Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 76 of 292
Found at i:23333338 original size:40 final size:40
Alignment explanation
Indices: 23333278--23333461 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
23333268 AATTATTGTA
* *
23333278 TGATCGCACATACCTGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
23333318 TAATTGCACATACGTGCCCCTGTTTATACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
23333358 TGATTCCATATACGTGCCTCTGTTTGTACTAT-GATACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACT-TCGGTACCCC
* ** *
23333398 TGATTACACATACGTGCCCCTGTTTGTACTTCAATA-CTC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
23333437 TGAATGCACTTTCGTGCCCCTGTTT
1 TGATTGCACATACGTGCCCCTGTTT
23333462 ATACCTTAGT
Statistics
Matches: 123, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 24 0.20
40 98 0.80
41 1 0.01
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.35
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:23333357 original size:20 final size:20
Alignment explanation
Indices: 23333294--23333359 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
23333284 CACATACCTG
23333294 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
** * * *
23333314 CCCCTAATTGCACATAC-GTG
1 CCCCTGTTTGTAC-TTCGGTA
*
23333334 CCCCTGTTTATACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
23333354 CCCCTG
1 CCCCTG
23333360 ATTCCATATA
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.15, C:0.35, G:0.17, T:0.33
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:23333419 original size:20 final size:20
Alignment explanation
Indices: 23333314--23333419 Score: 54
Period size: 20 Copynumber: 5.3 Consensus size: 20
23333304 TACTTCGGTA
* *
23333314 CCCCTAATTGCACATACGTG
1 CCCCTGATTACACATACGTG
* * * *
23333334 CCCCTGTTTATAC-TTCGGTA
1 CCCCTGATTACACATAC-GTG
* *
23333354 CCCCTGATTCCATATACGTG
1 CCCCTGATTACACATACGTG
* * ** * *
23333374 CCTCTGTTTGTAC-TATGATA
1 CCCCTGATTACACATACG-TG
23333394 CCCCTGATTACACATACGTG
1 CCCCTGATTACACATACGTG
23333414 CCCCTG
1 CCCCTG
23333420 TTTGTACTTC
Statistics
Matches: 57, Mismatches: 25, Indels: 8
0.63 0.28 0.09
Matches are distributed among these distances:
19 5 0.09
20 47 0.82
21 5 0.09
ACGTcount: A:0.20, C:0.33, G:0.15, T:0.32
Consensus pattern (20 bp):
CCCCTGATTACACATACGTG
Found at i:23335252 original size:27 final size:27
Alignment explanation
Indices: 23335233--23335510 Score: 186
Period size: 27 Copynumber: 10.3 Consensus size: 27
23335223 CTCAATTTGT
*
23335233 AAAATTACCAAAGTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
* ** *
23335260 AGAATTACCATTTTACCCTCGATTTAT
1 AAAATTACCAAATTACCCTCGATTTAC
* * ** *
23335287 AGAATTACGATTTTACCCTCAATTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
* **
23335314 AGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
***
23335341 AAAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
* * * * *
23335368 AAAATTACTAAAATACCTTTGGTTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
* * **
23335395 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAATTACCCTCGA-TTTAC
* * **
23335422 AAAATTACCAAAATACTACTCG-TTTGT
1 AAAATTACCAAATTAC-CCTCGATTTAC
* * **
23335449 GAAATTACCGAAA-TACCCTCAATTTGT
1 AAAATTACC-AAATTACCCTCGATTTAC
*
23335476 AAAATTACCAAAATACACCT-GATTTAC
1 AAAATTACCAAATTAC-CCTCGATTTAC
23335503 AAAATTAC
1 AAAATTAC
23335511 AGAAATACCC
Statistics
Matches: 208, Mismatches: 36, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
26 6 0.03
27 194 0.93
28 7 0.03
29 1 0.00
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (27 bp):
AAAATTACCAAATTACCCTCGATTTAC
Found at i:23335293 original size:54 final size:54
Alignment explanation
Indices: 23335246--23335375 Score: 206
Period size: 54 Copynumber: 2.4 Consensus size: 54
23335236 ATTACCAAAG
* * *
23335246 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACGATTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTT
* *
23335300 TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTT
*
23335354 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
23335376 TAAAATACCT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTT
Found at i:23335412 original size:54 final size:55
Alignment explanation
Indices: 23335336--23335566 Score: 163
Period size: 54 Copynumber: 4.2 Consensus size: 55
23335326 TTACCCTCGA
**** * * *
23335336 TTTACAAAATTACCGTTTTACCCTCGA-TTTACAAAATTACTAAAATACCTTTGG
1 TTTACAAAATTACCAAAATACCCTCGACTTTATAAAATTACCAAAATACCTCTGG
* * * *
23335390 TTTACAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATA-CTACTCG
1 TTTACAAAATTACCAAAATACCCTCGACTTTATAAAATTACCAAAATACCT-CTGG
*** * * * *
23335444 TTTGTGAAATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATACAC-CTGA
1 TTTACAAAATTACCAAAATACCCTCGACTTTATAAAATTACCAAAATAC-CTCTGG
* * *
23335498 TTTACAAAATTA-CAGAAATACCCTTGACTTTCAAAAAATTA-TAGAAATACCAT-TGG
1 TTTACAAAATTACCA-AAATACCCTCGACTTT-ATAAAATTACCA-AAATACC-TCTGG
23335554 TTTACAAAATTAC
1 TTTACAAAATTAC
23335567 TGAAATAACC
Statistics
Matches: 138, Mismatches: 27, Indels: 21
0.74 0.15 0.11
Matches are distributed among these distances:
53 5 0.04
54 98 0.71
55 7 0.05
56 28 0.20
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.32
Consensus pattern (55 bp):
TTTACAAAATTACCAAAATACCCTCGACTTTATAAAATTACCAAAATACCTCTGG
Found at i:23335412 original size:81 final size:81
Alignment explanation
Indices: 23335201--23335510 Score: 241
Period size: 81 Copynumber: 3.8 Consensus size: 81
23335191 AATACTTTAG
* * ** ** * *
23335201 TTTACCAAATTACTAAAATGTCCTCAATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATT
1 TTTACAAAATTACGAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTACAAAATT
23335266 ACCATTTTACCCTCGA
66 ACCATTTTACCCTCGA
* * *** * ***
23335282 TTTATAGAATTACGATTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATT
1 TTTACAAAATTACGAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTACAAAATT
*
23335347 ACCGTTTTACCCTCGA
66 ACCATTTTACCCTCGA
* * *** * **
23335363 TTTACAAAATTACTAAAATACCTTTGGTTTACAAAATTACCAAAATACCC-CTAGTTTGTAAAAT
1 TTTACAAAATTACGAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCGA-TTTACAAAAT
*** *
23335427 TACCAAAATACTACTCG-
65 TACCATTTTAC-CCTCGA
*** **
23335444 TTTGTGAAATTACCG-AAATACCCTCAATTTGTAAAATTACCAAAATACACCT-GATTTACAAAA
1 TTTACAAAATTA-CGAAAATACCCTCAATTTACAAAATTACCAAAATAC-CCTCGATTTACAAAA
23335507 TTAC
64 TTAC
23335511 AGAAATACCC
Statistics
Matches: 172, Mismatches: 52, Indels: 10
0.74 0.22 0.04
Matches are distributed among these distances:
80 2 0.01
81 162 0.94
82 8 0.05
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (81 bp):
TTTACAAAATTACGAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTACAAAATT
ACCATTTTACCCTCGA
Found at i:23335516 original size:27 final size:26
Alignment explanation
Indices: 23335327--23335573 Score: 110
Period size: 27 Copynumber: 9.1 Consensus size: 26
23335317 ATTACCATTT
* ***
23335327 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCT-GATTTACAAAATTACAGAAA
23335354 TACCCTCGATTTACAAAATTACTA-AAA
1 TACCCT-GATTTACAAAATTAC-AGAAA
* *
23335381 TACCTTTGGTTTACAAAATTACCA-AAA
1 TACC-CTGATTTACAAAATTA-CAGAAA
**
23335408 TACCCCT-AGTTTGTAAAATTACCA-AAA
1 TA-CCCTGA-TTTACAAAATTA-CAGAAA
* *** *
23335435 TACTACTCG-TTTGTGAAATTACCGAAA
1 TAC-CCT-GATTTACAAAATTACAGAAA
* **
23335462 TACCCTCAATTTGTAAAATTACCA-AAA
1 TACCCT-GATTTACAAAATTA-CAGAAA
23335489 TACACCTGATTTACAAAATTACAGAAA
1 TAC-CCTGATTTACAAAATTACAGAAA
* *
23335516 TACCCTTGACTTTCAAAAAATTATAGAAA
1 TACCC-TGA-TTT-ACAAAATTACAGAAA
* * *
23335545 TACCATTGGTTTACAAAATTACTGAAA
1 TACC-CTGATTTACAAAATTACAGAAA
23335572 TA
1 TA
23335574 ACCTTGGTTT
Statistics
Matches: 176, Mismatches: 27, Indels: 34
0.74 0.11 0.14
Matches are distributed among these distances:
26 9 0.05
27 134 0.76
28 14 0.08
29 19 0.11
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (26 bp):
TACCCTGATTTACAAAATTACAGAAA
Found at i:23335561 original size:29 final size:29
Alignment explanation
Indices: 23335503--23335573 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
23335493 CCTGATTTAC
*
23335503 AAAATTACAGAAATACCCTTGACTTTCAA
1 AAAATTACAGAAATACCATTGACTTTCAA
* * *
23335532 AAAATTATAGAAATACCATTG-GTTT-AC
1 AAAATTACAGAAATACCATTGACTTTCAA
*
23335559 AAAATTACTGAAATA
1 AAAATTACAGAAATA
23335574 ACCTTGGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
27 14 0.39
28 3 0.08
29 19 0.53
ACGTcount: A:0.48, C:0.14, G:0.08, T:0.30
Consensus pattern (29 bp):
AAAATTACAGAAATACCATTGACTTTCAA
Found at i:23335657 original size:27 final size:27
Alignment explanation
Indices: 23335627--23335680 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
23335617 TGACTAAAAT
23335627 CCCCT-AACAGGTAAAAAGACCGTAAAG
1 CCCCTGAA-AGGTAAAAAGACCGTAAAG
* **
23335654 CCCCTGTAAGGTAAACTGACCGTAAAG
1 CCCCTGAAAGGTAAAAAGACCGTAAAG
23335681 TGCCTGTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.39, C:0.26, G:0.20, T:0.15
Consensus pattern (27 bp):
CCCCTGAAAGGTAAAAAGACCGTAAAG
Found at i:23335686 original size:27 final size:27
Alignment explanation
Indices: 23335635--23335726 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
23335625 ATCCCCTAAC
*
23335635 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* **
23335662 AGGTAAACTGACCGTAAAGTGCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* * *
23335689 GGGTAAAGTGACCGTAATA-CCCCTATA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
23335716 TGGTAAAATGA
1 AGGTAAAATGA
23335727 GGAATATGCC
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:23336608 original size:52 final size:52
Alignment explanation
Indices: 23336530--23336678 Score: 266
Period size: 52 Copynumber: 2.9 Consensus size: 52
23336520 GAGGAAGTGC
* *
23336530 AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTACGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
23336582 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
23336634 AAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTT
23336679 ATTAAAGAGG
Statistics
Matches: 95, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
50 10 0.11
51 25 0.26
52 60 0.63
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.26
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
Found at i:23336653 original size:25 final size:26
Alignment explanation
Indices: 23336530--23336678 Score: 230
Period size: 26 Copynumber: 5.8 Consensus size: 26
23336520 GAGGAAGTGC
*
23336530 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
23336556 AAAAGGGCTTACGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
23336582 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
23336608 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
23336634 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
23336659 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
23336679 ATTAAAGAGG
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 33 0.29
26 79 0.71
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:23336882 original size:42 final size:42
Alignment explanation
Indices: 23336823--23336914 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
23336813 TAGTCTCCCC
* ** *
23336823 AAATGGGCTTGCATACATTCATTGGTATT-TCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTAT-AGGTGATATTG
23336865 AAATGGGCTTGCATACATCCATTGACATTATAGGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTATAGGTGATATTG
23336907 AAATGGGC
1 AAATGGGC
23336915 CTAAGGGCCA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTATAGGTGATATTG
Found at i:23337015 original size:31 final size:31
Alignment explanation
Indices: 23336938--23337016 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
23336928 CGTTTACAGT
* *
23336938 AAAGGTTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
23336969 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
23337000 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCGGCCCAGT
23337017 AACCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:23339355 original size:27 final size:27
Alignment explanation
Indices: 23339310--23339597 Score: 206
Period size: 27 Copynumber: 10.7 Consensus size: 27
23339300 TTAGTTTACC
* ** * *
23339310 AAATTACTAAAATGTCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* *
23339337 AAATTACCAAAGTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* ****
23339364 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* ***
23339391 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* **** *
23339418 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* * * *
23339445 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* *
23339472 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * *
23339499 AAATTACCAAAATACCACT-GGTTTGTG
1 AAATTACCAAAATACC-CTCGATTTATA
* *
23339526 AAATTACCAAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
*
23339553 AAATTACCAAAATACACCT-GATTTACA
1 AAATTACCAAAATAC-CCTCGATTTATA
23339580 AAATTA-CAGAAATACCCT
1 AAATTACCA-AAATACCCT
23339598 TGACTTTCTA
Statistics
Matches: 216, Mismatches: 39, Indels: 13
0.81 0.15 0.05
Matches are distributed among these distances:
26 7 0.03
27 205 0.95
28 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:23339647 original size:27 final size:27
Alignment explanation
Indices: 23339430--23339682 Score: 174
Period size: 27 Copynumber: 9.3 Consensus size: 27
23339420 ATTACCGTTT
* * *
23339430 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
23339457 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * **
23339484 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
***
23339511 TACCAC-TGGTTTGTGAAATTACCAAAA
1 TACC-CTTGGTTTACAAAATTACCAAAA
*** **
23339538 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
23339565 TACACC-TGATTTACAAAATTA-CAGAAA
1 TAC-CCTTGGTTTACAAAATTACCA-AAA
* *
23339592 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACCA-AAA
* **
23339621 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
** * *
23339648 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
23339675 CACCCTTG
1 TACCCTTG
23339683 TAGGATGAAA
Statistics
Matches: 186, Mismatches: 30, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
26 5 0.03
27 151 0.81
28 10 0.05
29 20 0.11
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:23339742 original size:27 final size:26
Alignment explanation
Indices: 23339712--23339772 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 26
23339702 TACCCCTAAT
23339712 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAAAGACCGTAAAG-CCCTGTA
**
23339739 AGGTAAAGTGACCGTAAAGCCCTGTA
1 AGGTAAAAAGACCGTAAAGCCCTGTA
*
23339765 TGGTAAAA
1 AGGTAAAA
23339773 TGACGAATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 13 0.43
27 17 0.57
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (26 bp):
AGGTAAAAAGACCGTAAAGCCCTGTA
Found at i:23339769 original size:26 final size:27
Alignment explanation
Indices: 23339712--23339776 Score: 96
Period size: 26 Copynumber: 2.4 Consensus size: 27
23339702 TACCCCTAAT
*
23339712 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
*
23339739 AGGTAAAGTGACCGTAAAG-CCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
*
23339765 TGGTAAAATGAC
1 AGGTAAAATGAC
23339777 GAATACGCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 17 0.50
27 17 0.50
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:23340653 original size:52 final size:52
Alignment explanation
Indices: 23340575--23340723 Score: 266
Period size: 52 Copynumber: 2.9 Consensus size: 52
23340565 GAGGAAGTGC
23340575 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
*
23340627 AAAAGAGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
*
23340679 AAAAGGGCTT-TGCCCTAGTTTACCGAAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTT
23340724 ATTAAAGAGG
Statistics
Matches: 94, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
50 10 0.11
51 24 0.26
52 60 0.64
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
Found at i:23340698 original size:25 final size:26
Alignment explanation
Indices: 23340575--23340723 Score: 230
Period size: 26 Copynumber: 5.8 Consensus size: 26
23340565 GAGGAAGTGC
23340575 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
23340601 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
23340627 AAAAGAGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
23340653 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
23340679 AAAAGGGCTT-TGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
23340704 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
23340724 ATTAAAGAGG
Statistics
Matches: 111, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
25 31 0.28
26 80 0.72
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:23340927 original size:42 final size:42
Alignment explanation
Indices: 23340868--23340959 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
23340858 TAGTCTCCCC
* ** *
23340868 AAATGGGCTTGCATACATTCATTGGTATT-TCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTAT-AGGTGATATTG
23340910 AAATGGGCTTGCATACATCCATTGACATTATAGGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTATAGGTGATATTG
23340952 AAATGGGC
1 AAATGGGC
23340960 CTAAGGGTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 44 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTATAGGTGATATTG
Found at i:23341060 original size:31 final size:31
Alignment explanation
Indices: 23340983--23341061 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
23340973 CGTTTACAGT
* *
23340983 AAAGGCTTCGGCCCAATGATTTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
23341014 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
23341045 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
23341062 AACCGTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:23343079 original size:43 final size:43
Alignment explanation
Indices: 23342996--23343163 Score: 135
Period size: 43 Copynumber: 3.9 Consensus size: 43
23342986 GTACACTGTC
**
23342996 ATATCCCAGATATGGTCTTACATGTTATCACATATCGATGCCA
1 ATATCCCAGATATGGTCTTACATGAAATCACATATCGATGCCA
* * *
23343039 CTATCCCAGATAGGGTCTTACATGAAAT-ATATTAAT-GATGCCA
1 ATATCCCAGATATGGTCTTACATGAAATCACA-T-ATCGATGCCA
* * * * * * *
23343082 ATGTCCCAGACATGGTCTTACACGTATTCTCAATAT-AATGCCA
1 ATATCCCAGATATGGTCTTACATGAAATCAC-ATATCGATGCCA
* * * * *
23343125 ATTTCCCAGACATGGTCTTACAAGTAATCACATCTCGAT
1 ATATCCCAGATATGGTCTTACATGAAATCACATATCGAT
23343164 AACCTAATGT
Statistics
Matches: 99, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
42 5 0.05
43 90 0.91
44 3 0.03
45 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (43 bp):
ATATCCCAGATATGGTCTTACATGAAATCACATATCGATGCCA
Found at i:23348381 original size:57 final size:57
Alignment explanation
Indices: 23348320--23348432 Score: 149
Period size: 57 Copynumber: 2.0 Consensus size: 57
23348310 CCAAATGGAC
*
23348320 AGCTTGAAAAACGTTAATTTGGACAACATTT-TGACTC-AATTAAACATCAATATAGAT
1 AGCTTGAAAAACCTTAATTTGGACAAC-TTTATGA-TCAAATTAAACATCAATATAGAT
* * * *
23348377 AGCTTGAATAACCTTATTTTGGACAGCTTTATGATCAAATTTAACATCAATATAGA
1 AGCTTGAAAAACCTTAATTTGGACAACTTTATGATCAAATTAAACATCAATATAGA
23348433 CAAATCAAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
56 5 0.10
57 44 0.90
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (57 bp):
AGCTTGAAAAACCTTAATTTGGACAACTTTATGATCAAATTAAACATCAATATAGAT
Found at i:23351514 original size:8 final size:9
Alignment explanation
Indices: 23351496--23351530 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
23351486 CATAACTGTG
23351496 AAAAATAAA
1 AAAAATAAA
23351505 AAAAAT-AA
1 AAAAATAAA
23351513 AAAAATAAA
1 AAAAATAAA
23351522 AAAAATAAA
1 AAAAATAAA
23351531 GAACACACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAATAAA
Found at i:23351518 original size:17 final size:17
Alignment explanation
Indices: 23351496--23351530 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
23351486 CATAACTGTG
23351496 AAAAATAAAAAAAATAA
1 AAAAATAAAAAAAATAA
23351513 AAAAATAAAAAAAATAA
1 AAAAATAAAAAAAATAA
23351530 A
1 A
23351531 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAAATAAAAAAAATAA
Found at i:23357035 original size:13 final size:13
Alignment explanation
Indices: 23357017--23357041 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23357007 AATCACAAAT
23357017 AAATACACATATC
1 AAATACACATATC
23357030 AAATACACATAT
1 AAATACACATAT
23357042 TTTTTTTCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATACACATATC
Found at i:23358373 original size:14 final size:14
Alignment explanation
Indices: 23358354--23358397 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
23358344 CACAACTTAT
23358354 ATTATATACATATA
1 ATTATATACATATA
* *
23358368 ATTATATACATTTT
1 ATTATATACATATA
23358382 ATTATTATAACATATA
1 ATTA-TAT-ACATATA
23358398 TATATATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 16 0.67
15 3 0.12
16 5 0.21
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTATATACATATA
Found at i:23361113 original size:43 final size:42
Alignment explanation
Indices: 23361065--23361179 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 42
23361055 ATGTATTTAT
23361065 GTGTAAGACCATGTCTGGGACATTGACAT-TGTAT-TGAGGTTAC
1 GTGTAAGACCATGTCTGGGACATTGACATAT-TATATGA--TTAC
* * * *
23361108 GTGTAAGACCATGTCTAGGACAGTGGCATCATTATATGATTTC
1 GTGTAAGACCATGTCTGGGACATTGACAT-ATTATATGATTAC
* *
23361151 ATGTAAGACCATCTCTGGGACATTGACAT
1 GTGTAAGACCATGTCTGGGACATTGACAT
23361180 CGATAAGTGA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
43 53 0.88
44 3 0.05
45 4 0.07
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATTGACATATTATATGATTAC
Found at i:23363103 original size:42 final size:44
Alignment explanation
Indices: 23362998--23363145 Score: 123
Period size: 43 Copynumber: 3.4 Consensus size: 44
23362988 AATGACAATG
* * *
23362998 TCCCAGACGTGGTCTTACAT-TTAATCA-ACTATCAATTA-C-ACTA
1 TCCCAGACGTGGTCTTACATGTAAATCATA-AATCGA-TACCAAC-A
23363041 TCCCAGACAG-GGTCTTACATG-AAATC--AAATACGATACCAACA
1 TCCCAGAC-GTGGTCTTACATGTAAATCATAAAT-CGATACCAACA
* * * **
23363083 TCCTAGATGTGGTCTTACATGTAAATCATAAATCGATGCCAATG
1 TCCCAGACGTGGTCTTACATGTAAATCATAAATCGATACCAACA
23363127 TCCCAGACGTGGTCTTACA
1 TCCCAGACGTGGTCTTACA
23363146 CGATAACACA
Statistics
Matches: 86, Mismatches: 10, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
41 5 0.06
42 22 0.26
43 29 0.34
44 26 0.30
45 4 0.05
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (44 bp):
TCCCAGACGTGGTCTTACATGTAAATCATAAATCGATACCAACA
Found at i:23369092 original size:40 final size:39
Alignment explanation
Indices: 23369048--23369173 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
23369038 GGGACTCAAC
*
23369048 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
23369088 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
23369128 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
23369168 CCGGAT
1 CCGGAT
23369174 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:23369132 original size:80 final size:80
Alignment explanation
Indices: 23368987--23369173 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
23368977 GCTACACATT
* * *
23368987 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
23369051 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
23369067 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
23369130 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
23369148 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
23369174 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:23373548 original size:53 final size:54
Alignment explanation
Indices: 23373463--23373666 Score: 194
Period size: 53 Copynumber: 3.8 Consensus size: 54
23373453 TTCCTTTTTA
* * ** *
23373463 AACTTACCATTTCCATGTTTTGACATGGTCTTACGTGGTATCTTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG
* * * * *
23373516 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG
** * * * * * * * *
23373570 TAGTTTATCAATGCCATGTCTTGACCTGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG
* *
23373625 AACTTACCAATGCCATGCCTTGGCATGGTCTTACCTGGTATC
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATC
23373667 CTTAAACCCT
Statistics
Matches: 118, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 45 0.38
54 34 0.29
55 39 0.33
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG
Found at i:23373602 original size:55 final size:53
Alignment explanation
Indices: 23373475--23373658 Score: 161
Period size: 55 Copynumber: 3.4 Consensus size: 53
23373465 CTTACCATTT
* * * *
23373475 CCATGTTTTGACATGGTCTTACGTGGTATCTTTGCCTTATGAACTCACCATTG
1 CCATGTCTTGACATGGTCTTACATGGGATCTTTGCCTTATGAACTCACCAATG
* * ** * *
23373528 CCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCTTTGCCTTAT-G-AACTCACCAATG
* *** * * * *
23373583 CCATGTCTTGACCTGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCTTTGCCTTAT-GAACTCACCAATG
* *
23373637 CCATGCCTTGGCATGGTCTTAC
1 CCATGTCTTGACATGGTCTTAC
23373659 CTGGTATCCT
Statistics
Matches: 103, Mismatches: 26, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 35 0.34
54 29 0.28
55 39 0.38
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCTTTGCCTTATGAACTCACCAATG
Found at i:23377531 original size:13 final size:13
Alignment explanation
Indices: 23377513--23377539 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23377503 CACAAATGAT
23377513 AAAATTTTCACAC
1 AAAATTTTCACAC
23377526 AAAATTTTCACAC
1 AAAATTTTCACAC
23377539 A
1 A
23377540 TGTCAATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:23382704 original size:46 final size:46
Alignment explanation
Indices: 23382603--23382690 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
23382593 TGTAACCCGC
* * *
23382603 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
23382649 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
23382691 AACCATCCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:23385111 original size:30 final size:30
Alignment explanation
Indices: 23385067--23385155 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
23385057 CAAAGATAAC
*
23385067 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
23385096 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
23385126 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
23385156 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:23385115 original size:15 final size:14
Alignment explanation
Indices: 23385067--23385149 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
23385057 CAAAGATAAC
*
23385067 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
23385081 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
23385096 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
23385111 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
23385126 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
23385141 AAGAAACCC
1 AAGAAACCC
23385150 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:23385155 original size:15 final size:15
Alignment explanation
Indices: 23385078--23385155 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
23385068 AGAAAACCGA
23385078 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
23385093 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
23385107 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
23385122 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
23385138 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
23385153 ATA
1 ATA
23385156 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:23388201 original size:46 final size:46
Alignment explanation
Indices: 23388100--23388187 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
23388090 TGTAACCCGC
* * *
23388100 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
23388146 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
23388188 AACCATCCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:23394072 original size:44 final size:44
Alignment explanation
Indices: 23394024--23394110 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
23394014 AAAATACATT
* * * *
23394024 CTCTTTTTAAGAATGTAACGTGTCTTATCGTTACATCTAAAATC
1 CTCTTCTTAAGAATGTAACGTGTATTATCGTTAAACCTAAAATC
* *
23394068 CTCTTCTTAAGAATTTAACTTGTATTATCGTTAAACCTAAAAT
1 CTCTTCTTAAGAATGTAACGTGTATTATCGTTAAACCTAAAAT
23394111 TTTAAAAGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.41
Consensus pattern (44 bp):
CTCTTCTTAAGAATGTAACGTGTATTATCGTTAAACCTAAAATC
Found at i:23394252 original size:2 final size:2
Alignment explanation
Indices: 23394245--23394272 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
23394235 ATTTTTCTTA
23394245 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
23394273 TTCTTGTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23395060 original size:11 final size:11
Alignment explanation
Indices: 23395044--23395070 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
23395034 TCAAAAAAAG
23395044 ATAAAATAGAT
1 ATAAAATAGAT
23395055 ATAAAATAGAT
1 ATAAAATAGAT
23395066 ATAAA
1 ATAAA
23395071 TTGCCAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (11 bp):
ATAAAATAGAT
Found at i:23397901 original size:21 final size:19
Alignment explanation
Indices: 23397854--23397894 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
23397844 TTTTAATGAG
* *
23397854 TAAATTTAACTAAAAAATA
1 TAAATTAAATTAAAAAATA
23397873 TAAATTAAATTAAAAAATA
1 TAAATTAAATTAAAAAATA
23397892 TAA
1 TAA
23397895 GTATTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAATTAAATTAAAAAATA
Found at i:23400897 original size:45 final size:45
Alignment explanation
Indices: 23400825--23400948 Score: 149
Period size: 45 Copynumber: 2.8 Consensus size: 45
23400815 TGCTTTCACC
* * * * *
23400825 TAATGCCATAGCTTCTTTCAGCAATGGTCTTACTCATTTTTATCA
1 TAATGCCATAACATCTTTCAACTATGGTCTTACTCATCTTTATCA
* *
23400870 TGATGCCATAACATCTTTCAACTATGGTTTTACTCATCTTTATCA
1 TAATGCCATAACATCTTTCAACTATGGTCTTACTCATCTTTATCA
** **
23400915 TAATGTAATATTATCTTTCAACTATGGTCTTACT
1 TAATGCCATAACATCTTTCAACTATGGTCTTACT
23400949 TATGTTAGGC
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.44
Consensus pattern (45 bp):
TAATGCCATAACATCTTTCAACTATGGTCTTACTCATCTTTATCA
Found at i:23404983 original size:31 final size:31
Alignment explanation
Indices: 23404945--23405008 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
23404935 AAATTGGTTT
*
23404945 AGGATTTTGGCTTCTATGCATTTAAAGACTA
1 AGGATTTTGGCTTCTATGCATTTAAAGAATA
*
23404976 AGGATTTTGGCTTCTATGCATTTAGAGAATA
1 AGGATTTTGGCTTCTATGCATTTAAAGAATA
23405007 AG
1 AG
23405009 AATACCTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (31 bp):
AGGATTTTGGCTTCTATGCATTTAAAGAATA
Found at i:23411365 original size:157 final size:157
Alignment explanation
Indices: 23411066--23411447 Score: 525
Period size: 157 Copynumber: 2.4 Consensus size: 157
23411056 ATATTTGATG
* * * * * *
23411066 TATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCTGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTTCGTACTGGTACTATATCTGGACTTAAGGTCCGCAGGC
** *
23411131 TTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCATGCTAGAATTGTATCCGGGCTT
66 TTCGTGCTGGAATTGTATCCGGACTTAAGACCCGCAGGCTTCATGCTAGAATTGTATCCGGACTT
* *
23411196 AAAGACCTGCAGGCTTCATGCTGGAAT
131 AAAGACCTGCAGGCTTCATACTGGAAC
* * *
23411223 TGTATCCGGACTTAAGATCCGCAGGCTTCGTATTGGTACTATATCTGGACTTAAGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTTCGTACTGGTACTATATCTGGACTTAAGGTCCGCAGGC
* *
23411288 TTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTGTATCCGGACT
66 TTCGTGCTGGAATTGTATCCGGACTT-AAGACCCGCAGGCTTCATGCTAGAATTGTATCCGGACT
* *
23411353 T-AAGATCC-GCAGGCTTCGTACTGGTAC
130 TAAAGA-CCTGCAGGCTTCATACTGGAAC
* * * *
23411380 TATATCCGGACTTAAGGTCCGCAGGCTTTGTACTGGTACTATATCTGGGCTTAAAGTCCCGTAGG
1 TATATCCGGACTTAAGGTCCGCAGGCTTCGTACTGGTACTATATCTGGACTTAAGGT-CCGCAGG
23411445 CTT
65 CTT
23411448 TGCGTTGGTG
Statistics
Matches: 197, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
157 151 0.77
158 46 0.23
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (157 bp):
TATATCCGGACTTAAGGTCCGCAGGCTTCGTACTGGTACTATATCTGGACTTAAGGTCCGCAGGC
TTCGTGCTGGAATTGTATCCGGACTTAAGACCCGCAGGCTTCATGCTAGAATTGTATCCGGACTT
AAAGACCTGCAGGCTTCATACTGGAAC
Found at i:23411433 original size:39 final size:39
Alignment explanation
Indices: 23411068--23411407 Score: 455
Period size: 39 Copynumber: 8.7 Consensus size: 39
23411058 ATTTGATGTA
23411068 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
*
23411107 TATCCGGACTTAAGGTCTGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* *
23411146 TATCCGGACTTAAGGTCCGCAGGCTTCATGCTAGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* * * *
23411185 TATCCGGGCTTAAAGACCTGCAGGCTTCATGCTGGAATTG
1 TATCCGGACTTAAGGTCC-GCAGGCTTCGTGCTGGAATTG
* ** * * *
23411225 TATCCGGACTTAAGATCCGCAGGCTTCGTATTGGTACTA
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
*
23411264 TATCTGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* ** *
23411303 TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTG
1 TATCCGGACTT-AAGGTCCGCAGGCTTCGTGCTGGAATTG
* * * * *
23411343 TATCCGGACTTAAGATCCGCAGGCTTCGTACTGGTACTA
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
23411382 TATCCGGACTTAAGGTCCGCAGGCTT
1 TATCCGGACTTAAGGTCCGCAGGCTT
23411408 TGTACTGGTA
Statistics
Matches: 261, Mismatches: 38, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
39 192 0.74
40 69 0.26
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
Found at i:23411446 original size:118 final size:118
Alignment explanation
Indices: 23411066--23411447 Score: 541
Period size: 118 Copynumber: 3.2 Consensus size: 118
23411056 ATATTTGATG
* ** * * *
23411066 TATATCCGGACTT-AAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCTGCAGG
1 TATATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTGTATCCGGACTTAAGATCCGCAGG
* * * * * *
23411130 CTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCATGCTAGAAT
66 CTTCGTACTGGTACTATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAT
* *
23411183 TGTATCCGGGCTTAAAGACCTGCAGGCTTCATGCTGGAATTGTATCCGGACTTAAGATCCGCAGG
1 TATATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTGTATCCGGACTTAAGATCCGCAGG
* *
23411248 CTTCGTATTGGTACTATATCTGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAT
66 CTTCGTACTGGTACTATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAT
*
23411301 TGTATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTGTATCCGGACTTAAGATCCGCAGG
1 TATATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTGTATCCGGACTTAAGATCCGCAGG
* * * *
23411366 CTTCGTACTGGTACTATATCCGGACTTAAGGTCCGCAGGCTTTGTACTGGTAC
66 CTTCGTACTGGTACTATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAT
* * *
23411419 TATATCTGGGCTTAAAGTCCCGTAGGCTT
1 TATATCCGGGCTTAAAGACCCGCAGGCTT
23411448 TGCGTTGGTG
Statistics
Matches: 237, Mismatches: 27, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
117 11 0.05
118 226 0.95
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (118 bp):
TATATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTGTATCCGGACTTAAGATCCGCAGG
CTTCGTACTGGTACTATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAAT
Found at i:23413699 original size:48 final size:48
Alignment explanation
Indices: 23413623--23413901 Score: 362
Period size: 48 Copynumber: 5.8 Consensus size: 48
23413613 ACCGTGCTAA
23413623 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATAT
* * *
23413671 ATGTTCCTGTGTAAGACCATGCCTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATAT
* * * *
23413719 ATGTGCCTGTGTAAGACCATGTTTGGGACATGGCATCGGTGTTGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATAT
* * *
23413767 ATGTGCCTGTGTAAGACCATGTCTGAGACATGGCATAGGCAATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATAT
* * * * *
23413815 GTGTGCCAGTGTAAGACCATGTCTGGGACATGGTATTGACAATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATAT
* ** * *
23413863 GTG-GATTCATGTAAGACCATGTCGGGGACATGGCATTGG
1 ATGTGCCT-GTGTAAGACCATGTCTGGGACATGGCATTGG
23413902 TACTTTATTT
Statistics
Matches: 203, Mismatches: 27, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
47 1 0.00
48 202 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.29
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATAT
Found at i:23416318 original size:46 final size:46
Alignment explanation
Indices: 23416261--23416431 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
23416251 ACAGCTCGTA
* *
23416261 GCCGATGCATGTCCTAGACACGTCTTACACTGGCTTACTTCT-AGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TACTTCTAAGAG
* * *
23416307 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-ACTCGTCTCA-AT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTACT--TCTAAGAG
* *
23416353 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCT-C-TCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTACTTC-TAA-GAG
*
23416401 GCTGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
23416432 AGCTCACAAT
Statistics
Matches: 105, Mismatches: 11, Indels: 18
0.78 0.08 0.13
Matches are distributed among these distances:
44 3 0.03
45 2 0.02
46 54 0.51
47 27 0.26
48 19 0.18
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTACTTCTAAGAG
Found at i:23416381 original size:94 final size:90
Alignment explanation
Indices: 23416223--23416434 Score: 261
Period size: 94 Copynumber: 2.3 Consensus size: 90
23416213 GTGCTGAAGC
* *
23416223 CATGTCCCAGACATGGTCTTACACTAACACAGCTCGTAGCCGATGCATGTCCTAGACACGTCTTA
1 CATGTCCCAGACAT-GTCTTACACTAGCACAGCTCATAGCCGATGCATGTCCTAGACACGTCTTA
23416288 CACTGGCTTACTTC-T-A-GAGGCCGATG
65 CACTGGC-T-C-TCATAATGAGGCCGATG
* *
23416314 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCA-ATGCCGATGCCATGTCCTAGACATGGT
1 CATGTCCCAGACATGTCTTACACTAGCAC-AG-CTCATA-GCCGATG-CATGTCCTAGACA-CGT
* *
23416378 CTTACACTGGCTCTCATAATGTGGCTGATG
61 CTTACACTGGCTCTCATAATGAGGCCGATG
23416408 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
23416435 TCACAATAAC
Statistics
Matches: 107, Mismatches: 6, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
90 14 0.13
91 18 0.17
92 12 0.11
93 15 0.14
94 48 0.45
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (90 bp):
CATGTCCCAGACATGTCTTACACTAGCACAGCTCATAGCCGATGCATGTCCTAGACACGTCTTAC
ACTGGCTCTCATAATGAGGCCGATG
Found at i:23419307 original size:33 final size:33
Alignment explanation
Indices: 23419264--23419330 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
23419254 ATGCTCGACC
* *
23419264 CGATAGATTAGGATGTCCCCAATGTGGGAGATG
1 CGATAAATTAGAATGTCCCCAATGTGGGAGATG
23419297 CGATAAATTAGAATGTCCCCAATGTGGGAGATG
1 CGATAAATTAGAATGTCCCCAATGTGGGAGATG
23419330 C
1 C
23419331 CACTTTGGCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (33 bp):
CGATAAATTAGAATGTCCCCAATGTGGGAGATG
Found at i:23424136 original size:48 final size:48
Alignment explanation
Indices: 23424065--23424332 Score: 376
Period size: 48 Copynumber: 5.6 Consensus size: 48
23424055 ACCATGCTAA
23424065 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* ** *
23424113 ATGTGCCTGTGTAAGACCATGTCTGAGACATTACATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * **
23424161 ATGT-TCTAGTGTAAGACCACGTCTGGGACATGGGATCATCGATGATAT
1 ATGTGCCT-GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * *
23424209 ATGTGCTTGTGTAAGACCATGTTTGGGACATGGCATCGACGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
23424257 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGTATCGGCGGTGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
23424305 ATGTGCCAGTGTAAGACCATGTTTGGGA
1 ATGTGCCTGTGTAAGACCATGTCTGGGA
23424333 GATAGCGTCG
Statistics
Matches: 191, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
47 2 0.01
48 188 0.98
49 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
Found at i:23424332 original size:144 final size:144
Alignment explanation
Indices: 23424065--23424332 Score: 419
Period size: 144 Copynumber: 1.9 Consensus size: 144
23424055 ACCATGCTAA
*
23424065 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGAC
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTGTGTAAGAC
* * * *
23424130 CATGTCTGAGACATTACATCGGTGATGATATATGTTCTAGTGTAAGACCACGTCTGGGACATGGG
66 CATGTCTGAGACATGACATCGGCGATGATATATGTGCCAGTGTAAGACCACGTCTGGGACATGGG
23424195 ATCATCGATGATAT
131 ATCATCGATGATAT
* *
23424209 ATGTGCTTGTGTAAGACCATGTTTGGGACATGGCATCGACGATGATATATGTGCCTGTGTAAGAC
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTGTGTAAGAC
* ** * * *
23424274 CATGTCTGGGACATGGTATCGGCGGTGATATATGTGCCAGTGTAAGACCATGTTTGGGA
66 CATGTCTGAGACATGACATCGGCGATGATATATGTGCCAGTGTAAGACCACGTCTGGGA
23424333 GATAGCGTCG
Statistics
Matches: 111, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
144 111 1.00
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (144 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTGTGTAAGAC
CATGTCTGAGACATGACATCGGCGATGATATATGTGCCAGTGTAAGACCACGTCTGGGACATGGG
ATCATCGATGATAT
Found at i:23424366 original size:96 final size:94
Alignment explanation
Indices: 23424074--23424388 Score: 339
Period size: 96 Copynumber: 3.3 Consensus size: 94
23424064 AATGTGCCTG
* *
23424074 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGACCATGTCTGA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGACCATGTTTGG
* *
23424139 GACATTA-CATCGGTGATGATATATGTTCTA
66 GACA-TAGCATCGGTGATTATATGTGTTC-A
* * ** *
23424169 GTGTAAGACCACGTCTGGGACATGGGATCATCGATGATATATGTGCTTGTGTAAGACCATGTTTG
1 -TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGACCATGTTTG
* * *
23424234 GGACATGGCATCGACGATGA-TATATGTG-CCTG
65 GGACATAGCATCG--G-TGATTATATGTGTTC-A
* * *
23424266 TGTAAGACCATGTCTGGGACATGGTATCGGCGGTGATATATGTGCCAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGACCATGTTTGG
* *
23424331 GAGATAGCGTCGGTGATTATATGTGGATTCA
66 GACATAGCATCGGTGATTATATGT-G-TTCA
* * * *
23424362 TGTAAAACTATGTCGGGGATATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
23424389 TGATACTTTA
Statistics
Matches: 182, Mismatches: 29, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
93 3 0.02
94 8 0.04
95 2 0.01
96 156 0.86
97 3 0.02
98 7 0.04
99 3 0.02
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (94 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGACCATGTTTGG
GACATAGCATCGGTGATTATATGTGTTCA
Found at i:23424366 original size:144 final size:142
Alignment explanation
Indices: 23424074--23424388 Score: 380
Period size: 144 Copynumber: 2.2 Consensus size: 142
23424064 AATGTGCCTG
*
23424074 TGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGCCTGTGTAAGACCATGTCTGA
1 TGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTGTGTAAGACCATGTCTGA
* * * * *
23424139 GACATTACATCGGTGATGATATATGTTCTAGTGTAAGACCACGTCTGGGACATGGGATCATCGAT
66 GACATGACATCGGCGATGATATATGTGCCAGTGTAAGACCACGTCTGGGACAT--GAGCATCGAT
* *
23424204 GATATATGTGCTTG
129 GATATATGTGATTA
* *
23424218 TGTAAGACCATGTTTGGGACATGGCATCGACGATGATATATGTGCCTGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTGTGTAAGACCATGTCTGA
** * * * * * *
23424283 GACATGGTATCGGCGGTGATATATGTGCCAGTGTAAGACCATGTTTGGGAGAT-AGCGTCGGTGA
66 GACATGACATCGGCGATGATATATGTGCCAGTGTAAGACCACGTCTGGGACATGAGCATCGATGA
23424347 TTATATGTGGATTCA
131 -TATATGT-GATT-A
* * * *
23424362 TGTAAAACTATGTCGGGGATATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
23424389 TGATACTTTA
Statistics
Matches: 145, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
141 8 0.06
142 7 0.05
143 3 0.02
144 127 0.88
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (142 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTGTGTAAGACCATGTCTGA
GACATGACATCGGCGATGATATATGTGCCAGTGTAAGACCACGTCTGGGACATGAGCATCGATGA
TATATGTGATTA
Found at i:23426424 original size:9 final size:9
Alignment explanation
Indices: 23426412--23426468 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
23426402 TTTGATAAAC
23426412 ATGATATGT
1 ATGATATGT
*
23426421 ATGATATGCAC
1 ATGATATG--T
*
23426432 ATGACATGT
1 ATGATATGT
*
23426441 ATGATATGCAC
1 ATGATATG--T
23426452 ATGATATGT
1 ATGATATGT
23426461 ATGATATG
1 ATGATATG
23426469 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:23426435 original size:20 final size:20
Alignment explanation
Indices: 23426410--23426480 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
23426400 ATTTTGATAA
23426410 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
23426430 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
23426450 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
23426470 ACATGAGATGT
1 ACATGATATGT
23426481 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:23426457 original size:11 final size:11
Alignment explanation
Indices: 23426421--23426475 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
23426411 CATGATATGT
23426421 ATGATATGCAC
1 ATGATATGCAC
* *
23426432 ATGACATG--T
1 ATGATATGCAC
23426441 ATGATATGCAC
1 ATGATATGCAC
*
23426452 ATGATATG--T
1 ATGATATGCAC
23426461 ATGATATGCAC
1 ATGATATGCAC
23426472 ATGA
1 ATGA
23426476 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:23426553 original size:24 final size:24
Alignment explanation
Indices: 23426526--23426691 Score: 250
Period size: 24 Copynumber: 7.0 Consensus size: 24
23426516 GAGGAAGTGC
23426526 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
23426550 AAAA-GGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
23426573 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
23426597 -AAAGGGCTTATGCCCCCAGTTATT
1 AAAAGGGCTTATG-CCCCAGTTATT
23426621 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
23426644 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
23426668 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
23426692 ATGATAAAGC
Statistics
Matches: 132, Mismatches: 5, Indels: 9
0.90 0.03 0.06
Matches are distributed among these distances:
23 45 0.34
24 76 0.58
25 11 0.08
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:23426594 original size:47 final size:47
Alignment explanation
Indices: 23426525--23426691 Score: 239
Period size: 47 Copynumber: 3.5 Consensus size: 47
23426515 GGAGGAAGTG
23426525 CAAAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATGCCCCAGTTAT
*
23426572 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATG-CCCCAGTTAT
* *
23426620 -TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAA-GGCTTATGCCCCAGTTAT
* *
23426667 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
23426692 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 6, Indels: 8
0.89 0.05 0.07
Matches are distributed among these distances:
47 72 0.66
48 26 0.24
49 11 0.10
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAAGGCTTATGCCCCAGTTAT
Found at i:23429451 original size:40 final size:40
Alignment explanation
Indices: 23429406--23429572 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
23429396 CGGAATATAA
23429406 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
23429446 CCGGATAGAAT-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
23429485 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
23429525 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
23429565 CCGGATAT
1 CCGGATAT
23429573 CATTCAATTT
Statistics
Matches: 107, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
38 1 0.01
39 33 0.31
40 73 0.68
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:23429470 original size:39 final size:39
Alignment explanation
Indices: 23429422--23429531 Score: 141
Period size: 39 Copynumber: 2.8 Consensus size: 39
23429412 ATAATCACGT
* *
23429422 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGA-ATACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAGACACTA
* *
23429461 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAGACACTA
*
23429501 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
23429532 TAATTTCCAG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 33 0.52
40 30 0.48
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAGACACTA
Found at i:23433345 original size:28 final size:28
Alignment explanation
Indices: 23433280--23433380 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
23433270 ATAGTGAATC
*
23433280 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
23433309 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
23433337 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
23433367 CGCACACTTAGTGC
1 CGCACACTTAGTGC
23433381 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:23441290 original size:28 final size:28
Alignment explanation
Indices: 23441225--23441325 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
23441215 ATAGTGAATC
*
23441225 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
23441254 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
23441282 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
23441312 CGCACACTTAGTGC
1 CGCACACTTAGTGC
23441326 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:23450002 original size:9 final size:9
Alignment explanation
Indices: 23449990--23450046 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
23449980 TTTGATAAAC
23449990 ATGATATGT
1 ATGATATGT
*
23449999 ATGATATGCAC
1 ATGATATG--T
*
23450010 ATGACATGT
1 ATGATATGT
*
23450019 ATGATATGCAC
1 ATGATATG--T
23450030 ATGATATGT
1 ATGATATGT
23450039 ATGATATG
1 ATGATATG
23450047 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:23450013 original size:20 final size:20
Alignment explanation
Indices: 23449988--23450058 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
23449978 ATTTTGATAA
23449988 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
23450008 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
23450028 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
23450048 ACATGAGATGT
1 ACATGATATGT
23450059 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:23450035 original size:11 final size:11
Alignment explanation
Indices: 23449999--23450053 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
23449989 CATGATATGT
23449999 ATGATATGCAC
1 ATGATATGCAC
* *
23450010 ATGACATG--T
1 ATGATATGCAC
23450019 ATGATATGCAC
1 ATGATATGCAC
*
23450030 ATGATATG--T
1 ATGATATGCAC
23450039 ATGATATGCAC
1 ATGATATGCAC
23450050 ATGA
1 ATGA
23450054 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:23450134 original size:23 final size:23
Alignment explanation
Indices: 23450104--23450270 Score: 280
Period size: 23 Copynumber: 7.1 Consensus size: 23
23450094 AGGAAGTGCA
23450104 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
23450127 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
23450151 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
23450175 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
23450198 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
23450221 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
23450244 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
23450268 AAA
1 AAA
23450271 AGAGACTAGG
Statistics
Matches: 139, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
23 71 0.51
24 68 0.49
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:23450159 original size:24 final size:23
Alignment explanation
Indices: 23450103--23450272 Score: 268
Period size: 24 Copynumber: 7.2 Consensus size: 23
23450093 GAGGAAGTGC
23450103 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
23450126 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
23450149 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
23450173 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
23450197 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
23450220 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
23450244 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
23450268 AAAAG
1 AAAAG
23450273 AGACTAGGCC
Statistics
Matches: 140, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
23 66 0.47
24 74 0.53
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:23450171 original size:47 final size:47
Alignment explanation
Indices: 23450102--23450270 Score: 286
Period size: 47 Copynumber: 3.6 Consensus size: 47
23450092 GGAGGAAGTG
23450102 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
23450149 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
*
23450197 -TAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
23450243 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
23450271 AGAGACTAGG
Statistics
Matches: 115, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
46 22 0.19
47 71 0.62
48 22 0.19
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:23453722 original size:21 final size:20
Alignment explanation
Indices: 23453698--23453737 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
23453688 TATGAGCTTT
23453698 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
23453719 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
23453738 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:23453745 original size:20 final size:21
Alignment explanation
Indices: 23453703--23453745 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
23453693 GCTTTAATGA
*
23453703 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
23453724 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
23453744 TT
1 TT
23453746 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:23455520 original size:21 final size:20
Alignment explanation
Indices: 23455487--23455525 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
23455477 AGCACACAGC
23455487 CTGGCACACGGGCATGTGGG
1 CTGGCACACGGGCATGTGGG
*
23455507 CTGGTCACATGGGCATGTG
1 CTGG-CACACGGGCATGTG
23455526 TGTTGGCTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.15, C:0.23, G:0.41, T:0.21
Consensus pattern (20 bp):
CTGGCACACGGGCATGTGGG
Found at i:23456564 original size:21 final size:21
Alignment explanation
Indices: 23456540--23456581 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
23456530 ACATGACATA
23456540 GTCTAATTTGACATATCAAAT
1 GTCTAATTTGACATATCAAAT
23456561 GTCTAATTTGACATATCAAAT
1 GTCTAATTTGACATATCAAAT
23456582 TATAGTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
GTCTAATTTGACATATCAAAT
Found at i:23469272 original size:45 final size:44
Alignment explanation
Indices: 23469201--23469322 Score: 165
Period size: 44 Copynumber: 2.8 Consensus size: 44
23469191 TTTAGAAATC
* *
23469201 TGAGCTCGTTGAGTTGGTCTGGGTTCATGATATGTATGAG-GCATT
1 TGAGCTCGTTGAGTTGGTCTGAGTTCAT--TATGGATGAGAGCATT
* *
23469246 TGAGCTCGTTGAGTTGGTCCGAGTTCATTATGGATGCGAGCATT
1 TGAGCTCGTTGAGTTGGTCTGAGTTCATTATGGATGAGAGCATT
* *
23469290 CGAGCTCTTTGAGTTGGTCTGAGTTCATTATGG
1 TGAGCTCGTTGAGTTGGTCTGAGTTCATTATGG
23469323 CGATACATGT
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
43 8 0.12
44 35 0.51
45 26 0.38
ACGTcount: A:0.17, C:0.14, G:0.32, T:0.37
Consensus pattern (44 bp):
TGAGCTCGTTGAGTTGGTCTGAGTTCATTATGGATGAGAGCATT
Found at i:23470099 original size:40 final size:40
Alignment explanation
Indices: 23470044--23470124 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
23470034 TGAGACAGAG
*
23470044 TAAGAGTGATTTCGGGCTCCCCTATCTTAACTTTGGAAAA
1 TAAGAGTGATTTCGGGCTCCCCTATCTTAACTTGGGAAAA
23470084 TAAGAGTGATTTCGGGCTCCCCTATCTTAACTTGGGAAAA
1 TAAGAGTGATTTCGGGCTCCCCTATCTTAACTTGGGAAAA
23470124 T
1 T
23470125 CACTAAACAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (40 bp):
TAAGAGTGATTTCGGGCTCCCCTATCTTAACTTGGGAAAA
Found at i:23475710 original size:42 final size:42
Alignment explanation
Indices: 23475589--23475710 Score: 115
Period size: 42 Copynumber: 2.9 Consensus size: 42
23475579 CACCATACGA
*
23475589 ATGCCATATCCTAGATATGGTCTT--ACATGAGATCTTATATCG
1 ATGCCATATCCTAGATATGGTCTTGCACAT-A-ATCTCATATCG
* * * * * *
23475631 ATGTCAGTAGCCCAGCTATGGTCTTGCACGA-AGTCTCATATTG
1 ATGCCA-TATCCTAGATATGGTCTTGCAC-ATAATCTCATATCG
*
23475674 ATGCCATATCCTAGATATAGTCTTGCACATAATCTCA
1 ATGCCATATCCTAGATATGGTCTTGCACATAATCTCA
23475711 AATAACCCTA
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
41 1 0.02
42 29 0.47
43 28 0.45
44 1 0.02
45 2 0.03
46 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTGCACATAATCTCATATCG
Found at i:23484044 original size:40 final size:40
Alignment explanation
Indices: 23484000--23484190 Score: 271
Period size: 40 Copynumber: 4.8 Consensus size: 40
23483990 CAGGATTTAA
*
23484000 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
23484040 CCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
23484080 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
23484120 CCAGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
23484160 CCGGA-ATTAGTCACTAGCACAAATGCCTTCG
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCG
23484191 TTATCATCCG
Statistics
Matches: 142, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
39 2 0.01
40 140 0.99
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:23490918 original size:46 final size:46
Alignment explanation
Indices: 23490851--23491022 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
23490841 AACCCGCCCC
* *
23490851 TAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
23490897 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * *
23490945 TCA-CGAACTCGGACTCAACTCAATGAGTT-GCGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG-GGCGTTCGCATCCA
*
23490990 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
23491023 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 13, Indels: 22
0.74 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 57 0.56
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:23490965 original size:93 final size:93
Alignment explanation
Indices: 23490856--23491026 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
23490846 GCCCCTAAGT
* *
23490856 GAACTCGAACTCAACTCAACGAGCTCG-GGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGAACTCAACTCAACGAG-TCGCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
23490920 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
23490949 GAACTCGGACTCAACTCAATGAGTTGCGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGTCGCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23491014 CGAGTTCGGATGC
66 CGAGTTCGGATGC
23491027 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGTCGCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:23491484 original size:30 final size:30
Alignment explanation
Indices: 23491450--23491509 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
23491440 ATTTAATACG
23491450 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
23491480 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
23491510 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:23492802 original size:16 final size:16
Alignment explanation
Indices: 23492777--23492808 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23492767 ATAGATGAAT
*
23492777 GGGGATGCATAAGCCG
1 GGGGACGCATAAGCCG
23492793 GGGGACGCATAAGCCG
1 GGGGACGCATAAGCCG
23492809 AGAAGACACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.22, G:0.44, T:0.09
Consensus pattern (16 bp):
GGGGACGCATAAGCCG
Found at i:23493452 original size:55 final size:55
Alignment explanation
Indices: 23493364--23493484 Score: 136
Period size: 55 Copynumber: 2.2 Consensus size: 55
23493354 CTGCCAAAAC
* * * *
23493364 AACACGGGTGTGCGACACGCCCGTACATTGAAACCATGGCCAAACCTGTCAAATT
1 AACACGGGCGTGCGACACGCCCGTACATAGAAACAATGGCCAAACCTATCAAATT
* * * * *
23493419 AACACGGGCGTGCGCCACGCCCGTGCCA-AGAAACAATGGTCGAACCTATTAAATT
1 AACACGGGCGTGCGACACGCCCGT-ACATAGAAACAATGGCCAAACCTATCAAATT
*
23493474 ACCACGGGCGT
1 AACACGGGCGT
23493485 AGGACTACAT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
55 53 0.96
56 2 0.04
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.17
Consensus pattern (55 bp):
AACACGGGCGTGCGACACGCCCGTACATAGAAACAATGGCCAAACCTATCAAATT
Found at i:23493827 original size:24 final size:24
Alignment explanation
Indices: 23493800--23493848 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
23493790 TTGACGCTCA
23493800 ATCTCTCTCCCTTAGCGTTTGTTT
1 ATCTCTCTCCCTTAGCGTTTGTTT
23493824 ATCTCTCTCCCTTAGCGTTTGTTT
1 ATCTCTCTCCCTTAGCGTTTGTTT
23493848 A
1 A
23493849 CTCCTTTCAC
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:0.10, C:0.29, G:0.12, T:0.49
Consensus pattern (24 bp):
ATCTCTCTCCCTTAGCGTTTGTTT
Found at i:23502148 original size:15 final size:14
Alignment explanation
Indices: 23502130--23502177 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
23502120 TTTTGAATGA
23502130 AAATTTTCCGATATG
1 AAATTTT-CGATATG
*
23502145 AAATTTTGGA-ATG
1 AAATTTTCGATATG
*
23502158 AAATTTTTCGATCTG
1 AAA-TTTTCGATATG
23502173 AAATT
1 AAATT
23502178 CAGTCTCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 6 0.21
14 10 0.36
15 12 0.43
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (14 bp):
AAATTTTCGATATG
Found at i:23502161 original size:28 final size:29
Alignment explanation
Indices: 23502119--23502177 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
23502109 CTTTTGCACT
*
23502119 TTTTTGAATGAAAATTTTCCGATATGAAA
1 TTTTGGAATGAAAATTTTCCGATATGAAA
* *
23502148 TTTTGGAATG-AAATTTTTCGATCTGAAA
1 TTTTGGAATGAAAATTTTCCGATATGAAA
23502176 TT
1 TT
23502178 CAGTCTCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (29 bp):
TTTTGGAATGAAAATTTTCCGATATGAAA
Found at i:23502165 original size:29 final size:28
Alignment explanation
Indices: 23502119--23502177 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 28
23502109 CTTTTGCACT
*
23502119 TTTTTGAATGAAAATTTTCCGATATGAAA
1 TTTTGGAATGAAAATTTT-CGATATGAAA
* *
23502148 TTTTGGAATGAAATTTTTCGATCTGAAA
1 TTTTGGAATGAAAATTTTCGATATGAAA
23502176 TT
1 TT
23502178 CAGTCTCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (28 bp):
TTTTGGAATGAAAATTTTCGATATGAAA
Found at i:23510393 original size:79 final size:80
Alignment explanation
Indices: 23510215--23510397 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
23510205 GCTACTCGTT
* * * *
23510215 CAAATACCTTCGGGACATAGCCCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
23510280 ATTTAGTAACTCGCA
66 ATATAGTAACTAGCA
* **
23510295 CAAATGCCTTC-GGATCTTAGTCCGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGA-CTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
*
23510357 GGATATAGTCACTTAGCA
64 GGATATAGTAAC-TAGCA
23510375 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
23510398 GACATCATTC
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 55 0.62
80 30 0.34
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCA
Found at i:23510399 original size:40 final size:40
Alignment explanation
Indices: 23510196--23510399 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
23510186 CGGAGTTTAA
** * *
23510196 CCGGATATAGCT-ACTCGTTCAAATACCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
23510236 CCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
23510276 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
23510316 CC-GATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
23510355 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
23510395 CCGGA
1 CCGGA
23510400 CATCATTCGA
Statistics
Matches: 143, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
39 43 0.30
40 89 0.62
41 11 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:23513229 original size:27 final size:27
Alignment explanation
Indices: 23513199--23513305 Score: 110
Period size: 27 Copynumber: 3.9 Consensus size: 27
23513189 GGCTGCTAGA
* *
23513199 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
*
23513226 ACAGATAATCGTGGTAGAGCCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
* *
23513253 ATAGAAATATGTGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
* *
23513281 -CAGATGATTGTGGCATAGCCACCAG
1 ACAGAT-AATGTGGCAGAGCCACCAG
23513306 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
27 49 0.74
28 17 0.26
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:23517536 original size:39 final size:39
Alignment explanation
Indices: 23517446--23517630 Score: 205
Period size: 40 Copynumber: 4.7 Consensus size: 39
23517436 TCGAATGATG
* * *
23517446 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
23517486 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
23517525 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACT-AA
** *
23517565 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* * * *
23517605 ACCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
23517631 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
39 40 0.31
40 82 0.63
41 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:23517582 original size:79 final size:79
Alignment explanation
Indices: 23517446--23517624 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 79
23517436 TCGAATGATG
* *
23517446 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
*
23517511 GTGCGAGTTACTAA
66 GTGCGAGCTACTAA
* * **
23517525 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGACTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
23517587 TTTGTGCGAGCTACTATA
63 TTTGTGCGAGCTACTA-A
* * *
23517605 ACCGGGCTATGTCCCGAAGG
1 TCCGGACTAAGTCCCGAAGG
23517625 TATTTGAACG
Statistics
Matches: 85, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
78 1 0.01
79 60 0.71
80 24 0.28
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGACTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGCTACTAA
Found at i:23517652 original size:79 final size:78
Alignment explanation
Indices: 23517480--23517663 Score: 196
Period size: 79 Copynumber: 2.3 Consensus size: 78
23517470 GTGCTAAGTG
* * *
23517480 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATCCGGACTAAGATCCGAAGG
1 ACTATATCCGG-TTAAGATCCGAAGGCATTTGTGCGAGCTACTAAACCGGACTAAGATCCGAAGG
**
23517545 CATTTGTGCGAGTT
65 CATTTGAACGAGTT
* * *
23517559 ACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATG-TCCCGA
1 ACTATATCC-GGTTAAGAT-CCGAAGGCATTTGTGCGAGCTACTA-AACCGGACTAAGAT-CCGA
*
23517622 AGGTATTTGAACGAG-T
62 AGGCATTTGAACGAGTT
23517638 AGCTATATCCGGTTAA-ACTCCGAAGG
1 A-CTATATCCGGTTAAGA-TCCGAAGG
23517664 TACGTGATTC
Statistics
Matches: 88, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
78 1 0.01
79 52 0.59
80 35 0.40
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (78 bp):
ACTATATCCGGTTAAGATCCGAAGGCATTTGTGCGAGCTACTAAACCGGACTAAGATCCGAAGGC
ATTTGAACGAGTT
Found at i:23535248 original size:9 final size:9
Alignment explanation
Indices: 23535229--23535257 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
23535219 CAAAAAGACC
23535229 TCTTC-TTT
1 TCTTCTTTT
23535237 TCTTCTTTT
1 TCTTCTTTT
23535246 TCTTCTTTT
1 TCTTCTTTT
23535255 TCT
1 TCT
23535258 CCTTGCTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (9 bp):
TCTTCTTTT
Found at i:23538637 original size:2 final size:2
Alignment explanation
Indices: 23538630--23538667 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
23538620 TGAGACTAGT
23538630 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23538668 CATGTCATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23539885 original size:67 final size:65
Alignment explanation
Indices: 23539754--23540006 Score: 212
Period size: 67 Copynumber: 3.8 Consensus size: 65
23539744 ATATAGTTCG
* * * * **
23539754 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTTATCTCG
1 GCTCTCTTGT-CTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACA-TCATATCTCG
23539816 TA
64 TA
* * * * *
23539818 GCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACAT-ATATCCC
1 GCTCTCTTGTCTACATGGTG---TACACATAGAACCACCCATGCGACCTAGCTACATCATATCTC
23539882 GTA
63 GTA
*
23539885 GCTCTCTTGTCTACATGGTGTACACATAGAATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATCAT-A--TCTC
23539950 GTA
63 GTA
* * * ** *
23539953 GCTCTCTTGTAC-ACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACAT
1 GCTCTCTTGT-CTACATGGTGTACACAT-AGAACCACCCATGCGACCTAGCTACAT
23540007 ACCATCTGTA
Statistics
Matches: 155, Mismatches: 22, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
63 1 0.01
64 47 0.30
65 2 0.01
66 1 0.01
67 51 0.33
68 50 0.32
69 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATCATATCTCGTA
Found at i:23541871 original size:40 final size:40
Alignment explanation
Indices: 23541699--23541864 Score: 280
Period size: 40 Copynumber: 4.2 Consensus size: 40
23541689 AACCCAAGTA
* *
23541699 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
23541738 CCTTCGGGACTTGGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
23541778 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
23541818 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
23541858 CCTTCGG
1 CCTTCGG
23541865 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 12 0.10
40 108 0.90
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:23546957 original size:11 final size:11
Alignment explanation
Indices: 23546931--23546963 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
23546921 GGGATTGATT
23546931 TGTAAAAA-TA
1 TGTAAAAATTA
23546941 -GTAAAAATTA
1 TGTAAAAATTA
23546951 TGTAAAAATTA
1 TGTAAAAATTA
23546962 TG
1 TG
23546964 AAATAAGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.33
10 2 0.10
11 12 0.57
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (11 bp):
TGTAAAAATTA
Found at i:23547486 original size:38 final size:38
Alignment explanation
Indices: 23547416--23547490 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
23547406 TTTATGCCGA
* *
23547416 TGTTATTTAGGCTTTGTGCCTAGTAGGATTTGTGCCAC
1 TGTTATTTAGGCTCTGTGCCTAATAGGATTTGTGCCAC
*
23547454 TGTTATTTAGGCTCTGTGTCTAATA-GACTTTGTGCCA
1 TGTTATTTAGGCTCTGTGCCTAATAGGA-TTTGTGCCA
23547491 GCATTATGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 2 0.06
38 31 0.94
ACGTcount: A:0.17, C:0.16, G:0.24, T:0.43
Consensus pattern (38 bp):
TGTTATTTAGGCTCTGTGCCTAATAGGATTTGTGCCAC
Found at i:23548293 original size:12 final size:12
Alignment explanation
Indices: 23548276--23548301 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23548266 GCAGTTACAC
23548276 GGCCTAGCACAT
1 GGCCTAGCACAT
23548288 GGCCTAGCACAT
1 GGCCTAGCACAT
23548300 GG
1 GG
23548302 GCGTGTGAGG
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:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (12 bp):
GGCCTAGCACAT
Found at i:23558853 original size:30 final size:30
Alignment explanation
Indices: 23558817--23559190 Score: 290
Period size: 30 Copynumber: 12.6 Consensus size: 30
23558807 TGGTAACACT
* * *
23558817 CCTTTTCATAGTTTGATAGCCGAAGCTATC
1 CCTTTTCATAATTTGATAGTCGAAGCCATC
* *
23558847 CCTTTTCATATTTTGATGGTC-ATCA-CCATC
1 CCTTTTCATAATTTGATAGTCGA--AGCCATC
*
23558877 CCTTTTCAT--TGTTGATGGTC-ATCA-CCATC
1 CCTTTTCATAAT-TTGATAGTCGA--AGCCATC
** * *
23558906 CCTTTTCATAATTCAATAGTTGAAGCTATC
1 CCTTTTCATAATTTGATAGTCGAAGCCATC
* * * *
23558936 CCTTTTCGTAATTCGATAGCCAAAGCCATC
1 CCTTTTCATAATTTGATAGTCGAAGCCATC
* *
23558966 CCTTTTCAT--TGTTGATGGTCGTCA-CCATC
1 CCTTTTCATAAT-TTGATAGTCG-AAGCCATC
* *
23558995 CCTTTTCATAATTTGATAGCCGAAGCTATC
1 CCTTTTCATAATTTGATAGTCGAAGCCATC
23559025 CCTTTTCATAATTTGATAGTCGAAGCCATC
1 CCTTTTCATAATTTGATAGTCGAAGCCATC
* * * *
23559055 CCTTTTCATAATTCGATGGTTGTCA-CCATC
1 CCTTTTCATAATTTGATAGTCG-AAGCCATC
* *
23559085 CTTTTTCAT--TGTTGATGGTC-ATCA-CCATC
1 CCTTTTCATAAT-TTGATAGTCGA--AGCCATC
* * *
23559114 CCTTTTCATAATTTGATAGCCGAAGCTATT
1 CCTTTTCATAATTTGATAGTCGAAGCCATC
* *
23559144 CCTTTACATAATTCGATAGTCGAAGCCATC
1 CCTTTTCATAATTTGATAGTCGAAGCCATC
23559174 CCTTTTCATAATTTGAT
1 CCTTTTCATAATTTGAT
23559191 GATTGTCGAT
Statistics
Matches: 277, Mismatches: 47, Indels: 40
0.76 0.13 0.11
Matches are distributed among these distances:
28 3 0.01
29 72 0.26
30 195 0.70
31 7 0.03
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (30 bp):
CCTTTTCATAATTTGATAGTCGAAGCCATC
Found at i:23559028 original size:119 final size:119
Alignment explanation
Indices: 23558817--23559186 Score: 462
Period size: 119 Copynumber: 3.1 Consensus size: 119
23558807 TGGTAACACT
* * * * *
23558817 CCTTTTCATAGTTTGATAGCCGAAGCTATCCCTTTTCATATTTTGATGGTCATCACCATCCCTTT
1 CCTTTTCATAATTCGATAGCCAAAGCCATCCCTTTTCAT-TGTTGATGGTCATCACCATCCCTTT
* * * * * *
23558882 TCAT--TGTTGATGGTC-ATCA-CCATCCCTTTTCATAATTCAATAGTTGAAGCTATC
65 TCATAAT-TTGATAGCCGA--AGCTATCCCTTTTCATAATTCGATAGTCGAAGCCATC
* *
23558936 CCTTTTCGTAATTCGATAGCCAAAGCCATCCCTTTTCATTGTTGATGGTCGTCACCATCCCTTTT
1 CCTTTTCATAATTCGATAGCCAAAGCCATCCCTTTTCATTGTTGATGGTCATCACCATCCCTTTT
*
23559001 CATAATTTGATAGCCGAAGCTATCCCTTTTCATAATTTGATAGTCGAAGCCATC
66 CATAATTTGATAGCCGAAGCTATCCCTTTTCATAATTCGATAGTCGAAGCCATC
* **** *
23559055 CCTTTTCATAATTCGATGGTTGTCA-CCATCCTTTTTCATTGTTGATGGTCATCACCATCCCTTT
1 CCTTTTCATAATTCGATAG-CCAAAGCCATCCCTTTTCATTGTTGATGGTCATCACCATCCCTTT
* *
23559119 TCATAATTTGATAGCCGAAGCTATTCCTTTACATAATTCGATAGTCGAAGCCATC
65 TCATAATTTGATAGCCGAAGCTATCCCTTTTCATAATTCGATAGTCGAAGCCATC
23559174 CCTTTTCATAATT
1 CCTTTTCATAATT
23559187 TGATGATTGT
Statistics
Matches: 221, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
118 28 0.13
119 190 0.86
120 3 0.01
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (119 bp):
CCTTTTCATAATTCGATAGCCAAAGCCATCCCTTTTCATTGTTGATGGTCATCACCATCCCTTTT
CATAATTTGATAGCCGAAGCTATCCCTTTTCATAATTCGATAGTCGAAGCCATC
Found at i:23559100 original size:89 final size:88
Alignment explanation
Indices: 23558817--23559183 Score: 357
Period size: 89 Copynumber: 4.1 Consensus size: 88
23558807 TGGTAACACT
* * *
23558817 CCTTTTCATAGTTTGATAGCCGAAGCTATCCCTTTTCATATTTTGATGGTC-ATCA-CCATCCCT
1 CCTTTTCATAG-TTGATAGCCGAAGCTATCCCTTTTCATAATTTGATAGCCGA--AGCCATCCCT
** *
23558880 TTTCATTGTTGATGGTCATCACCATC
63 TTTCATAATTGATGGTCGTCACCATC
* * ** * * *
23558906 CCTTTTCATAATTCAATAGTTGAAGCTATCCCTTTTCGTAATTCGATAGCCAAAGCCATCCCTTT
1 CCTTTTCATAGTT-GATAGCCGAAGCTATCCCTTTTCATAATTTGATAGCCGAAGCCATCCCTTT
**
23558971 TCATTGTTGATGGTCGTCACCATC
65 TCATAATTGATGGTCGTCACCATC
* *
23558995 CCTTTTCATAATTTGATAGCCGAAGCTATCCCTTTTCATAATTTGATAGTCGAAGCCATCCCTTT
1 CCTTTTCAT-AGTTGATAGCCGAAGCTATCCCTTTTCATAATTTGATAGCCGAAGCCATCCCTTT
*
23559060 TCATAATTCGATGGTTGTCACCATC
65 TCATAATT-GATGGTCGTCACCATC
* * * * * * *
23559085 CTTTTTCATTGTTGATGGTC-ATCA-CCATCCCTTTTCATAATTTGATAGCCGAAGCTATTCCTT
1 CCTTTTCATAGTTGATAGCCGA--AGCTATCCCTTTTCATAATTTGATAGCCGAAGCCATCCCTT
* * *
23559148 TACATAATTCGATAGTCG-AAGCCATC
64 TTCATAATT-GATGGTCGTCA-CCATC
23559174 CCTTTTCATA
1 CCTTTTCATA
23559184 ATTTGATGAT
Statistics
Matches: 234, Mismatches: 36, Indels: 16
0.82 0.13 0.06
Matches are distributed among these distances:
88 5 0.02
89 201 0.86
90 28 0.12
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (88 bp):
CCTTTTCATAGTTGATAGCCGAAGCTATCCCTTTTCATAATTTGATAGCCGAAGCCATCCCTTTT
CATAATTGATGGTCGTCACCATC
Found at i:23564418 original size:18 final size:18
Alignment explanation
Indices: 23564398--23564470 Score: 103
Period size: 18 Copynumber: 4.1 Consensus size: 18
23564388 GGCCCACTGT
* *
23564398 AGTAACAGTAAACAGTGT
1 AGTAACAGTAATCAGTGC
*
23564416 AGTAACCGTAATCAGTGC
1 AGTAACAGTAATCAGTGC
*
23564434 AGTAACCGTAATCAGTGC
1 AGTAACAGTAATCAGTGC
23564452 AGTAACAGTAAT-AGTGC
1 AGTAACAGTAATCAGTGC
23564469 AG
1 AG
23564471 ATATACAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
17 7 0.14
18 44 0.86
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.22
Consensus pattern (18 bp):
AGTAACAGTAATCAGTGC
Found at i:23564860 original size:27 final size:27
Alignment explanation
Indices: 23564805--23564861 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
23564795 CATCTCATAA
*
23564805 GGGCATAACAGTAATTTTACCACACAG
1 GGGCATAACAGTAATTTTACCAAACAG
* * * *
23564832 GGGCATAATAGTTATTTTAGCAAATAG
1 GGGCATAACAGTAATTTTACCAAACAG
23564859 GGG
1 GGG
23564862 TTCTAGGTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (27 bp):
GGGCATAACAGTAATTTTACCAAACAG
Found at i:23571230 original size:29 final size:29
Alignment explanation
Indices: 23571198--23571275 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
23571188 ATACCCTCCG
** *
23571198 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
23571227 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
23571256 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
23571276 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:23578798 original size:29 final size:29
Alignment explanation
Indices: 23578711--23578842 Score: 103
Period size: 29 Copynumber: 4.6 Consensus size: 29
23578701 CTACTCGATT
*
23578711 TCGCACACTTAGTGCCACGTA-ATTT-AAGC
1 TCGCACACTTAGTG-C-CGTATATTTCCAGC
* * *
23578740 CCGCACACATAGTGCC--ATACTCTCCGAGC
1 TCGCACACTTAGTGCCGTATA-TTTCC-AGC
** *
23578769 TCGCACACCCAGTGCCGTATTTTTCCAGC
1 TCGCACACTTAGTGCCGTATATTTCCAGC
* *
23578798 TTGC-CACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCGTATATTTCCAGC
*
23578826 ACGCACACTTAGTGCCG
1 TCGCACACTTAGTGCCG
23578843 ATCTCGTCAC
Statistics
Matches: 79, Mismatches: 17, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
27 3 0.04
28 23 0.29
29 45 0.57
30 4 0.05
31 2 0.03
ACGTcount: A:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (29 bp):
TCGCACACTTAGTGCCGTATATTTCCAGC
Found at i:23581147 original size:125 final size:125
Alignment explanation
Indices: 23580929--23581167 Score: 361
Period size: 125 Copynumber: 1.9 Consensus size: 125
23580919 CCAAAACGCA
* * ** *
23580929 GAGTCTAGATTTAGGAGGGAAGAACAATCGGCTCTTACCCATACAAGTTGAGAGTACAAACAGAA
1 GAGTCCAGATTTAGGAGGGAAGAACAATCAGCTCTTACCCATACAAGTCAAGACTACAAACAGAA
* **
23580994 TGATAGGGGTGCCCCCAATATCAAAGAACACTTGCAAAAGCCAAAAACACTGAAAACACG
66 TGATAGAGGCACCCCCAATATCAAAGAACACTTGCAAAAGCCAAAAACACTGAAAACACG
* * *
23581054 GAGTCCAGATTTAGGAGGGAAGAACAATCAGCTCTTGCCCATACAAGTCAAGACTACATATAGAA
1 GAGTCCAGATTTAGGAGGGAAGAACAATCAGCTCTTACCCATACAAGTCAAGACTACAAACAGAA
* *
23581119 TGATAGAGGCACCCCCAATATCAGAGAACACTTGCAAAAGCCGAAAACA
66 TGATAGAGGCACCCCCAATATCAAAGAACACTTGCAAAAGCCAAAAACA
23581168 GAGTGGGGAG
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
125 101 1.00
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.17
Consensus pattern (125 bp):
GAGTCCAGATTTAGGAGGGAAGAACAATCAGCTCTTACCCATACAAGTCAAGACTACAAACAGAA
TGATAGAGGCACCCCCAATATCAAAGAACACTTGCAAAAGCCAAAAACACTGAAAACACG
Found at i:23583738 original size:18 final size:18
Alignment explanation
Indices: 23583715--23583763 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
23583705 AGCCCATTTT
* *
23583715 AGTAACAGTAATCAGTGC
1 AGTAACAGTAATCAATAC
*
23583733 AGTAACCA-TGATCAATAC
1 AGTAA-CAGTAATCAATAC
23583751 AGTAACAGTAATC
1 AGTAACAGTAATC
23583764 GATGCAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 2 0.08
18 21 0.84
19 2 0.08
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.22
Consensus pattern (18 bp):
AGTAACAGTAATCAATAC
Found at i:23584080 original size:23 final size:23
Alignment explanation
Indices: 23584031--23584080 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
23584021 ACCCCATGCA
*
23584031 ATGCAACGTAATATCATACATGG
1 ATGCAACATAATATCATACATGG
23584054 ATGCAACATACATAT-A-ACATGG
1 ATGCAACATA-ATATCATACATGG
23584076 CATGC
1 -ATGC
23584081 TCAAATGCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (23 bp):
ATGCAACATAATATCATACATGG
Found at i:23584157 original size:27 final size:26
Alignment explanation
Indices: 23584115--23584209 Score: 100
Period size: 27 Copynumber: 3.5 Consensus size: 26
23584105 GAACAAGTCT
* * *
23584115 GTCATTTTAACTTACAAGGGTATTATA
1 GTCATTTTACCCTACAGGGGTATT-TA
23584142 GTCATTTTACCCTACAGGGGTATTTTA
1 GTCATTTTACCCTACAGGGGTA-TTTA
* * **
23584169 GTCATTCTACCCCATGGGGGTATTTCA
1 GTCATTTTACCCTACAGGGGTATTT-A
23584196 GTCATTTTACCCTA
1 GTCATTTTACCCTA
23584210 TGAGGGAATT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.05
27 52 0.91
28 2 0.04
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (26 bp):
GTCATTTTACCCTACAGGGGTATTTA
Found at i:23584220 original size:27 final size:27
Alignment explanation
Indices: 23584131--23584221 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
23584121 TTAACTTACA
*
23584131 AGGGTATTAT-AGTCATTTTACCCTA-C
1 AGGGTATT-TCAGTCATTTTACCCTATG
* * *
23584157 AGGGGTATTTTAGTCATTCTACCCCATG
1 A-GGGTATTTCAGTCATTTTACCCTATG
*
23584185 GGGGTATTTCAGTCATTTTACCCTATG
1 AGGGTATTTCAGTCATTTTACCCTATG
*
23584212 AGGGAATTTC
1 AGGGTATTTC
23584222 GACCATTTGA
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
26 2 0.04
27 51 0.96
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCAGTCATTTTACCCTATG
Found at i:23584307 original size:27 final size:27
Alignment explanation
Indices: 23584225--23584481 Score: 324
Period size: 27 Copynumber: 9.7 Consensus size: 27
23584215 GAATTTCGAC
* *
23584225 CATTTGATCATATAA-GGCAAAATCGT
1 CATTTTATCACATAAGGGCAAAATCGT
** *
23584251 CATTTTATCACATAA-GATAAAATTGT
1 CATTTTATCACATAAGGGCAAAATCGT
* *
23584277 CATTTTATCATATAAGGGCAAAATCTT
1 CATTTTATCACATAAGGGCAAAATCGT
* *
23584304 CATTTTATCACATAAGGGAAAAATTGT
1 CATTTTATCACATAAGGGCAAAATCGT
* * *
23584331 CATTTTATCATATGAGGGCAAAATTGT
1 CATTTTATCACATAAGGGCAAAATCGT
* *
23584358 CATTTTATCACATGAGGGTAAAATCGT
1 CATTTTATCACATAAGGGCAAAATCGT
* *
23584385 CATTTTATCAC--AAGGACAAAATCAT
1 CATTTTATCACATAAGGGCAAAATCGT
*
23584410 CATTTTATCACATAAGGGCGAAATCGT
1 CATTTTATCACATAAGGGCAAAATCGT
23584437 CATTTTATCACATAAGGGCAAAATCGT
1 CATTTTATCACATAAGGGCAAAATCGT
*
23584464 CATTTTATCACATGAGGG
1 CATTTTATCACATAAGGG
23584482 TTCAAGTACG
Statistics
Matches: 199, Mismatches: 29, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
25 21 0.11
26 35 0.18
27 143 0.72
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (27 bp):
CATTTTATCACATAAGGGCAAAATCGT
Found at i:23584405 original size:106 final size:106
Alignment explanation
Indices: 23584225--23584482 Score: 358
Period size: 106 Copynumber: 2.4 Consensus size: 106
23584215 GAATTTCGAC
* * * * *
23584225 CATTTGATCATATAAGGCAAAATCGTCATTTTATCACAT-AAGATAAAATTGTCATTTTATCATA
1 CATTTTATCATATAGGGCAAAATCGTCATTTTATCACATGAGGGTAAAATCGTCATTTTATCA-A
* * * *
23584289 TAAGGGCAAAATCTTCATTTTATCACATAAGGGAAAAATTGT
65 CAAGGACAAAATCATCATTTTATCACATAAGGGAAAAATCGT
*
23584331 CATTTTATCATATGAGGGCAAAATTGTCATTTTATCACATGAGGGTAAAATCGTCATTTTATC-A
1 CATTTTATCATAT-AGGGCAAAATCGTCATTTTATCACATGAGGGTAAAATCGTCATTTTATCAA
**
23584395 CAAGGACAAAATCATCATTTTATCACATAAGGGCGAAATCGT
65 CAAGGACAAAATCATCATTTTATCACATAAGGGAAAAATCGT
*
23584437 CATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATGAGGGT
1 CATTTTATCATAT-AGGGCAAAATCGTCATTTTATCACATGAGGGT
23584483 TCAAGTACGC
Statistics
Matches: 135, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
106 92 0.68
107 24 0.18
108 19 0.14
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (106 bp):
CATTTTATCATATAGGGCAAAATCGTCATTTTATCACATGAGGGTAAAATCGTCATTTTATCAAC
AAGGACAAAATCATCATTTTATCACATAAGGGAAAAATCGT
Found at i:23587897 original size:43 final size:41
Alignment explanation
Indices: 23587762--23587932 Score: 148
Period size: 43 Copynumber: 4.0 Consensus size: 41
23587752 ATAGGATTCC
*
23587762 GATATGTGATTTCGTGTAAGACCATGTCTGGGATGTTGGCAT
1 GATATTTGATTTCGTGTAAGACCATGTCTGGGATG-TGGCAT
*
23587804 CGAT-TTGAGATTTACGTGTAAGACCATGTCTGGGACATG-GGCAT
1 -GATATT-TGATTT-CGTGTAAGACCATGTCTGGG--ATGTGGCAT
* * * *
23587848 CATATTTGATTTTGTGTAAAACCCTGTCTGGGATTGTGGCAAT
1 GATATTTGATTTCGTGTAAGACCATGTCTGGGA-TGTGGC-AT
* * ** *
23587891 GATATTTGATTACATGTAAGACCACATCTGGGACGTTGGCAT
1 GATATTTGATTTCGTGTAAGACCATGTCTGGGATG-TGGCAT
23587933 TATACGAGCT
Statistics
Matches: 103, Mismatches: 16, Indels: 19
0.75 0.12 0.14
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 24 0.23
43 46 0.45
44 27 0.26
46 3 0.03
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.34
Consensus pattern (41 bp):
GATATTTGATTTCGTGTAAGACCATGTCTGGGATGTGGCAT
Found at i:23593059 original size:29 final size:28
Alignment explanation
Indices: 23593026--23593128 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
23593016 GTGACGAGAT
* *
23593026 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
23593055 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
23593084 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
23593113 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
23593129 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:23595166 original size:38 final size:38
Alignment explanation
Indices: 23595115--23595190 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
23595105 CGAAAAGTGT
23595115 CAGAAAAGCTTTGATCAGTTGAAAGCCCTATGGACAGA
1 CAGAAAAGCTTTGATCAGTTGAAAGCCCTATGGACAGA
23595153 CAGAAAAGCTTTGATCAGTTGAAAGCCCTATGGACAGA
1 CAGAAAAGCTTTGATCAGTTGAAAGCCCTATGGACAGA
23595191 AGCTCCGGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (38 bp):
CAGAAAAGCTTTGATCAGTTGAAAGCCCTATGGACAGA
Done.