--23841493 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
23841440 GAAATGAGTT
23841450 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23841494 GATCAAGCTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23846124 original size:3 final size:3
Alignment explanation
Indices: 23846118--23846151 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
23846108 AAACTAATAA
23846118 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
23846152 GTAGTAGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:23846156 original size:3 final size:3
Alignment explanation
Indices: 23846150--23846175 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
23846140 TTATTATTAT
23846150 TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TA
23846176 ATATTATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
TAG
Found at i:23846452 original size:18 final size:17
Alignment explanation
Indices: 23846425--23846469 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
23846415 AATCTATTTC
23846425 TTTTTTTATT-TTATTCA
1 TTTTTTTATTGTTATT-A
23846442 TTTTCTTTATTGTTATTA
1 TTTT-TTTATTGTTATTA
*
23846460 TTTATTTATT
1 TTTTTTTATT
23846470 TACGTGTTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 10 0.40
18 10 0.40
19 5 0.20
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTTTTTATTGTTATTA
Found at i:23849189 original size:24 final size:24
Alignment explanation
Indices: 23849157--23849205 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
23849147 AAAACAGTTT
23849157 TATATTTAATTTGCTCTTTTGTAG
1 TATATTTAATTTGCTCTTTTGTAG
23849181 TATATTTAATTTGCTCTTTTGTAG
1 TATATTTAATTTGCTCTTTTGTAG
23849205 T
1 T
23849206 TTTTGATACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.08, G:0.12, T:0.59
Consensus pattern (24 bp):
TATATTTAATTTGCTCTTTTGTAG
Found at i:23849494 original size:27 final size:28
Alignment explanation
Indices: 23849454--23849506 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
23849444 CAATCATTCA
*
23849454 GGGAATCATAACTTAGCAAC-CCCTTGG
1 GGGAATCAGAACTTAGCAACTCCCTTGG
*
23849481 GGGAATCAGCACTTAGCAACTCCCTT
1 GGGAATCAGAACTTAGCAACTCCCTT
23849507 CACATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (28 bp):
GGGAATCAGAACTTAGCAACTCCCTTGG
Found at i:23849561 original size:103 final size:102
Alignment explanation
Indices: 23849377--23849684 Score: 442
Period size: 103 Copynumber: 3.0 Consensus size: 102
23849367 CCAGTGATTC
*
23849377 GGGGAATCAGCACTTAGCAACCCCTTTCACATTCAAAGATA-TGGTGGAATCAGCACTTAGCAAC
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAGATACT-GTGGAATCAGCACTTAGCAAC
* *
23849441 CACCAAT-CATTCAGGGAATCATAACTTAGCAACCCCTTG
65 CACCAATGAATT-GGGGAATCA-AACTTAGCAACCCCTTG
23849480 GGGGAATCAGCACTTAGCAACTCCC-TTCACATTTAAAGATACTGTGGAATCAGCACTTAGCAAC
1 GGGGAATCAGCACTTAGCAAC-CCCTTTCACATTTAAAGATACTGTGGAATCAGCACTTAGCAAC
* *
23849544 CATCAATGAATTGGGGAATCAGCACTTAGCAACCCCTTG
65 CACCAATGAATTGGGGAATCA-AACTTAGCAACCCCTTG
* * *
23849583 GGGGAATCAGCACTTAGCAACCCCTTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAGATACTGTGGAATCAGCACTTAGCAACC
* * *
23849648 ACCAATGAGTCGGGCAATCAACACTTAGCAACCCCTT
66 ACCAATGAATTGGGGAATCAA-ACTTAGCAACCCCTT
23849685 CATATTCAAT
Statistics
Matches: 186, Mismatches: 14, Indels: 10
0.89 0.07 0.05
Matches are distributed among these distances:
102 3 0.02
103 176 0.95
104 7 0.04
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAGATACTGTGGAATCAGCACTTAGCAACC
ACCAATGAATTGGGGAATCAAACTTAGCAACCCCTTG
Found at i:23849592 original size:27 final size:27
Alignment explanation
Indices: 23849556--23849608 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
23849546 TCAATGAATT
23849556 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
23849583 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACTTAGCAACCCCTT
23849609 TTATATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.30, G:0.25, T:0.19
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTTG
Found at i:23862446 original size:33 final size:33
Alignment explanation
Indices: 23862409--23862636 Score: 112
Period size: 33 Copynumber: 6.5 Consensus size: 33
23862399 AACGGTGGAT
23862409 TCAGCACTTAGCAACCACCAGTGATTCGGGGAA
1 TCAGCACTTAGCAACCACCAGTGATTCGGGGAA
* * * *
23862442 TCAGCACTTAGCAACCCCCTTCACATTTAAAGATACTGTGGAA
1 TCAGCACTTAGCAA---CC-AC-CA-GT---GATTC-GGGGAA
*
23862485 TCAGCACTTAGCAACCACCAATGAATT-GGGGAA
1 TCAGCACTTAGCAACCACCAGTG-ATTCGGGGAA
*
23862518 TCAGCACTTAGCAACC-CC-----TTGGGGGAA
1 TCAGCACTTAGCAACCACCAGTGATTCGGGGAA
* * *
23862545 TCAGCACTTAGCAACCCCCTTTATATTTAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCACC-----A-GT---GATTCGG-GGAA
*
23862588 TCAGCACTTAGCAACCACC-GATGAGTCGGGGAA
1 TCAGCACTTAGCAACCACCAG-TGATTCGGGGAA
23862621 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
23862637 CATTCATATT
Statistics
Matches: 152, Mismatches: 14, Indels: 58
0.68 0.06 0.26
Matches are distributed among these distances:
26 2 0.01
27 22 0.14
28 2 0.01
32 2 0.01
33 55 0.36
34 6 0.04
35 2 0.01
36 2 0.01
37 3 0.02
38 4 0.03
39 2 0.01
40 2 0.01
42 7 0.05
43 41 0.27
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAGTGATTCGGGGAA
Found at i:23862554 original size:103 final size:103
Alignment explanation
Indices: 23862436--23862637 Score: 350
Period size: 103 Copynumber: 2.0 Consensus size: 103
23862426 CCAGTGATTC
*
23862436 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACTGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
*
23862501 ACCAATGAATTGGGGAATCAGCACTTAGCAACCCCTTG
66 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
* *
23862539 GGGGAATCAGCACTTAGCAACCCCCTTTATATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
* *
23862604 ACCGATGAGTCGGGGAATCAGCACTTAGCAACCC
66 ACCAATGAATCGGGGAATCAGCACTTAGCAACCC
23862638 ATTCATATTC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 93 1.00
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.21
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAGCACTTAGCAACC
ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:23863853 original size:11 final size:12
Alignment explanation
Indices: 23863825--23863858 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
23863815 GCCCAAACAT
23863825 CGAAATTTTTGAA
1 CGAAATTTTT-AA
23863838 CGAAATTTTT-A
1 CGAAATTTTTAA
23863849 CGAAATTTTT
1 CGAAATTTTT
23863859 CCGTAAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
13 10 0.48
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (12 bp):
CGAAATTTTTAA
Found at i:23877215 original size:13 final size:12
Alignment explanation
Indices: 23877197--23877237 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
23877187 ATCATAAACA
23877197 TTATAAACAAATT
1 TTATAAA-AAATT
*
23877210 TTATAAAAAAATG
1 TTAT-AAAAAATT
23877223 TTATAAAAAATT
1 TTATAAAAAATT
23877235 TTA
1 TTA
23877238 AATTATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 10 0.40
13 12 0.48
14 3 0.12
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (12 bp):
TTATAAAAAATT
Found at i:23881197 original size:14 final size:14
Alignment explanation
Indices: 23881178--23881206 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
23881168 AGTGATTAAA
23881178 ATGTAATCTGAGAT
1 ATGTAATCTGAGAT
23881192 ATGTAATCTGAGAT
1 ATGTAATCTGAGAT
23881206 A
1 A
23881207 AACAAAAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (14 bp):
ATGTAATCTGAGAT
Found at i:23890485 original size:40 final size:40
Alignment explanation
Indices: 23890441--23890530 Score: 105
Period size: 39 Copynumber: 2.3 Consensus size: 40
23890431 TCCACGTCAG
*
23890441 CGCGATTTGCTT-CCACGTCAGCAAATCGCGCCT-ACGAGGA
1 CGCGATTTGCTTGCCACGTAAG-AAATCGCG-CTGACGAGGA
* * *
23890481 CGCGATTTG-TTGCCACGTAAGTAATCGCGCTGATGTGGA
1 CGCGATTTGCTTGCCACGTAAGAAATCGCGCTGACGAGGA
23890520 CGCGATTTGCT
1 CGCGATTTGCT
23890531 GACACGTCCC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
38 2 0.05
39 23 0.53
40 18 0.42
ACGTcount: A:0.20, C:0.27, G:0.28, T:0.26
Consensus pattern (40 bp):
CGCGATTTGCTTGCCACGTAAGAAATCGCGCTGACGAGGA
Found at i:23900487 original size:29 final size:29
Alignment explanation
Indices: 23900445--23900502 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
23900435 GTCTTCAAAA
23900445 GCAACTTTAAACCCATTCTCAACAAGTTG
1 GCAACTTTAAACCCATTCTCAACAAGTTG
23900474 GCAACTTTAAACCCATTCTCAACAAGTTG
1 GCAACTTTAAACCCATTCTCAACAAGTTG
23900503 TCCAACTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.28
Consensus pattern (29 bp):
GCAACTTTAAACCCATTCTCAACAAGTTG
Found at i:23907100 original size:17 final size:17
Alignment explanation
Indices: 23907078--23907122 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 17
23907068 AGAAGAACCG
23907078 AGGAAAGAAGAAAAGAA
1 AGGAAAGAAGAAAAGAA
*
23907095 AGGAAAG-AG-AAAGAG
1 AGGAAAGAAGAAAAGAA
*
23907110 AGGGAAGAAGAAA
1 AGGAAAGAAGAAA
23907123 GAATTGGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 11 0.46
16 4 0.17
17 9 0.38
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (17 bp):
AGGAAAGAAGAAAAGAA
Found at i:23911770 original size:111 final size:111
Alignment explanation
Indices: 23911566--23911786 Score: 268
Period size: 111 Copynumber: 2.0 Consensus size: 111
23911556 TGGTTGCATA
* * *
23911566 TATGTCATCCTGGGTGAAGGAAGAGCAAGTGGAGGAACCTCGACATCCCCTTGACCCTCATTCCG
1 TATGGCATCCTAGGTGAAGGAAGAGCAAGTGGAGGAACCTCGACATCCCCTTGACCCTCACTCCG
* * ** *
23911631 GTCCCTGGTATGCCATTCTATGTATTGTTCTACAGAAGCAGGAGTG
66 GTCCCTGCTATGCCATTCGACATATTGTTCAACAGAAGCAGGAGTG
23911677 TATGGCATCCTAGGTGAAGGAAGAGCAAGTGGAGGAACCTC-AGCATCTCCC-TGACCCTCACTC
1 TATGGCATCCTAGGTGAAGGAAGAGCAAGTGGAGGAACCTCGA-CATC-CCCTTGACCCTCACTC
* * ** * *
23911740 TGAG-CCCTGCTTTGCTGTTCGACATCTTGTTCAACTGAAGCAGGAGT
64 CG-GTCCCTGCTATGCCATTCGACATATTGTTCAACAGAAGCAGGAGT
23911787 AGCAGATGTT
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
110 1 0.01
111 88 0.95
112 4 0.04
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (111 bp):
TATGGCATCCTAGGTGAAGGAAGAGCAAGTGGAGGAACCTCGACATCCCCTTGACCCTCACTCCG
GTCCCTGCTATGCCATTCGACATATTGTTCAACAGAAGCAGGAGTG
Found at i:23919991 original size:103 final size:103
Alignment explanation
Indices: 23919799--23919994 Score: 250
Period size: 103 Copynumber: 1.9 Consensus size: 103
23919789 AAATGTTTAA
* ** * *
23919799 ATGTAAGACCATAGCTGGGCTATGTCATTTTAATGAAAAGACCATAACTGGGTTATGGCACCTTG
1 ATGTAAGACCATAGCTGGGCTAAGGAATTCTAATGAAAAGACCATAACTGGGTTATGGCACCTTA
* **
23919864 AACGTAAGACCATAGTTGGACCATGGCAGTATAAATAT
66 AACGTAAAACCATAGCAGGACCATGGCAGTATAAATAT
* * *
23919902 ATGTAAGACCATAGTTGGGCTAAGGAATTCTGATGATAAGACCATAACTGGGTTATGGCA-CTAT
1 ATGTAAGACCATAGCTGGGCTAAGGAATTCTAATGAAAAGACCATAACTGGGTTATGGCACCT-T
* * *
23919966 AAATGTAAAACCATGGCAGGGCCATGGCA
65 AAACGTAAAACCATAGCAGGACCATGGCA
23919995 ATGCATGTGT
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
102 2 0.03
103 76 0.97
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (103 bp):
ATGTAAGACCATAGCTGGGCTAAGGAATTCTAATGAAAAGACCATAACTGGGTTATGGCACCTTA
AACGTAAAACCATAGCAGGACCATGGCAGTATAAATAT
Found at i:23923356 original size:22 final size:22
Alignment explanation
Indices: 23923331--23923396 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 22
23923321 AACTAAAAAA
*
23923331 ATTATAAAATA-TAATATTAAAT
1 ATTA-AAAATATTAAAATTAAAT
23923353 ATTAAAAATATTAAAATT-AAT
1 ATTAAAAATATTAAAATTAAAT
** *
23923374 A-TAAACTTATTAAAATTATAT
1 ATTAAAAATATTAAAATTAAAT
23923395 AT
1 AT
23923397 ATATATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
20 14 0.38
21 13 0.35
22 10 0.27
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTAAAAATATTAAAATTAAAT
Found at i:23923364 original size:16 final size:15
Alignment explanation
Indices: 23923343--23923372 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
23923333 TATAAAATAT
23923343 AATATTAAATATTAAA
1 AATATTAAA-ATTAAA
23923359 AATATTAAAATTAA
1 AATATTAAAATTAA
23923373 TATAAACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATATTAAAATTAAA
Found at i:23923374 original size:28 final size:29
Alignment explanation
Indices: 23923327--23923409 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 29
23923317 GAAAAACTAA
23923327 AAAAATTATAAAATATAATATTAAA-TATT
1 AAAAATTATAAAATATAATA-TAAACTATT
23923356 AAAAA-TATTAAAAT-TAATATAAACTTATT
1 AAAAATTA-TAAAATATAATATAAAC-TATT
*
23923385 -AAAATTATATATATATATATATAAA
1 AAAAATTATA-AAATATA-ATATAAA
23923410 TACTTATNNN
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
27 4 0.09
28 13 0.28
29 20 0.43
30 2 0.04
31 7 0.15
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (29 bp):
AAAAATTATAAAATATAATATAAACTATT
Found at i:23923879 original size:25 final size:26
Alignment explanation
Indices: 23923851--23923899 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
23923841 AGAATGAAAT
23923851 ATAATTAATCATTTTTAT-ATTTTTG
1 ATAATTAATCATTTTTATGATTTTTG
** *
23923876 ATAATTTTTTATTTTTATGATTTT
1 ATAATTAATCATTTTTATGATTTT
23923900 ATCTATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (26 bp):
ATAATTAATCATTTTTATGATTTTTG
Found at i:23924193 original size:9 final size:9
Alignment explanation
Indices: 23924179--23924229 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
23924169 NNNNNNNNNN
23924179 AAAATTATT
1 AAAATTATT
23924188 AAAATTATT
1 AAAATTATT
*
23924197 AAAATTGTAT
1 AAAATTAT-T
*
23924207 AAACTTA-T
1 AAAATTATT
*
23924215 AAATATTATA
1 AAA-ATTATT
23924225 AAAAT
1 AAAAT
23924230 ATAAAAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
8 4 0.12
9 21 0.62
10 9 0.26
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (9 bp):
AAAATTATT
Found at i:23924284 original size:22 final size:21
Alignment explanation
Indices: 23924258--23924306 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
23924248 CTATTTAAAA
23924258 TAAAATACATATTAGAATTCT-T
1 TAAAATACATATTA-AATT-TAT
* *
23924280 TAAAAAATATATTAAATTTAT
1 TAAAATACATATTAAATTTAT
23924301 TAAAAT
1 TAAAAT
23924307 TGTATAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 10 0.43
22 12 0.52
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAAATACATATTAAATTTAT
Found at i:23924674 original size:18 final size:17
Alignment explanation
Indices: 23924648--23924681 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
23924638 AATATTTTAA
23924648 ATATGTTTTATTAATTTT
1 ATATGTTTTA-TAATTTT
*
23924666 ATATTTTTTATAATTT
1 ATATGTTTTATAATTT
23924682 ATTAGATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
ATATGTTTTATAATTTT
Found at i:23924817 original size:2 final size:2
Alignment explanation
Indices: 23924810--23924839 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23924800 ATTAGGTGTG
23924810 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
23924840 TAAGGATAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23929266 original size:95 final size:96
Alignment explanation
Indices: 23929137--23929328 Score: 377
Period size: 95 Copynumber: 2.0 Consensus size: 96
23929127 TTGGATAAAC
23929137 ATAATAGATAGTTTTAACATTTCAAAGAGATTTCAATTTGAGTAATTCAAATTCTCAATTGAAAT
1 ATAATAGATAGTTTTAACATTTCAAAGAGATTTCAATTTGAGTAATTCAAATTCTCAATTGAAAT
23929202 TATCACAATAAAATAAAAAAATTAACTTTAA
66 TATCACAATAAAATAAAAAAATTAACTTTAA
23929233 ATAATAGATA-TTTTAACATTTCAAAGAGATTTCAATTTGAGTAATTCAAATTCTCAATTGAAAT
1 ATAATAGATAGTTTTAACATTTCAAAGAGATTTCAATTTGAGTAATTCAAATTCTCAATTGAAAT
23929297 TATCACAATAAAATAAAAAAATTAACTTTAA
66 TATCACAATAAAATAAAAAAATTAACTTTAA
23929328 A
1 A
23929329 ATTTAGTTTT
Statistics
Matches: 96, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 86 0.90
96 10 0.10
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.35
Consensus pattern (96 bp):
ATAATAGATAGTTTTAACATTTCAAAGAGATTTCAATTTGAGTAATTCAAATTCTCAATTGAAAT
TATCACAATAAAATAAAAAAATTAACTTTAA
Found at i:23929421 original size:15 final size:16
Alignment explanation
Indices: 23929403--23929434 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
23929393 TCTTATTTCG
23929403 TATTTTT-ATATTATT
1 TATTTTTAATATTATT
23929418 TATTTTTAATATTATT
1 TATTTTTAATATTATT
23929434 T
1 T
23929435 TTTAAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTTTTAATATTATT
Found at i:23930976 original size:15 final size:16
Alignment explanation
Indices: 23930949--23930978 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23930939 GGTGATGGTA
23930949 TTAGGTATAAATTATT
1 TTAGGTATAAATTATT
23930965 TTAGGT-TAAATTAT
1 TTAGGTATAAATTAT
23930979 GACTGTGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (16 bp):
TTAGGTATAAATTATT
Found at i:23934845 original size:18 final size:18
Alignment explanation
Indices: 23934822--23934861 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
23934812 NNNNNNNNNN
23934822 TAACTTAATTAAAAACCC
1 TAACTTAATTAAAAACCC
23934840 TAACTTAATTAAAAACCC
1 TAACTTAATTAAAAACCC
23934858 TAAC
1 TAAC
23934862 CCTAACCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.28
Consensus pattern (18 bp):
TAACTTAATTAAAAACCC
Found at i:23934862 original size:24 final size:23
Alignment explanation
Indices: 23934835--23934919 Score: 77
Period size: 24 Copynumber: 3.7 Consensus size: 23
23934825 CTTAATTAAA
*
23934835 AACCCTAACTTAATTAAAAACCCT
1 AACCCTAACCTAATTAAAAA-CCT
*
23934859 AACCCTAACCTAATTTAATTAA---
1 AACCCTAACCTAA-TTAA-AAACCT
* *
23934881 AATCCTAACTTAATTAAAAACCTT
1 AACCCTAACCTAATTAAAAACC-T
23934905 AACCCTAACCTAATT
1 AACCCTAACCTAATT
23934920 TTACATAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
20 2 0.04
21 4 0.08
22 11 0.23
24 25 0.52
25 4 0.08
26 2 0.04
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (23 bp):
AACCCTAACCTAATTAAAAACCT
Found at i:23934893 original size:17 final size:17
Alignment explanation
Indices: 23934867--23934899 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23934857 CTAACCCTAA
*
23934867 CCTAATTTAATTAAAAT
1 CCTAACTTAATTAAAAT
23934884 CCTAACTTAATTAAAA
1 CCTAACTTAATTAAAA
23934900 ACCTTAACCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (17 bp):
CCTAACTTAATTAAAAT
Found at i:23934893 original size:46 final size:47
Alignment explanation
Indices: 23934826--23934920 Score: 165
Period size: 46 Copynumber: 2.0 Consensus size: 47
23934816 NNNNNNTAAC
23934826 TTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAAT
1 TTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAAT
* *
23934873 TTAATT-AAAATCCTAACTTAATTAAAAACCTTAACCCTAACCTAAT
1 TTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAAT
23934919 TT
1 TT
23934921 TACATAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 40 0.87
47 6 0.13
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (47 bp):
TTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAAT
Found at i:23934907 original size:18 final size:17
Alignment explanation
Indices: 23934822--23934903 Score: 68
Period size: 18 Copynumber: 5.1 Consensus size: 17
23934812 NNNNNNNNNN
23934822 TAACTTAATTAAAAACCC
1 TAACTTAATTAAAAA-CC
23934840 TAACTTAATTAAAAACCC
1 TAACTTAATTAAAAA-CC
**
23934858 TAAC---CCT---AACC
1 TAACTTAATTAAAAACC
* *
23934869 TAATTTAATTAAAATCC
1 TAACTTAATTAAAAACC
23934886 TAACTTAATTAAAAACC
1 TAACTTAATTAAAAACC
23934903 T
1 T
23934904 TAACCCTAAC
Statistics
Matches: 50, Mismatches: 8, Indels: 13
0.70 0.11 0.18
Matches are distributed among these distances:
11 5 0.10
12 2 0.04
14 1 0.02
15 1 0.02
17 19 0.38
18 22 0.44
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (17 bp):
TAACTTAATTAAAAACC
Found at i:23935061 original size:23 final size:22
Alignment explanation
Indices: 23935031--23935118 Score: 90
Period size: 23 Copynumber: 3.8 Consensus size: 22
23935021 TAAAAACCCT
23935031 AACCCTAACCTAACTTAATTAAA
1 AACCCTAACCTAA-TTAATTAAA
23935054 AACCCTAACCTTAATTAA--AAA
1 AACCCTAACC-TAATTAATTAAA
23935075 CCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAA-TTAATTAAA
*
23935102 AACCCTAACTTAATTAA
1 AACCCTAACCTAATTAA
23935119 AAACNNNNNN
Statistics
Matches: 56, Mismatches: 1, Indels: 17
0.76 0.01 0.23
Matches are distributed among these distances:
21 3 0.05
22 4 0.07
23 26 0.46
24 6 0.11
25 14 0.25
27 3 0.05
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (22 bp):
AACCCTAACCTAATTAATTAAA
Found at i:23935068 original size:19 final size:19
Alignment explanation
Indices: 23935039--23935082 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
23935029 CTAACCCTAA
23935039 CCTAA-CTTAATTAAAAAC
1 CCTAACCTTAATTAAAAAC
23935057 CCTAACCTTAATTAAAAAC
1 CCTAACCTTAATTAAAAAC
23935076 CCTAACC
1 CCTAACC
23935083 CTAACCTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (19 bp):
CCTAACCTTAATTAAAAAC
Found at i:23935073 original size:48 final size:47
Alignment explanation
Indices: 23935005--23935122 Score: 218
Period size: 48 Copynumber: 2.5 Consensus size: 47
23934995 ACTAACCATT
23935005 AAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTA
1 AAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTA
*
23935052 AAAACCCTAACCTTAATTAAAAACCCTAACCCTAACCTAATTTAATTA
1 AAAACCCTAA-CTTAATTAAAAACCCTAACCCTAACCTAACTTAATTA
23935100 AAAACCCTAACTTAATTAAAAAC
1 AAAACCCTAACTTAATTAAAAAC
23935123 NNNNNNNNNN
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
47 23 0.33
48 46 0.67
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.25
Consensus pattern (47 bp):
AAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTA
Found at i:23939121 original size:123 final size:124
Alignment explanation
Indices: 23938902--23939210 Score: 530
Period size: 123 Copynumber: 2.5 Consensus size: 124
23938892 CCAAACTTGT
* * *
23938902 TACTGTAGCAAAATCGCGTCTACGAGGGCGCGATTTCATAATTTCTTCTCAAATAGCATCTTGGT
1 TACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGT
* *
23938967 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAA-TTATTTCTTACATGACC
66 AGAAGCGATTTTATAATATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTACATAACC
*
23939025 TACTGTAGCAAAATCACGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGT
1 TACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGT
* *
23939090 AGAGGCGATTTTATAATATTTGCTTAGAAACGTCAAAAAAATTTATTTCTTACATAACC
66 AGAAGCGATTTTATAATATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTACATAACC
*
23939149 TACTGTAGCAAAATCGCGTCCACGGGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCT
1 TACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCT
23939211 AGCATCCTGG
Statistics
Matches: 175, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
123 99 0.57
124 76 0.43
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (124 bp):
TACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGT
AGAAGCGATTTTATAATATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTACATAACC
Found at i:23953347 original size:41 final size:41
Alignment explanation
Indices: 23953285--23953425 Score: 192
Period size: 41 Copynumber: 3.4 Consensus size: 41
23953275 ATAATCGAGT
23953285 TTTACGCCTAGCAGGCTTTATGCCGGTGAATTATATCAGGC
1 TTTACGCCTAGCAGGCTTTATGCCGGTGAATTATATCAGGC
* * **
23953326 TTTATGCCTAACAGGCTTTATGCCAATGAATTATATCAGGC
1 TTTACGCCTAGCAGGCTTTATGCCGGTGAATTATATCAGGC
* * ** *
23953367 TTTACGCCTAGCAGGCTTAATGCCGGTGTACCATAACAGGC
1 TTTACGCCTAGCAGGCTTTATGCCGGTGAATTATATCAGGC
*
23953408 TTTATGCCTAGCAGGCTT
1 TTTACGCCTAGCAGGCTT
23953426 CGTGCTGGTT
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 86 1.00
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (41 bp):
TTTACGCCTAGCAGGCTTTATGCCGGTGAATTATATCAGGC
Found at i:23959043 original size:46 final size:46
Alignment explanation
Indices: 23958940--23959073 Score: 229
Period size: 46 Copynumber: 3.0 Consensus size: 46
23958930 TACGTATGAT
* *
23958940 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
23958983 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
23959029 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
23959074 TNNNNNNNNN
Statistics
Matches: 86, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
43 10 0.12
44 5 0.06
45 20 0.23
46 51 0.59
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:23962867 original size:35 final size:34
Alignment explanation
Indices: 23962811--23962877 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 34
23962801 GTCAAAACAA
*
23962811 TGTGTTTCATGTTTTATACCGTTTAAATGAAACGG
1 TGTGTTTCATGTTTTACACCGTTT-AATGAAACGG
*
23962846 TGTGCTTT-ATGTTTTGCACCGTTTAATGAAAC
1 TGTG-TTTCATGTTTTACACCGTTTAATGAAAC
23962878 AGTGCAAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 8 0.28
35 18 0.62
36 3 0.10
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.43
Consensus pattern (34 bp):
TGTGTTTCATGTTTTACACCGTTTAATGAAACGG
Found at i:23966511 original size:15 final size:15
Alignment explanation
Indices: 23966491--23966523 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
23966481 TTTCTCCTCA
*
23966491 GCTGGCTTTTTCTCG
1 GCTGGCTTCTTCTCG
23966506 GCTGGCTTCTTCTCG
1 GCTGGCTTCTTCTCG
23966521 GCT
1 GCT
23966524 TTGGGTGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.30, G:0.27, T:0.42
Consensus pattern (15 bp):
GCTGGCTTCTTCTCG
Done.