Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 42 of 189
Found at i:12418198 original size:22 final size:22
Alignment explanation
Indices: 12418168--12418210 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
12418158 AATAACATAG
* * *
12418168 TTTTGATAAATGCAGAAAAATC
1 TTTTAATAAATGAAAAAAAATC
12418190 TTTTAATAAATGAAAAAAAAT
1 TTTTAATAAATGAAAAAAAAT
12418211 TTGAACTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (22 bp):
TTTTAATAAATGAAAAAAAATC
Found at i:12420308 original size:19 final size:19
Alignment explanation
Indices: 12420286--12420332 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
12420276 AGTTAGATCT
12420286 AAATATATTTTTTA-TTAA
1 AAATATATTTTTTATTTAA
12420304 GAAATAT-TTTTTTATTTAA
1 -AAATATATTTTTTATTTAA
12420323 ATAATATATT
1 A-AATATATT
12420333 CTATGTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 8 0.32
19 15 0.60
20 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
AAATATATTTTTTATTTAA
Found at i:12420324 original size:16 final size:18
Alignment explanation
Indices: 12420285--12420325 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
12420275 TAGTTAGATC
12420285 TAAATATATTTTTTATTAA
1 TAAATATATTTTTTATT-A
*
12420304 GAAATAT-TTTTTTATT-
1 TAAATATATTTTTTATTA
12420320 TAAATA
1 TAAATA
12420326 ATATATTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TAAATATATTTTTTATTA
Found at i:12425752 original size:13 final size:13
Alignment explanation
Indices: 12425724--12425766 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
12425714 TAGTTCATTC
*
12425724 AAAAAAATTATAT
1 AAAAAATTTATAT
12425737 AAAAACATTTAT-T
1 AAAAA-ATTTATAT
12425750 -AAAAATTTATAT
1 AAAAAATTTATAT
12425762 AAAAA
1 AAAAA
12425767 TTAAATGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
11 6 0.23
12 5 0.19
13 10 0.38
14 5 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAAAATTTATAT
Found at i:12425753 original size:12 final size:12
Alignment explanation
Indices: 12425725--12425768 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
12425715 AGTTCATTCA
*
12425725 AAAAAATTATAT
1 AAAAATTTATAT
12425737 AAAAACATTTAT-T
1 -AAAA-ATTTATAT
12425750 AAAAATTTATAT
1 AAAAATTTATAT
12425762 AAAAATT
1 AAAAATT
12425769 AAATGAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 6 0.21
12 12 0.43
13 5 0.18
14 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (12 bp):
AAAAATTTATAT
Found at i:12437530 original size:29 final size:30
Alignment explanation
Indices: 12437468--12437531 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
12437458 AACCCTGTCC
* *
12437468 AAAAAATAAATAGACTAAATTCTTAAATTT
1 AAAAAATAAATAGACCAAATTCTCAAATTT
* *
12437498 -AAAAGTACATAGACCAAATT-TCAAATTT
1 AAAAAATAAATAGACCAAATTCTCAAATTT
12437526 AAAAAA
1 AAAAAA
12437532 GTATAAATGG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.58, C:0.09, G:0.05, T:0.28
Consensus pattern (30 bp):
AAAAAATAAATAGACCAAATTCTCAAATTT
Found at i:12438717 original size:21 final size:22
Alignment explanation
Indices: 12438691--12438733 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
12438681 TATTAAATAC
12438691 TTTTATT-TACATTTTC-CAAAA
1 TTTTATTATAC-TTTTCTCAAAA
12438712 TTTTATTATACTTTTCTCAAAA
1 TTTTATTATACTTTTCTCAAAA
12438734 ATCCAATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTTATTATACTTTTCTCAAAA
Found at i:12439718 original size:17 final size:16
Alignment explanation
Indices: 12439685--12439714 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12439675 ATTTGTTTTT
12439685 ACTTTATTTTATAATC
1 ACTTTATTTTATAATC
12439701 ACTTTATTTT-TAAT
1 ACTTTATTTTATAAT
12439715 ATCATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (16 bp):
ACTTTATTTTATAATC
Found at i:12451305 original size:26 final size:26
Alignment explanation
Indices: 12451273--12451325 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
12451263 TTAATCAAAT
*
12451273 TAATCGATTTAATTGAATTATTTCAG
1 TAATCGATCTAATTGAATTATTTCAG
12451299 TAATCGATCTAATTGAATTATTTCAG
1 TAATCGATCTAATTGAATTATTTCAG
12451325 T
1 T
12451326 CAGCCATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (26 bp):
TAATCGATCTAATTGAATTATTTCAG
Found at i:12451442 original size:62 final size:62
Alignment explanation
Indices: 12451371--12451495 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 62
12451361 AGTTTTTTGA
* * *
12451371 ATTTTTAGTTAACGATTAATTCGGTTCAAAATTAAATAATTGACCGATTACTTAAAATTATT
1 ATTTTTAGTTAACGATTAATTCAGTTCAAAATCAAATAATTAACCGATTACTTAAAATTATT
12451433 ATTTTTAGTTAACGATTAATTCAGTTCAAAATCAAATAATTAACCGATTACTTAAAATTATT
1 ATTTTTAGTTAACGATTAATTCAGTTCAAAATCAAATAATTAACCGATTACTTAAAATTATT
12451495 A
1 A
12451496 ATAATAAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (62 bp):
ATTTTTAGTTAACGATTAATTCAGTTCAAAATCAAATAATTAACCGATTACTTAAAATTATT
Found at i:12451814 original size:93 final size:93
Alignment explanation
Indices: 12451709--12451884 Score: 246
Period size: 93 Copynumber: 1.9 Consensus size: 93
12451699 TCTCAAACTC
** * *
12451709 AAAACAAAGTCTAGGTAGAGATGGTAATTTTTCGGATAATAAAAATACTATCCGTTACGGATGC-
1 AAAACAAAGTCTAGGTAGAGATGACAATTTTTCGAATAATAAAAATACTATCCGATACGGATGCA
12451773 GTATTTAACCCCATGAATAATGGATAGTA
66 G-ATTTAACCCCATGAATAATGGATAGTA
* * ** *
12451802 AAAACAAAGTCTAGGTAGAGATGACAATTTTTCGAATAGTAAAAATATTATTTGATGCGGATGCA
1 AAAACAAAGTCTAGGTAGAGATGACAATTTTTCGAATAATAAAAATACTATCCGATACGGATGCA
*
12451867 GATTTAACCCCTTGAATA
66 GATTTAACCCCATGAATA
12451885 TCTCAATTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
93 71 0.99
94 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (93 bp):
AAAACAAAGTCTAGGTAGAGATGACAATTTTTCGAATAATAAAAATACTATCCGATACGGATGCA
GATTTAACCCCATGAATAATGGATAGTA
Found at i:12453460 original size:31 final size:32
Alignment explanation
Indices: 12453420--12453479 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
12453410 TTTTTTAAAA
12453420 AATATATTT-ATATTATTTTTAATTT-TTAATTT
1 AATATATTTAATA-TATTTTT-ATTTATTAATTT
12453452 AATA-ATTTAATATATTTTTATTTATTAA
1 AATATATTTAATATATTTTTATTTATTAA
12453480 AATTTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 4 0.15
31 15 0.58
32 7 0.27
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (32 bp):
AATATATTTAATATATTTTTATTTATTAATTT
Found at i:12457322 original size:21 final size:22
Alignment explanation
Indices: 12457280--12457322 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
12457270 CCAATTAATC
12457280 TAGCCCAAACACTAAACCCAAT
1 TAGCCCAAACACTAAACCCAAT
* *
12457302 TAGCCTAAAC-CTAAGCCCAAT
1 TAGCCCAAACACTAAACCCAAT
12457323 ACCCTGGCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.42, C:0.35, G:0.07, T:0.16
Consensus pattern (22 bp):
TAGCCCAAACACTAAACCCAAT
Found at i:12465556 original size:16 final size:16
Alignment explanation
Indices: 12465535--12465565 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12465525 TAAATTTTAT
*
12465535 ATAATATTTTAAAAAA
1 ATAATATTGTAAAAAA
12465551 ATAATATTGTAAAAA
1 ATAATATTGTAAAAA
12465566 TTATTTTACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
ATAATATTGTAAAAAA
Found at i:12481032 original size:15 final size:15
Alignment explanation
Indices: 12481012--12481089 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
12481002 TTTATGGAAA
12481012 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
12481027 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
12481041 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
12481057 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
12481071 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
12481087 ATC
1 ATC
12481090 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:12481041 original size:30 final size:30
Alignment explanation
Indices: 12481005--12481089 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
12480995 ATCCATATTT
*
12481005 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
12481035 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
12481065 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
12481090 GAGATATTGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:12485685 original size:15 final size:15
Alignment explanation
Indices: 12485665--12485712 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
12485655 TTTATGAAAA
12485665 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
12485680 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
12485694 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
12485710 ATC
1 ATC
12485713 GAGATATTGA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 4 0.16
15 17 0.68
16 4 0.16
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:12487984 original size:30 final size:31
Alignment explanation
Indices: 12487948--12488016 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
12487938 TGGTTTGAAT
12487948 TTAGTCACTCAAC-TT-TCAAAAAATAACAAA
1 TTAGTCACT-AACGTTATCAAAAAATAACAAA
* *
12487978 TTAGTCACTAACGTTATCAAAAAGTGACAAA
1 TTAGTCACTAACGTTATCAAAAAATAACAAA
*
12488009 TCAGTCAC
1 TTAGTCAC
12488017 CTATTAACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 11 0.32
31 20 0.59
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.26
Consensus pattern (31 bp):
TTAGTCACTAACGTTATCAAAAAATAACAAA
Found at i:12488199 original size:58 final size:57
Alignment explanation
Indices: 12488130--12488238 Score: 157
Period size: 58 Copynumber: 1.9 Consensus size: 57
12488120 GAAAGGGACG
12488130 AGCAAAAAAGAAAAAGAAAAAGAA-AAAAAAGGGGAGATTGAAATTTGGGATGGGTTA
1 AGCAAAAAAGAAAAAGAAAAAGAAGAAAAAA-GGGAGATTGAAATTTGGGATGGGTTA
* * * *
12488187 AGCAATAAAAGAAGAATAAGAAGAAGTAAAAAGGGAGATTGAAATTTGGGAT
1 AGCAA-AAAAGAAAAAGAAAAAGAAGAAAAAAGGGAGATTGAAATTTGGGAT
12488239 AGGTCGGCTT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
57 5 0.11
58 36 0.78
59 5 0.11
ACGTcount: A:0.55, C:0.02, G:0.28, T:0.16
Consensus pattern (57 bp):
AGCAAAAAAGAAAAAGAAAAAGAAGAAAAAAGGGAGATTGAAATTTGGGATGGGTTA
Found at i:12488561 original size:6 final size:7
Alignment explanation
Indices: 12488535--12488560 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
12488525 TGGACGGGCA
12488535 AAAAAAG
1 AAAAAAG
12488542 AAAAAAG
1 AAAAAAG
12488549 AAAAAAG
1 AAAAAAG
12488556 AAAAA
1 AAAAA
12488561 GGGGAGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:12488885 original size:22 final size:23
Alignment explanation
Indices: 12488842--12488888 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
12488832 GGCATCTCCA
*
12488842 TTTTTTCTTTCTTCTTCTTCTTC
1 TTTTTCCTTTCTTCTTCTTCTTC
* *
12488865 TTTTTCCTTTGTTTTTC-TCTTC
1 TTTTTCCTTTCTTCTTCTTCTTC
12488887 TT
1 TT
12488889 CTTCTACTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTTTCCTTTCTTCTTCTTCTTC
Found at i:12491672 original size:13 final size:12
Alignment explanation
Indices: 12491655--12491711 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 12
12491645 TTTTAATTTT
12491655 AAATTTTTTAAA
1 AAATTTTTTAAA
12491667 AGAATTTAATTTAAA
1 A-AATTT--TTTAAA
*
12491682 AAATGGTTTT-AA
1 AAAT-TTTTTAAA
12491694 AAATATTTTTAAA
1 AAAT-TTTTTAAA
12491707 AAATT
1 AAATT
12491712 ATTAAAACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
12 12 0.32
13 14 0.38
14 3 0.08
15 8 0.22
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (12 bp):
AAATTTTTTAAA
Found at i:12491702 original size:11 final size:11
Alignment explanation
Indices: 12491676--12491728 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
12491666 AAGAATTTAA
12491676 TTTAAAAAATGGT
1 TTTAAAAAAT--T
12491689 TTTAAAAATATT
1 TTTAAAAA-ATT
12491701 TTTAAAAAATT
1 TTTAAAAAATT
* *
12491712 ATTAAAACAATA
1 TTTAAAA-AATT
12491724 TTTAA
1 TTTAA
12491729 TGTATTATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 9 0.26
12 16 0.46
13 8 0.23
14 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (11 bp):
TTTAAAAAATT
Found at i:12499831 original size:29 final size:29
Alignment explanation
Indices: 12499794--12499850 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
12499784 GAAATATATT
12499794 AAATATATATTAAGT-TTTTTATGTTTAAA
1 AAATATATA-TAAGTATTTTTATGTTTAAA
**
12499823 AAATATATATATTTATTTTTATGTTTAA
1 AAATATATATAAGTATTTTTATGTTTAA
12499851 GTTTTTAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.54
Consensus pattern (29 bp):
AAATATATATAAGTATTTTTATGTTTAAA
Found at i:12502741 original size:92 final size:92
Alignment explanation
Indices: 12502642--12502856 Score: 385
Period size: 92 Copynumber: 2.3 Consensus size: 92
12502632 ATGCTACAAT
* *
12502642 TTTTAACCTATTTGTATATTTAATAAAATATGAACCTATTTGTATCAAAGTTTGCATATAAGCTA
1 TTTTAACCTATTTGTATATTTAATAAAATATAAACCTATTTGTATCAAAGTATGCATATAAGCTA
* *
12502707 CAATTTAGACAGCAAGTATGCATTTTG
66 CAAGTTAAACAGCAAGTATGCATTTTG
12502734 TTTTAACCTATTTGTATATTTAATAAAATATAAACCTATTTGTATCAAAGTATGCATATAAGCTA
1 TTTTAACCTATTTGTATATTTAATAAAATATAAACCTATTTGTATCAAAGTATGCATATAAGCTA
*
12502799 TAAGTTAAACAGCAAGTATGCATTTTG
66 CAAGTTAAACAGCAAGTATGCATTTTG
12502826 TTTTAACCTATTTGTATATTTAATAAAATAT
1 TTTTAACCTATTTGTATATTTAATAAAATAT
12502857 TTGTATATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 118 1.00
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (92 bp):
TTTTAACCTATTTGTATATTTAATAAAATATAAACCTATTTGTATCAAAGTATGCATATAAGCTA
CAAGTTAAACAGCAAGTATGCATTTTG
Found at i:12504090 original size:60 final size:62
Alignment explanation
Indices: 12503961--12504090 Score: 169
Period size: 60 Copynumber: 2.1 Consensus size: 62
12503951 TTGGTTTTAA
*
12503961 GATTGGTAAATCCTGCACATGTAATATTGGTAAATGATAGCAATTGAAAGTGATAACATTGT
1 GATTGGTAAATCCTGCACATGTAATATTGGTAAAGGATAGCAATTGAAAGTGATAACATTGT
* * *
12504023 TATTTGGTAAATCCTGCACATAG-CA-ATT-G-ACAGGATAGCAATTGAAAGTGATAACATTGGT
1 GA-TTGGTAAATCCTGCACAT-GTAATATTGGTAAAGGATAGCAATTGAAAGTGATAACATT-GT
12504084 GATTGGT
1 GATTGGT
12504091 GTAATATTGG
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
60 32 0.53
61 4 0.07
62 4 0.07
63 19 0.32
64 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (62 bp):
GATTGGTAAATCCTGCACATGTAATATTGGTAAAGGATAGCAATTGAAAGTGATAACATTGT
Found at i:12504211 original size:9 final size:9
Alignment explanation
Indices: 12504195--12504245 Score: 65
Period size: 9 Copynumber: 6.1 Consensus size: 9
12504185 TTTTGTTACA
12504195 ACAATTAAT
1 ACAATTAAT
*
12504204 ATAATTAAT
1 ACAATTAAT
12504213 ACAATT-A-
1 ACAATTAAT
12504220 ACAATT-A-
1 ACAATTAAT
12504227 ACAATTAAT
1 ACAATTAAT
12504236 ACAATTAAT
1 ACAATTAAT
12504245 A
1 A
12504246 ATTTGATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
7 13 0.34
8 2 0.05
9 23 0.61
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (9 bp):
ACAATTAAT
Found at i:12504343 original size:22 final size:23
Alignment explanation
Indices: 12504318--12504367 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
12504308 AATAATTTGA
* * *
12504318 TAATTTTA-CTAACAATTAGTTT
1 TAATTTTATCAAAAAATTAATTT
12504340 TAATTTTATCAAAAAATTAATTT
1 TAATTTTATCAAAAAATTAATTT
12504363 TAATT
1 TAATT
12504368 AAAAACGGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (23 bp):
TAATTTTATCAAAAAATTAATTT
Found at i:12504358 original size:66 final size:68
Alignment explanation
Indices: 12504227--12504360 Score: 170
Period size: 66 Copynumber: 2.0 Consensus size: 68
12504217 TTAACAATTA
* * *
12504227 ACAATTAATACAATTAATAATTTGATAATTTTACTAATCAAATGTTAGATTTTGTTACAACAATT
1 ACAATTAATACAATTAATAATTTGATAATTTTACTAATCAAATGTTAGATTTTATCACAAAAATT
12504292 AAT
66 AAT
*
12504295 ACAATTAA-A-AATTAATAATTTGATAATTTTACTAA-CAATTAGTTTTA-ATTTTATCA-AAAA
1 ACAATTAATACAATTAATAATTTGATAATTTTACTAATCAA--A-TGTTAGATTTTATCACAAAA
12504355 ATTAAT
63 ATTAAT
12504361 TTTAATTAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
65 3 0.05
66 35 0.59
67 9 0.15
68 12 0.20
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.42
Consensus pattern (68 bp):
ACAATTAATACAATTAATAATTTGATAATTTTACTAATCAAATGTTAGATTTTATCACAAAAATT
AAT
Found at i:12505738 original size:31 final size:31
Alignment explanation
Indices: 12505681--12505761 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
12505671 TCACTTAGTT
**
12505681 AAAAAATTTATAATTT-AGTCATTAAACTATTC
1 AAAAAATTT-T-ATTTAAGTCCCTAAACTATTC
*
12505713 -AAAAGTTTTCATTTAAGTCCCTAAACTATTC
1 AAAAAATTTT-ATTTAAGTCCCTAAACTATTC
12505744 AAAAAATTTTATTTAAGT
1 AAAAAATTTTATTTAAGT
12505762 TACTGGGTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
30 5 0.12
31 29 0.69
32 8 0.19
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (31 bp):
AAAAAATTTTATTTAAGTCCCTAAACTATTC
Found at i:12514473 original size:11 final size:11
Alignment explanation
Indices: 12514459--12514490 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
12514449 TTTTCGTTAG
12514459 AATTTCATTAA
1 AATTTCATTAA
12514470 AATTTCATTAA
1 AATTTCATTAA
*
12514481 AATTTAATTA
1 AATTTCATTA
12514491 GATGCCCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (11 bp):
AATTTCATTAA
Found at i:12517308 original size:26 final size:27
Alignment explanation
Indices: 12517279--12517330 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
12517269 AGCGTTTTTT
12517279 TACTAAAATAGG-GTAAAAAAAATTTG
1 TACTAAAATAGGAGTAAAAAAAATTTG
* *
12517305 TACTGAAATAGGATGTCAAAAAAATT
1 TACTAAAATAGGA-GTAAAAAAAATT
12517331 ATTTACGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 11 0.50
28 11 0.50
ACGTcount: A:0.52, C:0.06, G:0.15, T:0.27
Consensus pattern (27 bp):
TACTAAAATAGGAGTAAAAAAAATTTG
Found at i:12517540 original size:27 final size:27
Alignment explanation
Indices: 12517505--12517586 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
12517495 TACATAGTAT
* *
12517505 TGGTGCCTATCTCAGAGGCGCCAATGG
1 TGGTGCCTATTTGAGAGGCGCCAATGG
* *
12517532 TGGTGCCTATTTGAGAGGCGCCACTAG
1 TGGTGCCTATTTGAGAGGCGCCAATGG
*
12517559 TGCTGCCT-TGTTGAGAGGCGCCAATGG
1 TGGTGCCTAT-TTGAGAGGCGCCAATGG
12517586 T
1 T
12517587 CTGATTTTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.02
27 46 0.98
ACGTcount: A:0.17, C:0.23, G:0.34, T:0.26
Consensus pattern (27 bp):
TGGTGCCTATTTGAGAGGCGCCAATGG
Found at i:12517684 original size:18 final size:20
Alignment explanation
Indices: 12517649--12517700 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
12517639 CGAAAGAAAT
*
12517649 AAAAAGGAAGGCAGAAGA-A
1 AAAAAGAAAGGCAGAAGAGA
*
12517668 AAAAAGAAAGGGA-AAGAGA
1 AAAAAGAAAGGCAGAAGAGA
*
12517687 AAAATGATAAGGCA
1 AAAAAGA-AAGGCA
12517701 TTTTGGTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 4 0.15
19 18 0.67
20 5 0.19
ACGTcount: A:0.63, C:0.04, G:0.29, T:0.04
Consensus pattern (20 bp):
AAAAAGAAAGGCAGAAGAGA
Found at i:12520971 original size:27 final size:23
Alignment explanation
Indices: 12520933--12521000 Score: 93
Period size: 22 Copynumber: 2.8 Consensus size: 23
12520923 ATATATCCTG
12520933 AAATTACAATATTCATACAAAATTAAA
1 AAATTACAATATTCATAC--AA--AAA
12520960 AAATTACAATATTCATAC-AAAA
1 AAATTACAATATTCATACAAAAA
12520982 AAATTACAATATTCATACA
1 AAATTACAATATTCATACA
12521001 GAATACTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
22 21 0.52
24 1 0.03
27 18 0.45
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.29
Consensus pattern (23 bp):
AAATTACAATATTCATACAAAAA
Found at i:12521068 original size:19 final size:19
Alignment explanation
Indices: 12521044--12521105 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
12521034 ATTATAAAAT
12521044 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
12521063 AATTACAATATTCATACAAAA
1 AATTACAATATTCATAC--AA
*
12521084 AATTAGAATATTCATACAA
1 AATTACAATATTCATACAA
12521103 AAT
1 AAT
12521106 ACTAATCCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 22 0.55
21 18 0.45
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.31
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:12521282 original size:4 final size:4
Alignment explanation
Indices: 12521273--12521306 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
12521263 ACATTACCTT
12521273 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
12521307 CTTATTCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:12521483 original size:27 final size:27
Alignment explanation
Indices: 12521453--12521516 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
12521443 AGAAGGCCAC
*
12521453 CATTGGTGCCTC-CTTATGAGGCACATT
1 CATTGGCGCCTCTC-TATGAGGCACATT
12521480 CATTGGCGCCTCTCTATGAGGCACATT
1 CATTGGCGCCTCTCTATGAGGCACATT
12521507 CATTGGCGCC
1 CATTGGCGCC
12521517 AACTTGATAG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.17, C:0.30, G:0.23, T:0.30
Consensus pattern (27 bp):
CATTGGCGCCTCTCTATGAGGCACATT
Found at i:12523258 original size:49 final size:49
Alignment explanation
Indices: 12523192--12523309 Score: 132
Period size: 49 Copynumber: 2.4 Consensus size: 49
12523182 TCCCGATATT
* * **
12523192 TGGCTCTCATGACCTTCCCAATTAA-TGGCTTTCTTGAGATTCCTGTT-TA
1 TGGCTCT-ATGAGCTTCCCAA-TAATTGGCTTGCAAGAGATTCCTGTTATA
*
12523241 TGGCTCGTATGAGCTTCCCAATAATTGGCTTGCAAGAGCTTCCTGTTATA
1 TGGCTC-TATGAGCTTCCCAATAATTGGCTTGCAAGAGATTCCTGTTATA
*
12523291 TGGCTCACATGAGCTTCCC
1 TGGCTC-TATGAGCTTCCC
12523310 GTTATATGGC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
48 3 0.05
49 36 0.61
50 20 0.34
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (49 bp):
TGGCTCTATGAGCTTCCCAATAATTGGCTTGCAAGAGATTCCTGTTATA
Found at i:12523294 original size:74 final size:74
Alignment explanation
Indices: 12523157--12523331 Score: 176
Period size: 74 Copynumber: 2.3 Consensus size: 74
12523147 CTTATGAGCA
* * *
12523157 TCCTGTTATATGGCTCTCATGAGCTTCCCGATATTTGGCTCTCATGACCTTCCCAATTAATGGCT
1 TCCTGTTATATGGCTCT-ATGAGCTTCCCAATAATTGGCTCTCAAGACCTTCCCAATTAATGGCT
** *
12523222 TTCTTGAGAT
65 CACATGAGAT
* **
12523232 TCCTGTT-TATGGCTCGTATGAGCTTCCCAATAATTGGCT-TGCAAGAGCTT-CCTGTTATATGG
1 TCCTGTTATATGGCTC-TATGAGCTTCCCAATAATTGGCTCT-CAAGACCTTCCCAATTA-ATGG
*
12523294 CTCACATGAGCT
63 CTCACATGAGAT
* *
12523306 TCCCGTTATATGGCTCACATGAGCTT
1 TCCTGTTATATGGCTC-TATGAGCTT
12523332 TCCGTTACAT
Statistics
Matches: 83, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
73 6 0.07
74 53 0.64
75 24 0.29
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (74 bp):
TCCTGTTATATGGCTCTATGAGCTTCCCAATAATTGGCTCTCAAGACCTTCCCAATTAATGGCTC
ACATGAGAT
Found at i:12523330 original size:25 final size:25
Alignment explanation
Indices: 12523150--12523360 Score: 158
Period size: 25 Copynumber: 8.5 Consensus size: 25
12523140 TTTAGCTCTT
* * *
12523150 ATGAGCATCCTGTTATATGGCTCTC
1 ATGAGCTTCCCGTTATATGGCTCAC
* * *
12523175 ATGAGCTTCCCGATATTTGGCTCTC
1 ATGAGCTTCCCGTTATATGGCTCAC
* * **
12523200 ATGACCTTCCCAATTA-ATGGCTTTC
1 ATGAGCTTCCC-GTTATATGGCTCAC
* * * **
12523225 TTGAGATTCCTGTT-TATGGCTCGT
1 ATGAGCTTCCCGTTATATGGCTCAC
** **
12523249 ATGAGCTTCCCAATA-ATTGGCTTGC
1 ATGAGCTTCCCGTTATA-TGGCTCAC
* *
12523274 AAGAGCTTCCTGTTATATGGCTCAC
1 ATGAGCTTCCCGTTATATGGCTCAC
12523299 ATGAGCTTCCCGTTATATGGCTCAC
1 ATGAGCTTCCCGTTATATGGCTCAC
* * *
12523324 ATGAGCTTTCCGTTACATGGCTCAA
1 ATGAGCTTCCCGTTATATGGCTCAC
*
12523349 AAGAGCTTCCCG
1 ATGAGCTTCCCG
12523361 ATTACATACT
Statistics
Matches: 144, Mismatches: 37, Indels: 10
0.75 0.19 0.05
Matches are distributed among these distances:
24 18 0.12
25 123 0.85
26 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATGGCTCAC
Found at i:12533537 original size:35 final size:35
Alignment explanation
Indices: 12533491--12533562 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
12533481 GTTGTATTTG
12533491 GTTGCAAGATGGCTTGTGTAACGACCTGGTTTTCA
1 GTTGCAAGATGGCTTGTGTAACGACCTGGTTTTCA
**
12533526 GTTGCAAGATGGCTTGTGTAACGGTCTGGTTTTCA
1 GTTGCAAGATGGCTTGTGTAACGACCTGGTTTTCA
12533561 GT
1 GT
12533563 GGTGTCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.18, C:0.15, G:0.31, T:0.36
Consensus pattern (35 bp):
GTTGCAAGATGGCTTGTGTAACGACCTGGTTTTCA
Found at i:12534018 original size:17 final size:17
Alignment explanation
Indices: 12533998--12534032 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
12533988 AATTTTAATT
**
12533998 ATAATAAAGTAAATAAA
1 ATAATAAAACAAATAAA
12534015 ATAATAAAACAAATAAA
1 ATAATAAAACAAATAAA
12534032 A
1 A
12534033 GGAAAAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (17 bp):
ATAATAAAACAAATAAA
Found at i:12540628 original size:19 final size:18
Alignment explanation
Indices: 12540604--12540676 Score: 56
Period size: 19 Copynumber: 3.9 Consensus size: 18
12540594 TTTTTCTTCT
12540604 CTTCAACAGAAAGCAAAAA
1 CTTCAACAGAAA-CAAAAA
**
12540623 CTTCAACTCAAACAAAAGA
1 CTTCAACAGAAACAAAA-A
* *
12540642 CTTAAATAGAAACACAAAA
1 CTTCAACAGAAACA-AAAA
* * *
12540661 CATCAATAGAAGCAAA
1 CTTCAACAGAAACAAA
12540677 TTTTTGGTTG
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
18 7 0.16
19 33 0.77
20 3 0.07
ACGTcount: A:0.58, C:0.21, G:0.08, T:0.14
Consensus pattern (18 bp):
CTTCAACAGAAACAAAAA
Found at i:12550909 original size:33 final size:33
Alignment explanation
Indices: 12550867--12550932 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
12550857 AAAATTGTTT
12550867 TATAAAATTGTTTATTTTACACGTACGTGCAAA
1 TATAAAATTGTTTATTTTACACGTACGTGCAAA
12550900 TATAAAATTGTTTATTTTACACGTACGTGCAAA
1 TATAAAATTGTTTATTTTACACGTACGTGCAAA
12550933 CTCACCGATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (33 bp):
TATAAAATTGTTTATTTTACACGTACGTGCAAA
Found at i:12552874 original size:3 final size:3
Alignment explanation
Indices: 12552862--12552953 Score: 93
Period size: 3 Copynumber: 31.3 Consensus size: 3
12552852 ATTTTTTAGC
* *
12552862 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TA- TGT TAT TAT CAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
12552907 TAC CAT TATT TAT TAT TA- TAT TATT TAT TAT CAT TAT TAT TAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
12552953 T
1 T
12552954 TCTATATTCA
Statistics
Matches: 74, Mismatches: 9, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
2 7 0.09
3 61 0.82
4 6 0.08
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:12553680 original size:17 final size:17
Alignment explanation
Indices: 12553658--12553698 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
12553648 CAAATTTTCT
**
12553658 TATATATTGTACTTATA
1 TATATATTGTAAATATA
12553675 TATATATTGTAAATATA
1 TATATATTGTAAATATA
12553692 TATATAT
1 TATATAT
12553699 AATTCATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (17 bp):
TATATATTGTAAATATA
Found at i:12556103 original size:11 final size:10
Alignment explanation
Indices: 12556086--12556114 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
12556076 TCAAAGAATA
12556086 TAAAAAAATT
1 TAAAAAAATT
12556096 TAAAAAAATT
1 TAAAAAAATT
12556106 TAAAAAAAT
1 TAAAAAAAT
12556115 CTATAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAAAAAATT
Found at i:12557264 original size:22 final size:19
Alignment explanation
Indices: 12557217--12557255 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
12557207 TGGAAGGCTG
12557217 AAAGAAAGGAAACAAAATC
1 AAAGAAAGGAAACAAAATC
12557236 AAAGAAAGAAGAAACAAAAT
1 AAAGAAAG--GAAACAAAAT
12557256 ATAAAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
21 10 0.56
ACGTcount: A:0.72, C:0.08, G:0.15, T:0.05
Consensus pattern (19 bp):
AAAGAAAGGAAACAAAATC
Found at i:12557870 original size:29 final size:30
Alignment explanation
Indices: 12557813--12557870 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
12557803 GGCTCGGGTG
* * *
12557813 ACTGATTTGTCACTTTCATAAAGTTTAGTA
1 ACTGAGTTGTAACTTTCATAAAGTGTAGTA
*
12557843 ACTGAGTTGTAACTTT-TTAAAGTGTAGT
1 ACTGAGTTGTAACTTTCATAAAGTGTAGT
12557871 GACTATTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.43
Consensus pattern (30 bp):
ACTGAGTTGTAACTTTCATAAAGTGTAGTA
Found at i:12558032 original size:18 final size:18
Alignment explanation
Indices: 12558011--12558063 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
12558001 ATAAAATATA
12558011 AAAATTCAAAAAAATTAT
1 AAAATTCAAAAAAATTAT
*
12558029 AAAATTCATAAAAGAACTAT
1 AAAATTCA-AAAA-AATTAT
* *
12558049 TAAATTAAAAAAAAT
1 AAAATTCAAAAAAAT
12558064 CAAAACTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 10 0.34
19 8 0.28
20 11 0.38
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAATTCAAAAAAATTAT
Found at i:12558053 original size:20 final size:18
Alignment explanation
Indices: 12558011--12558061 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
12558001 ATAAAATATA
*
12558011 AAAATTCAAAAAAATTAT
1 AAAATTCAAAAAAACTAT
12558029 AAAATTCATAAAAGAACTAT
1 AAAATTCA-AAAA-AACTAT
*
12558049 TAAATT-AAAAAAA
1 AAAATTCAAAAAAA
12558062 ATCAAAACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 2 0.07
18 12 0.41
19 5 0.17
20 10 0.34
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAATTCAAAAAAACTAT
Found at i:12558146 original size:19 final size:19
Alignment explanation
Indices: 12558124--12558172 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
12558114 AACACAATAT
12558124 AAAATATAAATAATTCAAA
1 AAAATATAAATAATTCAAA
* * *
12558143 AAAATCTAAA-ATTTTAAA
1 AAAATATAAATAATTCAAA
12558161 AAATATATAAAT
1 AAA-ATATAAAT
12558173 TAAAATGATC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATATAAATAATTCAAA
Found at i:12571688 original size:90 final size:90
Alignment explanation
Indices: 12571574--12571759 Score: 230
Period size: 90 Copynumber: 2.1 Consensus size: 90
12571564 TTAGTGTTTT
** *
12571574 GTGTTTTGTGATTTTTTAGTAATGTAAAATATTAAAAAA-ATATTTTATAGTTATTTCGTTAGTA
1 GTGTTTTGTGATTTAATAGTAATGTAAAATATTAAAAAATA-ATGTTATAGTTATTTCGTTAGTA
12571638 ATTTATAATTAGTTTACAAATTGTTA
65 ATTTATAATTAGTTTACAAATTGTTA
* * ****** *
12571664 GTGTTTTGTGATTTAATAGTAATGTAAATTCTTTTTTTTTAATGTTATAGTTATTTTGTTAGTAA
1 GTGTTTTGTGATTTAATAGTAATGTAAAATATTAAAAAATAATGTTATAGTTATTTCGTTAGTAA
* *
12571729 TTTATGATTAGTTTATAAATTGTTA
66 TTTATAATTAGTTTACAAATTGTTA
12571754 GTGTTT
1 GTGTTT
12571760 AGTTTATGGT
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
90 80 0.99
91 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.54
Consensus pattern (90 bp):
GTGTTTTGTGATTTAATAGTAATGTAAAATATTAAAAAATAATGTTATAGTTATTTCGTTAGTAA
TTTATAATTAGTTTACAAATTGTTA
Found at i:12571840 original size:104 final size:106
Alignment explanation
Indices: 12571703--12571904 Score: 322
Period size: 106 Copynumber: 1.9 Consensus size: 106
12571693 TCTTTTTTTT
*
12571703 TAATGTTATAGTTATTTTGTTAGTAATTTATGATTA-GTT-TATAAATTGTTAGTGTTTAGTTTA
1 TAATGTTATAGTTATTTTGTTAGTAATTAATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTA
12571766 -TGGTTTTGTGATTTTTTAGTAATGTAA-TTTTTAAAAAAAA
66 GT-GTTTTGTGATTTTTTAGTAATGTAACTTTTTAAAAAAAA
* *
12571806 TAATTTTATAGTTTTTTTTGTTAGTAATTAATGATTAGGTTATATAAATTGTTAGTGTTTAGTTT
1 TAATGTTATAG-TTATTTTGTTAGTAATTAATGATTAGGTTATATAAATTGTTAGTGTTTAGTTT
*
12571871 AGTGTTTTGTGATTTTTTATTAATGTAACTTTTT
65 AGTGTTTTGTGATTTTTTAGTAATGTAACTTTTT
12571905 TATAATGTAA
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
103 10 0.11
104 23 0.26
105 3 0.03
106 48 0.53
107 6 0.07
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.56
Consensus pattern (106 bp):
TAATGTTATAGTTATTTTGTTAGTAATTAATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTA
GTGTTTTGTGATTTTTTAGTAATGTAACTTTTTAAAAAAAA
Found at i:12571910 original size:16 final size:16
Alignment explanation
Indices: 12571882--12571918 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
12571872 GTGTTTTGTG
12571882 ATTTTTTATTAATGTA
1 ATTTTTTATTAATGTA
12571898 ACTTTTTTA-TAATGTA
1 A-TTTTTTATTAATGTA
12571914 ATTTT
1 ATTTT
12571919 ATTTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 9 0.45
17 7 0.35
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (16 bp):
ATTTTTTATTAATGTA
Found at i:12571916 original size:106 final size:102
Alignment explanation
Indices: 12571661--12571920 Score: 319
Period size: 106 Copynumber: 2.5 Consensus size: 102
12571651 TTACAAATTG
** * * *
12571661 TTAGTGTTTTGTGATTTAATAGTAATGTAAATTCTTTT-T-TTTTAATGTTATAGTTATTTTGTT
1 TTAGTGTTTTGTGATTTTTTAGTAATGT-AATT-TTTTATAATATAATTTTATAGTTATTTTGTT
*
12571724 AGTAATTTATGATTAGTTTATAAATTGTTAGTGTTTAGT
64 AGTAATTAATGATTAGTTTATAAATTGTTAGTGTTTAGT
* * * *
12571763 TTA-TGGTTTTGTGATTTTTTAGTAATGTAATTTTTAAAAAAAATAATTTTATAGTTTTTTTTGT
1 TTAGT-GTTTTGTGATTTTTTAGTAATGTAATTTTT-TATAATATAATTTTATAG-TTATTTTGT
12571827 TAGTAATTAATGATTAGGTTATATAAATTGTTAGTGTTTAGT
63 TAGTAATTAATGATTA-GTT-TATAAATTGTTAGTGTTTAGT
* *
12571869 TTAGTGTTTTGTGATTTTTTATTAATGTAACTTTTTTATAATGTAATTTTAT
1 TTAGTGTTTTGTGATTTTTTAGTAATGTAA-TTTTTTATAATATAATTTTAT
12571921 TTTTATTTGA
Statistics
Matches: 134, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
100 3 0.02
101 5 0.04
102 24 0.18
103 10 0.07
104 23 0.17
105 3 0.02
106 60 0.45
107 6 0.04
ACGTcount: A:0.28, C:0.01, G:0.15, T:0.57
Consensus pattern (102 bp):
TTAGTGTTTTGTGATTTTTTAGTAATGTAATTTTTTATAATATAATTTTATAGTTATTTTGTTAG
TAATTAATGATTAGTTTATAAATTGTTAGTGTTTAGT
Found at i:12579843 original size:13 final size:12
Alignment explanation
Indices: 12579809--12579849 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
12579799 AATTATGAAC
12579809 GAAAAGAAAAAA
1 GAAAAGAAAAAA
12579821 GAAAAGAAAAGAA
1 GAAAAGAAAA-AA
*
12579834 GAACA-AAAAAA
1 GAAAAGAAAAAA
12579845 GAAAA
1 GAAAA
12579850 AAGAGAGGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 6 0.23
12 14 0.54
13 6 0.23
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (12 bp):
GAAAAGAAAAAA
Found at i:12581299 original size:89 final size:89
Alignment explanation
Indices: 12581148--12581578 Score: 519
Period size: 89 Copynumber: 4.8 Consensus size: 89
12581138 CCTTGAAATT
* * * * * ** * *
12581148 ACAGCGGAGTAGACTAAAAATAGCAGATCTTGCCTTTTTGTACTAACAGTAAAGCAAATCGAAGA
1 ACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTTCTGTACTGACAGCGAAGTAGATCGAAGA
12581213 CACTAGCCTTGTC-TTCCTGTACTG
66 CACTAGCCTTG-CATTCCTGTACTG
*
12581237 ACAGCGAAGCAGACTGAAGATAGCAGATCTTGCCTTTCTGTACTGACAGCGAAGTAGATCGAAGA
1 ACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTTCTGTACTGACAGCGAAGTAGATCGAAGA
12581302 CA-TCAGCCTTGCATTCCTGTACTG
66 CACT-AGCCTTGCATTCCTGTACTG
* * * *
12581326 ACAGCGGAGTAGACTAAAGATAGCAGATCTTGCC-TTCTTGTACTGACAACGAAGTAGGTCGAAG
1 ACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTTC-TGTACTGACAGCGAAGTAGATCGAAG
* *
12581390 ACACCAGCCTTGCATTCCTATACTG
65 ACACTAGCCTTGCATTCCTGTACTG
* * * * *
12581415 ACAGCGGGGCAGACTGAAGATAACAGATCTTGCCTTCCTGCACTGATAGCGAAGTAGATCGAAGA
1 ACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTTCTGTACTGACAGCGAAGTAGATCGAAGA
* * * * *
12581480 CACCAACATTTCCTTCCTGTACTG
66 CACTAGCCTTGCATTCCTGTACTG
* * * *
12581504 ACAGCGGAGCAGACTGAAGATAGCAAATCTTGCCTTCCTGTACTGGCAGTGAAGTAGATCGGAAG
1 ACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTTCTGTACTGACAGCGAAGTAGATC-GAAG
*
12581569 -CAGTAGCCTT
65 ACACTAGCCTT
12581579 ATTTCCTTGA
Statistics
Matches: 294, Mismatches: 42, Indels: 12
0.84 0.12 0.03
Matches are distributed among these distances:
88 5 0.02
89 283 0.96
90 6 0.02
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (89 bp):
ACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTTCTGTACTGACAGCGAAGTAGATCGAAGA
CACTAGCCTTGCATTCCTGTACTG
Found at i:12581560 original size:178 final size:178
Alignment explanation
Indices: 12581148--12581564 Score: 575
Period size: 178 Copynumber: 2.3 Consensus size: 178
12581138 CCTTGAAATT
* * * * * *
12581148 ACAGCGGAGTAGACTAAAAATAGCAGATCTTGCCTTTTTGTACTAACAGTAAAGCAAATCGAAGA
1 ACAGCGGAGTAGACTAAAGATAGCAGATCTTGCCTTCTTGTACTGACAGTGAAGTAGATCGAAGA
* * * * *
12581213 CACTAGCCTTGTCTTCCTGTACTGACAGCGAAGCAGACTGAAGATAGCAGATCTTGCCTTTCTGT
66 CACCAGCCTTGTCTTCCTATACTGACAGCGAAGCAGACTGAAGATAACAGATCTTGCCTTCCTGC
* * *
12581278 ACTGACAGCGAAGTAGATCGAAGACATCAGCCTTGCATTCCTGTACTG
131 ACTGACAGCGAAGTAGATCGAAGACACCAACATTGCATTCCTGTACTG
** *
12581326 ACAGCGGAGTAGACTAAAGATAGCAGATCTTGCCTTCTTGTACTGACAACGAAGTAGGTCGAAGA
1 ACAGCGGAGTAGACTAAAGATAGCAGATCTTGCCTTCTTGTACTGACAGTGAAGTAGATCGAAGA
**
12581391 CACCAGCCTTG-CATTCCTATACTGACAGCGGGGCAGACTGAAGATAACAGATCTTGCCTTCCTG
66 CACCAGCCTTGTC-TTCCTATACTGACAGCGAAGCAGACTGAAGATAACAGATCTTGCCTTCCTG
* * *
12581455 CACTGATAGCGAAGTAGATCGAAGACACCAACATTTCCTTCCTGTACTG
130 CACTGACAGCGAAGTAGATCGAAGACACCAACATTGCATTCCTGTACTG
* * * * *
12581504 ACAGCGGAGCAGACTGAAGATAGCAAATCTTGCCTTCCTGTACTGGCAGTGAAGTAGATCG
1 ACAGCGGAGTAGACTAAAGATAGCAGATCTTGCCTTCTTGTACTGACAGTGAAGTAGATCG
12581565 GAAGCAGTAG
Statistics
Matches: 208, Mismatches: 30, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
177 1 0.00
178 207 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (178 bp):
ACAGCGGAGTAGACTAAAGATAGCAGATCTTGCCTTCTTGTACTGACAGTGAAGTAGATCGAAGA
CACCAGCCTTGTCTTCCTATACTGACAGCGAAGCAGACTGAAGATAACAGATCTTGCCTTCCTGC
ACTGACAGCGAAGTAGATCGAAGACACCAACATTGCATTCCTGTACTG
Found at i:12581831 original size:50 final size:50
Alignment explanation
Indices: 12581762--12582043 Score: 215
Period size: 50 Copynumber: 5.6 Consensus size: 50
12581752 ACAGTGAAAT
* * *
12581762 GATTGAAGCCGCAACGGTGAATCTTACTTCCTTGGCGGTGCAGTGGAACA
1 GATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGGTGCAATGGAACA
* * * * ** * ** * ** *
12581812 GATTGAAGCTACAATGGTGAATCTTGCTTCCCCGACATTACAATTAAAAA
1 GATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGGTGCAATGGAACA
* * *
12581862 GATTGAAGCCGCAATGGCGAATCTTACTTCCTTGGTGGTGCAATGGAACA
1 GATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGGTGCAATGGAACA
* * ** * ** * ** * * *
12581912 GGTTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTGTAATTGAAAA
1 GATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGGTGCAATGGAACA
* * *
12581962 GATTGAAGCCACAATGGCGAATCTTACTTCCTTGGCGGTGTAGTGGAACA
1 GATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGGTGCAATGGAACA
* *
12582012 GATTGAA-CCTACAACAGTGAATCTTACTTCCT
1 GATTGAAGCC-ACAACGGCGAATCTTACTTCCT
12582044 CGACATTGTA
Statistics
Matches: 170, Mismatches: 61, Indels: 2
0.73 0.26 0.01
Matches are distributed among these distances:
49 2 0.01
50 168 0.99
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (50 bp):
GATTGAAGCCACAACGGCGAATCTTACTTCCTTGGCGGTGCAATGGAACA
Found at i:12582051 original size:100 final size:100
Alignment explanation
Indices: 12581756--12582053 Score: 434
Period size: 100 Copynumber: 3.0 Consensus size: 100
12581746 GGCATTACAG
* * *
12581756 TGAAATGATTGAAGCCGCAACGGTGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGC
1 TGAAAAGATTGAAGCCGCAATGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGC
** **
12581821 TACAATGGTGAATCTTGCTTCCCCGACATTACAAT
66 TACAACAGTGAATCTTGCTTCCCCGACATTGTAAT
* * * *
12581856 TAAAAAGATTGAAGCCGCAATGGCGAATCTTACTTCCTTGGTGGTGCAATGGAACAGGTTGAAGC
1 TGAAAAGATTGAAGCCGCAATGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGC
**
12581921 TACAACAACGAATCTTGCTTCCCCGACATTGTAAT
66 TACAACAGTGAATCTTGCTTCCCCGACATTGTAAT
* * *
12581956 TGAAAAGATTGAAGCCACAATGGCGAATCTTACTTCCTTGGCGGTGTAGTGGAACAGATTGAACC
1 TGAAAAGATTGAAGCCGCAATGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGC
* *
12582021 TACAACAGTGAATCTTACTTCCTCGACATTGTA
66 TACAACAGTGAATCTTGCTTCCCCGACATTGTA
12582054 GTTAATCAGA
Statistics
Matches: 174, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 174 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (100 bp):
TGAAAAGATTGAAGCCGCAATGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAACAGATTGAAGC
TACAACAGTGAATCTTGCTTCCCCGACATTGTAAT
Found at i:12584600 original size:72 final size:72
Alignment explanation
Indices: 12584473--12584608 Score: 191
Period size: 72 Copynumber: 1.9 Consensus size: 72
12584463 TTTGAAAAAT
* * *
12584473 GGATCATGCCCAATAAGTTAGGACACGATCTTTTCTTAATTCCTGAGATCGTTTAAAACTTGAAA
1 GGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAACTTGAAA
12584538 ATAAAGG
66 ATAAAGG
* * * * * *
12584545 GGATCATGCCTAGTAAGTTAGGACATGATCTCTTCTTGATTCCCGATATCATTTAATACTTGAA
1 GGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAACTTGAA
12584609 TTTGAAAAGA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 55 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (72 bp):
GGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAACTTGAAA
ATAAAGG
Found at i:12585767 original size:21 final size:21
Alignment explanation
Indices: 12585712--12585771 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
12585702 ATACGAAAAT
12585712 TTTTGAAAACACGAAAA--TC
1 TTTTGAAAACACGAAAATTTC
*
12585731 -TTT-AAAATACGAGAAAATTTC
1 TTTTGAAAACAC--GAAAATTTC
12585752 TTTTGAAAACACGAAAATTT
1 TTTTGAAAACACGAAAATTT
12585772 TTAAAACACG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
17 6 0.18
18 3 0.09
19 5 0.15
21 10 0.30
22 3 0.09
23 6 0.18
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.32
Consensus pattern (21 bp):
TTTTGAAAACACGAAAATTTC
Found at i:12585791 original size:17 final size:17
Alignment explanation
Indices: 12585704--12585792 Score: 88
Period size: 17 Copynumber: 4.8 Consensus size: 17
12585694 TCTTAGAAAT
12585704 ACGAAAATTTTTGAAAAC
1 ACGAAAATTTTT-AAAAC
* *
12585722 ACGAAAATCTTTAAAAT
1 ACGAAAATTTTTAAAAC
12585739 ACGAGAAAATTTCTTTTGAAAAC
1 AC--GAAAA--T-TTTT-AAAAC
12585762 ACGAAAATTTTTAAAAC
1 ACGAAAATTTTTAAAAC
*
12585779 ACGAGAATTTTTAA
1 ACGAAAATTTTTAA
12585793 GTTTTTCAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
17 24 0.40
18 15 0.25
19 6 0.10
21 6 0.10
22 3 0.05
23 6 0.10
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.30
Consensus pattern (17 bp):
ACGAAAATTTTTAAAAC
Found at i:12586148 original size:17 final size:15
Alignment explanation
Indices: 12586126--12586187 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 15
12586116 CGACTCGGGC
12586126 TTTTTCCTTATTTTCTT
1 TTTTTCCTT-TTTT-TT
12586143 TTTTTCC--TTTTTT
1 TTTTTCCTTTTTTTT
12586156 TTTTT-CTTTTTTTCT
1 TTTTTCCTTTTTTT-T
12586171 TTTTTCTCTTTTTTTT
1 TTTTTC-CTTTTTTTT
12586187 T
1 T
12586188 CGCCTGTTGC
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
12 1 0.03
13 7 0.17
14 9 0.22
15 6 0.15
16 2 0.05
17 15 0.38
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTCCTTTTTTTT
Found at i:12586162 original size:21 final size:21
Alignment explanation
Indices: 12586136--12586188 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
12586126 TTTTTCCTTA
*
12586136 TTTTCTTTTTTTCCTTTTTTT
1 TTTTCTTTTTTTCCTTTTTTC
12586157 TTTTCTTTTTTT-CTTTTTTC
1 TTTTCTTTTTTTCCTTTTTTC
*
12586177 TCTT-TTTTTTTC
1 TTTTCTTTTTTTC
12586189 GCCTGTTGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 7 0.24
20 10 0.34
21 12 0.41
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTCTTTTTTTCCTTTTTTC
Found at i:12586165 original size:9 final size:9
Alignment explanation
Indices: 12586126--12586186 Score: 59
Period size: 9 Copynumber: 6.6 Consensus size: 9
12586116 CGACTCGGGC
*
12586126 TTTTTCCTT
1 TTTTTCTTT
*
12586135 ATTTTCTTT
1 TTTTTCTTT
*
12586144 TTTTCCTTTT
1 TTTTTC-TTT
*
12586154 TTTTTTTCTT
1 TTTTTCT-TT
12586164 TTTTTCTTT
1 TTTTTCTTT
*
12586173 TTTCTCTTT
1 TTTTTCTTT
12586182 TTTTT
1 TTTTT
12586187 TCGCCTGTTG
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
9 26 0.63
10 15 0.37
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:12586168 original size:29 final size:29
Alignment explanation
Indices: 12586126--12586187 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
12586116 CGACTCGGGC
12586126 TTTTTCCTTATTTTCTTTTTT-TCCTTTTT
1 TTTTTCCTTATTTTCTTTTTTCT-CTTTTT
* *
12586155 TTTTTTCTTTTTTTCTTTTTTCTCTTTTT
1 TTTTTCCTTATTTTCTTTTTTCTCTTTTT
12586184 TTTT
1 TTTT
12586188 CGCCTGTTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 29 0.97
30 1 0.03
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (29 bp):
TTTTTCCTTATTTTCTTTTTTCTCTTTTT
Found at i:12586185 original size:12 final size:12
Alignment explanation
Indices: 12586136--12586188 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 12
12586126 TTTTTCCTTA
12586136 TTTTCTTTTTTTCC
1 TTTT-TTTTTTT-C
12586150 TTTTTTTTTTTC
1 TTTTTTTTTTTC
12586162 TTTTTTTCTTTTTTC
1 --TTTTT-TTTTTTC
*
12586177 TCTTTTTTTTTC
1 TTTTTTTTTTTC
12586189 GCCTGTTGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
12 8 0.23
13 11 0.31
14 9 0.26
15 7 0.20
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:12586294 original size:24 final size:24
Alignment explanation
Indices: 12586267--12586312 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
12586257 TGCTAGGTTG
* **
12586267 GCCTGCTGCTGCGTTGGGCCTGGA
1 GCCTACTGCTGCACTGGGCCTGGA
12586291 GCCTACTGCTGCACTGGGCCTG
1 GCCTACTGCTGCACTGGGCCTG
12586313 CACTTGCTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.07, C:0.33, G:0.37, T:0.24
Consensus pattern (24 bp):
GCCTACTGCTGCACTGGGCCTGGA
Found at i:12586508 original size:11 final size:10
Alignment explanation
Indices: 12586494--12586543 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 10
12586484 ATTTTCAATA
12586494 TTTTTTCTATT
1 TTTTTTCT-TT
12586505 TTTTTTC--T
1 TTTTTTCTTT
12586513 TTTTTTCTTT
1 TTTTTTCTTT
12586523 TTTCTTTCTTT
1 TTT-TTTCTTT
*
12586534 CTTTCTTCTT
1 -TTTTTTCTT
12586544 CTTCTTCTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
8 8 0.24
10 4 0.12
11 19 0.56
12 3 0.09
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:12586515 original size:8 final size:8
Alignment explanation
Indices: 12586504--12586555 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
12586494 TTTTTTCTAT
12586504 TTTTTTTC
1 TTTTTTTC
12586512 TTTTTTTC
1 TTTTTTTC
12586520 -TTTTTTC
1 TTTTTTTC
*
12586527 TTTCTTTC
1 TTTTTTTC
*
12586535 -TTTCTTC
1 TTTTTTTC
*
12586542 TTCTTCTTC
1 TT-TTTTTC
12586551 TTTTT
1 TTTTT
12586556 CAAGCCCTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
7 12 0.32
8 17 0.46
9 8 0.22
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTTC
Found at i:12586516 original size:19 final size:19
Alignment explanation
Indices: 12586494--12586555 Score: 74
Period size: 19 Copynumber: 3.2 Consensus size: 19
12586484 ATTTTCAATA
12586494 TTTTTTCTATTTTT-TTTCT
1 TTTTTTCT-TTTTTCTTTCT
12586513 TTTTTTCTTTTTTCTTTCT
1 TTTTTTCTTTTTTCTTTCT
*
12586532 TTCTTTCTTCTTCTTC-TTCT
1 TTTTTTCTT-TT-TTCTTTCT
12586552 TTTT
1 TTTT
12586556 CAAGCCCTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 5 0.13
19 21 0.55
20 9 0.24
21 3 0.08
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTTCTTTTTTCTTTCT
Found at i:12586525 original size:15 final size:15
Alignment explanation
Indices: 12586505--12586555 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
12586495 TTTTTCTATT
12586505 TTTTTTCTTTTTTTC
1 TTTTTTCTTTTTTTC
*
12586520 TTTTTTCTTTCTTTC
1 TTTTTTCTTTTTTTC
* *
12586535 TTTCTTCTTCTTCTTC
1 TTTTTTCTT-TTTTTC
12586551 TTTTT
1 TTTTT
12586556 CAAGCCCTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 22 0.73
16 8 0.27
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:12586532 original size:4 final size:4
Alignment explanation
Indices: 12586508--12586540 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
12586498 TTCTATTTTT
*
12586508 TTTC TTTT TTTC TTT- TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
12586541 CTTCTTCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (4 bp):
TTTC
Found at i:12586941 original size:29 final size:29
Alignment explanation
Indices: 12586908--12586977 Score: 77
Period size: 30 Copynumber: 2.4 Consensus size: 29
12586898 CTCATTATGT
* *
12586908 AATTTCAAAAAAATTAGGGGTTAAAATAT
1 AATTTCAAAAAAATTAAGGGTTAAAATAC
* * * *
12586937 TATTTTAGGAAAATTTAAGGGTTAAAATAC
1 AATTTCA-AAAAAATTAAGGGTTAAAATAC
12586967 AATTTCAAAAA
1 AATTTCAAAAA
12586978 GTTATGGGGC
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.50, C:0.04, G:0.13, T:0.33
Consensus pattern (29 bp):
AATTTCAAAAAAATTAAGGGTTAAAATAC
Found at i:12587287 original size:77 final size:78
Alignment explanation
Indices: 12587164--12587957 Score: 989
Period size: 77 Copynumber: 10.3 Consensus size: 78
12587154 TTTCTTTTTA
* * * * ** *
12587164 TTTGAAAAACA-AAAATT-GAA-AATACCTTGGCGTGTGGCCCGAGGCTCAACTCACCTCTAGCA
1 TTTGAAAAACAGAAATTTAAAAGAATACCTCGGCATGTGATCCGAGGCTCAACTCACCTCTCGCA
* *
12587226 TTATGAGTTAATT
66 ATATGAGTTGATT
* * * *
12587239 TTTGAAAAACATAAATTTCAAAG-ATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCA
1 TTTGAAAAACAGAAATTTAAAAGAATACCTCGGCATGTGATCCGAGGCTCAACTCACCTCTCGCA
* *
12587303 TTATAAGTTGA-T
66 ATATGAGTTGATT
* *
12587315 TTTAAAAAACAGAAATTT-AAAGAAATACCTCGGCATGTG-TCCGGGGCTCAACTCACCTCTCGC
1 TTTGAAAAACAGAAATTTAAAAG-AATACCTCGGCATGTGATCCGAGGCTCAACTCACCTCTCGC
12587378 AATATGAGTTGATT
65 AATATGAGTTGATT
*** * * * *
12587392 TAAAAAAAACAGAAATTTTAAAGAAATACCTCGGCATGCG-TTCGAGGCTCAACTCACCTCTCGA
1 TTTGAAAAACAGAAATTTAAAAG-AATACCTCGGCATGTGATCCGAGGCTCAACTCACCTCTCGC
12587456 AATATGAGTTGA--
65 AATATGAGTTGATT
*
12587468 TTT-AAAAAAAGAAATTTAAAAGAAATACCTCGGCATGT-ATCCGAGGCTCAACTCACCTCTCGC
1 TTTGAAAAACAGAAATTTAAAAG-AATACCTCGGCATGTGATCCGAGGCTCAACTCACCTCTCGC
12587531 AATATGAGTTGATTT
65 AATATGAGTTGA-TT
*
12587546 TTTGAAAAATAGAAATTTAAAAGAAATACCTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGC
1 TTTGAAAAACAGAAATTTAAAAG-AATACCTCGGCATGTGATCCGAGGCTCAACTCACCTCTCGC
12587610 AATATGAGTTGATT
65 AATATGAGTTGATT
* * *
12587624 TTTAAAAAACAGAAATTTAATAGAAATACCTCGGCA--TGACCCGAGGCTCAACTCACCTCTCGC
1 TTTGAAAAACAGAAATTTAAAAG-AATACCTCGGCATGTGATCCGAGGCTCAACTCACCTCTCGC
12587687 AATATGAGTTGATT
65 AATATGAGTTGATT
* * *
12587701 TTTGAAAAACAGAAATATAAAAGAAATACCTCGGCATGTGA-CTGAGGCTCAACTCACTTCTCGC
1 TTTGAAAAACAGAAATTTAAAAG-AATACCTCGGCATGTGATCCGAGGCTCAACTCACCTCTCGC
12587765 AATATGAGTTGATT
65 AATATGAGTTGATT
* * *
12587779 TTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCA--TGACCCGAGGCTCAACTCACCTCTCGT
1 TTTGAAAAACAGAAATTTAAAAG-AATACCTCGGCATGTGATCCGAGGCTCAACTCACCTCTCGC
*
12587842 ATTATGAGTTGA-T
65 AATATGAGTTGATT
* * * * *
12587855 TTTAAAAAACAGAAATTTAAAAGAAATACATTGGCATGTG-TCTGAGGCTCAACTCACCTCTCGT
1 TTTGAAAAACAGAAATTTAAAAG-AATACCTCGGCATGTGATCCGAGGCTCAACTCACCTCTCGC
12587919 AATATGAGTTGATT
65 AATATGAGTTGATT
*
12587933 TTTGAAAAACAGAAATATAAAAGAA
1 TTTGAAAAACAGAAATTTAAAAGAA
12587958 ATACAATATG
Statistics
Matches: 645, Mismatches: 54, Indels: 38
0.88 0.07 0.05
Matches are distributed among these distances:
75 81 0.13
76 93 0.14
77 214 0.33
78 184 0.29
79 73 0.11
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (78 bp):
TTTGAAAAACAGAAATTTAAAAGAATACCTCGGCATGTGATCCGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATT
Found at i:12587597 original size:232 final size:231
Alignment explanation
Indices: 12587203--12587961 Score: 1079
Period size: 232 Copynumber: 3.3 Consensus size: 231
12587193 GCGTGTGGCC
* * * * * *
12587203 CGAGGCTCAACTCACCTCTAGCATTATGAGTTAATTTTTGAAAAACATAAATTTCAAAG--ATAC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACAGAAATATAAAAGAAATAC
* * * *
12587266 CTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCATTATAAGTTGA-TTTTAAAAAACAGAAA
65 CTCGGCATGTGA-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
*
12587330 TTT-AAAGAAATACCTCGGCATGTGTCCGGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTA
129 TTTAAAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-
*
12587394 AAAAAAACAGAAATTTTAAAGAAATACCTCGGCATGCGTT
193 TAAAAAACAGAAATTTTAAAGAAATACCTCGGCATGCG-T
* * *
12587434 CGAGGCTCAACTCACCTCTCGAAATATGAGTTGA-TTT-AAAAAAAGAAATTTAAAAGAAATACC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAAATATAAAAGAAATACC
*
12587497 TCGGCATGT-ATCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAA
66 TCGGCATGTGA-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAA
12587561 TTTAAAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
129 TTTAAAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
*
12587626 TAAAAAACAGAAA-TTTAATAGAAATACCTCGGCATGAC-C
193 TAAAAAACAGAAATTTTAA-AGAAATACCTCGGCATG-CGT
12587665 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATATAAAAGAAATAC
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACAGAAATATAAAAGAAATAC
* *
12587730 CTCGGCATGTGACTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAT
65 CTCGGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAAT
* ** * *
12587795 TTAAAAGAAATACCTCAGCATG-ACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTA
130 TTAAAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTA
* * * *
12587859 AAAAACAGAAATTTAAAAGAAATACATTGGCATGTGT
195 AAAAACAGAAATTTTAAAGAAATACCTCGGCATGCGT
*
12587896 CTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATATAAAAGAAATA
1 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACAGAAATATAAAAGAAATA
12587961 C
64 C
12587962 AATATGAGTT
Statistics
Matches: 480, Mismatches: 33, Indels: 29
0.89 0.06 0.05
Matches are distributed among these distances:
228 16 0.03
229 37 0.08
230 13 0.03
231 117 0.24
232 185 0.39
233 45 0.09
234 66 0.14
235 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (231 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAAATATAAAAGAAATACC
TCGGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
TAAAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAA
AAAACAGAAATTTTAAAGAAATACCTCGGCATGCGT
Found at i:12587871 original size:309 final size:308
Alignment explanation
Indices: 12587201--12587961 Score: 1104
Period size: 309 Copynumber: 2.5 Consensus size: 308
12587191 TGGCGTGTGG
* * * *
12587201 CCCGAGGCTCAACTCACCTCTAGCATTATGAGTTAATTTTTGAAAAACATAAATTTCAAAG--AT
1 CCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAAT
* * * *
12587264 ACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCATTATAAGTTGA-TTTTAAAAAACAGA
66 ACCTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGA
** *
12587328 AATTTAAAGAAATACCTCGGCATGTGTCCGGGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
130 AATTTAAAGAAATACCTCGGCATGTACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * *
12587393 AAAAAAAACAGAAATTTTAAAGAAATACCTCGGCATGCGTTCGAGGCTCAACTCACCTCTCGAAA
195 AAAAAAAACAGAAATATAAAAGAAATACCTCGGCATGCGCTCGAGGCTCAACTCACCTCTCGAAA
*
12587458 TATGAGTTGATTTAAAAAAAGAAATTTAAAAGAAATACCTCGGCATGTA
260 TATGAGTTGATTTAAAAAAAGAAATTTAAAAGAAATACCTCAGCATGTA
* * *
12587507 TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTTAAAAGAAA
1 CCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAGAAA
12587572 TACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGA
65 TACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGA
12587637 AATTTAATAGAAATACCTCGGCATG-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
130 AATTTAA-AGAAATACCTCGGCATGTACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*** * * *
12587701 TTTGAAAAACAGAAATATAAAAGAAATACCTCGGCATGTGACT-GAGGCTCAACTCACTTCTCGC
194 TAAAAAAAACAGAAATATAAAAGAAATACCTCGGCATGCG-CTCGAGGCTCAACTCACCTCTCGA
*
12587765 AATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCATG-A
258 AATATGAGTTGA--TTT-AAAAAAAGAAATTTAAAAGAAATACCTCAGCATGTA
* *
12587818 CCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA-TTTTAAAAAACAGAAATTTAAAAGAAAT
1 CCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAAT
* * * * *
12587882 ACATTGGCATGTGTCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAA
66 ACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAA
*
12587947 ATATAAAAGAAATAC
131 AT-TTAAAGAAATAC
12587962 AATATGAGTT
Statistics
Matches: 409, Mismatches: 36, Indels: 17
0.89 0.08 0.04
Matches are distributed among these distances:
306 32 0.08
307 22 0.05
308 33 0.08
309 232 0.57
310 21 0.05
311 37 0.09
312 32 0.08
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (308 bp):
CCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAAT
ACCTCGGCATGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAA
ATTTAAAGAAATACCTCGGCATGTACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTA
AAAAAAACAGAAATATAAAAGAAATACCTCGGCATGCGCTCGAGGCTCAACTCACCTCTCGAAAT
ATGAGTTGATTTAAAAAAAGAAATTTAAAAGAAATACCTCAGCATGTA
Found at i:12587980 original size:43 final size:43
Alignment explanation
Indices: 12587919--12588004 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
12587909 CACCTCTCGT
*
12587919 AATATGAGTTGATTTTTGAAAAACAGAAATATAAAAGAAATAC
1 AATATGAGTTGATTTTTGAAAAACAAAAATATAAAAGAAATAC
*
12587962 AATATGAGTTGATTTTTGAAAAACAAAAATTTAAAAGAAATAC
1 AATATGAGTTGATTTTTGAAAAACAAAAATATAAAAGAAATAC
12588005 CTCGGCATGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.53, C:0.05, G:0.13, T:0.29
Consensus pattern (43 bp):
AATATGAGTTGATTTTTGAAAAACAAAAATATAAAAGAAATAC
Found at i:12588061 original size:120 final size:120
Alignment explanation
Indices: 12587844--12588068 Score: 326
Period size: 120 Copynumber: 1.9 Consensus size: 120
12587834 CCTCTCGTAT
* * * *
12587844 TATGAGTTGATTTTAAAAAACAGAAATTTAAAAGAAATACATTGGCATGTGTCTGAGGCTCAACT
1 TATGAGTTGATTTTAAAAAACAAAAATTTAAAAGAAATACATCGGCATGTGCCCGAGGCTCAACT
** ***
12587909 CACCTCTCGTAATATGAGTTGATTTTTGAAAAACAGAAATATAAAAGAAATACAA
66 CACCTCTCACAATATGAGTTGATTTAAAAAAAACAGAAATATAAAAGAAATACAA
* *
12587964 TATGAGTTGATTTTTGAAAAACAAAAATTTAAAAGAAATACCTCGGCATG-GCCCGAGGCTCAAC
1 TATGAGTTGA-TTTTAAAAAACAAAAATTTAAAAGAAATACATCGGCATGTGCCCGAGGCTCAAC
*
12588028 TCACCTCTCACATTATGAGTTGATTTAAAAAAAACAGAAAT
65 TCACCTCTCACAATATGAGTTGATTTAAAAAAAACAGAAAT
12588069 TGAAAAATAT
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
120 57 0.62
121 35 0.38
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (120 bp):
TATGAGTTGATTTTAAAAAACAAAAATTTAAAAGAAATACATCGGCATGTGCCCGAGGCTCAACT
CACCTCTCACAATATGAGTTGATTTAAAAAAAACAGAAATATAAAAGAAATACAA
Found at i:12588949 original size:8 final size:8
Alignment explanation
Indices: 12588938--12588982 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
12588928 TGATTTTTCA
12588938 TTTTTTGT
1 TTTTTTGT
*
12588946 TTTTTTAT
1 TTTTTTGT
* *
12588954 TATTAT-T
1 TTTTTTGT
12588961 TTTTTTGT
1 TTTTTTGT
12588969 TTTTTTGT
1 TTTTTTGT
12588977 TTTTTT
1 TTTTTT
12588983 AGGCATAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
7 5 0.16
8 26 0.84
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.87
Consensus pattern (8 bp):
TTTTTTGT
Found at i:12594987 original size:17 final size:17
Alignment explanation
Indices: 12594944--12595019 Score: 55
Period size: 18 Copynumber: 4.3 Consensus size: 17
12594934 ACGAAATTTT
12594944 TTTTTGGAAATAC-AAGAA
1 TTTTT-GAAATACGAA-AA
* *
12594962 TATTAGAAATACGAAAA
1 TTTTTGAAATACGAAAA
* *
12594979 TTTTTGAAAACACGATAA
1 TTTTTG-AAATACGAAAA
* *
12594997 TCTTTAAAATACGAGAAA
1 TTTTTGAAATACGA-AAA
12595015 TTTTT
1 TTTTT
12595020 TTTAAACATG
Statistics
Matches: 44, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
17 20 0.45
18 24 0.55
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (17 bp):
TTTTTGAAATACGAAAA
Found at i:12595025 original size:21 final size:20
Alignment explanation
Indices: 12594999--12595060 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
12594989 CACGATAATC
12594999 TTTAAAATACGAGAAATTTTT
1 TTTAAAATACGA-AAATTTTT
12595020 TTTAAACAT--GAAAATTGTTT
1 TTTAAA-ATACGAAAATT-TTT
*
12595040 TTTGAAAACACGAAAATTTTT
1 TTT-AAAATACGAAAATTTTT
12595061 GAAACACGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
19 5 0.14
20 9 0.26
21 12 0.34
22 9 0.26
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (20 bp):
TTTAAAATACGAAAATTTTT
Found at i:12595048 original size:22 final size:19
Alignment explanation
Indices: 12595007--12595060 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 19
12594997 TCTTTAAAAT
12595007 ACGAGAAATTTTTTTTAAAC
1 ACGA-AAATTTTTTTTAAAC
*
12595027 ATGAAAATTGTTTTTTGAAAAC
1 ACGAAAATT-TTTTTT--AAAC
12595049 ACGAAAATTTTT
1 ACGAAAATTTTT
12595061 GAAACACGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 5 0.17
20 9 0.31
21 3 0.10
22 12 0.41
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (19 bp):
ACGAAAATTTTTTTTAAAC
Found at i:12595059 original size:18 final size:18
Alignment explanation
Indices: 12594972--12595069 Score: 74
Period size: 18 Copynumber: 5.2 Consensus size: 18
12594962 TATTAGAAAT
12594972 ACGAAAATTTTTGAAAAC
1 ACGAAAATTTTTGAAAAC
* * *
12594990 ACGATAATCTTT-AAAAT
1 ACGAAAATTTTTGAAAAC
**
12595007 ACGAGAAATTTTTTTTAAAC
1 ACGA-AAA-TTTTTGAAAAC
*
12595027 ATGAAAATTGTTTTTTGAAAAC
1 ACGAAAA----TTTTTGAAAAC
12595049 ACGAAAATTTTTG-AAAC
1 ACGAAAATTTTTGAAAAC
12595066 ACGA
1 ACGA
12595070 GAAAGAGAAG
Statistics
Matches: 63, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
17 16 0.25
18 18 0.29
19 7 0.11
20 6 0.10
22 16 0.25
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (18 bp):
ACGAAAATTTTTGAAAAC
Found at i:12609199 original size:24 final size:24
Alignment explanation
Indices: 12609172--12609217 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
12609162 TGCTGGCTTG
* *
12609172 GCCTGCTGTTGCGCTGGGCCTAGA
1 GCCTGCTGCTGCACTGGGCCTAGA
12609196 GCCTGCTGCTGCACTGGGCCTA
1 GCCTGCTGCTGCACTGGGCCTA
12609218 TACTTGCCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.09, C:0.33, G:0.35, T:0.24
Consensus pattern (24 bp):
GCCTGCTGCTGCACTGGGCCTAGA
Found at i:12609393 original size:19 final size:16
Alignment explanation
Indices: 12609354--12609404 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
12609344 AGGCTGTTGC
12609354 GGGTCGGGTCGGATCT
1 GGGTCGGGTCGGATCT
12609370 GGGTCGGGTCGCGATTCGT
1 GGGTCGGGTCG-GA-TC-T
12609389 GGGTCGGGTCGG-TCT
1 GGGTCGGGTCGGATCT
12609404 G
1 G
12609405 ACCCGACTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 2 0.06
16 13 0.41
17 2 0.06
18 3 0.09
19 12 0.38
ACGTcount: A:0.04, C:0.20, G:0.51, T:0.25
Consensus pattern (16 bp):
GGGTCGGGTCGGATCT
Found at i:12609441 original size:4 final size:4
Alignment explanation
Indices: 12609432--12609490 Score: 102
Period size: 4 Copynumber: 14.8 Consensus size: 4
12609422 AATTTTTTCC
12609432 CTTT CTTT CTTT CTTT CTTT -TTT CTTTT CTTT CTTT CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT C-TTT CTTT CTTT CTTT CTTT CTTT
12609480 CTTT CTTT CTT
1 CTTT CTTT CTT
12609491 CTTCTTCTTC
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.06
4 46 0.87
5 4 0.08
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
CTTT
Found at i:12609494 original size:3 final size:3
Alignment explanation
Indices: 12609486--12609517 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
12609476 CTTTCTTTCT
12609486 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
12609518 TAAGCCCTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:12609501 original size:24 final size:23
Alignment explanation
Indices: 12609433--12609517 Score: 94
Period size: 21 Copynumber: 3.9 Consensus size: 23
12609423 ATTTTTTCCC
*
12609433 TTTCTTTCTTTCTTTCTTTTTTCT
1 TTTCTTTCTTTCTTTC-TTCTTCT
12609457 TTTCTTTCTTTCTTTC-T-TTC-
1 TTTCTTTCTTTCTTTCTTCTTCT
12609477 TTTCTTTCTTTC-TTCTTCTTCT
1 TTTCTTTCTTTCTTTCTTCTTCT
12609499 TCTTC-TTC-TTC-TTCTTCTT
1 T-TTCTTTCTTTCTTTCTTCTT
12609518 TAAGCCCTAG
Statistics
Matches: 57, Mismatches: 0, Indels: 11
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.05
20 13 0.23
21 17 0.30
22 5 0.09
23 3 0.05
24 16 0.28
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTCTTTCTTTCTTTCTTCTTCT
Found at i:12609652 original size:14 final size:15
Alignment explanation
Indices: 12609625--12609655 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
12609615 CTTTTGTTCC
12609625 TAAAACTCTTTTTTT
1 TAAAACTCTTTTTTT
12609640 TAAAACT-TTTTTTT
1 TAAAACTCTTTTTTT
12609654 TA
1 TA
12609656 TTCAGGGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (15 bp):
TAAAACTCTTTTTTT
Found at i:12609911 original size:30 final size:29
Alignment explanation
Indices: 12609868--12610011 Score: 173
Period size: 30 Copynumber: 4.9 Consensus size: 29
12609858 TAATTTTGAG
*
12609868 AAAATTTAAGGGTCATAATGTAATTTCAA
1 AAAATTTAAGGGTCAAAATGTAATTTCAA
*
12609897 AAAATTTTATGGGTCAAAATGTAATTTCAA
1 AAAA-TTTAAGGGTCAAAATGTAATTTCAA
* * *
12609927 AAAATTT-AGTGGTCAAAATATAATTTTAGG
1 AAAATTTAAG-GGTCAAAATGTAATTTCA-A
* *
12609957 AAAATTTAAGGGTCAAAATGCAATTTTAA
1 AAAATTTAAGGGTCAAAATGTAATTTCAA
* *
12609986 AAAGTTTAAGGGCCAAAATGTAATTT
1 AAAATTTAAGGGTCAAAATGTAATTT
12610012 TTTATTTTTT
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.01
29 46 0.46
30 50 0.51
31 2 0.02
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.34
Consensus pattern (29 bp):
AAAATTTAAGGGTCAAAATGTAATTTCAA
Found at i:12609941 original size:59 final size:59
Alignment explanation
Indices: 12609868--12610011 Score: 175
Period size: 59 Copynumber: 2.4 Consensus size: 59
12609858 TAATTTTGAG
* * *
12609868 AAAATTTAAGGGTCATAATGTAATTTCA-AAAAATTTTATGGGTCAAAATGTAATTTCAA
1 AAAATTTAAGGGTCAAAATGTAATTTCAGAAAAA-TTTAAGGGTCAAAATGCAATTTCAA
* * * *
12609927 AAAATTT-AGTGGTCAAAATATAATTTTAGGAAAATTTAAGGGTCAAAATGCAATTTTAA
1 AAAATTTAAG-GGTCAAAATGTAATTTCAGAAAAATTTAAGGGTCAAAATGCAATTTCAA
* *
12609986 AAAGTTTAAGGGCCAAAATGTAATTT
1 AAAATTTAAGGGTCAAAATGTAATTT
12610012 TTTATTTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
58 2 0.03
59 64 0.89
60 6 0.08
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.34
Consensus pattern (59 bp):
AAAATTTAAGGGTCAAAATGTAATTTCAGAAAAATTTAAGGGTCAAAATGCAATTTCAA
Found at i:12613838 original size:10 final size:10
Alignment explanation
Indices: 12613825--12613913 Score: 64
Period size: 10 Copynumber: 9.1 Consensus size: 10
12613815 TAAAAAAATT
12613825 ATTTTAAAAA
1 ATTTTAAAAA
12613835 ATTTT--AAA
1 ATTTTAAAAA
**
12613843 ATTAAAAAAA
1 ATTTTAAAAA
**
12613853 ATTAAAAAAA
1 ATTTTAAAAA
12613863 GTATTTTAAAAA
1 --ATTTTAAAAA
12613875 TATTTTAAAAA
1 -ATTTTAAAAA
12613886 TATTTT--AAA
1 -ATTTTAAAAA
12613895 A-TTTAAAAA
1 ATTTTAAAAA
12613904 A-TTTAAAAA
1 ATTTTAAAAA
12613913 A
1 A
12613914 AGTATTTTAA
Statistics
Matches: 69, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
7 3 0.04
8 7 0.10
9 16 0.23
10 18 0.26
11 17 0.25
12 8 0.12
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:12613873 original size:11 final size:11
Alignment explanation
Indices: 12613859--12613936 Score: 67
Period size: 11 Copynumber: 7.4 Consensus size: 11
12613849 AAAAATTAAA
12613859 AAAAGTATTTT
1 AAAAGTATTTT
*
12613870 AAAAATATTTT
1 AAAAGTATTTT
*
12613881 AAAAATATTTT
1 AAAAGTATTTT
12613892 -AAA--A-TTT
1 AAAAGTATTTT
* *
12613899 AAAA-AATTTAAA
1 AAAAGTATTT--T
12613911 AAAAGTATTTT
1 AAAAGTATTTT
12613922 AAAAGTATTTT
1 AAAAGTATTTT
12613933 AAAA
1 AAAA
12613937 TTAAAAAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
7 3 0.05
8 4 0.07
9 1 0.02
10 5 0.09
11 36 0.63
12 4 0.07
13 4 0.07
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:12613874 original size:52 final size:52
Alignment explanation
Indices: 12613818--12613936 Score: 195
Period size: 52 Copynumber: 2.3 Consensus size: 52
12613808 TAAAAATTAA
12613818 AAAAATTATTTTAAAAA-ATTTTAAAATTAAAAAAAATTAAAAAAAGTATTTT
1 AAAAA-TATTTTAAAAATATTTTAAAATTAAAAAAAATTAAAAAAAGTATTTT
* *
12613870 AAAAATATTTTAAAAATATTTTAAAATTTAAAAAATTTAAAAAAAGTATTTT
1 AAAAATATTTTAAAAATATTTTAAAATTAAAAAAAATTAAAAAAAGTATTTT
*
12613922 AAAAGTATTTTAAAA
1 AAAAATATTTTAAAA
12613937 TTAAAAAAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
51 11 0.17
52 52 0.83
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (52 bp):
AAAAATATTTTAAAAATATTTTAAAATTAAAAAAAATTAAAAAAAGTATTTT
Found at i:12613880 original size:41 final size:41
Alignment explanation
Indices: 12613809--12613945 Score: 150
Period size: 52 Copynumber: 3.1 Consensus size: 41
12613799 AATTTATTTT
*
12613809 AAAAATTAAAAAAATTATTTTAAAAA-ATTTTAAAATTAAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
12613849 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAATATTTTAAAATTTA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTT--AAA-A--TT--AA---A
*
12613900 AAAAATTTAAAAAAAGTATTTTAAAAGTATTTTAAAATTAAA
1 AAAAA-TTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
12613942 AAAA
1 AAAA
12613946 TAAAAATATT
Statistics
Matches: 83, Mismatches: 2, Indels: 22
0.78 0.02 0.21
Matches are distributed among these distances:
40 25 0.30
41 5 0.06
42 5 0.06
43 3 0.04
44 1 0.01
45 2 0.02
46 2 0.02
47 2 0.02
48 2 0.02
49 1 0.01
50 3 0.04
51 6 0.07
52 26 0.31
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (41 bp):
AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
Found at i:12613901 original size:18 final size:16
Alignment explanation
Indices: 12613878--12613911 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
12613868 TTAAAAATAT
12613878 TTTAAAAATATTTTAAAA
1 TTTAAAAA-A-TTTAAAA
12613896 TTTAAAAAATTTAAAA
1 TTTAAAAAATTTAAAA
12613912 AAAGTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTAAAAAATTTAAAA
Found at i:12613914 original size:10 final size:10
Alignment explanation
Indices: 12613809--12613914 Score: 51
Period size: 10 Copynumber: 10.5 Consensus size: 10
12613799 AATTTATTTT
*
12613809 AAAAATTAAA
1 AAAAATTTAA
*
12613819 AAAATTATTTTA
1 AAAA--ATTTAA
12613831 AAAAATTT--
1 AAAAATTTAA
* *
12613839 TAAAATTAAA
1 AAAAATTTAA
*
12613849 AAAAATTAAA
1 AAAAATTTAA
12613859 AAAAGTATTTTAA
1 AAAA--A-TTTAA
*
12613872 AAATATTTTAA
1 AAA-AATTTAA
*
12613883 AAATATTT--
1 AAAAATTTAA
*
12613891 TAAAATTT-A
1 AAAAATTTAA
12613900 AAAAATTTAA
1 AAAAATTTAA
12613910 AAAAA
1 AAAAA
12613915 GTATTTTAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
8 12 0.16
9 7 0.09
10 30 0.41
11 8 0.11
12 9 0.12
13 7 0.09
14 1 0.01
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:12613946 original size:41 final size:41
Alignment explanation
Indices: 12613803--12613947 Score: 143
Period size: 41 Copynumber: 3.5 Consensus size: 41
12613793 ATCAAAAATT
** *
12613803 TATTTTAAAAATTAAAAAAATTATTTTAAAAA-ATTTTAAAAT
1 TATTTT-AAAATTAAAAAAA-TATTAAAAAAATATTTTAAAAA
*** **
12613845 TA-AAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAA
1 TATTTTAAAATTAAAAAAA-TATTAAAAAAATATTTTAAAAA
* *
12613886 TATTTTAAAATTTAAAAAAT-TTAAAAAAAGTATTTTAAAAG
1 TATTTTAAAATTAAAAAAATATTAAAAAAA-TATTTTAAAAA
12613927 TATTTTAAAATTAAAAAAATA
1 TATTTTAAAATTAAAAAAATA
12613948 AAAATATTTA
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
40 31 0.36
41 41 0.48
42 14 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (41 bp):
TATTTTAAAATTAAAAAAATATTAAAAAAATATTTTAAAAA
Found at i:12623791 original size:13 final size:13
Alignment explanation
Indices: 12623773--12623797 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12623763 TCCCTTCTTC
12623773 AAAACAAAAAAAA
1 AAAACAAAAAAAA
12623786 AAAACAAAAAAA
1 AAAACAAAAAAA
12623798 CTCTCTACCC
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAACAAAAAAAA
Found at i:12627917 original size:20 final size:19
Alignment explanation
Indices: 12627857--12627918 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 19
12627847 AAAATAATTA
12627857 TTTTAGAAATTTTT-T-TAT
1 TTTTAG-AATTTTTATATAT
*
12627875 TATTTAGAATTTTTA-ACTTT
1 T-TTTAGAATTTTTATA-TAT
12627895 TTTTAAGAATTTTTATATAT
1 TTTT-AGAATTTTTATATAT
12627915 TTTT
1 TTTT
12627919 TTTAATATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
18 8 0.22
19 8 0.22
20 19 0.53
21 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTTAGAATTTTTATATAT
Found at i:12628638 original size:11 final size:11
Alignment explanation
Indices: 12628616--12628673 Score: 71
Period size: 11 Copynumber: 5.2 Consensus size: 11
12628606 AACTAATCCT
12628616 CTCTCAAATTTC
1 CTCTC-AATTTC
12628628 CTCTCAATTTC
1 CTCTCAATTTC
* *
12628639 CTCTAAATTTT
1 CTCTCAATTTC
*
12628650 CTCTCAATTTT
1 CTCTCAATTTC
*
12628661 CTCTCAAATTC
1 CTCTCAATTTC
12628672 CT
1 CT
12628674 TCCAAATTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
11 36 0.88
12 5 0.12
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:12628653 original size:22 final size:23
Alignment explanation
Indices: 12628616--12628670 Score: 85
Period size: 22 Copynumber: 2.4 Consensus size: 23
12628606 AACTAATCCT
12628616 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
* *
12628639 CTCT-AAATTTTCTCTCAATTTT
1 CTCTCAAATTTCCTCTCAATTTC
12628661 CTCTCAAATT
1 CTCTCAAATT
12628671 CCTTCCAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 20 0.69
23 9 0.31
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAATTTC
Found at i:12628665 original size:33 final size:34
Alignment explanation
Indices: 12628615--12628691 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 34
12628605 AAACTAATCC
* *
12628615 TCTCTCAAATTTCCTCTCAATTTCC-TCTAAATTT
1 TCTCTCAAATTTCCTCTCAAATTCCTTCCAAA-TT
*
12628649 TCTCTC-AATTTTCTCTCAAATTCCTTCCAAATT
1 TCTCTCAAATTTCCTCTCAAATTCCTTCCAAATT
*
12628682 TCTCTGAAAT
1 TCTCTCAAAT
12628692 CCATATTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 23 0.62
34 14 0.38
ACGTcount: A:0.25, C:0.29, G:0.01, T:0.45
Consensus pattern (34 bp):
TCTCTCAAATTTCCTCTCAAATTCCTTCCAAATT
Found at i:12628691 original size:11 final size:11
Alignment explanation
Indices: 12628615--12628691 Score: 70
Period size: 11 Copynumber: 6.9 Consensus size: 11
12628605 AAACTAATCC
12628615 TCTCTCAAATT
1 TCTCTCAAATT
12628626 TCCTCTC-AATT
1 T-CTCTCAAATT
12628637 TC-CTCTAAATTT
1 TCTCTC-AAA-TT
*
12628649 TCTCTCAATTT
1 TCTCTCAAATT
12628660 TCTCTCAAATT
1 TCTCTCAAATT
*
12628671 CCT-TCCAAATT
1 TCTCT-CAAATT
*
12628682 TCTCTGAAAT
1 TCTCTCAAAT
12628692 CCATATTTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
9 3 0.06
10 2 0.04
11 34 0.63
12 12 0.22
13 3 0.06
ACGTcount: A:0.25, C:0.29, G:0.01, T:0.45
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:12628709 original size:51 final size:51
Alignment explanation
Indices: 12628651--12628750 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
12628641 CTAAATTTTC
* *
12628651 TCTCAATTTTCTCTCAAATTCCT-TCCAAATTTCTCTGAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTCT-CAAATTTATCTGAAATCCATATTTAA
* * * *
12628702 TCTCAATTTGCTCTCAATTTCCTCTTAAATTTATCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTCTCAAATTTATCTGAAATCCATATTT
12628751 TTAAATAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.02, T:0.46
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTCTCAAATTTATCTGAAATCCATATTTAA
Found at i:12631025 original size:22 final size:22
Alignment explanation
Indices: 12631009--12631331 Score: 430
Period size: 22 Copynumber: 15.0 Consensus size: 22
12630999 TTTAATTGAC
12631009 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
12631031 AAAACCT-AACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
*
12631052 AAACCCTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
12631074 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
12631096 AAACCCT-AACCCTGACCCCT--
1 AAACCCTAAACCCTTA-ACTTAA
* *
12631116 AAACACT-AACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
12631137 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
12631158 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
12631180 AAACCCT-AACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
12631201 AAACCATAAACCTTTAACTAAA
1 AAACCCTAAACCCTTAACTTAA
12631223 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
12631245 AAACCCT-AACCCTTGACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
12631266 AAACCATAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
12631288 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
12631310 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
12631331 A
1 A
12631332 TATAATTTGA
Statistics
Matches: 267, Mismatches: 27, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
19 2 0.01
20 13 0.05
21 104 0.39
22 148 0.55
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.23
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:12631057 original size:43 final size:43
Alignment explanation
Indices: 12631009--12631331 Score: 422
Period size: 43 Copynumber: 7.5 Consensus size: 43
12630999 TTTAATTGAC
* *
12631009 AAACCCTAAACCCTTAACTTAAAAAACCT-AACCCTTAACCTAA
1 AAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
*
12631052 AAACCCTAAACCCTTAACCTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* * * * *
12631096 AAACCCTAACCCTGACCCCT--AAACACT-AACCCTTAACTTTA
1 AAACCCTAACCCTTA-ACTTAAAAACCCTAAACCCTTAACTTAA
12631137 AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* * * *
12631180 AAACCCTAACCTTTAACTTAAAAACCATAAACCTTTAACTAAA
1 AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* *
12631223 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTGACTTTA
1 AAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* *
12631266 AAACCATAAACCCTTAACCTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
12631310 AAACCCTAACCCTTAACTTAAA
1 AAACCCTAACCCTTAACTTAAA
12631332 TATAATTTGA
Statistics
Matches: 245, Mismatches: 28, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.01
41 27 0.11
42 12 0.05
43 144 0.59
44 60 0.24
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.23
Consensus pattern (43 bp):
AAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
Found at i:12631088 original size:65 final size:65
Alignment explanation
Indices: 12631009--12631331 Score: 449
Period size: 65 Copynumber: 5.0 Consensus size: 65
12630999 TTTAATTGAC
* * *
12631009 AAACCCTAAACCCTTAACTTAAAAAACCT-AACCCTTAACCTAAAAACCCTAAACCCTTAACCTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTA
12631073 A
65 A
* * * * *
12631074 AAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTGACCCCT--AAACACTAACCCTTAACTTT
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTA-ACTTAAAAACCCTAACCCTTAACTTA
12631136 A
65 A
*
12631137 AAACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
* * * * *
12631201 AAACCATAAACCTTTAACTAAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTGACTTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
* *
12631266 AAACCATAAACCCTTAACCTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
12631331 A
1 A
12631332 TATAATTTGA
Statistics
Matches: 230, Mismatches: 23, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
62 23 0.10
63 26 0.11
64 30 0.13
65 148 0.64
66 3 0.01
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.23
Consensus pattern (65 bp):
AAACCCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
Found at i:12631465 original size:37 final size:38
Alignment explanation
Indices: 12631424--12631591 Score: 114
Period size: 37 Copynumber: 4.4 Consensus size: 38
12631414 TTTTGACTGG
12631424 TACTAACAATTAATA-ATTTGATATAATTTGATAATTT
1 TACTAACAATTAATACATTTGATATAATTTGATAATTT
* * * *
12631461 TACTAACCATTAATACA-AT--TATCATTTAATAATTT
1 TACTAACAATTAATACATTTGATATAATTTGATAATTT
* * ** * * * * * **
12631496 TACATTCACATAATGTTAGATTTGAAAAAATGTT-TTGACTGG
1 TAC--TAACA-ATTAATACATTTGATATAAT-TTGAT-AATTT
12631538 TACTAACAATTAATA-ATTTGATATAATTTGATAATTT
1 TACTAACAATTAATACATTTGATATAATTTGATAATTT
12631575 TACTAACAATTAATACA
1 TACTAACAATTAATACA
12631592 ATTATCAATT
Statistics
Matches: 92, Mismatches: 28, Indels: 21
0.65 0.20 0.15
Matches are distributed among these distances:
35 17 0.18
37 37 0.40
38 18 0.20
39 5 0.05
40 4 0.04
41 4 0.04
42 7 0.08
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.42
Consensus pattern (38 bp):
TACTAACAATTAATACATTTGATATAATTTGATAATTT
Found at i:12631484 original size:114 final size:114
Alignment explanation
Indices: 12631331--12631608 Score: 522
Period size: 114 Copynumber: 2.4 Consensus size: 114
12631321 CTTAACTTAA
12631331 ATATAATTTGATAATTTTAC-AACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
1 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
12631395 TGTTAGATTTAAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
66 TGTTAGATTTAAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
*
12631444 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCATTTAATAATTTTACATTCACATAA
1 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
*
12631509 TGTTAGATTTGAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
66 TGTTAGATTTAAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
*
12631558 ATATAATTTGATAATTTTACTAACAATTAATACAATTATCAATTAATAATT
1 ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATT
12631609 GAAAAAACTA
Statistics
Matches: 160, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
113 20 0.12
114 140 0.88
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (114 bp):
ATATAATTTGATAATTTTACTAACCATTAATACAATTATCAATTAATAATTTTACATTCACATAA
TGTTAGATTTAAAAAAATGTTTTGACTGGTACTAACAATTAATAATTTG
Found at i:12632422 original size:372 final size:372
Alignment explanation
Indices: 12631737--12632483 Score: 1449
Period size: 372 Copynumber: 2.0 Consensus size: 372
12631727 ATATCCATAT
12631737 TGTTACATATTCTAGTCGAGCAAGGTCGACTCTTTGGTTTGCGACGTAATTCTCTATCCGGTAAC
1 TGTTACATATTCTAGTCGAGCAAGGTCGACTCTTTGGTTTGCGACGTAATTCTCTATCCGGTAAC
* *
12631802 AGCTTAAAAGGAGTAAGAGATATGGGCGACAACTTACGTTCATCTGGGACTGGTGGGAAAACGTG
66 AGCTTAAAAGGAGCAAGAGATACGGGCGACAACTTACGTTCATCTGGGACTGGTGGGAAAACGTG
12631867 TCTCCAGATGCTGTACATGTTTTCTAATTTGTACACTTAGTCCACATAGCTCATCGGATCCAGAC
131 TCTCCAGATGCTGTACATGTTTTCTAATTTGTACACTTAGTCCACATAGCTCATCGGATCCAGAC
*
12631932 GGAGATTCTGACAAGCTGCAATAATATGAGCGCATGGATAACGAAGTGCATCAAACATCCCACAG
196 GGAGATTCTGACAAGCTGCAATAACATGAGCGCATGGATAACGAAGTGCATCAAACATCCCACAG
12631997 TCGCAAGTCCTATTTCGCAAGTGTACACGATATTGCCAGCCAACAACACCTTGGTGCGGTCTGTC
261 TCGCAAGTCCTATTTCGCAAGTGTACACGATATTGCCAGCCAACAACACCTTGGTGCGGTCTGTC
12632062 AAACTCTGTCACGCGAAACCATAAGTTATCTCGATCGTGACACACTA
326 AAACTCTGTCACGCGAAACCATAAGTTATCTCGATCGTGACACACTA
12632109 TGTTACATATTCTAGTCGAGCAAGGTCGACTCTTTGGTTTGCGACGTAATTCTCTATCCGGTAAC
1 TGTTACATATTCTAGTCGAGCAAGGTCGACTCTTTGGTTTGCGACGTAATTCTCTATCCGGTAAC
*
12632174 AGCTTAAAATGAGCAAGAGATACGGGCGACAACTTACGTTCATCTGGGACTGGTGGGAAAACGTG
66 AGCTTAAAAGGAGCAAGAGATACGGGCGACAACTTACGTTCATCTGGGACTGGTGGGAAAACGTG
12632239 TCTCCAGATGCTGTACATGTTTTCTAATTTGTACACTTAGTCCACATAGCTCATCGGATCCAGAC
131 TCTCCAGATGCTGTACATGTTTTCTAATTTGTACACTTAGTCCACATAGCTCATCGGATCCAGAC
12632304 GGAGATTCTGACAAGCTGCAATAACATGAGCGCATGGATAACGAAGTGCATCAAACATCCCACAG
196 GGAGATTCTGACAAGCTGCAATAACATGAGCGCATGGATAACGAAGTGCATCAAACATCCCACAG
12632369 TCGCAAGTCCTATTTCGCAAGTGTACACGATATTGCCAGCCAACAACACCTTGGTGCGGTCTGTC
261 TCGCAAGTCCTATTTCGCAAGTGTACACGATATTGCCAGCCAACAACACCTTGGTGCGGTCTGTC
*
12632434 AAACTCTGTCACGCGAAACCATAAGTTTTCTCGATCGTGACACACTA
326 AAACTCTGTCACGCGAAACCATAAGTTATCTCGATCGTGACACACTA
12632481 TGT
1 TGT
12632484 GCATGATGTT
Statistics
Matches: 370, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
372 370 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (372 bp):
TGTTACATATTCTAGTCGAGCAAGGTCGACTCTTTGGTTTGCGACGTAATTCTCTATCCGGTAAC
AGCTTAAAAGGAGCAAGAGATACGGGCGACAACTTACGTTCATCTGGGACTGGTGGGAAAACGTG
TCTCCAGATGCTGTACATGTTTTCTAATTTGTACACTTAGTCCACATAGCTCATCGGATCCAGAC
GGAGATTCTGACAAGCTGCAATAACATGAGCGCATGGATAACGAAGTGCATCAAACATCCCACAG
TCGCAAGTCCTATTTCGCAAGTGTACACGATATTGCCAGCCAACAACACCTTGGTGCGGTCTGTC
AAACTCTGTCACGCGAAACCATAAGTTATCTCGATCGTGACACACTA
Found at i:12635296 original size:126 final size:125
Alignment explanation
Indices: 12634983--12635391 Score: 687
Period size: 126 Copynumber: 3.3 Consensus size: 125
12634973 CCCAAGCATG
12634983 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
12635048 TAGAAGCG-TTTTTATATTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
12635107 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
12635172 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAAGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTT-TTCCAGGAC
* *
12635233 CTACTGTAGCAAAAGCGCATCCACGAGGGCGCGATTTCACAAATTTTTCTCATAA-AGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
* * *
12635297 CTTGAAGCATTTTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGAC
65 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
* *
12635358 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGA
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGA
12635392 CTTTAGAAAT
Statistics
Matches: 268, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
124 72 0.27
125 79 0.29
126 115 0.43
127 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGAC
Found at i:12636324 original size:28 final size:28
Alignment explanation
Indices: 12636279--12636332 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
12636269 AATAAAAAAT
* *
12636279 ATTTTTAAAATTTAAATTTAAT-TATAAA
1 ATTTATAAAATATAAA-TTAATATATAAA
*
12636307 ATTTATAAAATATCAATTAATATATA
1 ATTTATAAAATATAAATTAATATATA
12636333 TATTATTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (28 bp):
ATTTATAAAATATAAATTAATATATAAA
Found at i:12637474 original size:19 final size:19
Alignment explanation
Indices: 12637446--12637485 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
12637436 TATCACATTA
*
12637446 AACATGTGCTTAATAGTCT
1 AACATATGCTTAATAGTCT
*
12637465 AACATATGCTTAATATTCT
1 AACATATGCTTAATAGTCT
12637484 AA
1 AA
12637486 TATTTTCCCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
AACATATGCTTAATAGTCT
Found at i:12639201 original size:14 final size:16
Alignment explanation
Indices: 12639182--12639217 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
12639172 AACTCTATTT
12639182 TAATTATAT-TAG-GA
1 TAATTATATATAGAGA
12639196 TAATTA-ATATAGAGA
1 TAATTATATATAGAGA
12639211 TAATTAT
1 TAATTAT
12639218 TAAGGATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.11
14 9 0.47
15 8 0.42
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (16 bp):
TAATTATATATAGAGA
Found at i:12642988 original size:20 final size:21
Alignment explanation
Indices: 12642962--12643007 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
12642952 TTGGGTTTAA
12642962 ATTTTGGGTCAT-TTGTATTTT
1 ATTTTGGG-CATGTTGTATTTT
*
12642983 -TTTTGGGCCTGTTGTATTTT
1 ATTTTGGGCATGTTGTATTTT
12643003 ATTTT
1 ATTTT
12643008 CTTGGGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 2 0.09
20 16 0.73
21 4 0.18
ACGTcount: A:0.11, C:0.07, G:0.20, T:0.63
Consensus pattern (21 bp):
ATTTTGGGCATGTTGTATTTT
Done.