Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 82 of 182
Found at i:24777470 original size:23 final size:22
Alignment explanation
Indices: 24777443--24777491 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
24777433 CTAAGAAATT
24777443 TTTAAGTGTGAATA-ATATGAGAA
1 TTTAAGTG-GAATACATA-GAGAA
* *
24777466 TTTAATTGGTATACATAGAGAA
1 TTTAAGTGGAATACATAGAGAA
24777488 TTTA
1 TTTA
24777492 TTTACAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (22 bp):
TTTAAGTGGAATACATAGAGAA
Found at i:24779539 original size:28 final size:27
Alignment explanation
Indices: 24779490--24779591 Score: 111
Period size: 27 Copynumber: 3.8 Consensus size: 27
24779480 ATTTCTTCAT
*
24779490 TTGCCACAAGGGCTTTCC-TTTCCTTAGA
1 TTGCCACAAAGGC-TTCCATTT-CTTAGA
*
24779518 TTGCCACAAAGGCTTCCATTTCATAGA
1 TTGCCACAAAGGCTTCCATTTCTTAGA
*
24779545 CTT-CCACAGAGGCTTCCATTT-TTAGA
1 -TTGCCACAAAGGCTTCCATTTCTTAGA
* *
24779571 TTTCTACAAAGGCTTCCATTT
1 TTGCCACAAAGGCTTCCATTT
24779592 TCTCGTGAGT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.03
26 20 0.31
27 26 0.40
28 17 0.26
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (27 bp):
TTGCCACAAAGGCTTCCATTTCTTAGA
Found at i:24779583 original size:26 final size:26
Alignment explanation
Indices: 24779513--24779592 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 26
24779503 TTTCCTTTCC
*
24779513 TTAGATTGCCACAAAGGCTTCCATTT
1 TTAGATTTCCACAAAGGCTTCCATTT
* * *
24779539 CATAGACTTCCACAGAGGCTTCCATTT
1 -TTAGATTTCCACAAAGGCTTCCATTT
*
24779566 TTAGATTTCTACAAAGGCTTCCATTT
1 TTAGATTTCCACAAAGGCTTCCATTT
24779592 T
1 T
24779593 CTCGTGAGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 23 0.51
27 22 0.49
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (26 bp):
TTAGATTTCCACAAAGGCTTCCATTT
Found at i:24781149 original size:30 final size:30
Alignment explanation
Indices: 24781115--24781173 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
24781105 ACCGTAACAC
*
24781115 TTTGTTTAGCCTTTCGAATTCCTTAACAAT
1 TTTGTTAAGCCTTTCGAATTCCTTAACAAT
*
24781145 TTTGTTAAGCCTTTTGAATTCCTTAACAA
1 TTTGTTAAGCCTTTCGAATTCCTTAACAA
24781174 ATTTCTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.46
Consensus pattern (30 bp):
TTTGTTAAGCCTTTCGAATTCCTTAACAAT
Found at i:24783965 original size:27 final size:28
Alignment explanation
Indices: 24783933--24784002 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
24783923 CTTTTGTGTG
* *
24783933 TGCCACAAAGGCATT-CTTTTCTTCA-TT
1 TGCCACAAAGGCATTCCTTTCCTT-AGAT
* * *
24783960 TTCCACAAGGGCTTTCCTTTCCTTAGAT
1 TGCCACAAAGGCATTCCTTTCCTTAGAT
24783988 TGCCACAAAGGCATT
1 TGCCACAAAGGCATT
24784003 TATTTAATAG
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
27 13 0.39
28 20 0.61
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (28 bp):
TGCCACAAAGGCATTCCTTTCCTTAGAT
Found at i:24784034 original size:27 final size:27
Alignment explanation
Indices: 24783983--24784034 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
24783973 TTCCTTTCCT
* *
24783983 TAGATTGCCACAAAGGCATTTATTTAA
1 TAGATTGCCAAAAAGGCATTCATTTAA
24784010 TAGATTGCCAAAAAGGC-TTCCATTT
1 TAGATTGCCAAAAAGGCATT-CATTT
24784035 TCTAGCATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (27 bp):
TAGATTGCCAAAAAGGCATTCATTTAA
Found at i:24791798 original size:21 final size:21
Alignment explanation
Indices: 24791759--24791798 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24791749 TTTTAACCCA
*
24791759 TAATTATTTTTATACAATTTT
1 TAATTATTTTTATAAAATTTT
24791780 TAATTATTTTTCA-AAAATT
1 TAATTATTTTT-ATAAAATT
24791799 AGGATAGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATTATTTTTATAAAATTTT
Found at i:24792182 original size:21 final size:21
Alignment explanation
Indices: 24792156--24792202 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
24792146 GTCAAAATCC
*
24792156 TAAAACGA-AAATACTTACCCA
1 TAAAACGATAAACACTTA-CCA
*
24792177 TAAAACGATGAACACTTACCA
1 TAAAACGATAAACACTTACCA
24792198 TAAAA
1 TAAAA
24792203 ACTTCAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.53, C:0.21, G:0.06, T:0.19
Consensus pattern (21 bp):
TAAAACGATAAACACTTACCA
Found at i:24792734 original size:19 final size:19
Alignment explanation
Indices: 24792710--24792753 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
24792700 TATTTATTTT
*
24792710 TTTAATTAGAATCGAAAAG
1 TTTAATTAGAATAGAAAAG
24792729 TTTAATTAGAATAGAAAAG
1 TTTAATTAGAATAGAAAAG
*
24792748 TATAAT
1 TTTAAT
24792754 AAAAGTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.34
Consensus pattern (19 bp):
TTTAATTAGAATAGAAAAG
Found at i:24795360 original size:21 final size:21
Alignment explanation
Indices: 24795336--24795377 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
24795326 AAATTTAGTA
24795336 TTAAAGTTCCGATAATTAATT
1 TTAAAGTTCCGATAATTAATT
24795357 TTAAAGTTCCGATAATTAATT
1 TTAAAGTTCCGATAATTAATT
24795378 GAACAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (21 bp):
TTAAAGTTCCGATAATTAATT
Found at i:24797484 original size:36 final size:36
Alignment explanation
Indices: 24797443--24797633 Score: 256
Period size: 36 Copynumber: 5.0 Consensus size: 36
24797433 GGTAGCTTTA
24797443 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
24797479 GCTACACTTATCTGATCAAGAGACAAAGTGATAACTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
24797524 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
24797561 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
24797597 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
24797633 G
1 G
24797634 GTAGCCTTAG
Statistics
Matches: 138, Mismatches: 7, Indels: 20
0.84 0.04 0.12
Matches are distributed among these distances:
36 100 0.72
37 2 0.01
40 2 0.01
42 2 0.01
45 2 0.01
46 30 0.22
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:24797546 original size:82 final size:81
Alignment explanation
Indices: 24797409--24797722 Score: 353
Period size: 82 Copynumber: 3.9 Consensus size: 81
24797399 TGAGTACTTT
*
24797409 TGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
1 TGATCAAGAGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
24797474 TAAGTGCTACACTTATC
65 TAAGTGCTACACTTATC
*
24797491 TGATCAAGAGACAAAGTGATAACTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
1 TGATCAAGAGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
*
24797556 TAAGTGCTATACTTATC
65 TAAGTGCTACACTTATC
* * *
24797573 TGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTATCTGATCAAGTGAGAAAGTGAT
1 TGATCAAGAGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGAT
24797629 AAGTGGTAGCCTTAGCTACACTTATC
66 -A-----AG---T-GCTACACTTATC
* * * *
24797655 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AG-GGACAAGTGAT
1 TGATCAAGAGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGAT
24797718 AAGTG
66 AAGTG
24797723 ATCATACGTA
Statistics
Matches: 202, Mismatches: 11, Indels: 41
0.80 0.04 0.16
Matches are distributed among these distances:
72 31 0.15
73 2 0.01
76 2 0.01
78 2 0.01
79 1 0.00
80 1 0.00
81 2 0.01
82 127 0.63
83 3 0.01
88 3 0.01
89 8 0.04
90 3 0.01
91 17 0.08
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (81 bp):
TGATCAAGAGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGAT
AAGTGCTACACTTATC
Found at i:24797656 original size:118 final size:118
Alignment explanation
Indices: 24797443--24797679 Score: 420
Period size: 118 Copynumber: 2.0 Consensus size: 118
24797433 GGTAGCTTTA
24797443 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
*
24797508 GATAACTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
66 GATAACTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
24797561 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGTGAGAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
* *
24797626 GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
66 GATAACTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
24797679 G
1 G
24797680 GTAGCCTAGC
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 113 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (118 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
GATAACTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:24797705 original size:45 final size:46
Alignment explanation
Indices: 24797597--24797722 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
24797587 AGTGATAAGT
*
24797597 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTA
24797643 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCC-TA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTA
*
24797688 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
24797723 ATCATACGTA
Statistics
Matches: 78, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
43 12 0.15
44 5 0.06
45 19 0.24
46 42 0.54
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTA
Found at i:24801471 original size:38 final size:38
Alignment explanation
Indices: 24801416--24801492 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
24801406 ATTTTTAACG
*
24801416 TTAATTCTGTCCTATTATTTGCCCTAATTAACATAAAA
1 TTAATTCTGTCCGATTATTTGCCCTAATTAACATAAAA
* *
24801454 TTAATTCTGTCCGATTATTTTCCCTAATTGACATAAAA
1 TTAATTCTGTCCGATTATTTGCCCTAATTAACATAAAA
24801492 T
1 T
24801493 CCACCCTCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.43
Consensus pattern (38 bp):
TTAATTCTGTCCGATTATTTGCCCTAATTAACATAAAA
Found at i:24809252 original size:23 final size:23
Alignment explanation
Indices: 24809215--24809290 Score: 93
Period size: 23 Copynumber: 3.4 Consensus size: 23
24809205 GACACACGGG
* *
24809215 GTGCCTG--ATACGACATACAAA
1 GTGCCTGATATACGACACATAAA
*
24809236 GTGCTTGATATACGACACATAAA
1 GTGCCTGATATACGACACATAAA
* *
24809259 GTGCCTGATGTACGTCACATAAA
1 GTGCCTGATATACGACACATAAA
24809282 GTGCCTGAT
1 GTGCCTGAT
24809291 CGACAAGGCC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 6 0.13
23 41 0.87
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (23 bp):
GTGCCTGATATACGACACATAAA
Found at i:24809550 original size:36 final size:38
Alignment explanation
Indices: 24809490--24809578 Score: 96
Period size: 36 Copynumber: 2.4 Consensus size: 38
24809480 CTTTTCAAAT
* * *
24809490 TCACATTTCAAATC-AATTTCACTTTTTCACTTTCAA-
1 TCACAATTCAATTCAAATTTCACTTTTCCACTTTCAAG
*
24809526 TCACAATTCAATTCAAATTT-ACTTTTCCATTTTCAAG
1 TCACAATTCAATTCAAATTTCACTTTTCCACTTTCAAG
*
24809563 TCA-ATATTCATTTCAA
1 TCACA-ATTCAATTCAA
24809579 TTCCACACAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
36 27 0.60
37 18 0.40
ACGTcount: A:0.33, C:0.22, G:0.01, T:0.44
Consensus pattern (38 bp):
TCACAATTCAATTCAAATTTCACTTTTCCACTTTCAAG
Found at i:24810536 original size:17 final size:16
Alignment explanation
Indices: 24810516--24810571 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 16
24810506 TGTCTTTATT
*
24810516 TAATTTATTTCTTAATA
1 TAATTTATTT-ATAATA
24810533 TAA--TATTTATAATA
1 TAATTTATTTATAATA
*
24810547 TAATTAATTTGATAATA
1 TAATTTATTT-ATAATA
*
24810564 TACTTTAT
1 TAATTTAT
24810572 AATTAGTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
14 8 0.25
15 5 0.16
16 4 0.12
17 15 0.47
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (16 bp):
TAATTTATTTATAATA
Found at i:24810547 original size:14 final size:17
Alignment explanation
Indices: 24810528--24810565 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
24810518 ATTTATTTCT
24810528 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTGA
24810542 TAATATAATTAATTTGA
1 TAATATAATTAATTTGA
24810559 TAATATA
1 TAATATA
24810566 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTGA
Found at i:24822119 original size:38 final size:37
Alignment explanation
Indices: 24822046--24822121 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
24822036 TTAAGTTGAA
* *
24822046 TACATGTCGTCATGTTGTGACACGTATATCGCCTCGT
1 TACACGTCGCCATGTTGTGACACGTATATCGCCTCGT
* *
24822083 TACACGTCGCCATGTTGTGACATGGTATATTGCCTCGT
1 TACACGTCGCCATGTTGTGACA-CGTATATCGCCTCGT
24822121 T
1 T
24822122 GGGACGTCGT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
37 20 0.59
38 14 0.41
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (37 bp):
TACACGTCGCCATGTTGTGACACGTATATCGCCTCGT
Found at i:24823605 original size:23 final size:23
Alignment explanation
Indices: 24823578--24823622 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
24823568 TTACTCGATG
*
24823578 TTATATTATAAATATAATTTAAT
1 TTATAGTATAAATATAATTTAAT
*
24823601 TTATAGTATTAATATAATTTAA
1 TTATAGTATAAATATAATTTAA
24823623 AATAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TTATAGTATAAATATAATTTAAT
Found at i:24828630 original size:478 final size:478
Alignment explanation
Indices: 24827734--24828692 Score: 1841
Period size: 478 Copynumber: 2.0 Consensus size: 478
24827724 TGTATTTTTG
24827734 CATGGAGAACTTGAGGAGGAATATTTACATACAACAACCAGAGGGTTTTACAGTCTCAGAAAAAG
1 CATGGAGAACTTGAGGAGGAATATTTACATACAACAACCAGAGGGTTTTACAGTCTCAGAAAAAG
24827799 AGGATTATGTTTGTTTGCTGAAAAAGTCCCTTTACGGTTGGAAACAGTCAACAAGACAGTGGTAC
66 AGGATTATGTTTGTTTGCTGAAAAAGTCCCTTTACGGTTGGAAACAGTCAACAAGACAGTGGTAC
24827864 AAGAGGTTTGATTCCTTTATGACTTCTCATAGTTTTAAAAGAAGTAGTTTAGACAGTTGTGTTTA
131 AAGAGGTTTGATTCCTTTATGACTTCTCATAGTTTTAAAAGAAGTAGTTTAGACAGTTGTGTTTA
* *
24827929 CTTTAAGAAAAACAGTGATGGTTCTTTTGTGTATCTACTTCTTTATGTTGATGACATGTTGATAG
196 CTTTAAGAAAAACAATGATGGTTCTTTTGTGTATCTACTCCTTTATGTTGATGACATGTTGATAG
**
24827994 CAGCAAAAGATAAAGGAGAGATAAGAAAGGTCAAAGCCCAACTAAGTGAAGAATTTGAGATGAAA
261 CAAAAAAAGATAAAGGAGAGATAAGAAAGGTCAAAGCCCAACTAAGTGAAGAATTTGAGATGAAA
24828059 GATTTGGGACCAGCAAAGAAGATACTTGGTATTGAGATTCTTAGAGATAGAAAAGCAAGTAAATT
326 GATTTGGGACCAGCAAAGAAGATACTTGGTATTGAGATTCTTAGAGATAGAAAAGCAAGTAAATT
24828124 GTACCTAAGTCAGAAGGGGTACATTGAGAAAGTTCTTTGCAGATTCAATATGCAGAATGCTAAGC
391 GTACCTAAGTCAGAAGGGGTACATTGAGAAAGTTCTTTGCAGATTCAATATGCAGAATGCTAAGC
24828189 CTGTTAGTACTCTTTTAACAGCT
456 CTGTTAGTACTCTTTTAACAGCT
24828212 CATGGAGAACTTGAGGAGGAATATTTACATACAACAACCAGAGGGTTTTACAGTCTCAGAAAAAG
1 CATGGAGAACTTGAGGAGGAATATTTACATACAACAACCAGAGGGTTTTACAGTCTCAGAAAAAG
24828277 AGGATTATGTTTGTTTGCTGAAAAAGTCCCTTTACGGTTGGAAACAGTCAACAAGACAGTGGTAC
66 AGGATTATGTTTGTTTGCTGAAAAAGTCCCTTTACGGTTGGAAACAGTCAACAAGACAGTGGTAC
*
24828342 AAGAGGTTTGATTCCTTTATGACTTCTCATAGTTTTAAAAGATA-TAGCTTT-GACAGTTTTGTT
131 AAGAGGTTTGATTCCTTTATGACTTCTCATAGTTTTAAAAGA-AGTAG-TTTAGACAGTTGTGTT
24828405 TACTTTAAGAAAAACAATGATGGTTCTTTTGTGTATCTACTCCTTTATGTTGATGACATGTTGAT
194 TACTTTAAGAAAAACAATGATGGTTCTTTTGTGTATCTACTCCTTTATGTTGATGACATGTTGAT
24828470 AGCAAAAAAAGATAAAGGAGAGATAAGAAAGGTCAAAGCCCAACTAAGTGAAGAATTTGAGATGA
259 AGCAAAAAAAGATAAAGGAGAGATAAGAAAGGTCAAAGCCCAACTAAGTGAAGAATTTGAGATGA
24828535 AAGATTTGGGACCAGCAAAGAAGATACTTGGTATTGAGATTCTTAGAGATAGAAAAGCAAGTAAA
324 AAGATTTGGGACCAGCAAAGAAGATACTTGGTATTGAGATTCTTAGAGATAGAAAAGCAAGTAAA
24828600 TTGTACCTAAGTCAGAAGGGGTACATTGAGAAAGTTCTTTGCAGATTCAATATGCAGAATGCTAA
389 TTGTACCTAAGTCAGAAGGGGTACATTGAGAAAGTTCTTTGCAGATTCAATATGCAGAATGCTAA
24828665 GCCTGTTAGTACTCTTTTAACAGCT
454 GCCTGTTAGTACTCTTTTAACAGCT
24828690 CAT
1 CAT
24828693 TTCAGACTTT
Statistics
Matches: 474, Mismatches: 5, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
478 470 0.99
479 4 0.01
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (478 bp):
CATGGAGAACTTGAGGAGGAATATTTACATACAACAACCAGAGGGTTTTACAGTCTCAGAAAAAG
AGGATTATGTTTGTTTGCTGAAAAAGTCCCTTTACGGTTGGAAACAGTCAACAAGACAGTGGTAC
AAGAGGTTTGATTCCTTTATGACTTCTCATAGTTTTAAAAGAAGTAGTTTAGACAGTTGTGTTTA
CTTTAAGAAAAACAATGATGGTTCTTTTGTGTATCTACTCCTTTATGTTGATGACATGTTGATAG
CAAAAAAAGATAAAGGAGAGATAAGAAAGGTCAAAGCCCAACTAAGTGAAGAATTTGAGATGAAA
GATTTGGGACCAGCAAAGAAGATACTTGGTATTGAGATTCTTAGAGATAGAAAAGCAAGTAAATT
GTACCTAAGTCAGAAGGGGTACATTGAGAAAGTTCTTTGCAGATTCAATATGCAGAATGCTAAGC
CTGTTAGTACTCTTTTAACAGCT
Found at i:24831176 original size:68 final size:68
Alignment explanation
Indices: 24831067--24831203 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 68
24831057 AATTACTATA
* *
24831067 TGCACAACAATATGATTAGGAATTAAACTAGTTAATCGAGACCAGCCCCAACATCCATTAACATT
1 TGCACAACAATATGATTAGGAATTAAACCAGTTAATCGAGACCAGACCCAACATCCATTAACATT
24831132 AAC
66 AAC
24831135 TGCACAACAATATGATTAGGAATTAAACCAGTTAATCGAGACCAGACCCAACATCCATTAACATT
1 TGCACAACAATATGATTAGGAATTAAACCAGTTAATCGAGACCAGACCCAACATCCATTAACATT
24831200 AAC
66 AAC
24831203 T
1 T
24831204 AAATGAGTGT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (68 bp):
TGCACAACAATATGATTAGGAATTAAACCAGTTAATCGAGACCAGACCCAACATCCATTAACATT
AAC
Found at i:24835473 original size:28 final size:28
Alignment explanation
Indices: 24835440--24835493 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
24835430 CTCTACAAAG
24835440 TTTTGTGTCTTTATCATAAAAACAATAA
1 TTTTGTGTCTTTATCATAAAAACAATAA
24835468 TTTTGTGTCTTTATCATAAAAACAAT
1 TTTTGTGTCTTTATCATAAAAACAAT
24835494 CTAAAGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (28 bp):
TTTTGTGTCTTTATCATAAAAACAATAA
Found at i:24836892 original size:27 final size:27
Alignment explanation
Indices: 24836862--24836934 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
24836852 ATAGGTGGTG
*
24836862 CCTATCTGGTAGGCGCCACCGGTGACT
1 CCTATCTGATAGGCGCCACCGGTGACT
* * *
24836889 CCTATCTAATAGTCGCCACTGGTGACT
1 CCTATCTGATAGGCGCCACCGGTGACT
24836916 CCTA-CTTGATAGGCGCCAC
1 CCTATC-TGATAGGCGCCAC
24836935 TAGTGCTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.03
27 38 0.97
ACGTcount: A:0.19, C:0.33, G:0.23, T:0.25
Consensus pattern (27 bp):
CCTATCTGATAGGCGCCACCGGTGACT
Found at i:24838946 original size:62 final size:62
Alignment explanation
Indices: 24838878--24839038 Score: 205
Period size: 62 Copynumber: 2.6 Consensus size: 62
24838868 CCGTGTGATT
* * **
24838878 TTATACCACAAATAATGAGTTACACGACCAAGGCACACGCCTGTGTACCTAGCCATGTGGTC
1 TTATACCACAAATAGTGAGTTACACGGCCAAGGCACACGCCCATGTACCTAGCCATGTGGTC
* * * * * * *
24838940 TTATACCATAAACAGTGAGTTATACGGCCAAAGCACACGCCCATGTCCCTGGCCGTGTGGTC
1 TTATACCACAAATAGTGAGTTACACGGCCAAGGCACACGCCCATGTACCTAGCCATGTGGTC
* *
24839002 TTATACCACAAGTAGTGAGTTACACGGCCATGGCACA
1 TTATACCACAAATAGTGAGTTACACGGCCAAGGCACA
24839039 TGTTCGTGTG
Statistics
Matches: 82, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
62 82 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (62 bp):
TTATACCACAAATAGTGAGTTACACGGCCAAGGCACACGCCCATGTACCTAGCCATGTGGTC
Found at i:24840717 original size:45 final size:44
Alignment explanation
Indices: 24840567--24840774 Score: 179
Period size: 45 Copynumber: 4.7 Consensus size: 44
24840557 ATTTGTTCTG
* *
24840567 CTGTAACTTCAGGGAGATAAAATTAG-TAGCTTCAATCTACTCCA
1 CTGTAACTTCAGGGAGATAAGATT-GCTATCTTCAATCTACTCCA
* * * * **
24840611 CTGCAACTTCAGGGAAATAAAATT--TATCGCTTTAATCTACTTTA
1 CTGTAACTTCAGGGAGATAAGATTGCTAT--CTTCAATCTACTCCA
* ** *
24840655 CTGTAATTTCAAAGAGATAAGATCTGCTATCTTCAATCTGCTCCA
1 CTGTAACTTCAGGGAGATAAGAT-TGCTATCTTCAATCTACTCCA
* *
24840700 CTGTAACTTCAGGGAGATAAGATTTACTGTCTTCAATCTACTCCA
1 CTGTAACTTCAGGGAGATAAGA-TTGCTATCTTCAATCTACTCCA
* * * *
24840745 CTGCAACTTCAGAGTGATGAGATTTGCTAT
1 CTGTAACTTCAGGGAGATAAGA-TTGCTAT
24840775 GGTAGAATTA
Statistics
Matches: 130, Mismatches: 28, Indels: 11
0.77 0.17 0.07
Matches are distributed among these distances:
42 2 0.02
44 51 0.39
45 73 0.56
46 1 0.01
47 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (44 bp):
CTGTAACTTCAGGGAGATAAGATTGCTATCTTCAATCTACTCCA
Found at i:24840940 original size:95 final size:95
Alignment explanation
Indices: 24840815--24841484 Score: 891
Period size: 95 Copynumber: 7.1 Consensus size: 95
24840805 AGAGGTATAG
* * *
24840815 GATTTGTGACTTATAA-CTTTAATCTATTCCACTGCAATTTCAGGGAAATAAGATTCGCATCTTC
1 GATTTGTGGCTT-TAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTC
* *
24840879 AATCTGTTTCATTGCAACTTCAAGGAGATAA
65 AATCTGCTCCATTGCAACTTCAAGGAGATAA
* * *
24840910 AATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGTATCTTTA
1 GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCA
* * *
24840975 ATCTGTTTCATTTCAACTTCAAGGAGATAA
66 ATCTGCTCCATTGCAACTTCAAGGAGATAA
* *
24841005 GATTTGTGGCTTTAAGCTTTAATCTGTTTCACTGCAACTTCAGGGAAATAAGATTCGCATCATCA
1 GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCA
*
24841070 ATATGCTCCATTGCAACTTCAAGGAGATAA
66 ATCTGCTCCATTGCAACTTCAAGGAGATAA
* * * * * *
24841100 GATTTGTAGCTTTAAACTTTAATCTGTTCGACTGCAATTTCAGGGAAATAAGATTTGCATCTTTA
1 GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCA
*
24841165 ATCTACTCCATTGCAACTTCAAGGAGATAA
66 ATCTGCTCCATTGCAACTTCAAGGAGATAA
* * * *
24841195 GATTTGTAGCTTTAAGCTTTAATATGTTCCACTACAACTTCAGGGAAAT-AGTATTTGCATCTTC
1 GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAG-ATTCGCATCTTC
*
24841259 AATCTGCTCCATTTCAACTTCAAGGAGATAA
65 AATCTGCTCCATTGCAACTTCAAGGAGATAA
* * * *
24841290 G-GTTGTGGCTTTAAGCTTTAATCTGTTCCATTGCAACTTCAGGGAAATAATATTCGCGTCTTCA
1 GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCA
*
24841354 ATCTGCTCTATTGCAACTTCAAGGAGATAA
66 ATCTGCTCCATTGCAACTTCAAGGAGATAA
* * * * * *
24841384 GATTTGTAGCTTTAAGCTTTAATCTGTTCCACTACAACTTCAAGGAGATAAGACTT-GTAACTTC
1 GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTCGCATCTTC
* * * * *
24841448 AACCTGTTCCACTGTAACTT-TAGAGAGATAA
65 AATCTGCTCCATTGCAACTTCAAG-GAGATAA
24841479 GATTTG
1 GATTTG
24841485 CCATAGTGAC
Statistics
Matches: 509, Mismatches: 60, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
94 89 0.17
95 418 0.82
96 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (95 bp):
GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCA
ATCTGCTCCATTGCAACTTCAAGGAGATAA
Found at i:24840974 original size:51 final size:50
Alignment explanation
Indices: 24840879--24841442 Score: 391
Period size: 51 Copynumber: 11.8 Consensus size: 50
24840869 TCGCATCTTC
* * *
24840879 AATCTGTTTCATTGCAACTTCAAGGAGATAAAATTTGTGGCTTTAAGCTTT
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAA-CTTT
* * * *
24840930 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGTA----T--CTTT
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAACTTT
* * *
24840974 AATCTGTTTCATTTCAACTTCAAGGAGATAAGATTTGTGGCTTTAAGCTTT
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAA-CTTT
* * * * * * * *
24841025 AATCTGTTTCACTGCAACTTCAGGGAAATAAGA--T-TCGC---ATCATC
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAACTTT
* *
24841069 AATATGCTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAAACTTT
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTT-AACTTT
* * * * * *
24841120 AATCTGTTCGACTGCAATTTCAGGGAAATAAGA-TT-T-GC---ATCTTT
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAACTTT
**
24841164 AATCTACTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAAGCTTT
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAA-CTTT
* * * * * * *
24841215 AATATGTTCCACTACAACTTCAGGGAAAT-AG-TATT-T-GC---ATCTTC
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGAT-TTGTAGCTTTAACTTT
* * * *
24841259 AATCTGCTCCATTTCAACTTCAAGGAGATAAG-GTTGTGGCTTTAAGCTTT
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAA-CTTT
* * * * * *
24841309 AATCTGTTCCATTGCAACTTCAGGGAAAT-A-ATAT-TCGC-GT--CTTC
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAACTTT
* *
24841353 AATCTGCTCTATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAAGCTTT
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAA-CTTT
* * *
24841404 AATCTGTTCCACTACAACTTCAAGGAGATAAGACTTGTA
1 AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTA
24841443 ACTTCAACCT
Statistics
Matches: 388, Mismatches: 88, Indels: 74
0.71 0.16 0.13
Matches are distributed among these distances:
44 152 0.39
45 8 0.02
46 7 0.02
47 10 0.03
48 12 0.03
49 7 0.02
50 35 0.09
51 157 0.40
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (50 bp):
AATCTGTTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAACTTT
Found at i:24840992 original size:44 final size:44
Alignment explanation
Indices: 24840831--24841398 Score: 265
Period size: 44 Copynumber: 12.1 Consensus size: 44
24840821 TGACTTATAA
* * * * *
24840831 CTTTAATCTATTCCACTGCAATTTCAGGGAAATAAGATTCGCAT
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGTAT
* * * * * *
24840875 CTTCAATCTGTTTCATTGCAACTTCAAGGAGATAAAATTTGTGGCTTTAAG
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGA--T-T--C-GT-AT
* *
24840926 CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGTAT
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGTAT
* * * * *
24840970 CTTTAATCTGTTTCATTTCAACTTCAAGGAGATAAGATTTGTGGCTTTAAG
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGA--T-T--C-GT-AT
* * * *
24841021 CTTTAATCTGTTTCACTGCAACTTCAGGGAAATAAGATTCGCAT
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGTAT
* * * * * *
24841065 CATCAATATGCTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTT
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGTA----T
* * * * * *
24841113 AAACTTTAATCTGTTCGACTGCAATTTCAGGGAAATAAGATTTGCAT
1 ---CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGTAT
** * *
24841160 CTTTAATCTACTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTT
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGTA----T
* * * * * *
24841208 AAGCTTTAATATGTTCCACTACAACTTCAGGGAAAT-AGTATTTGCAT
1 ---CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAG-ATTCGTAT
* * * * * * *
24841255 CTTCAATCTGCTCCATTTCAACTTCAAGGAGATAAGGTTGTGGCTTTAAG
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAA-GAT-T--C-GT-AT
* * **
24841305 CTTTAATCTGTTCCATTGCAACTTCAGGGAAATAATATTCGCGT
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGTAT
* * * * * *
24841349 CTTCAATCTGCTCTATTGCAACTTCAAGGAGATAAGATTTGTAG
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGTAT
24841393 CTTTAA
1 CTTTAA
24841399 GCTTTAATCT
Statistics
Matches: 385, Mismatches: 103, Indels: 72
0.69 0.18 0.13
Matches are distributed among these distances:
44 196 0.51
45 3 0.01
46 7 0.02
47 4 0.01
48 5 0.01
49 5 0.01
50 34 0.09
51 131 0.34
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (44 bp):
CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGTAT
Found at i:24841516 original size:189 final size:185
Alignment explanation
Indices: 24840671--24841522 Score: 749
Period size: 190 Copynumber: 4.5 Consensus size: 185
24840661 TTTCAAAGAG
* *
24840671 ATAAGATCTGCTATCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTACT-GT--CTT
1 ATAAGAT-TGC-ATCTTCAATCTGCTCCA-TGTAACTTCAAGGAGATAAGATTTGCTAGTAACTT
* ** * ** * * * * *
24840733 CAATCTACTCCACTGCAACTTCAGAGTGATGAGATTTGCTATGGTAGAATTAATCCGAC-CTATA
63 TAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGC-AT-CT----TTAATCTG-CTCTATT
* * * * * * *
24840797 ACATCTTCAGAGG-TATAGGATTTGT-GACTTATAA-CTTTAATCTATTCCACTGCAATTTCAGG
121 GCAACTTCA-AGGAGATAAGATTTGTAG-CTT-TAAGCTTTAATCTGTTCCACTACAACTTCAGG
24840859 GAA
183 GAA
* * * * *
24840862 ATAAGATTCGCATCTTCAATCTGTTTCATTGCAACTTCAAGGAGATAAAATTTGTGGCT-TTAAG
1 ATAAGATT-GCATCTTCAATCTGCTCCA-TGTAACTTCAAGGAGATAAGA-TT-T-GCTAGTAA-
* * *
24840926 CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGTATCTTTAATCTG-TTTCATTTCA
60 CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTTAATCTGCTCT-ATTGCA
* * *
24840990 ACTTCAAGGAGATAAGATTTGTGGCTTTAAGCTTTAATCTGTTTCACTGCAACTTCAGGGAA
124 ACTTCAAGGAGATAAGATTTGTAGCTTTAAGCTTTAATCTGTTCCACTACAACTTCAGGGAA
* * *
24841052 ATAAGATTCGCATCATCAATATGCTCCATTGCAACTTCAAGGAGATAAGATTTG-TAGCTTTAAA
1 ATAAGATT-GCATCTTCAATCTGCTCCA-TGTAACTTCAAGGAGATAAGATTTGCTAG---T-AA
* * * * *
24841116 CTTTAATCTGTTCGACTGCAATTTCAGGGAAATAAGATTTGCATCTTTAATCTACTCCATTGCAA
60 CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTTAATCTGCTCTATTGCAA
*
24841181 CTTCAAGGAGATAAGATTTGTAGCTTTAAGCTTTAATATGTTCCACTACAACTTCAGGGAA
125 CTTCAAGGAGATAAGATTTGTAGCTTTAAGCTTTAATCTGTTCCACTACAACTTCAGGGAA
* * *
24841242 AT-AGTATTTGCATCTTCAATCTGCTCCATTTCAACTTCAAGGAGATAAGGTTGTGGCT-TTAAG
1 ATAAG-A-TTGCATCTTCAATCTGCTCCATGT-AACTTCAAGGAGATAAGATT-T-GCTAGTAA-
* * * *
24841305 CTTTAATCTGTTCCATTGCAACTTCAGGGAAATAATATTCGCGTCTTCAATCTGCTCTATTGCAA
60 CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTTAATCTGCTCTATTGCAA
* *
24841370 CTTCAAGGAGATAAGATTTGTAGCTTTAAGCTTTAATCTGTTCCACTACAACTTCAAGGAG
125 CTTCAAGGAGATAAGATTTGTAGCTTTAAGCTTTAATCTGTTCCACTACAACTTCAGGGAA
* * * * * *
24841431 ATAAGACTTGTAACTTCAACCTGTTCCACTGTAACTT-TAGAGAGATAAGATTTGCCATAGTGAC
1 ATAAGA-TTGCATCTTCAATCTGCTCCA-TGTAACTTCAAG-GAGATAAGATTTG-C-TAGTAAC
* ** *
24841495 TTCAATCCATCCCACTGCAACTTCAGGG
61 TTTAATCTGTTCCACTGCAACTTCAGGG
24841523 GTATAGGTAA
Statistics
Matches: 551, Mismatches: 79, Indels: 64
0.79 0.11 0.09
Matches are distributed among these distances:
186 1 0.00
187 2 0.00
188 7 0.01
189 187 0.34
190 294 0.53
191 18 0.03
192 2 0.00
193 4 0.01
194 1 0.00
195 2 0.00
196 33 0.06
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (185 bp):
ATAAGATTGCATCTTCAATCTGCTCCATGTAACTTCAAGGAGATAAGATTTGCTAGTAACTTTAA
TCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTTAATCTGCTCTATTGCAACTTCAA
GGAGATAAGATTTGTAGCTTTAAGCTTTAATCTGTTCCACTACAACTTCAGGGAA
Found at i:24852375 original size:7 final size:7
Alignment explanation
Indices: 24852363--24852403 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
24852353 AAGTAAATTA
24852363 ATAAAAG
1 ATAAAAG
24852370 ATAAAAG
1 ATAAAAG
24852377 ATAAAAG
1 ATAAAAG
*
24852384 ATAAAAA
1 ATAAAAG
*
24852391 ATAAAAA
1 ATAAAAG
24852398 ATAAAA
1 ATAAAA
24852404 TAATAATGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (7 bp):
ATAAAAG
Found at i:24852382 original size:14 final size:14
Alignment explanation
Indices: 24852362--24852409 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
24852352 TAAGTAAATT
24852362 AATAAAAGATAAAA
1 AATAAAAGATAAAA
*
24852376 GATAAAAGATAAAA
1 AATAAAAGATAAAA
*
24852390 AATAAAAAATAAAA
1 AATAAAAGATAAAA
24852404 TAATAA
1 -AATAA
24852410 TGATAATGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 25 0.83
15 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (14 bp):
AATAAAAGATAAAA
Found at i:24854824 original size:39 final size:39
Alignment explanation
Indices: 24854770--24854849 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
24854760 AGTTTGATTA
24854770 ATGGTATGGGTATATAAAGGCATTTGTATATTCGGATAT
1 ATGGTATGGGTATATAAAGGCATTTGTATATTCGGATAT
24854809 ATGGTATGGGTATATAAAGGCATTTGTATATTCGGATAT
1 ATGGTATGGGTATATAAAGGCATTTGTATATTCGGATAT
24854848 AT
1 AT
24854850 ATATGATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.31, C:0.05, G:0.25, T:0.39
Consensus pattern (39 bp):
ATGGTATGGGTATATAAAGGCATTTGTATATTCGGATAT
Found at i:24857358 original size:21 final size:22
Alignment explanation
Indices: 24857326--24857375 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
24857316 CCTAGGCTTT
* * *
24857326 TTTTG-TATTTTGGGCTTGTAC
1 TTTTGTTATTTTGGACCTGTAA
24857347 TTTTGTTA-TTTGGACCTGTAA
1 TTTTGTTATTTTGGACCTGTAA
24857368 TTTTGTTA
1 TTTTGTTA
24857376 ATGGACTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.14, C:0.08, G:0.20, T:0.58
Consensus pattern (22 bp):
TTTTGTTATTTTGGACCTGTAA
Found at i:24860497 original size:19 final size:19
Alignment explanation
Indices: 24860475--24860511 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
24860465 CAAACAGATA
*
24860475 GCTTTCATACAATTAAATC
1 GCTTTCATACAATCAAATC
24860494 GCTTTCATACAATCAAAT
1 GCTTTCATACAATCAAAT
24860512 TCAACTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (19 bp):
GCTTTCATACAATCAAATC
Found at i:24860826 original size:62 final size:62
Alignment explanation
Indices: 24860727--24860900 Score: 172
Period size: 62 Copynumber: 2.8 Consensus size: 62
24860717 TACATGCTCG
* * * * * * *
24860727 TGTCCTTGACCGTGTGGTTTTATACGACAAAAAGTGAGTTATACGGCCAAGGCACACGAC-CA
1 TGTCCATGGCCGTGTGGTATTATCCGATAAATAGTGAGTTACACGGCCAAGGCACAC-ACTCA
* * * **
24860789 TGTCCCTGGCCGTGTGGTATTATCCGATAAATAGTGAGTTACACGACTAAGGCACACACTTG
1 TGTCCATGGCCGTGTGGTATTATCCGATAAATAGTGAGTTACACGGCCAAGGCACACACTCA
* * * *
24860851 TGTCTATGGCCGTGTGGTCTTATACC-ATAAATAATGAGTTACACAGCCAA
1 TGTCCATGGCCGTGTGGTATTAT-CCGATAAATAGTGAGTTACACGGCCAA
24860901 TTACACGCCC
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
61 2 0.02
62 88 0.96
63 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (62 bp):
TGTCCATGGCCGTGTGGTATTATCCGATAAATAGTGAGTTACACGGCCAAGGCACACACTCA
Found at i:24864069 original size:74 final size:77
Alignment explanation
Indices: 24863926--24864156 Score: 301
Period size: 74 Copynumber: 3.1 Consensus size: 77
24863916 TTACGTAAAT
* * * * * * * * *
24863926 AATACAAAGTTTATTATTTAAATAGCAAAAAAACTCC-TAAAATTAATAATTGAAATAGC-GAAG
1 AATACAAACTTGAATATTTAAATTGCAAAAAAAC-CCATAAAATTAATAACTAAAATGGCAAAAA
24863989 AAGTCATTACATA
65 AAGTCATTACATA
*
24864002 AATACAAACTTGAATATTTAGATTGC-AAAAAACCCAT-AAATTAATAACTAAAATGG-AAAAAA
1 AATACAAACTTGAATATTTAAATTGCAAAAAAACCCATAAAATTAATAACTAAAATGGCAAAAAA
24864064 AGTCATTACATA
66 AGTCATTACATA
* *
24864076 AATACAAAGTTGACTATTTAAATTGCAAAAAAACCCATAAAATTAATAACTAAAATGGCAAAAAA
1 AATACAAACTTGAATATTTAAATTGCAAAAAAACCCATAAAATTAATAACTAAAATGGCAAAAAA
*
24864141 AGTCATTATATA
66 AGTCATTACATA
24864153 AATA
1 AATA
24864157 TGAAGTTATT
Statistics
Matches: 136, Mismatches: 14, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
74 56 0.41
75 19 0.14
76 40 0.29
77 21 0.15
ACGTcount: A:0.54, C:0.11, G:0.08, T:0.27
Consensus pattern (77 bp):
AATACAAACTTGAATATTTAAATTGCAAAAAAACCCATAAAATTAATAACTAAAATGGCAAAAAA
AGTCATTACATA
Found at i:24866489 original size:16 final size:15
Alignment explanation
Indices: 24866465--24866494 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
24866455 TAAAAATCAA
24866465 ATAAAATTACATTAT
1 ATAAAATTACATTAT
24866480 ATAAATATTACATTA
1 ATAAA-ATTACATTA
24866495 AAAAATCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAAATTACATTAT
Found at i:24866791 original size:103 final size:99
Alignment explanation
Indices: 24866496--24866797 Score: 324
Period size: 103 Copynumber: 2.9 Consensus size: 99
24866486 ATTACATTAA
* *
24866496 AAAATCACAAAACACTAACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTAAAAAA
1 AAAACCACAAAACACTAACAA-TT-TATAACCTAATCATAAATTACTAACAAAATAACTATAAAA
* * *
24866561 TTATTTTTTTTTAAAAACTACATTATTAAAAATCAC
64 TTATTTTTTTTTAAAAATTACATTATAAAAAATAAC
* * **
24866597 AAAACCCTAAACTAAACACTAACAATTTGTAACCTAATCCCATAAATTACTAAGTAAATAA--AT
1 AAAA-CC---ACAAAACACTAACAATTTATAACCTAAT--CATAAATTACTAACAAAATAACTAT
**
24866660 AACAATTACATTTTTTTAAAAGAAATTACATTACTAAAAAATAAC
60 AA-AATT--ATTTTTTTTTAA-AAATTACATTA-TAAAAAATAAC
* *
24866705 AAAA-CACAAAACACTATCAATTTATAACCTAATCATAAACTACTAACAAAATAACTATAAAATT
1 AAAACCACAAAACACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATT
*
24866769 ATTTTTTTTT-AAATTTACATTACTAAAAA
66 ATTTTTTTTTAAAAATTACATTA-TAAAAA
24866798 CTCAGAGAAC
Statistics
Matches: 168, Mismatches: 20, Indels: 29
0.77 0.09 0.13
Matches are distributed among these distances:
98 17 0.10
99 1 0.01
100 8 0.05
101 22 0.13
102 5 0.03
103 42 0.25
104 6 0.04
105 33 0.20
106 11 0.07
107 10 0.06
108 13 0.08
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (99 bp):
AAAACCACAAAACACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATT
ATTTTTTTTTAAAAATTACATTATAAAAAATAAC
Found at i:24866865 original size:72 final size:72
Alignment explanation
Indices: 24866782--24867012 Score: 403
Period size: 72 Copynumber: 3.2 Consensus size: 72
24866772 TTTTTTTAAA
*
24866782 TTTACATTACTAAAAACTCAGAGAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
1 TTTACATTACTAAAAACTCAGAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
24866847 AAATAAT
66 AAATAAT
*
24866854 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
1 TTTACATTACTAAAAACTCAGAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
24866919 AAATAAT
66 AAATAAT
*
24866926 TTTACATTACTAAAAACTC-GTAAAACACAAAAATTTATAATAAATTACTAACAAAATATTTAAC
1 TTTACATTACTAAAAACTCAG-AAAACACAACAATTTATAATAAATTACTAACAAAATATTTAAC
24866990 -AAATAAT
65 AAAATAAT
*
24866997 TTTACATTAATAAAAA
1 TTTACATTACTAAAAA
24867013 ATCACCAAAT
Statistics
Matches: 153, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
71 22 0.14
72 131 0.86
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.30
Consensus pattern (72 bp):
TTTACATTACTAAAAACTCAGAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
AAATAAT
Found at i:24866889 original size:34 final size:34
Alignment explanation
Indices: 24866782--24866961 Score: 103
Period size: 34 Copynumber: 5.1 Consensus size: 34
24866772 TTTTTTTAAA
* *
24866782 TTTACATTACTAAAAACTCAGAGAACACAACAATT
1 TTTACATTACTAAAAACTCATAAAACACAACAA-T
* * ** * *
24866817 TATAATAAATTACTAACAAAAT-ATTTAACAAAATAAT
1 T-T--TACATTACTAA-AAACTCATAAAACACAACAAT
*
24866854 TTTACATTACTAAAAACTCACAAAACACAACAATT
1 TTTACATTACTAAAAACTCATAAAACACAACAA-T
* * ** * *
24866889 TATAATAAATTACTAACAAAAT-ATTTAACAAAATAAT
1 T-T--TACATTACTAA-AAACTCATAAAACACAACAAT
* *
24866926 TTTACATTACTAAAAACTCGTAAAACACAAAAAT
1 TTTACATTACTAAAAACTCATAAAACACAACAAT
24866960 TT
1 TT
24866962 ATAATAAATT
Statistics
Matches: 106, Mismatches: 28, Indels: 23
0.68 0.18 0.15
Matches are distributed among these distances:
33 8 0.08
34 41 0.39
35 3 0.03
36 4 0.04
37 4 0.04
38 38 0.36
39 8 0.08
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.29
Consensus pattern (34 bp):
TTTACATTACTAAAAACTCATAAAACACAACAAT
Found at i:24867100 original size:60 final size:60
Alignment explanation
Indices: 24867030--24867153 Score: 230
Period size: 60 Copynumber: 2.1 Consensus size: 60
24867020 AATACTAAAC
*
24867030 TAAACACAACAATTTAAAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA
1 TAAACACAACAATTTAAAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
*
24867090 TAAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 TAAACACAACAATTTAAAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
24867150 TAAA
1 TAAA
24867154 AAAACAAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (60 bp):
TAAACACAACAATTTAAAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
Found at i:24867120 original size:27 final size:27
Alignment explanation
Indices: 24867029--24867120 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
24867019 AAATACTAAA
*
24867029 CTAAACACAACAATTTAAAACATAATC
1 CTAAACACAACAATTTATAACATAATC
* * * * *
24867056 CTAAATTACTAATAAATTAATTTTAAAATAATT
1 CTAAA-CAC-AA-CAA-T--TTATAACATAATC
*
24867089 ATAAACACAACAATTTATAACATAATC
1 CTAAACACAACAATTTATAACATAATC
24867116 CTAAA
1 CTAAA
24867121 TTACTAACAA
Statistics
Matches: 46, Mismatches: 13, Indels: 12
0.65 0.18 0.17
Matches are distributed among these distances:
27 19 0.41
28 2 0.04
29 3 0.07
30 4 0.09
31 3 0.07
32 2 0.04
33 13 0.28
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.30
Consensus pattern (27 bp):
CTAAACACAACAATTTATAACATAATC
Found at i:24867319 original size:3 final size:3
Alignment explanation
Indices: 24867313--24867348 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
24867303 ATACATTACC
24867313 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
24867349 CTTTTCTCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:24869721 original size:20 final size:20
Alignment explanation
Indices: 24869679--24869721 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
24869669 ATATTATTTG
*
24869679 ATATTTCAAAAAAAATTATA
1 ATATTTCAAAAAAAATTAGA
*
24869699 ATATTTCAAAAAAAATTGGA
1 ATATTTCAAAAAAAATTAGA
24869719 ATA
1 ATA
24869722 AATATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
ATATTTCAAAAAAAATTAGA
Found at i:24875092 original size:25 final size:25
Alignment explanation
Indices: 24875011--24875108 Score: 92
Period size: 25 Copynumber: 4.0 Consensus size: 25
24875001 ATTAGGGTCA
**
24875011 CCGAT-TTCAGCTCTTATGAGCTTC
1 CCGATATTCAGCTCGCATGAGCTTC
* *
24875035 CCGATACTCAGCTCGCATGAGCATC
1 CCGATATTCAGCTCGCATGAGCTTC
*
24875060 CCGTTATTCAGCT-GACATGAGCTTC
1 CCGATATTCAGCTCG-CATGAGCTTC
* * * *
24875085 CCGCTATTTAGCTCGGAGGAGCTT
1 CCGATATTCAGCTCGCATGAGCTT
24875109 ACTGTTTACA
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
24 6 0.10
25 53 0.88
26 1 0.02
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.30
Consensus pattern (25 bp):
CCGATATTCAGCTCGCATGAGCTTC
Found at i:24876650 original size:18 final size:18
Alignment explanation
Indices: 24876627--24876663 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
24876617 TTTTTGTACT
*
24876627 ACCAATGCCGTATCCCAG
1 ACCAATGCCATATCCCAG
24876645 ACCAATGCCATATCCCAG
1 ACCAATGCCATATCCCAG
24876663 A
1 A
24876664 TATGGTCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.38, G:0.14, T:0.16
Consensus pattern (18 bp):
ACCAATGCCATATCCCAG
Found at i:24876836 original size:50 final size:50
Alignment explanation
Indices: 24876646--24876835 Score: 263
Period size: 50 Copynumber: 3.8 Consensus size: 50
24876636 GTATCCCAGA
* * * ** * *
24876646 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTG
* * **
24876696 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTG
* *
24876746 CCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTG
24876796 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
24876836 TTACCCAAAT
Statistics
Matches: 124, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 124 1.00
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTG
Found at i:24878303 original size:17 final size:17
Alignment explanation
Indices: 24878281--24878313 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24878271 TCAAAATCTT
*
24878281 GTTCGGGTTGGAAGCTC
1 GTTCGGGTTAGAAGCTC
24878298 GTTCGGGTTAGAAGCT
1 GTTCGGGTTAGAAGCT
24878314 GATTGAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.15, G:0.39, T:0.30
Consensus pattern (17 bp):
GTTCGGGTTAGAAGCTC
Found at i:24878366 original size:22 final size:22
Alignment explanation
Indices: 24878338--24878380 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
24878328 CACAGTATCT
*
24878338 ATCGGTCCTTTTGGTACTTTCC
1 ATCGGTCCTTTCGGTACTTTCC
24878360 ATCGGTCCTTTCGGTACTTTC
1 ATCGGTCCTTTCGGTACTTTC
24878381 AGTAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.28, G:0.19, T:0.44
Consensus pattern (22 bp):
ATCGGTCCTTTCGGTACTTTCC
Found at i:24884378 original size:25 final size:25
Alignment explanation
Indices: 24884350--24884430 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
24884340 TGTAAAAAGT
* *
24884350 AAGCTCTTCCAAACTGAATAACGGG
1 AAGCTCATACAAACTGAATAACGGG
* *
24884375 AAGCTCATACGAACTGAATAACGAG
1 AAGCTCATACAAACTGAATAACGGG
* * *
24884400 AAGCTCATGCAAGCTGTATAACGGG
1 AAGCTCATACAAACTGAATAACGGG
24884425 AAGCTC
1 AAGCTC
24884431 GTGCGAGCTG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (25 bp):
AAGCTCATACAAACTGAATAACGGG
Found at i:24884439 original size:25 final size:25
Alignment explanation
Indices: 24884367--24884441 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 25
24884357 TCCAAACTGA
* * *
24884367 ATAACGGGAAGCTCATACGAACTGA
1 ATAACGGGAAGCTCATGCGAGCTGT
* *
24884392 ATAACGAGAAGCTCATGCAAGCTGT
1 ATAACGGGAAGCTCATGCGAGCTGT
*
24884417 ATAACGGGAAGCTCGTGCGAGCTGT
1 ATAACGGGAAGCTCATGCGAGCTGT
24884442 GGTGTGTGTG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (25 bp):
ATAACGGGAAGCTCATGCGAGCTGT
Found at i:24900975 original size:44 final size:43
Alignment explanation
Indices: 24900909--24901072 Score: 181
Period size: 43 Copynumber: 3.8 Consensus size: 43
24900899 TCTGATATGT
*
24900909 GATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTG
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTG
* * * *
24900951 CGATTTACGTGTAAGACCATGTCTGGGACATCGGCATCG-TATAG
1 -GATTT-CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTG
* * * *
24900995 GAGTTCGTGTAAGACCCCGTCGGGGACAG-TGGCATCGATATTT
1 GATTTCGTGTAAGACCACGTCTGGGAC-GTTGGCATCGATATTG
* *
24901038 GATTTCATGTAAGACCACGTCTGGGATGTTGGCAT
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
24901073 TGAATGAGCT
Statistics
Matches: 98, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 27 0.28
43 40 0.41
44 31 0.32
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (43 bp):
GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTG
Found at i:24906663 original size:22 final size:23
Alignment explanation
Indices: 24906637--24906686 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 23
24906627 AAGCTCCATG
24906637 TTCATATATCAT-TATCCAT-ATT
1 TTCATATATCATGTAT-CATCATT
24906659 TTCATATATCATGTATCATCATT
1 TTCATATATCATGTATCATCATT
24906682 TTCAT
1 TTCAT
24906687 GTATTTCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.30, C:0.18, G:0.02, T:0.50
Consensus pattern (23 bp):
TTCATATATCATGTATCATCATT
Found at i:24907164 original size:64 final size:64
Alignment explanation
Indices: 24907078--24907204 Score: 182
Period size: 64 Copynumber: 2.0 Consensus size: 64
24907068 CGGAGAGCCA
* *
24907078 TATAATAGGACACTCATAAAGAGCTACGGTATGTCCGCAACACATGCAGGATCACTACCGATCG
1 TATAACAGGACACTCACAAAGAGCTACGGTATGTCCGCAACACATGCAGGATCACTACCGATCG
* ** * * *
24907142 TATAACAGGACGCTCACAAAGAGCTGTGGTATGTTCGCAACACATGCCGGGTCACTACCGATC
1 TATAACAGGACACTCACAAAGAGCTACGGTATGTCCGCAACACATGCAGGATCACTACCGATC
24907205 AGGATGCTCG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (64 bp):
TATAACAGGACACTCACAAAGAGCTACGGTATGTCCGCAACACATGCAGGATCACTACCGATCG
Found at i:24910273 original size:3 final size:3
Alignment explanation
Indices: 24910265--24910304 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
24910255 TCATGTCATG
24910265 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
24910305 CAAGGATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:24912485 original size:18 final size:18
Alignment explanation
Indices: 24912444--24912477 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24912434 AAGAATTCTT
*
24912444 TAAAAATTGTTTAAATTA
1 TAAAAATTGTTGAAATTA
24912462 TAAAAATT-TTGAAATT
1 TAAAAATTGTTGAAATT
24912478 TTGAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (18 bp):
TAAAAATTGTTGAAATTA
Found at i:24913257 original size:16 final size:16
Alignment explanation
Indices: 24913218--24913264 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
24913208 AATTATTTTT
24913218 ACAATTTTTTTTGAAA
1 ACAATTTTTTTTGAAA
24913234 ACATATTTTTTTT-AAA
1 ACA-ATTTTTTTTGAAA
*
24913250 ATTAATTTTTTTTGA
1 A-CAATTTTTTTTGA
24913265 CATGGTATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 16 0.59
17 11 0.41
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.57
Consensus pattern (16 bp):
ACAATTTTTTTTGAAA
Found at i:24915197 original size:63 final size:65
Alignment explanation
Indices: 24915116--24915245 Score: 192
Period size: 63 Copynumber: 2.0 Consensus size: 65
24915106 TTTTCAAGTC
* ** * *
24915116 TTTTTCAATTTTCATTTTCATTTTTGTTTTGGAGAAAACCACATTCATTTCCAAATGTTTC-TAT
1 TTTTTCAATCTTCATTTTCATTTTCATTTTGGAGAAAACCACAATCATCTCCAAATGTTTCTTAT
*
24915180 TTTTTC-ATCTTCATTTTCATTTTCATTTTGGAGAAAACCATAATCATCTCCAAATGTTTCTTAT
1 TTTTTCAATCTTCATTTTCATTTTCATTTTGGAGAAAACCACAATCATCTCCAAATGTTTCTTAT
24915244 TT
1 TT
24915246 CTCCATTTCA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 48 0.81
64 11 0.19
ACGTcount: A:0.25, C:0.17, G:0.07, T:0.51
Consensus pattern (65 bp):
TTTTTCAATCTTCATTTTCATTTTCATTTTGGAGAAAACCACAATCATCTCCAAATGTTTCTTAT
Found at i:24931357 original size:56 final size:56
Alignment explanation
Indices: 24931264--24931467 Score: 260
Period size: 56 Copynumber: 3.8 Consensus size: 56
24931254 ATTTAGGTAA
* *
24931264 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATAATTGAGATTATG
* *
24931320 AGAGGTCCCATGTAAGACCATGTCTAGGACATAGCATTGGCATAATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATAATTGAGATTATG
* * **
24931376 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGC---ACCGAG---ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATAATTGAGATTATG
* *
24931426 AGAGGTCCTC-CGTAAGACCATGTCTGGGACATGGCATGGGCA
1 AGAGGTCC-CATGTAAGACCATGTCTGGGACATGGCATTGGCA
24931468 CCTATATGAG
Statistics
Matches: 132, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
50 38 0.29
51 1 0.01
53 4 0.03
56 89 0.67
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (56 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATAATTGAGATTATG
Found at i:24931431 original size:50 final size:51
Alignment explanation
Indices: 24931264--24931517 Score: 244
Period size: 56 Copynumber: 4.8 Consensus size: 51
24931254 ATTTAGGTAA
* *
24931264 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG--TATG
* * **
24931320 AGAGGTCCCATGTAAGACCATGTCTAGGACATAGCATTGGCATAATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGAG--TATG
* *
24931376 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAG-ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTATG
* * *
24931426 AGAGGTCCTC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCTA-TATG
1 AGAGGTCC-CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTATG
** * * *
24931476 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
24931518 GTACAAGAAA
Statistics
Matches: 170, Mismatches: 22, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
49 1 0.01
50 78 0.46
51 1 0.01
53 4 0.02
56 85 0.50
59 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGTATG
Found at i:24939045 original size:19 final size:19
Alignment explanation
Indices: 24939007--24939046 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
24938997 AAAATATTAT
* *
24939007 ATTAATTTTATTTAATTTG
1 ATTAATTTAATTTAACTTG
*
24939026 ATTAATTTAATTTTACTTG
1 ATTAATTTAATTTAACTTG
24939045 AT
1 AT
24939047 CAAAGTTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTAATTTAACTTG
Found at i:24940119 original size:25 final size:25
Alignment explanation
Indices: 24940060--24940138 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
24940050 TGAGCATCCC
* * * *
24940060 GTTATTTGGCTCTCACAAGCTTCTT
1 GTTATATGGTTCTTACAAGCTTCCT
24940085 GTTATATGGTTCTTACAAGCTTCCT
1 GTTATATGGTTCTTACAAGCTTCCT
** *
24940110 GTTATATGGTTCTTATGAGCTTCCC
1 GTTATATGGTTCTTACAAGCTTCCT
24940135 GTTA
1 GTTA
24940139 ATAGCTCTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (25 bp):
GTTATATGGTTCTTACAAGCTTCCT
Found at i:24940251 original size:25 final size:25
Alignment explanation
Indices: 24940223--24940295 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 25
24940213 CTCAATAGAT
24940223 GGCTCTTTAGAGCTTCCCGATTAAA
1 GGCTCTTTAGAGCTTCCCGATTAAA
* *
24940248 GGCTCTTTCATGAGCTTCCTGATTAAT
1 GGCTCTTT-A-GAGCTTCCCGATTAAA
* *
24940275 GGCTCTCTGGAGCTTCCCGAT
1 GGCTCTTTAGAGCTTCCCGAT
24940296 ATTGGCTCGC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 19 0.46
26 1 0.02
27 21 0.51
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (25 bp):
GGCTCTTTAGAGCTTCCCGATTAAA
Found at i:24940266 original size:27 final size:27
Alignment explanation
Indices: 24940223--24940295 Score: 84
Period size: 25 Copynumber: 2.9 Consensus size: 27
24940213 CTCAATAGAT
24940223 GGCTCTTT-A-GAGCTTCCCGATTAAA
1 GGCTCTTTCATGAGCTTCCCGATTAAA
* *
24940248 GGCTCTTTCATGAGCTTCCTGATTAAT
1 GGCTCTTTCATGAGCTTCCCGATTAAA
24940275 GGCTC--TC-TGGAGCTTCCCGAT
1 GGCTCTTTCAT-GAGCTTCCCGAT
24940296 ATTGGCTCGC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 1 0.02
25 21 0.50
26 1 0.02
27 19 0.45
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (27 bp):
GGCTCTTTCATGAGCTTCCCGATTAAA
Found at i:24940338 original size:24 final size:23
Alignment explanation
Indices: 24940221--24940345 Score: 83
Period size: 24 Copynumber: 5.1 Consensus size: 23
24940211 GTCTCAATAG
24940221 ATGGCTCTTTAGAGCTTCCCGATT
1 ATGGCTCTTT-GAGCTTCCCGATT
* *
24940245 AAAGGCTCTTTCATGAGCTTCCTGATT
1 -ATGGCTC-TT--TGAGCTTCCCGATT
*
24940272 AATGGCTCTCTGGAGCTTCCCGA-T
1 -ATGGCTCT-TTGAGCTTCCCGATT
** *
24940296 ATTGGCTCGCCTGAACTTCCCGATT
1 A-TGGCTC-TTTGAGCTTCCCGATT
*
24940321 ACGGCTCTTATGAGCTTCCC-ATT
1 ATGGCTCTT-TGAGCTTCCCGATT
24940344 AT
1 AT
24940346 ACAGATCGAA
Statistics
Matches: 78, Mismatches: 14, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
23 5 0.06
24 31 0.40
25 18 0.23
26 3 0.04
27 20 0.26
28 1 0.01
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.34
Consensus pattern (23 bp):
ATGGCTCTTTGAGCTTCCCGATT
Found at i:24944852 original size:16 final size:16
Alignment explanation
Indices: 24944831--24944877 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
24944821 TTAATCACTT
*
24944831 TAATATTAAATTAATA
1 TAATATTAAATTAAAA
* *
24944847 TAATATT-TATCAAAA
1 TAATATTAAATTAAAA
24944862 TAAATATTAAATTAAA
1 T-AATATTAAATTAAA
24944878 TTGAAACATT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
15 6 0.25
16 13 0.54
17 5 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATATTAAATTAAAA
Found at i:24947243 original size:17 final size:18
Alignment explanation
Indices: 24947221--24947320 Score: 61
Period size: 17 Copynumber: 5.8 Consensus size: 18
24947211 ATTATTTTAA
24947221 TAATTTAATATTTAAT-T
1 TAATTTAATATTTAATAT
** *
24947238 TAATTTAATACGT-ATCT
1 TAATTTAATATTTAATAT
* *
24947255 TAA--TAGTATTT-TTAT
1 TAATTTAATATTTAATAT
*
24947270 TAATTTAATATTAAAGTGAT
1 TAATTTAATATTTAA-T-AT
24947290 T-ATCTTAATATTTAAT-T
1 TAAT-TTAATATTTAATAT
*
24947307 TAATTTAATGTTTA
1 TAATTTAATATTTA
24947321 TCTACCAGAT
Statistics
Matches: 63, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
15 10 0.16
16 2 0.03
17 32 0.51
18 2 0.03
19 4 0.06
20 13 0.21
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (18 bp):
TAATTTAATATTTAATAT
Found at i:24960208 original size:24 final size:24
Alignment explanation
Indices: 24960176--24960227 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
24960166 CACCACGAAC
* *
24960176 TTCTAATGCGGTATCGATTCATGT
1 TTCTAATGCGATATCGATTCACGT
* *
24960200 TTCTGATGCGATATCGGTTCACGT
1 TTCTAATGCGATATCGATTCACGT
24960224 TTCT
1 TTCT
24960228 TCTGACGGCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.42
Consensus pattern (24 bp):
TTCTAATGCGATATCGATTCACGT
Found at i:24960778 original size:41 final size:42
Alignment explanation
Indices: 24960712--24960818 Score: 166
Period size: 40 Copynumber: 2.6 Consensus size: 42
24960702 AAATTAAAAT
* *
24960712 AAAAATT-TAAAAAAGTATTTTAAAAATA-TTTTAAAATTAA
1 AAAAATTAAAAAAAAGTATTTTAAAAAAATTTTTAAAATTAA
*
24960752 AAAAATT-AAAAAAAGTATTTTAAAAAAATTTTTAAATTTAA
1 AAAAATTAAAAAAAAGTATTTTAAAAAAATTTTTAAAATTAA
24960793 AAAAATTAAAAAAAAGTATTTTAAAA
1 AAAAATTAAAAAAAAGTATTTTAAAA
24960819 TTAAAAAATA
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
40 26 0.42
41 18 0.29
42 18 0.29
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (42 bp):
AAAAATTAAAAAAAAGTATTTTAAAAAAATTTTTAAAATTAA
Found at i:24960784 original size:12 final size:14
Alignment explanation
Indices: 24960720--24960818 Score: 50
Period size: 14 Copynumber: 7.2 Consensus size: 14
24960710 ATAAAAATTT
24960720 AAAAAAGTATTTT-
1 AAAAAAGTATTTTA
24960733 -AAAAA-TATTTTA
1 AAAAAAGTATTTTA
* **
24960745 AAATTAAA-AAAATTA
1 AAA--AAAGTATTTTA
24960760 AAAAAAGTATTTTA
1 AAAAAAGTATTTTA
24960774 AAAAAA-T-TTTTA
1 AAAAAAGTATTTTA
* * *
24960786 AATTTAAAA-AAATTAA
1 AA---AAAAGTATTTTA
24960802 AAAAAAGTATTTTA
1 AAAAAAGTATTTTA
24960816 AAA
1 AAA
24960819 TTAAAAAATA
Statistics
Matches: 64, Mismatches: 12, Indels: 19
0.67 0.13 0.20
Matches are distributed among these distances:
11 6 0.09
12 12 0.19
13 10 0.16
14 17 0.27
15 14 0.22
16 5 0.08
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
AAAAAAGTATTTTA
Found at i:24960795 original size:31 final size:30
Alignment explanation
Indices: 24960773--24960835 Score: 89
Period size: 28 Copynumber: 2.2 Consensus size: 30
24960763 AAAGTATTTT
24960773 AAAAAAA-T-TTTTAAATTTAAAAAAATTA
1 AAAAAAAGTATTTTAAATTTAAAAAAATTA
*
24960801 AAAAAAAGTATTTTAAAATT-AAAAAA-TA
1 AAAAAAAGTATTTTAAATTTAAAAAAATTA
24960829 AAAAAAA
1 AAAAAAA
24960836 TAAAAATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 16 0.50
29 7 0.22
30 9 0.28
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (30 bp):
AAAAAAAGTATTTTAAATTTAAAAAAATTA
Found at i:24960806 original size:29 final size:28
Alignment explanation
Indices: 24960773--24960835 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
24960763 AAAGTATTTT
*
24960773 AAAAAAAT-TTTTAAATTTAAAAAAATTAA
1 AAAAAAATATTTTAAAATT-AAAAAA-TAA
*
24960802 AAAAAAGTATTTTAAAATTAAAAAATAA
1 AAAAAAATATTTTAAAATTAAAAAATAA
24960830 AAAAAA
1 AAAAAA
24960836 TAAAAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 9 0.29
29 13 0.42
30 9 0.29
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (28 bp):
AAAAAAATATTTTAAAATTAAAAAATAA
Found at i:24965960 original size:16 final size:18
Alignment explanation
Indices: 24965927--24965967 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
24965917 TGTATCCTTG
*
24965927 TTATTATATTATTCATTA
1 TTATTTTATTATTCATTA
24965945 TT-TTTTATTA-TCATTA
1 TTATTTTATTATTCATTA
24965961 TTATTTT
1 TTATTTT
24965968 TATACACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 8 0.38
17 11 0.52
18 2 0.10
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTTTATTATTCATTA
Found at i:24966084 original size:15 final size:16
Alignment explanation
Indices: 24966043--24966085 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
24966033 TTTACATATA
24966043 TATATACATTATTATTT
1 TATATACA-TATTATTT
* *
24966060 TATTTTCATATT-TTT
1 TATATACATATTATTT
24966075 TATATACATAT
1 TATATACATAT
24966086 ATATACTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 12 0.55
16 4 0.18
17 6 0.27
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATACATATTATTT
Found at i:24966124 original size:23 final size:23
Alignment explanation
Indices: 24966071--24966137 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 23
24966061 ATTTTCATAT
24966071 TTTTTATATACATATA-TATACTCA
1 TTTTTAT-TA-ATATATTATACTCA
* *
24966095 TACTTTATTAATATATTATACTTA
1 T-TTTTATTAATATATTATACTCA
* *
24966119 TTTTTATTTATATTTTATA
1 TTTTTATTAATATATTATA
24966138 AGTATATGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 20 0.56
24 11 0.31
25 5 0.14
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTTATTAATATATTATACTCA
Found at i:24967271 original size:21 final size:21
Alignment explanation
Indices: 24967224--24967282 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
24967214 CAAAAATGAT
* *
24967224 TATTTTTTATTGTCTTATTAT
1 TATTTTTTATTGTTTTATTAC
* * *
24967245 TGTTTTTTATTATTTTGTTAC
1 TATTTTTTATTGTTTTATTAC
24967266 TATTTTCTTATTGTTTT
1 TATTTT-TTATTGTTTT
24967283 TACACTATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 21 0.70
22 9 0.30
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.73
Consensus pattern (21 bp):
TATTTTTTATTGTTTTATTAC
Found at i:24967282 original size:11 final size:10
Alignment explanation
Indices: 24967226--24967283 Score: 53
Period size: 11 Copynumber: 5.5 Consensus size: 10
24967216 AAAATGATTA
24967226 TTTTTTATTG
1 TTTTTTATTG
*
24967236 TCTTATTATTG
1 T-TTTTTATTG
*
24967247 TTTTTTATTA
1 TTTTTTATTG
* *
24967257 TTTTGTTACTA
1 TTTT-TTATTG
24967268 TTTTCTTATTG
1 TTTT-TTATTG
24967279 TTTTT
1 TTTTT
24967284 ACACTATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
10 13 0.33
11 26 0.67
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (10 bp):
TTTTTTATTG
Found at i:24970638 original size:21 final size:21
Alignment explanation
Indices: 24970595--24970651 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
24970585 AAATGATTGT
* * *
24970595 TTTTTTATTGTCTTATTATTA
1 TTTTTTATTATTTTATTACTA
*
24970616 TTTTTTATTATTTTGTTACTA
1 TTTTTTATTATTTTATTACTA
*
24970637 TTATCTTATTATTTT
1 TT-TTTTATTATTTT
24970652 TACACGATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.19, C:0.05, G:0.04, T:0.72
Consensus pattern (21 bp):
TTTTTTATTATTTTATTACTA
Found at i:24979980 original size:44 final size:44
Alignment explanation
Indices: 24979912--24980683 Score: 204
Period size: 44 Copynumber: 16.8 Consensus size: 44
24979902 TCATCGTTTT
* * *
24979912 AATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* *
24979956 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * * * *
24980000 AACCTGCTCCACTGCAACTTTAGGAAGATAAGGTT--T-GATAT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCT-TC
* * * * * *
24980041 GATCTGCTCTACTGCAACTTTAGAGAGATAAGGTT--T-GATAT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCT-TC
* * * * * *
24980082 GATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTATAATTTATAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A---GTAGCTTC
* ** * * * *
24980133 AATTTATTCCACTGCAACTTCAGGAAAATAAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTC
* ** * * *
24980178 AGTCTGCTCTGCTACAACTTCAGGGAGATAGGGA-TAGTGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATA-AGATTAGTAGCTTC
* * * *
24980222 AATCTACTACACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT------T-A---GTAGCTTC
* * ** ** * * *
24980276 AATTTGTTCCACTATAACGCCAGGGAAATAAGATTTG-ATGTTTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTA-G-CTTC
* * * * ** *
24980321 AGTTTGCTCCGCTGTAACTTCAGGGAGATAAGGCTAGTGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * *
24980365 AATCTGCTCCACTGCAACTTCATGAAGATAAGATCCGCTATAACTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-----T-T-A---GTAGCTTC
* * * *
24980419 AATCTGTTCCACTGCAA-TGCCAGGGAAATAAGATTCA-TTGTCTTC
1 AATCTGCTCCACTGCAACT-TCAGGGAGATAAGATT-AGTAG-CTTC
* *** ** * *
24980464 AGTCTGCTTGGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * * *
24980508 AATATGCTCTACTGCAACTTCAGGAAGATAAGATCCACTATAATTTGTAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAG----A-T-T-A---GTAGCTTC
* ** * * **
24980562 AATCTGTTCCACTGCAACACCAGGGA-A-AAAAATACGCTATTTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTA-G-TAGCTTC
* * ** * *
24980606 AATCTGCTCCGCTGTAACTTCAGGGAGATAAGGCTGGTGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
** *
24980650 AATCTGCTATACTGCAACTTCAGGAAGATAAGAT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
24980684 CCGCCATAAT
Statistics
Matches: 523, Mismatches: 150, Indels: 110
0.67 0.19 0.14
Matches are distributed among these distances:
41 69 0.13
42 2 0.00
43 5 0.01
44 218 0.42
45 90 0.17
46 7 0.01
48 5 0.01
49 2 0.00
50 5 0.01
51 28 0.05
52 2 0.00
53 2 0.00
54 88 0.17
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
Found at i:24980060 original size:41 final size:41
Alignment explanation
Indices: 24980003--24980113 Score: 197
Period size: 41 Copynumber: 2.7 Consensus size: 41
24979993 TATCTTCAAC
*
24980003 CTGCTCCACTGCAACTTTAG-GAAGATAAGGTTTGATATGAT
1 CTGCTCTACTGCAACTTTAGAG-AGATAAGGTTTGATATGAT
24980044 CTGCTCTACTGCAACTTTAGAGAGATAAGGTTTGATATGAT
1 CTGCTCTACTGCAACTTTAGAGAGATAAGGTTTGATATGAT
24980085 CTGCTCTACTGCAACTTTAGAGAGATAAG
1 CTGCTCTACTGCAACTTTAGAGAGATAAG
24980114 ATCTATAATT
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
41 67 0.99
42 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (41 bp):
CTGCTCTACTGCAACTTTAGAGAGATAAGGTTTGATATGAT
Found at i:24980305 original size:143 final size:143
Alignment explanation
Indices: 24980118--24980818 Score: 858
Period size: 143 Copynumber: 4.9 Consensus size: 143
24980108 GATAAGATCT
* * * ** *
24980118 ATAATTTATAGCTTTAATTTATTCCACTGCAACTTCAGGAAAATAAGATTTGCTATCTTCAGTCT
1 ATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTGCTATCTTCAGTCT
* * * * * *
24980183 GCTCTGCTACAACTTCAGGGAGATAGGGATAGTGGCTTCAATCTACTACACTGCAACTTCAGGAA
66 GCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTACACTGCAACTTCAGGAA
24980248 GATAAGATCCGCC
131 GATAAGATCCGCC
* ** * * * *
24980261 ATAATTTGTAGCTTTAATTTGTTCCACTATAACGCCAGGGAAATAAGATTTGATGTTTTCAGTTT
1 ATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTGCTATCTTCAGTCT
* * * *
24980326 GCTCCGCTGTAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTCATGAA
66 GCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTACACTGCAACTTCAGGAA
*
24980391 GATAAGATCCGCT
131 GATAAGATCCGCC
* * *** *
24980404 ATAACTTGTAGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCATTGTCTTCAGTCT
1 ATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTGCTATCTTCAGTCT
** *
24980469 GCTTGGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATATGCT-CTACTGCAACTTCAGGA
66 GCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTAC-ACTGCAACTTCAGGA
* *
24980533 AGATAAGATCCACT
130 AGATAAGATCCGCC
* * ** * *
24980547 ATAATTTGTAGCTTTAATCTGTTCCACTGCAACACCAGGGAAA-AAAATACGCTATTTTCAATCT
1 ATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTGCTATCTTCAGTCT
* *
24980611 GCTCCGCTGTAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTATACTGCAACTTCAGGAA
66 GCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTACACTGCAACTTCAGGAA
24980676 GATAAGATCCGCC
131 GATAAGATCCGCC
* * * ** * * *
24980689 ATAATTTGTGGCTTTAATATGTTCCACTACAACGCTTGAGAAATAAG--CTG-TA--TTCAATCT
1 ATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTGCTATCTTCAGTCT
* * *
24980749 GCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTAAGGAA
66 GCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTACACTGCAACTTCAGGAA
24980814 GATAA
131 GATAA
24980819 TATTCTTCAT
Statistics
Matches: 486, Mismatches: 69, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
138 73 0.15
140 2 0.00
141 1 0.00
142 121 0.25
143 289 0.59
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (143 bp):
ATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTGCTATCTTCAGTCT
GCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTACACTGCAACTTCAGGAA
GATAAGATCCGCC
Found at i:24992940 original size:43 final size:42
Alignment explanation
Indices: 24992893--24993013 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 42
24992883 CTTCAAAAAA
* * * *
24992893 AAACGCCGCTAAAGGTCATGCTCTTTAGCGGTG-ATTCTACGAC
1 AAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCATAC--CAAC
*
24992936 AAACGCCGCTAAAGAACATGAC-CTTTAGCGGCGCATACCAAC
1 AAACGCCGCTAAAGATCATG-CTCTTTAGCGGCGCATACCAAC
* *
24992978 AAACGCCGCTAAAAGCTCATGTTCTTTTAGCGGCGC
1 AAACGCCGCT-AAAGATCATGCTC-TTTAGCGGCGC
24993014 CTTTTCCAGA
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
42 13 0.20
43 37 0.57
44 15 0.23
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (42 bp):
AAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCATACCAAC
Found at i:24993535 original size:21 final size:21
Alignment explanation
Indices: 24993488--24993538 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
24993478 TTCTTTTGAA
* *
24993488 CCTCTACTTCTCTCGCTACAG
1 CCTCTGCTTCCCTCGCTACAG
* *
24993509 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTACAG
24993530 CCTCTGCTT
1 CCTCTGCTT
24993539 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.06, C:0.47, G:0.14, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTACAG
Found at i:24993590 original size:87 final size:87
Alignment explanation
Indices: 24993423--24993591 Score: 232
Period size: 87 Copynumber: 1.9 Consensus size: 87
24993413 TTCTGCTCTG
* * * *
24993423 CTCTGCTTCTCTCGATGCCGCATCTGTTTTAAGTTGTAGCTAGAGTTCTTCATATTTCTTTTGAA
1 CTCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTTGTAGCTAGAGTTCTTCATATTTCCTTTAAA
* *
24993488 CCTCTACTTCTCTCGCTACAGC
66 CCTCAACTTCGCTCGCTACAGC
* * * *
24993510 CTCTGCTTCCCTCGCTGCCGCCTCTGCTTTAAGTTGTAGGTGGAGTTCTTCATATTTCCTTTAAA
1 CTCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTTGTAGCTAGAGTTCTTCATATTTCCTTTAAA
24993575 CCTCAACTGT-GCTCGCT
66 CCTCAACT-TCGCTCGCT
24993592 TGCATCTTAG
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
87 70 0.99
88 1 0.01
ACGTcount: A:0.15, C:0.29, G:0.17, T:0.40
Consensus pattern (87 bp):
CTCTGCTTCCCTCGATGCCGCATCTGCTTTAAGTTGTAGCTAGAGTTCTTCATATTTCCTTTAAA
CCTCAACTTCGCTCGCTACAGC
Found at i:24998863 original size:9 final size:9
Alignment explanation
Indices: 24998846--24999237 Score: 115
Period size: 9 Copynumber: 45.4 Consensus size: 9
24998836 TAAGTATAAT
*
24998846 TAAGCTATG
1 TAAGTTATG
24998855 TAAGTTATG
1 TAAGTTATG
24998864 TAAGTTATG
1 TAAGTTATG
24998873 TATTAAGTTAT-
1 ---TAAGTTATG
*
24998884 TTA-TTATG
1 TAAGTTATG
* *
24998892 AAAATTATG
1 TAAGTTATG
24998901 TAAGTTATG
1 TAAGTTATG
24998910 T-A-TTATG
1 TAAGTTATG
*
24998917 -AATATTATG
1 TAA-GTTATG
*
24998926 TAAGTTGTG
1 TAAGTTATG
24998935 -AA-TTATG
1 TAAGTTATG
**
24998942 TAAGTGCTG
1 TAAGTTATG
24998951 T-A-TTATG
1 TAAGTTATG
24998958 ATCAA-TTATG
1 -T-AAGTTATG
24998968 TAAGTTATG
1 TAAGTTATG
24998977 T-A-TTATG
1 TAAGTTATG
* *
24998984 AAAATTATG
1 TAAGTTATG
* *
24998993 TAAGCTGTG
1 TAAGTTATG
* *
24999002 T-A-CTATA
1 TAAGTTATG
24999009 TAAGTTATG
1 TAAGTTATG
24999018 TAAGTTATG
1 TAAGTTATG
*
24999027 TAAGTT-TT
1 TAAGTTATG
*
24999035 TTA-TTATG
1 TAAGTTATG
* * *
24999043 AAAATTAAG
1 TAAGTTATG
*
24999052 TAACTTATG
1 TAAGTTATG
24999061 T-A-TTATG
1 TAAGTTATG
* *
24999068 AAAATTATG
1 TAAGTTATG
*
24999077 TAAGTTCA-A
1 TAAGTT-ATG
24999086 T-A-TTATG
1 TAAGTTATG
24999093 TAAGTTATG
1 TAAGTTATG
*
24999102 T-A-CTATG
1 TAAGTTATG
* *
24999109 AAAATTATG
1 TAAGTTATG
24999118 TAAGTTATG
1 TAAGTTATG
*
24999127 TATA-TTGTG
1 TA-AGTTATG
*
24999136 T-ATTATATG
1 TAAGT-TATG
*
24999145 CAAGTTATG
1 TAAGTTATG
*
24999154 TATGTGTATAATG
1 TA--AGT-T-ATG
* *
24999167 AAAGTTATA
1 TAAGTTATG
*
24999176 TAAGTTGTG
1 TAAGTTATG
*
24999185 T-A-TAATG
1 TAAGTTATG
24999192 TAAGTTATG
1 TAAGTTATG
*
24999201 TAAGTTAAG
1 TAAGTTATG
*
24999210 T-A-TAAT-
1 TAAGTTATG
*
24999216 TAAGCTATG
1 TAAGTTATG
*
24999225 TAAGATATG
1 TAAGTTATG
24999234 TAAG
1 TAAG
24999238 ATGTGATAGT
Statistics
Matches: 279, Mismatches: 62, Indels: 84
0.66 0.15 0.20
Matches are distributed among these distances:
6 2 0.01
7 48 0.17
8 33 0.12
9 166 0.59
10 13 0.05
11 4 0.01
12 9 0.03
13 4 0.01
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.43
Consensus pattern (9 bp):
TAAGTTATG
Found at i:24998904 original size:25 final size:25
Alignment explanation
Indices: 24998876--24999082 Score: 102
Period size: 25 Copynumber: 8.2 Consensus size: 25
24998866 AGTTATGTAT
*
24998876 TAAGTTATTTATTATGAAAATTATG
1 TAAGTTATGTATTATGAAAATTATG
*
24998901 TAAGTTATGTATTATGAATATTATG
1 TAAGTTATGTATTATGAAAATTATG
* * * * **
24998926 TAAGTTGTGAATTATGTAAGTGCTG
1 TAAGTTATGTATTATGAAAATTATG
* *
24998951 T-A-TTATGATCAATTATGTAAGTTATG
1 TAAGTTATG-T--ATTATGAAAATTATG
* * ** *
24998977 T-A-TTATGAAAATTATGTAAGCTGTG
1 TAAGTTATG--TATTATGAAAATTATG
* * * *
24999002 T-ACTATAT-AAGTTATGTAAGTTATG
1 TAAGT-TATGTA-TTATGAAAATTATG
* * *
24999027 TAAGTTTTTTATTATGAAAATTAAG
1 TAAGTTATGTATTATGAAAATTATG
*
24999052 TAACTTATGTATTATGAAAATTATG
1 TAAGTTATGTATTATGAAAATTATG
24999077 TAAGTT
1 TAAGTT
24999083 CAATATTATG
Statistics
Matches: 144, Mismatches: 29, Indels: 18
0.75 0.15 0.09
Matches are distributed among these distances:
23 4 0.03
24 3 0.02
25 109 0.76
26 24 0.17
27 4 0.03
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.45
Consensus pattern (25 bp):
TAAGTTATGTATTATGAAAATTATG
Found at i:24998914 original size:16 final size:16
Alignment explanation
Indices: 24998879--24999156 Score: 79
Period size: 16 Copynumber: 16.6 Consensus size: 16
24998869 TATGTATTAA
* *
24998879 GTTATTTATTATGAAA
1 GTTATGTATTATGTAA
*
24998895 ATTATGTAAGTTATGT-A
1 GTTATGT-A-TTATGTAA
24998912 -TTATGAATATTATGTAA
1 GTTATG--TATTATGTAA
* *
24998929 GTTGTGAATTATGTAA
1 GTTATGTATTATGTAA
**
24998945 GTGCTGTATTATGATCAA
1 GTTATGTATTATG-T-AA
24998963 -TTATGTAAGTTATGT-A
1 GTTATGT-A-TTATGTAA
*
24998979 -TTATGAAAATTATGTAA
1 GTTATG--TATTATGTAA
* * * *
24998996 GCTGTGTACTATATAA
1 GTTATGTATTATGTAA
24999012 GTTATGTAAGTTATGTAA
1 GTTATGT-A-TTATGTAA
* * *
24999030 GTTTTTTATTATGAAA
1 GTTATGTATTATGTAA
* *
24999046 ATTAAGTAACTTATGT-A
1 GTTATGT-A-TTATGTAA
*
24999063 -TTATGAAAATTATGTAA
1 GTTATG--TATTATGTAA
*
24999080 GTTCA-ATATTATGTAA
1 GTT-ATGTATTATGTAA
* *
24999096 GTTATGTACTATGAAA
1 GTTATGTATTATGTAA
*
24999112 ATTATGTAAGTTATGTATA
1 GTTATGT-A-TTATGTA-A
* *
24999131 -TTGTGTATTATATGCAA
1 GTTATGTA-T-TATGTAA
24999148 GTTATGTAT
1 GTTATGTAT
24999157 GTGTATAATG
Statistics
Matches: 191, Mismatches: 42, Indels: 57
0.66 0.14 0.20
Matches are distributed among these distances:
15 1 0.01
16 105 0.55
17 22 0.12
18 56 0.29
19 7 0.04
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.45
Consensus pattern (16 bp):
GTTATGTATTATGTAA
Found at i:24999013 original size:67 final size:66
Alignment explanation
Indices: 24998885--24999013 Score: 195
Period size: 67 Copynumber: 1.9 Consensus size: 66
24998875 TTAAGTTATT
* * * *
24998885 TATTATGAAAATTATGTAAGTTATGTATTATGAATATTATGTAAGTTGTGAATTATGTAAGTGCT
1 TATTATGAAAATTATGTAAGTTATGTATTATGAAAATTATGTAAGCTGTGAACTATATAAGTGCT
24998950 G
66 G
* *
24998951 TATTATGATCAATTATGTAAGTTATGTATTATGAAAATTATGTAAGCTGTGTACTATATAAGT
1 TATTATGA-AAATTATGTAAGTTATGTATTATGAAAATTATGTAAGCTGTGAACTATATAAGT
24999014 TATGTAAGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
66 8 0.14
67 48 0.86
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.43
Consensus pattern (66 bp):
TATTATGAAAATTATGTAAGTTATGTATTATGAAAATTATGTAAGCTGTGAACTATATAAGTGCT
G
Found at i:24999204 original size:25 final size:25
Alignment explanation
Indices: 24999015--24999228 Score: 116
Period size: 25 Copynumber: 8.6 Consensus size: 25
24999005 TATATAAGTT
* * *
24999015 ATGTAAGTTATGTAAGTTTTTTATT
1 ATGTAAGTTATGTAAGTTGTGTATA
* * * * * *
24999040 ATGAAAATTAAGTAACTTATGTATT
1 ATGTAAGTTATGTAAGTTGTGTATA
* * *** *
24999065 ATGAAAATTATGTAAGTTCAATATT
1 ATGTAAGTTATGTAAGTTGTGTATA
* *** *
24999090 ATGTAAGTTATGT-ACTATGAAAATT
1 ATGTAAGTTATGTAAGT-TGTGTATA
24999115 ATGTAAGTTATGTATA-TTGTGTATTA
1 ATGTAAGTTATGTA-AGTTGTGTA-TA
*
24999141 TATGCAAGTTATGT-A--TGTGTATA
1 -ATGTAAGTTATGTAAGTTGTGTATA
* *
24999164 ATGAAAGTTATATAAGTTGTGTATA
1 ATGTAAGTTATGTAAGTTGTGTATA
**
24999189 ATGTAAGTTATGTAAGTTAAGTATA
1 ATGTAAGTTATGTAAGTTGTGTATA
*
24999214 AT-TAAGCTATGTAAG
1 ATGTAAGTTATGTAAG
24999229 ATATGTAAGA
Statistics
Matches: 153, Mismatches: 28, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
22 11 0.07
23 3 0.02
24 20 0.13
25 104 0.68
26 2 0.01
27 13 0.08
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.43
Consensus pattern (25 bp):
ATGTAAGTTATGTAAGTTGTGTATA
Found at i:25000001 original size:21 final size:21
Alignment explanation
Indices: 24999931--25000003 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
24999921 AGATGTTTAT
* *
24999931 ATAAATACGCTGAAAATATAA
1 ATAAATATGCTAAAAATATAA
* * *
24999952 ATAAATAAT-ATAATATTAATAA
1 ATAAAT-ATGCTAAAAAT-ATAA
24999974 TATTAAATATGCTAAAAATATAA
1 -A-TAAATATGCTAAAAATATAA
24999997 ATAAATA
1 ATAAATA
25000004 GTCTCAAAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
21 16 0.41
22 6 0.15
23 7 0.18
24 10 0.26
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (21 bp):
ATAAATATGCTAAAAATATAA
Found at i:25000430 original size:10 final size:10
Alignment explanation
Indices: 25000415--25000439 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
25000405 TAACATTCAA
25000415 AACATAGCTT
1 AACATAGCTT
25000425 AACATAGCTT
1 AACATAGCTT
25000435 AACAT
1 AACAT
25000440 TCAAAACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (10 bp):
AACATAGCTT
Found at i:25000438 original size:45 final size:44
Alignment explanation
Indices: 25000389--25000484 Score: 124
Period size: 45 Copynumber: 2.1 Consensus size: 44
25000379 CTCATATGCC
*
25000389 TAACATTC-AAA-ATGTTTAACATTCAAAACATAGCTTAACATAGCT
1 TAACATTCAAAACATGCTTAACATTC-AAA-AT-GCTTAACATAGCT
*
25000434 TAACATTCAAAACTATGCTTAACATTCAAAATGTTTAACATAGCT
1 TAACATTCAAAAC-ATGCTTAACATTCAAAATGCTTAACATAGCT
25000479 TAACAT
1 TAACAT
25000485 AGTTTTCAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
45 26 0.57
46 5 0.11
47 3 0.07
48 12 0.26
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.32
Consensus pattern (44 bp):
TAACATTCAAAACATGCTTAACATTCAAAATGCTTAACATAGCT
Found at i:25000473 original size:16 final size:18
Alignment explanation
Indices: 25000425--25000464 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 18
25000415 AACATAGCTT
25000425 AACATAGCTTAACATTCAA
1 AACAT-GCTTAACATTCAA
25000444 AACTATGCTTAACATTCAA
1 AAC-ATGCTTAACATTCAA
25000463 AA
1 AA
25000465 TGTTTAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.28
Consensus pattern (18 bp):
AACATGCTTAACATTCAA
Found at i:25002514 original size:7 final size:7
Alignment explanation
Indices: 25002499--25002583 Score: 73
Period size: 7 Copynumber: 12.0 Consensus size: 7
25002489 ACTAAAGTGG
25002499 CCTAAAC
1 CCTAAAC
*
25002506 CCCAAAC
1 CCTAAAC
25002513 CCTAAAC
1 CCTAAAC
25002520 CCTAAAC
1 CCTAAAC
*
25002527 TCTTAAAC
1 -CCTAAAC
25002535 CCTAAAC
1 CCTAAAC
*
25002542 ACTAAACC
1 CCTAAA-C
*
25002550 CCAAAAC
1 CCTAAAC
*
25002557 ACTAAA-
1 CCTAAAC
* *
25002563 CCTACAT
1 CCTAAAC
*
25002570 CATAAAC
1 CCTAAAC
25002577 CCTAAAC
1 CCTAAAC
25002584 TCAAAACTCT
Statistics
Matches: 60, Mismatches: 15, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
6 4 0.07
7 45 0.75
8 11 0.18
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (7 bp):
CCTAAAC
Found at i:25002535 original size:15 final size:14
Alignment explanation
Indices: 25002500--25002595 Score: 79
Period size: 14 Copynumber: 6.8 Consensus size: 14
25002490 CTAAAGTGGC
* *
25002500 CTAAACCCCAAACC
1 CTAAACCCTAAACT
25002514 CTAAACCCTAAACT
1 CTAAACCCTAAACT
*
25002528 CTTAAACCCTAAACA
1 C-TAAACCCTAAACT
* *
25002543 CTAAACCCCAAAACA
1 CTAAA-CCCTAAACT
*
25002558 CTAAA-CCTACA-T
1 CTAAACCCTAAACT
25002570 CATAAACCCTAAACT
1 C-TAAACCCTAAACT
* *
25002585 CAAAACTCTAA
1 CTAAACCCTAA
25002596 TATTCACAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
12 1 0.01
13 8 0.12
14 30 0.45
15 28 0.42
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.17
Consensus pattern (14 bp):
CTAAACCCTAAACT
Found at i:25002537 original size:22 final size:22
Alignment explanation
Indices: 25002509--25002593 Score: 75
Period size: 22 Copynumber: 4.0 Consensus size: 22
25002499 CCTAAACCCC
25002509 AAACCCTAAACCCTAAACTCTT
1 AAACCCTAAACCCTAAACTCTT
* * **
25002531 AAACCCTAAACACTAAACCCCA
1 AAACCCTAAACCCTAAACTCTT
* * *
25002553 AAACACTAAA-CCTACA-TCAT
1 AAACCCTAAACCCTAAACTCTT
* *
25002573 AAACCCTAAACTCAAAACTCT
1 AAACCCTAAACCCTAAACTCT
25002594 AATATTCACA
Statistics
Matches: 46, Mismatches: 15, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
20 10 0.22
21 7 0.15
22 29 0.63
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.18
Consensus pattern (22 bp):
AAACCCTAAACCCTAAACTCTT
Found at i:25002562 original size:29 final size:28
Alignment explanation
Indices: 25002500--25002564 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
25002490 CTAAAGTGGC
* * *
25002500 CTAAACCCCAAACCCTAAACCCTAAACT
1 CTAAACCCCAAACACTAAACCCAAAACA
*
25002528 CTTAAACCCTAAACACTAAACCCCAAAACA
1 C-TAAACCCCAAACACTAAA-CCCAAAACA
25002558 CTAAACC
1 CTAAACC
25002565 TACATCATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 1 0.03
29 22 0.71
30 8 0.26
ACGTcount: A:0.46, C:0.40, G:0.00, T:0.14
Consensus pattern (28 bp):
CTAAACCCCAAACACTAAACCCAAAACA
Found at i:25003332 original size:114 final size:113
Alignment explanation
Indices: 25003116--25003378 Score: 411
Period size: 114 Copynumber: 2.3 Consensus size: 113
25003106 TGCGGCGCTT
* * *
25003116 TGTGATTTAGCGGTGCTTTTTCATAAGCACCACTAATTCTAATATACCTCAAGACCAAACGCTGC
1 TGTGCTTTAGCGGCG-TTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGC
25003181 GTTTTGGTTAAGATATTTTGCAGCGTTTTGTACAATGCGCCGCTAATAC
65 GTTTTGGTTAAGATATTTTGCAGCGTTTTGTACAATGCGCCGCTAATAC
* * *
25003230 TGTGCTTTAGCGGCGTTTTTCCATAAGTGCCACTAATTTTAATATACCTCAAGACCAAACGCTTC
1 TGTGCTTTAGCGGCGTTTTT-CATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGC
* *
25003295 GTTTTGGTTAAGATATTTTGCGGCGCTTTT-TATAATGCGCCGCTAATAC
65 GTTTTGGTTAAGATATTTTGCAGCG-TTTTGTACAATGCGCCGCTAATAC
25003344 TGTGCTTTAGCGGCGTTTTTGCATAAGCGCCACTA
1 TGTGCTTTAGCGGCGTTTTT-CATAAGCGCCACTA
25003379 TGAGAACAGG
Statistics
Matches: 137, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
113 5 0.04
114 128 0.93
115 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (113 bp):
TGTGCTTTAGCGGCGTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCG
TTTTGGTTAAGATATTTTGCAGCGTTTTGTACAATGCGCCGCTAATAC
Found at i:25008570 original size:13 final size:13
Alignment explanation
Indices: 25008552--25008576 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25008542 TTGTTGTGTT
25008552 ATTTAGTTAATTA
1 ATTTAGTTAATTA
25008565 ATTTAGTTAATT
1 ATTTAGTTAATT
25008577 TTAGTTTTAA
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:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
ATTTAGTTAATTA
Found at i:25013375 original size:15 final size:15
Alignment explanation
Indices: 25013351--25013382 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25013341 TATGCATGCA
*
25013351 AAATATAAAAGACAT
1 AAATACAAAAGACAT
25013366 AAATACAAAAGACAT
1 AAATACAAAAGACAT
25013381 AA
1 AA
25013383 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:25019448 original size:6 final size:6
Alignment explanation
Indices: 25019431--25019465 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
25019421 AGTCCATTTA
*
25019431 ATTTTCT ATTTTT ATTTTT ATGTTT ATTTTT ATTT
1 ATTTT-T ATTTTT ATTTTT ATTTTT ATTTTT ATTT
25019466 GTACTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:25019456 original size:12 final size:12
Alignment explanation
Indices: 25019431--25019485 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
25019421 AGTCCATTTA
*
25019431 ATTTTCTATTTTT
1 ATTTT-TATGTTT
25019444 ATTTTTATGTTT
1 ATTTTTATGTTT
25019456 ATTTTTAT-TTGT
1 ATTTTTATGTT-T
*
25019468 ACTTTTTTTGTTT
1 A-TTTTTATGTTT
25019481 -TTTTT
1 ATTTTT
25019486 TCGTAGTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 7 0.19
12 16 0.43
13 12 0.32
14 2 0.05
ACGTcount: A:0.13, C:0.04, G:0.05, T:0.78
Consensus pattern (12 bp):
ATTTTTATGTTT
Found at i:25019473 original size:25 final size:24
Alignment explanation
Indices: 25019431--25019486 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
25019421 AGTCCATTTA
*
25019431 ATTTTCTATTTTTATTTTTATGTTT
1 ATTTT-TATTTGTATTTTTATGTTT
*
25019456 ATTTTTATTTGTACTTTTTTTGTTT
1 ATTTTTATTTGTA-TTTTTATGTTT
*
25019481 TTTTTT
1 ATTTTT
25019487 CGTAGTTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.12, C:0.04, G:0.05, T:0.79
Consensus pattern (24 bp):
ATTTTTATTTGTATTTTTATGTTT
Found at i:25019504 original size:22 final size:21
Alignment explanation
Indices: 25019453--25019509 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
25019443 TATTTTTATG
25019453 TTTATTTTTATTTGTACTTTT
1 TTTATTTTTATTTGTACTTTT
* * *
25019474 TTTGTTTTTTTTTCGTAGTTGTT
1 TTTATTTTTATTT-GTACTT-TT
25019497 TTTA-TTTTATTTG
1 TTTATTTTTATTTG
25019510 AGACTGTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 12 0.41
22 12 0.41
23 5 0.17
ACGTcount: A:0.11, C:0.04, G:0.11, T:0.75
Consensus pattern (21 bp):
TTTATTTTTATTTGTACTTTT
Found at i:25019917 original size:23 final size:24
Alignment explanation
Indices: 25019890--25019934 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
25019880 ATGTTTTTTA
*
25019890 TTTGGAATT-TTTGTTGATGTTGT
1 TTTGGAATTATTTGTGGATGTTGT
*
25019913 TTTGGATTTATTTGTGGATGTT
1 TTTGGAATTATTTGTGGATGTT
25019935 TTTGCATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.13, C:0.00, G:0.27, T:0.60
Consensus pattern (24 bp):
TTTGGAATTATTTGTGGATGTTGT
Found at i:25023518 original size:6 final size:6
Alignment explanation
Indices: 25023507--25023545 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
25023497 AATAATTATT
25023507 TATTTA TATTTA TATTTA TATTTA TATTTA -ATTATA TAT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATT-TA TAT
25023546 GTTTGAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 3 0.10
6 26 0.84
7 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TATTTA
Found at i:25023530 original size:18 final size:18
Alignment explanation
Indices: 25023490--25023545 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
25023480 ACTTTTTCAT
* *
25023490 TATTTATA-ATAATTATT
1 TATTTATATTTAATTATA
25023507 TATTTATATTTATATT-TA
1 TATTTATATTTA-ATTATA
25023525 TATTTATATTTAATTATA
1 TATTTATATTTAATTATA
25023543 TAT
1 TAT
25023546 GTTTGAAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
17 11 0.32
18 20 0.59
19 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTATATTTAATTATA
Found at i:25023676 original size:13 final size:13
Alignment explanation
Indices: 25023658--25023688 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
25023648 GTCAGATCAT
25023658 CATTTCCGTTAAC
1 CATTTCCGTTAAC
*
25023671 CATTTCCTTTAAC
1 CATTTCCGTTAAC
25023684 CATTT
1 CATTT
25023689 AACGAAGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.29, G:0.03, T:0.45
Consensus pattern (13 bp):
CATTTCCGTTAAC
Found at i:25024268 original size:21 final size:21
Alignment explanation
Indices: 25024244--25024311 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
25024234 TTGATTTTAT
25024244 TAATTAAAAAGACTTCAAATG
1 TAATTAAAAAGACTTCAAATG
** **
25024265 TAATTATTTAAGGGTTCAAATG
1 TAATTA-AAAAGACTTCAAATG
*
25024287 TAATTAAAAAGATTTCAAATG
1 TAATTAAAAAGACTTCAAATG
25024308 TAAT
1 TAAT
25024312 CACTATGGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 21 0.55
22 17 0.45
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (21 bp):
TAATTAAAAAGACTTCAAATG
Found at i:25026426 original size:19 final size:19
Alignment explanation
Indices: 25026404--25026442 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25026394 AGTTTTCCAT
25026404 ATACAAAAT-AGTCGTTATA
1 ATAC-AAATGAGTCGTTATA
*
25026423 ATACAAATGAGTGGTTATA
1 ATACAAATGAGTCGTTATA
25026442 A
1 A
25026443 ATGTAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (19 bp):
ATACAAATGAGTCGTTATA
Found at i:25028483 original size:15 final size:15
Alignment explanation
Indices: 25028459--25028490 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25028449 TATGCATGCA
*
25028459 AAATATAAAAGACAT
1 AAATACAAAAGACAT
25028474 AAATACAAAAGACAT
1 AAATACAAAAGACAT
25028489 AA
1 AA
25028491 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:25029540 original size:29 final size:29
Alignment explanation
Indices: 25029497--25029572 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
25029487 GGGGGTGGGA
* *
25029497 TGAGAGGGGAATAAAAGTTATAGGGGAAAG
1 TGAGA-GGGAGTAAAAGTTATAAGGGAAAG
*
25029527 TGAGAGGGAGTAAAAGTTTTAAGGGAAAG
1 TGAGAGGGAGTAAAAGTTATAAGGGAAAG
*
25029556 TAAGAGGGAGTAAAAGT
1 TGAGAGGGAGTAAAAGT
25029573 ATTGGGGGGA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 37 0.88
30 5 0.12
ACGTcount: A:0.43, C:0.00, G:0.38, T:0.18
Consensus pattern (29 bp):
TGAGAGGGAGTAAAAGTTATAAGGGAAAG
Found at i:25029585 original size:29 final size:29
Alignment explanation
Indices: 25029503--25029587 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
25029493 GGGATGAGAG
* *
25029503 GGGAATAAAAGT-TATAGGGGAAAGTGAGA
1 GGGAGTAAAAGTAT-TAGGGGAAAGTAAGA
* *
25029532 GGGAGTAAAAGTTTTAAGGGAAAGTAAGA
1 GGGAGTAAAAGTATTAGGGGAAAGTAAGA
* *
25029561 GGGAGTAAAAGTATTGGGGGGAAGTAA
1 GGGAGTAAAAGTATTAGGGGAAAGTAA
25029588 AAAGGTTTGG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 47 0.98
30 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.39, T:0.19
Consensus pattern (29 bp):
GGGAGTAAAAGTATTAGGGGAAAGTAAGA
Found at i:25034806 original size:16 final size:15
Alignment explanation
Indices: 25034774--25034803 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25034764 TAGAAACTTC
25034774 CCACTACAACGGATT
1 CCACTACAACGGATT
*
25034789 CCACTACGACGGATT
1 CCACTACAACGGATT
25034804 TCCCTATGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (15 bp):
CCACTACAACGGATT
Found at i:25039108 original size:20 final size:18
Alignment explanation
Indices: 25039061--25039109 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
25039051 CAAGATAAAC
25039061 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
25039078 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
25039098 ATTAAATTAATA
1 ATTAAATTAATA
25039110 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:25049353 original size:15 final size:15
Alignment explanation
Indices: 25049333--25049392 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 15
25049323 GTAAGACGAA
25049333 ATTTTAAATTTTGTT
1 ATTTTAAATTTTGTT
*
25049348 ATTTTAAATTATGTT
1 ATTTTAAATTTTGTT
* *
25049363 AAATTTAAATAGTTTGTA
1 -ATTTTAAAT--TTTGTT
*
25049381 ATTTAAAATTTT
1 ATTTTAAATTTT
25049393 TATTGTGTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
15 17 0.47
16 8 0.22
17 7 0.19
18 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (15 bp):
ATTTTAAATTTTGTT
Found at i:25052292 original size:36 final size:35
Alignment explanation
Indices: 25052248--25052316 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
25052238 ACCACTCAAA
*
25052248 CCCTCTTCCTCACTTGTATCCTCTTTCTCGGTCAC
1 CCCTCTTCCTCACCTGTATCCTCTTTCTCGGTCAC
**
25052283 CCCTACTTCCTCACCTGTATGTTCTTTCTCGGTC
1 CCCT-CTTCCTCACCTGTATCCTCTTTCTCGGTC
25052317 GCATATTCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 4 0.13
36 26 0.87
ACGTcount: A:0.09, C:0.41, G:0.10, T:0.41
Consensus pattern (35 bp):
CCCTCTTCCTCACCTGTATCCTCTTTCTCGGTCAC
Found at i:25052328 original size:36 final size:36
Alignment explanation
Indices: 25052251--25052331 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
25052241 ACTCAAACCC
* * *
25052251 TCTTCCTCACTTGTATCCTCTTTCTCGGTCACCCCT
1 TCTTCCTCACCTGTATCCTCTTTCTCGGTCACACAT
* ** * *
25052287 ACTTCCTCACCTGTATGTTCTTTCTCGGTCGCATAT
1 TCTTCCTCACCTGTATCCTCTTTCTCGGTCACACAT
25052323 TCTTCCTCA
1 TCTTCCTCA
25052332 TTTGTACCTT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.11, C:0.37, G:0.10, T:0.42
Consensus pattern (36 bp):
TCTTCCTCACCTGTATCCTCTTTCTCGGTCACACAT
Done.