Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 42 of 135
Found at i:15553518 original size:29 final size:29
Alignment explanation
Indices: 15553270--15553534 Score: 186
Period size: 29 Copynumber: 9.1 Consensus size: 29
15553260 CATTAGAGGT
* * * *
15553270 CCCTAAACTATCCAGAAATTATATTTTGAC
1 CCCTAAA-TTTCCAAAAATTACATTTTTAC
* * * *
15553300 CCTCGAACTTT-CAAAAATTATATTTTTAA
1 CC-CTAAATTTCCAAAAATTACATTTTTAC
*
15553329 CCC-AAACTTTCCAAAAATTACGTTTTTAC
1 CCCTAAA-TTTCCAAAAATTACATTTTTAC
* *
15553358 CCCTAAAATTCCAAAAATTCCATTTTTGA-
1 CCCTAAATTTCCAAAAATTACATTTTT-AC
*
15553387 CCCTGAAACTTCCAAAAATTACATTTTTAC
1 CCCT-AAATTTCCAAAAATTACATTTTTAC
* *
15553417 CCCCAAAATTCCAAAAATTACATTTTTA-
1 CCCTAAATTTCCAAAAATTACATTTTTAC
* **
15553445 CCCTAAAATTT-CTAAAATTATGTTTTTAC
1 CCCT-AAATTTCCAAAAATTACATTTTTAC
* * *
15553474 CCCCAGATGTT-C-AAAA-TATCATTTTTAG
1 CCCTAAAT-TTCCAAAAATTA-CATTTTTAC
* * *
15553502 CCCTAAATTTCCCAAAATTGCTATTTTTGC
1 CCCTAAATTTCCAAAAATTAC-ATTTTTAC
15553532 CCC
1 CCC
15553535 CGAGAGTCCA
Statistics
Matches: 188, Mismatches: 32, Indels: 30
0.75 0.13 0.12
Matches are distributed among these distances:
27 6 0.03
28 41 0.22
29 96 0.51
30 42 0.22
31 3 0.02
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.36
Consensus pattern (29 bp):
CCCTAAATTTCCAAAAATTACATTTTTAC
Found at i:15555803 original size:2 final size:2
Alignment explanation
Indices: 15555796--15555825 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15555786 TCCCTCTCAA
15555796 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15555826 TTTTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15557957 original size:71 final size:70
Alignment explanation
Indices: 15557881--15558012 Score: 185
Period size: 72 Copynumber: 1.9 Consensus size: 70
15557871 AATAGTGTTT
*
15557881 AAAAGAAAATCAAAAAGTT-AAGCTTATTTATTTCAATAGAAATGAAAATAGTATTCAAAAAAAT
1 AAAAGAAAATCAAAAAGTTGAAGCCTATTTATTTCAATAGAAATGAAAATAGTA--CAAAAAAAT
15557945 CATTTTG
64 CATTTTG
** * * *
15557952 AAAAGAAAATCACGAAGTTGAGGCCTGTTTATTTCAATATAAATGAAAATAGTACAAAAAA
1 AAAAGAAAATCAAAAAGTTGAAGCCTATTTATTTCAATAGAAATGAAAATAGTACAAAAAA
15558013 TGTAAACTAG
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
70 7 0.13
71 17 0.31
72 30 0.56
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (70 bp):
AAAAGAAAATCAAAAAGTTGAAGCCTATTTATTTCAATAGAAATGAAAATAGTACAAAAAAATCA
TTTTG
Found at i:15562560 original size:30 final size:31
Alignment explanation
Indices: 15562524--15562589 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
15562514 TTTATATTTC
15562524 AGTCCCTCAAC-TTTGAAAATGTGACAAAAT
1 AGTCCCTCAACTTTTGAAAATGTGACAAAAT
15562554 AGTCCCTCAACTTTTGAAAATGTGACAAAAT
1 AGTCCCTCAACTTTTGAAAATGTGACAAAAT
15562585 AGTCC
1 AGTCC
15562590 TTTTCTGTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 11 0.31
31 24 0.69
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (31 bp):
AGTCCCTCAACTTTTGAAAATGTGACAAAAT
Found at i:15562715 original size:30 final size:31
Alignment explanation
Indices: 15562679--15562745 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
15562669 ATTACGTTTA
* * *
15562679 ACAAAACAGCCACTCAACTT-TGGAAATGTG
1 ACAAAACAGCCACTAAACTTATCGAAAAGTG
* *
15562709 ACAAAACAGTCACTAAAGTTATCGAAAAGTG
1 ACAAAACAGCCACTAAACTTATCGAAAAGTG
15562740 ACAAAA
1 ACAAAA
15562746 TAGTCCTCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 17 0.55
31 14 0.45
ACGTcount: A:0.48, C:0.19, G:0.15, T:0.18
Consensus pattern (31 bp):
ACAAAACAGCCACTAAACTTATCGAAAAGTG
Found at i:15562744 original size:31 final size:30
Alignment explanation
Indices: 15562679--15562750 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 30
15562669 ATTACGTTTA
* * * *
15562679 ACAAAACAGCCACTCAACTTTGGAAATGTG
1 ACAAAACAGTCACTAAACTTTCGAAAAGTG
*
15562709 ACAAAACAGTCACTAAAGTTATCGAAAAGTG
1 ACAAAACAGTCACTAAACTT-TCGAAAAGTG
*
15562740 ACAAAATAGTC
1 ACAAAACAGTC
15562751 CTCTTGTTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
30 17 0.49
31 18 0.51
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.19
Consensus pattern (30 bp):
ACAAAACAGTCACTAAACTTTCGAAAAGTG
Found at i:15565318 original size:29 final size:27
Alignment explanation
Indices: 15565286--15565485 Score: 154
Period size: 29 Copynumber: 6.9 Consensus size: 27
15565276 TTTGGATACC
15565286 CGGGGGTAAAATGGTAATTTTGGTGAAAT
1 CGGGGGTAAAATGGTAATTTT-G-GAAAT
*
15565315 CGGGGTTAAAAATGG-AATTTTGGAAAGTT
1 CGGGGGT-AAAATGGTAATTTTGGAAA--T
*
15565344 CGGGGGTAAAATGGTAATTTTTGATAAAAT
1 CGGGGGTAAAATGGTAA-TTTTG--GAAAT
* * *
15565374 CAGGGTTAAAATGG-AATTTTGGAAGTT
1 CGGGGGTAAAATGGTAATTTTGGAA-AT
**
15565401 TAGGGGTAAAATGGTAATTTTTGCTGAAAT
1 CGGGGGTAAAATGGTAA-TTTTG--GAAAT
* *
15565431 CGGGGTTAAAAATGG-AATTTTGGAAGTT
1 CGGGGGT-AAAATGGTAATTTTGGAA-AT
15565459 CGGGGGGTAAAATGGTAATTTTTGGAA
1 C-GGGGGTAAAATGGTAA-TTTTGGAA
15565486 GTTTCGAGGT
Statistics
Matches: 139, Mismatches: 15, Indels: 33
0.74 0.08 0.18
Matches are distributed among these distances:
26 2 0.01
27 20 0.14
28 24 0.17
29 40 0.29
30 40 0.29
31 10 0.07
32 3 0.02
ACGTcount: A:0.33, C:0.04, G:0.31, T:0.33
Consensus pattern (27 bp):
CGGGGGTAAAATGGTAATTTTGGAAAT
Found at i:15565348 original size:58 final size:58
Alignment explanation
Indices: 15565286--15565482 Score: 308
Period size: 58 Copynumber: 3.4 Consensus size: 58
15565276 TTTGGATACC
*
15565286 CGGGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGG-AAGTT
* *
15565344 CGGGGGTAAAATGGTAATTTTTGATAAAATCAGGGTT-AAAATGGAATTTTGGAAGTT
1 CGGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAGTT
** *
15565401 TAGGGGTAAAATGGTAATTTTTGCTGAAATCGGGGTTAAAAATGGAATTTTGGAAGTT
1 CGGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAGTT
15565459 CGGGGGGTAAAATGGTAATTTTTG
1 C-GGGGGTAAAATGGTAATTTTTG
15565483 GAAGTTTCGA
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
57 37 0.29
58 52 0.41
59 37 0.29
ACGTcount: A:0.32, C:0.04, G:0.31, T:0.33
Consensus pattern (58 bp):
CGGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAGTT
Found at i:15565506 original size:29 final size:29
Alignment explanation
Indices: 15565474--15565539 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
15565464 GGTAAAATGG
* *
15565474 TAATTT-TTGGAAGTTTCGAGGTCAAAATA
1 TAATTTCTTGAAAGTTTAG-GGTCAAAATA
* *
15565503 TAATTTCTTGAAATTTTAGGGTCAAAATG
1 TAATTTCTTGAAAGTTTAGGGTCAAAATA
*
15565532 CAATTTCT
1 TAATTTCT
15565540 GGACTGTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (29 bp):
TAATTTCTTGAAAGTTTAGGGTCAAAATA
Found at i:15566675 original size:3 final size:3
Alignment explanation
Indices: 15566621--15566662 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
15566611 GCCTTCTTTT
15566621 TTA TT- TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15566663 AAAGTTATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15567335 original size:29 final size:28
Alignment explanation
Indices: 15567301--15567374 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
15567291 GGGTCATTAT
15567301 AATTTGGGTTAATTGTAAAATTTGGGCTC
1 AATTTGGGTT-ATTGTAAAATTTGGGCTC
* *
15567330 AATTTGGGTTATTTTAGAATTTGGGCTC
1 AATTTGGGTTATTGTAAAATTTGGGCTC
* *
15567358 AATTTGGGCTCTTGTAA
1 AATTTGGGTTATTGTAA
15567375 TTGTATTTGG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 29 0.74
29 10 0.26
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.43
Consensus pattern (28 bp):
AATTTGGGTTATTGTAAAATTTGGGCTC
Found at i:15567357 original size:28 final size:29
Alignment explanation
Indices: 15567301--15567365 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 29
15567291 GGGTCATTAT
15567301 AATTTGGGTTAATTGTAAAATTTGGGCTC
1 AATTTGGGTTAATTGTAAAATTTGGGCTC
* *
15567330 AATTTGGGTT-ATTTTAGAATTTGGGCTC
1 AATTTGGGTTAATTGTAAAATTTGGGCTC
15567358 AATTTGGG
1 AATTTGGG
15567366 CTCTTGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 24 0.71
29 10 0.29
ACGTcount: A:0.25, C:0.06, G:0.26, T:0.43
Consensus pattern (29 bp):
AATTTGGGTTAATTGTAAAATTTGGGCTC
Found at i:15567466 original size:6 final size:6
Alignment explanation
Indices: 15567444--15567533 Score: 71
Period size: 6 Copynumber: 15.0 Consensus size: 6
15567434 TTAAATTCGT
* * **
15567444 TTTATAA TTTTAA TTTAAA TTTAAA CTT-AA GGTAAA TTTAAA TAATTAAA
1 TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
*
15567494 TTTAAA TTTAAGA --TAAA TTTAAA TTTAAA -TAAAA TTTAAA
1 TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
15567534 ATCAATTTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
4 1 0.01
5 10 0.15
6 46 0.69
7 4 0.06
8 6 0.09
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:15567466 original size:11 final size:11
Alignment explanation
Indices: 15567448--15567543 Score: 52
Period size: 11 Copynumber: 8.7 Consensus size: 11
15567438 ATTCGTTTTA
*
15567448 TAATTTTAATT
1 TAATTTAAATT
*
15567459 TAAATTTAAACT
1 T-AATTTAAATT
**
15567471 TAAGGTAAATT
1 TAATTTAAATT
*
15567482 TAA-AT-AATT
1 TAATTTAAATT
*
15567491 AAATTTAAATT
1 TAATTTAAATT
**
15567502 TAAGATAAATT
1 TAATTTAAATT
*
15567513 TAAATTTAAATA
1 T-AATTTAAATT
* *
15567525 AAATTTAAAAT
1 TAATTTAAATT
*
15567536 CAATTTAA
1 TAATTTAA
15567544 CTTCTCAATT
Statistics
Matches: 63, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
9 6 0.10
10 2 0.03
11 39 0.62
12 16 0.25
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (11 bp):
TAATTTAAATT
Found at i:15567479 original size:17 final size:17
Alignment explanation
Indices: 15567459--15567533 Score: 86
Period size: 17 Copynumber: 4.6 Consensus size: 17
15567449 AATTTTAATT
* *
15567459 TAAATTTAAACTTAAGG
1 TAAATTTAAATTTAAGA
*
15567476 TAAATTTAAA--TAA-T
1 TAAATTTAAATTTAAGA
15567490 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAAGA
15567507 TAAATTTAAATTTAA-A
1 TAAATTTAAATTTAAGA
15567523 TAAAATTTAAA
1 T-AAATTTAAA
15567534 ATCAATTTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
14 10 0.19
15 3 0.06
16 5 0.10
17 34 0.65
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (17 bp):
TAAATTTAAATTTAAGA
Found at i:15567494 original size:31 final size:31
Alignment explanation
Indices: 15567458--15567517 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
15567448 TAATTTTAAT
*
15567458 TTAAATTTAAACTTAAGGTAAATTTAAATAA
1 TTAAATTTAAACTTAAGATAAATTTAAATAA
*
15567489 TTAAATTTAAATTTAAGATAAATTTAAAT
1 TTAAATTTAAACTTAAGATAAATTTAAAT
15567518 TTAAATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (31 bp):
TTAAATTTAAACTTAAGATAAATTTAAATAA
Found at i:15567916 original size:38 final size:38
Alignment explanation
Indices: 15567872--15568622 Score: 357
Period size: 38 Copynumber: 19.8 Consensus size: 38
15567862 TTATCCAACT
*
15567872 TTACTTCAATTTCAAGAGGATAGGAAATGATGTTGATC
1 TTACTTCAATTTCAAGAGGATAGGAAATGATATTGATC
* * ** ** *
15567910 ATACTTCAATTTC-AGA-GATAAAGACTTGATATCCAGC
1 TTACTTCAATTTCAAGAGGAT-AGGAAATGATATTGATC
* *
15567947 TTTACTTCAATTTCAAGAGGATAGGAAATGATTTTGCTC
1 -TTACTTCAATTTCAAGAGGATAGGAAATGATATTGATC
** *
15567986 TTACTTCAATTTCAA-A-GACT------TGATATCCAGC
1 TTACTTCAATTTCAAGAGGA-TAGGAAATGATATTGATC
* *
15568017 TTTACTTCAATTTCAAGAGGATAGGAAATGATTTTGCTC
1 -TTACTTCAATTTCAAGAGGATAGGAAATGATATTGATC
* ** ** *
15568056 TTACTTCAATTTC-AGA-GATAAAGACTTGATATCCAGC
1 TTACTTCAATTTCAAGAGGAT-AGGAAATGATATTGATC
* *
15568093 TTTACTTCAATTTCAAGAGGATAGGAAATGATTTTGTTC
1 -TTACTTCAATTTCAAGAGGATAGGAAATGATATTGATC
* * * * *
15568132 TTACTCCAATTTC-AGATGGA-CGAAAATGATGTTGGTGC
1 TTACTTCAATTTCAAGA-GGATAGGAAATGATATTGAT-C
* ** * ** *
15568170 TTCATCTTTCAATTTC-AGAGAGATAAAGACTTGTTATCCAGC
1 TT-A-C-TTCAATTTCAAGAG-GAT-AGGAAATGATATTGATC
* *
15568212 TTTACTTCAATTTCAAGAGGATAGGAAATGTTATTGTTC
1 -TTACTTCAATTTCAAGAGGATAGGAAATGATATTGATC
* ** * ** *
15568251 TTACTTCAATTTC-AGA-GATAAAGACTTAATATCCAGC
1 TTACTTCAATTTCAAGAGGAT-AGGAAATGATATTGATC
* * *
15568288 TTTACTTCAATTTCAAGAGGATAAGAAATGATCTTGCTC
1 -TTACTTCAATTTCAAGAGGATAGGAAATGATATTGATC
* ** ** *
15568327 TTACTTCAATTTC-AGA-GATAAAGACTTGATATCCAGC
1 TTACTTCAATTTCAAGAGGAT-AGGAAATGATATTGATC
* *
15568364 TTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGTTC
1 -TTACTTCAATTTCAAGAGGATAGGAAATGATATTGATC
* ** * ** *
15568403 TTACTTCAATTTC-AGA-GATAAAGACTTAATATCCAGC
1 TTACTTCAATTTCAAGAGGAT-AGGAAATGATATTGATC
* ** *
15568440 TTTACTTCAATTTCAAGCGGATAGGAAATGACGTTGCTC
1 -TTACTTCAATTTCAAGAGGATAGGAAATGATATTGATC
* ** ** *
15568479 TTACTTCAATTTC-AGA-GATAAAGACTTGATATCCAAC
1 TTACTTCAATTTCAAGAGGAT-AGGAAATGATATTGATC
* * ** *
15568516 TCTACTTCAATTTCAAGCGTATAGGAAATGACGTTGCTC
1 T-TACTTCAATTTCAAGAGGATAGGAAATGATATTGATC
* ** * *
15568555 TTACTTCAATTTC-AGA-GATAAAGACTTGTTA-TGAAC
1 TTACTTCAATTTCAAGAGGAT-AGGAAATGATATTGATC
*
15568591 TCTACTTCAATTTCAAGCGGATAGGAAATGAT
1 T-TACTTCAATTTCAAGAGGATAGGAAATGAT
15568623 CTTGTTTGGT
Statistics
Matches: 510, Mismatches: 155, Indels: 96
0.67 0.20 0.13
Matches are distributed among these distances:
31 6 0.01
32 15 0.03
33 2 0.00
34 2 0.00
36 26 0.05
37 107 0.21
38 206 0.40
39 88 0.17
40 31 0.06
41 18 0.04
42 2 0.00
43 7 0.01
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (38 bp):
TTACTTCAATTTCAAGAGGATAGGAAATGATATTGATC
Found at i:15567932 original size:76 final size:76
Alignment explanation
Indices: 15567847--15568147 Score: 497
Period size: 76 Copynumber: 4.0 Consensus size: 76
15567837 TTCATTTCAG
* * * * *
15567847 AGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTGATCAT
1 AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATTTTGCTCTT
15567912 ACTTCAATTTC
66 ACTTCAATTTC
15567923 AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATTTTGCTCTT
1 AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATTTTGCTCTT
15567988 ACTTCAATTTC
66 ACTTCAATTTC
15567999 ------AAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATTTTGCTCTT
1 AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATTTTGCTCTT
15568058 ACTTCAATTTC
66 ACTTCAATTTC
*
15568069 AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATTTTGTTCTT
1 AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATTTTGCTCTT
*
15568134 ACTCCAATTTC
66 ACTTCAATTTC
15568145 AGA
1 AGA
15568148 TGGACGAAAA
Statistics
Matches: 212, Mismatches: 7, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
70 70 0.33
76 142 0.67
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.35
Consensus pattern (76 bp):
AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATTTTGCTCTT
ACTTCAATTTC
Found at i:15568022 original size:32 final size:32
Alignment explanation
Indices: 15567929--15568032 Score: 102
Period size: 32 Copynumber: 3.1 Consensus size: 32
15567919 TTTCAGAGAT
15567929 AAAGACTTGATATCCAGCTTTACTTCAATTTC
1 AAAGACTTGATATCCAGCTTTACTTCAATTTC
* ***
15567961 AAGAGGA-TAGGAAATGATTTTGCTCTTACTTCAATTTC
1 AA-A-GACT-TG--AT-ATCCAGCT-TTACTTCAATTTC
15567999 AAAGACTTGATATCCAGCTTTACTTCAATTTC
1 AAAGACTTGATATCCAGCTTTACTTCAATTTC
15568031 AA
1 AA
15568033 GAGGATAGGA
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
32 17 0.30
33 7 0.12
34 5 0.09
36 5 0.09
37 7 0.12
38 15 0.27
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (32 bp):
AAAGACTTGATATCCAGCTTTACTTCAATTTC
Found at i:15568117 original size:146 final size:146
Alignment explanation
Indices: 15567853--15568145 Score: 523
Period size: 146 Copynumber: 2.0 Consensus size: 146
15567843 TCAGAGAGAT
*
15567853 AAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTGATCATACTTCA
1 AAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTGATCATACTTCA
15567918 ATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATTTTG
66 ATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATTTTG
*
15567983 CTCTTACTTCAATTTC
131 CTCTTACTCCAATTTC
* * * *
15567999 AAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATTTTGCTCTTACTTCA
1 AAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTGATCATACTTCA
15568064 ATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATTTTG
66 ATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATTTTG
*
15568129 TTCTTACTCCAATTTC
131 CTCTTACTCCAATTTC
15568145 A
1 A
15568146 GATGGACGAA
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
146 140 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (146 bp):
AAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTGATCATACTTCA
ATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATTTTG
CTCTTACTCCAATTTC
Found at i:15568277 original size:76 final size:76
Alignment explanation
Indices: 15568177--15568626 Score: 681
Period size: 76 Copynumber: 5.9 Consensus size: 76
15568167 TGCTTCATCT
*
15568177 TTCAATTTCAGAGAGATAAAGACTTGTTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATG
1 TTCAATTTC--AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATG
* * *
15568242 TTATTGTTCTTAC
64 ATCTTGCTCTTAC
* *
15568255 TTCAATTTCAGAGATAAAGACTTAATATCCAGCTTTACTTCAATTTCAAGAGGATAAGAAATGAT
1 TTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGAT
15568320 CTTGCTCTTAC
66 CTTGCTCTTAC
15568331 TTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGAT
1 TTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGAT
*
15568396 CTTGTTCTTAC
66 CTTGCTCTTAC
* *
15568407 TTCAATTTCAGAGATAAAGACTTAATATCCAGCTTTACTTCAATTTCAAGCGGATAGGAAATGA-
1 TTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGAT
15568471 CGTTGCTCTTAC
66 C-TTGCTCTTAC
* * * *
15568483 TTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGCGTATAGGAAATGA-
1 TTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGAT
15568547 CGTTGCTCTTAC
66 C-TTGCTCTTAC
* * * * *
15568559 TTCAATTTCAGAGATAAAGACTTGTTAT-GAACTCTACTTCAATTTCAAGCGGATAGGAAATGAT
1 TTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGAT
15568623 CTTG
66 CTTG
15568627 TTTGGTTTGA
Statistics
Matches: 351, Mismatches: 19, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
75 37 0.11
76 305 0.87
78 9 0.03
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (76 bp):
TTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGAT
CTTGCTCTTAC
Found at i:15580933 original size:59 final size:59
Alignment explanation
Indices: 15580738--15581053 Score: 460
Period size: 59 Copynumber: 5.4 Consensus size: 59
15580728 TTTGGATACC
* **
15580738 CGGGGGCAAAATGGTAA-TTTTGGTGAAATCAAGGTT-AAAATGGAATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
* * * * * *
15580795 CGGGGGTAAAATGGTAATTTTTGATAAAATTGGGGTTTAAAATAGAATTTTGG-AAGTC
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
* *
15580853 CAGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGG-AAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
*
15580911 CGGGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTT
1 C-GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
*
15580971 CGGGGGTAAAATGGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
1 CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
* *
15581030 TGGGGGTAAAATGGTCATTTTTGG
1 CGGGGGTAAAATGGTAATTTTTGG
15581054 AAGTTTCGAG
Statistics
Matches: 231, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
57 16 0.07
58 69 0.30
59 140 0.61
60 6 0.03
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
Found at i:15581050 original size:29 final size:28
Alignment explanation
Indices: 15580773--15581043 Score: 200
Period size: 29 Copynumber: 9.3 Consensus size: 28
15580763 AAATCAAGGT
15580773 TAAAATGGAATTTTGGAAAGTTCGGGGG
1 TAAAATGGAATTTTGGAAAGTTCGGGGG
* * *
15580801 TAAAATGGTAATTTTTGATAAAATT-GGGGTT
1 TAAAATGG-AA-TTTTG-GAAAGTTCGGGG-G
* * *
15580832 TAAAATAGAATTTTGG-AAGTCCAGGGG
1 TAAAATGGAATTTTGGAAAGTTCGGGGG
* *
15580859 TAAAATGGTAATTTTTGGTGAAA--TCGAGGT
1 TAAAATGG-AA-TTTT-G-GAAAGTTCGGGGG
15580889 TAAAAATGGAATTTTGG-AAGTTCGGGGGG
1 T-AAAATGGAATTTTGGAAAGTTC-GGGGG
*
15580918 TAAAATGGTAATTTTTGGTGAAA-TT-GGGGT
1 TAAAATGG-AA-TTTT-G-GAAAGTTCGGGGG
15580948 TAAAAATGGAATTTTGGAAAGTTCGGGGG
1 T-AAAATGGAATTTTGGAAAGTTCGGGGG
*
15580977 TAAAATGGTAATTTTTGATGAAA--TCGGGGT
1 TAAAATGG-AA-TTTTG--GAAAGTTCGGGGG
*
15581007 TAAAAATGGAATTTTGGAAAGTTTGGGGG
1 T-AAAATGGAATTTTGGAAAGTTCGGGGG
15581036 TAAAATGG
1 TAAAATGG
15581044 TCATTTTTGG
Statistics
Matches: 193, Mismatches: 21, Indels: 58
0.71 0.08 0.21
Matches are distributed among these distances:
26 2 0.01
27 19 0.10
28 40 0.21
29 43 0.22
30 43 0.22
31 35 0.18
32 9 0.05
33 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.33
Consensus pattern (28 bp):
TAAAATGGAATTTTGGAAAGTTCGGGGG
Found at i:15581078 original size:29 final size:28
Alignment explanation
Indices: 15581046--15581112 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
15581036 TAAAATGGTC
*
15581046 ATTTTTGGAAGTTTCGAGGTCAAAATATA
1 ATTTTTGGAAGTTTAG-GGTCAAAATATA
* * *
15581075 ATTTCTTGAAATTTTAGGGTCAAAATGTA
1 ATTT-TTGGAAGTTTAGGGTCAAAATATA
*
15581104 ATTTCTGGA
1 ATTTTTGGA
15581113 CTGTTTGGGG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 3 0.10
29 19 0.61
30 9 0.29
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.40
Consensus pattern (28 bp):
ATTTTTGGAAGTTTAGGGTCAAAATATA
Found at i:15582240 original size:16 final size:16
Alignment explanation
Indices: 15582205--15582259 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
15582195 TTTTATTTTA
15582205 TATTATTATTATTA-T
1 TATTATTATTATTAGT
15582220 TATTATTATTATTAGT
1 TATTATTATTATTAGT
**
15582236 TATTATTATTAAAAGT
1 TATTATTATTATTAGT
15582252 TATTATTA
1 TATTATTA
15582260 CCATTAATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
15 14 0.38
16 23 0.62
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (16 bp):
TATTATTATTATTAGT
Found at i:15582259 original size:3 final size:3
Alignment explanation
Indices: 15582197--15582246 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
15582187 GCCTTCTTTT
15582197 TTA TT- TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
15582241 TTA TTA
1 TTA TTA
15582247 AAAGTTATTA
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.09
3 37 0.84
4 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:15582918 original size:29 final size:28
Alignment explanation
Indices: 15582884--15582957 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
15582874 GGGTCATTAT
15582884 AATTTGGGTTAATTGTAAAATTTGGGCTC
1 AATTTGGGTT-ATTGTAAAATTTGGGCTC
* *
15582913 AATTTGGGTTATTTTAGAATTTGGGCTC
1 AATTTGGGTTATTGTAAAATTTGGGCTC
15582941 AATTTGGGCTT-TTGTAA
1 AATTTGGG-TTATTGTAA
15582958 TTGTATTTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 28 0.70
29 12 0.30
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.45
Consensus pattern (28 bp):
AATTTGGGTTATTGTAAAATTTGGGCTC
Found at i:15583043 original size:6 final size:6
Alignment explanation
Indices: 15583027--15583116 Score: 80
Period size: 6 Copynumber: 15.0 Consensus size: 6
15583017 TTAAATTCGT
* **
15583027 TTTATAA TTTAAA TTTAAA TTTAAA CTT-AA GGTAAA TTTAAA TAATTAAA
1 TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
*
15583077 TTTAAA TTTAAGA --TAAA TTTAAA TTTAAA -TAAAA TTTAAA
1 TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
15583117 ATCAATTTCA
Statistics
Matches: 69, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
4 1 0.01
5 10 0.14
6 47 0.68
7 5 0.07
8 6 0.09
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:15583064 original size:17 final size:17
Alignment explanation
Indices: 15583042--15583116 Score: 86
Period size: 17 Copynumber: 4.6 Consensus size: 17
15583032 AATTTAAATT
* *
15583042 TAAATTTAAACTTAAGG
1 TAAATTTAAATTTAAGA
*
15583059 TAAATTTAAA--TAA-T
1 TAAATTTAAATTTAAGA
15583073 TAAATTTAAATTTAAGA
1 TAAATTTAAATTTAAGA
15583090 TAAATTTAAATTTAA-A
1 TAAATTTAAATTTAAGA
15583106 TAAAATTTAAA
1 T-AAATTTAAA
15583117 ATCAATTTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
14 10 0.19
15 3 0.06
16 5 0.10
17 34 0.65
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (17 bp):
TAAATTTAAATTTAAGA
Found at i:15583079 original size:31 final size:29
Alignment explanation
Indices: 15583032--15583106 Score: 114
Period size: 31 Copynumber: 2.5 Consensus size: 29
15583022 TTCGTTTTAT
*
15583032 AATTTAAATTTAAATTTAAACTTAAGGTA
1 AATTTAAATTTAAATTTAAACTTAAGATA
*
15583061 AATTTAAATAATTAAATTTAAATTTAAGATA
1 AATTTAAAT--TTAAATTTAAACTTAAGATA
15583092 AATTTAAATTTAAAT
1 AATTTAAATTTAAAT
15583107 AAAATTTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 15 0.36
31 27 0.64
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.43
Consensus pattern (29 bp):
AATTTAAATTTAAATTTAAACTTAAGATA
Found at i:15583100 original size:37 final size:38
Alignment explanation
Indices: 15583030--15583108 Score: 108
Period size: 37 Copynumber: 2.1 Consensus size: 38
15583020 AATTCGTTTT
*
15583030 ATAATTTAAATTTAAATTTAAACTTAAGGTAAATTTAA
1 ATAATTTAAATTTAAATTTAAACTAAAGGTAAATTTAA
**
15583068 ATAA-TTAAATTTAAATTTAAGA-TAAATTTAAATTTAA
1 ATAATTTAAATTTAAATTTAA-ACTAAAGGTAAATTTAA
15583105 ATAA
1 ATAA
15583109 AATTTAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 32 0.86
38 5 0.14
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (38 bp):
ATAATTTAAATTTAAATTTAAACTAAAGGTAAATTTAA
Found at i:15595891 original size:9 final size:8
Alignment explanation
Indices: 15595862--15595887 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
15595852 ACAACTTGTG
15595862 TTGGGATT
1 TTGGGATT
15595870 TTGGGATT
1 TTGGGATT
15595878 TTGGGATT
1 TTGGGATT
15595886 TT
1 TT
15595888 TGGGTTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.35, T:0.54
Consensus pattern (8 bp):
TTGGGATT
Found at i:15596917 original size:28 final size:28
Alignment explanation
Indices: 15596863--15596917 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
15596853 AGACATAATC
* **
15596863 AAAAATTCGGCCATTTAATCATCAAAAA
1 AAAAATTCGGCCATTTAATAAAAAAAAA
*
15596891 AAAAATTCGGCCATTTAA-AAGAAAAAA
1 AAAAATTCGGCCATTTAATAAAAAAAAA
15596918 GATAATGAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.55, C:0.15, G:0.09, T:0.22
Consensus pattern (28 bp):
AAAAATTCGGCCATTTAATAAAAAAAAA
Found at i:15598982 original size:3 final size:3
Alignment explanation
Indices: 15598976--15599007 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
15598966 CTTTTCTTCT
15598976 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
15599008 GTTCTTCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
TCC
Found at i:15600941 original size:59 final size:59
Alignment explanation
Indices: 15600865--15600989 Score: 153
Period size: 59 Copynumber: 2.1 Consensus size: 59
15600855 CCTTGGGATG
* * **
15600865 AGTGCTAGAAAAGAATGAGTGCAAAGAGTTTGAG-CCTGTGTTGCTTGGACTTGGGAACA
1 AGTGCTAGAAAAGAATGAATGCAAAGAGTTTGAGAAC-AAGTTGCTTGGACTTGGGAACA
* * * *
15600924 AGTGTTAGAATAGAATGAATGCATAGGGTTTGAGAACAAGTTGCTTGGACTTGGGAACA
1 AGTGCTAGAAAAGAATGAATGCAAAGAGTTTGAGAACAAGTTGCTTGGACTTGGGAACA
*
15600983 ACTGCTA
1 AGTGCTA
15600990 TATAGGGGTC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 54 0.98
60 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.26
Consensus pattern (59 bp):
AGTGCTAGAAAAGAATGAATGCAAAGAGTTTGAGAACAAGTTGCTTGGACTTGGGAACA
Found at i:15604840 original size:14 final size:14
Alignment explanation
Indices: 15604821--15604858 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
15604811 CAGCTATGGT
15604821 TTAGGGTTTAAGGC
1 TTAGGGTTTAAGGC
*
15604835 TTAGGGTTTAGGGC
1 TTAGGGTTTAAGGC
*
15604849 TTAAGGTTTA
1 TTAGGGTTTA
15604859 GAATATCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.21, C:0.05, G:0.34, T:0.39
Consensus pattern (14 bp):
TTAGGGTTTAAGGC
Found at i:15604842 original size:21 final size:21
Alignment explanation
Indices: 15604818--15604859 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15604808 TTTCAGCTAT
*
15604818 GGTTTAGGGTTTAAGGCTTAG
1 GGTTTAGGGCTTAAGGCTTAG
*
15604839 GGTTTAGGGCTTAAGGTTTAG
1 GGTTTAGGGCTTAAGGCTTAG
15604860 AATATCAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.05, G:0.38, T:0.38
Consensus pattern (21 bp):
GGTTTAGGGCTTAAGGCTTAG
Found at i:15608386 original size:105 final size:107
Alignment explanation
Indices: 15608202--15608405 Score: 349
Period size: 105 Copynumber: 1.9 Consensus size: 107
15608192 GCATATAACA
* * *
15608202 CATCTAAGGTTTACTAAGGGGAAAAAATATTAGCAATTTCATATTTCCATTGCATGGGGCCTCAT
1 CATCTAAGGTTTACTAAGAGGAAAAAATATGAGCAATTTCATATTTCCATTGCATGAGGCCTCAT
15608267 AACATATGAATCCATAATTCAGAGCAAACTTTTATGCTCAAT
66 AACATATGAATCCATAATTCAGAGCAAACTTTTATGCTCAAT
*
15608309 CATCTAAGGTTTACTAAGAGG-AAAAA-ATGAGCAATTTCGTATTTCCATTGCATGAGGCCTCAT
1 CATCTAAGGTTTACTAAGAGGAAAAAATATGAGCAATTTCATATTTCCATTGCATGAGGCCTCAT
*
15608372 AACATATGAATCCATAGTTCAGAGCAAACTTTTA
66 AACATATGAATCCATAATTCAGAGCAAACTTTTA
15608406 AGTTCAATAA
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
105 67 0.73
106 5 0.05
107 20 0.22
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.31
Consensus pattern (107 bp):
CATCTAAGGTTTACTAAGAGGAAAAAATATGAGCAATTTCATATTTCCATTGCATGAGGCCTCAT
AACATATGAATCCATAATTCAGAGCAAACTTTTATGCTCAAT
Found at i:15610558 original size:4 final size:4
Alignment explanation
Indices: 15610543--15610580 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
15610533 CAGGGTCCAT
15610543 TTTC TTTC --TC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
15610581 GCTGAAGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
4 30 0.94
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:15616644 original size:65 final size:64
Alignment explanation
Indices: 15616492--15616655 Score: 152
Period size: 65 Copynumber: 2.5 Consensus size: 64
15616482 CAAGAACTTG
*
15616492 AGAAGACTCAATATCTAGTTCAGAAGCATGGGAAGACTCGATACCTTATTTAAGATATTGGGATT
1 AGAAGACTTAATATCTAGTTCA-AAGCATGGGAAGACTCGATA-CTTATTTAAGATATTGGGATT
*
15616557 G
64 A
** * * * * * *
15616558 AGATTACATAATACCTCGTTCAAAGCCTGGGAAGACTCGATA-TTGCGTTTAGGAGT-TTGGGAT
1 AGAAGACTTAATATCTAGTTCAAAGCATGGGAAGACTCGATACTT--ATTTAAGA-TATTGGGAT
15616621 TA
63 TA
* *
15616623 AGAAGACTTGATATCTAGTTCAAGAGCTTGGGA
1 AGAAGACTTAATATCTAGTTCAA-AGCATGGGA
15616656 TTGAAAAAAC
Statistics
Matches: 77, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
63 2 0.03
65 50 0.65
66 25 0.32
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.29
Consensus pattern (64 bp):
AGAAGACTTAATATCTAGTTCAAAGCATGGGAAGACTCGATACTTATTTAAGATATTGGGATTA
Found at i:15616654 original size:36 final size:36
Alignment explanation
Indices: 15616614--15616687 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
15616604 GTTTAGGAGT
*
15616614 TTGGGATT-AAGAAGACTTGATATCTAGTTCAAGAGC
1 TTGGGATTGAA-AAAACTTGATATCTAGTTCAAGAGC
*
15616650 TTGGGATTGAAAAAACTTGATATCTCGTTCAAGAGC
1 TTGGGATTGAAAAAACTTGATATCTAGTTCAAGAGC
15616686 TT
1 TT
15616688 AGAAAGATCC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 33 0.94
37 2 0.06
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.32
Consensus pattern (36 bp):
TTGGGATTGAAAAAACTTGATATCTAGTTCAAGAGC
Found at i:15631982 original size:228 final size:229
Alignment explanation
Indices: 15631571--15632036 Score: 650
Period size: 228 Copynumber: 2.0 Consensus size: 229
15631561 GTACTACTTT
* *
15631571 AGTGTATTAATTTTCCTCAACTGGTCGTTTTCTGCTTGTAGTTGAGGGAACCCTAGTTGTACCAT
1 AGTGTGTTAATTTTCCTCAACTGGTCGTTTTCTGCTTGTAGTTGAGGGAACCCTAGTTGCACCAT
* *
15631636 CTTTTTTGTAAAATGCATTGCATTCATGCTAATTAATTATTCGATTGTCTTTTTGTTGCATGGTA
66 CTTTTTTG-AAAATGCATTGCACTCATGCTAATTAATTATTAGATTGTCTTTTTGTTGCATGGTA
* * *
15631701 AAATGGCCCATCAAAATTATAACCATTGTTTTTCTATTTAAGTTGACGTGATGTCACACTTGCAT
130 AAATAGCCCATCAAAATTATAACCATTGTTTTTCTATTTAAGTTGACGTGATGTCACACTTACAG
* * * **
15631766 GGCAGCCTAAACGAAACCATCTTAGTTCTTGCTGG
195 GGCAGCCTAAAAGAAACCATCTTACTACAGGCTGG
* * * * *
15631801 AGTGTGTTAATTTTCCTCAACTGGTTGTTTTGTGTTTTTAGTTGAGGGAACCCTAGTTGCACCGT
1 AGTGTGTTAATTTTCCTCAACTGGTCGTTTTCTGCTTGTAGTTGAGGGAACCCTAGTTGCACCAT
* * * *
15631866 CTTTTATTG-AACTGCATTGCACTCATGTTAATTACTGT-TTAGATTGTC-TTTTGTTGCATTGT
66 CTTTT-TTGAAAATGCATTGCACTCATGCTAATTAAT-TATTAGATTGTCTTTTTGTTGCATGGT
* * *
15631928 AATATAGCCCATCAAAATTATAACCGTTGTTTTTCTATTTAAGTTGATGTGATGTCACACTTACA
129 AAAATAGCCCATCAAAATTATAACCATTGTTTTTCTATTTAAGTTGACGTGATGTCACACTTACA
* *
15631993 GGGCAGCCTAAAAGACACCTTCTTACTACAGGCTGG
194 GGGCAGCCTAAAAGAAACCATCTTACTACAGGCTGG
15632029 AGTGTGTT
1 AGTGTGTT
15632037 TGTTAGTGCC
Statistics
Matches: 208, Mismatches: 26, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
228 109 0.52
229 32 0.15
230 64 0.31
231 3 0.01
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (229 bp):
AGTGTGTTAATTTTCCTCAACTGGTCGTTTTCTGCTTGTAGTTGAGGGAACCCTAGTTGCACCAT
CTTTTTTGAAAATGCATTGCACTCATGCTAATTAATTATTAGATTGTCTTTTTGTTGCATGGTAA
AATAGCCCATCAAAATTATAACCATTGTTTTTCTATTTAAGTTGACGTGATGTCACACTTACAGG
GCAGCCTAAAAGAAACCATCTTACTACAGGCTGG
Found at i:15639009 original size:19 final size:19
Alignment explanation
Indices: 15638985--15639025 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
15638975 ATTTTTAGAG
*
15638985 ATTCTAATTAAGAGATATT
1 ATTCTAATTAAGAAATATT
15639004 ATTCTAATTAAGAAATATT
1 ATTCTAATTAAGAAATATT
15639023 ATT
1 ATT
15639026 TCCTTAGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (19 bp):
ATTCTAATTAAGAAATATT
Found at i:15641380 original size:253 final size:253
Alignment explanation
Indices: 15640932--15641441 Score: 1011
Period size: 253 Copynumber: 2.0 Consensus size: 253
15640922 AATAGTAGTA
*
15640932 GTTCTCTTAATCGGGAAGAAAAGCGTATGTTCTCTTGAGTGCATGATTTAGTACACTCTAGTCTT
1 GTTCTCTTAATCGGGAAGAAAAGCGTATGTTCTCTTGAATGCATGATTTAGTACACTCTAGTCTT
15640997 TGTTTACTCAGCAACAGTTCATTAAATCTGAGACGTAGATTTTATACATTTTCTATCTTGTAAGA
66 TGTTTACTCAGCAACAGTTCATTAAATCTGAGACGTAGATTTTATACATTTTCTATCTTGTAAGA
15641062 CTGGCATTTGAGTTTGGGTATCATTGCTTTGTTTCTCCAATGAATAAAAATGATTAAAAAGGAAA
131 CTGGCATTTGAGTTTGGGTATCATTGCTTTGTTTCTCCAATGAATAAAAATGATTAAAAAGGAAA
15641127 AAAAGAAACATAAAGAAATGCAAAAAAAAAAGAACTAGAATAAATCATGCGATTTGAT
196 AAAAGAAACATAAAGAAATGCAAAAAAAAAAGAACTAGAATAAATCATGCGATTTGAT
15641185 GTTCTCTTAATCGGGAAGAAAAGCGTATGTTCTCTTGAATGCATGATTTAGTACACTCTAGTCTT
1 GTTCTCTTAATCGGGAAGAAAAGCGTATGTTCTCTTGAATGCATGATTTAGTACACTCTAGTCTT
15641250 TGTTTACTCAGCAACAGTTCATTAAATCTGAGACGTAGATTTTATACATTTTCTATCTTGTAAGA
66 TGTTTACTCAGCAACAGTTCATTAAATCTGAGACGTAGATTTTATACATTTTCTATCTTGTAAGA
15641315 CTGGCATTTGAGTTTGGGTATCATTGCTTTGTTTCTCCAATGAATAAAAATGATTAAAAAGGAAA
131 CTGGCATTTGAGTTTGGGTATCATTGCTTTGTTTCTCCAATGAATAAAAATGATTAAAAAGGAAA
15641380 AAAAGAAACATAAAGAAATGCAAAAAAAAAAGAACTAGAATAAATCATGCGATTTGAT
196 AAAAGAAACATAAAGAAATGCAAAAAAAAAAGAACTAGAATAAATCATGCGATTTGAT
15641438 GTTC
1 GTTC
15641442 CTGTAACTTG
Statistics
Matches: 256, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
253 256 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (253 bp):
GTTCTCTTAATCGGGAAGAAAAGCGTATGTTCTCTTGAATGCATGATTTAGTACACTCTAGTCTT
TGTTTACTCAGCAACAGTTCATTAAATCTGAGACGTAGATTTTATACATTTTCTATCTTGTAAGA
CTGGCATTTGAGTTTGGGTATCATTGCTTTGTTTCTCCAATGAATAAAAATGATTAAAAAGGAAA
AAAAGAAACATAAAGAAATGCAAAAAAAAAAGAACTAGAATAAATCATGCGATTTGAT
Found at i:15649737 original size:5 final size:5
Alignment explanation
Indices: 15649729--15649763 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
15649719 TATAGAAGGT
*
15649729 ATATA ATATA ATATG ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
15649764 GAAGGATGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:15650056 original size:18 final size:17
Alignment explanation
Indices: 15650023--15650057 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
15650013 AAATATTTAA
*
15650023 AAAAATAATTTTTAAAT
1 AAAAATAATTTATAAAT
15650040 AAAAATAATTTAATAAAT
1 AAAAATAATTT-ATAAAT
15650058 TCCATATGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAAATAATTTATAAAT
Found at i:15650732 original size:20 final size:19
Alignment explanation
Indices: 15650692--15650732 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
15650682 CAGAAAATAA
* *
15650692 TTTTTGGAAAATTACTTTT
1 TTTTTGGAAAATTAATATT
15650711 TTTTTGGAAAACTTAATATT
1 TTTTTGGAAAA-TTAATATT
15650731 TT
1 TT
15650733 ATGGTGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.29, C:0.05, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTTTGGAAAATTAATATT
Found at i:15650915 original size:21 final size:21
Alignment explanation
Indices: 15650883--15650923 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15650873 TCATAATGTT
15650883 TATTTATATTTTAATTAATCA
1 TATTTATATTTTAATTAATCA
15650904 TATTT-TAGTTTTAATTAATC
1 TATTTATA-TTTTAATTAATC
15650924 TTAATTTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (21 bp):
TATTTATATTTTAATTAATCA
Found at i:15650931 original size:21 final size:21
Alignment explanation
Indices: 15650891--15650931 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15650881 TTTATTTATA
*
15650891 TTTTAATTAATCATATTTTAG
1 TTTTAATTAATCATAATTTAG
*
15650912 TTTTAATTAATCTTAATTTA
1 TTTTAATTAATCATAATTTA
15650932 CTTAATTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTAATTAATCATAATTTAG
Found at i:15652686 original size:34 final size:34
Alignment explanation
Indices: 15652630--15652705 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
15652620 CATAAACTAA
* *
15652630 ACCCAAATATTTTTAATTTTTTACCTTTTAACTT
1 ACCCAAATATTTCTAATATTTTACCTTTTAACTT
* * *
15652664 ACTCAAATATTTCTAATATTTTATCTTTTACCTT
1 ACCCAAATATTTCTAATATTTTACCTTTTAACTT
15652698 ACCCAAAT
1 ACCCAAAT
15652706 GTTGTTTACT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.49
Consensus pattern (34 bp):
ACCCAAATATTTCTAATATTTTACCTTTTAACTT
Found at i:15655527 original size:21 final size:22
Alignment explanation
Indices: 15655488--15655530 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
15655478 AGTTCAGAAA
*
15655488 CTGTGCAGATTTCTACCGATAC
1 CTGTGCAGAGTTCTACCGATAC
*
15655510 CTGTGCA-AGTTCTCCCGATAC
1 CTGTGCAGAGTTCTACCGATAC
15655531 AAGTATAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.30
Consensus pattern (22 bp):
CTGTGCAGAGTTCTACCGATAC
Found at i:15657365 original size:20 final size:20
Alignment explanation
Indices: 15657337--15657375 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15657327 CCATGACTTT
*
15657337 CATTATTAAGTTTAATTAAC
1 CATTATTAACTTTAATTAAC
*
15657357 CATTTTTAACTTTAATTAA
1 CATTATTAACTTTAATTAA
15657376 ACCTATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (20 bp):
CATTATTAACTTTAATTAAC
Found at i:15657384 original size:20 final size:20
Alignment explanation
Indices: 15657342--15657384 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
15657332 ACTTTCATTA
* *
15657342 TTAAGTTTAATTAACCATTT
1 TTAACTTTAATTAACCATAT
15657362 TTAACTTTAATTAAACC-TAT
1 TTAACTTTAATT-AACCATAT
15657382 TTA
1 TTA
15657385 TAACCAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.49
Consensus pattern (20 bp):
TTAACTTTAATTAACCATAT
Found at i:15657388 original size:22 final size:20
Alignment explanation
Indices: 15657347--15657388 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
15657337 CATTATTAAG
*
15657347 TTTAATTAACCATTTTTAAC
1 TTTAATTAACCATTTATAAC
15657367 TTTAATTAAACCTATTTATAAC
1 TTTAATT-AACC-ATTTATAAC
15657389 CAATATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 4 0.21
22 8 0.42
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTAATTAACCATTTATAAC
Found at i:15662055 original size:3 final size:3
Alignment explanation
Indices: 15662047--15662071 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15662037 GCAGCTGAAC
15662047 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
15662072 CAAGTACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:15673378 original size:57 final size:57
Alignment explanation
Indices: 15673285--15673411 Score: 229
Period size: 57 Copynumber: 2.2 Consensus size: 57
15673275 TATTAGATTG
* *
15673285 AAGGATGACCAAGTGGCCTCTAAAGATGATAATTGTTGTTTGACAGCAAGAAGAGAC
1 AAGGCTGACCAAGTGACCTCTAAAGATGATAATTGTTGTTTGACAGCAAGAAGAGAC
15673342 AAGGCTGACCAAGTGACCTCTAAAGATGATAATTGTTGTTTGACAGCAAGAAGAGAC
1 AAGGCTGACCAAGTGACCTCTAAAGATGATAATTGTTGTTTGACAGCAAGAAGAGAC
15673399 AAGGCTGA-CAAGT
1 AAGGCTGACCAAGT
15673412 CTGAATATGG
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
56 5 0.07
57 63 0.93
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (57 bp):
AAGGCTGACCAAGTGACCTCTAAAGATGATAATTGTTGTTTGACAGCAAGAAGAGAC
Found at i:15682453 original size:22 final size:22
Alignment explanation
Indices: 15682428--15682470 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15682418 TGAGATTAAA
*
15682428 AAAAAACTTAAGT-CTCAAATTG
1 AAAAAACTCAAGTGCT-AAATTG
15682450 AAAAAACTCAAGTGCTAAATT
1 AAAAAACTCAAGTGCTAAATT
15682471 AGACATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (22 bp):
AAAAAACTCAAGTGCTAAATTG
Found at i:15688330 original size:30 final size:30
Alignment explanation
Indices: 15688290--15688346 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
15688280 GCCTTTTTTG
*
15688290 TTTTCTCTTTGACAGTTCAGATTTTTTATC
1 TTTTATCTTTGACAGTTCAGATTTTTTATC
* *
15688320 TTTTATCTTTGACAGTTGAGTTTTTTT
1 TTTTATCTTTGACAGTTCAGATTTTTT
15688347 CATGAATTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.16, C:0.12, G:0.12, T:0.60
Consensus pattern (30 bp):
TTTTATCTTTGACAGTTCAGATTTTTTATC
Found at i:15689504 original size:2 final size:2
Alignment explanation
Indices: 15689497--15689523 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15689487 ACTTAATCTT
15689497 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
15689524 GAAATTAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15703771 original size:20 final size:20
Alignment explanation
Indices: 15703729--15703772 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
15703719 TAAGTAATTT
**
15703729 TTATTAAAAAGTTTTAAAAA
1 TTATTAAAAAGTACTAAAAA
15703749 TTATTAAAAA-TACTAAAATA
1 TTATTAAAAAGTACTAAAA-A
15703769 TTAT
1 TTAT
15703773 AATTCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
TTATTAAAAAGTACTAAAAA
Found at i:15704749 original size:13 final size:13
Alignment explanation
Indices: 15704731--15704755 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15704721 ATCTTTAAAT
15704731 AATTTTTAAATAC
1 AATTTTTAAATAC
15704744 AATTTTTAAATA
1 AATTTTTAAATA
15704756 AACCGATTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
AATTTTTAAATAC
Found at i:15706883 original size:26 final size:26
Alignment explanation
Indices: 15706854--15706905 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
15706844 AAAAAATGGC
* *
15706854 AAAA-ATTATTGAAAATTGTAGATAAT
1 AAAACATTATTAAAAATTAT-GATAAT
*
15706880 AAAACGTTATTAAAAATTATGATAAT
1 AAAACATTATTAAAAATTATGATAAT
15706906 TATAATATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.35
Consensus pattern (26 bp):
AAAACATTATTAAAAATTATGATAAT
Found at i:15707076 original size:18 final size:19
Alignment explanation
Indices: 15707048--15707083 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
15707038 TAACCCCACC
*
15707048 GAAAAAGAAATCTTGAAAA
1 GAAAAAGAAATATTGAAAA
15707067 GAAAAA-AAATATTGAAA
1 GAAAAAGAAATATTGAAA
15707084 TAACGGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.67, C:0.03, G:0.14, T:0.17
Consensus pattern (19 bp):
GAAAAAGAAATATTGAAAA
Found at i:15707156 original size:29 final size:29
Alignment explanation
Indices: 15707097--15707183 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 29
15707087 CGGGTTTTTT
* *
15707097 TTTATATAAATAACCTCAAAA--AATAATTA
1 TTTATAAAAATAA-TTCAAAATGAATAA-TA
**
15707126 TTTATAAAAATAATTCAAGTTGAATAATA
1 TTTATAAAAATAATTCAAAATGAATAATA
* *
15707155 TTTATCAAAATAATTTAAAATGAATAATA
1 TTTATAAAAATAATTCAAAATGAATAATA
15707184 AAAATTATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 4 0.08
29 39 0.81
30 5 0.10
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (29 bp):
TTTATAAAAATAATTCAAAATGAATAATA
Found at i:15708092 original size:17 final size:17
Alignment explanation
Indices: 15708070--15708104 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
15708060 GCTTCACGTG
15708070 CGCCTCAAATTTTTCCA
1 CGCCTCAAATTTTTCCA
15708087 CGCCTCAAATTTTTCCA
1 CGCCTCAAATTTTTCCA
15708104 C
1 C
15708105 TTAAAATTTG
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:0.23, C:0.37, G:0.06, T:0.34
Consensus pattern (17 bp):
CGCCTCAAATTTTTCCA
Found at i:15713473 original size:25 final size:25
Alignment explanation
Indices: 15713419--15713466 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
15713409 GATATCTCTT
15713419 AATTAATATCATTAATTTTTTAAAC
1 AATTAATATCATTAATTTTTTAAAC
*
15713444 AATTAATATTATTAATTTTTTAA
1 AATTAATATCATTAATTTTTTAA
15713467 TGAATTACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (25 bp):
AATTAATATCATTAATTTTTTAAAC
Found at i:15713967 original size:23 final size:23
Alignment explanation
Indices: 15713941--15713984 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
15713931 ATATGAAAAA
15713941 GTTCCATTACTAAAAGTTCTATC
1 GTTCCATTACTAAAAGTTCTATC
15713964 GTTCCATTACTAAAAGTTCTA
1 GTTCCATTACTAAAAGTTCTA
15713985 CCGTACGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (23 bp):
GTTCCATTACTAAAAGTTCTATC
Found at i:15722813 original size:24 final size:24
Alignment explanation
Indices: 15722763--15722814 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
15722753 CAACAAAACT
* * *
15722763 AAAATCTAACCTAAAAAAAAAGGG
1 AAAACCTAAACTAAAAAAAAAGAG
15722787 AAAACCTAAACTAAAAAGAAAA-AG
1 AAAACCTAAACTAAAAA-AAAAGAG
15722811 AAAA
1 AAAA
15722815 GAAAGAATCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.69, C:0.12, G:0.10, T:0.10
Consensus pattern (24 bp):
AAAACCTAAACTAAAAAAAAAGAG
Found at i:15723163 original size:21 final size:21
Alignment explanation
Indices: 15723134--15723184 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
15723124 CCTTGGGGTT
*
15723134 CTCGATATCACGATACCTTTC
1 CTCGGTATCACGATACCTTTC
15723155 CTCGGTATCACGATACCTTTC
1 CTCGGTATCACGATACCTTTC
15723176 CTCGGTATC
1 CTCGGTATC
15723185 GCAATATCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.33, G:0.14, T:0.33
Consensus pattern (21 bp):
CTCGGTATCACGATACCTTTC
Found at i:15724313 original size:10 final size:10
Alignment explanation
Indices: 15724298--15724426 Score: 57
Period size: 10 Copynumber: 12.1 Consensus size: 10
15724288 GCTGTATTGG
*
15724298 TGCTGTTTTT
1 TGCTATTTTT
*
15724308 TGCTGTTTTGAT
1 TGCTATTTT--T
15724320 TGCTATTTTT
1 TGCTATTTTT
*
15724330 TGCTATTTTGG
1 TGCTATTTT-T
15724341 TG-T-TTTTT
1 TGCTATTTTT
* * *
15724349 TACTGTTTTGG
1 TGCTATTTT-T
15724360 TGCTATTTTTT
1 TGCTA-TTTTT
* *
15724371 TACTATTTTGG
1 TGCTATTTT-T
15724382 TGCTATTTTTAT
1 TGCTA-TTTT-T
*
15724394 TGTTATTTTCGT
1 TGCTATTTT--T
15724406 TGCTATTTTT
1 TGCTATTTTT
15724416 T-CTATTATTT
1 TGCTATT-TTT
15724426 T
1 T
15724427 TGCTGCTGTT
Statistics
Matches: 92, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
8 1 0.01
9 10 0.11
10 34 0.37
11 17 0.18
12 30 0.33
ACGTcount: A:0.10, C:0.09, G:0.16, T:0.66
Consensus pattern (10 bp):
TGCTATTTTT
Found at i:15724328 original size:12 final size:11
Alignment explanation
Indices: 15724298--15724414 Score: 73
Period size: 12 Copynumber: 10.8 Consensus size: 11
15724288 GCTGTATTGG
*
15724298 TGCTGTTTT-T
1 TGCTATTTTGT
*
15724308 TGCTGTTTTGAT
1 TGCTATTTTG-T
15724320 TGCTATTTT-T
1 TGCTATTTTGT
*
15724330 TGCTATTTTGG
1 TGCTATTTTGT
15724341 TG-T-TTTT-T
1 TGCTATTTTGT
* * *
15724349 TACTGTTTTGG
1 TGCTATTTTGT
*
15724360 TGCTATTTTTT
1 TGCTATTTTGT
* *
15724371 TACTATTTTGG
1 TGCTATTTTGT
*
15724382 TGCTATTTTTAT
1 TGCTA-TTTTGT
*
15724394 TGTTATTTTCGT
1 TGCTATTTT-GT
15724406 TGCTATTTT
1 TGCTATTTT
15724415 TTCTATTATT
Statistics
Matches: 81, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
8 1 0.01
9 5 0.06
10 24 0.30
11 25 0.31
12 26 0.32
ACGTcount: A:0.09, C:0.09, G:0.17, T:0.65
Consensus pattern (11 bp):
TGCTATTTTGT
Found at i:15724328 original size:22 final size:21
Alignment explanation
Indices: 15724286--15724391 Score: 117
Period size: 22 Copynumber: 5.0 Consensus size: 21
15724276 AAAAATTATC
* *
15724286 TTGCTGTATTGGTGCTGTTTT
1 TTGCTGTTTTGGTGCTATTTT
*
15724307 TTGCTGTTTTGATTGCTATTTT
1 TTGCTGTTTTG-GTGCTATTTT
*
15724329 TTGCTATTTTGGTG-T-TTTT
1 TTGCTGTTTTGGTGCTATTTT
*
15724348 TTACTGTTTTGGTGCTATTTTT
1 TTGCTGTTTTGGTGCTA-TTTT
* *
15724370 TTACTATTTTGGTGCTATTTT
1 TTGCTGTTTTGGTGCTATTTT
15724391 T
1 T
15724392 ATTGTTATTT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
19 16 0.22
20 2 0.03
21 17 0.23
22 38 0.52
ACGTcount: A:0.08, C:0.08, G:0.20, T:0.63
Consensus pattern (21 bp):
TTGCTGTTTTGGTGCTATTTT
Found at i:15724355 original size:41 final size:42
Alignment explanation
Indices: 15724294--15724397 Score: 131
Period size: 41 Copynumber: 2.5 Consensus size: 42
15724284 TCTTGCTGTA
* * *
15724294 TTGGTGCTGTTTTTTGCTGTTTTGATTGCTA-TTTTTTGCTATT
1 TTGGTGCT-TTTTTTACTGTTTTG-GTGCTATTTTTTTACTATT
15724337 TTGGTG-TTTTTTTACTGTTTTGGTGCTATTTTTTTACTATT
1 TTGGTGCTTTTTTTACTGTTTTGGTGCTATTTTTTTACTATT
* *
15724378 TTGGTGCTATTTTTATTGTT
1 TTGGTGCTTTTTTTACTGTT
15724398 ATTTTCGTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
40 5 0.09
41 31 0.57
42 12 0.22
43 6 0.11
ACGTcount: A:0.09, C:0.08, G:0.19, T:0.64
Consensus pattern (42 bp):
TTGGTGCTTTTTTTACTGTTTTGGTGCTATTTTTTTACTATT
Found at i:15724368 original size:11 final size:11
Alignment explanation
Indices: 15724320--15724390 Score: 51
Period size: 11 Copynumber: 6.8 Consensus size: 11
15724310 CTGTTTTGAT
*
15724320 TGCTATTTT-T
1 TGCTATTTTGG
15724330 TGCTATTTTGG
1 TGCTATTTTGG
*
15724341 TG-T-TTTT-T
1 TGCTATTTTGG
* *
15724349 TACTGTTTTGG
1 TGCTATTTTGG
**
15724360 TGCTATTTTTT
1 TGCTATTTTGG
*
15724371 TACTATTTTGG
1 TGCTATTTTGG
15724382 TGCTATTTT
1 TGCTATTTT
15724391 TATTGTTATT
Statistics
Matches: 45, Mismatches: 12, Indels: 7
0.70 0.19 0.11
Matches are distributed among these distances:
8 1 0.02
9 5 0.11
10 14 0.31
11 25 0.56
ACGTcount: A:0.10, C:0.08, G:0.17, T:0.65
Consensus pattern (11 bp):
TGCTATTTTGG
Found at i:15724414 original size:24 final size:22
Alignment explanation
Indices: 15724294--15724426 Score: 105
Period size: 22 Copynumber: 6.1 Consensus size: 22
15724284 TCTTGCTGTA
* * *
15724294 TTGGTGCT-GTTTTTTGCTGTT
1 TTGGTGCTATTTTTTTACTATT
* *
15724315 TTGATTGCTA-TTTTTTGCTATT
1 TTG-GTGCTATTTTTTTACTATT
*
15724337 TTGGTG---TTTTTTTACTGTT
1 TTGGTGCTATTTTTTTACTATT
15724356 TTGGTGCTATTTTTTTACTATT
1 TTGGTGCTATTTTTTTACTATT
**
15724378 TTGGTGCTATTTTTATTGTTATT
1 TTGGTGCTATTTTT-TTACTATT
* *
15724401 TTCGTTGCTATTTTTTCTATTATT
1 TT-GGTGCTATTTTTT-TACTATT
15724425 TT
1 TT
15724427 TGCTGCTGTT
Statistics
Matches: 93, Mismatches: 10, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
19 16 0.17
21 5 0.05
22 44 0.47
23 9 0.10
24 19 0.20
ACGTcount: A:0.10, C:0.08, G:0.17, T:0.65
Consensus pattern (22 bp):
TTGGTGCTATTTTTTTACTATT
Found at i:15724433 original size:24 final size:23
Alignment explanation
Indices: 15724354--15724438 Score: 91
Period size: 24 Copynumber: 3.7 Consensus size: 23
15724344 TTTTTTACTG
*
15724354 TTTTGGTGCTATTTTTTTACTA-
1 TTTTGGTGCTATTTTTTTATTAT
*
15724376 TTTTGGTGCTATTTTTATTGTTAT
1 TTTTGGTGCTATTTTT-TTATTAT
* *
15724400 TTTCGTTGCTATTTTTTCTATTAT
1 TTTTGGTGCTATTTTTT-TATTAT
* *
15724424 TTTTGCTGCTGTTTT
1 TTTTGGTGCTATTTT
15724439 GGTTGTTTGG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
22 16 0.31
23 5 0.10
24 31 0.60
ACGTcount: A:0.11, C:0.09, G:0.14, T:0.66
Consensus pattern (23 bp):
TTTTGGTGCTATTTTTTTATTAT
Found at i:15726011 original size:2 final size:2
Alignment explanation
Indices: 15726004--15726029 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15725994 ACCATAATTC
15726004 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
15726030 TGTAACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15729865 original size:99 final size:99
Alignment explanation
Indices: 15729723--15729922 Score: 400
Period size: 99 Copynumber: 2.0 Consensus size: 99
15729713 GTTTGTGTTA
15729723 TCTATCAATCGGATCTCAATTCAGTTGTAAAGTTACCAAAAGTTTCTTACTTTTACAAAATAATA
1 TCTATCAATCGGATCTCAATTCAGTTGTAAAGTTACCAAAAGTTTCTTACTTTTACAAAATAATA
15729788 GATATTATTTTGAGGGCTATTTTATTTATTTATT
66 GATATTATTTTGAGGGCTATTTTATTTATTTATT
15729822 TCTATCAATCGGATCTCAATTCAGTTGTAAAGTTACCAAAAGTTTCTTACTTTTACAAAATAATA
1 TCTATCAATCGGATCTCAATTCAGTTGTAAAGTTACCAAAAGTTTCTTACTTTTACAAAATAATA
15729887 GATATTATTTTGAGGGCTATTTTATTTATTTATT
66 GATATTATTTTGAGGGCTATTTTATTTATTTATT
15729921 TC
1 TC
15729923 ACATAAAATC
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 101 1.00
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (99 bp):
TCTATCAATCGGATCTCAATTCAGTTGTAAAGTTACCAAAAGTTTCTTACTTTTACAAAATAATA
GATATTATTTTGAGGGCTATTTTATTTATTTATT
Found at i:15733609 original size:9 final size:9
Alignment explanation
Indices: 15733595--15733624 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
15733585 CTTAATTACA
15733595 TAAGTTAAT
1 TAAGTTAAT
15733604 TAAGTTAAT
1 TAAGTTAAT
*
15733613 TAAATTAAT
1 TAAGTTAAT
15733622 TAA
1 TAA
15733625 AATCGAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (9 bp):
TAAGTTAAT
Found at i:15735876 original size:24 final size:23
Alignment explanation
Indices: 15735817--15735889 Score: 67
Period size: 26 Copynumber: 3.0 Consensus size: 23
15735807 ATATAAACTT
* * *
15735817 AAAAATTATAAGTATTATAAAAT
1 AAAATTTATAAGAATTATAAAAC
15735840 ATATAATTTATAATGAATTATAAAAC
1 A-A-AATTTATAA-GAATTATAAAAC
*
15735866 AAAATTTATAA-AATCAATAAAAC
1 AAAATTTATAAGAAT-TATAAAAC
15735889 A
1 A
15735890 TATTAAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
22 3 0.07
23 9 0.21
24 10 0.24
25 9 0.21
26 11 0.26
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (23 bp):
AAAATTTATAAGAATTATAAAAC
Found at i:15735951 original size:10 final size:10
Alignment explanation
Indices: 15735932--15735968 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
15735922 TTAAGATTCT
15735932 ATAAAAAATC
1 ATAAAAAATC
*
15735942 ATAAACAATC
1 ATAAAAAATC
*
15735952 ATAAAAAATT
1 ATAAAAAATC
15735962 ATAAAAA
1 ATAAAAA
15735969 TATTAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (10 bp):
ATAAAAAATC
Found at i:15736472 original size:19 final size:19
Alignment explanation
Indices: 15736441--15736494 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
15736431 ATAAGTTTAT
15736441 ATCATAAAA--ATAATAAA
1 ATCATAAAATCATAATAAA
* * *
15736458 ATCTTATAATCATAAAAAA
1 ATCATAAAATCATAATAAA
15736477 ATCATAAAATC-TAATAAA
1 ATCATAAAATCATAATAAA
15736495 TATAAATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 7 0.24
18 6 0.21
19 16 0.55
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (19 bp):
ATCATAAAATCATAATAAA
Found at i:15736540 original size:20 final size:20
Alignment explanation
Indices: 15736494--15736540 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
15736484 AATCTAATAA
* *
15736494 ATATAAATTTTAATAAGTTT
1 ATATTAATTTTAATAAATTT
15736514 ATATTAATTTTAATAAAATTT
1 ATATTAATTTTAAT-AAATTT
15736535 AT-TTAA
1 ATATTAA
15736541 AATATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
ATATTAATTTTAATAAATTT
Found at i:15745664 original size:27 final size:27
Alignment explanation
Indices: 15745634--15745686 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
15745624 TCTTTTGTAT
15745634 ATTTATA-TTGTTTTTATAGATTTATAA
1 ATTTATAGTTG-TTTTATAGATTTATAA
*
15745661 ATTTATAGTTGTTTTATATATTTATA
1 ATTTATAGTTGTTTTATAGATTTATA
15745687 TAAATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (27 bp):
ATTTATAGTTGTTTTATAGATTTATAA
Found at i:15749872 original size:13 final size:14
Alignment explanation
Indices: 15749854--15749917 Score: 60
Period size: 13 Copynumber: 4.6 Consensus size: 14
15749844 GTTTTTTTTT
15749854 AGAAAAAAAGAA-A
1 AGAAAAAAAGAAGA
*
15749867 AGAAAAGAAGTAAGA
1 AGAAAAAAAG-AAGA
* * * *
15749882 TGAAGAACAGAACA
1 AGAAAAAAAGAAGA
15749896 AG-AAAAAAGAAGA
1 AGAAAAAAAGAAGA
15749909 AGAAAAAAA
1 AGAAAAAAA
15749918 CAAACCTTGG
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
13 19 0.50
14 12 0.32
15 7 0.18
ACGTcount: A:0.73, C:0.03, G:0.20, T:0.03
Consensus pattern (14 bp):
AGAAAAAAAGAAGA
Found at i:15749919 original size:24 final size:24
Alignment explanation
Indices: 15749861--15749920 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
15749851 TTTAGAAAAA
** *
15749861 AAGAAAAGAA-AAGAAGTAAGATG
1 AAGAAAAGAACAAGAAAAAAGAAG
*
15749884 AAGAACAGAACAAGAAAAAAGAAG
1 AAGAAAAGAACAAGAAAAAAGAAG
*
15749908 AAGAAAAAAACAA
1 AAGAAAAGAACAA
15749921 ACCTTGGGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 9 0.30
24 21 0.70
ACGTcount: A:0.72, C:0.05, G:0.20, T:0.03
Consensus pattern (24 bp):
AAGAAAAGAACAAGAAAAAAGAAG
Found at i:15751481 original size:20 final size:20
Alignment explanation
Indices: 15751456--15751504 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
15751446 TTTTCCTTCA
*
15751456 ATTATTTTATTTATAAGATT
1 ATTATTTTATTTATAAAATT
15751476 ATTATTTTATTTATAAAATT
1 ATTATTTTATTTATAAAATT
15751496 ATTATTTTA
1 ATTATTTTA
15751505 ATGAATAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTATTTTATTTATAAAATT
Found at i:15756843 original size:15 final size:15
Alignment explanation
Indices: 15756820--15756852 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
15756810 ATAAAATTAG
15756820 AAAGATG-AAAAATT
1 AAAGATGAAAAAATT
15756834 AAAGAGTGAAAAAATT
1 AAAGA-TGAAAAAATT
15756850 AAA
1 AAA
15756853 AAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 2 0.12
16 10 0.59
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (15 bp):
AAAGATGAAAAAATT
Found at i:15757055 original size:15 final size:16
Alignment explanation
Indices: 15757035--15757067 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15757025 AATGATCATC
15757035 TCTCTTA-TTTTCTTT
1 TCTCTTACTTTTCTTT
*
15757050 TCTCTTACTTTTTTTT
1 TCTCTTACTTTTCTTT
15757066 TC
1 TC
15757068 GTACAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (16 bp):
TCTCTTACTTTTCTTT
Found at i:15763992 original size:17 final size:17
Alignment explanation
Indices: 15763970--15764003 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
15763960 GGGATGTTGG
15763970 GCTGTAAGCCGAATGAT
1 GCTGTAAGCCGAATGAT
15763987 GCTGTAAGCCGAATGAT
1 GCTGTAAGCCGAATGAT
15764004 ACACCAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (17 bp):
GCTGTAAGCCGAATGAT
Found at i:15779045 original size:29 final size:28
Alignment explanation
Indices: 15779008--15779063 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
15778998 ATAAATTTTG
*
15779008 AAATTTTTATAAATATTTTGAAAATTTA
1 AAATTTTTAGAAATATTTTGAAAATTTA
** *
15779036 AAATTATTTAGATTTATTTTGTAAATTT
1 AAATT-TTTAGAAATATTTTGAAAATTT
15779064 TGTTAAGAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (28 bp):
AAATTTTTAGAAATATTTTGAAAATTTA
Found at i:15786108 original size:40 final size:40
Alignment explanation
Indices: 15786055--15786137 Score: 148
Period size: 40 Copynumber: 2.1 Consensus size: 40
15786045 TTAAATTTTA
15786055 TTATAATTGAAAATTATTTGGTACACTAACCGTGAAGGTT
1 TTATAATTGAAAATTATTTGGTACACTAACCGTGAAGGTT
* *
15786095 TTATAATTGAAAATTATTTTGTACACTAATCGTGAAGGTT
1 TTATAATTGAAAATTATTTGGTACACTAACCGTGAAGGTT
15786135 TTA
1 TTA
15786138 GACTCCACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (40 bp):
TTATAATTGAAAATTATTTGGTACACTAACCGTGAAGGTT
Found at i:15786788 original size:16 final size:16
Alignment explanation
Indices: 15786761--15786801 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
15786751 TCGGGTATAT
15786761 TAAATA-TTAAAAAAA
1 TAAATATTTAAAAAAA
**
15786776 TAAATATTTAAAATGA
1 TAAATATTTAAAAAAA
15786792 TAAAT-TTTAA
1 TAAATATTTAA
15786802 GGTTATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
TAAATATTTAAAAAAA
Found at i:15792372 original size:29 final size:30
Alignment explanation
Indices: 15792337--15792402 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
15792327 GTTTCACCTG
* *
15792337 TATAATTGC-ATCAAATTAAAATTTATGTA
1 TATAATTACAATCAAATTAAAATTTACGTA
*
15792366 TATAATTACATATTAAATTAAAATTTACGTA
1 TATAATTACA-ATCAAATTAAAATTTACGTA
15792397 TA-AATT
1 TATAATT
15792403 TGAAATTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 8 0.25
30 4 0.12
31 20 0.62
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (30 bp):
TATAATTACAATCAAATTAAAATTTACGTA
Found at i:15793744 original size:32 final size:33
Alignment explanation
Indices: 15793682--15793748 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
15793672 TTGCATGTGT
* *
15793682 TGTATTAAATGTTTGTTTCTGATCTGATAGTGA
1 TGTAGTAAATGGTTGTTTCTGATCTGATAGTGA
*
15793715 TGTAGTAAATGGTTGTTT-TTATCTGATAGTGA
1 TGTAGTAAATGGTTGTTTCTGATCTGATAGTGA
15793747 TG
1 TG
15793749 AATAATTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.48
Consensus pattern (33 bp):
TGTAGTAAATGGTTGTTTCTGATCTGATAGTGA
Found at i:15797332 original size:16 final size:16
Alignment explanation
Indices: 15797311--15797344 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
15797301 ACCAAACCAG
*
15797311 CAGCCATGAGAAGTAA
1 CAGCCATGAGAAGCAA
15797327 CAGCCATGAGAAGCAA
1 CAGCCATGAGAAGCAA
15797343 CA
1 CA
15797345 ACCAACAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.24, G:0.24, T:0.09
Consensus pattern (16 bp):
CAGCCATGAGAAGCAA
Found at i:15799912 original size:52 final size:52
Alignment explanation
Indices: 15799789--15799902 Score: 158
Period size: 52 Copynumber: 2.2 Consensus size: 52
15799779 ATGGAAAATA
* *
15799789 TCCGATGACTATGTGTCATCATGAGTATATGAATCCTTTACAAATTATGAGG
1 TCCGATGACTATGTGTCATCATGAGCATATGAATCCTTTACAAATTATAAGG
* * **
15799841 TCCGATGACTATGTGTCATCATGAGCATATGGATCCTTTTTCGGATT-TAAGG
1 TCCGATGACTATGTGTCATCATGAGCATATGAATCC-TTTACAAATTATAAGG
15799893 TCCGATGACT
1 TCCGATGACT
15799903 TTCTATCATC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 48 0.87
53 7 0.13
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (52 bp):
TCCGATGACTATGTGTCATCATGAGCATATGAATCCTTTACAAATTATAAGG
Found at i:15801205 original size:3 final size:3
Alignment explanation
Indices: 15801197--15801251 Score: 76
Period size: 3 Copynumber: 18.7 Consensus size: 3
15801187 AATCTCCATT
* * *
15801197 TTC TTC TTC TTC TTC TTT TTT TTC TTC TTC TTC TTT TTC TTC TTC TT-
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
15801244 TTC TTC TT
1 TTC TTC TT
15801252 AAACCCTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (3 bp):
TTC
Found at i:15801221 original size:18 final size:18
Alignment explanation
Indices: 15801195--15801248 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
15801185 GTAATCTCCA
15801195 TTTTCTTCTTCTTCTTCT
1 TTTTCTTCTTCTTCTTCT
*
15801213 TTTTTTTCTTCTTCTTCT
1 TTTTCTTCTTCTTCTTCT
15801231 TTTTCTTCTTCTT-TTCT
1 TTTTCTTCTTCTTCTTCT
15801248 T
1 T
15801249 CTTAAACCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
17 5 0.15
18 29 0.85
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTCTTCTTCTTCTTCT
Found at i:15803496 original size:29 final size:30
Alignment explanation
Indices: 15803454--15803790 Score: 148
Period size: 29 Copynumber: 11.5 Consensus size: 30
15803444 ACTCGGGGGC
15803454 AAAATGGTAA-TTTTGGTAAATC-AGGATTA
1 AAAATGGTAATTTTTGGTAAATCGAGG-TTA
*** * *
15803483 AAAATGG-AATTTTTGAG-GCTTCAAGGGT-
1 AAAATGGTAATTTTTG-GTAAATCGAGGTTA
*
15803511 AAAATGGTAATTTTTGATGAAATCGAGGTTA
1 AAAATGGTAATTTTTGGT-AAATCGAGGTTA
*
15803542 AAAATGG-AA-TTTTGG-AAAGTTC-AGGGGT-
1 AAAATGGTAATTTTTGGTAAA--TCGA-GGTTA
15803570 AAAATGGTAATTTTTGGTGAAATCGAGGTTA
1 AAAATGGTAATTTTTGGT-AAATCGAGGTTA
* * * * *
15803601 AAAATAG-AA-TTTT--AAAAGGTTTGGGGGT-
1 AAAATGGTAATTTTTGGTAAA---TCGAGGTTA
* * *
15803629 AAAATAGTAATTTTTGATGAAATCGGGGTTA
1 AAAATGGTAATTTTTGGT-AAATCGAGGTTA
** *
15803660 AAAATGG-AA-TTTTGG-AAAGTTTAGGGGT-
1 AAAATGGTAATTTTTGGTAAA-TCGA-GGTTA
15803688 AAAATGGTAATTTTTGGTGAAATC-AGGGTTA
1 AAAATGGTAATTTTTGGT-AAATCGA-GGTTA
* * *
15803719 AAAATGG-AA-TTTTGG-AAAGTTTGGGGGT-
1 AAAATGGTAATTTTTGGTAAA--TCGAGGTTA
15803747 AAAATGGTAATTTTTGGTGAAATCGAGGTTA
1 AAAATGGTAATTTTTGGT-AAATCGAGGTTA
15803778 AAAATGG-AATTTT
1 AAAATGGTAATTTT
15803791 GGAAAGTTTA
Statistics
Matches: 233, Mismatches: 35, Indels: 79
0.67 0.10 0.23
Matches are distributed among these distances:
26 3 0.01
27 9 0.04
28 39 0.17
29 68 0.29
30 67 0.29
31 35 0.15
32 9 0.04
33 3 0.01
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.34
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGTAAATCGAGGTTA
Found at i:15803552 original size:59 final size:59
Alignment explanation
Indices: 15803449--15803819 Score: 538
Period size: 59 Copynumber: 6.3 Consensus size: 59
15803439 TGGATACTCG
* * * *
15803449 GGGGCAAAATGGTAA-TTTTGGT-AAATC-AGGATTAAAAATGGAATTTTTG-AGGCTTCA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGG-TTAAAAATGGAATTTTGGAAAG-TTTA
* * *
15803506 AGGGTAAAATGGTAATTTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTA
* * *
15803565 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATAGAATTTT-AAAAGGTTTG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAA-GTTTA
* * *
15803624 GGGGTAAAATAGTAATTTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTA
*
15803683 GGGGTAAAATGGTAATTTTTGGTGAAATC-AGGGTTAAAAATGGAATTTTGGAAAGTTTG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGA-GGTTAAAAATGGAATTTTGGAAAGTTTA
15803742 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTA
15803801 GGGGTAAAATGGTAATTTT
1 GGGGTAAAATGGTAATTTT
15803820 GGAAGCTTTG
Statistics
Matches: 284, Mismatches: 22, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
57 13 0.05
58 9 0.03
59 253 0.89
60 9 0.03
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTA
Found at i:15804035 original size:161 final size:162
Alignment explanation
Indices: 15803860--15804230 Score: 529
Period size: 161 Copynumber: 2.3 Consensus size: 162
15803850 CCAAAGAGTG
* * * * * *
15803860 AGTGACACGTGGCAGCCTCAC-AG-GCA-TCCAGCAGTCAAGGGATTAAATTGTAAATCTTGAAA
1 AGTGACACGTGGCAGCCTC-CTAGTGCAGTCAAACAGTCAAAGGACTAAATTATAAACCTTGAAA
* *
15803922 AATTCTTGGGCTAATTTTGTAATTAAATAAAAGTTGATTTAGGGATTAAATTAAAACAAATTAAA
65 AATTCTCGGGCCAATTTTGTAATTAAATAAAAGTTGA-TTAGGGATTAAATTAAAACAAATTAAA
15803987 AATGTCAGGGAATAAATGCATAAATAAGCCAAAA
129 AATGTCAGGGAATAAATGCATAAATAAGCCAAAA
* * * *
15804021 AGTGACACGTGGCAGCC-CCTGGTGTAGTCAAACAGTCAAAGGACTGATTTATAAACCTTGAAAA
1 AGTGACACGTGGCAGCCTCCTAGTGCAGTCAAACAGTCAAAGGACTAAATTATAAACCTTGAAAA
15804085 ATTCTCGGGCCAATTTTGTAATTAAATAAAAGTTGATTAGGGATTAAATTAAAACAAATTAAAAA
66 ATTCTCGGGCCAATTTTGTAATTAAATAAAAGTTGATTAGGGATTAAATTAAAACAAATTAAAAA
* *
15804150 TGTCAGGGACTACATGCATAAATAAGCCAAAA
131 TGTCAGGGAATAAATGCATAAATAAGCCAAAA
* * *
15804182 A-TGACACATGGCAGCCT-CTGGTGCAGTCAAACAGTCAAAGGATTAAATT
1 AGTGACACGTGGCAGCCTCCTAGTGCAGTCAAACAGTCAAAGGACTAAATT
15804231 GAAAACTAAT
Statistics
Matches: 187, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
159 1 0.01
160 44 0.24
161 79 0.42
162 63 0.34
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.26
Consensus pattern (162 bp):
AGTGACACGTGGCAGCCTCCTAGTGCAGTCAAACAGTCAAAGGACTAAATTATAAACCTTGAAAA
ATTCTCGGGCCAATTTTGTAATTAAATAAAAGTTGATTAGGGATTAAATTAAAACAAATTAAAAA
TGTCAGGGAATAAATGCATAAATAAGCCAAAA
Found at i:15804083 original size:162 final size:160
Alignment explanation
Indices: 15803910--15804223 Score: 538
Period size: 161 Copynumber: 1.9 Consensus size: 160
15803900 GATTAAATTG
* * *
15803910 TAAATCTTGAAAAATTCTTGGGCTAATTTTGTAATTAAATAAAAGTTGATTTAGGGATTAAATTA
1 TAAACCTTGAAAAATTCTCGGGCCAATTTTGTAATTAAATAAAAGTTGA-TTAGGGATTAAATTA
*
15803975 AAACAAATTAAAAATGTCAGGGAATAAATGCATAAATAAGCCAAAAAGTGACACGTGGCAGCCCC
65 AAACAAATTAAAAATGTCAGGGAATAAATGCATAAATAAGCCAAAAA-TGACACATGGCAGCCCC
*
15804040 TGGTGTAGTCAAACAGTCAAAGGACTGATTTA
129 TGGTGCAGTCAAACAGTCAAAGGACTGATTTA
15804072 TAAACCTTGAAAAATTCTCGGGCCAATTTTGTAATTAAATAAAAGTTGATTAGGGATTAAATTAA
1 TAAACCTTGAAAAATTCTCGGGCCAATTTTGTAATTAAATAAAAGTTGATTAGGGATTAAATTAA
* * *
15804137 AACAAATTAAAAATGTCAGGGACTACATGCATAAATAAGCCAAAAATGACACATGGCAGCCTCTG
66 AACAAATTAAAAATGTCAGGGAATAAATGCATAAATAAGCCAAAAATGACACATGGCAGCCCCTG
15804202 GTGCAGTCAAACAGTCAAAGGA
131 GTGCAGTCAAACAGTCAAAGGA
15804224 TTAAATTGAA
Statistics
Matches: 144, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
160 38 0.26
161 60 0.42
162 46 0.32
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.26
Consensus pattern (160 bp):
TAAACCTTGAAAAATTCTCGGGCCAATTTTGTAATTAAATAAAAGTTGATTAGGGATTAAATTAA
AACAAATTAAAAATGTCAGGGAATAAATGCATAAATAAGCCAAAAATGACACATGGCAGCCCCTG
GTGCAGTCAAACAGTCAAAGGACTGATTTA
Found at i:15805653 original size:17 final size:16
Alignment explanation
Indices: 15805633--15805707 Score: 78
Period size: 17 Copynumber: 4.4 Consensus size: 16
15805623 ATATTAAATT
*
15805633 TTAAATTAAATTCTAAC
1 TTAAATTAAATT-TAAA
15805650 TTAAATTTAAATTTAAA
1 TTAAA-TTAAATTTAAA
15805667 TTAAATTAAAATTTAAA
1 TTAAATT-AAATTTAAA
* *
15805684 ATAAATTTAATTTCAAA
1 TTAAATTAAATTT-AAA
*
15805701 GTAAATT
1 TTAAATT
15805708 CTAAAATGGT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
16 7 0.14
17 37 0.73
18 7 0.14
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (16 bp):
TTAAATTAAATTTAAA
Found at i:15805661 original size:6 final size:6
Alignment explanation
Indices: 15805626--15805693 Score: 63
Period size: 6 Copynumber: 11.7 Consensus size: 6
15805616 ACAAATAATA
*
15805626 TTAAATT TTAAA- TTAAAT TCT-AAC TTAAAT TTAAAT TTAAA- TTAAAT
1 TTAAA-T TTAAAT TTAAAT T-TAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
15805673 TAAAAT TTAAA- ATAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAA
15805694 TTTCAAAGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
5 15 0.30
6 29 0.58
7 6 0.12
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:15805674 original size:34 final size:34
Alignment explanation
Indices: 15805633--15805707 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
15805623 ATATTAAATT
**
15805633 TTAAATT-AAATTCTAACTTAAATTTAAATTT-AAA
1 TTAAATTAAAATT-TAAAATAAATTT-AATTTCAAA
15805667 TTAAATTAAAATTTAAAATAAATTTAATTTCAAA
1 TTAAATTAAAATTTAAAATAAATTTAATTTCAAA
*
15805701 GTAAATT
1 TTAAATT
15805708 CTAAAATGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 5 0.14
34 26 0.72
35 5 0.14
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (34 bp):
TTAAATTAAAATTTAAAATAAATTTAATTTCAAA
Found at i:15805706 original size:28 final size:29
Alignment explanation
Indices: 15805657--15805714 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
15805647 AACTTAAATT
*
15805657 TAAATTTAAATTAAATTAAAATT-TAAAA
1 TAAATTTAAATTAAAGTAAAATTCTAAAA
*
15805685 TAAATTTAATTTCAAAGT-AAATTCTAAAA
1 TAAATTTAAATT-AAAGTAAAATTCTAAAA
15805714 T
1 T
15805715 GGTTTGGGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (29 bp):
TAAATTTAAATTAAAGTAAAATTCTAAAA
Found at i:15806088 original size:38 final size:37
Alignment explanation
Indices: 15805982--15806395 Score: 154
Period size: 38 Copynumber: 11.2 Consensus size: 37
15805972 TGCTCTTTAG
* *
15805982 AGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTC
1 AGAGATAAAGAC-TGTTATCCAACTCTACTTCAATTTC
**
15806020 AAGAGGATAGGAA-AC-G--ATCTTACTCATACTTCAATTTC
1 -AGA-GATA--AAGACTGTTATCCAACTC-TACTTCAATTTC
15806058 AGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTC
1 AGAGATAAAGAC-TGTTATCCAACTCTACTTCAATTTC
***
15806096 AAGAGGATGGGAAA-A--G--ATCTTGCTCTTACTTCAATTTC
1 -AGA-GAT---AAAGACTGTTATCCAACTC-TACTTCAATTTC
* * *
15806134 AGAGATAAAGACTTGTTATCCAACTTTACTCCCATTTC
1 AGAGATAAAGAC-TGTTATCCAACTCTACTTCAATTTC
** * * * ****
15806172 AAGAGGATAGGGAATGATGTTGTTCT-TACTTCAATTTC
1 -AGA-GATAAAGACTGTTATCCAACTCTACTTCAATTTC
*
15806210 AGAGATAACGACTCGTTTATCCAACTCTACTTCAATTTC
1 AGAGATAAAGACT-G-TTATCCAACTCTACTTCAATTTC
*** * * * *
15806249 A-AGCGGATGAC--CT-TGC-TCT-TACTTCAATTTC
1 AGAGATAAAGACTGTTATCCAACTCTACTTCAATTTC
15806280 AGAGATAAAGACATGTTATCC-ACTCTACTTCAATTTC
1 AGAGATAAAGAC-TGTTATCCAACTCTACTTCAATTTC
** * * *
15806317 A-AGAGGATGAC-G-T-TGC-TCT-TACTTCAATTTC
1 AGAGATAAAGACTGTTATCCAACTCTACTTCAATTTC
* * *
15806348 AGAGATGAAGACGTGTTATCCAGCTTTACTTCAATTTC
1 AGAGATAAAGAC-TGTTATCCAACTCTACTTCAATTTC
15806386 AAGAGGATAA
1 -AGA-GATAA
15806396 GAAAAGATCT
Statistics
Matches: 276, Mismatches: 58, Indels: 81
0.67 0.14 0.20
Matches are distributed among these distances:
31 26 0.09
32 20 0.07
33 6 0.02
34 6 0.02
35 4 0.01
36 27 0.10
37 39 0.14
38 78 0.28
39 45 0.16
40 17 0.06
41 2 0.01
42 3 0.01
43 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (37 bp):
AGAGATAAAGACTGTTATCCAACTCTACTTCAATTTC
Found at i:15806109 original size:76 final size:74
Alignment explanation
Indices: 15805982--15806393 Score: 497
Period size: 76 Copynumber: 5.6 Consensus size: 74
15805972 TGCTCTTTAG
* * * * *
15805982 AGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAACGATCTTACTCAT
1 AGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT-GG-AACGATCTTGCTCTT
15806047 ACTTCAATTTC
64 ACTTCAATTTC
*
15806058 AGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT-GG-AACGATCTTGCTCTT
15806123 ACTTCAATTTC
64 ACTTCAATTTC
* * * * * * *
15806134 AGAGATAAAGACTTGTTATCCAACTTTACTCCCATTTCAAGAGGATAGGGAATGATGTTGTTCTT
1 AGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT--GGAACGATCTTGCTCTT
15806199 ACTTCAATTTC
64 ACTTCAATTTC
* *
15806210 AGAGATAACGAC-TCGTTTATCCAACTCTACTTCAATTTCAAGCGGAT-G-AC---CTTGCTCTT
1 AGAGATAAAGACGT-G-TTATCCAACTCTACTTCAATTTCAAGAGGATGGAACGATCTTGCTCTT
15806269 ACTTCAATTTC
64 ACTTCAATTTC
*
15806280 AGAGATAAAGACATGTTATCC-ACTCTACTTCAATTTCAAGAGGAT-G-ACG---TTGCTCTTAC
1 AGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGGAACGATCTTGCTCTTAC
15806339 TTCAATTTC
66 TTCAATTTC
* * *
15806348 AGAGATGAAGACGTGTTATCCAGCTTTACTTCAATTTCAAGAGGAT
1 AGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
15806394 AAGAAAAGAT
Statistics
Matches: 302, Mismatches: 28, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
68 64 0.21
69 28 0.09
70 30 0.10
71 1 0.00
73 1 0.00
74 1 0.00
75 1 0.00
76 146 0.48
77 30 0.10
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (74 bp):
AGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAGGATGGAACGATCTTGCTCTTAC
TTCAATTTC
Found at i:15806275 original size:31 final size:31
Alignment explanation
Indices: 15806237--15806355 Score: 98
Period size: 31 Copynumber: 3.7 Consensus size: 31
15806227 TATCCAACTC
*
15806237 TACTTCAATTTCAAGCGGATGACCTTGCTCT
1 TACTTCAATTTCAAGAGGATGACCTTGCTCT
** * * * *
15806268 TACTTCAATTTCAGAGATAAAGACATGTTATCCACT
1 TACTTCAATTTCA-AGAGGATGAC---CT-TGCTCT
*
15806304 CTACTTCAATTTCAAGAGGATGACGTTGCTCT
1 -TACTTCAATTTCAAGAGGATGACCTTGCTCT
15806336 TACTTCAATTTC-AGA-GATGA
1 TACTTCAATTTCAAGAGGATGA
15806356 AGACGTGTTA
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
29 5 0.07
30 3 0.04
31 25 0.36
32 10 0.14
33 1 0.01
35 1 0.01
36 11 0.16
37 13 0.19
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.34
Consensus pattern (31 bp):
TACTTCAATTTCAAGAGGATGACCTTGCTCT
Found at i:15806325 original size:68 final size:67
Alignment explanation
Indices: 15806195--15806393 Score: 299
Period size: 68 Copynumber: 2.9 Consensus size: 67
15806185 ATGATGTTGT
* *
15806195 TCTTACTTCAATTTCAGAGATAACGACTCGTTTATCCAACTCTACTTCAATTTCAAGCGGATGAC
1 TCTTACTTCAATTTCAGAGATAAAGACT-G-TTATCC-ACTCTACTTCAATTTCAAGAGGATGAC
15806260 CTTGC
63 CTTGC
*
15806265 TCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAGGATGACGT
1 TCTTACTTCAATTTCAGAGATAAAGAC-TGTTATCCACTCTACTTCAATTTCAAGAGGATGACCT
15806330 TGC
65 TGC
* *
15806333 TCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCAGCTTTACTTCAATTTCAAGAGGAT
1 TCTTACTTCAATTTCAGAGATAAAGAC-TGTTATCCA-CTCTACTTCAATTTCAAGAGGAT
15806394 AAGAAAAGAT
Statistics
Matches: 121, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 65 0.54
69 28 0.23
70 27 0.22
71 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (67 bp):
TCTTACTTCAATTTCAGAGATAAAGACTGTTATCCACTCTACTTCAATTTCAAGAGGATGACCTT
GC
Found at i:15818721 original size:59 final size:59
Alignment explanation
Indices: 15818474--15818901 Score: 505
Period size: 59 Copynumber: 7.3 Consensus size: 59
15818464 TTGGATACCC
* * ** * *
15818474 AGGGGCAAAATGGTAA--TTTGGTAAAATTAAGGTTAAAAATGGAATTTTG--AGGCTT
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGAAAAGTTT
* ** * *
15818529 CGAGGGTAAAATGGTAATTTTTGAAGAAATTGAGGTTAAAAATGGAATTTTGAAAAGTTC
1 AG-GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGAAAAGTTT
*
15818589 AGGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTT-AAAATGGAATTTT-AGAAAG-TT
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGA-AAAGTTT
* * * *
15818645 CGAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAAT-AAAATTTCAAAAGGTTT
1 AG-GGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGAAAA-GTTT
* * *
15818705 AGGGGTAAAATAGTAATTTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTT
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGAAAAGTTT
* * * *
15818764 GGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTT
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGAAAAGTTT
* * * *
15818823 GGGGGTAAAATGGTACTTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTC
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGAAAAGTTT
*
15818882 GGGGGTAAAATGGTAATTTT
1 AGGGGTAAAATGGTAATTTT
15818902 GGAAGTTTCG
Statistics
Matches: 324, Mismatches: 36, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
55 1 0.00
56 16 0.05
57 31 0.10
58 70 0.22
59 191 0.59
60 15 0.05
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.32
Consensus pattern (59 bp):
AGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGAAAAGTTT
Found at i:15818786 original size:118 final size:118
Alignment explanation
Indices: 15818474--15818901 Score: 573
Period size: 118 Copynumber: 3.7 Consensus size: 118
15818464 TTGGATACCC
* * ** *
15818474 AGGGGCAAAATGGTAA--TTTGGTAAAATTAAGGTTAAAAATGGAATTTT-G-AGGCTTCGAGGG
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAG-TTCGAGGG
** * *
15818535 TAAAATGGTAATTTTTGAAGAAATTGAGGTTAAAAATGGAATTTTGAAAAGTTC
65 TAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGAAAAGTTT
* *
15818589 AGGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTT-AAAATGGAATTTTAGAAAGTTCGAGGGT
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
* * *
15818652 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAAT-AAAATTTCAAAAGGTTT
66 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGAAAA-GTTT
* * * *
15818705 AGGGGTAAAATAGTAATTTTTGATGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGT
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
* * *
15818770 AAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTT
66 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGAAAAGTTT
* * *
15818823 GGGGGTAAAATGGTACTTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT
1 AGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
15818888 AAAATGGTAATTTT
66 AAAATGGTAATTTT
15818902 GGAAGTTTCG
Statistics
Matches: 276, Mismatches: 30, Indels: 11
0.87 0.09 0.03
Matches are distributed among these distances:
115 37 0.13
116 75 0.27
117 19 0.07
118 137 0.50
119 8 0.03
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.32
Consensus pattern (118 bp):
AGGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGAAAAGTTT
Found at i:15818890 original size:29 final size:28
Alignment explanation
Indices: 15818567--15818914 Score: 187
Period size: 29 Copynumber: 11.9 Consensus size: 28
15818557 ATTGAGGTTA
* *
15818567 AAAATGGAATTTTGAAAAGTTCAGGGGT
1 AAAATGGAATTTTGGAAAGTTCGGGGGT
*
15818595 AAAATGGTAATTTTGGTGAAA--TCGGGGTT
1 AAAATGG-AATTTT-G-GAAAGTTCGGGGGT
* *
15818624 AAAATGGAATTTTAGAAAGTTCGAGGGT
1 AAAATGGAATTTTGGAAAGTTCGGGGGT
* *
15818652 AAAATGGTAATTTTTGGTGAAA--TCGAGGTT
1 AAAATGG-AA-TTTT-G-GAAAGTTCGGGGGT
* * ** **
15818682 AAAAAT-AAAATTTCAAAAGGTTTAGGGGT
1 -AAAATGGAATTTTGGAAA-GTTCGGGGGT
* * *
15818711 AAAATAGTAATTTTTGATGAAA--TCGAGGTT
1 AAAAT-GGAA-TTTTG--GAAAGTTCGGGGGT
*
15818741 AAAAATGGAATTTTGGAAAGTTTGGGGGT
1 -AAAATGGAATTTTGGAAAGTTCGGGGGT
* *
15818770 AAAATGGTAATTTTTGGTAAA-ATCGGGGTT
1 AAAATGG-AA-TTTTGG-AAAGTTCGGGGGT
*
15818800 AAAAATGGAATTTTGGAAAGTTTGGGGGT
1 -AAAATGGAATTTTGGAAAGTTCGGGGGT
* * *
15818829 AAAATGGTACTTTTTGGTGAAA--TCGAGGTT
1 AAAATGG-A-ATTTT-G-GAAAGTTCGGGGGT
15818859 AAAAATGGAATTTTGGAAAGTTCGGGGGT
1 -AAAATGGAATTTTGGAAAGTTCGGGGGT
15818888 AAAATGGTAATTTTGG-AAGTTTCGGGG
1 AAAATGG-AATTTTGGAAAG-TTCGGGG
15818915 ACCTATAAAC
Statistics
Matches: 244, Mismatches: 41, Indels: 69
0.69 0.12 0.19
Matches are distributed among these distances:
26 7 0.03
27 8 0.03
28 62 0.25
29 77 0.32
30 45 0.18
31 34 0.14
32 8 0.03
33 3 0.01
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (28 bp):
AAAATGGAATTTTGGAAAGTTCGGGGGT
Found at i:15819218 original size:161 final size:162
Alignment explanation
Indices: 15818992--15819306 Score: 515
Period size: 161 Copynumber: 2.0 Consensus size: 162
15818982 GATTAAATTG
* *
15818992 TAAATCTTGAAAAATTCTTGGGCAAATTTTATAATTAAATAAAAGTTGATTTAGGGATTAAATTA
1 TAAACCTTGAAAAATTCTCGGGCAAATTTTATAATTAAATAAAAGTTGATTTAGGGATTAAATTA
**
15819057 AAGTAAATTAAAAATGTCAGGGAATAAATGCATAAATAAGCCAAAAAGTGACACGTGACAGCCCC
66 AAACAAATTAAAAATGTCAGGGAATAAATGCATAAATAAGCCAAAAAGTGACACGTGACAGCCCC
*
15819122 TGGTGCAGTCAAACAGTTAAAGGACTGATTTA
131 TGGTGCAGTCAAACAGTCAAAGGACTGATTTA
* *
15819154 TAAACCTTGAAAAATTCTCGGGCCAATTTTGTAATTAAATAAAAGTTGA-TTAGGGATTAAATTA
1 TAAACCTTGAAAAATTCTCGGGCAAATTTTATAATTAAATAAAAGTTGATTTAGGGATTAAATTA
* * * * *
15819218 AAACAAATTAAAAATGTCAGGGACTACATGCATAAATAAGCCAAAAATTGACACGTGGCAGCCTC
66 AAACAAATTAAAAATGTCAGGGAATAAATGCATAAATAAGCCAAAAAGTGACACGTGACAGCCCC
15819283 TGGTGCAGTCAAACAGTCAAAGGA
131 TGGTGCAGTCAAACAGTCAAAGGA
15819307 TTAATTTGAA
Statistics
Matches: 141, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
161 96 0.68
162 45 0.32
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.26
Consensus pattern (162 bp):
TAAACCTTGAAAAATTCTCGGGCAAATTTTATAATTAAATAAAAGTTGATTTAGGGATTAAATTA
AAACAAATTAAAAATGTCAGGGAATAAATGCATAAATAAGCCAAAAAGTGACACGTGACAGCCCC
TGGTGCAGTCAAACAGTCAAAGGACTGATTTA
Found at i:15820887 original size:6 final size:6
Alignment explanation
Indices: 15820847--15820912 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
15820837 ACAAATAATA
*
15820847 TTAAATT TTAAA- TTAAAT TCT-AAC TTAAA- TTAAAT TTAAA- -TAAAT
1 TTAAA-T TTAAAT TTAAAT T-TAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
15820892 TTAAAT TTAAA- ATAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAA
15820913 TTTCAAAGTA
Statistics
Matches: 49, Mismatches: 3, Indels: 15
0.73 0.04 0.22
Matches are distributed among these distances:
4 4 0.08
5 15 0.31
6 24 0.49
7 6 0.12
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:15820906 original size:17 final size:17
Alignment explanation
Indices: 15820828--15820931 Score: 73
Period size: 17 Copynumber: 6.4 Consensus size: 17
15820818 TATTGGACAT
15820828 TTTAAATTTACAAAT-AA
1 TTTAAATTTA-AAATAAA
15820845 TATTAAATTT----TAAA
1 T-TTAAATTTAAAATAAA
**
15820859 -TTAAATTCTAACTTAAA
1 TTTAAATT-TAAAATAAA
15820876 -TTAAATTT-AAATAAA
1 TTTAAATTTAAAATAAA
15820891 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
15820908 TTT-AATTTCAAAGTAAA
1 TTTAAATTT-AAAATAAA
15820925 TTCTAAA
1 TT-TAAA
15820932 ATGGTTTAGG
Statistics
Matches: 72, Mismatches: 3, Indels: 22
0.74 0.03 0.23
Matches are distributed among these distances:
12 7 0.10
13 2 0.03
14 2 0.03
15 5 0.07
16 14 0.19
17 31 0.43
18 9 0.12
19 2 0.03
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:15822028 original size:31 final size:30
Alignment explanation
Indices: 15821971--15822028 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
15821961 TCAGTCAAGT
15821971 TATTTTCAAAAAAAAAAAAATCAATATAAA
1 TATTTTCAAAAAAAAAAAAATCAATATAAA
*
15822001 TATTTTTAAAAAAATTAAAAAAT-AATAT
1 TATTTTCAAAAAAA--AAAAAATCAATAT
15822029 GGGAATATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 13 0.52
31 5 0.20
32 7 0.28
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (30 bp):
TATTTTCAAAAAAAAAAAAATCAATATAAA
Found at i:15825034 original size:12 final size:12
Alignment explanation
Indices: 15824991--15825038 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
15824981 ATTTCATAAC
15824991 ACTTTTATAATT
1 ACTTTTATAATT
* *
15825003 ATTTATTAATAATA
1 ACTT-TT-ATAATT
*
15825017 ATTTTTATAATT
1 ACTTTTATAATT
15825029 ACTTTTATAA
1 ACTTTTATAA
15825039 ATTTGAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 17 0.57
13 4 0.13
14 9 0.30
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (12 bp):
ACTTTTATAATT
Found at i:15825056 original size:16 final size:16
Alignment explanation
Indices: 15825035--15825081 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
15825025 AATTACTTTT
15825035 ATAAATTTGAAATTAG
1 ATAAATTTGAAATTAG
**
15825051 ATAAATTT-AATATTCT
1 ATAAATTTGAA-ATTAG
15825067 ATAAATTTGAAATTA
1 ATAAATTTGAAATTA
15825082 TTTATATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 2 0.08
16 22 0.85
17 2 0.08
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (16 bp):
ATAAATTTGAAATTAG
Done.