Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 25 of 144
Found at i:6223448 original size:21 final size:21
Alignment explanation
Indices: 6223423--6223462 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6223413 CATCTTTTTA
6223423 TTATTATT-TATATTTATTTGT
1 TTATT-TTATATATTTATTTGT
*
6223444 TTATTTTATTTATTTATTT
1 TTATTTTATATATTTATTT
6223463 TTCATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (21 bp):
TTATTTTATATATTTATTTGT
Found at i:6223451 original size:13 final size:13
Alignment explanation
Indices: 6223426--6223473 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
6223416 CTTTTTATTA
6223426 TTATTTATATTTAT
1 TTATTTAT-TTTAT
*
6223440 TTGTTTATTTTAT
1 TTATTTATTTTAT
6223453 TTATTTATTTTTCAT
1 TTATTTA-TTTT-AT
6223468 TTATTT
1 TTATTT
6223474 TCATGCCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 11 0.37
14 11 0.37
15 8 0.27
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (13 bp):
TTATTTATTTTAT
Found at i:6223539 original size:6 final size:6
Alignment explanation
Indices: 6223528--6223554 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
6223518 TATTTTACCA
6223528 TTTAAT TTTAAT TTTAAT TTTAAT TTT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTT
6223555 TTTGTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTAAT
Found at i:6224480 original size:58 final size:58
Alignment explanation
Indices: 6224416--6224665 Score: 292
Period size: 58 Copynumber: 4.3 Consensus size: 58
6224406 ACCCGAGAGC
* * * ** *
6224416 AAAATGGTAATTTTGGTTGAAATTG-GGTCAAAACGGGGATTTTGTAAAGTTCGAGGGT
1 AAAATGGTAATTTTGGGTAAAATCGAGGTCAAAAATGGAATTTTG-AAAGTTCGAGGGT
* *
6224474 AAAATGGTAATTTTGGGTAAAATCGAGGTCAAAAATAGAATTTTGAAAATTCGAGGGT
1 AAAATGGTAATTTTGGGTAAAATCGAGGTCAAAAATGGAATTTTGAAAGTTCGAGGGT
* * * *
6224532 AAAATGGTAATTTTTGGTGAAATCGAGGTC-AAAATGGGATTTTGGAAAGTTTGAAGGGT
1 AAAATGGTAATTTTGGGTAAAATCGAGGTCAAAAATGGAATTTT-GAAAGTTCG-AGGGT
* *
6224591 AAAATGGTAATTTTGGGTAAAATC-AGGGTCAAAAATGGAATTTTAGGAAGTT-TAGGGGT
1 AAAATGGTAATTTTGGGTAAAATCGA-GGTCAAAAATGGAATTTT-GAAAGTTCGA-GGGT
6224650 AAAATGGTAATTTTGG
1 AAAATGGTAATTTTGG
6224666 AAAGTTTTGG
Statistics
Matches: 166, Mismatches: 20, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
57 11 0.07
58 71 0.43
59 66 0.40
60 18 0.11
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (58 bp):
AAAATGGTAATTTTGGGTAAAATCGAGGTCAAAAATGGAATTTTGAAAGTTCGAGGGT
Found at i:6224486 original size:29 final size:31
Alignment explanation
Indices: 6224415--6224692 Score: 153
Period size: 29 Copynumber: 9.5 Consensus size: 31
6224405 TACCCGAGAG
6224415 CAAAATGGTAATTTTGGTTGAAA-TT---GGGT
1 CAAAATGGTAATTTTGG-T-AAAGTTCGAGGGT
* **
6224444 CAAAACGGGGATTTT-GTAAAGTTCGAGGGT
1 CAAAATGGTAATTTTGGTAAAGTTCGAGGGT
*
6224474 -AAAATGGTAATTTTGGGTAAA-ATCGA-GGT
1 CAAAATGGTAATTTT-GGTAAAGTTCGAGGGT
* *
6224503 CAAAAATAG-AATTTT-G-AAAATTCGAGGGT
1 C-AAAATGGTAATTTTGGTAAAGTTCGAGGGT
6224532 -AAAATGGTAATTTTTGGTGAAA--TCGA-GGT
1 CAAAATGGTAA-TTTTGGT-AAAGTTCGAGGGT
* *
6224561 CAAAATGG-GATTTTGG-AAAGTTTGAAGGGT
1 CAAAATGGTAATTTTGGTAAAGTTCG-AGGGT
*
6224591 -AAAATGGTAATTTTGGGTAAA-ATC-AGGGT
1 CAAAATGGTAATTTT-GGTAAAGTTCGAGGGT
*
6224620 CAAAAATGG-AATTTTAGG--AAGTT-TAGGGGT
1 C-AAAATGGTAATTTT-GGTAAAGTTCGA-GGGT
*
6224650 -AAAATGGTAATTTTGG-AAAGTTTTG-GGGT
1 CAAAATGGTAATTTTGGTAAAG-TTCGAGGGT
6224679 CAAAAT-GTAATTTT
1 CAAAATGGTAATTTT
6224693 CAAAAAGTTT
Statistics
Matches: 198, Mismatches: 18, Indels: 66
0.70 0.06 0.23
Matches are distributed among these distances:
26 6 0.03
27 12 0.06
28 27 0.14
29 73 0.37
30 53 0.27
31 21 0.11
32 6 0.03
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (31 bp):
CAAAATGGTAATTTTGGTAAAGTTCGAGGGT
Found at i:6224516 original size:30 final size:30
Alignment explanation
Indices: 6224474--6224565 Score: 86
Period size: 31 Copynumber: 3.1 Consensus size: 30
6224464 GTTCGAGGGT
*
6224474 AAAATGGTAATTTTGGGTAAAATCGAGGTCA
1 AAAATAGTAATTTT-GGTAAAATCGAGGTCA
6224505 AAAATAG-AATTTT-G-AAAATTCGAGGGT--
1 AAAATAGTAATTTTGGTAAAA-TCGA-GGTCA
* *
6224532 AAAATGGTAATTTTTGGTGAAATCGAGGTCA
1 AAAATAGTAA-TTTTGGTAAAATCGAGGTCA
6224563 AAA
1 AAA
6224566 TGGGATTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 16
0.72 0.04 0.23
Matches are distributed among these distances:
27 10 0.20
28 7 0.14
29 10 0.20
30 11 0.22
31 12 0.24
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.29
Consensus pattern (30 bp):
AAAATAGTAATTTTGGTAAAATCGAGGTCA
Found at i:6224664 original size:117 final size:116
Alignment explanation
Indices: 6224416--6224665 Score: 346
Period size: 117 Copynumber: 2.1 Consensus size: 116
6224406 ACCCGAGAGC
* *
6224416 AAAATGGTAATTTTGGTTGAAATTGGGTCAAAACGGGGATTTTGTAAAGTTCGAGGGTAAAATGG
1 AAAATGGTAATTTTGGTTGAAATCGGGTCAAAACGGGGATTTTGGAAAGTTCGAGGGTAAAATGG
*
6224481 TAATTTTGGGTAAAATCGAGGTCAAAAATAGAATTTTGAAAATTCGAGGGT
66 TAATTTTGGGTAAAATCGAGGTCAAAAATAGAATTTTGAAAATTAGAGGGT
* *
6224532 AAAATGGTAATTTTTGG-TGAAATCGAGGTCAAAA-TGGGATTTTGGAAAGTTTGAAGGGTAAAA
1 AAAATGGTAA-TTTTGGTTGAAATCG-GGTCAAAACGGGGATTTTGGAAAGTTCG-AGGGTAAAA
* **
6224595 TGGTAATTTTGGGTAAAATC-AGGGTCAAAAATGGAATTTTAGGAAGTTTAG-GGGT
63 TGGTAATTTTGGGTAAAATCGA-GGTCAAAAATAGAATTTT--GAAAATTAGAGGGT
6224650 AAAATGGTAATTTTGG
1 AAAATGGTAATTTTGG
6224666 AAAGTTTTGG
Statistics
Matches: 120, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
116 34 0.28
117 66 0.55
118 14 0.12
119 6 0.05
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (116 bp):
AAAATGGTAATTTTGGTTGAAATCGGGTCAAAACGGGGATTTTGGAAAGTTCGAGGGTAAAATGG
TAATTTTGGGTAAAATCGAGGTCAAAAATAGAATTTTGAAAATTAGAGGGT
Found at i:6224684 original size:30 final size:29
Alignment explanation
Indices: 6224616--6224812 Score: 173
Period size: 30 Copynumber: 6.6 Consensus size: 29
6224606 GGTAAAATCA
* *
6224616 GGGTCAAAAATGGAATTTTAGG-AAGTTTAG
1 GGGTC-AAAATGTAATTTT-GGAAAGTTTTG
6224646 GGGT-AAAATGGTAATTTTGGAAAGTTTTG
1 GGGTCAAAAT-GTAATTTTGGAAAGTTTTG
**
6224675 GGGTCAAAATGTAATTTTCAAAAAGTTTTG
1 GGGTCAAAATGTAATTTT-GGAAAGTTTTG
* * * *
6224705 GGATTAAAATATAATTTTGGAAAAGTTTAG
1 GGGTCAAAATGTAATTTTGG-AAAGTTTTG
* * *
6224735 GGGTCAAAATATAATTTTTAGAAAGTTTTA
1 GGGTCAAAATGTAA-TTTTGGAAAGTTTTG
* * * *
6224765 AGGTTAAAATATAATTTTGGAAAAGTTTAG
1 GGGTCAAAATGTAATTTTGG-AAAGTTTTG
*
6224795 AGGTCAAAATGTAATTTT
1 GGGTCAAAATGTAATTTT
6224813 TGAACAGTCC
Statistics
Matches: 138, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
28 7 0.05
29 31 0.22
30 95 0.69
31 5 0.04
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.37
Consensus pattern (29 bp):
GGGTCAAAATGTAATTTTGGAAAGTTTTG
Found at i:6224804 original size:90 final size:89
Alignment explanation
Indices: 6224638--6224812 Score: 210
Period size: 90 Copynumber: 2.0 Consensus size: 89
6224628 GAATTTTAGG
* * ** *
6224638 AAGTTTAGGGGTAAAATGGTAATTTTGGAAAGTTTTGGGGTCAAAATGTAATTTTCAAAAAGTTT
1 AAGTTTAGGGGTAAAATGATAATTTTAGAAAGTTTTAAGGTCAAAATATAATTTTCAAAAAGTTT
* *
6224703 TGGGATTAAAATATAATTTTGGAA
66 AGGGATCAAAATATAATTTTGGAA
* **
6224727 AAGTTTAGGGGTCAAAAT-ATAATTTTTAGAAAGTTTTAAGGTTAAAATATAATTTTGGAAAAGT
1 AAGTTTAGGGGT-AAAATGATAA-TTTTAGAAAGTTTTAAGGTCAAAATATAATTTTCAAAAAGT
*
6224791 TTAGAGG-TCAAAATGTAATTTT
64 TTAG-GGATCAAAATATAATTTT
6224813 TGAACAGTCC
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
89 15 0.21
90 55 0.76
91 2 0.03
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.38
Consensus pattern (89 bp):
AAGTTTAGGGGTAAAATGATAATTTTAGAAAGTTTTAAGGTCAAAATATAATTTTCAAAAAGTTT
AGGGATCAAAATATAATTTTGGAA
Found at i:6224813 original size:60 final size:61
Alignment explanation
Indices: 6224556--6224813 Score: 241
Period size: 60 Copynumber: 4.3 Consensus size: 61
6224546 TGGTGAAATC
** * * * *
6224556 GAGGTCAAAATGGGA-TTTTGGAAAGTTTGAAGGGTAAAATGGTAATTTTGGGTAAAA--TCA
1 GAGGTCAAAATGTAATTTTTAGAAAGTTTTAAGGGTAAAATGATAATTTT-GG-AAAAGTTTA
* * * * *
6224616 G-GGTCAAAAATGGAA-TTTTAGGAAG-TTTAGGGGTAAAATGGTAATTTTGG-AAAGTTTT
1 GAGGTC-AAAATGTAATTTTTAGAAAGTTTTAAGGGTAAAATGATAATTTTGGAAAAGTTTA
* * *
6224674 GGGGTCAAAATGTAATTTTCAAAAAGTTTT--GGGATTAAAAT-ATAATTTTGGAAAAGTTTA
1 GAGGTCAAAATGTAATTTTTAGAAAGTTTTAAGGG--TAAAATGATAATTTTGGAAAAGTTTA
* * *
6224734 GGGGTCAAAATATAATTTTTAGAAAGTTTTAAGGTTAAAAT-ATAATTTTGGAAAAGTTTA
1 GAGGTCAAAATGTAATTTTTAGAAAGTTTTAAGGGTAAAATGATAATTTTGGAAAAGTTTA
6224794 GAGGTCAAAATGTAATTTTT
1 GAGGTCAAAATGTAATTTTT
6224814 GAACAGTCCA
Statistics
Matches: 168, Mismatches: 19, Indels: 22
0.80 0.09 0.11
Matches are distributed among these distances:
56 3 0.02
58 15 0.09
59 45 0.27
60 103 0.61
62 2 0.01
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (61 bp):
GAGGTCAAAATGTAATTTTTAGAAAGTTTTAAGGGTAAAATGATAATTTTGGAAAAGTTTA
Found at i:6225900 original size:12 final size:12
Alignment explanation
Indices: 6225883--6225907 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6225873 GGCGTTGAAG
6225883 GGGTCCGACCAT
1 GGGTCCGACCAT
6225895 GGGTCCGACCAT
1 GGGTCCGACCAT
6225907 G
1 G
6225908 ACCCACGGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.32, G:0.36, T:0.16
Consensus pattern (12 bp):
GGGTCCGACCAT
Found at i:6226646 original size:35 final size:34
Alignment explanation
Indices: 6226606--6226735 Score: 154
Period size: 35 Copynumber: 3.7 Consensus size: 34
6226596 TGGACATTTG
* * *
6226606 AATTTAAATTTATAATCATTTTAAATTTGAAAATA
1 AATTTAAATTTA-AATAAATTTAAATTTAAAAATA
*
6226641 AATTTAAACTTAAATTAAATTTAAATTTAAAAATA
1 AATTTAAATTTAAA-TAAATTTAAATTTAAAAATA
* *
6226676 AATTTAAATTTAAAATAAATTTAAATTTTAAAACA
1 AATTTAAATTT-AAATAAATTTAAATTTAAAAATA
6226711 AATTT-AATCTTAAGATAAATTTAAA
1 AATTTAAAT-TTAA-ATAAATTTAAA
6226736 ATGGGTTTGG
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
34 7 0.08
35 74 0.88
36 3 0.04
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (34 bp):
AATTTAAATTTAAATAAATTTAAATTTAAAAATA
Found at i:6226661 original size:17 final size:17
Alignment explanation
Indices: 6226606--6226735 Score: 154
Period size: 17 Copynumber: 7.5 Consensus size: 17
6226596 TGGACATTTG
* *
6226606 AATTTAAATTTATAATC
1 AATTTAAATTTAAAATA
*
6226623 ATTTTAAATTTGAAAATA
1 AATTTAAATTT-AAAATA
* *
6226641 AATTTAAACTTAAATTA
1 AATTTAAATTTAAAATA
6226658 AATTTAAATTTAAAAATA
1 AATTTAAATTT-AAAATA
6226676 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
*
6226693 AATTTAAATTTTAAAACA
1 AATTTAAA-TTTAAAATA
*
6226711 AATTT-AATCTTAAGATA
1 AATTTAAAT-TTAAAATA
6226728 AATTTAAA
1 AATTTAAA
6226736 ATGGGTTTGG
Statistics
Matches: 97, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
16 1 0.01
17 52 0.54
18 44 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:6226707 original size:7 final size:6
Alignment explanation
Indices: 6226625--6226703 Score: 83
Period size: 6 Copynumber: 13.5 Consensus size: 6
6226615 TTATAATCAT
* *
6226625 TTTAAA TTTGAAA -ATAAA TTTAAA CTTAAA -TTAAA TTTAAA TTTAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** *
6226672 AATAAA TTTAAA TTTAAA -ATAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
6226704 TAAAACAAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
5 12 0.20
6 45 0.75
7 3 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:6227059 original size:12 final size:12
Alignment explanation
Indices: 6227032--6227086 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
6227022 AAATTCTCGC
6227032 TTTTATTTA--A
1 TTTTATTTATTA
*
6227042 TTTTATTTATTG
1 TTTTATTTATTA
* *
6227054 TTTTATATATTT
1 TTTTATTTATTA
*
6227066 TATTTATTTGTTA
1 T-TTTATTTATTA
6227079 TTTTATTT
1 TTTTATTT
6227087 TTTACCTTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 9 0.25
12 18 0.50
13 9 0.25
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (12 bp):
TTTTATTTATTA
Found at i:6227067 original size:21 final size:22
Alignment explanation
Indices: 6227032--6227073 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
6227022 AAATTCTCGC
*
6227032 TTTTATTTAATTTTATTTATTG
1 TTTTATATAATTTTATTTATTG
6227054 TTTTATAT-ATTTTATTTATT
1 TTTTATATAATTTTATTTATT
6227074 TGTTATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTATATAATTTTATTTATTG
Found at i:6227080 original size:16 final size:15
Alignment explanation
Indices: 6227032--6227086 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
6227022 AAATTCTCGC
*
6227032 TTTTATTTAATTTTA
1 TTTTATTTATTTTTA
6227047 -TTTATTGT-TTTATATA
1 TTTTATT-TATTT-T-TA
6227063 TTTTATTTATTTGTTA
1 TTTTATTTATTT-TTA
6227079 TTTTATTT
1 TTTTATTT
6227087 TTTACCTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
14 8 0.24
15 2 0.06
16 13 0.39
17 10 0.30
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (15 bp):
TTTTATTTATTTTTA
Found at i:6227085 original size:21 final size:20
Alignment explanation
Indices: 6227034--6227087 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
6227024 ATTCTCGCTT
*
6227034 TTATTTAATTTTATTTATTG
1 TTATTTTATTTTATTTATTG
6227054 TT-TTATATATTTTATTTATTTG
1 TTATT-T-TATTTTATTTA-TTG
6227076 TTATTTTATTTT
1 TTATTTTATTTT
6227088 TTACCTTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 2 0.07
20 3 0.10
21 16 0.55
22 6 0.21
23 2 0.07
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (20 bp):
TTATTTTATTTTATTTATTG
Found at i:6227146 original size:60 final size:60
Alignment explanation
Indices: 6227036--6227148 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 60
6227026 TCTCGCTTTT
* ** * * *
6227036 ATTTAATTTTATTTATTGTTTTATATATTTTATTTATTTGTTATTTTATTTTTTACCTTC
1 ATTTAATTTTATATATTCATTGATATATTTTATTTATTTGATATTATATTTTTTACCTTC
6227096 ATTTAATTTTATATATTCATTGATAT-TTTTATTTATTT-ATATGTCATATTTTT
1 ATTTAATTTTATATATTCATTGATATATTTTATTTATTTGATAT-T-ATATTTTT
6227149 GCTTTTAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
58 3 0.07
59 13 0.29
60 29 0.64
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (60 bp):
ATTTAATTTTATATATTCATTGATATATTTTATTTATTTGATATTATATTTTTTACCTTC
Found at i:6227250 original size:4 final size:4
Alignment explanation
Indices: 6227241--6227266 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
6227231 TGCTTTTACT
6227241 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
6227267 ATTTACTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:6227376 original size:18 final size:17
Alignment explanation
Indices: 6227341--6227391 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
6227331 TGCTATTGGT
*
6227341 TGTATTTAATTGTATTCA
1 TGTATTT-ATTTTATTCA
*
6227359 TTTAATTTATTTTATTCA
1 TGT-ATTTATTTTATTCA
*
6227377 TGTATTTTTTTTATT
1 TGTATTTATTTTATT
6227392 TTGCCATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 11 0.39
18 13 0.46
19 4 0.14
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.67
Consensus pattern (17 bp):
TGTATTTATTTTATTCA
Found at i:6229435 original size:10 final size:10
Alignment explanation
Indices: 6229420--6229661 Score: 67
Period size: 9 Copynumber: 25.3 Consensus size: 10
6229410 TAGTACCATA
6229420 ATTTTTATAT
1 ATTTTTATAT
6229430 ATTTTT-TAT
1 ATTTTTATAT
* *
6229439 GAATATTATAT
1 -ATTTTTATAT
*
6229450 -TTCTTTACAT
1 ATT-TTTATAT
*
6229460 TTTTTTATA-
1 ATTTTTATAT
*
6229469 ATTTTCT-TACG
1 ATTTT-TATA-T
6229480 A-TTTTATA-
1 ATTTTTATAT
*
6229488 AATTTTATA-
1 ATTTTTATAT
**
6229497 ATTTTCCTAT
1 ATTTTTATAT
6229507 ATTTTTATAT
1 ATTTTTATAT
*
6229517 A-TCTTATA-
1 ATTTTTATAT
*
6229525 ATTTTT-TACA
1 ATTTTTATA-T
6229535 ATTTTTTATAT
1 A-TTTTTATAT
6229546 ATTTTT-TAT
1 ATTTTTATAT
*
6229555 AATTTTTACA-
1 -ATTTTTATAT
*
6229565 ATTTTTCTA-
1 ATTTTTATAT
*
6229574 ATTTTTCTA-
1 ATTTTTATAT
6229583 ATTTTTA-AT
1 ATTTTTATAT
*
6229592 AAATTTTA-A-
1 -ATTTTTATAT
*
6229601 ATATTT-TAT
1 ATTTTTATAT
*
6229610 ATTTTTATTAA
1 ATTTTTA-TAT
* *
6229621 AATTTAAT-T
1 ATTTTTATAT
6229630 ATTTTTATA-
1 ATTTTTATAT
*
6229639 AATTTTAT-T
1 ATTTTTATAT
*
6229648 AATTTTTATTT
1 -ATTTTTATAT
6229659 ATT
1 ATT
6229662 ATCATTTTTG
Statistics
Matches: 174, Mismatches: 31, Indels: 54
0.67 0.12 0.21
Matches are distributed among these distances:
8 10 0.06
9 76 0.44
10 65 0.37
11 21 0.12
12 2 0.01
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:6229497 original size:28 final size:28
Alignment explanation
Indices: 6229462--6229644 Score: 99
Period size: 28 Copynumber: 6.4 Consensus size: 28
6229452 CTTTACATTT
*
6229462 TTTTATAATTTTCTTACGATTTTATAAA
1 TTTTATAATTTTCTTACAATTTTATAAA
* * * *
6229490 TTTTATAATTTTCCTATATTTTTATATA
1 TTTTATAATTTTCTTACAATTTTATAAA
* *
6229518 TCTTATAATTTT-TTACAATTTTTTATATATT
1 TTTTATAATTTTCTTACAA--TTTTATA-A-A
* *
6229549 TTTTATAA-TTT-TTACAATTTTTCTAAT
1 TTTTATAATTTTCTTACAA-TTTTATAAA
*
6229576 TTTTCTAATTTT-TAATA-AATTTTA-AATA
1 TTTTATAATTTTCT--TACAATTTTATAA-A
* * * * * *
6229604 TTTTATATTTTTATTAAAATTTAATTAT
1 TTTTATAATTTTCTTACAATTTTATAAA
6229632 TTTTATAAATTTT
1 TTTTAT-AATTTT
6229645 ATTAATTTTT
Statistics
Matches: 121, Mismatches: 22, Indels: 23
0.73 0.13 0.14
Matches are distributed among these distances:
27 15 0.12
28 65 0.54
29 23 0.19
30 11 0.09
31 7 0.06
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (28 bp):
TTTTATAATTTTCTTACAATTTTATAAA
Found at i:6229551 original size:21 final size:20
Alignment explanation
Indices: 6229444--6229570 Score: 72
Period size: 19 Copynumber: 6.5 Consensus size: 20
6229434 TTTATGAATA
*
6229444 TTAT-ATTTCTTTACATTTTT
1 TTATAATTT-TTTACAATTTT
*
6229464 TTATAATTTTCTTACGA--TT
1 TTATAATTTT-TTACAATTTT
* *
6229483 TTATAA-ATTTTATAATTTT
1 TTATAATTTTTTACAATTTT
* * * *
6229502 CCTAT-A-TTTTTA-TATATC
1 -TTATAATTTTTTACAATTTT
6229520 TTATAATTTTTTACAATTTT
1 TTATAATTTTTTACAATTTT
*
6229540 TTATATATTTTTTATAA-TTT
1 TTATA-ATTTTTTACAATTTT
*
6229560 TTACAATTTTT
1 TTATAATTTTT
6229571 CTAATTTTTC
Statistics
Matches: 82, Mismatches: 16, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
17 7 0.09
18 6 0.07
19 28 0.34
20 23 0.28
21 18 0.22
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (20 bp):
TTATAATTTTTTACAATTTT
Found at i:6229613 original size:27 final size:27
Alignment explanation
Indices: 6229583--6229634 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
6229573 AATTTTTCTA
*
6229583 ATTTTTAATAAATTTTAAATATTTTAT
1 ATTTTTAATAAAATTTAAATATTTTAT
* *
6229610 ATTTTTATTAAAATTTAATTATTTT
1 ATTTTTAATAAAATTTAAATATTTT
6229635 TATAAATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTTTTAATAAAATTTAAATATTTTAT
Found at i:6229620 original size:20 final size:20
Alignment explanation
Indices: 6229597--6229657 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
6229587 TTAATAAATT
6229597 TTAAATATTTTATATTTTTA
1 TTAAATATTTTATATTTTTA
*
6229617 TTAAA-ATTTAATTATTTTTA
1 TTAAATATTTTA-TATTTTTA
*
6229637 -TAAATTTTATTA-ATTTTTA
1 TTAAATATT-TTATATTTTTA
6229656 TT
1 TT
6229658 TATTATCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
19 16 0.47
20 16 0.47
21 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTAAATATTTTATATTTTTA
Found at i:6229625 original size:19 final size:20
Alignment explanation
Indices: 6229597--6229657 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
6229587 TTAATAAATT
6229597 TTAAATATTTTA-TATTTTTA
1 TTAAA-ATTTTATTATTTTTA
*
6229617 TTAAAATTTAATTATTTTTA
1 TTAAAATTTTATTATTTTTA
6229637 -T-AAATTTTATTAATTTTTA
1 TTAAAATTTTATT-ATTTTTA
6229656 TT
1 TT
6229658 TATTATCATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
18 9 0.25
19 13 0.36
20 14 0.39
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTAAAATTTTATTATTTTTA
Found at i:6230114 original size:5 final size:5
Alignment explanation
Indices: 6230104--6230137 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
6230094 AAACTAAATT
*
6230104 TAAAA TAAAA TTAAA T-AAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
6230138 ACCATAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
TAAAA
Found at i:6230125 original size:14 final size:14
Alignment explanation
Indices: 6230106--6230162 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
6230096 ACTAAATTTA
6230106 AAATAAAATTAAAT
1 AAATAAAATTAAAT
*
6230120 AAATAAAATAAAAT
1 AAATAAAATTAAAT
*
6230134 AAA-AACCA-TAAAT
1 AAATAA-AATTAAAT
6230147 AAATACAAATTAAAT
1 AAATA-AAATTAAAT
6230162 A
1 A
6230163 TCCAAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
13 9 0.26
14 19 0.54
15 7 0.20
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATAAAATTAAAT
Found at i:6230148 original size:23 final size:23
Alignment explanation
Indices: 6230118--6230198 Score: 80
Period size: 22 Copynumber: 3.5 Consensus size: 23
6230108 ATAAAATTAA
6230118 ATAAATAAAATAAAATAAA-AACC
1 ATAAAT-AAATAAAATAAATAACC
*
6230141 ATAAATAAATACAAATTAAATATCC
1 ATAAATAAATA-AAA-TAAATAACC
*
6230166 A-AAATAAATAAAAT-AAT-ACAA
1 ATAAATAAATAAAATAAATAAC-C
6230187 ATAAATAAATAA
1 ATAAATAAATAA
6230199 TAGAAAATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
20 1 0.02
21 4 0.08
22 16 0.32
23 12 0.24
24 13 0.26
25 4 0.08
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (23 bp):
ATAAATAAATAAAATAAATAACC
Found at i:6230179 original size:18 final size:18
Alignment explanation
Indices: 6230167--6230200 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6230157 TAAATATCCA
6230167 AAATAAATAAAATAATAC
1 AAATAAATAAAATAATAC
6230185 AAATAAAT-AAATAATA
1 AAATAAATAAAATAATA
6230201 GAAAATTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (18 bp):
AAATAAATAAAATAATAC
Found at i:6230197 original size:14 final size:14
Alignment explanation
Indices: 6230106--6230197 Score: 57
Period size: 14 Copynumber: 6.4 Consensus size: 14
6230096 ACTAAATTTA
6230106 AAATA-AAATTAAAT
1 AAATACAAA-TAAAT
6230120 AAATA-AAATAAAAT
1 AAATACAAAT-AAAT
* *
6230134 AAAAAC-CATAAAT
1 AAATACAAATAAAT
6230147 AAATACAAATTAAAT
1 AAATACAAA-TAAAT
* *
6230162 ATCCAAAATAAATAAA-
1 A---AATACAAATAAAT
6230178 ATAATACAAATAAAT
1 A-AATACAAATAAAT
6230193 AAATA
1 AAATA
6230198 ATAGAAAATT
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
13 10 0.16
14 33 0.54
15 7 0.11
16 1 0.02
17 4 0.07
18 6 0.10
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATACAAATAAAT
Found at i:6230206 original size:18 final size:18
Alignment explanation
Indices: 6230166--6230206 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6230156 TTAAATATCC
6230166 AAAATAAATAAAATAATA
1 AAAATAAATAAAATAATA
*
6230184 CAAATAAAT-AAATAATA
1 AAAATAAATAAAATAATA
6230201 GAAAAT
1 -AAAAT
6230207 TAAGATGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAATAAATAAAATAATA
Found at i:6231485 original size:24 final size:24
Alignment explanation
Indices: 6231457--6231503 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
6231447 TTAATTTTGT
6231457 AAATGGACTATTTT-TTTTATTTTA
1 AAATGGACT-TTTTATTTTATTTTA
6231481 AAATGGACTTTTTATTTTATTTT
1 AAATGGACTTTTTATTTTATTTT
6231504 TGTTTTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.60
Consensus pattern (24 bp):
AAATGGACTTTTTATTTTATTTTA
Found at i:6231827 original size:50 final size:50
Alignment explanation
Indices: 6231773--6232078 Score: 305
Period size: 50 Copynumber: 6.2 Consensus size: 50
6231763 CAAGGAGATC
* * * * * *
6231773 AAGATTTGCTTTTATAGCTTTAATCTT-CCCTTTTACAGTTTTAGGGGTAT
1 AAGATTTGCTTCTGTAGCTTCAAT-TTGCCCCTCTACAGCTTTAGGGGTAT
* * ** *
6231823 AAGATTTGATTTTACAACTTCAATTTGCCCCTCTACAGCTTTAGGGGTAT
1 AAGATTTGCTTCTGTAGCTTCAATTTGCCCCTCTACAGCTTTAGGGGTAT
* * * ** *
6231873 AAGATTTGCTTTTGTATCTTCAATTTGCCCCTCTACA-ATTGTAAAGGTGT
1 AAGATTTGCTTCTGTAGCTTCAATTTGCCCCTCTACAGCTT-TAGGGGTAT
* *
6231923 AAGATTTGCTTCTGTAGCTTCAATTTGCCCCTCTACGGCTTTAAGGGTAT
1 AAGATTTGCTTCTGTAGCTTCAATTTGCCCCTCTACAGCTTTAGGGGTAT
* * * * *
6231973 AAGATTTGCTTCTGTAGCTTTAATTTGCCTCTTTATAACTTTAGGGGTAT
1 AAGATTTGCTTCTGTAGCTTCAATTTGCCCCTCTACAGCTTTAGGGGTAT
* * ** *
6232023 AAGATTTGCTTCTGCAGCTTCAATCTATCCCTCT--AGATTTAGGGGTAT
1 AAGATTTGCTTCTGTAGCTTCAATTTGCCCCTCTACAGCTTTAGGGGTAT
6232071 AAGATTTG
1 AAGATTTG
6232079 ATGTGGTGGC
Statistics
Matches: 216, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
48 20 0.09
49 4 0.02
50 190 0.88
51 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.42
Consensus pattern (50 bp):
AAGATTTGCTTCTGTAGCTTCAATTTGCCCCTCTACAGCTTTAGGGGTAT
Found at i:6232026 original size:100 final size:98
Alignment explanation
Indices: 6231773--6232078 Score: 346
Period size: 100 Copynumber: 3.1 Consensus size: 98
6231763 CAAGGAGATC
* * * * * *
6231773 AAGATTTGCTTTTATAGCTTTAATCTTCCCT-TTTACAGTTTTAGGGGTATAAGATTTGATTTTA
1 AAGATTTGCTTTTGTAGCTTTAAT-TTGCCTCTTTACA-ATTTAGGGGTATAAGATTTGCTTCTG
*
6231837 CAACTTCAATTTGCCCCTCTACAGCTTTAGGGGTAT
64 CAGCTTCAATTTGCCCCTCTAC-GCTTTAGGGGTAT
* * * * ** * *
6231873 AAGATTTGCTTTTGTATCTTCAATTTGCCCCTCTACAATTGTAAAGGTGTAAGATTTGCTTCTGT
1 AAGATTTGCTTTTGTAGCTTTAATTTGCCTCTTTACAATT-TAGGGGTATAAGATTTGCTTCTGC
*
6231938 AGCTTCAATTTGCCCCTCTACGGCTTTAAGGGTAT
65 AGCTTCAATTTGCCCCTCTAC-GCTTTAGGGGTAT
* *
6231973 AAGATTTGCTTCTGTAGCTTTAATTTGCCTCTTTATAACTTTAGGGGTATAAGATTTGCTTCTGC
1 AAGATTTGCTTTTGTAGCTTTAATTTGCCTCTTTACAA-TTTAGGGGTATAAGATTTGCTTCTGC
* ** *
6232038 AGCTTCAATCTATCCCTCTA-GATTTAGGGGTAT
65 AGCTTCAATTTGCCCCTCTACGCTTTAGGGGTAT
6232071 AAGATTTG
1 AAGATTTG
6232079 ATGTGGTGGC
Statistics
Matches: 171, Mismatches: 32, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
98 19 0.11
99 6 0.04
100 144 0.84
101 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.42
Consensus pattern (98 bp):
AAGATTTGCTTTTGTAGCTTTAATTTGCCTCTTTACAATTTAGGGGTATAAGATTTGCTTCTGCA
GCTTCAATTTGCCCCTCTACGCTTTAGGGGTAT
Found at i:6232091 original size:48 final size:48
Alignment explanation
Indices: 6232039--6232457 Score: 408
Period size: 48 Copynumber: 8.9 Consensus size: 48
6232029 TGCTTCTGCA
* *
6232039 GCTTCAATCTATCCCTCTAGATTTAGGGGTATAAGATTTGATGTGGTG
1 GCTTCAATCTGTCCCTCTAGATTTAGGGGTATAAGATTGGATGTGGTG
** * * * *
6232087 GCTTCAATCTACCCCTTTGGATTTAGAGCTATAAGATTGGATGTGGTG
1 GCTTCAATCTGTCCCTCTAGATTTAGGGGTATAAGATTGGATGTGGTG
* * * * *
6232135 ACTTTAATCTGCCCCTCTAGATTTAGGGGTATAAGATTGGATATGATG
1 GCTTCAATCTGTCCCTCTAGATTTAGGGGTATAAGATTGGATGTGGTG
* * * * * * *
6232183 GCTGT-AATTTGTCCTTTTTGATTTAGGGGTGTAAGATTGAATGTGGTA
1 GCT-TCAATCTGTCCCTCTAGATTTAGGGGTATAAGATTGGATGTGGTG
* * * *
6232231 GCTCCAATTTGCCCCTCTAAATTTAGGGGTATAAGATTGGA--TGGTG
1 GCTTCAATCTGTCCCTCTAGATTTAGGGGTATAAGATTGGATGTGGTG
* *
6232277 GCTTCAATCTGCCCCTCTAGATTTAGGGGTATAAGATTAGATGT--TG
1 GCTTCAATCTGTCCCTCTAGATTTAGGGGTATAAGATTGGATGTGGTG
* * * * *
6232323 GATTCGATTTG-CCCTTTTGGATTTAGGGGTATAAGATTGGA--TGGTG
1 GCTTCAATCTGTCCC-TCTAGATTTAGGGGTATAAGATTGGATGTGGTG
* * * * **
6232369 ACTTCAATCTGTCCCTTTGGATTTAGGGGTACAAGATCAGA--TGGTG
1 GCTTCAATCTGTCCCTCTAGATTTAGGGGTATAAGATTGGATGTGGTG
*
6232415 GCTTCAGTCTGTCCCTCTAGATTTAGGGGTATAAGATTGGATG
1 GCTTCAATCTGTCCCTCTAGATTTAGGGGTATAAGATTGGATG
6232458 GTGGCTACGT
Statistics
Matches: 302, Mismatches: 59, Indels: 20
0.79 0.15 0.05
Matches are distributed among these distances:
44 1 0.00
45 3 0.01
46 145 0.48
47 3 0.01
48 149 0.49
49 1 0.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.36
Consensus pattern (48 bp):
GCTTCAATCTGTCCCTCTAGATTTAGGGGTATAAGATTGGATGTGGTG
Found at i:6232304 original size:46 final size:46
Alignment explanation
Indices: 6232012--6232463 Score: 411
Period size: 46 Copynumber: 9.6 Consensus size: 46
6232002 TCTTTATAAC
* * ** **
6232012 TTTAGGGGTATAAGATTTGCTTCTGCAGCTTCAATCTATCCCTCTAGA
1 TTTAGGGGTATAAGATTGGATGGTG--GCTTCAATCTGCCCCTCTAGA
* * * *
6232060 TTTAGGGGTATAAGATTTGATGTGGTGGCTTCAATCTACCCCTTTGGA
1 TTTAGGGGTATAAGATTGGA--TGGTGGCTTCAATCTGCCCCTCTAGA
* * * *
6232108 TTTAGAGCTATAAGATTGGATGTGGTGACTTTAATCTGCCCCTCTAGA
1 TTTAGGGGTATAAGATTGGA--TGGTGGCTTCAATCTGCCCCTCTAGA
* * * * * *
6232156 TTTAGGGGTATAAGATTGGATATGATGGCTGT-AATTTGTCCTTTTTGA
1 TTTAGGGGTATAAGATTGG--ATGGTGGCT-TCAATCTGCCCCTCTAGA
* * * * * *
6232204 TTTAGGGGTGTAAGATTGAATGTGGTAGCTCCAATTTGCCCCTCTAAA
1 TTTAGGGGTATAAGATTGGA--TGGTGGCTTCAATCTGCCCCTCTAGA
6232252 TTTAGGGGTATAAGATTGGATGGTGGCTTCAATCTGCCCCTCTAGA
1 TTTAGGGGTATAAGATTGGATGGTGGCTTCAATCTGCCCCTCTAGA
* * * * * * * *
6232298 TTTAGGGGTATAAGATTAGATGTTGGATTCGATTTGCCCTTTTGGA
1 TTTAGGGGTATAAGATTGGATGGTGGCTTCAATCTGCCCCTCTAGA
* * * *
6232344 TTTAGGGGTATAAGATTGGATGGTGACTTCAATCTGTCCCTTTGGA
1 TTTAGGGGTATAAGATTGGATGGTGGCTTCAATCTGCCCCTCTAGA
* ** * *
6232390 TTTAGGGGTACAAGATCAGATGGTGGCTTCAGTCTGTCCCTCTAGA
1 TTTAGGGGTATAAGATTGGATGGTGGCTTCAATCTGCCCCTCTAGA
6232436 TTTAGGGGTATAAGATTGGATGGTGGCT
1 TTTAGGGGTATAAGATTGGATGGTGGCT
6232464 ACGTAAATTC
Statistics
Matches: 331, Mismatches: 65, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
46 163 0.49
48 163 0.49
49 1 0.00
50 4 0.01
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.37
Consensus pattern (46 bp):
TTTAGGGGTATAAGATTGGATGGTGGCTTCAATCTGCCCCTCTAGA
Found at i:6232655 original size:99 final size:99
Alignment explanation
Indices: 6232466--6232962 Score: 380
Period size: 99 Copynumber: 5.0 Consensus size: 99
6232456 TGGTGGCTAC
* *
6232466 GTAAATTCACTCCATTCCACTGCAACTTCAGAGAGATTGAGATCCGCTACTATAGTTTTAATCGG
1 GTAACTTCACTCCATTCCACTGCAACTTCAGAGAGATTGAGATCCGCTACT-T-GTTTTAATCCG
*** *
6232531 TTTCACTGCAACTTCAAGAAGATAGGATTTGGTGTG
64 ACCCACTGCAACTTCAAGGAGATAGGATTTGGTGTG
* * * * **
6232567 GTAACTTCACTCCATTCCACTGTAATTTTAGGGAGATTGA-AGTCCATTACTTGTTTTAATCCGA
1 GTAACTTCACTCCATTCCACTGCAACTTCAGAGAGATTGAGA-TCCGCTACTTGTTTTAATCCGA
* *
6232631 CCCACTGCAACTTCAAGGATATAGGATTTGAG-GTT
65 CCCACTGCAACTTCAAGGAGATAGGATTTG-GTGTG
** * * *
6232666 GTGGCTTCACTGCATTCCACTGCAACTTCAGTAGAGATTGAGATCTGCTACTTGTTTTACTCC-A
1 GTAACTTCACTCCATTCCACTGCAACTTCAG-AGAGATTGAGATCCGCTACTTGTTTTAATCCGA
* * *
6232730 CTTCACTGCTACTT-TAGGAAGATAGGATTTGGTGTG
65 C-CCACTGCAACTTCAAGG-AGATAGGATTTGGTGTG
* * * * * * * *
6232766 GTAACTTCGCTCCATTCCATTGTAACTTCAGGGAGATTGAGGTCCGTTACTTGTTTTAATCTGAT
1 GTAACTTCACTCCATTCCACTGCAACTTCAGAGAGATTGAGATCCGCTACTTGTTTTAATCCGAC
* * * * * * *
6232831 CTACTGTAACTTTAGGGATATAAGATTTGAG-GTT
66 CCACTGCAACTTCAAGGAGATAGGATTTG-GTGTG
* ** * * * * ** * *
6232865 ATGGCTTTACTCTATT-CACTGCAACTTCAATAGAGATTAAGATTTGCTACGTGTTTTAATCTG-
1 GTAACTTCACTCCATTCCACTGCAACTTC-AGAGAGATTGAGATCCGCTACTTGTTTTAATCCGA
* * *
6232928 CTTCACTGCAACTTC-GGGAAGGTAGGATTTGGTGT
65 C-CCACTGCAACTTCAAGG-AGATAGGATTTGGTGT
6232963 TTCACTGGTC
Statistics
Matches: 306, Mismatches: 76, Indels: 30
0.74 0.18 0.07
Matches are distributed among these distances:
98 14 0.05
99 170 0.56
100 79 0.26
101 43 0.14
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (99 bp):
GTAACTTCACTCCATTCCACTGCAACTTCAGAGAGATTGAGATCCGCTACTTGTTTTAATCCGAC
CCACTGCAACTTCAAGGAGATAGGATTTGGTGTG
Found at i:6232757 original size:199 final size:198
Alignment explanation
Indices: 6232471--6232962 Score: 655
Period size: 199 Copynumber: 2.5 Consensus size: 198
6232461 GCTACGTAAA
* * *
6232471 TTCACTCCATTCCACTGCAACTTCAG-AGAGATTGAGATCCGCTACTATAGTTTTAATCGGTTTC
1 TTCACT-CATTCCACTGCAACTTCAGTAGAGATTGAGATCTGCTACT-T-GTTTTAATCCGCTTC
* * *
6232535 ACTGCAACTTCAAGAAGATAGGATTTGGTGTGGTAACTTCACTCCATTCCACTGTAATTTTAGGG
63 ACTGCAACTTCAGGAAGATAGGATTTGGTGTGGTAACTTCACTCCATTCCACTGTAACTTCAGGG
*
6232600 AGATTGAAGTCCATTACTTGTTTTAATCCGACCCACTGCAACTTCAAGGATATAGGATTTGAGGT
128 AGATTGAAGTCCATTACTTGTTTTAATCCGACCCACTGCAACTTCAAGGATATAAGATTTGAGGT
*
6232665 TGTGGC
193 TATGGC
* *
6232671 TTCACTGCATTCCACTGCAACTTCAGTAGAGATTGAGATCTGCTACTTGTTTTACTCCACTTCAC
1 TTCACT-CATTCCACTGCAACTTCAGTAGAGATTGAGATCTGCTACTTGTTTTAATCCGCTTCAC
* * * *
6232736 TGCTACTTTAGGAAGATAGGATTTGGTGTGGTAACTTCGCTCCATTCCATTGTAACTTCAGGGAG
65 TGCAACTTCAGGAAGATAGGATTTGGTGTGGTAACTTCACTCCATTCCACTGTAACTTCAGGGAG
* * * * * * * *
6232801 ATTGAGGTCCGTTACTTGTTTTAATCTGATCTACTGTAACTTTAGGGATATAAGATTTGAGGTTA
130 ATTGAAGTCCATTACTTGTTTTAATCCGACCCACTGCAACTTCAAGGATATAAGATTTGAGGTTA
6232866 TGGC
195 TGGC
* * * * * *
6232870 TTTACTCTATT-CACTGCAACTTCAATAGAGATTAAGATTTGCTACGTGTTTTAATCTGCTTCAC
1 TTCACTC-ATTCCACTGCAACTTCAGTAGAGATTGAGATCTGCTACTTGTTTTAATCCGCTTCAC
* *
6232934 TGCAACTTCGGGAAGGTAGGATTTGGTGT
65 TGCAACTTCAGGAAGATAGGATTTGGTGT
6232963 TTCACTGGTC
Statistics
Matches: 255, Mismatches: 35, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
198 72 0.28
199 138 0.54
200 26 0.10
201 19 0.07
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (198 bp):
TTCACTCATTCCACTGCAACTTCAGTAGAGATTGAGATCTGCTACTTGTTTTAATCCGCTTCACT
GCAACTTCAGGAAGATAGGATTTGGTGTGGTAACTTCACTCCATTCCACTGTAACTTCAGGGAGA
TTGAAGTCCATTACTTGTTTTAATCCGACCCACTGCAACTTCAAGGATATAAGATTTGAGGTTAT
GGC
Found at i:6233760 original size:13 final size:14
Alignment explanation
Indices: 6233728--6233758 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
6233718 TCAACCTCTT
6233728 TTTTTC-CTTTTTC
1 TTTTTCTCTTTTTC
6233741 TTTTTCTCTTTTTC
1 TTTTTCTCTTTTTC
6233755 TTTT
1 TTTT
6233759 CTTTTCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTCTCTTTTTC
Found at i:6237828 original size:5 final size:5
Alignment explanation
Indices: 6237820--6237880 Score: 63
Period size: 5 Copynumber: 11.6 Consensus size: 5
6237810 AAACTAAATT
6237820 TAAAA TAAAA TAAAA TAAAA TAAAA T-AAA TACAAA TTAAATA TCCAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA-AAA -TAAA-A T--AAAA
6237869 T-AAA TAAAA TAA
1 TAAAA TAAAA TAA
6237881 TACAAATAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
4 8 0.16
5 27 0.55
6 6 0.12
7 5 0.10
8 3 0.06
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:6237872 original size:13 final size:11
Alignment explanation
Indices: 6237821--6237892 Score: 57
Period size: 10 Copynumber: 6.9 Consensus size: 11
6237811 AACTAAATTT
*
6237821 AAAATAAA-AT
1 AAAATAAATAC
*
6237831 AAAATAAA-AT
1 AAAATAAATAC
6237841 AAAATAAATAC
1 AAAATAAATAC
*
6237852 AAATTAAATATCC
1 AAAATAAATA--C
6237865 AAAATAAAT--
1 AAAATAAATAC
6237874 AAAAT-AATAC
1 AAAATAAATAC
6237884 -AAATAAATA
1 AAAATAAATA
6237893 AATAAATAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
8 3 0.06
9 9 0.17
10 22 0.42
11 10 0.19
13 9 0.17
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAATAAATAC
Found at i:6237909 original size:18 final size:20
Alignment explanation
Indices: 6237821--6237908 Score: 63
Period size: 21 Copynumber: 4.1 Consensus size: 20
6237811 AACTAAATTT
*
6237821 AAAATAAAATAAAATAA-AAT
1 AAAAT-AAATAAAATAATAAA
**
6237841 AAAATAAATACAAATTAAATATCC
1 AAAATAAATA-AAA-T-AATA-AA
6237865 AAAATAAATAAAATAATACAA
1 AAAATAAATAAAATAATA-AA
6237886 ATAAATAAAT-AAATAATAGAA
1 A-AAATAAATAAAATAATA-AA
6237907 AA
1 AA
6237909 TTAAGAGGGA
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
19 5 0.09
20 9 0.16
21 17 0.30
22 11 0.20
23 4 0.07
24 10 0.18
ACGTcount: A:0.73, C:0.05, G:0.01, T:0.22
Consensus pattern (20 bp):
AAAATAAATAAAATAATAAA
Found at i:6237909 original size:22 final size:22
Alignment explanation
Indices: 6237822--6237909 Score: 65
Period size: 22 Copynumber: 3.8 Consensus size: 22
6237812 ACTAAATTTA
*
6237822 AAATAAAATAAAATAAAATAAAAT
1 AAATAAAATAATA-AAAAT-AAAT
*
6237846 AAATACAAAT--TAAATATCCAAAAT
1 AAATA-AAATAATAAAAAT---AAAT
*
6237870 AAATAAAATAATACAAATAAAT
1 AAATAAAATAATAAAAATAAAT
6237892 AAAT-AAATAATAGAAAAT
1 AAATAAAATAATA-AAAAT
6237910 TAAGAGGGAT
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
21 8 0.15
22 16 0.30
23 5 0.09
24 15 0.28
25 9 0.17
ACGTcount: A:0.72, C:0.05, G:0.01, T:0.23
Consensus pattern (22 bp):
AAATAAAATAATAAAAATAAAT
Found at i:6242824 original size:2 final size:2
Alignment explanation
Indices: 6242817--6242856 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6242807 TGTCTCAAAA
6242817 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6242857 TCAAAAGTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6245473 original size:21 final size:21
Alignment explanation
Indices: 6245448--6245503 Score: 94
Period size: 22 Copynumber: 2.6 Consensus size: 21
6245438 TTAATTTTGT
*
6245448 AAATGGAGTTTTTTTATTTTA
1 AAATGGACTTTTTTTATTTTA
6245469 AAATGGACTTTTTTTTATTTTA
1 AAATGGAC-TTTTTTTATTTTA
6245491 AAATGGACTTTTT
1 AAATGGACTTTTT
6245504 AATGGTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
21 12 0.36
22 21 0.64
ACGTcount: A:0.29, C:0.04, G:0.12, T:0.55
Consensus pattern (21 bp):
AAATGGACTTTTTTTATTTTA
Found at i:6245521 original size:18 final size:19
Alignment explanation
Indices: 6245500--6245540 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
6245490 AAAATGGACT
6245500 TTTTAATGGTTTTT-TTTG
1 TTTTAATGGTTTTTGTTTG
**
6245518 TTTTTTTGGTTTTTGTTTG
1 TTTTAATGGTTTTTGTTTG
6245537 TTTT
1 TTTT
6245541 GGGCCGGACG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.05, C:0.00, G:0.17, T:0.78
Consensus pattern (19 bp):
TTTTAATGGTTTTTGTTTG
Found at i:6245521 original size:19 final size:19
Alignment explanation
Indices: 6245499--6245540 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
6245489 TAAAATGGAC
6245499 TTTTTAATGGTTTTT-TTTG
1 TTTTT-ATGGTTTTTGTTTG
*
6245518 TTTTTTTGGTTTTTGTTTG
1 TTTTTATGGTTTTTGTTTG
6245537 TTTT
1 TTTT
6245541 GGGCCGGACG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.05, C:0.00, G:0.17, T:0.79
Consensus pattern (19 bp):
TTTTTATGGTTTTTGTTTG
Found at i:6245532 original size:15 final size:16
Alignment explanation
Indices: 6245512--6245542 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
6245502 TTAATGGTTT
6245512 TTTTTGTTT-TTTTGG
1 TTTTTGTTTGTTTTGG
6245527 TTTTTGTTTGTTTTGG
1 TTTTTGTTTGTTTTGG
6245543 GCCGGACGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (16 bp):
TTTTTGTTTGTTTTGG
Found at i:6246363 original size:43 final size:43
Alignment explanation
Indices: 6246315--6246397 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
6246305 TTATGAAAGA
* *
6246315 TAAATTTGATCGTCGATAAAAGGAACTATCACTTTTAGTAAGT
1 TAAATTTGATCATCGATAAAAGGAACTATCACTTTGAGTAAGT
6246358 TAAATTTGATCATCGATAAAAGGAACTATCACTTTGAGTA
1 TAAATTTGATCATCGATAAAAGGAACTATCACTTTGAGTA
6246398 GGATCGTGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.34
Consensus pattern (43 bp):
TAAATTTGATCATCGATAAAAGGAACTATCACTTTGAGTAAGT
Found at i:6248385 original size:8 final size:8
Alignment explanation
Indices: 6248374--6248401 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
6248364 AATATATAAA
6248374 TAATACTT
1 TAATACTT
6248382 TAATACTT
1 TAATACTT
6248390 TAATACTT
1 TAATACTT
6248398 TAAT
1 TAAT
6248402 GGATTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (8 bp):
TAATACTT
Found at i:6251473 original size:30 final size:29
Alignment explanation
Indices: 6251430--6251545 Score: 81
Period size: 30 Copynumber: 3.9 Consensus size: 29
6251420 ATAGGTCCCT
* * *
6251430 AAACTGTTCAAAAATTATATTTTGACCTCA
1 AAACT-TTCAAAAACTACATTTTGACCCCA
*
6251460 AAACTTTCTAAAAACTACATTTTGACCCCC
1 AAACTTTC-AAAAACTACATTTTGACCCCA
* * *
6251490 AAACTTCTCCAAAATTACCATTTT-ACCCCC
1 AAACTT-TCAAAAACTA-CATTTTGACCCCA
* * * * *
6251520 GAACCTTCCAAAATTCCATTTTGACC
1 AAACTTTCAAAAACTACATTTTGACC
6251546 TTGATTTCAC
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.08
29 15 0.21
30 44 0.60
31 8 0.11
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.32
Consensus pattern (29 bp):
AAACTTTCAAAAACTACATTTTGACCCCA
Found at i:6251518 original size:29 final size:28
Alignment explanation
Indices: 6251477--6251787 Score: 198
Period size: 29 Copynumber: 10.8 Consensus size: 28
6251467 CTAAAAACTA
*
6251477 CATTTTGACCCCCAAACTTCTCCAAAATTAC
1 CATTTT-A-CCCCGAACTT-TCCAAAATTAC
*
6251508 CATTTTACCCCCGAACCTTCCAAAATT-C
1 CATTTTA-CCCCGAACTTTCCAAAATTAC
**
6251536 CATTTTGACCTTG-A-TTTCACCAAAATTAC
1 CATTTT-ACCCCGAACTTT--CCAAAATTAC
* *
6251565 CATTCTACCCCCGAACTTTCAAAAATT-C
1 CATTTTA-CCCCGAACTTTCCAAAATTAC
* * *
6251593 CATTTTTA-ACCAAGATTTTGCCAAAATTA-
1 CA-TTTTACCCCGA-ACTTT-CCAAAATTAC
*
6251622 CATTTTACCCCGAACCTTCCAAAA-TAC
1 CATTTTACCCCGAACTTTCCAAAATTAC
*
6251649 TATTTTTGACCCCG-ACTTTACCAAAAATTAC
1 CA-TTTT-ACCCCGAACTTT-CC-AAAATTAC
*
6251680 CATTTTACCCTCGAACCTTCCAAAATT-C
1 CATTTTACCC-CGAACTTTCCAAAATTAC
6251708 CATTTTTGACCCCG-A-TTTCACCAAAATTAC
1 CA-TTTT-ACCCCGAACTTT--CCAAAATTAC
*
6251738 CATTTTACCCCTGAACCTTTCCAAAA-TAT
1 CATTTTACCCC-GAA-CTTTCCAAAATTAC
*
6251767 CATTTTTAACCCGAA-TTTCCA
1 CA-TTTTACCCCGAACTTTCCA
6251788 CAGAATTTCA
Statistics
Matches: 225, Mismatches: 25, Indels: 64
0.72 0.08 0.20
Matches are distributed among these distances:
26 4 0.02
27 19 0.08
28 51 0.23
29 86 0.38
30 45 0.20
31 17 0.08
32 3 0.01
ACGTcount: A:0.32, C:0.31, G:0.05, T:0.33
Consensus pattern (28 bp):
CATTTTACCCCGAACTTTCCAAAATTAC
Found at i:6251564 original size:57 final size:58
Alignment explanation
Indices: 6251498--6251778 Score: 356
Period size: 59 Copynumber: 4.9 Consensus size: 58
6251488 CCAAACTTCT
**
6251498 CCAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCA-TTTTGACCTTGATTTCA
1 CCAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTGACCCCGATTTCA
* * * * ** **
6251555 CCAAAATTACCATTCTACCCCCGAACTTTCAAAAATTCCATTTTTAACCAAGATTTTG
1 CCAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTGACCCCGATTTCA
* *
6251613 CCAAAATTA-CATTTTA-CCCCGAACCTTCCAAAATACTATTTTTGACCCCGACTTT-A
1 CCAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTGACCCCGA-TTTCA
*
6251669 CCAAAAATTACCATTTTACCCTCGAACCTTCCAAAATTCCATTTTTGACCCCGATTTCA
1 CC-AAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTGACCCCGATTTCA
* *
6251728 CCAAAATTACCATTTTACCCCTGAACCTTTCCAAAATAT-CATTTTTAACCC
1 CCAAAATTACCATTTTACCCCCGAACC-TTCCAAAAT-TCCATTTTTGACCC
6251779 GAATTTCCAC
Statistics
Matches: 193, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
56 30 0.16
57 53 0.27
58 54 0.28
59 55 0.28
60 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.05, T:0.33
Consensus pattern (58 bp):
CCAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTGACCCCGATTTCA
Found at i:6251737 original size:58 final size:57
Alignment explanation
Indices: 6251498--6251778 Score: 345
Period size: 58 Copynumber: 4.9 Consensus size: 57
6251488 CCAAACTTCT
**
6251498 CCAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCA-TTTTGACCTTGATTTCA
1 CCAAAATTACCATTTTA-CCCCGAACCTTCCAAAATTCCATTTTTGACCCCGATTTCA
* * * * ** **
6251555 CCAAAATTACCATTCTACCCCCGAACTTTCAAAAATTCCATTTTTAACCAAGATTTTG
1 CCAAAATTACCATTTTA-CCCCGAACCTTCCAAAATTCCATTTTTGACCCCGATTTCA
* *
6251613 CCAAAATTA-CATTTTACCCCGAACCTTCCAAAATACTATTTTTGACCCCGACTTT-A
1 CCAAAATTACCATTTTACCCCGAACCTTCCAAAATTCCATTTTTGACCCCGA-TTTCA
6251669 CCAAAAATTACCATTTTACCCTCGAACCTTCCAAAATTCCATTTTTGACCCCGATTTCA
1 CC-AAAATTACCATTTTACCC-CGAACCTTCCAAAATTCCATTTTTGACCCCGATTTCA
*
6251728 CCAAAATTACCATTTTACCCCTGAACCTTTCCAAAATAT-CATTTTTAACCC
1 CCAAAATTACCATTTTACCCC-GAACC-TTCCAAAAT-TCCATTTTTGACCC
6251779 GAATTTCCAC
Statistics
Matches: 195, Mismatches: 20, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
56 30 0.15
57 54 0.28
58 57 0.29
59 53 0.27
60 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.05, T:0.33
Consensus pattern (57 bp):
CCAAAATTACCATTTTACCCCGAACCTTCCAAAATTCCATTTTTGACCCCGATTTCA
Found at i:6251780 original size:58 final size:57
Alignment explanation
Indices: 6251498--6251810 Score: 334
Period size: 59 Copynumber: 5.4 Consensus size: 57
6251488 CCAAACTTCT
* *
6251498 CCAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCA-TTTTGACCTTGATTTCA
1 CCAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACC-CGATTTCA
* * * * **
6251555 CCAAAATTACCATTCTACCCCCGAACTTTCAAAAATTCCATTTTTAACCAAGATTTTG
1 CCAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACC-CGATTTCA
* * *
6251613 CCAAAATTA-CATTTTA-CCCCGAACCTTCCAAAATACTATTTTTGACCCCGACTTT-A
1 CCAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTT-AACCCGA-TTTCA
* *
6251669 CCAAAAATTACCATTTTACCCTCGAACCTTCCAAAATTCCATTTTTGACCCCGATTTCA
1 CC-AAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTT-AACCCGATTTCA
*
6251728 CCAAAATTACCATTTTACCCCTGAACCTTTCCAAAATAT-CATTTTTAACCCGAATTTC-
1 CCAAAATTACCATTTTACCCCCGAACC-TTCCAAAAT-TCCATTTTTAACCCG-ATTTCA
* *
6251786 CACAGAATT-TCATTTTTACCCCCGA
1 C-CAAAATTACCA-TTTTACCCCCGA
6251811 TAGTCAAAAA
Statistics
Matches: 219, Mismatches: 25, Indels: 22
0.82 0.09 0.08
Matches are distributed among these distances:
56 27 0.12
57 56 0.26
58 62 0.28
59 73 0.33
60 1 0.00
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (57 bp):
CCAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTAACCCGATTTCA
Found at i:6251807 original size:59 final size:59
Alignment explanation
Indices: 6251500--6251784 Score: 290
Period size: 57 Copynumber: 4.9 Consensus size: 59
6251490 AAACTTCTCC
* *
6251500 AAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCA-TTTTG-ACCTTG-ATTTCACC-
1 AAAATTACCATTTTACCCCTGAACCTTCCAAAATTCCATTTTTGAACC-CGAATTT-ACCA
* * * * * * *
6251557 AAAATTACCATTCTACCCCCGAACTTTCAAAAATTCCATTTTT-AACCAAGATTTTGCC-
1 AAAATTACCATTTTACCCCTGAACCTTCCAAAATTCCATTTTTGAACC-CGAATTTACCA
* * * *
6251615 AAAATTA-CATTTTACCCC-GAACCTTCCAAAATACTATTTTTGACCCCGACTTTACCA
1 AAAATTACCATTTTACCCCTGAACCTTCCAAAATTCCATTTTTGAACCCGAATTTACCA
*
6251672 AAAATTACCATTTTA-CCCTCGAACCTTCCAAAATTCCATTTTTGACCCCG-ATTTCACC-
1 AAAATTACCATTTTACCCCT-GAACCTTCCAAAATTCCATTTTTGAACCCGAATTT-ACCA
6251730 AAAATTACCATTTTACCCCTGAACCTTTCCAAAATAT-CATTTTT-AACCCGAATTT
1 AAAATTACCATTTTACCCCTGAACC-TTCCAAAAT-TCCATTTTTGAACCCGAATTT
6251785 CCACAGAATT
Statistics
Matches: 195, Mismatches: 20, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
56 26 0.13
57 58 0.30
58 52 0.27
59 58 0.30
60 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.33
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCTGAACCTTCCAAAATTCCATTTTTGAACCCGAATTTACCA
Found at i:6264225 original size:115 final size:114
Alignment explanation
Indices: 6264069--6264320 Score: 387
Period size: 114 Copynumber: 2.2 Consensus size: 114
6264059 AGGCAGTCAT
*
6264069 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAAACGAGCAAATCTTCGTACCCA
1 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAAACGAGCAAATCTTCGAACCCA
*
6264134 ACTTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGGTTAG
66 AC-TTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAAAGGTTAG
* * **
6264184 CTTCTTGATGAGATACAGAGAAGAATACCAACTCAATGCTCAACGCGAGCAAATCTTCGAACCCA
1 CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAAACGAGCAAATCTTCGAACCCA
* * *
6264249 TCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAG
66 ACTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAAAGGTTAG
* * *
6264298 CTTCCTGATAAGACACAAAGAAG
1 CTTCCTGATGAGATACAGAGAAG
6264321 TGGACCAAAT
Statistics
Matches: 124, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
114 63 0.51
115 61 0.49
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (114 bp):
CTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAAACGAGCAAATCTTCGAACCCA
ACTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAAAGGTTAG
Found at i:6264784 original size:17 final size:17
Alignment explanation
Indices: 6264744--6264819 Score: 73
Period size: 17 Copynumber: 4.5 Consensus size: 17
6264734 CCCAATAAGA
6264744 TAAATTTAGTTTTAAA-T
1 TAAATTTA-TTTTAAATT
* *
6264761 TAGATTTATTTTGAATT
1 TAAATTTATTTTAAATT
*** *
6264778 TAAATTTGCATAAAATT
1 TAAATTTATTTTAAATT
*
6264795 TAAATTTATTATAAATT
1 TAAATTTATTTTAAATT
6264812 TAAATTTA
1 TAAATTTA
6264820 AAATTAAATT
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
16 6 0.13
17 39 0.87
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.51
Consensus pattern (17 bp):
TAAATTTATTTTAAATT
Found at i:6266690 original size:59 final size:58
Alignment explanation
Indices: 6266619--6266990 Score: 446
Period size: 59 Copynumber: 6.3 Consensus size: 58
6266609 AAACTTTTTG
* * *
6266619 AAAATTACA-TTTTAACCCCCGAACTTCTCCAAAATTACCATTTTACCCTCGAACCTTCC
1 AAAATTCCATTTTTAA-CCCCG-ATTTCACCAAAATTACCATTTTACCCTCGAACCTTCC
* * * *
6266678 AAAATTCCATTTTTGACCCCGATTTCACCAAAATTACCATTCTACCCCCGGAACTTTCC
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCTC-GAACCTTCC
* * *
6266737 AAAATTCCATTTTTAACCTCGA-TTCTGCTAAAATTACCATTTTA-CCTCGAACCTTCC
1 AAAATTCCATTTTTAACCCCGATTTC-ACCAAAATTACCATTTTACCCTCGAACCTTCC
* * * * *
6266794 AAAATTCTATTTTTGACCCCGACTTCACCAAAAATTACCATTTTACCCCCGAATCTTCC
1 AAAATTCCATTTTTAACCCCGATTTCACC-AAAATTACCATTTTACCCTCGAACCTTCC
* * * *
6266853 AAAATTCCATTTTTGACCCCGATTTCACCAAAATTACCATTCTACCCCTCAAACTTTCC
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTA-CCCTCGAACCTTCC
*
6266912 AAAATTCTATTTTTAACCCCGATTTCACCAAAATTACCATTTTAACCC-CGAACCTTTCC
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTT-ACCCTCGAACC-TTCC
* *
6266971 AAAATCCCTTTTTTAACCCC
1 AAAATTCCATTTTTAACCCC
6266991 AAATTTCCCT
Statistics
Matches: 268, Mismatches: 36, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
57 28 0.10
58 66 0.25
59 168 0.63
60 6 0.02
ACGTcount: A:0.31, C:0.32, G:0.04, T:0.33
Consensus pattern (58 bp):
AAAATTCCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCTCGAACCTTCC
Found at i:6266691 original size:29 final size:28
Alignment explanation
Indices: 6266619--6266990 Score: 176
Period size: 29 Copynumber: 12.7 Consensus size: 28
6266609 AAACTTTTTG
* * *
6266619 AAAATTACATTTTAACCCCCGAACTTCTCC
1 AAAATTCCATTTTTA-CCCCGAACCT-TCC
6266649 AAAATTACCA-TTTTACCCTCGAACCTTCC
1 AAAATT-CCATTTTTACCC-CGAACCTTCC
*
6266678 AAAATTCCATTTTTGACCCCG-A-TTTCACC
1 AAAATTCCATTTTT-ACCCCGAACCTT--CC
* *
6266707 AAAATTACCA-TTCTACCCCCGGAACTTTCC
1 AAAATT-CCATTTTTA-CCCC-GAACCTTCC
* ** * *
6266737 AAAATTCCATTTTTAACCTCGATTCTGCT
1 AAAATTCCATTTTT-ACCCCGAACCTTCC
*
6266766 AAAATTACCA-TTTTACCTCGAACCTTCC
1 AAAATT-CCATTTTTACCCCGAACCTTCC
*
6266794 AAAATTCTATTTTTGACCCCG-A-CTTCACC
1 AAAATTCCATTTTT-ACCCCGAACCTT--CC
*
6266823 AAAAATTACCA-TTTTACCCCCGAATCTTCC
1 -AAAATT-CCATTTTTA-CCCCGAACCTTCC
*
6266853 AAAATTCCATTTTTGACCCCG-A-TTTCACC
1 AAAATTCCATTTTT-ACCCCGAACCTT--CC
* * *
6266882 AAAATTACCA-TTCTACCCCTCAAACTTTCC
1 AAAATT-CCATTTTTA-CCC-CGAACCTTCC
* *
6266912 AAAATTCTATTTTTAACCCCG-A-TTTCACC
1 AAAATTCCATTTTT-ACCCCGAACCTT--CC
*
6266941 AAAATTACCATTTTAACCCCGAACCTTTCC
1 AAAATT-CCATTTTTACCCCGAACC-TTCC
* *
6266971 AAAATCCCTTTTTTAACCCC
1 AAAATTCCATTTTT-ACCCC
6266991 AAATTTCCCT
Statistics
Matches: 270, Mismatches: 31, Indels: 82
0.70 0.08 0.21
Matches are distributed among these distances:
27 12 0.04
28 32 0.12
29 110 0.41
30 96 0.36
31 9 0.03
32 11 0.04
ACGTcount: A:0.31, C:0.32, G:0.04, T:0.33
Consensus pattern (28 bp):
AAAATTCCATTTTTACCCCGAACCTTCC
Found at i:6266947 original size:175 final size:177
Alignment explanation
Indices: 6266635--6266975 Score: 539
Period size: 175 Copynumber: 1.9 Consensus size: 177
6266625 ACATTTTAAC
* *
6266635 CCCCGAACTTCTCCAAAATTACCATTTTACCCTCGAACCTTCCAAAATTCCATTTTTGACCCCGA
1 CCCCGAACTTCACCAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTGACCCCGA
* * *
6266700 TTTCACCAAAATTACCATTCTACCCCCGGAACTTTCCAAAATTCCATTTTTAACCTCGATTCTGC
66 TTTCACCAAAATTACCATTCTACCCCCGAAACTTTCCAAAATTCCATTTTTAACCCCGATTCTAC
* *
6266765 TAAAATTACCATTTT-ACCTCGAACC-TTCCAAAATTCTATTTTTGA
131 CAAAATTACCATTTTAACCCCGAACCTTTCCAAAATTCTATTTTTGA
*
6266810 CCCCG-ACTTCACCAAAAATTACCATTTTACCCCCGAATCTTCCAAAATTCCATTTTTGACCCCG
1 CCCCGAACTTCACC-AAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTGACCCCG
*
6266874 ATTTCACCAAAATTACCATTCTACCCCTC-AAACTTTCCAAAATTCTATTTTTAACCCCGATT-T
65 ATTTCACCAAAATTACCATTCTACCCC-CGAAACTTTCCAAAATTCCATTTTTAACCCCGATTCT
6266937 CACCAAAATTACCATTTTAACCCCGAACCTTTCCAAAAT
129 -ACCAAAATTACCATTTTAACCCCGAACCTTTCCAAAAT
6266976 CCCTTTTTTA
Statistics
Matches: 152, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
174 8 0.05
175 125 0.82
176 10 0.07
177 9 0.06
ACGTcount: A:0.30, C:0.33, G:0.05, T:0.32
Consensus pattern (177 bp):
CCCCGAACTTCACCAAAATTACCATTTTACCCCCGAACCTTCCAAAATTCCATTTTTGACCCCGA
TTTCACCAAAATTACCATTCTACCCCCGAAACTTTCCAAAATTCCATTTTTAACCCCGATTCTAC
CAAAATTACCATTTTAACCCCGAACCTTTCCAAAATTCTATTTTTGA
Found at i:6270579 original size:30 final size:31
Alignment explanation
Indices: 6270538--6270597 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
6270528 TCTGAATTTG
*
6270538 ACACTTTTTTTTAATTTGGTACTTAAACTTA
1 ACACTTTTTTTTAAGTTGGTACTTAAACTTA
*
6270569 ACAC-TTTTTTTAAGTTGGTACTTACACTT
1 ACACTTTTTTTTAAGTTGGTACTTAAACTT
6270598 TTTGAGGTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (31 bp):
ACACTTTTTTTTAAGTTGGTACTTAAACTTA
Found at i:6270882 original size:61 final size:59
Alignment explanation
Indices: 6270766--6270941 Score: 192
Period size: 61 Copynumber: 2.9 Consensus size: 59
6270756 AAATTTACGT
** * *
6270766 ACCAAATTGAATCTAAAACAAAGCTTAGGTACCAAATTAAGAAAAAAG-ATCAAGTTTAGAC
1 ACCAAATTGGGTC-AAAA-AAAGTTTAGGTACCAAATTAA-AAAAAAGTGTCAAGTTTAGAC
* * * **
6270827 ATCAAATTGGGTCCAAAAAAGTTTAGGTACCAAATTAAATTAAAAAGTGTGAAGTTTAGGT
1 ACCAAATTGGGTCAAAAAAAGTTTAGGTACCAAATTAAA--AAAAAGTGTCAAGTTTAGAC
* * *
6270888 ACCAAATTGGGTCAAAAAAAATTTAGATATCAAATTAAAAAAAAGTGTCAAGTT
1 ACCAAATTGGGTCAAAAAAAGTTTAGGTACCAAATTAAAAAAAAGTGTCAAGTT
6270942 CAAGTACCAA
Statistics
Matches: 97, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
58 1 0.01
59 34 0.35
60 9 0.09
61 53 0.55
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (59 bp):
ACCAAATTGGGTCAAAAAAAGTTTAGGTACCAAATTAAAAAAAAGTGTCAAGTTTAGAC
Found at i:6276529 original size:27 final size:27
Alignment explanation
Indices: 6276487--6276552 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
6276477 AACCCTAAGA
* *
6276487 TTTAGGGTTTGGGTTTGAGATTTAAAT
1 TTTAGGGTTCGAGTTTGAGATTTAAAT
* * **
6276514 TTTAGGGTTCGAGTTTGGGTTTTTTAT
1 TTTAGGGTTCGAGTTTGAGATTTAAAT
6276541 TTT-GGGTTCGAG
1 TTTAGGGTTCGAG
6276553 GTTCAAGCTC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.27
27 24 0.73
ACGTcount: A:0.15, C:0.03, G:0.32, T:0.50
Consensus pattern (27 bp):
TTTAGGGTTCGAGTTTGAGATTTAAAT
Found at i:6276750 original size:27 final size:27
Alignment explanation
Indices: 6276703--6276781 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
6276693 TTGAGTTTAA
* *
6276703 AGTTTAAGATTTTAAGGTTTTGGGTTTTG
1 AGTTTAGGA-TTTAAGGTTTTAGG-TTTG
* *
6276732 -GTTTAGGGTTTAAAGTTTTAGGTTTG
1 AGTTTAGGATTTAAGGTTTTAGGTTTG
6276758 AGTTTAGGATTTAAGGTTTTAGGT
1 AGTTTAGGATTTAAGGTTTTAGGT
6276782 AAAAAATTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
26 4 0.09
27 33 0.77
28 6 0.14
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (27 bp):
AGTTTAGGATTTAAGGTTTTAGGTTTG
Found at i:6281445 original size:17 final size:17
Alignment explanation
Indices: 6281423--6281496 Score: 67
Period size: 17 Copynumber: 4.4 Consensus size: 17
6281413 TGTAAATACG
*
6281423 AGCTCATCAAGACTGCA
1 AGCTCATCAAGAGTGCA
* * *
6281440 AGCTCACCAAGTGTGCG
1 AGCTCATCAAGAGTGCA
* * * *
6281457 AGATCATCGAGATTGCG
1 AGCTCATCAAGAGTGCA
*
6281474 AGCTCATCAAGTGTGCA
1 AGCTCATCAAGAGTGCA
6281491 AGCTCA
1 AGCTCA
6281497 CCTACTAAAA
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 43 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (17 bp):
AGCTCATCAAGAGTGCA
Found at i:6281464 original size:34 final size:34
Alignment explanation
Indices: 6281421--6281489 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
6281411 ACTGTAAATA
*
6281421 CGAGCTCATCAAGACTGCAAGCTCACCAAGTGTG
1 CGAGATCATCAAGACTGCAAGCTCACCAAGTGTG
* * * *
6281455 CGAGATCATCGAGATTGCGAGCTCATCAAGTGTG
1 CGAGATCATCAAGACTGCAAGCTCACCAAGTGTG
6281489 C
1 C
6281490 AAGCTCACCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (34 bp):
CGAGATCATCAAGACTGCAAGCTCACCAAGTGTG
Found at i:6286045 original size:22 final size:22
Alignment explanation
Indices: 6286020--6286070 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
6286010 GCCTCTGTAC
6286020 TTTTTAATTTGGTC-AATTTTAA
1 TTTTTAATTT-GTCAAATTTTAA
* *
6286042 TTTTTTATTTTTCAAATTTTAA
1 TTTTTAATTTGTCAAATTTTAA
*
6286064 ATTTTAA
1 TTTTTAA
6286071 ATCTTGATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (22 bp):
TTTTTAATTTGTCAAATTTTAA
Found at i:6293078 original size:21 final size:21
Alignment explanation
Indices: 6293031--6293079 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
6293021 AATTATTTTT
*
6293031 AAATTTTTTAATTTATCTAAA
1 AAATATTTTAATTTATCTAAA
* *
6293052 ATATATTTTAATTT-TTTATAA
1 AAATATTTTAATTTATCTA-AA
6293073 AAATATT
1 AAATATT
6293080 CAAAATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
AAATATTTTAATTTATCTAAA
Found at i:6294528 original size:24 final size:25
Alignment explanation
Indices: 6294487--6294538 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
6294477 TCTCTAAAAT
*
6294487 TTTAATTATTTTTTGAATTTTTATA
1 TTTAATTATTTTTTGAATTTTTAGA
*
6294512 TTTATTTA-TTTTTGAATTTTTAGA
1 TTTAATTATTTTTTGAATTTTTAGA
6294536 TTT
1 TTT
6294539 TTAGATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (25 bp):
TTTAATTATTTTTTGAATTTTTAGA
Found at i:6294538 original size:16 final size:18
Alignment explanation
Indices: 6294519--6294563 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
6294509 ATATTTATTT
6294519 ATTTTTGAATTTT-TA-G
1 ATTTTTGAATTTTATAGG
*
6294535 ATTTTTAGATTTTTATAGG
1 ATTTTT-GAATTTTATAGG
6294554 ATTTTT-AATT
1 ATTTTTGAATT
6294564 GTTAATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 6 0.25
17 9 0.38
18 2 0.08
19 7 0.29
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.62
Consensus pattern (18 bp):
ATTTTTGAATTTTATAGG
Found at i:6294546 original size:24 final size:24
Alignment explanation
Indices: 6294496--6294548 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
6294486 TTTTAATTAT
* *
6294496 TTTTTGAATTTTTATATTTATTTA
1 TTTTTGAATTTTTAGATTTATTGA
6294520 TTTTTGAATTTTTAGATTT-TTAGA
1 TTTTTGAATTTTTAGATTTATT-GA
6294544 TTTTT
1 TTTTT
6294549 ATAGGATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.70
Consensus pattern (24 bp):
TTTTTGAATTTTTAGATTTATTGA
Found at i:6296905 original size:28 final size:27
Alignment explanation
Indices: 6296861--6296930 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
6296851 TTTTATCTTG
**
6296861 AACTTAAAACCC-AAATCCTTAAATTTTA
1 AACTT-AAACCCTAAAT-CTTAAACCTTA
*
6296889 AACTTAAACCCTGAATCTTAAACCTTA
1 AACTTAAACCCTAAATCTTAAACCTTA
*
6296916 AATCTCAAACCCTAA
1 AA-CTTAAACCCTAA
6296931 GGTTCAAGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 17 0.49
28 18 0.51
ACGTcount: A:0.44, C:0.26, G:0.01, T:0.29
Consensus pattern (27 bp):
AACTTAAACCCTAAATCTTAAACCTTA
Found at i:6296910 original size:14 final size:14
Alignment explanation
Indices: 6296887--6296930 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
6296877 CCTTAAATTT
6296887 TAAA-CTTAAACCC
1 TAAATCTTAAACCC
* *
6296900 TGAATCTTAAACCT
1 TAAATCTTAAACCC
*
6296914 TAAATCTCAAACCC
1 TAAATCTTAAACCC
6296928 TAA
1 TAA
6296931 GGTTCAAGGT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 3 0.12
14 22 0.88
ACGTcount: A:0.43, C:0.27, G:0.02, T:0.27
Consensus pattern (14 bp):
TAAATCTTAAACCC
Found at i:6304042 original size:43 final size:43
Alignment explanation
Indices: 6303984--6304080 Score: 135
Period size: 43 Copynumber: 2.3 Consensus size: 43
6303974 TGTAAACTTC
* *
6303984 GTTTA-CATCCAGGATATTCCT-ACAAGTGCTCTTTACTTTGAT
1 GTTTACCATCTAGGATATT-CTAACAAGTGCTCTTTACTGTGAT
* *
6304026 GTTTACCATCTAGGATATTCTAACAAGTTCTCTTTGCTGTGAT
1 GTTTACCATCTAGGATATTCTAACAAGTGCTCTTTACTGTGAT
6304069 GTTTACCATCTA
1 GTTTACCATCTA
6304081 ATGGGTGAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
42 7 0.14
43 42 0.86
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (43 bp):
GTTTACCATCTAGGATATTCTAACAAGTGCTCTTTACTGTGAT
Found at i:6304793 original size:12 final size:13
Alignment explanation
Indices: 6304776--6304808 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
6304766 CAACAATCCA
6304776 ACACACACAAG-C
1 ACACACACAAGAC
6304788 ACACACAC-AGAC
1 ACACACACAAGAC
6304800 ACACACACA
1 ACACACACA
6304809 TATATATGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 17 0.89
ACGTcount: A:0.52, C:0.42, G:0.06, T:0.00
Consensus pattern (13 bp):
ACACACACAAGAC
Found at i:6305704 original size:27 final size:27
Alignment explanation
Indices: 6305660--6305731 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
6305650 TTCGTGATAT
* *
6305660 GCCACACAA-GCTTCCATTCCATAGATC
1 GCCACA-AAGGCTTTCATTCAATAGATC
* * *
6305687 GCCACAAAGGTTTTCATTTAATAGGTC
1 GCCACAAAGGCTTTCATTCAATAGATC
6305714 GCCACAAAGGCTTTCATT
1 GCCACAAAGGCTTTCATT
6305732 TTTTGGCATG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 2 0.05
27 36 0.95
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
GCCACAAAGGCTTTCATTCAATAGATC
Found at i:6305732 original size:27 final size:27
Alignment explanation
Indices: 6305680--6305732 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
6305670 CTTCCATTCC
*
6305680 ATAGATCGCCACAAAGGTTTTCATTTA
1 ATAGATCGCCACAAAGGCTTTCATTTA
*
6305707 ATAGGTCGCCACAAAGGCTTTCATTT
1 ATAGATCGCCACAAAGGCTTTCATTT
6305733 TTTGGCATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (27 bp):
ATAGATCGCCACAAAGGCTTTCATTTA
Found at i:6310110 original size:19 final size:20
Alignment explanation
Indices: 6310086--6310130 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
6310076 TTCCTGTGTG
6310086 CTTTATT-TTATTGGTT-GCT
1 CTTTATTGTTA-TGGTTGGCT
6310105 CTTTATTGTTATGGTTGGCT
1 CTTTATTGTTATGGTTGGCT
6310125 -TTTATT
1 CTTTATT
6310131 ACCGGTTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.11, C:0.09, G:0.18, T:0.62
Consensus pattern (20 bp):
CTTTATTGTTATGGTTGGCT
Found at i:6311978 original size:17 final size:17
Alignment explanation
Indices: 6311956--6311990 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6311946 CTCCATCTTG
* *
6311956 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACGA
6311973 ACAAGAACTCTCAACGA
1 ACAAGAACTCTCAACGA
6311990 A
1 A
6311991 TAAGTTCTCC
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:0.46, C:0.26, G:0.11, T:0.17
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:6315510 original size:20 final size:19
Alignment explanation
Indices: 6315478--6315517 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
6315468 ATTATTACTT
*
6315478 AAAAAATTCAAAATAATTG
1 AAAAAATTCAAAAAAATTG
*
6315497 AAAAAATATTAAAAAAATTG
1 AAAAAAT-TCAAAAAAATTG
6315517 A
1 A
6315518 TTTTTTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (19 bp):
AAAAAATTCAAAAAAATTG
Found at i:6316257 original size:30 final size:28
Alignment explanation
Indices: 6316216--6316322 Score: 76
Period size: 30 Copynumber: 3.6 Consensus size: 28
6316206 TTTATTTATT
*
6316216 TTTTCTTTTTCTTTTTTTTTCTATTTGTAC
1 TTTTATTTTTCTTTTTTTTT-TATTTG-AC
6316246 TTTTATTTTTCTTGTTATTTTTT-TTTAGAC
1 TTTTATTTTTCTT-TT-TTTTTTATTT-GAC
* * *
6316276 TTGTATATTTT-GTTTTGTTTTATTATGCAC
1 TTTTAT-TTTTCTTTTTTTTTTATT-TG-AC
*
6316306 -TTTATTTTTCTTATTTT
1 TTTTATTTTTCTTTTTTT
6316323 GTCTATTATT
Statistics
Matches: 61, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
28 9 0.15
29 13 0.21
30 26 0.43
31 8 0.13
32 5 0.08
ACGTcount: A:0.12, C:0.08, G:0.07, T:0.73
Consensus pattern (28 bp):
TTTTATTTTTCTTTTTTTTTTATTTGAC
Found at i:6316280 original size:36 final size:37
Alignment explanation
Indices: 6316210--6316280 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 37
6316200 TTATGTTTTA
* * ** *
6316210 TTTATTTTTTCTTTTTCTTTTTTTTTCTATTTGTACT
1 TTTATTTTTTCTTGTTATTTTTTTTTAGACTTGTACT
6316247 TTTA-TTTTTCTTGTTATTTTTTTTTAGACTTGTA
1 TTTATTTTTTCTTGTTATTTTTTTTTAGACTTGTA
6316281 TATTTTGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 25 0.86
37 4 0.14
ACGTcount: A:0.11, C:0.08, G:0.06, T:0.75
Consensus pattern (37 bp):
TTTATTTTTTCTTGTTATTTTTTTTTAGACTTGTACT
Found at i:6318354 original size:30 final size:30
Alignment explanation
Indices: 6318318--6318378 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 30
6318308 CATATTTTAG
6318318 GAGCCACACGGGCT-GGACACATGGCCATGT
1 GAGCCACACGGGCTAGG-CACATGGCCATGT
6318348 GAGCCACACGGGCTAGGCACATGGCCATGT
1 GAGCCACACGGGCTAGGCACATGGCCATGT
6318378 G
1 G
6318379 CTAGACCGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.23, C:0.30, G:0.34, T:0.13
Consensus pattern (30 bp):
GAGCCACACGGGCTAGGCACATGGCCATGT
Found at i:6322328 original size:11 final size:10
Alignment explanation
Indices: 6322308--6322345 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
6322298 TTTTATTTTT
6322308 AAAAAA-TGA
1 AAAAAATTGA
6322317 AAAAAAGTTGA
1 AAAAAA-TTGA
*
6322328 AAAAAATTCA
1 AAAAAATTGA
6322338 AAAAAATT
1 AAAAAATT
6322346 AGTACATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 6 0.23
10 11 0.42
11 9 0.35
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (10 bp):
AAAAAATTGA
Found at i:6322363 original size:6 final size:6
Alignment explanation
Indices: 6322352--6322528 Score: 131
Period size: 6 Copynumber: 28.3 Consensus size: 6
6322342 AATTAGTACA
* * *
6322352 TTTATT TTTATTT TTTATT TTTCATT TTTCATT TTCATT TTCATT TATATT
1 TTTATT TTTA-TT TTTATT TTT-ATT TTT-ATT TTTATT TTTATT TTTATT
* * * *
6322403 TATATT TATATT TATATTT TTTATT TTTCATT TTCATT TTTCATT TTTCATTT
1 TTTATT TTTATT TTTA-TT TTTATT TTT-ATT TTTATT TTT-ATT TTT-A-TT
* * * * * * *
6322456 TTTATT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT TTTAGT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* *
6322504 TTTA-G TTTATT TTTAAT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
6322529 ATTATGCACT
Statistics
Matches: 153, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
5 4 0.03
6 107 0.70
7 37 0.24
8 5 0.03
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.72
Consensus pattern (6 bp):
TTTATT
Found at i:6322368 original size:7 final size:7
Alignment explanation
Indices: 6322355--6322464 Score: 101
Period size: 7 Copynumber: 16.9 Consensus size: 7
6322345 TAGTACATTT
6322355 ATTTTT-
1 ATTTTTC
*
6322361 ATTTTTT
1 ATTTTTC
6322368 ATTTTTC
1 ATTTTTC
6322375 ATTTTTC
1 ATTTTTC
6322382 A-TTTTC
1 ATTTTTC
6322388 A-TTTTC
1 ATTTTTC
*
6322394 ATTTAT-
1 ATTTTTC
*
6322400 ATTTAT-
1 ATTTTTC
*
6322406 ATTTAT-
1 ATTTTTC
*
6322412 ATTTAT-
1 ATTTTTC
*
6322418 ATTTTTT
1 ATTTTTC
6322425 ATTTTTC
1 ATTTTTC
6322432 A-TTTTC
1 ATTTTTC
6322438 ATTTTTC
1 ATTTTTC
6322445 ATTTTTC
1 ATTTTTC
*
6322452 ATTTTTT
1 ATTTTTC
6322459 ATTTTT
1 ATTTTT
6322465 AGTTTTAGTT
Statistics
Matches: 95, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
6 47 0.49
7 48 0.51
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (7 bp):
ATTTTTC
Found at i:6325475 original size:43 final size:43
Alignment explanation
Indices: 6325014--6325497 Score: 553
Period size: 43 Copynumber: 11.3 Consensus size: 43
6325004 TTATGAGGAA
* * *** * * *
6325014 AAACGCCGCTATAGAACATGATCTTTAGCGATGCTTATCTCAT
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCACTTTTCCCAC
* * * *
6325057 AAACACCGCTAAAGAAAAAGGTCTTTAGCGGCGCTTTT-CCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCACTTTTCCCAC
* * *
6325099 AAACGCCGCTACAGACCATGGTCTTTAGCGGCGCTTATT-CCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCACTT-TTCCCAC
* * **
6325142 AAATGCCGCTAAAGAACATGGTCTTTAGCAGTGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCACTTTTCCCAC
* *
6325185 AAACACCGTTAAAGAACATGGTCTTTAGCGGCACTTATT-CCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCACTT-TTCCCAC
* * **
6325228 AAATGCCGCTAAAGAACATGGTCTTTAGCAGTGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCACTTTTCCCAC
* *
6325271 AAACACCGTTAAAGAACATGGTCTTTAGCGGCACTTATT-CCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCACTT-TTCCCAC
* *
6325314 AAATGCCGCTAAAGAACATGGTCTTTAGCGACACTTTTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCACTTTTCCCAC
* *
6325357 AAACGCCGCTAAAGACCATGGTCTTTAGCGACACTTTTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCACTTTTCCCAC
* * * *
6325400 AAACGCCGCTAAAGACCATGATCTTTAGTGGCACTTTTCCCGC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCACTTTTCCCAC
** *
6325443 AAACGCCGCTAAAGAACATGGTCTTTAATGGCATTTTTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCACTTTTCCCAC
* *
6325486 AAATGCCACTAA
1 AAACGCCGCTAA
6325498 TATTAACAAA
Statistics
Matches: 380, Mismatches: 55, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
42 39 0.10
43 337 0.89
44 4 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGGCACTTTTCCCAC
Found at i:6327892 original size:22 final size:22
Alignment explanation
Indices: 6327854--6327899 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
6327844 CAGAGAAGCT
*
6327854 AAAAGAGAAAAGCAAAAAAAAA
1 AAAAGAGAAAAACAAAAAAAAA
* *
6327876 AAAAGAGAAAAATAAAACAAAA
1 AAAAGAGAAAAACAAAAAAAAA
6327898 AA
1 AA
6327900 TAAAACTCAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.83, C:0.04, G:0.11, T:0.02
Consensus pattern (22 bp):
AAAAGAGAAAAACAAAAAAAAA
Found at i:6331254 original size:41 final size:41
Alignment explanation
Indices: 6331185--6331524 Score: 335
Period size: 41 Copynumber: 8.3 Consensus size: 41
6331175 TTTAAATAAA
* * * *
6331185 TTAGCGGTGTTTTTCCCATAAGCACCGCTATTGCTTTGACCT
1 TTAGCGGCG-TTTGCCCATAAGCGCCGCTATTGCTCTGACCT
* * **
6331227 TTAGTGGCGTTTTCCCATAAGCGCCGCTATTGCTCAAACCT
1 TTAGCGGCGTTTGCCCATAAGCGCCGCTATTGCTCTGACCT
**
6331268 TTAGCGGCACTTGCCCATAAGCGCCGCTATTGCTCTGACCT
1 TTAGCGGCGTTTGCCCATAAGCGCCGCTATTGCTCTGACCT
*
6331309 TTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCT
1 TTAGCGGCGTTTGCCCATAAGCGCCGCTATTGCTCTGACCT
* * ** ** *
6331350 TTAGTGGC-TCTGACCTTTAAGCGCTACTATTGCTTTGACCT
1 TTAGCGGCGTTTG-CCCATAAGCGCCGCTATTGCTCTGACCT
* * *
6331391 TTAGCGGCGCTTGCCCATAAGCGTCGCTATTGCTTTGACCT
1 TTAGCGGCGTTTGCCCATAAGCGCCGCTATTGCTCTGACCT
* * * *
6331432 TTAGCGGCACTTT-TCCATAAGCGCCACTATTACTCTGACCT
1 TTAGCGGC-GTTTGCCCATAAGCGCCGCTATTGCTCTGACCT
* * * * * **
6331473 TTAGTGGGGCTTGACCATAAGCGTCATTATTGCTCT-ACCT
1 TTAGCGGCGTTTGCCCATAAGCGCCGCTATTGCTCTGACCT
*
6331513 TTTGCGGCGTTT
1 TTAGCGGCGTTT
6331525 TATGTCCAAA
Statistics
Matches: 246, Mismatches: 48, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
40 16 0.07
41 219 0.89
42 11 0.04
ACGTcount: A:0.17, C:0.29, G:0.21, T:0.33
Consensus pattern (41 bp):
TTAGCGGCGTTTGCCCATAAGCGCCGCTATTGCTCTGACCT
Found at i:6331336 original size:82 final size:82
Alignment explanation
Indices: 6331199--6331520 Score: 378
Period size: 82 Copynumber: 3.9 Consensus size: 82
6331189 CGGTGTTTTT
* * * * * * **
6331199 CCCATAAGCACCGCTATTGCTTTGACCTTTAGTGGCGTTTTCCCATAAGCGCCGCTATTGCTCAA
1 CCCATAAGCGCCACTATTGCTCTGACCTTTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTG
6331264 ACCTTTAGCGGCACTTG
66 ACCTTTAGCGGCACTTG
*
6331281 CCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTG
1 CCCATAAGCGCCACTATTGCTCTGACCTTTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTG
* *
6331346 ACCTTTAGTGGCTC-TG
66 ACCTTTAGCGGCACTTG
** * * * *
6331362 ACCTTTAAGCGCTACTATTGCTTTGACCTTTAGCGGCGCTTGCCCATAAGCGTCGCTATTGCTTT
1 -CCCATAAGCGCCACTATTGCTCTGACCTTTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCT
*
6331427 GACCTTTAGCGGCACTTT
65 GACCTTTAGCGGCACTTG
* * * * * * **
6331445 TCCATAAGCGCCACTATTACTCTGACCTTTAGTGGGGCTTGACCATAAGCGTCATTATTGCTCT-
1 CCCATAAGCGCCACTATTGCTCTGACCTTTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTG
*
6331509 ACCTTTTGCGGC
66 ACCTTTAGCGGC
6331521 GTTTTATGTC
Statistics
Matches: 206, Mismatches: 32, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
81 13 0.06
82 192 0.93
83 1 0.00
ACGTcount: A:0.18, C:0.30, G:0.21, T:0.32
Consensus pattern (82 bp):
CCCATAAGCGCCACTATTGCTCTGACCTTTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTG
ACCTTTAGCGGCACTTG
Found at i:6331419 original size:123 final size:123
Alignment explanation
Indices: 6331199--6331520 Score: 389
Period size: 123 Copynumber: 2.6 Consensus size: 123
6331189 CGGTGTTTTT
* * ** *
6331199 CCCATAAGCACCGCTATTGCTTTGACCTTTAGTGGCGTTTTCCCATAAGCGCCGCTATTGCTCAA
1 CCCATAAGCGCCGCTATTGCTCTGACCTTTAGTGGCGTTGACCCATAAGCGCCACTATTGCTCAA
*
6331264 ACCTTTAGCGGCACTTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTG
66 ACCTTTAGCGGCACTTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCACTTG
** * **
6331322 CCCATAAGCGCCGCTATTGCTCTGACCTTTAGTGGC-TCTGACCTTTAAGCGCTACTATTGCTTT
1 CCCATAAGCGCCGCTATTGCTCTGACCTTTAGTGGCGT-TGACCCATAAGCGCCACTATTGCTCA
* * * * *
6331386 GACCTTTAGCGGCGCTTGCCCATAAGCGTCGCTATTGCTTTGACCTTTAGCGGCACTTT
65 AACCTTTAGCGGCACTTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCACTTG
* * * * * *
6331445 TCCATAAGCGCCACTATTACTCTGACCTTTAGTGGGGCTTGA-CCATAAGCGTCATTATTGCTC-
1 CCCATAAGCGCCGCTATTGCTCTGACCTTTAGTGGCG-TTGACCCATAAGCGCCACTATTGCTCA
* *
6331508 TACCTTTTGCGGC
65 AACCTTTAGCGGC
6331521 GTTTTATGTC
Statistics
Matches: 168, Mismatches: 28, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
122 12 0.07
123 152 0.90
124 3 0.02
125 1 0.01
ACGTcount: A:0.18, C:0.30, G:0.21, T:0.32
Consensus pattern (123 bp):
CCCATAAGCGCCGCTATTGCTCTGACCTTTAGTGGCGTTGACCCATAAGCGCCACTATTGCTCAA
ACCTTTAGCGGCACTTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCACTTG
Found at i:6332406 original size:14 final size:14
Alignment explanation
Indices: 6332387--6332451 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 14
6332377 AGTAATATAG
*
6332387 ATATTATAAATATT
1 ATATTATAAATAAT
**
6332401 ATATTAGT-GTTAAT
1 ATATTA-TAAATAAT
*
6332415 ATATGATAAATAAT
1 ATATTATAAATAAT
6332429 AGTATTAT-AATAAT
1 A-TATTATAAATAAT
6332443 ATATTATAA
1 ATATTATAA
6332452 TAAAAAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
13 7 0.17
14 27 0.68
15 6 0.15
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (14 bp):
ATATTATAAATAAT
Found at i:6332485 original size:7 final size:7
Alignment explanation
Indices: 6332475--6332501 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
6332465 GAATGATGAA
6332475 TAGATAT
1 TAGATAT
6332482 TAGATAT
1 TAGATAT
6332489 TAGATAT
1 TAGATAT
6332496 TAGATA
1 TAGATA
6332502 GTGGATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (7 bp):
TAGATAT
Found at i:6332508 original size:14 final size:14
Alignment explanation
Indices: 6332475--6332508 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6332465 GAATGATGAA
*
6332475 TAGATATTAGATAT
1 TAGATATTAGATAG
6332489 TAGATATTAGATAG
1 TAGATATTAGATAG
*
6332503 TGGATA
1 TAGATA
6332509 GAAAGAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (14 bp):
TAGATATTAGATAG
Found at i:6333626 original size:17 final size:17
Alignment explanation
Indices: 6333604--6333636 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6333594 GTTTATCCGA
*
6333604 AAAATGTTATTGAAATG
1 AAAATGCTATTGAAATG
6333621 AAAATGCTATTGAAAT
1 AAAATGCTATTGAAAT
6333637 AGCGAGTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.03, G:0.15, T:0.33
Consensus pattern (17 bp):
AAAATGCTATTGAAATG
Found at i:6339746 original size:13 final size:13
Alignment explanation
Indices: 6339708--6339751 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 13
6339698 ATATTAGTGT
*
6339708 TAATATATGATAAA
1 TAATATATTAT-AA
6339722 TAATAGTATTATAA
1 TAATA-TATTATAA
6339736 TAATATATTATAA
1 TAATATATTATAA
6339749 TAA
1 TAA
6339752 AAAGATAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 11 0.39
14 12 0.43
15 5 0.18
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (13 bp):
TAATATATTATAA
Found at i:6340905 original size:17 final size:17
Alignment explanation
Indices: 6340883--6340916 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6340873 AGTTTATATG
*
6340883 GAAAATGTTATTGAAAT
1 GAAAATGCTATTGAAAT
6340900 GAAAATGCTATTGAAAT
1 GAAAATGCTATTGAAAT
6340917 AGTGACTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.18, T:0.32
Consensus pattern (17 bp):
GAAAATGCTATTGAAAT
Found at i:6343804 original size:21 final size:20
Alignment explanation
Indices: 6343775--6343813 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
6343765 AAATTAGAGT
* *
6343775 GAAATTGTTTGATGTTTGATA
1 GAAAGTGTTAGAT-TTTGATA
6343796 GAAAGTGTTAGATTTTGA
1 GAAAGTGTTAGATTTTGA
6343814 AGTTATGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.44
Consensus pattern (20 bp):
GAAAGTGTTAGATTTTGATA
Found at i:6345387 original size:158 final size:157
Alignment explanation
Indices: 6345099--6345426 Score: 401
Period size: 158 Copynumber: 2.1 Consensus size: 157
6345089 ACAGTTACAG
* * *
6345099 CTCGTGTGAGCATTACAAGTTATATGGGTGCTGGTCTTGGATATCCTACCGATGGCTAAGGTCTT
1 CTCGTGTGAGCATTACAAGTTATATGGGTGCTGGTCTTAGATATCCTACCGATGACTAAGGTCTA
* * * * *
6345164 GCATTGGTTGCGAATTCTCCACAGCTCGTGTGAATAGCATCATGTAACCTAACATCTTGACCCAC
66 ACATTGATTGCGAATTCTCCACAGCTCGTGTGAACAGCATCATGTAACCTAACATATCGACCCAC
*
6345229 A-ATTGATGTGAGCAAGCCCATTTCACAA
131 AGATCG-TGTGAGC-AGCCCATTTCACAA
* * *
6345257 CTCGTGTGAGCATTACAAGTTATATGGGTGTTGGTCTTAGATGTCCTACCGATGACTGAGGT-TC
1 CTCGTGTGAGCATTACAAGTTATATGGGTGCTGGTCTTAGATATCCTACCGATGACTAAGGTCT-
* * * * ** * *
6345321 AACATTTATTGCGGATTCTCCACAGCTCGTGTGAGCAGTATTGTGT-AGCTCCACATATCGACCC
65 AACATTGATTGCGAATTCTCCACAGCTCGTGTGAACAGCATCATGTAACCT-AACATATCGACCC
* *
6345385 ACAGCTCGTGTGAGCAGCCCATTTCACAG
129 ACAGATCGTGTGAGCAGCCCATTTCACAA
6345414 CTCGTGTGAGCAT
1 CTCGTGTGAGCAT
6345427 ATATGGTTAC
Statistics
Matches: 145, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
157 30 0.21
158 113 0.78
159 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (157 bp):
CTCGTGTGAGCATTACAAGTTATATGGGTGCTGGTCTTAGATATCCTACCGATGACTAAGGTCTA
ACATTGATTGCGAATTCTCCACAGCTCGTGTGAACAGCATCATGTAACCTAACATATCGACCCAC
AGATCGTGTGAGCAGCCCATTTCACAA
Found at i:6354860 original size:7 final size:7
Alignment explanation
Indices: 6354848--6354888 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
6354838 TATATATTTA
6354848 TTTTAAT
1 TTTTAAT
6354855 TTTTAAT
1 TTTTAAT
6354862 TTTTAAT
1 TTTTAAT
6354869 TTTTAAT
1 TTTTAAT
6354876 TTTTAAT
1 TTTTAAT
6354883 TTTTAA
1 TTTTAA
6354889 AATTTTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTAAT
Found at i:6359356 original size:17 final size:17
Alignment explanation
Indices: 6359336--6359390 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
6359326 AAAAAAATGG
*
6359336 AAAGAT-GAAAAATTGAA
1 AAAGATAGAAAAA-TAAA
6359353 AAAG-TAGAAAAATAAA
1 AAAGATAGAAAAATAAA
*
6359369 AAAGATTGGAAAATATAAA
1 AAAGA-TAGAAAA-ATAAA
6359388 AAA
1 AAA
6359391 AAAATTTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 8 0.25
17 10 0.31
18 6 0.19
19 8 0.25
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.16
Consensus pattern (17 bp):
AAAGATAGAAAAATAAA
Found at i:6359376 original size:26 final size:23
Alignment explanation
Indices: 6359343--6359394 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 23
6359333 TGGAAAGATG
6359343 AAAAATTGAAAAAGTAGAAAAATAA
1 AAAAATTGAAAAA-TAGAAAAA-AA
* *
6359368 AAAAGATTGGAAAATATAAAAAAA
1 AAAA-ATTGAAAAATAGAAAAAAA
6359392 AAA
1 AAA
6359395 TTTATAAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 11 0.46
26 8 0.33
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (23 bp):
AAAAATTGAAAAATAGAAAAAAA
Found at i:6360646 original size:16 final size:17
Alignment explanation
Indices: 6360627--6360668 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
6360617 TTAAACATAC
*
6360627 ATATTTAAATTTAATAAT
1 ATATTTAAA-TTATTAAT
*
6360645 ATA-ATAAATTATTAAT
1 ATATTTAAATTATTAAT
6360661 ATATTTAA
1 ATATTTAA
6360669 TATAATTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 10 0.50
17 7 0.35
18 3 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATTTAAATTATTAAT
Found at i:6360695 original size:14 final size:14
Alignment explanation
Indices: 6360678--6360726 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
6360668 ATATAATTTA
6360678 TTATTTTAATAAAT
1 TTATTTTAATAAAT
6360692 TTATTTCATATAATAAAT
1 TTA-TT--T-TAATAAAT
*
6360710 TTATTTTAATAATT
1 TTATTTTAATAAAT
6360724 TTA
1 TTA
6360727 AATTTTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 13 0.43
15 3 0.10
17 3 0.10
18 11 0.37
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
TTATTTTAATAAAT
Found at i:6360703 original size:31 final size:32
Alignment explanation
Indices: 6360662--6360726 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
6360652 ATTATTAATA
**
6360662 TATTTAATATAATTTA-TTATTTTAATAAATT
1 TATTTAATATAATAAATTTATTTTAATAAATT
* *
6360693 TATTTCATATAATAAATTTATTTTAATAATTT
1 TATTTAATATAATAAATTTATTTTAATAAATT
6360725 TA
1 TA
6360727 AATTTTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 13 0.45
32 16 0.55
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (32 bp):
TATTTAATATAATAAATTTATTTTAATAAATT
Found at i:6360779 original size:29 final size:29
Alignment explanation
Indices: 6360747--6360813 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
6360737 AATGTTCTTA
*
6360747 ATATTTTATGTTAATATTTAATAATAAAT
1 ATATATTATGTTAATATTTAATAATAAAT
6360776 ATATATTATGTTAATATTTAATAATAAAT
1 ATATATTATGTTAATATTTAATAATAAAT
*
6360805 ACATATTAT
1 ATATATTAT
6360814 AGCTTATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (29 bp):
ATATATTATGTTAATATTTAATAATAAAT
Found at i:6370877 original size:22 final size:24
Alignment explanation
Indices: 6370835--6370878 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
6370825 AAATTGCAAC
*
6370835 TTAAAAACAGAAATAAGAATTAAA
1 TTAAAAACAGAAATAAAAATTAAA
6370859 TTAAAAA-A-AAATAAAAATTA
1 TTAAAAACAGAAATAAAAATTA
6370879 CAGGGACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 1 0.05
24 7 0.37
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (24 bp):
TTAAAAACAGAAATAAAAATTAAA
Found at i:6379711 original size:21 final size:20
Alignment explanation
Indices: 6379687--6379726 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
6379677 TTTTATACTT
*
6379687 TTTAATAATGTTATTAATTTA
1 TTTAATAAT-TTAATAATTTA
6379708 TTTAATAATTTAATAATTT
1 TTTAATAATTTAATAATTT
6379727 TTGAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTAATAATTTAATAATTTA
Found at i:6384557 original size:22 final size:22
Alignment explanation
Indices: 6384513--6384559 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
6384503 TAATCAGCTG
* *
6384513 TTTGGCTGTTATTTTGCAGCCA
1 TTTGGCTGGTATTTTACAGCCA
6384535 TTTGGCTGGTATTTTACTA-CCA
1 TTTGGCTGGTATTTTAC-AGCCA
6384557 TTT
1 TTT
6384560 TATTATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.15, C:0.17, G:0.19, T:0.49
Consensus pattern (22 bp):
TTTGGCTGGTATTTTACAGCCA
Found at i:6386693 original size:14 final size:14
Alignment explanation
Indices: 6386674--6386759 Score: 75
Period size: 14 Copynumber: 6.1 Consensus size: 14
6386664 ATGTATTGAT
*
6386674 TTCATACATGCGGA
1 TTCATACATGCAGA
* * *
6386688 TTCATAGATACATA
1 TTCATACATGCAGA
*
6386702 TTCATACATG-TGAA
1 TTCATACATGCAG-A
* *
6386716 TTCATAGATGTAGA
1 TTCATACATGCAGA
*
6386730 TTCATACATGCAAA
1 TTCATACATGCAGA
*
6386744 TTCATAGATGCAGA
1 TTCATACATGCAGA
6386758 TT
1 TT
6386760 TGTGCATGTG
Statistics
Matches: 55, Mismatches: 15, Indels: 4
0.74 0.20 0.05
Matches are distributed among these distances:
14 54 0.98
15 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (14 bp):
TTCATACATGCAGA
Found at i:6386776 original size:28 final size:28
Alignment explanation
Indices: 6386674--6386759 Score: 109
Period size: 28 Copynumber: 3.1 Consensus size: 28
6386664 ATGTATTGAT
* * * *
6386674 TTCATACATGCGGATTCATAGATACATA
1 TTCATACATGTGAATTCATAGATGCAGA
*
6386702 TTCATACATGTGAATTCATAGATGTAGA
1 TTCATACATGTGAATTCATAGATGCAGA
**
6386730 TTCATACATGCAAATTCATAGATGCAGA
1 TTCATACATGTGAATTCATAGATGCAGA
6386758 TT
1 TT
6386760 TGTGCATGTG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (28 bp):
TTCATACATGTGAATTCATAGATGCAGA
Found at i:6392101 original size:41 final size:41
Alignment explanation
Indices: 6392033--6392332 Score: 365
Period size: 41 Copynumber: 7.4 Consensus size: 41
6392023 CGTTTTTTCA
* * * *
6392033 TAAA-CGCCGCAAAAGAT-AGAGCAATAGCGACGCTTATGG
1 TAAAGCGCCGCTAAAGGTCAGATCAATAGCGGCGCTTATGG
* * * *
6392072 AAAAGCGCCGCTAAAGGTCGGAGCAATAGCGGTGCTTAT-G
1 TAAAGCGCCGCTAAAGGTCAGATCAATAGCGGCGCTTATGG
* * *
6392112 TAAAAGCGTCGCTAAAGGTCAGATAAATAGCGGTGCTTATGG
1 T-AAAGCGCCGCTAAAGGTCAGATCAATAGCGGCGCTTATGG
* *
6392154 TAAAGCGCCGCTAAAGGTCAGATCAATAGCAGCGCTTTTGG
1 TAAAGCGCCGCTAAAGGTCAGATCAATAGCGGCGCTTATGG
* * *
6392195 TAAAGCGCCGCTAAAGGTCAGATCAATAGCAGCACTTCTAGG
1 TAAAGCGCCGCTAAAGGTCAGATCAATAGCGGCGCTTAT-GG
6392237 -AAAGCGCCGCTAAAGGTCAGATCAATAGCGGCGCTTATGG
1 TAAAGCGCCGCTAAAGGTCAGATCAATAGCGGCGCTTATGG
** *
6392277 TCTAGCGCCGCTAAAGGTCAGAACAATAGCGGCGCTTATGG
1 TAAAGCGCCGCTAAAGGTCAGATCAATAGCGGCGCTTATGG
**
6392318 CCAAGCGCCGCTAAA
1 TAAAGCGCCGCTAAA
6392333 ATTTTTACAT
Statistics
Matches: 229, Mismatches: 26, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.01
40 14 0.06
41 208 0.91
42 4 0.02
ACGTcount: A:0.32, C:0.22, G:0.28, T:0.19
Consensus pattern (41 bp):
TAAAGCGCCGCTAAAGGTCAGATCAATAGCGGCGCTTATGG
Found at i:6394426 original size:94 final size:93
Alignment explanation
Indices: 6394322--6394529 Score: 389
Period size: 94 Copynumber: 2.2 Consensus size: 93
6394312 AAAACAACCC
6394322 AAATACTTAATTATTTAATTACTTAAATCAACCCAATTAATTAATTAATTATTTATTTATTTAAA
1 AAATA-TTAATTATTTAATTACTTAAATCAACCCAATTAATTAATTAATTATTTATTTATTTAAA
6394387 TATTAAAAACAACCCAAATATTTAATTCA
65 TATTAAAAACAACCCAAATATTTAATTCA
*
6394416 AAATATTTAATTATTTAATTATTTAAATCAACCCAATTAATTAATTAATTATTTATTTATTTAAA
1 AAATA-TTAATTATTTAATTACTTAAATCAACCCAATTAATTAATTAATTATTTATTTATTTAAA
6394481 TATTAAAAACAACCCAAATATTTAATTCA
65 TATTAAAAACAACCCAAATATTTAATTCA
6394510 AAATATTAATTATTTAATTA
1 AAATATTAATTATTTAATTA
6394530 AATATTTAAT
Statistics
Matches: 112, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
93 15 0.13
94 97 0.87
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (93 bp):
AAATATTAATTATTTAATTACTTAAATCAACCCAATTAATTAATTAATTATTTATTTATTTAAAT
ATTAAAAACAACCCAAATATTTAATTCA
Found at i:6394439 original size:30 final size:30
Alignment explanation
Indices: 6394405--6394470 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
6394395 ACAACCCAAA
* * * *
6394405 TATTTAATTCAAAATATTTAATTATTTAAT
1 TATTTAAATCAAAACAATTAATTAATTAAT
**
6394435 TATTTAAATCAACCCAATTAATTAATTAAT
1 TATTTAAATCAAAACAATTAATTAATTAAT
6394465 TATTTA
1 TATTTA
6394471 TTTATTTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (30 bp):
TATTTAAATCAAAACAATTAATTAATTAAT
Found at i:6394547 original size:59 final size:59
Alignment explanation
Indices: 6394455--6394697 Score: 182
Period size: 59 Copynumber: 3.9 Consensus size: 59
6394445 AACCCAATTA
* * ** * * *
6394455 ATTAATTAATTATTTATTTATTTAAATATTAAAAACAACCCAAATATTTAATTCAAAAT
1 ATTAATTATTTAATTAAATATTTAATTACTAAAAACAACCCAAATACTTAATTCAAAAT
* *
6394514 ATTAATTATTTAATTAAATATTTAATTACTAAAAACAACCTAAATACTTAATT-ATTTAATT
1 ATTAATTATTTAATTAAATATTTAATTACTAAAAACAACCCAAATACTTAATTCA---AAAT
* *** ** * * *
6394575 ATTTAAATCAACCCAATTATTTATTTATTTATTTAAATATTAAAAACAACCCAAATATTTAATTC
1 A-TT-AAT-TATTTAATTAAATATTTAATTA-CT-AA------AAACAACCCAAATACTTAATTC
6394640 AAAAT
55 AAAAT
*
6394645 ATTAATTATTTAATTAAATATTTAATTACTAAAAACAACCTAAATACTTAATT
1 ATTAATTATTTAATTAAATATTTAATTACTAAAAACAACCCAAATACTTAATT
6394698 ATTTAATTAT
Statistics
Matches: 139, Mismatches: 30, Indels: 30
0.70 0.15 0.15
Matches are distributed among these distances:
58 1 0.01
59 64 0.46
61 4 0.03
62 2 0.01
63 3 0.02
64 15 0.11
65 3 0.02
66 3 0.02
67 15 0.11
68 3 0.02
69 2 0.01
70 4 0.03
72 19 0.14
73 1 0.01
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (59 bp):
ATTAATTATTTAATTAAATATTTAATTACTAAAAACAACCCAAATACTTAATTCAAAAT
Found at i:6394573 original size:34 final size:34
Alignment explanation
Indices: 6394527--6394638 Score: 116
Period size: 34 Copynumber: 3.2 Consensus size: 34
6394517 AATTATTTAA
* * * *
6394527 TTAAATATTTAATTACTAAAAACAACCTAAATAC
1 TTAATTATTTAATTATTAAAAACAACCCAAATAT
* *
6394561 TTAATTATTTAATTATTTAAATCAACCCAATTATTTAT
1 TTAATTATTTAATTATTAAAAACAACCCAA--A--TAT
* *
6394599 TTATTTATTTAAATATTAAAAACAACCCAAATAT
1 TTAATTATTTAATTATTAAAAACAACCCAAATAT
6394633 TTAATT
1 TTAATT
6394639 CAAAATATTA
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
34 33 0.52
36 2 0.03
38 28 0.44
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (34 bp):
TTAATTATTTAATTATTAAAAACAACCCAAATAT
Found at i:6394632 original size:131 final size:134
Alignment explanation
Indices: 6394416--6394826 Score: 684
Period size: 131 Copynumber: 3.0 Consensus size: 134
6394406 ATTTAATTCA
*
6394416 AAATATTTAATTATTTAATTATTTAAATCAACCCAATTAATTAATTAATTATTTATTTATTTAAA
1 AAATACTTAATTATTTAATTATTTAAATCAACCC----AATTAATT-ATTATTTATTTATTTAAA
6394481 TATTAAAAACAACCCAAATATTTAATTCAAAATATTAATTATTTAATTAAATATTTAATTACTAA
61 TATTAAAAACAACCCAAATATTTAATTCAAAATATTAATTATTTAATTAAATATTTAATTACTAA
6394546 AAACAACCT
126 AAACAACCT
6394555 AAATACTTAATTATTTAATTATTTAAATCAACCCAATT-A-T-TTATTTATTTATTTAAATATTA
1 AAATACTTAATTATTTAATTATTTAAATCAACCCAATTAATTATTATTTATTTATTTAAATATTA
6394617 AAAACAACCCAAATATTTAATTCAAAATATTAATTATTTAATTAAATATTTAATTACTAAAAACA
66 AAAACAACCCAAATATTTAATTCAAAATATTAATTATTTAATTAAATATTTAATTACTAAAAACA
6394682 ACCT
131 ACCT
6394686 AAATACTTAATTATTTAATTATTTAAATCAACCCAATTAATTAATTATTTATTTATTTAAATATT
1 AAATACTTAATTATTTAATTATTTAAATCAACCCAATTAATT-ATTATTTATTTATTTAAATATT
* * * *
6394751 AAAAACAACCCAAATATTTCATTCAAAATATTTAATTATTTAATTGAATTTTTAATTATTAAAAA
65 AAAAACAACCCAAATATTTAATTCAAAATA-TTAATTATTTAATTAAATATTTAATTACTAAAAA
*
6394816 CAACCC
129 CAACCT
6394822 AAATA
1 AAATA
6394827 AATTTGATGA
Statistics
Matches: 261, Mismatches: 6, Indels: 13
0.93 0.02 0.05
Matches are distributed among these distances:
131 129 0.49
132 1 0.00
133 2 0.01
134 1 0.00
135 54 0.21
136 41 0.16
139 33 0.13
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (134 bp):
AAATACTTAATTATTTAATTATTTAAATCAACCCAATTAATTATTATTTATTTATTTAAATATTA
AAAACAACCCAAATATTTAATTCAAAATATTAATTATTTAATTAAATATTTAATTACTAAAAACA
ACCT
Done.