Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008228.1 Hibiscus syriacus cultivar Beakdansim tig00110864_pilon, whole genome shotgun sequence
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: 3739947
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 20
Found at i:1468023 original size:22 final size:22
Alignment explanation
Indices: 1467993--1468054 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
1467983 GATGGAGATA
1467993 GACGGATTTCACCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
*
1468015 GATGGATTTCACCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
* *
1468037 GACGGATGTCGCCGGAGA
1 GACGGATTTCACCGGAGA
1468055 GAGTGAGAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.23, C:0.18, G:0.42, T:0.18
Consensus pattern (22 bp):
GACGGATTTCACCGGAGATGGG
Found at i:1468228 original size:20 final size:20
Alignment explanation
Indices: 1468203--1468375 Score: 151
Period size: 20 Copynumber: 8.6 Consensus size: 20
1468193 TAAACGCGCT
*
1468203 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTGACTTTCGTG
*
1468223 TTGCGAATTTGACTTTTCGCG
1 TTGCGAATTTGAC-TTTCGTG
**
1468244 TTGCGAATTTGAAATTCAGTG
1 TTGCGAATTTGACTTTC-GTG
1468265 TTGCGAATTTGAC-TTCTGTG
1 TTGCGAATTTGACTTTC-GTG
* *
1468285 TTGCG-ATTT-ACAAATTCATG
1 TTGCGAATTTGAC--TTTCGTG
* *
1468305 TTGCGAATTTGACTATCGCG
1 TTGCGAATTTGACTTTCGTG
*
1468325 TTGCGAATATGAC-TTCTGTG
1 TTGCGAATTTGACTTTC-GTG
1468345 TTGCG-ATTT-ACATATTCGTG
1 TTGCGAATTTGAC-T-TTCGTG
1468365 TTGCGAATTTG
1 TTGCGAATTTG
1468376 GAAACTGGGT
Statistics
Matches: 126, Mismatches: 14, Indels: 24
0.77 0.09 0.15
Matches are distributed among these distances:
18 4 0.03
19 9 0.07
20 64 0.51
21 47 0.37
22 2 0.02
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (20 bp):
TTGCGAATTTGACTTTCGTG
Found at i:1468388 original size:60 final size:59
Alignment explanation
Indices: 1468203--1468391 Score: 195
Period size: 60 Copynumber: 3.1 Consensus size: 59
1468193 TAAACGCGCT
* * * * *
1468203 TTGCGAATTTGACTT-TCGCGTTGCGAATTTGAC-TTTTCGCGTTGCGAATTTGAAATTCAGTG
1 TTGCGAATTTGACTTCT-GTGTTGCG-ATTT-ACATATTCGTGTTGCGAATTTGAAA--CTGCG
* * *
1468265 TTGCGAATTTGACTTCTGTGTTGCGATTTACAAATTCATGTTGCGAATTTGACTA-TCGCG
1 TTGCGAATTTGACTTCTGTGTTGCGATTTACATATTCGTGTTGCGAATTTGA-AACT-GCG
* *
1468325 TTGCGAATATGACTTCTGTGTTGCGATTTACATATTCGTGTTGCGAATTTGGAAACTGGG
1 TTGCGAATTTGACTTCTGTGTTGCGATTTACATATTCGTGTTGCGAATTT-GAAACTGCG
1468385 TTGCGAA
1 TTGCGAA
1468392 ATTGGAGTTC
Statistics
Matches: 108, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
60 61 0.56
61 23 0.21
62 23 0.21
63 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.24, T:0.39
Consensus pattern (59 bp):
TTGCGAATTTGACTTCTGTGTTGCGATTTACATATTCGTGTTGCGAATTTGAAACTGCG
Found at i:1474733 original size:110 final size:110
Alignment explanation
Indices: 1474540--1474748 Score: 321
Period size: 110 Copynumber: 1.9 Consensus size: 110
1474530 ATTTCAGAGC
* *
1474540 CAATTTCAACTTCACGGCGAAGGATATTGGATTCAAGACAACACAAGCTCAACTTCACAACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTAGATTCAAGACAACACAAGCTCAACTTCACAACGAAG
* *
1474605 GGGCGGCTGATTGTCAACAAACAACTTCTCAGTTTCATTCGGAGT
66 GGGCGGCTGACTGTCAACAAACAACTTCCCAGTTTCATTCGGAGT
* * * *
1474650 CAATTTCAACTTCACAGCGAATGATATTAGACTT-GAGACAGCACAAGCTCAACTTCACAGCGAA
1 CAATTTCAACTTCACAGCGAAGGATATTAGA-TTCAAGACAACACAAGCTCAACTTCACAACGAA
*
1474714 GGGGCGGCTGACTGTCAACAAACAATTTCCCAGTT
65 GGGGCGGCTGACTGTCAACAAACAACTTCCCAGTT
1474749 CCAGAGCCAA
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
110 87 0.98
111 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (110 bp):
CAATTTCAACTTCACAGCGAAGGATATTAGATTCAAGACAACACAAGCTCAACTTCACAACGAAG
GGGCGGCTGACTGTCAACAAACAACTTCCCAGTTTCATTCGGAGT
Found at i:1476277 original size:19 final size:19
Alignment explanation
Indices: 1476253--1476293 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1476243 TAATACATTA
*
1476253 TTTATTA-TTATTTATTTAT
1 TTTATTATTTA-TTATTCAT
1476272 TTTATTATTTATTATTCAT
1 TTTATTATTTATTATTCAT
1476291 TTT
1 TTT
1476294 TTTCCTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTATTATTTATTATTCAT
Found at i:1476308 original size:26 final size:26
Alignment explanation
Indices: 1476249--1476301 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
1476239 ATGATAATAC
*
1476249 ATTATTTATTATTATTTATTTATTTT
1 ATTATTTATTATTATTTATTTACTTT
* *
1476275 ATTATTTATTATTCATTTTTTTCCTTT
1 ATTATTTATTATT-ATTTATTTACTTT
1476302 TTGTTTAGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.72
Consensus pattern (26 bp):
ATTATTTATTATTATTTATTTACTTT
Found at i:1485118 original size:29 final size:29
Alignment explanation
Indices: 1485063--1485120 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
1485053 CGGCAAAATC
* *
1485063 CACGAGATAATGTTCTTGAACTTTTATTT
1 CACGAGATAATGCTCTTGAACTATTATTT
*
1485092 CACGAGATAATGCT-TTGGACATATTATTT
1 CACGAGATAATGCTCTTGAAC-TATTATTT
1485121 GCTGAGATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (29 bp):
CACGAGATAATGCTCTTGAACTATTATTT
Found at i:1485193 original size:29 final size:28
Alignment explanation
Indices: 1485151--1485213 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 28
1485141 ACATTGACAA
* *
1485151 AAGGAGGTCGCCATGCACTCCGGGCGACC
1 AAGGAGGTCGCCATGCAAT-CGGACGACC
*
1485180 AAGGAGGTTGCCATGCAATCGGACGACC
1 AAGGAGGTCGCCATGCAATCGGACGACC
1485208 AAGGAG
1 AAGGAG
1485214 TAATGCATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
28 14 0.45
29 17 0.55
ACGTcount: A:0.27, C:0.27, G:0.35, T:0.11
Consensus pattern (28 bp):
AAGGAGGTCGCCATGCAATCGGACGACC
Found at i:1485358 original size:29 final size:29
Alignment explanation
Indices: 1485278--1485361 Score: 141
Period size: 29 Copynumber: 2.9 Consensus size: 29
1485268 GTCGAATGGT
*
1485278 GTAGGTCGCCATGGAGTCCCGACGACATG
1 GTAGGTCGCCATGGAGTCCCGGCGACATG
1485307 GTAGGTCGCCATGGAGTCCCGGCGACATG
1 GTAGGTCGCCATGGAGTCCCGGCGACATG
* *
1485336 GTAGGTTGCCATGGAGTCTCGGCGAC
1 GTAGGTCGCCATGGAGTCCCGGCGAC
1485362 CAAGCTCTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.18, C:0.26, G:0.37, T:0.19
Consensus pattern (29 bp):
GTAGGTCGCCATGGAGTCCCGGCGACATG
Found at i:1485410 original size:25 final size:25
Alignment explanation
Indices: 1485376--1485425 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
1485366 CTCTTGCATC
* *
1485376 CCTCATGCATGTGTTGCCTCCATAG
1 CCTCATGCATGCGTTGCATCCATAG
1485401 CCTCATGCATGCGTTGCATCCATAG
1 CCTCATGCATGCGTTGCATCCATAG
1485426 TTGTATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.18, C:0.32, G:0.20, T:0.30
Consensus pattern (25 bp):
CCTCATGCATGCGTTGCATCCATAG
Found at i:1485821 original size:21 final size:21
Alignment explanation
Indices: 1485796--1485839 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1485786 AATCTAGTTA
1485796 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
1485817 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
1485838 AT
1 AT
1485840 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:1485849 original size:28 final size:30
Alignment explanation
Indices: 1485816--1485878 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 30
1485806 TAGTATAAAT
1485816 TATTAGTTTGTTAGTTTAAG-T-TATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATATTA
1485844 TATTAGTTTGTTAGTTTAAGTTATATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATATTA
1485874 TATTA
1 TATTA
1485879 TATAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 20 0.61
29 1 0.03
30 12 0.36
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (30 bp):
TATTAGTTTGTTAGTTTAAGTTATATATTA
Found at i:1486386 original size:17 final size:17
Alignment explanation
Indices: 1486364--1486400 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
1486354 GATAATTTTC
1486364 GTTTAAAAAAATATTGT
1 GTTTAAAAAAATATTGT
* *
1486381 GTTTAAAAATATTTTGT
1 GTTTAAAAAAATATTGT
1486398 GTT
1 GTT
1486401 GTTTTAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.49
Consensus pattern (17 bp):
GTTTAAAAAAATATTGT
Found at i:1486407 original size:21 final size:24
Alignment explanation
Indices: 1486377--1486420 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
1486367 TAAAAAAATA
1486377 TTGTGTTT-AAA-AATATTTTGTG
1 TTGTGTTTAAAAGAATATTTTGTG
1486399 TTGT-TTTAAAAGAATATTTTGT
1 TTGTGTTTAAAAGAATATTTTGT
1486421 TTAATTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 3 0.15
22 7 0.35
23 10 0.50
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (24 bp):
TTGTGTTTAAAAGAATATTTTGTG
Found at i:1489326 original size:14 final size:14
Alignment explanation
Indices: 1489307--1489412 Score: 127
Period size: 14 Copynumber: 8.1 Consensus size: 14
1489297 TATTAATATT
1489307 TAATGATTTAATAA
1 TAATGATTTAATAA
1489321 TAATG-----ATAA
1 TAATGATTTAATAA
1489330 TAATGATTTAATAA
1 TAATGATTTAATAA
*
1489344 TAATCA--TAATAA
1 TAATGATTTAATAA
*
1489356 TAATGATTTAATAG
1 TAATGATTTAATAA
*
1489370 TAATGATTTTATAA
1 TAATGATTTAATAA
*
1489384 TAATGATTTAATAC
1 TAATGATTTAATAA
1489398 TAATGATTTAATAA
1 TAATGATTTAATAA
1489412 T
1 T
1489413 TATTACTAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
9 9 0.12
12 11 0.14
14 57 0.74
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (14 bp):
TAATGATTTAATAA
Found at i:1489516 original size:14 final size:13
Alignment explanation
Indices: 1489497--1489607 Score: 57
Period size: 14 Copynumber: 8.2 Consensus size: 13
1489487 TCGAATTTAT
1489497 TAATGATTTGATAC
1 TAATGATTT-ATAC
*
1489511 TAATGATTTACTAA
1 TAATGATTTA-TAC
* * * *
1489525 TTATTATTAATATT
1 TAATGATTTATA-C
*
1489539 TAATTATTTGATAC
1 TAATGATTT-ATAC
1489553 TAATGA-TT-TAC
1 TAATGATTTATAC
*
1489564 TAATGA-TTACTAG
1 TAATGATTTA-TAC
* *
1489577 TAATGAAATTATAA
1 TAATG-ATTTATAC
1489591 TAATGATTTGATAC
1 TAATGATTT-ATAC
1489605 TAA
1 TAA
1489608 AAATCATTGT
Statistics
Matches: 76, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
11 11 0.14
13 15 0.20
14 44 0.58
15 6 0.08
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (13 bp):
TAATGATTTATAC
Found at i:1489574 original size:21 final size:21
Alignment explanation
Indices: 1489508--1489575 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
1489498 AATGATTTGA
*
1489508 TACTAATGATTTACTAATTAT
1 TACTAATGATTTACTAATGAT
* * *
1489529 TATTAAT-ATTTAATTATTTGA-
1 TACTAATGATTT-ACTA-ATGAT
1489550 TACTAATGATTTACTAATGAT
1 TACTAATGATTTACTAATGAT
1489571 TACTA
1 TACTA
1489576 GTAATGAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
20 7 0.19
21 23 0.64
22 6 0.17
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (21 bp):
TACTAATGATTTACTAATGAT
Found at i:1491812 original size:15 final size:16
Alignment explanation
Indices: 1491792--1491825 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
1491782 ACAAAAAATT
1491792 TAATATAAT-AACTTA
1 TAATATAATAAACTTA
1491807 TAATATAATAAACTTA
1 TAATATAATAAACTTA
1491823 TAA
1 TAA
1491826 AGTAAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATATAATAAACTTA
Found at i:1494855 original size:19 final size:19
Alignment explanation
Indices: 1494833--1494902 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
1494823 CATAGCATAG
1494833 ATCAGAGATCAGAACAGAA
1 ATCAGAGATCAGAACAGAA
* * * *
1494852 ATCAGATATCATAAGAGAT
1 ATCAGAGATCAGAACAGAA
* *
1494871 ATCAAAGTTCATG-ACAGAA
1 ATCAGAGATCA-GAACAGAA
*
1494890 ATCAGAGGTCAGA
1 ATCAGAGATCAGA
1494903 CTGTATTTCA
Statistics
Matches: 37, Mismatches: 12, Indels: 4
0.70 0.23 0.08
Matches are distributed among these distances:
18 1 0.03
19 36 0.97
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (19 bp):
ATCAGAGATCAGAACAGAA
Found at i:1496766 original size:18 final size:21
Alignment explanation
Indices: 1496745--1496813 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
1496735 AAGGGTATAA
1496745 ATACCCC-AT-AG-GGTACCG
1 ATACCCCTATCAGAGGTACCG
1496763 ATACCCCTATGCAGAGGTACCG
1 ATACCCCTAT-CAGAGGTACCG
*
1496785 ATA--CCTATCCCAAAGGTACCG
1 ATACCCCTAT--CAGAGGTACCG
1496806 ATACCCCT
1 ATACCCCT
1496814 TATGTAATAC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
18 7 0.17
19 2 0.05
20 5 0.12
21 15 0.36
22 10 0.24
23 3 0.07
ACGTcount: A:0.29, C:0.35, G:0.17, T:0.19
Consensus pattern (21 bp):
ATACCCCTATCAGAGGTACCG
Found at i:1496784 original size:22 final size:23
Alignment explanation
Indices: 1496756--1496813 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 23
1496746 TACCCCATAG
* *
1496756 GGTACCGATACCCCTAT-GCAGA
1 GGTACCGATACCCCTATCCCAAA
1496778 GGTACCGATA--CCTATCCCAAA
1 GGTACCGATACCCCTATCCCAAA
1496799 GGTACCGATACCCCT
1 GGTACCGATACCCCT
1496814 TATGTAATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 5 0.16
21 13 0.42
22 10 0.32
23 3 0.10
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (23 bp):
GGTACCGATACCCCTATCCCAAA
Found at i:1504855 original size:24 final size:25
Alignment explanation
Indices: 1504816--1504862 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
1504806 ACTCAAAAAA
1504816 AAAATTAGAAGCTCGATTGAAGCCT
1 AAAATTAGAAGCTCGATTGAAGCCT
*
1504841 AAAATTCG-AGCTCGATTGAAGC
1 AAAATTAGAAGCTCGATTGAAGC
1504863 GAAAAAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (25 bp):
AAAATTAGAAGCTCGATTGAAGCCT
Found at i:1504868 original size:24 final size:25
Alignment explanation
Indices: 1504815--1504868 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
1504805 AACTCAAAAA
1504815 AAAAATTAGAAGCTCGATTGAAGCC
1 AAAAATTAGAAGCTCGATTGAAGCC
* * *
1504840 TAAAATTCG-AGCTCGATTGAAGCG
1 AAAAATTAGAAGCTCGATTGAAGCC
1504864 AAAAA
1 AAAAA
1504869 ATAGTTCGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.20
Consensus pattern (25 bp):
AAAAATTAGAAGCTCGATTGAAGCC
Found at i:1505301 original size:21 final size:20
Alignment explanation
Indices: 1505275--1505315 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
1505265 TATAAAAAAC
1505275 TATTTTTATTAAATGTTTTTA
1 TATTTTTATTAAAT-TTTTTA
*
1505296 TATTTTTATTTAATTTTTTA
1 TATTTTTATTAAATTTTTTA
1505316 AATAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
TATTTTTATTAAATTTTTTA
Found at i:1507362 original size:42 final size:42
Alignment explanation
Indices: 1507303--1507389 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
1507293 TCCAACTACT
1507303 ATAAAGAAGTAATTTAGCAGCGTTTATCAAACAAACGCCGCA
1 ATAAAGAAGTAATTTAGCAGCGTTTATCAAACAAACGCCGCA
* * * ** *
1507345 ATAAAGTAA-TAATTTAGCGGTGTTTGTCGTACAAACGCCTCA
1 ATAAAG-AAGTAATTTAGCAGCGTTTATCAAACAAACGCCGCA
1507387 ATA
1 ATA
1507390 TGTTTGTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 36 0.95
43 2 0.05
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.26
Consensus pattern (42 bp):
ATAAAGAAGTAATTTAGCAGCGTTTATCAAACAAACGCCGCA
Found at i:1507868 original size:22 final size:22
Alignment explanation
Indices: 1507840--1507886 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1507830 TTCTTCTTTC
1507840 GAATAGAAAAATAATAGCGTTT
1 GAATAGAAAAATAATAGCGTTT
* * *
1507862 GAATAGATAAGTAATAGCTTTT
1 GAATAGAAAAATAATAGCGTTT
1507884 GAA
1 GAA
1507887 AACCCGAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.04, G:0.19, T:0.30
Consensus pattern (22 bp):
GAATAGAAAAATAATAGCGTTT
Found at i:1508789 original size:16 final size:14
Alignment explanation
Indices: 1508755--1508787 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1508745 GTTAATTAGC
1508755 ATATAAATTTTAAT
1 ATATAAATTTTAAT
1508769 ATATAAATTTTAAT
1 ATATAAATTTTAAT
*
1508783 GTATA
1 ATATA
1508788 TATCAGTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
ATATAAATTTTAAT
Found at i:1510262 original size:22 final size:22
Alignment explanation
Indices: 1510234--1510280 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
1510224 TCTTTCATTC
1510234 ATAAGCCATAGATGAATAAGTT
1 ATAAGCCATAGATGAATAAGTT
*
1510256 ATAAGCCATAGATGGATAAGTT
1 ATAAGCCATAGATGAATAAGTT
1510278 ATA
1 ATA
1510281 GGCACAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (22 bp):
ATAAGCCATAGATGAATAAGTT
Found at i:1516324 original size:44 final size:44
Alignment explanation
Indices: 1516244--1516401 Score: 203
Period size: 44 Copynumber: 3.6 Consensus size: 44
1516234 ATTTTATGTT
* * * * *
1516244 ATTTAGCAGCGTTTGTA-ACAAAAAACGCCGCAATATACCATAC
1 ATTTAGCGGCGTTTGTATCCTAAAAACGCCGCTATATACCAGAC
* *
1516287 ATTTAGCGGCATTTGTATCCTAAAAACGCCGTTATATACCAGAC
1 ATTTAGCGGCGTTTGTATCCTAAAAACGCCGCTATATACCAGAC
* *
1516331 ATTTAACGGCGTTTGTATCCTAACAACGCCGCTATATACCAGAC
1 ATTTAGCGGCGTTTGTATCCTAAAAACGCCGCTATATACCAGAC
* *
1516375 CTTTAGCGGCGTTTGTAT-CAAAAAACG
1 ATTTAGCGGCGTTTGTATCCTAAAAACG
1516402 TTGCGAAATC
Statistics
Matches: 99, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
43 22 0.22
44 77 0.78
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.27
Consensus pattern (44 bp):
ATTTAGCGGCGTTTGTATCCTAAAAACGCCGCTATATACCAGAC
Found at i:1516428 original size:44 final size:43
Alignment explanation
Indices: 1516395--1516478 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
1516385 GTTTGTATCA
**
1516395 AAAAACGTTGCGAAATCTCAACACCTATCGCGGCATTTGTGAT
1 AAAAACGTCACGAAATCTCAACACCTATCGCGGCATTTGTGAT
* * *
1516438 AAAAAGGTCACTAAATCTCAACACCTATTGCGGCATTTGTG
1 AAAAACGTCACGAAATCTCAACACCTATCGCGGCATTTGTG
1516479 GGAAAAACAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (43 bp):
AAAAACGTCACGAAATCTCAACACCTATCGCGGCATTTGTGAT
Found at i:1516485 original size:43 final size:43
Alignment explanation
Indices: 1516407--1516595 Score: 182
Period size: 43 Copynumber: 4.4 Consensus size: 43
1516397 AAACGTTGCG
* * * *
1516407 AAATCTCAACACCTATCGCGGCATTTGTGATAAAAAGGTCACT
1 AAATCTCAACACCTATTGCGGCATTTGTGAGAAAAACGCCACT
* * **
1516450 AAATCTCAACACCTATTGCGGCATTTGTGGGAAAAACACCGTT
1 AAATCTCAACACCTATTGCGGCATTTGTGAGAAAAACGCCACT
* * * * * *
1516493 AAA-CATCAACACATATTGCGGCGTTTGTAAGACAAACGTCATT
1 AAATC-TCAACACCTATTGCGGCATTTGTGAGAAAAACGCCACT
* * * * *
1516536 AACTATCAACACCTATTGCGGCGTTTGTGGGAAAAACGCCGCT
1 AAATCTCAACACCTATTGCGGCATTTGTGAGAAAAACGCCACT
*
1516579 AAATATCAACACCTATT
1 AAATCTCAACACCTATT
1516596 AACAAACGCC
Statistics
Matches: 118, Mismatches: 26, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
42 1 0.01
43 117 0.99
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (43 bp):
AAATCTCAACACCTATTGCGGCATTTGTGAGAAAAACGCCACT
Found at i:1518128 original size:13 final size:13
Alignment explanation
Indices: 1518110--1518134 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1518100 TTGCAAAAAT
1518110 TAATATTTTTTTG
1 TAATATTTTTTTG
1518123 TAATATTTTTTT
1 TAATATTTTTTT
1518135 ATCAAAACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TAATATTTTTTTG
Found at i:1518217 original size:18 final size:17
Alignment explanation
Indices: 1518194--1518237 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
1518184 AAGTATTGAT
*
1518194 AATATTTTTTTTAAATAA
1 AATATTTTTTATAAA-AA
* *
1518212 AATATTTTATATATAAA
1 AATATTTTTTATAAAAA
1518229 AATATTTTT
1 AATATTTTT
1518238 AATGAATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AATATTTTTTATAAAAA
Found at i:1520895 original size:60 final size:60
Alignment explanation
Indices: 1520787--1520899 Score: 145
Period size: 60 Copynumber: 1.9 Consensus size: 60
1520777 GAGGGTCATT
* * * *
1520787 TTTAGGGATAAAATTAGAATATTCAAAAGTTTAAGAACTAATTTAAAATGAGAATCATAA
1 TTTAGGGATAAAATTAGAATATTAAAAAATTTAAGAACCAATTAAAAATGAGAATCATAA
* * * * *
1520847 TTTAGGGATGAAATTAGAGTTTTAAAAAATTTAGGGACCAATTAAAAATGAGA
1 TTTAGGGATAAAATTAGAATATTAAAAAATTTAAGAACCAATTAAAAATGAGA
1520900 GACACAGCTT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 44 1.00
ACGTcount: A:0.48, C:0.04, G:0.17, T:0.31
Consensus pattern (60 bp):
TTTAGGGATAAAATTAGAATATTAAAAAATTTAAGAACCAATTAAAAATGAGAATCATAA
Found at i:1529383 original size:2 final size:2
Alignment explanation
Indices: 1529376--1529421 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1529366 AATCAAGCCT
1529376 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1529418 TA TA
1 TA TA
1529422 GAAATAAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1541897 original size:126 final size:125
Alignment explanation
Indices: 1541731--1542065 Score: 526
Period size: 126 Copynumber: 2.7 Consensus size: 125
1541721 TGAAGCAAAC
* * *
1541731 CCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGCCATCAGTAAGTCTTTCGAGCAT
*
1541796 GATGATGAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGG
66 GATAAT-AAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGG
*
1541857 TCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGCCATCAGTAAGTCTTTCGAGCAT
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGCCATCAGTAAGTCTTTCGAGCAT
* *
1541922 GATAATTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTTGGG
66 GATAA-TAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGG
* *** * * *
1541983 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGTCATTTTTGAGTCTTTTGAGCAA
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGCCATCAGTAAGTCTTTCGAGCAT
1542048 GATAATAAATCCTTCGGG
66 GATAATAAATCCTTCGGG
1542066 TAGGATGTTT
Statistics
Matches: 193, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
125 13 0.07
126 179 0.93
127 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (125 bp):
CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGGCCATCAGTAAGTCTTTCGAGCAT
GATAATAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGG
Found at i:1542046 original size:42 final size:42
Alignment explanation
Indices: 1541731--1542024 Score: 498
Period size: 42 Copynumber: 7.0 Consensus size: 42
1541721 TGAAGCAAAC
* * *
1541731 CCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGG
* *
1541773 CCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGG
1541815 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGG
*
1541857 TCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGG
* *
1541899 CCATCAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGG
* *
1541941 TCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTTGGG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGG
1541983 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGG
1542025 TCATTTTTGA
Statistics
Matches: 239, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 239 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (42 bp):
CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGGG
Found at i:1542548 original size:53 final size:53
Alignment explanation
Indices: 1542485--1542793 Score: 386
Period size: 53 Copynumber: 5.8 Consensus size: 53
1542475 AGAATCACAC
* * * *
1542485 CAGAAGATTGTTTGAGTTCTACTCGCTAAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* *
1542538 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGAGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* * * * *
1542591 CAGAAGATTATTCGAGTTCTACTCCTTGAAGTAAGAGGGAGCTAACCCATAAG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* * *
1542644 AAGAAGATTGTTCGAGTTCTACTCCCTGAAACAAGAGGGAGCGAACCCGTAAA
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* * * * ***
1542697 CAGAAGATTATTCGAGTTCTACTCCCTGAAGCAATAGGGAGCAAACCCATTTT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* *
1542750 TAGAAGATTGTTCGAGTTCCTTAATCCCTGAA-CAAGAGGGAGCG
1 CAGAAGATTGTTCGAGTT-C-TACTCCCTGAAGCAAGAGGGAGCG
1542794 GACACATCAT
Statistics
Matches: 221, Mismatches: 33, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
53 200 0.90
54 11 0.05
55 10 0.05
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
Found at i:1544415 original size:3 final size:3
Alignment explanation
Indices: 1544407--1544456 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
1544397 TGTCCTTAGG
1544407 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1544455 TT
1 TT
1544457 TTGTCATGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1555903 original size:25 final size:25
Alignment explanation
Indices: 1555869--1555923 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
1555859 TAATAGTTTG
*
1555869 CACTCAAGATGCGTTCCCATGTTGT
1 CACTCAAGATGCATTCCCATGTTGT
1555894 CACTCAAGATGCATTCCCATGTTGT
1 CACTCAAGATGCATTCCCATGTTGT
*
1555919 TACTC
1 CACTC
1555924 TAAAGCATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (25 bp):
CACTCAAGATGCATTCCCATGTTGT
Found at i:1556753 original size:82 final size:81
Alignment explanation
Indices: 1556616--1557009 Score: 513
Period size: 82 Copynumber: 4.8 Consensus size: 81
1556606 CCTTGTAGAA
* * * *
1556616 AATCTACATTATTCACGTCTTTTGCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAAT
1 AATCTATACTATTCATGTCCTTTGCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAAT
1556681 ATTTTAGAGAATCATGG
66 ATTTTAGAGAATCA-GG
* * * * *
1556698 AATCTATATTATTCATGTCCTTTGTTTGTCATTGACATATCACATAAACTCAGATAAACTGTAAT
1 AATCTATACTATTCATGTCCTTTGCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAAT
1556763 ATTTTAGAGAATC-GG
66 ATTTTAGAGAATCAGG
* * * * *
1556778 ATAATCTATAATATTCACGTCCTTTACTTGTCATTGACATTTCACATCAACTTAGATAAATTGAA
1 --AATCTATACTATTCATGTCCTTTGCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAA
1556843 ATATTTTAGAGAATCAGAG
64 ATATTTTAGAGAATCAG-G
*
1556862 AATCTATACTATTCATGTCATTTGCTTGTCATTGACATTTCACATCAACTCAGATAAA-TCGAAA
1 AATCTATACTATTCATGTCCTTTGCTTGTCATTGACATTTCACATCAACTCAGATAAACT-GAAA
*
1556926 TATTTTAGAGAATAAGGG
65 TATTTTAGAGAATCA-GG
* * * * * * *
1556944 AATCTACACTATTCATGTCCTTTGATTTTTATTTACATTTCACATCACCTCAGATAAATTGAAAT
1 AATCTATACTATTCATGTCCTTTGCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAAT
1557009 A
66 A
1557010 ATTTCCATTG
Statistics
Matches: 276, Mismatches: 29, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
80 2 0.01
81 1 0.00
82 269 0.97
83 3 0.01
84 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.38
Consensus pattern (81 bp):
AATCTATACTATTCATGTCCTTTGCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAAT
ATTTTAGAGAATCAGG
Found at i:1566472 original size:23 final size:23
Alignment explanation
Indices: 1566446--1566490 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1566436 CACCACAGCT
*
1566446 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
1566469 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
1566491 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:1568340 original size:21 final size:21
Alignment explanation
Indices: 1568316--1568360 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
1568306 TTTTGTTCGT
*
1568316 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
1568337 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
1568358 TTG
1 TTG
1568361 CCCAGAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:1570275 original size:24 final size:24
Alignment explanation
Indices: 1570248--1570294 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
1570238 AAACATACTC
1570248 TTGTTTATGCGCTATACTATCACT
1 TTGTTTATGCGCTATACTATCACT
1570272 TTGTTTATGCGCTATACTATCAC
1 TTGTTTATGCGCTATACTATCAC
1570295 CATATTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (24 bp):
TTGTTTATGCGCTATACTATCACT
Found at i:1571397 original size:23 final size:23
Alignment explanation
Indices: 1571371--1571415 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1571361 CACCACAGCT
*
1571371 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
1571394 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
1571416 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:1573258 original size:21 final size:21
Alignment explanation
Indices: 1573234--1573278 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1573224 TTTTGTTCGT
* *
1573234 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1573255 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1573276 TTG
1 TTG
1573279 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1576594 original size:15 final size:15
Alignment explanation
Indices: 1576574--1576612 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
1576564 AGTCGACGTT
*
1576574 TGAGCTCATTTGCTC
1 TGAGCTCACTTGCTC
1576589 TGAGCTCACTTGCTC
1 TGAGCTCACTTGCTC
1576604 TGAGCTCAC
1 TGAGCTCAC
1576613 CTACGAAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.15, C:0.31, G:0.21, T:0.33
Consensus pattern (15 bp):
TGAGCTCACTTGCTC
Found at i:1581355 original size:32 final size:33
Alignment explanation
Indices: 1581309--1581383 Score: 100
Period size: 32 Copynumber: 2.3 Consensus size: 33
1581299 ATAATATTAC
1581309 ATATAATTAATAATTTAAT-AATATTATTT-TAAA
1 ATATAA-TAATAA-TTAATAAATATTATTTATAAA
*
1581342 ATATTATAATAATTAATAAATATTATTTATAAA
1 ATATAATAATAATTAATAAATATTATTTATAAA
*
1581375 GTATAATAA
1 ATATAATAA
1581384 GAGTAAACTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 5 0.14
32 16 0.43
33 16 0.43
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (33 bp):
ATATAATAATAATTAATAAATATTATTTATAAA
Found at i:1581439 original size:64 final size:63
Alignment explanation
Indices: 1581371--1581505 Score: 182
Period size: 64 Copynumber: 2.1 Consensus size: 63
1581361 ATATTATTTA
*
1581371 TAAAGTATAATAAGAGTAAACTATATTCATCACTTAACTAT-TTTTCCACTCTTATTTTGATCAT
1 TAAAGT-TAATAAGAGTAAACTACATTCATCACTTAACTATCTTTT-CACTCTTATTTTGATCAT
* * * * *
1581435 TAAAGCTTAATAAGAGTAAATTACATTCATCACTTAACTATCTTTTTACTTTTATTTTGGTTAT
1 TAAAG-TTAATAAGAGTAAACTACATTCATCACTTAACTATCTTTTCACTCTTATTTTGATCAT
1581499 TAAAGTT
1 TAAAGTT
1581506 TAAAAATTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
63 2 0.03
64 56 0.89
65 5 0.08
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.44
Consensus pattern (63 bp):
TAAAGTTAATAAGAGTAAACTACATTCATCACTTAACTATCTTTTCACTCTTATTTTGATCAT
Found at i:1582205 original size:5 final size:5
Alignment explanation
Indices: 1582195--1582223 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
1582185 TCACGACCAC
1582195 GACGA GACGA GACGA GACGA GACGA GACG
1 GACGA GACGA GACGA GACGA GACGA GACG
1582224 GGCGGCGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.41, T:0.00
Consensus pattern (5 bp):
GACGA
Found at i:1582714 original size:5 final size:5
Alignment explanation
Indices: 1582706--1582751 Score: 56
Period size: 6 Copynumber: 8.4 Consensus size: 5
1582696 CTGTCTCGTC
1582706 TCGGG TCGGG TCGGG TCGGG TCGGGG TCGTGG TCGTGG TCGTGG TC
1 TCGGG TCGGG TCGGG TCGGG TC-GGG TCG-GG TCG-GG TCG-GG TC
1582752 ATACGTGTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
5 18 0.46
6 21 0.54
ACGTcount: A:0.00, C:0.20, G:0.54, T:0.26
Consensus pattern (5 bp):
TCGGG
Found at i:1582917 original size:19 final size:19
Alignment explanation
Indices: 1582893--1582940 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
1582883 ACTGTAGACT
1582893 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
1582912 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
1582931 ATCGCAACGA
1 ATCGCAACGA
1582941 CAACTGTAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:1582959 original size:22 final size:22
Alignment explanation
Indices: 1582849--1582961 Score: 112
Period size: 22 Copynumber: 5.4 Consensus size: 22
1582839 AATTTGAAAA
*
1582849 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGAAT
*
1582871 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGAAT
* * *
1582893 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGAAT
* * *
1582912 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGAAT
1582931 ATCGCAACGACAACTGTAGAAT
1 ATCGCAACGACAACTGTAGAAT
1582953 ATCGCAACG
1 ATCGCAACG
1582962 TGAAATGAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
19 32 0.40
20 2 0.02
21 2 0.02
22 45 0.56
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGAAT
Found at i:1582972 original size:41 final size:40
Alignment explanation
Indices: 1582843--1583023 Score: 113
Period size: 41 Copynumber: 4.4 Consensus size: 40
1582833 ACAACGAATT
*
1582843 TGAAAAATCGCAACGACAACTGTAGACTATCGCAAC-GACAA
1 TGAAAAATCGCAACG-CAACTGTAGAATATCGCAACGGA-AA
** * * * *
1582884 CTGTAGACTATCGCAACG-AA-TTTGGAAAATCGCAAC-GAATT
1 -TG-A-AAAATCGCAACGCAACTGTAGAATATCGCAACGGAA-A
*
1582925 TGGAAAATCGCAACGACAACTGTAGAATATCGCAACGTGAAA
1 TGAAAAATCGCAACG-CAACTGTAGAATATCGCAACG-GAAA
* * * *
1582967 TGAAAAATCGCAACGCGATTTTCA-ACTATCGCAACGCGAAA
1 TGAAAAATCGCAACGCAACTGT-AGAATATCGCAACG-GAAA
1583008 TTG-AAAATCGCAACGC
1 -TGAAAAATCGCAACGC
1583024 GAAATGGAAA
Statistics
Matches: 109, Mismatches: 20, Indels: 21
0.73 0.13 0.14
Matches are distributed among these distances:
38 10 0.09
40 5 0.05
41 59 0.54
42 21 0.19
43 4 0.04
44 10 0.09
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (40 bp):
TGAAAAATCGCAACGCAACTGTAGAATATCGCAACGGAAA
Found at i:1582998 original size:82 final size:83
Alignment explanation
Indices: 1582821--1583022 Score: 223
Period size: 82 Copynumber: 2.4 Consensus size: 83
1582811 TAAAATCTTT
* * * * *
1582821 TTTTTAACTATCACAACGAATTTGAAAAATCGCAACGACAACTGTAGACTATCGCAACGACAACT
1 TTTTCAACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGAATATCGCAACGACAAAT
**
1582886 GTAGACTATCGCAACGAA
66 GTAGAAAATCGCAACGAA
** * **
1582904 TTTGGAA-AATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGAATATCGCAACGTGAAAT
1 TTTTCAACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGAATATCGCAACGACAAAT
*
1582968 G-A-AAAATCGCAACGCGA
66 GTAGAAAATCGCAACG-AA
*
1582985 TTTTCAACTATCGCAACGCGAAATT-GAAAATCGCAACG
1 TTTTCAACTATCGCAA--CGAATTTGGAAAATCGCAACG
1583023 CGAAATGGAA
Statistics
Matches: 99, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
80 10 0.10
81 7 0.07
82 58 0.59
83 18 0.18
84 6 0.06
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.21
Consensus pattern (83 bp):
TTTTCAACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGAATATCGCAACGACAAAT
GTAGAAAATCGCAACGAA
Found at i:1582999 original size:21 final size:20
Alignment explanation
Indices: 1582953--1583069 Score: 108
Period size: 20 Copynumber: 5.8 Consensus size: 20
1582943 ACTGTAGAAT
* **
1582953 ATCGCAACGTGAAATGAAAA
1 ATCGCAACGCGAAATTCAAA
** *
1582973 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATTCAA-A
*
1582994 ATCGCAACGCGAAATTGAAA
1 ATCGCAACGCGAAATTCAAA
**
1583014 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATTCAAA
** *
1583034 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATTCAA-A
1583055 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
1583070 GCAACGCGAA
Statistics
Matches: 77, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
20 48 0.62
21 29 0.38
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAAATTCAAA
Found at i:1583101 original size:61 final size:61
Alignment explanation
Indices: 1582953--1583069 Score: 216
Period size: 61 Copynumber: 1.9 Consensus size: 61
1582943 ACTGTAGAAT
* *
1582953 ATCGCAACGTGAAATGAAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATTGAAA
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATTGAAA
1583014 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAAT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAAT
1583070 GCAACGCGAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (61 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATTGAAA
Found at i:1584453 original size:29 final size:28
Alignment explanation
Indices: 1584421--1584530 Score: 91
Period size: 30 Copynumber: 3.8 Consensus size: 28
1584411 TATCTTAAAT
*
1584421 TTTAAAATTATCTTTTATTTTTGTTTTAA
1 TTTAAAATTATATTTTATTTTT-TTTTAA
*
1584450 TTTATTAAATT-TATTTTATTTTTTCTTAA
1 TTTA--AAATTATATTTTATTTTTTTTTAA
*
1584479 GTTATTAAA-TATA-TTTATTTTTATTTTAA
1 -TT-TAAAATTATATTTTATTTTT-TTTTAA
* *
1584508 TGTAAAAATATATATTTATTTTT
1 TTTAAAATTATAT-TTTATTTTT
1584531 ATCATCGCTT
Statistics
Matches: 66, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
27 4 0.06
28 15 0.23
29 19 0.29
30 22 0.33
31 6 0.09
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (28 bp):
TTTAAAATTATATTTTATTTTTTTTTAA
Found at i:1584467 original size:30 final size:29
Alignment explanation
Indices: 1584433--1584530 Score: 110
Period size: 29 Copynumber: 3.3 Consensus size: 29
1584423 TAAAATTATC
*
1584433 TTTTATTTTTGTTTTAATTTATTAAATTTA
1 TTTTATTTTT-TTTTAATTTATTAAATATA
* *
1584463 TTTTATTTTTTCTTAAGTTATTAAATATA
1 TTTTATTTTTTTTTAATTTATTAAATATA
* *
1584492 -TTTATTTTTATTTTAATGTA-AAAATATA
1 TTTTATTTTT-TTTTAATTTATTAAATATA
1584520 TATTTATTTTT
1 T-TTTATTTTT
1584531 ATCATCGCTT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
28 16 0.28
29 23 0.40
30 19 0.33
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (29 bp):
TTTTATTTTTTTTTAATTTATTAAATATA
Found at i:1584720 original size:30 final size:32
Alignment explanation
Indices: 1584658--1584729 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 32
1584648 TATAAATATA
1584658 TATTTTATTAATATCTTAACTTTTAAAATTTATTT
1 TATTTTA--AATATCTTAAC-TTTAAAATTTATTT
* *
1584693 T-TTTTAAATATCTTAAC-TTATATTTTATTT
1 TATTTTAAATATCTTAACTTTAAAATTTATTT
1584723 TATTTTA
1 TATTTTA
1584730 TTTTTAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
30 12 0.35
31 5 0.15
32 11 0.32
34 5 0.15
35 1 0.03
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (32 bp):
TATTTTAAATATCTTAACTTTAAAATTTATTT
Found at i:1584827 original size:29 final size:29
Alignment explanation
Indices: 1584795--1585025 Score: 137
Period size: 29 Copynumber: 7.6 Consensus size: 29
1584785 TTAGATAATG
*
1584795 ATAAAATATATTTTTAATTTAAAATAAAA
1 ATAAAATATATTTTTAAGTTAAAATAAAA
* *
1584824 ATAAAATATATCTTTAAGCGAAGATAAGAATAAAA
1 ATAAAATATAT-TTT----TAAGTTAA-AATAAAA
* **
1584859 TATTTAAATATATTTTTAAGTTAAAATATTTTA
1 -A-TAAAATATATTTTTAAGTTAAAATA--AAA
* ** *
1584892 A-AAAATATATTTTTAAGTGATGATAAAG
1 ATAAAATATATTTTTAAGTTAAAATAAAA
1584920 ATAAAATATATATTTTTACA-TTAAAATAAAA
1 AT-AAA-ATATATTTTTA-AGTTAAAATAAAA
* * * *
1584951 GT-AAATGTATTTAATAAGTTAAGA-AAAA
1 ATAAAATATATTT-TTAAGTTAAAATAAAA
* *
1584979 ATAAAATATATTTAATAAGTTAAAACAAAA
1 ATAAAATATATTT-TTAAGTTAAAATAAAA
* *
1585009 ATAAAAGATAATTTTAA
1 ATAAAATATATTTTTAA
1585026 AATTTAAGAT
Statistics
Matches: 155, Mismatches: 29, Indels: 36
0.70 0.13 0.16
Matches are distributed among these distances:
28 14 0.09
29 43 0.28
30 41 0.26
31 23 0.15
32 8 0.05
33 1 0.01
34 5 0.03
35 7 0.05
36 4 0.03
37 9 0.06
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (29 bp):
ATAAAATATATTTTTAAGTTAAAATAAAA
Found at i:1588152 original size:20 final size:19
Alignment explanation
Indices: 1588129--1588203 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 19
1588119 ATTTTAATAC
1588129 TTTTAAATTAAATTTATTTA
1 TTTTAAATTAAATTTA-TTA
* *
1588149 TTTTATATTTATTAATTAATTA
1 TTTTA-AATTA--AATTTATTA
* *
1588171 TTATATATATAAATTTA-TA
1 TTTTAAAT-TAAATTTATTA
1588190 TTTTAAATTAAATT
1 TTTTAAATTAAATT
1588204 AAGAATTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
18 6 0.14
19 8 0.19
20 10 0.23
21 5 0.12
22 9 0.21
23 5 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTAAATTAAATTTATTA
Found at i:1588569 original size:181 final size:179
Alignment explanation
Indices: 1588296--1588626 Score: 617
Period size: 181 Copynumber: 1.8 Consensus size: 179
1588286 TTCTTATGAT
1588296 TATAATTTGAATATTAAATTATTTTTAATGATTTCATATATATAGAATCATTAAAAAATAAATAT
1 TATAATTTGAATATTAAATTATTTTTAATGATTTCATATATATAGAATCATTAAAAAATAAATAT
1588361 GAAAGTATTTTTTGCCTAAATTTGAACAACTTATATAACATATGTATTATCTCAATAACAAACGT
66 GAAAGTATTTTTTGCCTAAATTTGAACAACTTATATAACATATGTATTATCTCAATAACAAACGT
*
1588426 GAGAATTAGCTCAGTGGTTAAGGTATGAGTAGGTTATAATTTTTTCTTA
131 GAGAATTAACTCAGTGGTTAAGGTATGAGTAGGTTATAATTTTTTCTTA
1588475 TATAATTTGAATATTAAATTATTTTTTAATGATTTCATATATATAGAATCATTAAAAAATAAAAT
1 TATAATTTGAATATTAAATTA-TTTTTAATGATTTCATATATATAGAATCATTAAAAAAT-AAAT
*
1588540 ATGAAAGTATTTTTTGCCTAAATTTGAACAAGTTATATAACATATGTATTATCTCAATAACAAAC
64 ATGAAAGTATTTTTTGCCTAAATTTGAACAACTTATATAACATATGTATTATCTCAATAACAAAC
*
1588605 GTGAGAATTAACTGAGTGGTTA
129 GTGAGAATTAACTCAGTGGTTA
1588627 CCCTTGGGTC
Statistics
Matches: 147, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
179 21 0.14
180 38 0.26
181 88 0.60
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (179 bp):
TATAATTTGAATATTAAATTATTTTTAATGATTTCATATATATAGAATCATTAAAAAATAAATAT
GAAAGTATTTTTTGCCTAAATTTGAACAACTTATATAACATATGTATTATCTCAATAACAAACGT
GAGAATTAACTCAGTGGTTAAGGTATGAGTAGGTTATAATTTTTTCTTA
Found at i:1589126 original size:7 final size:7
Alignment explanation
Indices: 1589114--1589142 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
1589104 CTCAAGGAAC
1589114 GCCAACA
1 GCCAACA
1589121 GCCAACA
1 GCCAACA
1589128 GCCAACA
1 GCCAACA
1589135 GCCAACA
1 GCCAACA
1589142 G
1 G
1589143 TAACAGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.41, G:0.17, T:0.00
Consensus pattern (7 bp):
GCCAACA
Found at i:1593026 original size:21 final size:21
Alignment explanation
Indices: 1593000--1593050 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
1592990 TTAGTGTCTG
1593000 AGAGCCACTTGTCAACTACCA
1 AGAGCCACTTGTCAACTACCA
1593021 AGAGCCACTTGTCAACTACCA
1 AGAGCCACTTGTCAACTACCA
*
1593042 AGATCCACT
1 AGAGCCACT
1593051 CCAGAGAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.33, G:0.14, T:0.20
Consensus pattern (21 bp):
AGAGCCACTTGTCAACTACCA
Found at i:1594070 original size:20 final size:21
Alignment explanation
Indices: 1594047--1594091 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
1594037 TTTTTCATTG
1594047 TTTTATATTTTTCTTTGC-TC
1 TTTTATATTTTTCTTTGCTTC
* *
1594067 TTTTGTTTTTTTCTTTGCTTC
1 TTTTATATTTTTCTTTGCTTC
1594088 TTTT
1 TTTT
1594092 CTCTTGGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.04, C:0.13, G:0.07, T:0.76
Consensus pattern (21 bp):
TTTTATATTTTTCTTTGCTTC
Found at i:1596909 original size:24 final size:23
Alignment explanation
Indices: 1596865--1596910 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1596855 CATTTTTTTT
* *
1596865 AAAAAATAATTAGAGTATTATTC
1 AAAAAACAATTAGACTATTATTC
*
1596888 AAAAAACAATTATGACTTTTATT
1 AAAAAACAATTA-GACTATTATT
1596911 TTGAAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (23 bp):
AAAAAACAATTAGACTATTATTC
Found at i:1597242 original size:42 final size:43
Alignment explanation
Indices: 1597179--1597373 Score: 123
Period size: 42 Copynumber: 4.5 Consensus size: 43
1597169 CGACCTGACC
* * *
1597179 TCCTCAACACGTAGGAGCTGTGTCACCCCT-GATAACCAGCCG
1 TCCTCATCACGTAGGAACTGTGTCACCCCTAGATAACCAGCCA
* ** *
1597221 TCCTCATCACGTAGGAACTGTGTTATCATCCCTAAAGATGGCCAGCTA
1 TCCTCATCACGTAGGAACTGTG---TCACCCCT--AGATAACCAGCCA
* * * * *
1597269 TTCTCATCGCGTAGGAACTGTGTCATCCCTCG---ACCAGATC-
1 TCCTCATCACGTAGGAACTGTGTCACCCCTAGATAACCAG-CCA
* * * *
1597309 TCCTCATCACGTAGGAGCCGTGTCACGCCT-TATAACCAGCCA
1 TCCTCATCACGTAGGAACTGTGTCACCCCTAGATAACCAGCCA
* * *
1597351 TCCTCATCGCATAGGAACCGTGT
1 TCCTCATCACGTAGGAACTGTGT
1597374 TATCACCCTT
Statistics
Matches: 118, Mismatches: 24, Indels: 22
0.72 0.15 0.13
Matches are distributed among these distances:
40 28 0.24
41 1 0.01
42 45 0.38
43 1 0.01
45 15 0.13
48 28 0.24
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (43 bp):
TCCTCATCACGTAGGAACTGTGTCACCCCTAGATAACCAGCCA
Found at i:1597805 original size:3 final size:3
Alignment explanation
Indices: 1597797--1597830 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
1597787 CTACCAAAAA
1597797 TAT TAT TA- TATT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
1597831 TATTTTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.86
4 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1599354 original size:30 final size:30
Alignment explanation
Indices: 1599320--1599568 Score: 135
Period size: 30 Copynumber: 8.4 Consensus size: 30
1599310 GATTCGGTCA
* *
1599320 CTTTAAATTTCTATTTGTGCTATTTTGGTC
1 CTTTAAATTTCTATTTTTGCTATTTTAGTC
* * *
1599350 CTTTAACTTTATATTTTTGCTA-TTTACTC
1 CTTTAAATTTCTATTTTTGCTATTTTAGTC
* * * *
1599379 CCTTAAGTTTCTGTTTTTGTTATTTTAGTC
1 CTTTAAATTTCTATTTTTGCTATTTTAGTC
* * * * *
1599409 CTTTAAATGTCTGTATTTGCCA-TTTAGAC
1 CTTTAAATTTCTATTTTTGCTATTTTAGTC
* * ** * *
1599438 CCTTAAGTTTCTATTTTTAATGTTTTAGCC
1 CTTTAAATTTCTATTTTTGCTATTTTAGTC
* * * * *
1599468 CTTTCAGTTTCTGTTTTTTCCAATTTT-GTC
1 CTTTAAATTTCT-ATTTTTGCTATTTTAGTC
* * * * *
1599498 TTTTAAATTCCTATTTGTACTATTTTGGTC
1 CTTTAAATTTCTATTTTTGCTATTTTAGTC
* * * * * *
1599528 CTTTGAGTTTATGTTTTTTCTATTTTGGTC
1 CTTTAAATTTCTATTTTTGCTATTTTAGTC
*
1599558 CTTTTAATTTC
1 CTTTAAATTTC
1599569 AAGTACTTAC
Statistics
Matches: 160, Mismatches: 55, Indels: 8
0.72 0.25 0.04
Matches are distributed among these distances:
29 51 0.32
30 100 0.62
31 9 0.06
ACGTcount: A:0.17, C:0.15, G:0.11, T:0.57
Consensus pattern (30 bp):
CTTTAAATTTCTATTTTTGCTATTTTAGTC
Found at i:1599395 original size:29 final size:29
Alignment explanation
Indices: 1599322--1599455 Score: 97
Period size: 29 Copynumber: 4.6 Consensus size: 29
1599312 TTCGGTCACT
* * * * *
1599322 TTAAATTTCTATTTGTGCTATTTTGGTCCT
1 TTAAGTTTCTGTTTTTGCTA-TTTAGTCCC
* * * *
1599352 TTAACTTTATATTTTTGCTATTTACTCCC
1 TTAAGTTTCTGTTTTTGCTATTTAGTCCC
* *
1599381 TTAAGTTTCTGTTTTTGTTATTTTAGTCCT
1 TTAAGTTTCTGTTTTTGCTA-TTTAGTCCC
* * * * *
1599411 TTAAATGTCTGTATTTGCCATTTAGACCC
1 TTAAGTTTCTGTTTTTGCTATTTAGTCCC
*
1599440 TTAAGTTTCTATTTTT
1 TTAAGTTTCTGTTTTT
1599456 AATGTTTTAG
Statistics
Matches: 80, Mismatches: 23, Indels: 3
0.75 0.22 0.03
Matches are distributed among these distances:
29 41 0.51
30 39 0.49
ACGTcount: A:0.19, C:0.15, G:0.10, T:0.56
Consensus pattern (29 bp):
TTAAGTTTCTGTTTTTGCTATTTAGTCCC
Found at i:1599455 original size:59 final size:59
Alignment explanation
Indices: 1599322--1599455 Score: 151
Period size: 59 Copynumber: 2.3 Consensus size: 59
1599312 TTCGGTCACT
* * * * * * * *
1599322 TTAAATTTCTATTTGTGCTATTTTGGTCCTTTAACTTTATATTTTTGCTATTTACTCCC
1 TTAAGTTTCTATTTTTGCTATTTTAGTCCTTTAAATGTATATATTTGCCATTTACACCC
* * * * *
1599381 TTAAGTTTCTGTTTTTGTTATTTTAGTCCTTTAAATGTCTGTATTTGCCATTTAGACCC
1 TTAAGTTTCTATTTTTGCTATTTTAGTCCTTTAAATGTATATATTTGCCATTTACACCC
1599440 TTAAGTTTCTATTTTT
1 TTAAGTTTCTATTTTT
1599456 AATGTTTTAG
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.19, C:0.15, G:0.10, T:0.56
Consensus pattern (59 bp):
TTAAGTTTCTATTTTTGCTATTTTAGTCCTTTAAATGTATATATTTGCCATTTACACCC
Found at i:1609870 original size:195 final size:195
Alignment explanation
Indices: 1609535--1609890 Score: 534
Period size: 195 Copynumber: 1.8 Consensus size: 195
1609525 TGGCTGCTGA
* * *
1609535 TCTTCGGTAACCTCTTCGATCTTGGCAATAAACCCCACAGGTCATTGGCTAAGCTCGCTCAGGTT
1 TCTTCGGCAACCTCTTCGATCTTGGCAATAAACCCCACAGGTCATTAGCTAAGCACGCTCAGGTT
* *
1609600 CAAGGCCCCATTATGGGTCTCCAACTCGGCATCTTATTCACCGTCGTCGTTTCATCGGAAACAAC
66 CAAGGCCCCATTATGGGTCTCCAACTCGGCATCTTATTCACCGTCGTCATTTCATCGAAAACAAC
* * * *
1609665 CGCGAAAGAAGTCTTGAAAGAACAAGACCTCATCTTCTGTAACCGTACAATCGTCAATATCGTCC
131 CACAAAAGAAGTCATAAAAGAACAAGACCTCATCTTCTGTAACCGTACAATCGTCAATATCGTCC
* * *
1609730 TCTTCGGCAACCTCTTCGATCTTGGCGATAAACCCCACATGTTATTAGCTAAGCACGCTCAGGTT
1 TCTTCGGCAACCTCTTCGATCTTGGCAATAAACCCCACAGGTCATTAGCTAAGCACGCTCAGGTT
* * * ** *
1609795 CACGGCGCCGTTATGGGTCTCCAACTCGGCATCTTATTCATTGAT-GTCATTTCATCGAAAATAA
66 CAAGGCCCCATTATGGGTCTCCAACTCGGCATCTTATTCACCG-TCGTCATTTCATCGAAAACAA
1609859 CCACAAAAGAAGTCATAAAAGAACAAGACCTC
130 CCACAAAAGAAGTCATAAAAGAACAAGACCTC
1609891 GTATTATGTA
Statistics
Matches: 142, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
195 141 0.99
196 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (195 bp):
TCTTCGGCAACCTCTTCGATCTTGGCAATAAACCCCACAGGTCATTAGCTAAGCACGCTCAGGTT
CAAGGCCCCATTATGGGTCTCCAACTCGGCATCTTATTCACCGTCGTCATTTCATCGAAAACAAC
CACAAAAGAAGTCATAAAAGAACAAGACCTCATCTTCTGTAACCGTACAATCGTCAATATCGTCC
Found at i:1614055 original size:2 final size:2
Alignment explanation
Indices: 1614050--1614078 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1614040 ACACACACAC
1614050 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1614079 AAAAATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1615012 original size:2 final size:2
Alignment explanation
Indices: 1615007--1615047 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1614997 TATATGTACA
1615007 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1615048 CACACACACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1620490 original size:60 final size:63
Alignment explanation
Indices: 1620403--1620521 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 63
1620393 GCTATAGCGT
** * * *
1620403 ATTGCTTTGCTGAGTTTTTCAATTATTAGAAA-TTATAAAATGGTC-CT-ACTA-TCATAGAGC
1 ATTGCTTTGCTGAGTCCTTCAACTATTA-AAAGTTACAAAATAGTCACTGACTATTCATAGAGC
* *
1620463 ATTGCTTTGTTGAGTCCTTCGACTATTAAAAGTTACAAAATAGTCACTGACTATTCATA
1 ATTGCTTTGCTGAGTCCTTCAACTATTAAAAGTTACAAAATAGTCACTGACTATTCATA
1620522 TGTTCTAAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
59 3 0.06
60 34 0.71
61 2 0.04
62 4 0.08
63 5 0.10
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (63 bp):
ATTGCTTTGCTGAGTCCTTCAACTATTAAAAGTTACAAAATAGTCACTGACTATTCATAGAGC
Found at i:1627670 original size:29 final size:28
Alignment explanation
Indices: 1627638--1627692 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
1627628 TAATAAATCA
* * *
1627638 AAAGGGAAAAAGTTAAAAAAAATAAAATT
1 AAAGAGAAAAAG-AAAAAAAAACAAAATT
1627667 AAAGAGAAAAAGAAAAAAAAACAAAA
1 AAAGAGAAAAAGAAAAAAAAACAAAA
1627693 AGTACAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.76, C:0.02, G:0.13, T:0.09
Consensus pattern (28 bp):
AAAGAGAAAAAGAAAAAAAAACAAAATT
Found at i:1627693 original size:29 final size:29
Alignment explanation
Indices: 1627638--1627693 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
1627628 TAATAAATCA
* * *
1627638 AAAGGGAAAAAGTTAAAAAAAATAAAATT
1 AAAGAGAAAAAGTAAAAAAAAAAAAAATT
1627667 AAAGAGAAAAAG-AAAAAAAAACAAAAA
1 AAAGAGAAAAAGTAAAAAAAAA-AAAAA
1627694 GTACAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.09
Consensus pattern (29 bp):
AAAGAGAAAAAGTAAAAAAAAAAAAAATT
Found at i:1628956 original size:13 final size:13
Alignment explanation
Indices: 1628923--1628980 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
1628913 AAAATAAATA
*
1628923 AATAAATAAATAAA
1 AATAAAT-AATAAT
*
1628937 AAGAAATAATAAT
1 AATAAATAATAAT
**
1628950 AATAAATACCAAT
1 AATAAATAATAAT
1628963 AATATAATAATATAT
1 AATA-AATAATA-AT
1628978 AAT
1 AAT
1628981 TTATACATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
13 19 0.54
14 11 0.31
15 5 0.14
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (13 bp):
AATAAATAATAAT
Found at i:1629232 original size:38 final size:38
Alignment explanation
Indices: 1629009--1629246 Score: 140
Period size: 38 Copynumber: 6.3 Consensus size: 38
1628999 TTTTTTAACT
*
1629009 TTATAT-TATTTTTCTAAAAAT-TTTCCAAAAACTATATA
1 TTATATATATTTTTC-AAAAATGTTT-AAAAAACTATATA
* * *
1629047 -T-TATATAGTTTCCAAAAATGATTAAAAAA--A-ATA
1 TTATATATATTTTTCAAAAATGTTTAAAAAACTATATA
* * * * *
1629080 TTATAT-GAGTTTTCAAAAATATTTTTAATTATA-TATATA
1 TTATATATATTTTTC-AAAA-ATGTTTAA-AAAACTATATA
* * *
1629119 TTATATA-ATTTTTCAAAAAATTCTTTTTATTTAAAACCATATA
1 TTATATATATTTTTC-AAAAA---TGTTTA--AAAAACTATATA
*
1629162 TTATATA-ATTTTTCAAAAATGTTTTAAAAACTATATA
1 TTATATATATTTTTCAAAAATGTTTAAAAAACTATATA
* *
1629199 TTATATATTTATTTTC-AAAGTGTTTAAAAAACTATATA
1 TTATATATAT-TTTTCAAAAATGTTTAAAAAACTATATA
*
1629237 ATATATATAT
1 TTATATATAT
1629247 ATATATATAT
Statistics
Matches: 158, Mismatches: 24, Indels: 36
0.72 0.11 0.17
Matches are distributed among these distances:
33 3 0.02
34 8 0.05
35 7 0.04
36 20 0.13
37 28 0.18
38 31 0.20
39 29 0.18
41 6 0.04
42 7 0.04
43 19 0.12
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (38 bp):
TTATATATATTTTTCAAAAATGTTTAAAAAACTATATA
Found at i:1629236 original size:2 final size:2
Alignment explanation
Indices: 1629231--1629266 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1629221 TTTAAAAAAC
1629231 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1629267 TTCCAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1630254 original size:164 final size:164
Alignment explanation
Indices: 1630027--1631506 Score: 915
Period size: 164 Copynumber: 9.0 Consensus size: 164
1630017 TCAAAGGTTT
* * * *
1630027 TTTGGCAGAAAACCCTTCTAGCCTTGAGCTATACCGTAAATGATATGCCGTTGAGTTGAGTGTAA
1 TTTGGCAGATAGCCCTTCTAGCCTTGAGCTATACCGTAAATGATGTGCCGTTGAGCTGAGTGTAA
* * * *
1630092 TCAGACTCAAAGGTCTTTGTTGGCAGATAACTCTTATAGCCTTAAGTTATGATGCAAATGATGTG
66 TCAGACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
*
1630157 CCCTCAAAGTTGAGTGTAATCGAACT-GTAGGGTC
131 CCCTCAAAGCTGAGTGTAATCGAACTCG-AGGGTC
* * * ** *
1630191 TTTCGCAGATAGCCCTTCTAGTCTTGAGCTATACCGCATGTGATGTGTCGTTGAGCTGAGTGTAA
1 TTTGGCAGATAGCCCTTCTAGCCTTGAGCTATACCGTAAATGATGTGCCGTTGAGCTGAGTGTAA
*
1630256 TCAAACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
66 TCAGACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
*
1630321 CCCTCAAAGCTGAGTATAATCGAACTCGAGGGTC
131 CCCTCAAAGCTGAGTGTAATCGAACTCGAGGGTC
*
1630355 TTTGGCAGATAGTCCTTCTAGCCTTGAGCTATACCGTAAATGATGTGCCGTTGAGCTGAGTGTAA
1 TTTGGCAGATAGCCCTTCTAGCCTTGAGCTATACCGTAAATGATGTGCCGTTGAGCTGAGTGTAA
* * * *
1630420 TC-GAACTCAAAAGTCTTTGTTGGCAGATAACCCTTCTAACTTTGAGTTATGCTGTAAATGATGT
66 TCAG-ACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
*
1630484 GCCCTCAAAGCTGAGTGCAATCGAACTCGAGGGTC
130 GCCCTCAAAGCTGAGTGTAATCGAACTCGAGGGTC
* * * ** * * * *
1630519 TTTGGCAGATAGTCCTTCTCA-ACTTAAGCTATATTGCAAATGATGTGCCTTTAAGCTGAGCGTA
1 TTTGGCAGATAGCCCTTCT-AGCCTTGAGCTATACCGTAAATGATGTGCCGTTGAGCTGAGTGTA
* ** * * * *
1630583 GTC-GAACTCGCAGGTC--T-TTGGCAGATAGCCCTTCTAGCCTTGAGCTATACCGCAAATGATG
65 ATCAG-ACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATG
* ** * **
1630644 TGCCGT-TGAGCTGAGTGTAATCGAACTCAAAAGTC
129 TGCCCTCAAAGCTGAGTGTAATCGAACTCGAGGGTC
* * * * * * * * **
1630679 TTTGTTGGCAGATAACCCTTCTAACTTTGAGTTATGCTGCAAATGATGTGCCCTCAAAGCTGAGT
1 --T-TTGGCAGATAGCCCTTCTAGCCTTGAGCTATACCGTAAATGATGTGCCGT-TGAGCTGAGT
* * * ** * * * **
1630744 GCAATC-GAACTCGAGGGTC--T-TTGGCAGATAGTCCTTCTCA-ACTTAAGCTATATTGCAAAT
62 GTAATCAG-ACTCAAAGGTCTTTGTTGGCAGATAACCCTTCT-AGCCTTGAGTTATGCTGCAAAT
** * * *
1630804 GATGTG-CCTTTAAGCTGAGCGTAGTCGAACTCGCA-GGTA
125 GATGTGCCCTCAAAGCTGAGTGTAATCGAACTCG-AGGGTC
* * * * * * * * *
1630843 TTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTTAAGCTGAGCGTAG
1 TTTGGCAGATAGCCCTTCTAGCCTTGAGCTATACCGTAAATGATGTGCCGTTGAGCTGAGTGTAA
* * * *
1630908 TC-GAACTCGAAGGTCTTT-TAGTGACATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
66 TCAG-ACTCAAAGGTCTTTGT--TGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
* *** * * * *
1630971 ATG-CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTC
128 GTGCCCTCAAAGCTGAGTGTAATCGAACTCGAGGGTC
* * * *** *** *
1631007 TTTTGGTCACAGATAACCCTTATAGCCTT-AGGTTATGTTGTAAATGATGTGCCCACGAAACTGA
1 -TTTGG---CAGATAGCCCTTCTAGCCTTGA-GCTATACCGTAAATGATGTGCCGTTG-AGCTGA
* * * * * * * * * *
1631071 GTGTAATC-GAACTCGAGGGTC--T-TTGGCAGGTAGCCCTTTTCGACTTAAGCTATGTTGCAAA
60 GTGTAATCAG-ACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAA
*** * * *
1631132 TGATGTG-CCTTGGAGTTGAGTGTAGTCGAACTCGAAGGTC
124 TGATGTGCCCTCAAAGCTGAGTGTAATCGAACTCGAGGGTC
* * * * * * * * * * *
1631172 TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCCTCGAAGCTGAG
1 --T--TTGGCAGATAGCCCTTCTAGCCTTGAGCTATACCGTAAATGATGTGCCGTTG-AGCTGAG
* ** * * * * *
1631237 TGTAAT-TGAACT-TGAGG-CTTT-TTGGCAGATATCCCTTCTCGACTTAAGCTATGCTGCAAAT
61 TGTAATCAG-ACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAAT
* * *** * * * * * *
1631298 GAAGT-ACCTTGGAGATAAGCGTAGTCGAACTCGAAGGTAT
125 GATGTGCCCTCAAAGCTGAGTGTAATCGAACTCGAGGGT-C
* * * * * ** *
1631338 TTTGGTGAAAAATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTTGAAGCTGAGT
1 TTT-G-G-CAGATAGCCCTTCTAGCCTTGAGCTATACCGTAAATGATGTGCCGTTG-AGCTGAGT
* * * * * *
1631403 GTAATC-GAACTCGAGGGTC--T-TTGGAAGATAGCCCTTCTCGACTT-AGGTTATGCTGCAAAT
62 GTAATCAG-ACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGA-GTTATGCTGCAAAT
*** * *
1631463 GATGTG-CCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTC
125 GATGTGCCCTCAAAGCTGAGTGTAATCGAACTCGAGGGTC
1631502 TTTGG
1 TTTGG
1631507 TTGGTAGATA
Statistics
Matches: 1092, Mismatches: 184, Indels: 82
0.80 0.14 0.06
Matches are distributed among these distances:
160 47 0.04
161 83 0.08
162 9 0.01
163 46 0.04
164 511 0.47
165 326 0.30
166 5 0.00
167 4 0.00
168 38 0.03
169 23 0.02
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (164 bp):
TTTGGCAGATAGCCCTTCTAGCCTTGAGCTATACCGTAAATGATGTGCCGTTGAGCTGAGTGTAA
TCAGACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
CCCTCAAAGCTGAGTGTAATCGAACTCGAGGGTC
Found at i:1630610 original size:244 final size:243
Alignment explanation
Indices: 1630308--1631506 Score: 1250
Period size: 244 Copynumber: 4.9 Consensus size: 243
1630298 TGAGTTATGC
** ** * *
1630308 TGCAAATGATGTGCCCTCAAAGCTGAGTATAATCGAACTCGAGGGTCTTTGGCAGATAGTCCTTC
1 TGCAAATGATGTG-CCTTGAAGCTGAGCGTAGTCGAACTCGA-GGTCTTTGGCAGATAGCCCTTC
* * * *
1630373 TAGCCTTGAGCTATACCGTAAATGATGTGCCGTTGAGCTGAGTGTAATCGAACTCAAAAGTCTTT
64 TAGCCTTGAGCTATACTGCAAATGATGTGCCGTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTT
* * *
1630438 GTTGGCAGATAACCCTTCTAACTTTGAGTTATGCTGTAAATGATGTGCCCTCAAAGCTGAGTGCA
129 GTTGGCAGATAACCCTTCTAACTTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTA
1630503 ATCGAACTCGAGGGTCTTTGGCAGATAGTCCTTCTCAACTTAAGCTATAT
194 ATCGAACTCGAGGGTCTTTGGCAGATAGTCCTTCTCAACTTAAGCTATAT
*
1630553 TGCAAATGATGTGCCTTTAAGCTGAGCGTAGTCGAACTCGCAGGTCTTTGGCAGATAGCCCTTCT
1 TGCAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTCG-AGGTCTTTGGCAGATAGCCCTTCT
* * *
1630618 AGCCTTGAGCTATACCGCAAATGATGTGCCGTTGAGCTGAGTGTAATCGAACTCAAAAGTCTTTG
65 AGCCTTGAGCTATACTGCAAATGATGTGCCGTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG
* *
1630683 TTGGCAGATAACCCTTCTAACTTTGAGTTATGCTGCAAATGATGTGCCCTCAAAGCTGAGTGCAA
130 TTGGCAGATAACCCTTCTAACTTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
1630748 TCGAACTCGAGGGTCTTTGGCAGATAGTCCTTCTCAACTTAAGCTATAT
195 TCGAACTCGAGGGTCTTTGGCAGATAGTCCTTCTCAACTTAAGCTATAT
* *
1630797 TGCAAATGATGTGCCTTTAAGCTGAGCGTAGTCGAACTCGCAGGTATTTGGCAGATAGCCCTTCT
1 TGCAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTCG-AGGTCTTTGGCAGATAGCCCTTCT
* * * * * * *
1630862 CGACTTAAGCTATACTGCAAATGATGTGCCTTTAAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-
65 AGCCTTGAGCTATACTGCAAATGATGTGCCGTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG
* * * * * * * * *
1630926 TAGTGACATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG-CCTTGGAGCTGAGCGT
130 T--TGGCAGATAACCCTTCTAACTTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGT
* * * ** * * * * *
1630990 AGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTAT-AGCCTTAGGTTATGT
193 AATCGAACTCGAGGGTC-TTTGG---CAGATAGTCCTTCTCA-ACTTAAGCTATAT
* ** * * * * *
1631045 TGTAAATGATGTGCCCACGAAACTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGGTAGCCCTTT
1 TGCAAATGATGTG-CCTTGAAGCTGAGCGTAGTCGAACTCGA-GGTCTTTGGCAGATAGCCCTTC
* * * ** * *
1631110 TCGACTTAAGCTATGTTGCAAATGATGTGCC-TTGGAGTTGAGTGTAGTCGAACTCGAAGGTCTT
64 TAGCCTTGAGCTATACTGCAAATGATGTGCCGTT-GAGCTGAGTGTAATCGAACTCGAAGGTCTT
* * *
1631174 TGGTTGGCAGATAACCCTTCTCGAC-TTAAGTTATGCTGCAAATGATATGCCCTCGAAGCTGAGT
128 T-GTTGGCAGATAACCCTTCT-AACTTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGT
* * * * * **
1631238 GTAATTGAACTTGAGGCTTTTTGGCAGATA-TCCCTTCTCGACTTAAGCTATGC
191 GTAATCGAACTCGAGGGTCTTTGGCAGATAGT-CCTTCTCAACTTAAGCTATAT
* * * * * * * * *
1631291 TGCAAATGAAGTACCTTGGAGATAAGCGTAGTCGAACTCGAAGGTATTTTGGTGAAAAATAACCC
1 TGCAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTCG-AGGT-CTTT-G-G-CAGATAGCCC
* * ** * *
1631356 TTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTTGAAGCTGAGTGTAATCGAACTCGAGGGT
61 TTCTAGCCTTGAGCTATACTGCAAATGATGTGCCGTTG-AGCTGAGTGTAATCGAACTCGAAGGT
* * * * * *
1631421 C--T-TTGGAAGATAGCCCTTCTCGACTTAG-GTTATGCTGCAAATGATGTG-CCTTGGAGCTGA
125 CTTTGTTGGCAGATAACCCTTCT-AACTTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGA
* *
1631481 GTGTAGTCGAACTCGAAGGTCTTTGG
189 GTGTAATCGAACTCGAGGGTCTTTGG
1631507 TTGGTAGATA
Statistics
Matches: 811, Mismatches: 118, Indels: 50
0.83 0.12 0.05
Matches are distributed among these distances:
243 1 0.00
244 364 0.45
245 110 0.14
246 73 0.09
247 3 0.00
248 37 0.05
249 172 0.21
250 50 0.06
251 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (243 bp):
TGCAAATGATGTGCCTTGAAGCTGAGCGTAGTCGAACTCGAGGTCTTTGGCAGATAGCCCTTCTA
GCCTTGAGCTATACTGCAAATGATGTGCCGTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGT
TGGCAGATAACCCTTCTAACTTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAAT
CGAACTCGAGGGTCTTTGGCAGATAGTCCTTCTCAACTTAAGCTATAT
Found at i:1631159 original size:165 final size:165
Alignment explanation
Indices: 1630244--1631547 Score: 1058
Period size: 165 Copynumber: 7.9 Consensus size: 165
1630234 TGTGTCGTTG
* * * * * * * *
1630244 AGCTGAGTGTAATCAAACTCAAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCT
1 AGCTGAGTGTAATCGAACTCGAGGGTC--T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCT
*** ** * * **
1630309 GCAAATGATGTGCCCTCAAAGCTGAGTATAATCGAACTCGAGGGTC-TTT-G-G-CAGATAGTCC
63 GCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCC
* * * * * * *
1630370 TTCTAGCCTT-GAGCTATACCGTAAATGATGTGCCGTTG-
127 TTCTAGACTTAG-GTTATGCTGCAAATGATGTGCCCTCGA
* ** * * * *
1630408 AGCTGAGTGTAATCGAACTCAAAAGTCTTTGTTGGCAGATAACCCTTCT-AACTTTGAGTTATGC
1 AGCTGAGTGTAATCGAACTCGAGGGTC--T-TTGGCAGATAGCCCTTCTCGAC-TTAAGCTATGC
* *** * * * * **
1630472 TGTAAATGATGTGCCCTCAAAGCTGAGTGCAATCGAACTCGAGGGTC-TTT-G-G-CAGATAGTC
62 TGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACC
* * ** **
1630533 CTTCTCA-ACTTAAGCTATATTGCAAATGATGTG-CCTTTA
126 CTTCT-AGACTTAGGTTATGCTGCAAATGATGTGCCCTCGA
* * * * * * *
1630572 AGCTGAGCGTAGTCGAACTCGCA-GGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGCTATACCGC
1 AGCTGAGTGTAATCGAACTCG-AGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGC
* * * * * *
1630636 AAATGATGTGCCGTT-GAGCTGAGTGTAATCGAACTCAAAAGTC-TTTGTTGGCAGATAACCCTT
65 AAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTT
* *
1630699 CTA-ACTTTGAGTTATGCTGCAAATGATGTGCCCTCAA
129 CTAGACTTAG-GTTATGCTGCAAATGATGTGCCCTCGA
* * * **
1630736 AGCTGAGTGCAATCGAACTCGAGGGTCTTTGGCAGATAGTCCTTCTCAACTTAAGCTATATTGCA
1 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCA
** * * *
1630801 AATGATGTGCCTTTAAGCTGAGCGTAGTCGAACTCGCAGGT-ATTT-G-G-CAGATAGCCCTTCT
66 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCT
* * * * **
1630862 CGACTTAAGCTATACTGCAAATGATGTG-CCTTTA
131 AGACTTAGGTTATGCTGCAAATGATGTGCCCTCGA
* * * * * * * * *
1630896 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTTAGTGACATATAACCCTTCTAGCCTTGAGTTATGC
1 AGCTGAGTGTAATCGAACTCGAGGGTC-TTT-G-G-CAGATAGCCCTTCTCGACTTAAGCTATGC
* * * *
1630961 TGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCC
62 TGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCC
* * * * *
1631026 TTATAGCCTTAGGTTATGTTGTAAATGATGTGCCCACGA
127 TTCTAGACTTAGGTTATGCTGCAAATGATGTGCCCTCGA
* * * *
1631065 AACTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGGTAGCCCTTTTCGACTTAAGCTATGTTGCA
1 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCA
* * *
1631130 AATGATGTGCCTTGGAGTTGAGTGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTC
66 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TGACAGATAACCCTTC
* * *
1631194 TCGACTTAAGTTATGCTGCAAATGATATGCCCTCGA
130 TAGACTTAGGTTATGCTGCAAATGATGTGCCCTCGA
* * * * *
1631230 AGCTGAGTGTAATTGAACTTGAGGCTTTTTGGCAGATATCCCTTCTCGACTTAAGCTATGCTGCA
1 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCA
* * * * * * *
1631295 AATGAAGTACCTTGGAGATAAGCGTAGTCGAACTCGAAGGTATTTTGGTGAAAAATAACCCTTCT
66 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCT
* ** *
1631360 AGCCTT-GAGTTATGCTATAAATGATGTGCCCTTGA
131 AGACTTAG-GTTATGCTGCAAATGATGTGCCCTCGA
* * *
1631395 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGAAGATAGCCCTTCTCGACTTAGGTTATGCTGCA
1 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCA
* **
1631460 AATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTC-TTTGGTTGGTAGATAACCCTTC
66 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TGACAGATAACCCTTC
* *
1631524 TCA-ACTTAAGTTATGCTGAAAATG
130 T-AGACTTAGGTTATGCTGCAAATG
1631548 TTATCTTTAA
Statistics
Matches: 935, Mismatches: 174, Indels: 61
0.80 0.15 0.05
Matches are distributed among these distances:
160 55 0.06
161 72 0.08
162 14 0.01
163 37 0.04
164 322 0.34
165 364 0.39
166 8 0.01
167 1 0.00
168 36 0.04
169 26 0.03
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (165 bp):
AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCA
AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCT
AGACTTAGGTTATGCTGCAAATGATGTGCCCTCGA
Found at i:1631390 original size:330 final size:332
Alignment explanation
Indices: 1629942--1631547 Score: 1186
Period size: 328 Copynumber: 4.9 Consensus size: 332
1629932 AACTCGAATA
* * * * * * * *
1629942 TTTTATTGACAGATAGCCCTTCTTGCCTTGAGCTATACTGTAAATGATATACCTTGGAGCTGAGC
1 TTTTA-TGACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATACCTTGGAGATAAGC
* * * * *
1630007 GTAGT-GAAACTCAAAGGTTTTTTGG-C-AGAA-AACCCTTCTAGCCTTGAGCTATACCGTAAAT
65 GTAGTCG-AACTCAAAGGTATTTTGGTCAAAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAAT
* * * ** * * * * * *
1630068 GATATGCCGTTG-AGTTGAGTGTAATC-AGACTCAAAGGTCTTTGTTGGCAGATAACTCTTATAG
129 GATGTGCCCTCGAAACTGAGTGTAATCGA-ACTCGAGGGTC--T-TTGGCAGATAGCCCTTCTCG
* * * *** * * *
1630131 CCTTAAGTTATGATGCAAATGATGTGCCCTCAAAGTTGAGTGTAATCGAACT-GTAGGGTC--T-
190 ACTTAAGCTATGTTGCAAATGATGTG-CCTTGGAGCTGAGTGTAGTCGAACTCG-AAGGTCTTTG
* * * * * * * * ** * * * *
1630192 -TTCGCAGATAGCCCTTCTAGTCTTGAGCTATACCGCATGTGATGTGTCGTTG-AGCTGAGTGTA
253 GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTCGAAGCTGAGCGTA
* *
1630255 ATCAAACTCAAAGGTC
317 ATCGAACTCGAAGGTC
* * * * * * *** * *
1630271 TTTGT-TGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCAAAGCTGAG
1 TTT-TATGACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATAT-ACCTTGGAGATAAG
** * * * * * ** * * *
1630335 TATAATCGAACTCGAGGGT-CTTTGG-C--AGATAGTCCTTCTAGCCTTGAGCTATACCGTAAAT
64 CGTAGTCGAACTCAAAGGTATTTTGGTCAAAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAAT
* * * * ** * *
1630396 GATGTGCCGTTG-AGCTGAGTGTAATCGAACTCAAAAGTCTTTGTTGGCAGATAACCCTTCT-AA
129 GATGTGCCCTCGAAACTGAGTGTAATCGAACTCGAGGGTC--T-TTGGCAGATAGCCCTTCTCGA
* * * * *** * * *
1630459 CTTTGAGTTATGCTGTAAATGATGTGCCCTCAAAGCTGAGTGCAATCGAACTCGAGGGTC--T--
191 C-TTAAGCTATGTTGCAAATGATGTG-CCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGG
** * * ** * ** *
1630520 TTGGCAGATAGTCCTTCTCAACTTAAGCTATATTGCAAATGATGTGCCTTTAAGCTGAGCGTAGT
254 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTCGAAGCTGAGCGTAAT
*
1630585 CGAACTCGCAGGTC
319 CGAACTCGAAGGTC
* * * * * * * * * * *
1630599 --TT-TGGCAGATAGCCCTTCTAGCCTTGAGCTATACCGCAAATGATGTGCCGTT-GAGCTGAGT
1 TTTTATGACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATACC-TTGGAGATAAGC
* * * * * * *
1630660 GTAATCGAACTCAAAAGTCTTTGTTGG-C--AGATAACCCTTCTAACTTTGAGTTATGCTGCAAA
65 GTAGTCGAACTCAAAGGT-ATT-TTGGTCAAAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
* * *
1630722 TGATGTGCCCTC-AAAGCTGAGTGCAATCGAACTCGAGGGTCTTTGGCAGATAGTCCTTCTCAAC
128 TGATGTGCCCTCGAAA-CTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGAC
* ** * * *
1630786 TTAAGCTATATTGCAAATGATGTGCCTTTAAGCTGAGCGTAGTCGAACTCGCAGG--TAT--TTG
192 TTAAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGTTG
* * * * ** *
1630847 GCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTTAAGCTGAGCGTAGTCGA
257 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTCGAAGCTGAGCGTAATCGA
1630912 ACTCGAAGGTC
322 ACTCGAAGGTC
* * * * * * * *
1630923 TTTTAGTGACATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGC
1 TTTTA-TGACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATACCTTGGAGATAAGC
* * * * *
1630988 GTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTATAGCCTT-AGGTTATGTTGTAAAT
65 GTAGTCGAACTCAAAGGTATTTTGGTCAAAAATAACCCTTCTAGCCTTGA-GTTATGCTGTAAAT
* * *
1631052 GATGTGCCCACGAAACTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGGTAGCCCTTTTCGACTT
129 GATGTGCCCTCGAAACTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTT
*
1631117 AAGCTATGTTGCAAATGATGTGCCTTGGAGTTGAGTGTAGTCGAACTCGAAGGTCTTTGGTTGGC
194 AAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGTTGGC
* *
1631182 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCCTCGAAGCTGAGTGTAATTGAA
259 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTCGAAGCTGAGCGTAATCGAA
*
1631247 CTTG-AGG-C
323 CTCGAAGGTC
* * *
1631255 TTTT-TGGCAGATATCCCTTCTCGACTTAAGCTATGCTGCAAATGA-AGTACCTTGGAGATAAGC
1 TTTTATGACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATA-TACCTTGGAGATAAGC
* * *
1631318 GTAGTCGAACTCGAAGGTATTTTGGTGAAAAATAACCCTTCTAGCCTTGAGTTATGCTATAAATG
65 GTAGTCGAACTCAAAGGTATTTTGGTCAAAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
* * *
1631383 ATGTGCCCTTGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGAAGATAGCCCTTCTCGACTTA
130 ATGTGCCCTCGAAACTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTA
* * * *
1631448 GGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGTTGGTA
195 AGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGTTGGCA
* *
1631513 GATAACCCTTCTCAACTTAAGTTATGCTGAAAATG
260 GATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
1631548 TTATCTTTAA
Statistics
Matches: 1076, Mismatches: 167, Indels: 67
0.82 0.13 0.05
Matches are distributed among these distances:
324 124 0.12
325 77 0.07
326 12 0.01
327 52 0.05
328 321 0.30
329 158 0.15
330 258 0.24
331 3 0.00
332 5 0.00
333 45 0.04
334 21 0.02
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (332 bp):
TTTTATGACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATACCTTGGAGATAAGCG
TAGTCGAACTCAAAGGTATTTTGGTCAAAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGA
TGTGCCCTCGAAACTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAA
GCTATGTTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGTTGGCAG
ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTCGAAGCTGAGCGTAATCGAACTC
GAAGGTC
Found at i:1632745 original size:83 final size:87
Alignment explanation
Indices: 1632648--1632874 Score: 246
Period size: 95 Copynumber: 2.6 Consensus size: 87
1632638 GGCTAGCTGA
*
1632648 ATCCATAAAGCCGGGGCGTTTAACCAATTTCTTTAGAGGGACATCTCAA-TAT-GT-AAA-CACC
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGACATCTCAATTATAGTAAAATCACC
* *
1632709 TTTATCAGGTTAGCTGAATCTT
66 TTTATCAGGCTAGCTGAATATT
* * *
1632731 ATCCATAAAGCCGGGGTGTTTAACTAATTGCCTTAGAGGGACATCTCAAGCTTTATTGTATAGTA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGACATCTC-A-----A-T-TATAGTA
*
1632796 AAATTACCTTTATCAGGCTAGCTGAATATT
58 AAATCACCTTTATCAGGCTAGCTGAATATT
* * * * *
1632826 AACGATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGACAACTCAA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGACATCTCAA
1632875 GCTTTATTGT
Statistics
Matches: 117, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
83 43 0.37
84 1 0.01
89 2 0.02
92 3 0.03
93 2 0.02
94 4 0.03
95 62 0.53
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (87 bp):
ATCCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGACATCTCAATTATAGTAAAATCACC
TTTATCAGGCTAGCTGAATATT
Found at i:1632874 original size:95 final size:95
Alignment explanation
Indices: 1632706--1632887 Score: 276
Period size: 95 Copynumber: 1.9 Consensus size: 95
1632696 ATATGTAAAC
* * * ** *
1632706 ACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGCCGGGGTGTTTAACTAATTGCCTTAGAGGG
1 ACCTTTATCAGGCTAGCTGAATATTAACCATAAAGCCGGGGCATTTAACCAATTGCCTTAGAGGG
*
1632771 ACATCTCAAGCTTTATTGTATAGTAAAATT
66 ACAACTCAAGCTTTATTGTATAGTAAAATT
*
1632801 ACCTTTATCAGGCTAGCTGAATATTAACGATAAAGCCGGGGCATTTAACCAATTG-CTCTAGAGG
1 ACCTTTATCAGGCTAGCTGAATATTAACCATAAAGCCGGGGCATTTAACCAATTGCCT-TAGAGG
1632865 GACAACTCAAGCTTTATTGTATA
65 GACAACTCAAGCTTTATTGTATA
1632888 TATATAATAT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
94 2 0.03
95 76 0.97
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (95 bp):
ACCTTTATCAGGCTAGCTGAATATTAACCATAAAGCCGGGGCATTTAACCAATTGCCTTAGAGGG
ACAACTCAAGCTTTATTGTATAGTAAAATT
Found at i:1636720 original size:16 final size:15
Alignment explanation
Indices: 1636695--1636724 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1636685 TGGTGAGGCC
1636695 GGTCGTCCCGGGATG
1 GGTCGTCCCGGGATG
1636710 GGTCAGTCCCGGGAT
1 GGTC-GTCCCGGGAT
1636725 TATCGACCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.10, C:0.27, G:0.43, T:0.20
Consensus pattern (15 bp):
GGTCGTCCCGGGATG
Found at i:1637081 original size:33 final size:32
Alignment explanation
Indices: 1637029--1637107 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 32
1637019 CAAAAACTAT
1637029 ATATTATATAGTTTCCAAAAATGATTTAAAAA
1 ATATTATATAGTTTCCAAAAATGATTTAAAAA
* *
1637061 ATATTATATGAGTTTTCAAAAATGTTTTTAAAACTA
1 ATATTATAT-AGTTTCCAAAAATG-ATTTAAAA--A
1637097 TATATTATATA
1 -ATATTATATA
1637108 TTTATTTTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
32 9 0.22
33 13 0.32
34 7 0.17
36 2 0.05
37 9 0.22
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (32 bp):
ATATTATATAGTTTCCAAAAATGATTTAAAAA
Found at i:1637149 original size:35 final size:36
Alignment explanation
Indices: 1636995--1637231 Score: 147
Period size: 38 Copynumber: 6.5 Consensus size: 36
1636985 TTTTTAACTT
* * *
1636995 TATAT-TATTTTTCTAAAAAT-TTTCCAAAAACTATA
1 TATATATATATTTCCAAAAATGTTT-TAAAAACTATA
*
1637030 TAT-TATATAGTTTCCAAAAATGATTTAAAAA--ATA
1 TATATATATA-TTTCCAAAAATGTTTTAAAAACTATA
*
1637064 T-TATATGAGT-TTT-CAAAAATGTTTTTAAAACTATA
1 TATATAT-A-TATTTCCAAAAATGTTTTAAAAACTATA
* *
1637099 TATTATATATTTATTTTC-AAAGTGTTTTAAAAACTATA
1 TA-TATATA--TATTTCCAAAAATGTTTTAAAAACTATA
*
1637137 TATATATATATTTCCAAAAATCGTTTTCAAAACTGCATA
1 TATATATATATTTCCAAAAAT-GTTTTAAAAACT--ATA
* * *
1637176 -ATATATACATCTTCGAAAACCAT-TTTCTGAAAACTATA
1 TATATATATAT-TTCCAAAA--ATGTTT-TAAAAACTATA
* *
1637214 TAT-TATATCTTTTCAAAA
1 TATATATATATTTCCAAAA
1637232 GCATTTTCAA
Statistics
Matches: 161, Mismatches: 19, Indels: 42
0.73 0.09 0.19
Matches are distributed among these distances:
33 16 0.10
34 11 0.07
35 17 0.11
36 21 0.13
37 31 0.19
38 40 0.25
39 16 0.10
40 7 0.04
41 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.43
Consensus pattern (36 bp):
TATATATATATTTCCAAAAATGTTTTAAAAACTATA
Found at i:1637257 original size:2 final size:2
Alignment explanation
Indices: 1637252--1637307 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
1637242 AAAATTACAC
1637252 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1637294 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
1637308 ATAAATAAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1639266 original size:6 final size:6
Alignment explanation
Indices: 1639250--1639322 Score: 56
Period size: 6 Copynumber: 11.5 Consensus size: 6
1639240 GAACAAAAAG
* * * *
1639250 AAATAAA AAATAA AAATAA GTAATAA AAATAA TAAATAA TAATAA TACTAA
1 AAAT-AA AAATAA AAATAA -AAATAA AAATAA -AAATAA AAATAA AAATAA
* *
1639301 TAATAA TAAATAA ATATAA AAA
1 AAATAA -AAATAA AAATAA AAA
1639323 GTATTTTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
6 35 0.64
7 20 0.36
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.25
Consensus pattern (6 bp):
AAATAA
Found at i:1639268 original size:13 final size:13
Alignment explanation
Indices: 1639250--1639322 Score: 58
Period size: 13 Copynumber: 5.7 Consensus size: 13
1639240 GAACAAAAAG
1639250 AAATAAAAAATAA
1 AAATAAAAAATAA
**
1639263 AAATAAGTAATAA
1 AAATAAAAAATAA
*
1639276 AAATAATAAATAA
1 AAATAAAAAATAA
* * *
1639289 TAAT-AATACTAA
1 AAATAAAAAATAA
* *
1639301 TAATAATAAATAA
1 AAATAAAAAATAA
*
1639314 ATATAAAAA
1 AAATAAAAA
1639323 GTATTTTAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
12 9 0.20
13 36 0.80
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.25
Consensus pattern (13 bp):
AAATAAAAAATAA
Found at i:1639279 original size:19 final size:18
Alignment explanation
Indices: 1639255--1639322 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 18
1639245 AAAAGAAATA
1639255 AAAAATAAAAATAAGTAAT
1 AAAAATAAAAATAA-TAAT
1639274 AAAAATAATAAATAATAAT
1 AAAAATAA-AAATAATAAT
* * *
1639293 AATACTAATAATAATAAAT
1 AAAAATAAAAATAAT-AAT
*
1639312 AAATATAAAAA
1 AAAAATAAAAA
1639323 GTATTTTAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
18 6 0.15
19 28 0.70
20 6 0.15
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (18 bp):
AAAAATAAAAATAATAAT
Found at i:1639290 original size:3 final size:3
Alignment explanation
Indices: 1639258--1639309 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
1639248 AGAAATAAAA
* * *
1639258 AAT AAA AAT AAGT AAT AAA AAT AAT AAAT AAT AAT AAT ACT AAT AAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
1639305 AAT AA
1 AAT AA
1639310 ATAAATATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
3 35 0.85
4 6 0.15
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:1639295 original size:22 final size:24
Alignment explanation
Indices: 1639254--1639313 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
1639244 AAAAAGAAAT
1639254 AAAA-AATAAA-AATAAGTAATA-
1 AAAATAATAAATAATAAGTAATAC
1639275 AAAATAATAAATAATAA-TAATAC
1 AAAATAATAAATAATAAGTAATAC
1639298 TAATAATAATAAATAA
1 -AA-AATAATAAATAA
1639314 ATATAAAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.12
22 11 0.32
23 5 0.15
24 2 0.06
25 12 0.35
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (24 bp):
AAAATAATAAATAATAAGTAATAC
Found at i:1639403 original size:42 final size:40
Alignment explanation
Indices: 1639359--1639467 Score: 155
Period size: 42 Copynumber: 2.6 Consensus size: 40
1639349 CTTTTTTTAA
* *
1639359 AAAAATGTTTTTTTAAAACTATATATTATATTAAATTTTC
1 AAAAACGTTTTTTTAAAACTATATATTACATTAAATTTTC
*
1639399 AAAAACGTTTTTTAAAAAAACTATATATTACATTAAATTTTC
1 AAAAACGTTTTTT--TAAAACTATATATTACATTAAATTTTC
1639441 AAAAACGTTTTTTTAAAAAACTATATA
1 AAAAACGTTTTTTT--AAAACTATATA
1639468 ATTTTTAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
40 12 0.20
42 49 0.80
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (40 bp):
AAAAACGTTTTTTTAAAACTATATATTACATTAAATTTTC
Found at i:1639487 original size:30 final size:30
Alignment explanation
Indices: 1639451--1639527 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 30
1639441 AAAAACGTTT
*
1639451 TTTTAAAAAACTATATAATTTTTAAAAATA
1 TTTTAAAAAACTATATAATTTTCAAAAATA
* *
1639481 TTTTAAAAAACTATACAATTTTCAAAAATG
1 TTTTAAAAAACTATATAATTTTCAAAAATA
* *
1639511 TTTTTAAAAATTATATA
1 TTTTAAAAAACTATATA
1639528 TTACATATAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (30 bp):
TTTTAAAAAACTATATAATTTTCAAAAATA
Found at i:1639597 original size:37 final size:37
Alignment explanation
Indices: 1639492--1639736 Score: 235
Period size: 37 Copynumber: 6.4 Consensus size: 37
1639482 TTTAAAAAAC
* *
1639492 TATACAATTTTCAAAAATGTTTTTAAAAATTATATATTACA
1 TATA-AATTTTC-AAAATGATTTTAAAAACTATATATT--A
**
1639533 TATAGGTTTTCAAAAATG-TTTTCAAAAACTATATATTA
1 TATAAATTTTC-AAAATGATTTT-AAAAACTATATATTA
*
1639571 TATAAATTTTCAAAATGATTTTAAAAACTACATATTA
1 TATAAATTTTCAAAATGATTTTAAAAACTATATATTA
* * * *
1639608 TATATATTTTCTAAAATGCTTTAAAAAACTAGATATTA
1 TATAAATTTTC-AAAATGATTTTAAAAACTATATATTA
*
1639646 TAT-AGTTTTCAAAA-GTATTTTAAAAACTATATATTA
1 TATAAATTTTCAAAATG-ATTTTAAAAACTATATATTA
** * * *
1639682 TATTCATTTCCAAAATGTTTTTAGAAACTATATATTA
1 TATAAATTTTCAAAATGATTTTAAAAACTATATATTA
*
1639719 TATACGTATTTTCAAAAT
1 TATA--AATTTTCAAAAT
1639737 CATTCGCAAA
Statistics
Matches: 173, Mismatches: 23, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
35 1 0.01
36 24 0.14
37 64 0.37
38 41 0.24
39 14 0.08
40 25 0.14
41 4 0.02
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (37 bp):
TATAAATTTTCAAAATGATTTTAAAAACTATATATTA
Found at i:1639696 original size:111 final size:114
Alignment explanation
Indices: 1639492--1639736 Score: 309
Period size: 111 Copynumber: 2.1 Consensus size: 114
1639482 TTTAAAAAAC
* * * * * *
1639492 TATACAATTTTCAAAAATGTTTTTAAAAATTATATATTACATATAGGTTTTCAAAAATGTTTTCA
1 TATACTATTTTC-AAAATGCTTTAAAAAACTAGATATTA-ATATAGGTTTTCAAAAATATTTTCA
*
1639557 AAAACTATATATTATATAAATTTTCAAAATGATTTTAAAAACTACATATTA
64 AAAACTATATATTATATAAATTTCCAAAATGATTTTAAAAACTACATATTA
*
1639608 TATA-TATTTTCTAAAATGCTTTAAAAAACTAGATATT-ATATA-GTTTTCAAAAGTATTTT-AA
1 TATACTATTTTC-AAAATGCTTTAAAAAACTAGATATTAATATAGGTTTTCAAAAATATTTTCAA
** * * *
1639669 AAACTATATATTATATTCATTTCCAAAATGTTTTTAGAAACTATATATTA
65 AAACTATATATTATATAAATTTCCAAAATGATTTTAAAAACTACATATTA
1639719 TATACGTATTTTCAAAAT
1 TATAC-TATTTTCAAAAT
1639737 CATTCGCAAA
Statistics
Matches: 113, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
111 50 0.44
112 20 0.18
113 12 0.11
115 27 0.24
116 4 0.04
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (114 bp):
TATACTATTTTCAAAATGCTTTAAAAAACTAGATATTAATATAGGTTTTCAAAAATATTTTCAAA
AACTATATATTATATAAATTTCCAAAATGATTTTAAAAACTACATATTA
Found at i:1639748 original size:111 final size:114
Alignment explanation
Indices: 1639532--1639760 Score: 288
Period size: 111 Copynumber: 2.0 Consensus size: 114
1639522 TATATATTAC
* *
1639532 ATATAGGTTTTCAAAAATGTTTTCAAAAACTATATATTATATAAATTTTCAAAATGATTTTAAAA
1 ATATAGGTTTTCAAAAATATTTTCAAAAACTATATATTATATAAATTTCCAAAATGATTTTAAAA
*
1639597 ACTACATATTATATATATTTTCTAAAATGCTTTAAAAAACTAGATAT-T
66 ACTACATATTATATATATTTTCTAAAATGCATTAAAAAACTAGATATAT
* ** * *
1639645 ATATA-GTTTTCAAAAGTATTTT-AAAAACTATATATTATATTCATTTCCAAAATGTTTTTAGAA
1 ATATAGGTTTTCAAAAATATTTTCAAAAACTATATATTATATAAATTTCCAAAATGATTTTAAAA
* *** *
1639708 ACTATATATTATATACGTATTTTC-AAAAT-CATTCGCAAACTATATATAT
66 ACTACATATTATATA--TATTTTCTAAAATGCATTAAAAAACTAGATATAT
1639757 ATAT
1 ATAT
1639761 GTATATGTAT
Statistics
Matches: 100, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
111 63 0.63
112 25 0.25
113 12 0.12
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.42
Consensus pattern (114 bp):
ATATAGGTTTTCAAAAATATTTTCAAAAACTATATATTATATAAATTTCCAAAATGATTTTAAAA
ACTACATATTATATATATTTTCTAAAATGCATTAAAAAACTAGATATAT
Found at i:1639765 original size:12 final size:12
Alignment explanation
Indices: 1639750--1639780 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1639740 TCGCAAACTA
1639750 TATATATATATG
1 TATATATATATG
*
1639762 TATATGTATATG
1 TATATATATATG
1639774 TATATAT
1 TATATAT
1639781 TAAAAATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (12 bp):
TATATATATATG
Found at i:1640576 original size:164 final size:164
Alignment explanation
Indices: 1640325--1641568 Score: 1517
Period size: 164 Copynumber: 7.6 Consensus size: 164
1640315 TTATTGACAT
* * * * * ** * *
1640325 ATAACCCTTCTTA-CCTTGAGCTATGTTGTAAATGATGTG-CCTTGGAGCTGAGCATAGTCGAAC
1 ATAACCCTTC-TAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAAC
* * * * * * * * * * *
1640388 TCGAAGGTCTTTGGCAGATAACCCTTCTAGCCTTGAGCTATACCGTAAATGATGCG-CTGTTGAA
65 TTGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT-TGGAG
* * * * *
1640452 CTGAGCATAATCGAACTCAAAGGTCTTTGTTGGTAG
129 CTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGATAG
* * * * *
1640488 ATAACCCTTCTCGACTTAAGTTATGCTACAAATGATGTGCCCTCAAAGCTGAGTGTAATCAAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACT
* * ** * *
1640553 TGTGGGTTTTTGGCAGATAACCCTTCTCGACTTAAGCTATATTGTAAATGATGTGCCTTGGAGCC
66 TGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCT
*
1640618 GAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAG
131 GAGCGTAGTCGAACTCGAAGGTCTTTGGTGATAG
*
1640652 ATAACCCTTCTAGCCTTGAGTTACGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACT
* * *
1640717 TGAGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCT
66 TGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCT
1640782 GAGCGTAGTCGAACTCGAAGGTCTTTGGTGATAG
131 GAGCGTAGTCGAACTCGAAGGTCTTTGGTGATAG
* * **
1640816 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGTTGAGTGTAATTGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACT
* * *
1640881 TGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGTTACAAATGATGTGCATTGGAGCT
66 TGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCT
* * *
1640946 GAGCATAGTTGAACTCGAAGGTCTTTGGTGACAG
131 GAGCGTAGTCGAACTCGAAGGTCTTTGGTGATAG
* * ** * **
1640980 ATAACCCTTCTAGCCTTGAGTCATGCTGTAAATGATGTGCCCTTAAAGTTGAGTGTAATTGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACT
* * *
1641045 TGAGGGTCTTTGGAAGAT-AGCCTTCTCGACTTAAACTATGCTGCAAATGATGTGCCTTGGAGCT
66 TGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCT
* **
1641109 GAGCGTAGTCGAACTCGAAGGTATTTGGTTGGCAG
131 GAGCGTAGTCGAACTCGAAGGTCTTTGG-TGATAG
* * * * * *
1641144 ATAACCCTTCTCGACTTAAGTTATACTACAAATGATATGCCCTCGAAGCTGAGTGTAATCAAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACT
* * *
1641209 TGAGGGTCTTTGGCATATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCA
66 TGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCT
1641274 GAGCGTAGTCGAACTCGAAGGTCTTTGGTGATAG
131 GAGCGTAGTCGAACTCGAAGGTCTTTGGTGATAG
* * **
1641308 ATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATTGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACT
* * * ** * *
1641373 TGAGGGTCTTTGGAAGATAGCCCTTTTCGACTTAAGCTATATTGTAAATGATGTGCCTTAGAGCT
66 TGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCT
*
1641438 GAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAG
131 GAGCGTAGTCGAACTCGAAGGTCTTTGG-TGATAG
* * * * * * * * *
1641473 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACT
* * *
1641537 CGAAGGTCTTTGCTGACAGAAAACCCTTCTCG
66 TGAGGGTCTTTG--G-CAGATAACCCTTCTCG
1641569 CCTTGAGTTG
Statistics
Matches: 942, Mismatches: 130, Indels: 14
0.87 0.12 0.01
Matches are distributed among these distances:
162 1 0.00
163 96 0.10
164 723 0.77
165 109 0.12
166 1 0.00
167 12 0.01
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (164 bp):
ATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCAAACT
TGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCT
GAGCGTAGTCGAACTCGAAGGTCTTTGGTGATAG
Found at i:1641248 original size:492 final size:491
Alignment explanation
Indices: 1640325--1641513 Score: 1700
Period size: 492 Copynumber: 2.4 Consensus size: 491
1640315 TTATTGACAT
* * * * ** * *
1640325 ATAACCCTTCTTA-CCTTGAGCTATGTTGTAAATGATGTG-CCTTGGAGCTGAGCATAGTCGAAC
1 ATAACCCTTC-TAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATTGAAC
* * * * * ** * * *
1640388 TCGAAGGTCTTTGGCAGATAACCCTTCTAGCCTTGAGCTATACCGTAAATGATGCGCTGTTGAAC
65 TTGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATATTGTAAATGATGTGCT-TAGAGC
* * * *
1640453 TGAGCATAATCGAACTCAAAGGTCTTTGTTGGTAGATAACCCTTCTCGACTTAAGTTATGCTACA
129 TGAGCATAGTCGAACTCGAAGGTCTTTGGTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGCA
* * *
1640518 AATGATGTGCCCTCAAAGCTGAGTGTAATCAAACTTGTGGGTTTTTGGCAGATAACCCTTCTCGA
194 AATGATGTGCCCTCAAAGCTGAGTGTAATCAAACTTGAGGGTCTTTGGAAGATAACCCTTCTCGA
* * * *
1640583 CTTAAGCTATATTGTAAATGATGTGCCTTGGAGCCGAGCGTAGTCGAACTCGAAGGTCTTTGGTG
259 CTTAAACTATACTGCAAATGATGTGCCTTGGAGCCGAGCGTAGTCGAACTCGAAGGTATTTGGTG
* * * * *
1640648 ACAGATAACCCTTCTAGCCTTGAGTTACGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCA
324 ACAGATAACCCTTCTAGACTTAAGTTACACTACAAATGATATGCCCTCGAAGCTGAGTGTAATCA
1640713 AACTTGAGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTATGCTACAAATGATGTGCCTTGG
389 AACTTGAGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTATGCTACAAATGATGTGCCTTGG
*
1640778 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGATAG
454 AGCAGAGCGTAGTCGAACTCGAAGGTCTTTGGTGATAG
*
1640816 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGTTGAGTGTAATTGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATTGAACT
* ** *
1640881 TGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGTTACAAATGATGTGCATTGGAGCT
66 TGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATATTGTAAATGATGTGC-TTAGAGCT
* ** * * * * *
1640946 GAGCATAGTTGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTCATGCTGTAA
130 GAGCATAGTCGAACTCGAAGGTCTTTGGTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGCAA
* * ** *
1641011 ATGATGTGCCCTTAAAGTTGAGTGTAATTGAACTTGAGGGTCTTTGGAAGAT-AGCCTTCTCGAC
195 ATGATGTGCCCTCAAAGCTGAGTGTAATCAAACTTGAGGGTCTTTGGAAGATAACCCTTCTCGAC
* *
1641075 TTAAACTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTTG
260 TTAAACTATACTGCAAATGATGTGCCTTGGAGCCGAGCGTAGTCGAACTCGAAGGTATTTGG-TG
* * *
1641140 GCAGATAACCCTTCTCGACTTAAGTTATACTACAAATGATATGCCCTCGAAGCTGAGTGTAATCA
324 ACAGATAACCCTTCTAGACTTAAGTTACACTACAAATGATATGCCCTCGAAGCTGAGTGTAATCA
* * *
1641205 AACTTGAGGGTCTTTGGCATATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGG
389 AACTTGAGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTATGCTACAAATGATGTGCCTTGG
1641270 AGCAGAGCGTAGTCGAACTCGAAGGTCTTTGGTGATAG
454 AGCAGAGCGTAGTCGAACTCGAAGGTCTTTGGTGATAG
*
1641308 ATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATTGAACT
1 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATTGAACT
* * *
1641373 TGAGGGTCTTTGGAAGATAGCCCTTTTCGACTTAAGCTATATTGTAAATGATGTGCCTTAGAGCT
66 TGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATATTGTAAATGATGTG-CTTAGAGCT
*
1641438 GAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGCA
130 GAGCATAGTCGAACTCGAAGGTCTTTGG-TGGTAGATAACCCTTCTCGACTTAAGTTATGCTGCA
*
1641503 AATGATATGCC
194 AATGATGTGCC
1641514 TTGGAGCTGA
Statistics
Matches: 613, Mismatches: 79, Indels: 10
0.87 0.11 0.01
Matches are distributed among these distances:
490 2 0.00
491 101 0.16
492 469 0.77
493 41 0.07
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (491 bp):
ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATTGAACT
TGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATATTGTAAATGATGTGCTTAGAGCTG
AGCATAGTCGAACTCGAAGGTCTTTGGTGGTAGATAACCCTTCTCGACTTAAGTTATGCTGCAAA
TGATGTGCCCTCAAAGCTGAGTGTAATCAAACTTGAGGGTCTTTGGAAGATAACCCTTCTCGACT
TAAACTATACTGCAAATGATGTGCCTTGGAGCCGAGCGTAGTCGAACTCGAAGGTATTTGGTGAC
AGATAACCCTTCTAGACTTAAGTTACACTACAAATGATATGCCCTCGAAGCTGAGTGTAATCAAA
CTTGAGGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGCTATGCTACAAATGATGTGCCTTGGAG
CAGAGCGTAGTCGAACTCGAAGGTCTTTGGTGATAG
Found at i:1642738 original size:82 final size:83
Alignment explanation
Indices: 1642630--1642855 Score: 240
Period size: 94 Copynumber: 2.6 Consensus size: 83
1642620 GGCTAGCTGG
*
1642630 ATCCATAAAGCCGAGACGTTTAACCAATTGCTCTAGAGGGACAACTTAATA-TATAAACACCTTT
1 ATCCATAAAGCAG-GACGTTTAACCAATTGCTCTAGAGGGACAACTTAATAGTATAAACACCTTT
* *
1642694 ATCAGGTTAGCTGAATCTT
65 ATCAGGCTAGCTGAATATT
* *
1642713 ATCCATAAAGCTGGGCGTTTAACCAATTGC-CTTAGAGGGACAGCTCAAGCTTTATTGTATAGTA
1 ATCCATAAAGCAGGACGTTTAACCAATTGCTC-TAGAGGG--A---CAA-C-TTA----ATAGTA
**
1642777 TAATTACCTTTATCAGGCTAGCTGAATATT
54 TAAACACCTTTATCAGGCTAGCTGAATATT
*
1642807 ATCCATAAAGTCAGGACGTTTAACCAATTACTCTAGAGGGACAACTTAA
1 ATCCATAAAG-CAGGACGTTTAACCAATTGCTCTAGAGGGACAACTTAA
1642856 GCTTTATTAT
Statistics
Matches: 119, Mismatches: 9, Indels: 29
0.76 0.06 0.18
Matches are distributed among these distances:
81 1 0.01
82 23 0.19
83 12 0.10
84 2 0.02
87 3 0.03
88 4 0.03
89 4 0.03
90 3 0.03
93 4 0.03
94 38 0.32
95 24 0.20
96 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (83 bp):
ATCCATAAAGCAGGACGTTTAACCAATTGCTCTAGAGGGACAACTTAATAGTATAAACACCTTTA
TCAGGCTAGCTGAATATT
Found at i:1647106 original size:24 final size:26
Alignment explanation
Indices: 1647079--1647137 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 26
1647069 TACTTTTGAC
*
1647079 TGTTTTGGCTCTTTATTTG-G-TGGT
1 TGTTTTGGCTCTTGATTTGTGATGGT
*
1647103 TGTTATGG-T-TTGATTTGTGATGGT
1 TGTTTTGGCTCTTGATTTGTGATGGT
1647127 T-TTTTGGCTCT
1 TGTTTTGGCTCT
1647138 GTGGTGGTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
22 7 0.25
23 7 0.25
24 13 0.46
25 1 0.04
ACGTcount: A:0.07, C:0.07, G:0.29, T:0.58
Consensus pattern (26 bp):
TGTTTTGGCTCTTGATTTGTGATGGT
Found at i:1647627 original size:6 final size:6
Alignment explanation
Indices: 1647611--1647686 Score: 53
Period size: 6 Copynumber: 11.5 Consensus size: 6
1647601 GAACAAAAAG
* *
1647611 AAATAAA AAATAA AAATAA GTAATAA AAATAA TAAATAA TAATAA TAATACTAA
1 AAAT-AA AAATAA AAATAA -AAATAA AAATAA -AAATAA AAATAA -AA-A-TAA
* *
1647665 TAATAA TAAATAA ATATAA AAA
1 AAATAA -AAATAA AAATAA AAA
1647687 GTATTTTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
6 28 0.51
7 22 0.40
8 2 0.04
9 3 0.05
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (6 bp):
AAATAA
Found at i:1647629 original size:13 final size:13
Alignment explanation
Indices: 1647611--1647686 Score: 62
Period size: 13 Copynumber: 5.7 Consensus size: 13
1647601 GAACAAAAAG
1647611 AAATAAAAAATAA
1 AAATAAAAAATAA
**
1647624 AAATAAGTAATAA
1 AAATAAAAAATAA
*
1647637 AAATAATAAATAA
1 AAATAAAAAATAA
* *
1647650 TAATAATAATACTAA
1 AAATAA-AA-AATAA
* *
1647665 TAATAATAAATAA
1 AAATAAAAAATAA
*
1647678 ATATAAAAA
1 AAATAAAAA
1647687 GTATTTTAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
13 37 0.76
14 2 0.04
15 10 0.20
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (13 bp):
AAATAAAAAATAA
Found at i:1647651 original size:3 final size:3
Alignment explanation
Indices: 1647619--1647673 Score: 65
Period size: 3 Copynumber: 17.7 Consensus size: 3
1647609 AGAAATAAAA
* * *
1647619 AAT AAA AAT AAGT AAT AAA AAT AAT AAAT AAT AAT AAT AAT ACT AAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
1647666 AAT AAT AA
1 AAT AAT AA
1647674 ATAAATATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
3 38 0.86
4 6 0.14
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:1647800 original size:37 final size:36
Alignment explanation
Indices: 1647690--1647936 Score: 221
Period size: 37 Copynumber: 6.6 Consensus size: 36
1647680 ATAAAAAGTA
**
1647690 TTTTAAAAACTATATA--ATATAATTTTTTTAAATGTTT
1 TTTTAAAAACTATATATTATATAA-TTTTCAAAATG--T
1647727 TTTTAAAAACTATATATTATATTAAATTTTCGAAAATGT
1 TTTTAAAAACTATATATTATA-T-AATTTTC-AAAATGT
* *
1647766 TTTCAAAAACTATATATTATATAAGTTTTCAAAATGA
1 TTTTAAAAACTATATATTATATAA-TTTTCAAAATGT
* **
1647803 TTTTAAAAACTACATATTATATATATTTTCTAAAACAT
1 TTTTAAAAACTATATATTATATA-ATTTTC-AAAATGT
** *** *
1647841 TTTGGAAATGAATATATTATATAGTTTTCAAAA-GT
1 TTTTAAAAACTATATATTATATAATTTTCAAAATGT
* * *
1647876 ATTTTAAAAACTATATATTATATTCATTTCCAAAATAT
1 -TTTTAAAAACTATATATTATA-TAATTTTCAAAATGT
*
1647914 TTTTAGAAACTATATATTATATA
1 TTTTAAAAACTATATATTATATA
1647937 CGTATTTTCA
Statistics
Matches: 171, Mismatches: 28, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
35 1 0.01
36 21 0.12
37 84 0.49
38 29 0.17
39 24 0.14
40 5 0.03
41 7 0.04
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.46
Consensus pattern (36 bp):
TTTTAAAAACTATATATTATATAATTTTCAAAATGT
Found at i:1647893 original size:111 final size:115
Alignment explanation
Indices: 1647738--1647945 Score: 277
Period size: 111 Copynumber: 1.8 Consensus size: 115
1647728 TTTAAAAACT
*
1647738 ATATATTATATTAAATTTTCGAAAATGTTTTCAAAAACTATATATTATA-TAAGTTTTCAAAATG
1 ATATATTATATTAAATTTTCGAAAATGTTTTCAAAAACTATATATTATATTAA-TTTCCAAAAT-
1647802 A-TTTTAAAAACTACATATTATATA-TATTTTCTAAAACATTTTGGAAATGA
64 ATTTTTAAAAACTACATATTATATACTATTTTCTAAAACATTTTGGAAATGA
* * *
1647852 ATATATTATA-T-AGTTTTC-AAAA-GTATTTTAAAAACTATATATTATATTCATTTCCAAAATA
1 ATATATTATATTAAATTTTCGAAAATGT-TTTCAAAAACTATATATTATATTAATTTCCAAAATA
* *
1647913 TTTTTAGAAACTATATATTATATACGTATTTTC
65 TTTTTAAAAACTACATATTATATAC-TATTTTC
1647946 AAAGATCATT
Statistics
Matches: 83, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
110 3 0.04
111 54 0.65
112 8 0.10
113 8 0.10
114 10 0.12
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (115 bp):
ATATATTATATTAAATTTTCGAAAATGTTTTCAAAAACTATATATTATATTAATTTCCAAAATAT
TTTTAAAAACTACATATTATATACTATTTTCTAAAACATTTTGGAAATGA
Found at i:1647974 original size:2 final size:2
Alignment explanation
Indices: 1647963--1648009 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
1647953 ATTTGCAAAC
* *
1647963 TA TA TA -A TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1648004 TA TA TA
1 TA TA TA
1648010 AAAAATATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1648236 original size:25 final size:25
Alignment explanation
Indices: 1648202--1648282 Score: 162
Period size: 25 Copynumber: 3.2 Consensus size: 25
1648192 AAGTAATTAT
1648202 AACATGGCACTTTGAGTTTGATGTA
1 AACATGGCACTTTGAGTTTGATGTA
1648227 AACATGGCACTTTGAGTTTGATGTA
1 AACATGGCACTTTGAGTTTGATGTA
1648252 AACATGGCACTTTGAGTTTGATGTA
1 AACATGGCACTTTGAGTTTGATGTA
1648277 AACATG
1 AACATG
1648283 TATGTAGATG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (25 bp):
AACATGGCACTTTGAGTTTGATGTA
Found at i:1648813 original size:22 final size:22
Alignment explanation
Indices: 1648788--1648852 Score: 91
Period size: 22 Copynumber: 3.0 Consensus size: 22
1648778 TCACTCTCTA
*
1648788 CGACGATATCCGTCAC-CATCTC
1 CGACGAAATCCGTC-CTCATCTC
1648810 CGACGAAATCCGTCCTCATCTC
1 CGACGAAATCCGTCCTCATCTC
1648832 CGACGAAATCCGT-CT-ATCTC
1 CGACGAAATCCGTCCTCATCTC
1648852 C
1 C
1648853 ATCTCTCATA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
20 6 0.15
21 3 0.07
22 32 0.78
ACGTcount: A:0.23, C:0.40, G:0.14, T:0.23
Consensus pattern (22 bp):
CGACGAAATCCGTCCTCATCTC
Found at i:1649233 original size:20 final size:20
Alignment explanation
Indices: 1649208--1649312 Score: 132
Period size: 20 Copynumber: 5.5 Consensus size: 20
1649198 GCGAATTTAG
1649208 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
* *
1649228 TTTCGCATTTCGA--TT--T
1 TTTCGCGTTGCGATTTTCAT
1649244 TTT--CGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
1649262 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
*
1649282 GTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
*
1649302 TTTCGCATTGC
1 TTTCGCGTTGC
1649313 AAATTTAAGT
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
14 6 0.08
16 6 0.08
18 6 0.08
20 54 0.75
ACGTcount: A:0.10, C:0.20, G:0.19, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTCAT
Found at i:1649253 original size:34 final size:38
Alignment explanation
Indices: 1649213--1649312 Score: 136
Period size: 34 Copynumber: 2.7 Consensus size: 38
1649203 TTTAGTTTCG
*
1649213 CGTTGCGATTTTCATTTTCGCATTTCGA-TTT-T-TT-
1 CGTTGCGATTTTCATTTTCGCATTGCGATTTTATGTTC
*
1649247 CGTTGCGATTTTCATTTTCGCGTTGCGATTTTCATGTTC
1 CGTTGCGATTTTCATTTTCGCATTGCGATTTT-ATGTTC
1649286 GCGTTGCGATTTTCATTTTCGCATTGC
1 -CGTTGCGATTTTCATTTTCGCATTGC
1649313 AAATTTAAGT
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
34 26 0.46
35 3 0.05
37 1 0.02
38 2 0.04
40 25 0.44
ACGTcount: A:0.11, C:0.20, G:0.19, T:0.50
Consensus pattern (38 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTTTATGTTC
Found at i:1651287 original size:4 final size:4
Alignment explanation
Indices: 1651278--1651319 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
1651268 TTTTTCGACA
* * *
1651278 TTAT TTAT TTAT TTAT TTAC TGAT TTAT TTAT TGAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1651320 TTAGCGGCCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:1651295 original size:12 final size:12
Alignment explanation
Indices: 1651278--1651319 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
1651268 TTTTTCGACA
*
1651278 TTATTTATTTAT
1 TTATTTATTGAT
*
1651290 TTATTTACTGAT
1 TTATTTATTGAT
1651302 TTATTTATTGAT
1 TTATTTATTGAT
1651314 TTATTT
1 TTATTT
1651320 TTAGCGGCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (12 bp):
TTATTTATTGAT
Found at i:1651495 original size:21 final size:21
Alignment explanation
Indices: 1651469--1651579 Score: 100
Period size: 21 Copynumber: 5.3 Consensus size: 21
1651459 CTTGTCATCA
**
1651469 TTCAAGAGGTGCCTCCTATCG
1 TTCAAGAGGCCCCTCCTATCG
*
1651490 TTCAAGAGGCCCCT-CTCATCA
1 TTCAAGAGGCCCCTCCT-ATCG
* *
1651511 TTCAAGAGGCCCCTCCCACCG
1 TTCAAGAGGCCCCTCCTATCG
*
1651532 TTCAAGAGGCCCCT-GTCATCG
1 TTCAAGAGGCCCCTCCT-ATCG
** * *
1651553 TTCAAGAGGTGCCTCCCACCG
1 TTCAAGAGGCCCCTCCTATCG
1651574 TTCAAG
1 TTCAAG
1651580 GCGTCATATG
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
20 2 0.03
21 69 0.96
22 1 0.01
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.23
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCTATCG
Found at i:1651510 original size:42 final size:42
Alignment explanation
Indices: 1651463--1651579 Score: 180
Period size: 42 Copynumber: 2.8 Consensus size: 42
1651453 GATGCACTTG
* *
1651463 TCATCATTCAAGAGGTGCCTCCTATCGTTCAAGAGGCCCCTC
1 TCATCATTCAAGAGGTGCCTCCCACCGTTCAAGAGGCCCCTC
** *
1651505 TCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTG
1 TCATCATTCAAGAGGTGCCTCCCACCGTTCAAGAGGCCCCTC
*
1651547 TCATCGTTCAAGAGGTGCCTCCCACCGTTCAAG
1 TCATCATTCAAGAGGTGCCTCCCACCGTTCAAG
1651580 GCGTCATATG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (42 bp):
TCATCATTCAAGAGGTGCCTCCCACCGTTCAAGAGGCCCCTC
Done.