Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 72 of 210
Found at i:25320321 original size:74 final size:72
Alignment explanation
Indices: 25320215--25320355 Score: 237
Period size: 74 Copynumber: 1.9 Consensus size: 72
25320205 TATATATCTA
25320215 TATATATATAATGTGGCTTAGCCACTAATTCAGAGCAAATCACTTCCTCCTTCACAAATATCCTA
1 TATATATATAATGTGGCTTAGCCACTAATTCAGAGCAAATCACTTCCTCCTTCACAAATATCCTA
25320280 AACCCAT
66 AACCCAT
* * *
25320287 TATATATATAATGTGGCTTAGTGGCACTAATTCAGAGCAGATCACTTCCTCTTTCACAAATATCC
1 TATATATATAATGTGGCTTA--GCCACTAATTCAGAGCAAATCACTTCCTCCTTCACAAATATCC
25320352 TAAA
64 TAAA
25320356 TTCATGCAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
72 20 0.31
74 44 0.69
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (72 bp):
TATATATATAATGTGGCTTAGCCACTAATTCAGAGCAAATCACTTCCTCCTTCACAAATATCCTA
AACCCAT
Found at i:25321523 original size:36 final size:38
Alignment explanation
Indices: 25321483--25321574 Score: 93
Period size: 39 Copynumber: 2.5 Consensus size: 38
25321473 TCAAGTATTG
* *
25321483 AAACAAGCAAAAAT-ATAA-AAGAAGAAGAAAAGAAAA
1 AAACAAGAAAAAATAAGAATAAGAAGAAGAAAAGAAAA
* *
25321519 AAACAAAGAAAAAATAAGAATAAGAATAAGAAAGGAAAGA
1 AAAC-AAGAAAAAATAAGAATAAGAAGAAGAAAAGAAA-A
*
25321559 AAA-AGGAAAAAA-AAGA
1 AAACAAGAAAAAATAAGA
25321575 TGATAGAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
36 4 0.09
37 13 0.28
38 11 0.23
39 15 0.32
40 4 0.09
ACGTcount: A:0.75, C:0.03, G:0.16, T:0.05
Consensus pattern (38 bp):
AAACAAGAAAAAATAAGAATAAGAAGAAGAAAAGAAAA
Found at i:25322466 original size:27 final size:26
Alignment explanation
Indices: 25322432--25322487 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 26
25322422 ACCAAAATGT
25322432 TATAAATTTTTTTATTTACCAAAAAA
1 TATAAATTTTTTTATTTACCAAAAAA
*
25322458 TATATAATTTTTTTATTTACCAAAATA
1 TATA-AATTTTTTTATTTACCAAAAAA
25322485 TAT
1 TAT
25322488 CAAAAAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (26 bp):
TATAAATTTTTTTATTTACCAAAAAA
Found at i:25322584 original size:27 final size:27
Alignment explanation
Indices: 25322546--25322622 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
25322536 CCCTGGGTGG
*
25322546 AGGGAACACTGTTGGCGGCACCAAACA
1 AGGGAACCCTGTTGGCGGCACCAAACA
25322573 AGGGAACCCTGTTGGCGGCACCAAACA
1 AGGGAACCCTGTTGGCGGCACCAAACA
** *
25322600 AGGGTTCCTTGTTGGCGGCACCA
1 AGGGAACCCTGTTGGCGGCACCA
25322623 CCCTTGAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.26, C:0.27, G:0.31, T:0.16
Consensus pattern (27 bp):
AGGGAACCCTGTTGGCGGCACCAAACA
Found at i:25322954 original size:3 final size:3
Alignment explanation
Indices: 25322946--25322985 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
25322936 AATTTTATAG
25322946 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
25322986 AATATTGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:25323513 original size:18 final size:18
Alignment explanation
Indices: 25323469--25323513 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
25323459 TTGATATGGT
* *
25323469 TGGTGGTGAAGAAGAATG
1 TGGTGGCGAAGAAGAAGG
* *
25323487 CGGTTGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
25323505 TGGTGGCGA
1 TGGTGGCGA
25323514 TTATTGGGAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.07, G:0.47, T:0.18
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:25325898 original size:21 final size:21
Alignment explanation
Indices: 25325860--25325900 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
25325850 AAAAAATTTC
*
25325860 TGTTTTTTTATTATTATTTTT
1 TGTTTTTTTATGATTATTTTT
25325881 TGTTTTTTT-TGATATATTTT
1 TGTTTTTTTATGAT-TATTTT
25325901 GGTAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (21 bp):
TGTTTTTTTATGATTATTTTT
Found at i:25325956 original size:29 final size:28
Alignment explanation
Indices: 25325896--25325962 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
25325886 TTTTTGATAT
* *
25325896 ATTTTGGTAAATAAAAAAATTTATATAT
1 ATTTTGGTAAATAAAAAAAGTTATATAC
25325924 ATTTTGGTAAATAAAAAAAAAGTTATA-AC
1 ATTTTGGTAAAT--AAAAAAAGTTATATAC
25325953 ATTTTGGTAA
1 ATTTTGGTAA
25325963 TTTTTTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 12 0.34
29 11 0.31
30 12 0.34
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.39
Consensus pattern (28 bp):
ATTTTGGTAAATAAAAAAAGTTATATAC
Found at i:25326036 original size:5 final size:5
Alignment explanation
Indices: 25326028--25326125 Score: 53
Period size: 5 Copynumber: 20.2 Consensus size: 5
25326018 TTTTCTCTTC
* * * *
25326028 TCCTT TCCTT TTCTT TCCTT AT--TT TTCTT T-CTT TCCTC CCCTT TCCTT
1 TCCTT TCCTT TCCTT TCCTT -TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT
* * * * * *
25326076 TTCTT T-CAT TCTTT TTCTT T-CTT TCCTC TCCTC TCCTT TCCTTT TCCTT
1 TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCCTT TCC-TT TCCTT
25326125 T
1 T
25326126 TTTTTTCTTT
Statistics
Matches: 72, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
3 1 0.01
4 13 0.18
5 52 0.72
6 6 0.08
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (5 bp):
TCCTT
Found at i:25326045 original size:10 final size:10
Alignment explanation
Indices: 25326030--25326148 Score: 58
Period size: 10 Copynumber: 12.5 Consensus size: 10
25326020 TTCTCTTCTC
25326030 CTTTCCTTTT
1 CTTTCCTTTT
25326040 CTTTCCTTATT
1 CTTTCCTT-TT
25326051 -TTT-C-TTT
1 CTTTCCTTTT
***
25326058 CTTTCCTCCC
1 CTTTCCTTTT
25326068 CTTTCCTTTT
1 CTTTCCTTTT
*
25326078 CTTTCATTCTT
1 CTTTCCTT-TT
25326089 -TTT-C-TTT
1 CTTTCCTTTT
* *
25326096 CTTTCCTCTC
1 CTTTCCTTTT
* *
25326106 CTCTCCTTTC
1 CTTTCCTTTT
25326116 CTTTTCCTTTT
1 C-TTTCCTTTT
* *
25326127 TTTTTC-TTT
1 CTTTCCTTTT
25326136 C-TTCC-TTT
1 CTTTCCTTTT
25326144 CTTTC
1 CTTTC
25326149 TTCTTCTTCC
Statistics
Matches: 81, Mismatches: 18, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
7 4 0.05
8 15 0.19
9 9 0.11
10 42 0.52
11 11 0.14
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.66
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:25326071 original size:38 final size:38
Alignment explanation
Indices: 25326029--25326138 Score: 148
Period size: 38 Copynumber: 2.8 Consensus size: 38
25326019 TTTCTCTTCT
25326029 CCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCC
1 CCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCC
* * *
25326067 CCTTTCCTTTTCTTTCATTCTTTTTCTTTCTTTCCTCT
1 CCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCC
* * *
25326105 CCTCTCCTTTCCTTTTCCTTTTTTTTTCTTTCTT
1 CCTTTCCTTTTC-TTTCC-TTATTTTTCTTTCTT
25326139 CCTTTCTTTC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
38 45 0.71
39 4 0.06
40 14 0.22
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (38 bp):
CCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCCTCC
Found at i:25326243 original size:27 final size:28
Alignment explanation
Indices: 25326205--25326273 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
25326195 AATTCAAGGG
* *
25326205 TGGTGTCGCCAACAGGGA-ACCATTGTT
1 TGGTGCCGCCAACAGGGATACCATTATT
* *
25326232 TGGTGCCGCCAACA-GGATTCCCTTATT
1 TGGTGCCGCCAACAGGGATACCATTATT
*
25326259 TGGTGGCGCCAACAG
1 TGGTGCCGCCAACAG
25326274 TGTTCCCTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 3 0.09
27 32 0.91
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.25
Consensus pattern (28 bp):
TGGTGCCGCCAACAGGGATACCATTATT
Found at i:25326279 original size:27 final size:27
Alignment explanation
Indices: 25326230--25326281 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
25326220 GGAACCATTG
25326230 TTTGGTGCCGCCAACAGGATTCCCTTA
1 TTTGGTGCCGCCAACAGGATTCCCTTA
*
25326257 TTTGGTGGCGCCAACAGTG-TTCCCT
1 TTTGGTGCCGCCAACAG-GATTCCCT
25326282 CTACCTAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.15, C:0.29, G:0.25, T:0.31
Consensus pattern (27 bp):
TTTGGTGCCGCCAACAGGATTCCCTTA
Found at i:25326367 original size:28 final size:28
Alignment explanation
Indices: 25326330--25326399 Score: 124
Period size: 28 Copynumber: 2.5 Consensus size: 28
25326320 TCTATTTTTT
25326330 TATATATTTTGGTAAATAAAAAAAATTA
1 TATATATTTTGGTAAATAAAAAAAATTA
*
25326358 TATATATTTTGGTAAATAAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAAATTA
25326386 TA-ATATTTTGGTAA
1 TATATATTTTGGTAA
25326400 TTTTTTTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 12 0.29
28 29 0.71
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (28 bp):
TATATATTTTGGTAAATAAAAAAAATTA
Found at i:25333144 original size:25 final size:26
Alignment explanation
Indices: 25333083--25333144 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 26
25333073 ATACATACAT
25333083 TTATAATAATTATTACTTATTATTTAAG
1 TTATAATAATTATTAC-TATTATTT-AG
25333111 -TA-AAT-ATTATTA-TATTATATT-G
1 TTATAATAATTATTACTATTAT-TTAG
25333133 TTATAATAATTA
1 TTATAATAATTA
25333145 AAACATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
22 1 0.03
23 8 0.27
24 5 0.17
25 11 0.37
26 3 0.10
27 2 0.07
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (26 bp):
TTATAATAATTATTACTATTATTTAG
Found at i:25341610 original size:22 final size:25
Alignment explanation
Indices: 25341584--25341636 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
25341574 TTAAAAATTC
25341584 AATTTAAAAG-ATA-TAAT-ACAAT
1 AATTTAAAAGCATATTAATAACAAT
*
25341606 AATTT-CAAGCATATTTAATAACAAT
1 AATTTAAAAGCATA-TTAATAACAAT
25341631 AATTTA
1 AATTTA
25341637 TTCAGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
24 4 0.16
25 10 0.40
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.36
Consensus pattern (25 bp):
AATTTAAAAGCATATTAATAACAAT
Found at i:25344943 original size:43 final size:43
Alignment explanation
Indices: 25344873--25345126 Score: 312
Period size: 43 Copynumber: 5.7 Consensus size: 43
25344863 CTCGCTAATT
25344873 CTAAAGGTCTT-GTCTTTAGCGGCGTTTGTGGTAAAAGCGCCG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTAAAAGCGCCG
* * *
25344915 CTAAAGGTCATGGTCTTTAGTGGGGTTTGTGGTAAAAGCGCCG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTAAAAGCGCCG
* *
25344958 CTGAAGGTCTTGGTCTTTAGTGGCGTTTGTGGTAAAAGCGCCG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTAAAAGCGCCG
* *
25345001 CTAAAGGGCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTAAAA-----GC----G-CC--G
* *
25345056 CTAAAGGTCATGGTCTTTAGCGGCATTTGTGGTAAAAGCGCCG
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTAAAAGCGCCG
25345099 CTAAAGGTCTTGGTCTTTAGCGGCGTTT
1 CTAAAGGTCTTGGTCTTTAGCGGCGTTT
25345127 ATTTATAAAA
Statistics
Matches: 183, Mismatches: 16, Indels: 25
0.82 0.07 0.11
Matches are distributed among these distances:
42 10 0.05
43 129 0.70
45 2 0.01
46 1 0.01
48 2 0.01
50 2 0.01
52 1 0.01
53 2 0.01
55 34 0.19
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (43 bp):
CTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTAAAAGCGCCG
Found at i:25345085 original size:55 final size:55
Alignment explanation
Indices: 25345000--25345104 Score: 174
Period size: 55 Copynumber: 1.9 Consensus size: 55
25344990 TAAAAGCGCC
* *
25345000 GCTAAAGGGCTTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCAT
1 GCTAAAGGGCATGGTCTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGACCAT
* *
25345055 GCTAAAGGTCATGGTCTTTAGCGGCATTTGTGGTAAAAGCGCCGCTAAAG
1 GCTAAAGGGCATGGTCTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAG
25345105 GTCTTGGTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (55 bp):
GCTAAAGGGCATGGTCTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGACCAT
Found at i:25347105 original size:18 final size:18
Alignment explanation
Indices: 25347051--25347108 Score: 53
Period size: 18 Copynumber: 3.0 Consensus size: 18
25347041 CTTTACACCA
25347051 CATTGTGGATAAAACCACACAT
1 CATTGTGGAT-AAA-C-CAC-T
* **
25347073 TATTGTGGACGAACCACT
1 CATTGTGGATAAACCACT
25347091 CATTGTGGATAAACCACT
1 CATTGTGGATAAACCACT
25347109 AGTGATAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
18 16 0.53
19 3 0.10
20 1 0.03
21 2 0.07
22 8 0.27
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (18 bp):
CATTGTGGATAAACCACT
Found at i:25347261 original size:46 final size:45
Alignment explanation
Indices: 25347208--25347315 Score: 137
Period size: 45 Copynumber: 2.4 Consensus size: 45
25347198 TTACATATTG
* *
25347208 AAGTTGCTAAAACAATGTGGTCAAA-CCACTCAAACAATGCAGATAA
1 AAGTTGCTCAAACAATGTGG-AAAACCCA-TCAAACAATGCAGATAA
* * * *
25347254 AAGTTGCTCAAACGATATGGAAAACCCATTAAACATTGCAGATAA
1 AAGTTGCTCAAACAATGTGGAAAACCCATCAAACAATGCAGATAA
25347299 AAGTTGCTCAAACAATG
1 AAGTTGCTCAAACAATG
25347316 CAGATAAAAG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
45 33 0.62
46 20 0.38
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (45 bp):
AAGTTGCTCAAACAATGTGGAAAACCCATCAAACAATGCAGATAA
Found at i:25347311 original size:24 final size:24
Alignment explanation
Indices: 25347284--25347333 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
25347274 AAAACCCATT
*
25347284 AAACATTGCAGATAAAAGTTGCTC
1 AAACAATGCAGATAAAAGTTGCTC
25347308 AAACAATGCAGATAAAAGTTGCTC
1 AAACAATGCAGATAAAAGTTGCTC
25347332 AA
1 AA
25347334 TGTAGATACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (24 bp):
AAACAATGCAGATAAAAGTTGCTC
Found at i:25347495 original size:34 final size:34
Alignment explanation
Indices: 25347457--25347521 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
25347447 CATTACGGTA
* *
25347457 GCAATCATTATGCTTATAATAGTTTGATTCAGTG
1 GCAATCATTATGCCTATAACAGTTTGATTCAGTG
* *
25347491 GCAATTATTATGCCTATAACATTTTGATTCA
1 GCAATCATTATGCCTATAACAGTTTGATTCA
25347522 ATAGCAAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (34 bp):
GCAATCATTATGCCTATAACAGTTTGATTCAGTG
Found at i:25354492 original size:18 final size:18
Alignment explanation
Indices: 25354469--25354506 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
25354459 GCTCCACGAC
25354469 TTTTTTAAGCAGGTTCTA
1 TTTTTTAAGCAGGTTCTA
*
25354487 TTTTTTAAGTAGGTTCTA
1 TTTTTTAAGCAGGTTCTA
25354505 TT
1 TT
25354507 GTTGGTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.08, G:0.16, T:0.55
Consensus pattern (18 bp):
TTTTTTAAGCAGGTTCTA
Found at i:25367357 original size:19 final size:21
Alignment explanation
Indices: 25367333--25367371 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
25367323 TATTTTAAAC
25367333 ATTTTGTTA-ATTA-AAATAA
1 ATTTTGTTATATTATAAATAA
25367352 ATTTTGTTATATTATAAATA
1 ATTTTGTTATATTATAAATA
25367372 TTTTTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTTTGTTATATTATAAATAA
Found at i:25367374 original size:19 final size:19
Alignment explanation
Indices: 25367321--25367380 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
25367311 TATATATATA
* *
25367321 TATATTTTAAACATTTTGT
1 TATATTATAAATATTTTGT
25367340 TA-ATTA-AAATAAATTTTGT
1 TATATTATAAAT--ATTTTGT
*
25367359 TATATTATAAATATTTTTT
1 TATATTATAAATATTTTGT
25367378 TAT
1 TAT
25367381 TTAAAACATC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
17 3 0.09
18 3 0.09
19 20 0.59
20 4 0.12
21 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (19 bp):
TATATTATAAATATTTTGT
Found at i:25371894 original size:22 final size:22
Alignment explanation
Indices: 25371866--25371909 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
25371856 TAGACTCAAC
25371866 GATATTATCAAAAAGTACCAAA
1 GATATTATCAAAAAGTACCAAA
25371888 GATATTATCAAAAAGTACCAAA
1 GATATTATCAAAAAGTACCAAA
25371910 TTAGTTGACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.14, G:0.09, T:0.23
Consensus pattern (22 bp):
GATATTATCAAAAAGTACCAAA
Found at i:25379381 original size:43 final size:43
Alignment explanation
Indices: 25379245--25379385 Score: 176
Period size: 43 Copynumber: 3.3 Consensus size: 43
25379235 CGAGCATGTT
* * *
25379245 GTGGCGTTTGTAGCTAGAATCACCA-CAAAAGATCATGTTCTTTA
1 GTGGCGTTTGTAG-TAAAAGCA-CAGCTAAAGATCATGTTCTTTA
* * * *
25379289 GTGACATTTGTAGTAAAAGCGCCGCTAAAGATCATGTTCTTTA
1 GTGGCGTTTGTAGTAAAAGCACAGCTAAAGATCATGTTCTTTA
* *
25379332 GCGGCGTTTGTAGTAAAAGCACAGCTAAAGATAATGTTCTTTA
1 GTGGCGTTTGTAGTAAAAGCACAGCTAAAGATCATGTTCTTTA
25379375 GTGGCGTTTGT
1 GTGGCGTTTGT
25379386 GGGACCACTA
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
42 1 0.01
43 70 0.85
44 11 0.13
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (43 bp):
GTGGCGTTTGTAGTAAAAGCACAGCTAAAGATCATGTTCTTTA
Found at i:25379710 original size:12 final size:12
Alignment explanation
Indices: 25379693--25379717 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25379683 TATTTTCTTG
25379693 TGCTGCCTTTAC
1 TGCTGCCTTTAC
25379705 TGCTGCCTTTAC
1 TGCTGCCTTTAC
25379717 T
1 T
25379718 TCCTTCACTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.32, G:0.16, T:0.44
Consensus pattern (12 bp):
TGCTGCCTTTAC
Found at i:25381404 original size:29 final size:30
Alignment explanation
Indices: 25381371--25381429 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
25381361 TTAGATTTTC
* *
25381371 ATGTATATAATTGC-ATTAAATTAAAGTTT
1 ATGTATACAATTGCAATTAAATCAAAGTTT
25381400 ATGTATACAATTGCAGATTAAATCAAAGTT
1 ATGTATACAATTGCA-ATTAAATCAAAGTT
25381430 CATGCATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 13 0.50
31 13 0.50
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (30 bp):
ATGTATACAATTGCAATTAAATCAAAGTTT
Found at i:25381440 original size:29 final size:27
Alignment explanation
Indices: 25381377--25381440 Score: 65
Period size: 31 Copynumber: 2.2 Consensus size: 27
25381367 TTTCATGTAT
* * *
25381377 ATAATTGCATTAAATTAAAGTTTATGT
1 ATAATTGCATTAAATCAAAGTTCATGC
25381404 ATACAATTGCAGATTAAATCAAAGTTCATGC
1 AT--AATTGC--ATTAAATCAAAGTTCATGC
25381435 ATAATT
1 ATAATT
25381441 TGTTAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 2 0.07
29 10 0.33
31 18 0.60
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (27 bp):
ATAATTGCATTAAATCAAAGTTCATGC
Found at i:25382155 original size:14 final size:14
Alignment explanation
Indices: 25382124--25382168 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
25382114 TTAGCCCATC
*
25382124 GCAGTATCAG-TA-
1 GCAGTAACAGATAT
25382136 GCAGTAACAGATAT
1 GCAGTAACAGATAT
25382150 GCAGTAACAGATAT
1 GCAGTAACAGATAT
25382164 GCAGT
1 GCAGT
25382169 CACAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 9 0.30
13 2 0.07
14 19 0.63
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (14 bp):
GCAGTAACAGATAT
Found at i:25390410 original size:7 final size:7
Alignment explanation
Indices: 25390400--25390434 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
25390390 CCGGTTTTAC
25390400 TTTTTCA
1 TTTTTCA
25390407 TTTTTCA
1 TTTTTCA
25390414 -TTTTCA
1 TTTTTCA
25390420 TCTTTTCA
1 T-TTTTCA
25390428 TTTTTCA
1 TTTTTCA
25390435 CATCACTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.23
7 13 0.50
8 7 0.27
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTTTCA
Found at i:25390417 original size:14 final size:15
Alignment explanation
Indices: 25390400--25390434 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
25390390 CCGGTTTTAC
25390400 TTTTTCAT-TTTTCA
1 TTTTTCATCTTTTCA
25390414 -TTTTCATCTTTTCA
1 TTTTTCATCTTTTCA
25390428 TTTTTCA
1 TTTTTCA
25390435 CATCACTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.37
14 6 0.32
15 6 0.32
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTCATCTTTTCA
Found at i:25391223 original size:30 final size:30
Alignment explanation
Indices: 25391166--25391224 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
25391156 GCTTTTTGAA
* * * *
25391166 AATATTTACAAAAAGAGGCATCTATTTTTT
1 AATATTTACAAAAAGAAGAACCAATTTTTT
*
25391196 AATATTTACAAAAAGAATAACCAATTTTT
1 AATATTTACAAAAAGAAGAACCAATTTTT
25391225 AAAAATAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (30 bp):
AATATTTACAAAAAGAAGAACCAATTTTTT
Found at i:25399103 original size:37 final size:37
Alignment explanation
Indices: 25399062--25399175 Score: 201
Period size: 37 Copynumber: 3.1 Consensus size: 37
25399052 TTTATTAACA
25399062 TAAATATTTAAATAGAACAAATGAAATTAAAAAAATT
1 TAAATATTTAAATAGAACAAATGAAATTAAAAAAATT
25399099 TAAATATTTAAATAGAACAAATGAAATTAAAAAAATT
1 TAAATATTTAAATAGAACAAATGAAATTAAAAAAATT
* * *
25399136 TAAGTCTTAAAATAGAACAAATGAAATTAAAAAAATT
1 TAAATATTTAAATAGAACAAATGAAATTAAAAAAATT
25399173 TAA
1 TAA
25399176 GTCTTAATTA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (37 bp):
TAAATATTTAAATAGAACAAATGAAATTAAAAAAATT
Found at i:25409211 original size:40 final size:39
Alignment explanation
Indices: 25409165--25409291 Score: 155
Period size: 40 Copynumber: 3.2 Consensus size: 39
25409155 AAAAAATGTT
* * *
25409165 GCTATAGATCGAACATTAACGGCGCTTTCTGAAAAACGCC
1 GCTATAGATCGAGCATTAGCAGCGCTTT-TGAAAAACGCC
* * *
25409205 GCTATAGATTGAGCATTAGCAGCTCTTTTCGAAAAACGTC
1 GCTATAGATCGAGCATTAGCAGCGCTTTT-GAAAAACGCC
* *
25409245 GCTATAGATCGAGCATTAGCTGCGCTTTTTGAAAAGCGCC
1 GCTATAGATCGAGCATTAGCAGCGC-TTTTGAAAAACGCC
25409285 GCTATAG
1 GCTATAG
25409292 GTCAACAATT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
39 1 0.01
40 69 0.93
41 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (39 bp):
GCTATAGATCGAGCATTAGCAGCGCTTTTGAAAAACGCC
Found at i:25409303 original size:40 final size:39
Alignment explanation
Indices: 25409165--25409321 Score: 154
Period size: 40 Copynumber: 3.9 Consensus size: 39
25409155 AAAAAATGTT
* * * *
25409165 GCTATAGATCGAACATTAACGGCGCTTTCTGAAAAACGCC
1 GCTATAGATC-AGCATTAGCTGCGCTTTTTGAAAAACGCC
* * * * *
25409205 GCTATAGATTGAGCATTAGCAGCTCTTTTCGAAAAACGTC
1 GCTATAGA-TCAGCATTAGCTGCGCTTTTTGAAAAACGCC
*
25409245 GCTATAGATCGAGCATTAGCTGCGCTTTTTGAAAAGCGCC
1 GCTATAGATC-AGCATTAGCTGCGCTTTTTGAAAAACGCC
* * *
25409285 GCTATAGGTCAACAATTAGTTG-GCTTTTTGAAAAACG
1 GCTATAGATCAGC-ATTAGCTGCGCTTTTTGAAAAACG
25409322 TCGCAAAAAA
Statistics
Matches: 96, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 17 0.18
40 78 0.81
41 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (39 bp):
GCTATAGATCAGCATTAGCTGCGCTTTTTGAAAAACGCC
Found at i:25409303 original size:80 final size:79
Alignment explanation
Indices: 25409156--25409325 Score: 191
Period size: 80 Copynumber: 2.1 Consensus size: 79
25409146 TGTTTGGATA
* * * * *
25409156 AAAAATGTTGCTATAGATCGAACATTAACGGCGCTTTCTGAAAAACGCCGCTATAGATTGAGCAT
1 AAAAACGTCGCTATAGATCGAACATTAACGGCGCTTTCTGAAAAACGCCGCTATAGAGTCAACAT
25409221 TAG-CAGCTCTTTTCG
66 TAGTCAGCT-TTTT-G
* * * * *
25409236 AAAAACGTCGCTATAGATCGAGCATTAGCTGCGCTTTTTGAAAAGCGCCGCTATAG-GTCAACAA
1 AAAAACGTCGCTATAGATCGAACATTAACGGCGCTTTCTGAAAAACGCCGCTATAGAGTCAAC-A
**
25409300 TTAGTTGGCTTTTTG
65 TTAGTCAGCTTTTTG
25409315 AAAAACGTCGC
1 AAAAACGTCGC
25409326 AAAAAATTAA
Statistics
Matches: 76, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 15 0.20
80 58 0.76
81 3 0.04
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (79 bp):
AAAAACGTCGCTATAGATCGAACATTAACGGCGCTTTCTGAAAAACGCCGCTATAGAGTCAACAT
TAGTCAGCTTTTTG
Found at i:25409425 original size:40 final size:40
Alignment explanation
Indices: 25409381--25409473 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
25409371 CATTAGCGAT
* * *
25409381 GCTTTTTGAAAAACACCGCTATAAATCAAGCATTAGCTGC
1 GCTTTTTGAAAAACACCGCTATAAATCAACCATTAACAGC
** ** *
25409421 GCTTTTTGAAAAACGTCGCTATAGGTCGACCATTAACAGC
1 GCTTTTTGAAAAACACCGCTATAAATCAACCATTAACAGC
25409461 GCTTTTTGAAAAA
1 GCTTTTTGAAAAA
25409474 TTCCACAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (40 bp):
GCTTTTTGAAAAACACCGCTATAAATCAACCATTAACAGC
Found at i:25409583 original size:40 final size:40
Alignment explanation
Indices: 25409525--25409643 Score: 114
Period size: 40 Copynumber: 3.0 Consensus size: 40
25409515 CACTAGTGGC
* ** * * * *
25409525 ATTAGCGGTGCTTTTTGAAAAACGCCGTTATAGGTTGAGC
1 ATTAGCGGCGCTACTTGAAAAACGCCGCTATAGATCGAGA
* *
25409565 ATTAGTGGCGCTACTTGAAAAATGCCGCTATAGATCGAGA
1 ATTAGCGGCGCTACTTGAAAAACGCCGCTATAGATCGAGA
* * *
25409605 ATTAGCGGCGCT-CTTTGTAAAATGCCTCTATAGATCGAG
1 ATTAGCGGCGCTAC-TTGAAAAACGCCGCTATAGATCGAG
25409644 CTTTAACGGC
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.02
40 65 0.98
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (40 bp):
ATTAGCGGCGCTACTTGAAAAACGCCGCTATAGATCGAGA
Found at i:25409616 original size:153 final size:153
Alignment explanation
Indices: 25409217--25409627 Score: 456
Period size: 153 Copynumber: 2.7 Consensus size: 153
25409207 TATAGATTGA
*
25409217 GCATTAGC-A-GCTCTTTTCGAAAAACGTCGCTATAGATCGAGCATTAGCTGCGCTTTTTGAAAA
1 GCATTAGCGATGCT-TTTT-GAAAAACGCCGCTATAGATCGAGCATTAGCTGCGCTTTTTGAAAA
* * ** * *
25409280 GCGCCGCTATAGGTCAACAATTAGTTG-GCTTTTTGAAAAACGTCGCAAAAAATTAAGTACAATG
64 ACGCCGCTATAGGTCGACAATTAGCAGCGCTTTTTGAAAAA-TTCGCAAAAAATTAAGCACAATG
* **
25409344 TCGTCATTATATGTTGAGCTTTAGTG
128 TCCTCATTATATGTTGAGCACTAGTG
* * *
25409370 GCATTAGCGATGCTTTTTGAAAAACACCGCTATAAATCAAGCATTAGCTGCGCTTTTTGAAAAAC
1 GCATTAGCGATGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCTGCGCTTTTTGAAAAAC
* * *
25409435 GTCGCTATAGGTCGACCATTAACAGCGCTTTTTGAAAAATTC-CACAAAAACTTAAGCACAATG-
66 GCCGCTATAGGTCGACAATTAGCAGCGCTTTTTGAAAAATTCGCA-AAAAA-TTAAGCACAATGT
* *
25409498 CCTCGTTTTATGTTGAGCACTAGTG
129 CCTCATTATATGTTGAGCACTAGTG
* * * * **
25409523 GCATTAGCGGTGCTTTTTGAAAAACGCCGTTATAGGTTGAGCATTAG-TGGCGCTACTTGAAAAA
1 GCATTAGCGATGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCT-GCGCTTTTTGAAAAA
* * * * * *
25409587 TGCCGCTATAGATCGAGAATTAGCGGCGCTCTTTGTAAAAT
65 CGCCGCTATAGGTCGACAATTAGCAGCGCTTTTTGAAAAAT
25409628 GCCTCTATAG
Statistics
Matches: 216, Mismatches: 36, Indels: 12
0.82 0.14 0.05
Matches are distributed among these distances:
152 3 0.01
153 181 0.84
154 29 0.13
155 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (153 bp):
GCATTAGCGATGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCTGCGCTTTTTGAAAAAC
GCCGCTATAGGTCGACAATTAGCAGCGCTTTTTGAAAAATTCGCAAAAAATTAAGCACAATGTCC
TCATTATATGTTGAGCACTAGTG
Found at i:25409667 original size:40 final size:41
Alignment explanation
Indices: 25409582--25409672 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 41
25409572 GCGCTACTTG
* *
25409582 AAAAATGCCGCTATAGATCGAGAATTAGCGGCGCTCTTTGT
1 AAAAATGCCGCTATAGATCGAGAATTAACGGCGCTCTTTAT
* **
25409623 -AAAATGCCTCTATAGATCGAGCTTTAACGGCG-T-TTTAT
1 AAAAATGCCGCTATAGATCGAGAATTAACGGCGCTCTTTAT
*
25409661 CAAAAATACCGC
1 -AAAAATGCCGC
25409673 AAAAAAAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
38 4 0.10
39 1 0.02
40 36 0.88
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (41 bp):
AAAAATGCCGCTATAGATCGAGAATTAACGGCGCTCTTTAT
Found at i:25410059 original size:7 final size:7
Alignment explanation
Indices: 25410047--25410188 Score: 126
Period size: 7 Copynumber: 20.0 Consensus size: 7
25410037 CTATTTTAAA
25410047 GTTTATG
1 GTTTATG
*
25410054 GATTATGG
1 GTTTAT-G
*
25410062 GTTTAGG
1 GTTTATG
*
25410069 GATTATG
1 GTTTATG
25410076 GTTTATG
1 GTTTATG
25410083 GTTTATG
1 GTTTATG
25410090 GTTTATG
1 GTTTATG
25410097 GTTTATG
1 GTTTATG
*
25410104 GTTTAAG
1 GTTTATG
**
25410111 CG-TTGGG
1 -GTTTATG
**
25410118 GTTTAAA
1 GTTTATG
*
25410125 GTTTAAG
1 GTTTATG
*
25410132 GGTTA-G
1 GTTTATG
*
25410138 AGATTTAGG
1 -G-TTTATG
25410147 GTTTATG
1 GTTTATG
25410154 GTTTATG
1 GTTTATG
25410161 GTTTATG
1 GTTTATG
25410168 GTTTATG
1 GTTTATG
25410175 GTTTATG
1 GTTTATG
*
25410182 TTTTATG
1 GTTTATG
25410189 ATTCAGTGTT
Statistics
Matches: 112, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
6 2 0.02
7 99 0.88
8 10 0.09
9 1 0.01
ACGTcount: A:0.19, C:0.01, G:0.31, T:0.49
Consensus pattern (7 bp):
GTTTATG
Found at i:25410802 original size:42 final size:41
Alignment explanation
Indices: 25410739--25410819 Score: 126
Period size: 42 Copynumber: 2.0 Consensus size: 41
25410729 GGTTAATTAG
* *
25410739 GTTGAGCAATAGTGGCATTTTTGGCTCCAAACGCCGCAAAAA
1 GTTGAACAATAGTGGCATTTTTGG-TCCAAACACCGCAAAAA
*
25410781 GTTGAACAATAGTGGCGTTTTTGGTCCAAACACCGCAAA
1 GTTGAACAATAGTGGCATTTTTGGTCCAAACACCGCAAA
25410820 TATGTATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 14 0.39
42 22 0.61
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (41 bp):
GTTGAACAATAGTGGCATTTTTGGTCCAAACACCGCAAAAA
Found at i:25411160 original size:14 final size:14
Alignment explanation
Indices: 25411124--25411162 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
25411114 TTTCCCCCAA
*
25411124 TTTCCCTCAAGTTAT
1 TTTCCC-CAAATTAT
25411139 TGTTCCCCAAATTAT
1 T-TTCCCCAAATTAT
25411154 TTTCCCCAA
1 TTTCCCCAA
25411163 TTTCCCCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 9 0.41
16 5 0.23
ACGTcount: A:0.23, C:0.31, G:0.05, T:0.41
Consensus pattern (14 bp):
TTTCCCCAAATTAT
Found at i:25411188 original size:40 final size:39
Alignment explanation
Indices: 25411102--25411190 Score: 108
Period size: 39 Copynumber: 2.2 Consensus size: 39
25411092 TTTACCCAAT
* * * *
25411102 TTCCCAACTTCTTTTCCCCCAATTTCCCTCAAGTTATTG
1 TTCCCAAATTATTTTCCCCCAATTTCCCCCAAGTTATTA
25411141 TTCCCCAAATTATTTT-CCCCAATTTCCCCCAAGTTATCCTA
1 TT-CCCAAATTATTTTCCCCCAATTTCCCCCAAGTTAT--TA
25411182 TTCCCAAAT
1 TTCCCAAAT
25411191 AAGTTTCTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
39 22 0.51
40 18 0.42
41 3 0.07
ACGTcount: A:0.22, C:0.36, G:0.03, T:0.38
Consensus pattern (39 bp):
TTCCCAAATTATTTTCCCCCAATTTCCCCCAAGTTATTA
Found at i:25416833 original size:50 final size:51
Alignment explanation
Indices: 25416761--25416990 Score: 202
Period size: 50 Copynumber: 4.5 Consensus size: 51
25416751 CTGTACTGCT
* * * **
25416761 AATGCCATATCTCAGATATGGTCTTACATGGGAGTTCTCA-CATCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCATCGGTGCC
* **
25416811 CATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATC-TCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCATCGGTGCC
* * * **
25416861 AACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAATTTCAATAATGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCA--TC---GGTGCC
* * * *
25416917 AATGCCATGTCCCAGACATGGTCTTACACT---AGCTCACA-CTTCGGTGTC
1 AATGCCATGTCCCAGACATGGTCTTACA-TGGGACCTCTCATCATCGGTGCC
*
25416965 GATGCCATGTCCCAGACATGGTCTTA
1 AATGCCATGTCCCAGACATGGTCTTA
25416991 TACAAGATCG
Statistics
Matches: 147, Mismatches: 25, Indels: 18
0.77 0.13 0.09
Matches are distributed among these distances:
48 28 0.19
50 76 0.52
51 3 0.02
53 2 0.01
54 6 0.04
56 31 0.21
57 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (51 bp):
AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCATCGGTGCC
Found at i:25420581 original size:25 final size:25
Alignment explanation
Indices: 25420553--25420604 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
25420543 AAGTATTATA
*
25420553 CAAAGAACATAAATGTGCTAATAAT
1 CAAAGAACATAAATGTGCAAATAAT
* **
25420578 CAAAGAGCATCGATGTGCAAATAAT
1 CAAAGAACATAAATGTGCAAATAAT
25420603 CA
1 CA
25420605 GAGAGCACGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.21
Consensus pattern (25 bp):
CAAAGAACATAAATGTGCAAATAAT
Found at i:25424809 original size:86 final size:85
Alignment explanation
Indices: 25424681--25424898 Score: 303
Period size: 85 Copynumber: 2.6 Consensus size: 85
25424671 ACGGCACTTT
* * *
25424681 TAGCGGCGTCTGTGATAAAAGCGTCGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGAAAAAAAA
1 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTG-AAAAAAA
25424746 GCCGCTAAAAGTCAT-TCTCTA
65 GCCGCTAAAAGTCATGT-TCTA
* * **
25424767 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAACGGCGTTTGTGAAAAAGCG
1 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTGAAAAAAAG
* *
25424832 CCGCTAAAGGTCATGTTCTC
66 CCGCTAAAAGTCATGTTCTA
* * *
25424852 TAGAGGCATTTTTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
1 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC
25424899 GGCATTTTTT
Statistics
Matches: 118, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
85 65 0.55
86 53 0.45
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (85 bp):
TAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTGTGAAAAAAAG
CCGCTAAAAGTCATGTTCTA
Found at i:25424907 original size:43 final size:43
Alignment explanation
Indices: 25424679--25424901 Score: 297
Period size: 43 Copynumber: 5.2 Consensus size: 43
25424669 GAACGGCACT
* * *
25424679 TTTAGCGGCGTCTGTGATAAAAGCGTCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * ** *
25424722 TTTAGCAGCGTTTGTGAAAAAAAAGCCGCTAAAAGTCAT-TCTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGT-TC
*
25424765 TATAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
*
25424808 TTTAACGGCGTTTGTGA-AAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * * *
25424850 TCTAGAGGCATTTTTGATAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
25424893 TTTAGCGGC
1 TTTAGCGGC
25424902 ATTTTTTCAT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
42 38 0.25
43 115 0.75
44 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:25429100 original size:39 final size:39
Alignment explanation
Indices: 25429053--25429208 Score: 181
Period size: 39 Copynumber: 4.0 Consensus size: 39
25429043 TCATGTTATA
*
25429053 CATATAATCACCTAACATCCAAGCATATATCACAATACT
1 CATATAATCACATAACATCCAAGCATATATCACAATACT
* * ** * *
25429092 TATGTAATCACATAACATTTAAGTATATATTACAATACT
1 CATATAATCACATAACATCCAAGCATATATCACAATACT
*
25429131 CATATAATCACATAATA-CTCAAGCATATATCACAATA-T
1 CATATAATCACATAACATC-CAAGCATATATCACAATACT
* **
25429169 ACATATAATCTCATAACATTTAAGCATATATCACAATACT
1 -CATATAATCACATAACATCCAAGCATATATCACAATACT
25429209 TAAAACATGT
Statistics
Matches: 95, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
38 1 0.01
39 93 0.98
40 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (39 bp):
CATATAATCACATAACATCCAAGCATATATCACAATACT
Found at i:25429120 original size:78 final size:78
Alignment explanation
Indices: 25429031--25429208 Score: 218
Period size: 78 Copynumber: 2.3 Consensus size: 78
25429021 CATAATCACT
*** * *
25429031 TTTAAGCATATATCATGTTA-TACATATAATCACCTAACA-TCCAAGCATATATCACAATACT-T
1 TTTAAGCATATATCACAATACT-CATATAATCACATAACACT-CAAGCATATATCACAATA-TAC
*
25429093 ATGTAATCACATAACA
63 ATATAATCACATAACA
* * *
25429109 TTTAAGTATATATTACAATACTCATATAATCACATAATACTCAAGCATATATCACAATATACATA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACACTCAAGCATATATCACAATATACATA
*
25429174 TAATCTCATAACA
66 TAATCACATAACA
25429187 TTTAAGCATATATCACAATACT
1 TTTAAGCATATATCACAATACT
25429209 TAAAACATGT
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
77 1 0.01
78 82 0.96
79 2 0.02
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (78 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACACTCAAGCATATATCACAATATACATA
TAATCACATAACA
Found at i:25434626 original size:14 final size:14
Alignment explanation
Indices: 25434607--25434635 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
25434597 GTAGGACATG
25434607 TTAGTTGTTAACCA
1 TTAGTTGTTAACCA
25434621 TTAGTTGTTAACCA
1 TTAGTTGTTAACCA
25434635 T
1 T
25434636 GGAAAAAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (14 bp):
TTAGTTGTTAACCA
Found at i:25435684 original size:27 final size:27
Alignment explanation
Indices: 25435654--25435708 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
25435644 TTCAACCAAA
25435654 AGATTTAAATTCATTTACTTTTATCCT
1 AGATTTAAATTCATTTACTTTTATCCT
25435681 AGATTTAAATTCATTTACTTTTATCCT
1 AGATTTAAATTCATTTACTTTTATCCT
25435708 A
1 A
25435709 TGGCGTATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.51
Consensus pattern (27 bp):
AGATTTAAATTCATTTACTTTTATCCT
Found at i:25437295 original size:18 final size:18
Alignment explanation
Indices: 25437254--25437289 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
25437244 TATTTTTATC
25437254 TCGTTTCTTGTAATTTTT
1 TCGTTTCTTGTAATTTTT
25437272 TCGTTTCTTGTAATTTTT
1 TCGTTTCTTGTAATTTTT
25437290 ATGTTTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (18 bp):
TCGTTTCTTGTAATTTTT
Found at i:25438246 original size:20 final size:19
Alignment explanation
Indices: 25438180--25438260 Score: 81
Period size: 20 Copynumber: 4.1 Consensus size: 19
25438170 TGTACAAGAC
* *
25438180 TTGCACTTTGATGCCCCTAT
1 TTGCACTTTGGTGCCCCT-G
25438200 TTGCACTTTGGTGCCCCTG
1 TTGCACTTTGGTGCCCCTG
* *
25438219 TATACACTTTGGTGTCCCTG
1 T-TGCACTTTGGTGCCCCTG
**
25438239 TTCGCACTACGGTGCCCCTG
1 TT-GCACTTTGGTGCCCCTG
25438259 TT
1 TT
25438261 ATACATCTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.04
20 49 0.96
ACGTcount: A:0.11, C:0.31, G:0.21, T:0.37
Consensus pattern (19 bp):
TTGCACTTTGGTGCCCCTG
Found at i:25438246 original size:40 final size:41
Alignment explanation
Indices: 25438183--25438276 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 41
25438173 ACAAGACTTG
* **
25438183 CACTTTGATGCCCCTATTTGCACTTTGGTGCCCCTG-TATA
1 CACTTTGATGCCCCTATTCGCACTACGGTGCCCCTGTTATA
* * *
25438223 CACTTTGGTGTCCCTGTTCGCACTACGGTGCCCCTGTTATA
1 CACTTTGATGCCCCTATTCGCACTACGGTGCCCCTGTTATA
*
25438264 CATCTATGATGCC
1 CA-CTTTGATGCC
25438277 TTTGGTGTGA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
40 30 0.70
41 6 0.14
42 7 0.16
ACGTcount: A:0.15, C:0.31, G:0.19, T:0.35
Consensus pattern (41 bp):
CACTTTGATGCCCCTATTCGCACTACGGTGCCCCTGTTATA
Found at i:25441604 original size:56 final size:56
Alignment explanation
Indices: 25441537--25441646 Score: 220
Period size: 56 Copynumber: 2.0 Consensus size: 56
25441527 CCTGTGTATG
25441537 ATTCGGATTAGTTCGACCCATACTCGAAGTAGTTTGTGGTACGAAAATAGTGGATA
1 ATTCGGATTAGTTCGACCCATACTCGAAGTAGTTTGTGGTACGAAAATAGTGGATA
25441593 ATTCGGATTAGTTCGACCCATACTCGAAGTAGTTTGTGGTACGAAAATAGTGGA
1 ATTCGGATTAGTTCGACCCATACTCGAAGTAGTTTGTGGTACGAAAATAGTGGA
25441647 GAAAACCATT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (56 bp):
ATTCGGATTAGTTCGACCCATACTCGAAGTAGTTTGTGGTACGAAAATAGTGGATA
Found at i:25444485 original size:6 final size:7
Alignment explanation
Indices: 25444469--25444496 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
25444459 AACACAATTA
25444469 TTTTTCT
1 TTTTTCT
25444476 TTTTTCT
1 TTTTTCT
25444483 TTTTTCT
1 TTTTTCT
25444490 TTTTTCT
1 TTTTTCT
25444497 CTTCAACAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTCT
Found at i:25461035 original size:78 final size:78
Alignment explanation
Indices: 25460947--25461180 Score: 468
Period size: 78 Copynumber: 3.0 Consensus size: 78
25460937 TATCTTATAA
25460947 CTTAGTAATCATTTTCGTAAAGTGCCAGGTAGTTCATCACCGCCAGTTTCTCTTATTTCATCATC
1 CTTAGTAATCATTTTCGTAAAGTGCCAGGTAGTTCATCACCGCCAGTTTCTCTTATTTCATCATC
25461012 CACTATCTATCAC
66 CACTATCTATCAC
25461025 CTTAGTAATCATTTTCGTAAAGTGCCAGGTAGTTCATCACCGCCAGTTTCTCTTATTTCATCATC
1 CTTAGTAATCATTTTCGTAAAGTGCCAGGTAGTTCATCACCGCCAGTTTCTCTTATTTCATCATC
25461090 CACTATCTATCAC
66 CACTATCTATCAC
25461103 CTTAGTAATCATTTTCGTAAAGTGCCAGGTAGTTCATCACCGCCAGTTTCTCTTATTTCATCATC
1 CTTAGTAATCATTTTCGTAAAGTGCCAGGTAGTTCATCACCGCCAGTTTCTCTTATTTCATCATC
25461168 CACTATCTATCAC
66 CACTATCTATCAC
25461181 AGTGAGTGTC
Statistics
Matches: 156, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 156 1.00
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (78 bp):
CTTAGTAATCATTTTCGTAAAGTGCCAGGTAGTTCATCACCGCCAGTTTCTCTTATTTCATCATC
CACTATCTATCAC
Found at i:25461687 original size:28 final size:28
Alignment explanation
Indices: 25461615--25461946 Score: 418
Period size: 28 Copynumber: 11.9 Consensus size: 28
25461605 CTTCATACAG
* * *
25461615 AGTTCACCACAAAAGC-TAATCTTCCAT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
**
25461642 AGTTTGCCAACAAA-GCTTATTCTTTCAT
1 AGTTCACC-ACAAAGGCTTATTCTTTCAT
*
25461670 AGTTCACCACAAAGGCTTATTCTTTCGT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
25461698 AGTTCACCACAAAGGCTTATTCTTTC-T
1 AGTTCACCACAAAGGCTTATTCTTTCAT
*
25461725 AGTTCACCACAAAGGCTTATTCTTTCGT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
*
25461753 AGTTCACCACAAAGGCTTATTCTTTCGT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
** *
25461781 AGTTTGCCACAAAGGCTTATTCTTTCGT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
*
25461809 AGTTCACCACAAAGGCTTATTCTTTCGT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
** *
25461837 AGTTTGCCACAAAGGCTTATTATTTCAT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
* *
25461865 ACTTCACCACAAAGACTTATTCTTTCAT
1 AGTTCACCACAAAGGCTTATTCTTTCAT
* * *
25461893 AGTTCGCCACAAAGACTTATTCTTTCAC
1 AGTTCACCACAAAGGCTTATTCTTTCAT
** * *
25461921 AGTTCGTCACAGAGGCTCATTCTTTC
1 AGTTCACCACAAAGGCTTATTCTTTC
25461947 TCGACGTGTT
Statistics
Matches: 274, Mismatches: 27, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
27 40 0.15
28 234 0.85
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.36
Consensus pattern (28 bp):
AGTTCACCACAAAGGCTTATTCTTTCAT
Found at i:25465255 original size:11 final size:11
Alignment explanation
Indices: 25465223--25465249 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
25465213 TCAATTGGCA
25465223 TTAATTAACTT
1 TTAATTAACTT
25465234 TTAATTAACTT
1 TTAATTAACTT
25465245 TTAAT
1 TTAAT
25465250 CTACTTATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (11 bp):
TTAATTAACTT
Found at i:25472470 original size:3 final size:3
Alignment explanation
Indices: 25472462--25472496 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
25472452 TCTATCCTTT
*
25472462 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
25472497 TAACTAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:25474295 original size:41 final size:40
Alignment explanation
Indices: 25474230--25474321 Score: 105
Period size: 41 Copynumber: 2.3 Consensus size: 40
25474220 GGCGCTAACG
* * * *
25474230 GAAAAATATCGTAATAGGTAAAGCAGTAGCAGCGT-TTATGA
1 GAAAAACACCGTAAAAGGTAAAGCAGTAGC-G-GTGCTATGA
* *
25474271 GAAAAACACCGTAAAAGGTTAAGCATTAGCGGTGCTATGA
1 GAAAAACACCGTAAAAGGTAAAGCAGTAGCGGTGCTATGA
25474311 GAAAAACACCG
1 GAAAAACACCG
25474322 CAAAGTATCA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 2 0.05
40 17 0.39
41 25 0.57
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (40 bp):
GAAAAACACCGTAAAAGGTAAAGCAGTAGCGGTGCTATGA
Found at i:25474735 original size:25 final size:25
Alignment explanation
Indices: 25474706--25474753 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
25474696 TATTAGCTCA
25474706 ATTTTTATT-ATTTCATTTAACAATT
1 ATTTTT-TTCATTTCATTTAACAATT
25474731 ATTTTTTTCATTTCATTTAACAA
1 ATTTTTTTCATTTCATTTAACAA
25474754 AATCCTATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTTTTTCATTTCATTTAACAATT
Found at i:25477735 original size:72 final size:72
Alignment explanation
Indices: 25477535--25477752 Score: 205
Period size: 71 Copynumber: 3.1 Consensus size: 72
25477525 ATTAATTATC
* ** *
25477535 AAGTAAAATCGTTTATTTAATTATGTGTTTTTAAAAA-TGTTAATTTAGTTCAATTTATT-AAGT
1 AAGTAAAAACGTTTATTTAATTATGAATTTTTAAAAAGT-TTAATTTAGTTCAATTTATTGAA-A
25477598 TTTGATATT
64 TTTGATATT
** * * * * * **
25477607 -AGCGAAACCGTTTATTTAGTTAT-ACA-TTTTCAGAAGCTTAATTTAGTTTGATTTATTGAAAT
1 AAGTAAAAACGTTTATTTAATTATGA-ATTTTTAAAAAGTTTAATTTAGTTCAATTTATTGAAAT
25477669 TTGATATT
65 TTGATATT
* * * *
25477677 AAGTAAAAACGTTTGTTCAATTATGAATTTTTAAAAAGTTTAATTTAGTTCAACTTATTG-ACTT
1 AAGTAAAAACGTTTATTTAATTATGAATTTTTAAAAAGTTTAATTTAGTTCAATTTATTGAAATT
25477741 CTGATATT
66 -TGATATT
25477749 AAGT
1 AAGT
25477753 GGAACCATTT
Statistics
Matches: 114, Mismatches: 25, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
70 34 0.30
71 42 0.37
72 38 0.33
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.47
Consensus pattern (72 bp):
AAGTAAAAACGTTTATTTAATTATGAATTTTTAAAAAGTTTAATTTAGTTCAATTTATTGAAATT
TGATATT
Found at i:25478178 original size:25 final size:26
Alignment explanation
Indices: 25478144--25478192 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
25478134 TTATTATTTA
25478144 TTTTAGTTTTGATTCT-AAATTTAAAT
1 TTTTAGTTTT-ATTCTAAAATTTAAAT
*
25478170 TTTTA-TTTTATTTTAAAATTTAA
1 TTTTAGTTTTATTCTAAAATTTAA
25478193 GATAACATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 12 0.57
26 5 0.24
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (26 bp):
TTTTAGTTTTATTCTAAAATTTAAAT
Found at i:25478278 original size:88 final size:87
Alignment explanation
Indices: 25478159--25478347 Score: 344
Period size: 88 Copynumber: 2.1 Consensus size: 87
25478149 GTTTTGATTC
25478159 TAAATTTAAATTTTTATTTTATTTTAAAATTTAAGATAACATGAGTTCTAACTTTTGGATTTTAA
1 TAAATTTAAATTTTTATTTTATTTTAAAATTTAAGATAACATGAGTTCTAACTTTTGGATTTTAA
25478224 TTGTGTTATTAATTTATTATTT
66 TTGTGTTATTAATTTATTATTT
25478246 TAAATTCTAAA-TTTTATTTTTATTTTAAAATTTAAGATAACATGAGTTCTAACTTTTGGATTTT
1 TAAATT-TAAATTTTTA-TTTTATTTTAAAATTTAAGATAACATGAGTTCTAACTTTTGGATTTT
25478310 AATTGTGTTATTAATTTATTATTT
64 AATTGTGTTATTAATTTATTATTT
25478334 TAAATTTTAAATTT
1 TAAA-TTTAAATTT
25478348 AAATTCATTA
Statistics
Matches: 98, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
87 11 0.11
88 83 0.85
89 4 0.04
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (87 bp):
TAAATTTAAATTTTTATTTTATTTTAAAATTTAAGATAACATGAGTTCTAACTTTTGGATTTTAA
TTGTGTTATTAATTTATTATTT
Found at i:25478821 original size:13 final size:13
Alignment explanation
Indices: 25478803--25478829 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25478793 TAATTAAAGG
25478803 GTTAAAATTTAAA
1 GTTAAAATTTAAA
25478816 GTTAAAATTTAAA
1 GTTAAAATTTAAA
25478829 G
1 G
25478830 ATGATAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (13 bp):
GTTAAAATTTAAA
Found at i:25478899 original size:53 final size:54
Alignment explanation
Indices: 25478841--25478955 Score: 205
Period size: 54 Copynumber: 2.1 Consensus size: 54
25478831 TGATAATCAA
* *
25478841 AACTTACATAAACATTTAAAGAAT-AAAAAAAAACTTTGGATCATAATTTACAT
1 AACTTACATAAACATTTAAAAAATAAAAAAAAAACTTTGGATCATAACTTACAT
25478894 AACTTACATAAACATTTAAAAAATAAAAAAAAAACTTTGGATCATAACTTACAT
1 AACTTACATAAACATTTAAAAAATAAAAAAAAAACTTTGGATCATAACTTACAT
25478948 AACTTACA
1 AACTTACA
25478956 GAACTTACAT
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
53 23 0.39
54 36 0.61
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.29
Consensus pattern (54 bp):
AACTTACATAAACATTTAAAAAATAAAAAAAAAACTTTGGATCATAACTTACAT
Found at i:25478950 original size:9 final size:9
Alignment explanation
Indices: 25478936--25479064 Score: 81
Period size: 9 Copynumber: 14.8 Consensus size: 9
25478926 AACTTTGGAT
25478936 CATAACTTA
1 CATAACTTA
25478945 CATAACTTA
1 CATAACTTA
*
25478954 CAGAACTTA
1 CATAACTTA
*
25478963 CATTA--TA
1 CATAACTTA
*
25478970 CATAA-ATA
1 CATAACTTA
* * *
25478978 TATATCATA
1 CATAACTTA
*
25478987 TCATAAATTA
1 -CATAACTTA
*
25478997 CATTACTTA
1 CATAACTTA
25479006 CATAACTTA
1 CATAACTTA
*
25479015 CATAA-ATA
1 CATAACTTA
* * *
25479023 TATATCATA
1 CATAACTTA
*
25479032 TTATAACTTA
1 -CATAACTTA
25479042 CATAACTTA
1 CATAACTTA
25479051 CATAA--TA
1 CATAACTTA
25479058 CATAACT
1 CATAACT
25479065 ATAAATCATA
Statistics
Matches: 94, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
7 13 0.14
8 10 0.11
9 59 0.63
10 12 0.13
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:25479094 original size:45 final size:43
Alignment explanation
Indices: 25478945--25479089 Score: 209
Period size: 43 Copynumber: 3.3 Consensus size: 43
25478935 TCATAACTTA
* *
25478945 CATAACTTACAGAACTTACATTATACATAAATATATATCATAT
1 CATAACTTACATAACTTACATAATACATAAATATATATCATAT
* *
25478988 CATAAATTACATTACTTACATAACTTACATAAATATATATCATAT
1 CATAACTTACATAACTTACATAA--TACATAAATATATATCATAT
* * *
25479033 TATAACTTACATAACTTACATAATACATAACTATAAATCATAT
1 CATAACTTACATAACTTACATAATACATAAATATATATCATAT
25479076 CATAACTTACATAA
1 CATAACTTACATAA
25479090 AACTTTGGAT
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
43 50 0.56
45 40 0.44
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.35
Consensus pattern (43 bp):
CATAACTTACATAACTTACATAATACATAAATATATATCATAT
Found at i:25490884 original size:17 final size:17
Alignment explanation
Indices: 25490862--25490904 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
25490852 ATATCTCCGA
25490862 CAAGCTTCCAACCCAAT
1 CAAGCTTCCAACCCAAT
25490879 CAAGCTTCCAACCCAAT
1 CAAGCTTCCAACCCAAT
25490896 CAAGCTTCC
1 CAAGCTTCC
25490905 GATAATCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.33, C:0.42, G:0.07, T:0.19
Consensus pattern (17 bp):
CAAGCTTCCAACCCAAT
Found at i:25493870 original size:11 final size:11
Alignment explanation
Indices: 25493854--25493900 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
25493844 TTTTATACTA
25493854 AATAAAATAAT
1 AATAAAATAAT
25493865 AATAAAATATAT
1 AATAAAATA-AT
* *
25493877 CATTAAAATATT
1 -AATAAAATAAT
25493889 AATAAAATAAT
1 AATAAAATAAT
25493900 A
1 A
25493901 TTTATCTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
11 19 0.63
12 3 0.10
13 8 0.27
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:25496804 original size:43 final size:43
Alignment explanation
Indices: 25496743--25496859 Score: 171
Period size: 43 Copynumber: 2.7 Consensus size: 43
25496733 GTTTATGTGG
* * * *
25496743 AAAAACACCGTTAAAGAACATGACCTTTAGCGGTGATTCTCCT
1 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGATTCTCCT
*
25496786 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTCTCCT
1 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGATTCTCCT
* *
25496829 ACAAACGCCGCTAAGGAACATGATCTTTAGC
1 AAAAACGCCGCTAAAGAACATGATCTTTAGC
25496860 ATCGTTTTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGATTCTCCT
Found at i:25501810 original size:35 final size:34
Alignment explanation
Indices: 25501737--25501820 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 34
25501727 GCAGACGGTT
* * *
25501737 GGGAAAAATCTAAGGGATTTGGGGATTTTGATTTG
1 GGGAAAAAACTAAGGGATTTGGGGAATTT-ATTAG
*
25501772 GGGAAAAAAATAAGGGATTTGGGGAAAATTT-TTAG
1 GGGAAAAAACTAAGGGATTTGGGG--AATTTATTAG
25501807 GGGAAAAAACTAAG
1 GGGAAAAAACTAAG
25501821 CTTAGCAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 38 0.90
37 4 0.10
ACGTcount: A:0.39, C:0.02, G:0.32, T:0.26
Consensus pattern (34 bp):
GGGAAAAAACTAAGGGATTTGGGGAATTTATTAG
Found at i:25503042 original size:82 final size:82
Alignment explanation
Indices: 25502947--25503111 Score: 312
Period size: 82 Copynumber: 2.0 Consensus size: 82
25502937 TTAATCTCTA
*
25502947 ACATCTTTGTTACTAAGTAAGATGCAACAATTGCAACATATAACACCACTATAAACTTTGAAAAT
1 ACATCTTTGTTACTAAGTAAGATGCAACAATTGCAACATATAACACCACCATAAACTTTGAAAAT
25503012 AAGTGCTTTTACATGGG
66 AAGTGCTTTTACATGGG
*
25503029 ACATCTTTGTTACTAAGTAAGATGCAACAATTGCAACTTATAACACCACCATAAACTTTGAAAAT
1 ACATCTTTGTTACTAAGTAAGATGCAACAATTGCAACATATAACACCACCATAAACTTTGAAAAT
25503094 AAGTGCTTTTACATGGG
66 AAGTGCTTTTACATGGG
25503111 A
1 A
25503112 GACTTGAGTG
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (82 bp):
ACATCTTTGTTACTAAGTAAGATGCAACAATTGCAACATATAACACCACCATAAACTTTGAAAAT
AAGTGCTTTTACATGGG
Found at i:25507310 original size:36 final size:36
Alignment explanation
Indices: 25507269--25507337 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
25507259 GATTATTTAA
25507269 TCTTAGAGTTCCAATTGTATACAACTTCTAATTATG
1 TCTTAGAGTTCCAATTGTATACAACTTCTAATTATG
* * *
25507305 TCTTAGAGTTCTAATTGTATATAACTTTTAATT
1 TCTTAGAGTTCCAATTGTATACAACTTCTAATT
25507338 GTAGCCTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.46
Consensus pattern (36 bp):
TCTTAGAGTTCCAATTGTATACAACTTCTAATTATG
Found at i:25516155 original size:39 final size:39
Alignment explanation
Indices: 25516111--25516189 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
25516101 TTTGAATTAA
* *
25516111 TCGAGTTGACGAATCCTATTTTATTATCCTAACATGATT
1 TCGAGTTGACGAATCATATTTTATCATCCTAACATGATT
*
25516150 TCGAGTTGACGAATCATATTTTATCATCCTAACTTGATT
1 TCGAGTTGACGAATCATATTTTATCATCCTAACATGATT
25516189 T
1 T
25516190 GAAATTTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.42
Consensus pattern (39 bp):
TCGAGTTGACGAATCATATTTTATCATCCTAACATGATT
Found at i:25523695 original size:21 final size:21
Alignment explanation
Indices: 25523657--25523696 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25523647 ATTCAACCAA
*
25523657 TTCAAAACACGATCAAATACC
1 TTCAAAACACGATAAAATACC
* *
25523678 TTCAAAACATGTTAAAATA
1 TTCAAAACACGATAAAATA
25523697 ATCAACCTAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.25
Consensus pattern (21 bp):
TTCAAAACACGATAAAATACC
Found at i:25524547 original size:41 final size:40
Alignment explanation
Indices: 25524450--25524558 Score: 125
Period size: 37 Copynumber: 2.8 Consensus size: 40
25524440 TGGATGATTC
* *
25524450 GAAGTAATAAGTTGACACCCAGTGTCTCATCGGCTAAGCT
1 GAAGTAATAAATTGACACCCAGTGTCTCATCGACTAAGCT
* * * *
25524490 GAAG---TAAATTGGCACCCAGTGCCTCATCGAATTAATCT
1 GAAGTAATAAATTGACACCCAGTGTCTCATCG-ACTAAGCT
*
25524528 GAAGTAATAAATTAACACCCAGTGTCTCATC
1 GAAGTAATAAATTGACACCCAGTGTCTCATC
25524559 AACTCGAAGT
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
37 22 0.39
38 9 0.16
40 4 0.07
41 21 0.38
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (40 bp):
GAAGTAATAAATTGACACCCAGTGTCTCATCGACTAAGCT
Found at i:25527154 original size:10 final size:10
Alignment explanation
Indices: 25527141--25527170 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
25527131 CCACACGGGT
25527141 ACACACAGGC
1 ACACACAGGC
*
25527151 ACACACGGGC
1 ACACACAGGC
25527161 ACACACAGGC
1 ACACACAGGC
25527171 GTGAGGGCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.37, C:0.40, G:0.23, T:0.00
Consensus pattern (10 bp):
ACACACAGGC
Found at i:25527157 original size:20 final size:20
Alignment explanation
Indices: 25527132--25527170 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
25527122 CAGTGTGGGC
*
25527132 CACACGGGTACACACAGGCA
1 CACACGGGCACACACAGGCA
25527152 CACACGGGCACACACAGGC
1 CACACGGGCACACACAGGC
25527171 GTGAGGGCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.38, G:0.26, T:0.03
Consensus pattern (20 bp):
CACACGGGCACACACAGGCA
Found at i:25528372 original size:24 final size:26
Alignment explanation
Indices: 25528333--25528387 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
25528323 ATTGTTTTAT
* * *
25528333 TATTTACTTTATTATT-A-TAATATA
1 TATTTACTTAAATATTAAGTAATACA
25528357 TATTTACTTAAATATTAAGTAATACA
1 TATTTACTTAAATATTAAGTAATACA
25528383 TATTT
1 TATTT
25528388 TATTGTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 14 0.54
25 1 0.04
26 11 0.42
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (26 bp):
TATTTACTTAAATATTAAGTAATACA
Found at i:25529438 original size:11 final size:11
Alignment explanation
Indices: 25529424--25529455 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
25529414 GTTTAAGTTT
25529424 AGTTAATTATA
1 AGTTAATTATA
25529435 AGTTAA-T-TA
1 AGTTAATTATA
25529444 AGTTAATTATA
1 AGTTAATTATA
25529455 A
1 A
25529456 TAAATTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.42
10 2 0.11
11 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (11 bp):
AGTTAATTATA
Found at i:25530455 original size:22 final size:22
Alignment explanation
Indices: 25530429--25530542 Score: 106
Period size: 22 Copynumber: 5.2 Consensus size: 22
25530419 ATGGATTCAA
*
25530429 CACTTTAGTGCTCTCTGTCTAG
1 CACTTTAGTGCTCTCTATCTAG
* *
25530451 CAC-TTCGATGCTCTCTATCCAG
1 CACTTTAG-TGCTCTCTATCTAG
** *
25530473 CACTTCGGTGCTCTCTA-CTTGG
1 CACTTTAGTGCTCTCTATC-TAG
* *
25530495 CATTTTAGTGCTCTCTATTTAG
1 CACTTTAGTGCTCTCTATCTAG
* *
25530517 CACTTTGGTGCTCTCTATTTAG
1 CACTTTAGTGCTCTCTATCTAG
25530539 CACT
1 CACT
25530543 ATGGTGCTTT
Statistics
Matches: 74, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
21 4 0.05
22 68 0.92
23 2 0.03
ACGTcount: A:0.15, C:0.28, G:0.17, T:0.40
Consensus pattern (22 bp):
CACTTTAGTGCTCTCTATCTAG
Found at i:25530541 original size:66 final size:66
Alignment explanation
Indices: 25530432--25530555 Score: 169
Period size: 66 Copynumber: 1.9 Consensus size: 66
25530422 GATTCAACAC
*
25530432 TTTAGTGCTCTCTGTCTAGCACTTCGATGCTCTCTATCCAGCACT-TCGGTGCTCTCTACTTGGC
1 TTTAGTGCTCTCTATCTAGCACTTCGATGCTCTCTATCCAGCACTAT-GGTGCTCTCTACTTGGC
25530496 AT
65 AT
* * * ** *
25530498 TTTAGTGCTCTCTATTTAGCACTTTGGTGCTCTCTATTTAGCACTATGGTGCTTTCTA
1 TTTAGTGCTCTCTATCTAGCACTTCGATGCTCTCTATCCAGCACTATGGTGCTCTCTA
25530556 GTATGGTGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
66 49 0.98
67 1 0.02
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.42
Consensus pattern (66 bp):
TTTAGTGCTCTCTATCTAGCACTTCGATGCTCTCTATCCAGCACTATGGTGCTCTCTACTTGGCA
T
Found at i:25530547 original size:22 final size:21
Alignment explanation
Indices: 25530436--25530555 Score: 105
Period size: 22 Copynumber: 5.5 Consensus size: 21
25530426 CAACACTTTA
* *
25530436 GTGCTCTCTGTCTAGCACTTCG
1 GTGCTCTCTATTTAGCACTT-G
* **
25530458 ATGCTCTCTATCCAGCACTTCG
1 GTGCTCTCTATTTAGCACTT-G
* * * *
25530480 GTGCTCTCTACTTGGCATTTTA
1 GTGCTCTCTATTTAGCA-CTTG
25530502 GTGCTCTCTATTTAGCACTTTG
1 GTGCTCTCTATTTAGCAC-TTG
25530524 GTGCTCTCTATTTAGCACTATG
1 GTGCTCTCTATTTAGCACT-TG
*
25530546 GTGCTTTCTA
1 GTGCTCTCTA
25530556 GTATGGTGTA
Statistics
Matches: 80, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
21 1 0.01
22 77 0.96
23 2 0.03
ACGTcount: A:0.14, C:0.27, G:0.18, T:0.41
Consensus pattern (21 bp):
GTGCTCTCTATTTAGCACTTG
Found at i:25530550 original size:44 final size:43
Alignment explanation
Indices: 25530429--25530555 Score: 119
Period size: 44 Copynumber: 2.9 Consensus size: 43
25530419 ATGGATTCAA
* * * *
25530429 CACTTTAGTGCTCTCTGTCTAGCACTTCGATGCTCTCTATCCAG
1 CACTTTGGTGCTCTCTATTTAGCACTT-GGTGCTCTCTATCCAG
* * * * * **
25530473 CACTTCGGTGCTCTCTACTTGGCATTTTAGTGCTCTCTATTTAG
1 CACTTTGGTGCTCTCTATTTAGCA-CTTGGTGCTCTCTATCCAG
*
25530517 CACTTTGGTGCTCTCTATTTAGCACTATGGTGCTTTCTA
1 CACTTTGGTGCTCTCTATTTAGCACT-TGGTGCTCTCTA
25530556 GTATGGTGTA
Statistics
Matches: 64, Mismatches: 17, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
43 1 0.02
44 61 0.95
45 2 0.03
ACGTcount: A:0.15, C:0.27, G:0.17, T:0.41
Consensus pattern (43 bp):
CACTTTGGTGCTCTCTATTTAGCACTTGGTGCTCTCTATCCAG
Found at i:25536918 original size:13 final size:13
Alignment explanation
Indices: 25536900--25536924 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25536890 ATAATGTTTA
25536900 AATTAACAATATG
1 AATTAACAATATG
25536913 AATTAACAATAT
1 AATTAACAATAT
25536925 CATCTAATTG
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:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (13 bp):
AATTAACAATATG
Found at i:25537292 original size:16 final size:16
Alignment explanation
Indices: 25537271--25537302 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25537261 CTTCAAGCAG
*
25537271 AGAAAGATTACGCCCA
1 AGAAAGAGTACGCCCA
25537287 AGAAAGAGTACGCCCA
1 AGAAAGAGTACGCCCA
25537303 GGGTATTGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.25, G:0.22, T:0.09
Consensus pattern (16 bp):
AGAAAGAGTACGCCCA
Found at i:25540427 original size:25 final size:25
Alignment explanation
Indices: 25540399--25540481 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 25
25540389 GTCACTTATA
*
25540399 AAGCCTTTGTGGCGATTTACTTCAG
1 AAGCCTTTGTGGCAATTTACTTCAG
* * *
25540424 AAGCCTTTGTGGCAAGTCACTTGTA-
1 AAGCCTTTGTGGCAATTTACTT-CAG
**
25540449 AAGCCTTTGTGGCAATTTACTTGGG
1 AAGCCTTTGTGGCAATTTACTTCAG
25540474 AAGCCTTT
1 AAGCCTTT
25540482 TTGGTGAGTC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
25 47 0.98
26 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (25 bp):
AAGCCTTTGTGGCAATTTACTTCAG
Found at i:25540492 original size:50 final size:50
Alignment explanation
Indices: 25540386--25540501 Score: 153
Period size: 50 Copynumber: 2.3 Consensus size: 50
25540376 ACGCATTACA
*
25540386 CGAGTCACTTATAAAGCCTTTGTGGCGATTTACTTCAGAAGCCTTTGTGG
1 CGAGTCACTTATAAAGCCTTTGTGGCAATTTACTTCAGAAGCCTTTGTGG
* * ** *
25540436 CAAGTCACTTGTAAAGCCTTTGTGGCAATTTACTTGGGAAGCCTTTTTGG
1 CGAGTCACTTATAAAGCCTTTGTGGCAATTTACTTCAGAAGCCTTTGTGG
*
25540486 TGAGTCA-TCTATAAAG
1 CGAGTCACT-TATAAAG
25540502 TTTATGTGGC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
49 1 0.02
50 55 0.98
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.34
Consensus pattern (50 bp):
CGAGTCACTTATAAAGCCTTTGTGGCAATTTACTTCAGAAGCCTTTGTGG
Found at i:25542522 original size:16 final size:16
Alignment explanation
Indices: 25542501--25542532 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
25542491 ACTCAAAATA
25542501 AATCATATTTCCAAGT
1 AATCATATTTCCAAGT
25542517 AATCATATTTCCAAGT
1 AATCATATTTCCAAGT
25542533 TAACATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (16 bp):
AATCATATTTCCAAGT
Found at i:25544255 original size:49 final size:49
Alignment explanation
Indices: 25544198--25544291 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
25544188 CAAAACAGAT
*
25544198 GGATGAATTATTTTCGTAAAGAGTATACAGTAAGGAGTTTTCAATCATG
1 GGATGAATTATTTTCGTAAAGAGTATACAATAAGGAGTTTTCAATCATG
*
25544247 GGATGAATTTTTTTCGTAAAGAGTATACAATAAGGAGTTTTCAAT
1 GGATGAATTATTTTCGTAAAGAGTATACAATAAGGAGTTTTCAAT
25544292 AAGTAAATTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.36
Consensus pattern (49 bp):
GGATGAATTATTTTCGTAAAGAGTATACAATAAGGAGTTTTCAATCATG
Found at i:25544619 original size:10 final size:10
Alignment explanation
Indices: 25544604--25544632 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
25544594 TAAATTAGTC
25544604 AAATTAATTA
1 AAATTAATTA
25544614 AAATTAATTA
1 AAATTAATTA
25544624 AAATTAATT
1 AAATTAATT
25544633 TGATATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AAATTAATTA
Found at i:25545197 original size:58 final size:61
Alignment explanation
Indices: 25545099--25545216 Score: 152
Period size: 63 Copynumber: 2.0 Consensus size: 61
25545089 AGTGATCATC
* *
25545099 TTAATATTAAATTAAATTTAATATTTATCTATATAAGATAAATATTCTATTAATTTAATAGAT
1 TTAATATTAAATTAAATCTAATATTTATC-ATAT-AGATAAATATTATATTAATTTAATAGAT
* * *
25545162 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAGTGTTATATTAATTTAATA
1 TTAATATTAAATTAAATCTAATATTTATCATATAGATAAATATTATATTAATTTAATA
25545217 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
58 21 0.42
60 1 0.02
61 1 0.02
63 27 0.54
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (61 bp):
TTAATATTAAATTAAATCTAATATTTATCATATAGATAAATATTATATTAATTTAATAGAT
Found at i:25547640 original size:20 final size:20
Alignment explanation
Indices: 25547615--25547664 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
25547605 TGAGTTATTT
25547615 AAGTAAGCAAATAAGTAAAC
1 AAGTAAGCAAATAAGTAAAC
* *
25547635 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AATAAGTAAAC
25547655 AAG-AAGCAAA
1 AAGTAAGCAAA
25547665 GACCATGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.60, C:0.06, G:0.22, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAATAAGTAAAC
Found at i:25551334 original size:42 final size:42
Alignment explanation
Indices: 25551287--25551458 Score: 344
Period size: 42 Copynumber: 4.1 Consensus size: 42
25551277 TGTATTAGAA
25551287 AGTTATTGGCATGAAATTTATATGTGAATTGATTTTAATTTG
1 AGTTATTGGCATGAAATTTATATGTGAATTGATTTTAATTTG
25551329 AGTTATTGGCATGAAATTTATATGTGAATTGATTTTAATTTG
1 AGTTATTGGCATGAAATTTATATGTGAATTGATTTTAATTTG
25551371 AGTTATTGGCATGAAATTTATATGTGAATTGATTTTAATTTG
1 AGTTATTGGCATGAAATTTATATGTGAATTGATTTTAATTTG
25551413 AGTTATTGGCATGAAATTTATATGTGAATTGATTTTAATTTG
1 AGTTATTGGCATGAAATTTATATGTGAATTGATTTTAATTTG
25551455 AGTT
1 AGTT
25551459 TGAATTAGAT
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 130 1.00
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (42 bp):
AGTTATTGGCATGAAATTTATATGTGAATTGATTTTAATTTG
Found at i:25551837 original size:4 final size:4
Alignment explanation
Indices: 25551821--25551892 Score: 137
Period size: 4 Copynumber: 18.2 Consensus size: 4
25551811 GGAGGAATAA
25551821 GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
25551868 GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT G
25551893 GGGCTTAGAT
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 3 0.04
4 64 0.96
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
GTAT
Found at i:25554939 original size:24 final size:24
Alignment explanation
Indices: 25554877--25554925 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
25554867 CAAATCTTTA
25554877 CCTGATTAAAAATGTGAATTTGAG
1 CCTGATTAAAAATGTGAATTTGAG
25554901 CCTGATTAAAAATGTGAATTTGAG
1 CCTGATTAAAAATGTGAATTTGAG
25554925 C
1 C
25554926 TTTTCTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (24 bp):
CCTGATTAAAAATGTGAATTTGAG
Found at i:25565151 original size:25 final size:25
Alignment explanation
Indices: 25565109--25565162 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
25565099 TTTTTTCAAA
*
25565109 AATTTAATTAATATAAAATATTA-AT
1 AATTTAATAAATATAAAA-ATTAGAT
25565134 AATTTAATAAAT-TAAAAAATTAGAT
1 AATTTAATAAATAT-AAAAATTAGAT
25565159 AATT
1 AATT
25565163 AAATTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (25 bp):
AATTTAATAAATATAAAAATTAGAT
Found at i:25565800 original size:16 final size:16
Alignment explanation
Indices: 25565779--25565814 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
25565769 AATTATCATC
25565779 TTTTC-TTCTTTTCTTT
1 TTTTCTTTC-TTTCTTT
25565795 TTTTCTTTCTTTCTTT
1 TTTTCTTTCTTTCTTT
25565811 TTTT
1 TTTT
25565815 GAACTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTCTTTCTTTCTTT
Found at i:25572346 original size:43 final size:42
Alignment explanation
Indices: 25572189--25572358 Score: 175
Period size: 43 Copynumber: 4.0 Consensus size: 42
25572179 TAGGATTCCG
* * * *
25572189 GTATGTGATTACGTGTAAGACCACTTCTGAGACGTTGGCATC
1 GTATTTGATTACGTGTAAGACCACGTCTGGGACGATGGCATC
*
25572231 -TATTTGAGATTTACGTGTAAGACCATGTCTGGGAC-ATTGGCATC
1 GTATTT--GA-TTACGTGTAAGACCACGTCTGGGACGA-TGGCATC
* * **
25572275 GTATATGATTTCGTGTAAGACCTTGTCTGGGAC-AGTGGCATC
1 GTATTTGATTACGTGTAAGACCACGTCTGGGACGA-TGGCATC
*
25572317 GATATTTGATTACATGTAAGACCACGTCTGGGACGATGGCAT
1 G-TATTTGATTACGTGTAAGACCACGTCTGGGACGATGGCAT
25572359 TGTACAAGTT
Statistics
Matches: 107, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
41 4 0.04
42 32 0.30
43 37 0.35
44 30 0.28
45 4 0.04
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
GTATTTGATTACGTGTAAGACCACGTCTGGGACGATGGCATC
Found at i:25585113 original size:21 final size:21
Alignment explanation
Indices: 25585089--25585144 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
25585079 ACAGTTTGCT
25585089 CACACTGCCATGTGACCCATC
1 CACACTGCCATGTGACCCATC
* * *
25585110 CACA-TAGCCATCTAACCCATT
1 CACACT-GCCATGTGACCCATC
25585131 CACAC-GACCATGTG
1 CACACTG-CCATGTG
25585145 GCCTATTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.29, C:0.39, G:0.12, T:0.20
Consensus pattern (21 bp):
CACACTGCCATGTGACCCATC
Found at i:25586395 original size:17 final size:18
Alignment explanation
Indices: 25586352--25586407 Score: 69
Period size: 17 Copynumber: 3.1 Consensus size: 18
25586342 TGTCTATCTC
25586352 AAATCCCTAAACCCTATAA
1 AAATCCCTAAA-CCTATAA
** *
25586371 GGAGCCCTAAACC-ATAA
1 AAATCCCTAAACCTATAA
25586388 AAATCCCTAAACCTATAA
1 AAATCCCTAAACCTATAA
25586406 AA
1 AA
25586408 CCCTTAAAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 14 0.47
18 8 0.27
19 8 0.27
ACGTcount: A:0.48, C:0.29, G:0.05, T:0.18
Consensus pattern (18 bp):
AAATCCCTAAACCTATAA
Found at i:25586465 original size:17 final size:16
Alignment explanation
Indices: 25586445--25586498 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
25586435 CCAAAAATAG
25586445 TAAAATACCCAAAACCT
1 TAAAATA-CCAAAACCT
* * *
25586462 TAAAACACCTAAACCC
1 TAAAATACCAAAACCT
*
25586478 TAAAACTAACAAAACCT
1 TAAAA-TACCAAAACCT
25586495 TAAA
1 TAAA
25586499 CCTAAAAACC
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
16 12 0.41
17 17 0.59
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.17
Consensus pattern (16 bp):
TAAAATACCAAAACCT
Found at i:25586503 original size:17 final size:17
Alignment explanation
Indices: 25586454--25586503 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
25586444 GTAAAATACC
*
25586454 CAAAACCTTAAAAC-AC
1 CAAAACCTTAAAACTAA
* *
25586470 CTAAACCCTAAAACTAA
1 CAAAACCTTAAAACTAA
*
25586487 CAAAACCTTAAACCTAA
1 CAAAACCTTAAAACTAA
25586504 AAACCCTAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 12 0.44
17 15 0.56
ACGTcount: A:0.54, C:0.30, G:0.00, T:0.16
Consensus pattern (17 bp):
CAAAACCTTAAAACTAA
Found at i:25588122 original size:30 final size:30
Alignment explanation
Indices: 25588076--25588137 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
25588066 ATTTATACAT
25588076 TTTTTAATAAATTTTTAAAT-TTTATATTAA
1 TTTTTAATAAATTTTTAAATGTTTAT-TTAA
*
25588106 TTTTT-ATAAATGTTTTAATTGTTTATTTAA
1 TTTTTAATAAAT-TTTTAAATGTTTATTTAA
25588136 TT
1 TT
25588138 ATTGTTGGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 6 0.21
30 18 0.62
31 5 0.17
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (30 bp):
TTTTTAATAAATTTTTAAATGTTTATTTAA
Found at i:25591488 original size:56 final size:56
Alignment explanation
Indices: 25591393--25591504 Score: 161
Period size: 56 Copynumber: 2.0 Consensus size: 56
25591383 GCTTAAATTG
* * *
25591393 CTCAAACGGCTTAGCACACGGGTGTGTGGTTTGGCCGTGTGAACTAAGTCAGTATA
1 CTCAAACGGCTTAGCACACGGGCGTGTGGCTTGGCCGTGTGAACCAAGTCAGTATA
* * **
25591449 CTCACACGGCTTAGCACACGGGCGTGTGGCTTGGTCGTGTGTCCCAAGTCAGTATA
1 CTCAAACGGCTTAGCACACGGGCGTGTGGCTTGGCCGTGTGAACCAAGTCAGTATA
25591505 TTCATATTGG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (56 bp):
CTCAAACGGCTTAGCACACGGGCGTGTGGCTTGGCCGTGTGAACCAAGTCAGTATA
Found at i:25598987 original size:56 final size:56
Alignment explanation
Indices: 25598923--25599043 Score: 161
Period size: 56 Copynumber: 2.2 Consensus size: 56
25598913 GCTCAAATTG
* * * *
25598923 CTCACACGGCTTAGCACACGGGTGTGTGGTTTGGCTATATGACCTAAGGCAGTATA
1 CTCACACGGCTTAGCACACGGGCGTGTGGCTTGGCCATATGACCCAAGGCAGTATA
* * * *
25598979 CTCACACGGCTTAGCACATGGGCGTGTGGCTTGGCCATGTGTCCCAAGTCAGTATA
1 CTCACACGGCTTAGCACACGGGCGTGTGGCTTGGCCATATGACCCAAGGCAGTATA
*
25599035 TTCACACGG
1 CTCACACGG
25599044 GCATGGACAC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.26
Consensus pattern (56 bp):
CTCACACGGCTTAGCACACGGGCGTGTGGCTTGGCCATATGACCCAAGGCAGTATA
Found at i:25600132 original size:23 final size:23
Alignment explanation
Indices: 25600104--25600150 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
25600094 CTACTACTTA
25600104 AAATCTCTGACGGAGTTGATATT
1 AAATCTCTGACGGAGTTGATATT
25600127 AAATCTCTGACGGAGTTGATATT
1 AAATCTCTGACGGAGTTGATATT
25600150 A
1 A
25600151 CAAGTAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (23 bp):
AAATCTCTGACGGAGTTGATATT
Found at i:25600306 original size:26 final size:26
Alignment explanation
Indices: 25600277--25600327 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
25600267 GAAAGTAAAA
*
25600277 AATATTATTATGAGAGTATTTTTATC
1 AATATTATTATGAGAATATTTTTATC
25600303 AATATTATTATGAGAATATTTTTAT
1 AATATTATTATGAGAATATTTTTAT
25600328 ATATTGTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (26 bp):
AATATTATTATGAGAATATTTTTATC
Found at i:25601810 original size:22 final size:23
Alignment explanation
Indices: 25601780--25601822 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
25601770 TTTAGTAATG
25601780 CTTTAGTCTGC-TTCTTGGCACGA
1 CTTTAGTCT-CTTTCTTGGCACGA
25601803 CTTT-GTCTCTTTCTTGGCAC
1 CTTTAGTCTCTTTCTTGGCAC
25601823 AACGGTTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 1 0.05
22 14 0.74
23 4 0.21
ACGTcount: A:0.09, C:0.28, G:0.19, T:0.44
Consensus pattern (23 bp):
CTTTAGTCTCTTTCTTGGCACGA
Found at i:25607393 original size:46 final size:43
Alignment explanation
Indices: 25607321--25607405 Score: 116
Period size: 46 Copynumber: 1.9 Consensus size: 43
25607311 TGCTATGTGA
*
25607321 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTGATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCC
* *
25607364 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGA
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGA
25607406 ATCCACTGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 5 0.14
44 11 0.31
45 2 0.06
46 18 0.50
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCC
Found at i:25607857 original size:20 final size:21
Alignment explanation
Indices: 25607828--25607867 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
25607818 CTGATTTTGG
*
25607828 AAAATCATTA-AATTATAAAA
1 AAAATAATTAGAATTATAAAA
25607848 AAAATAATTATGAATTATAA
1 AAAATAATTA-GAATTATAA
25607868 TTTATATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
22 8 0.47
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (21 bp):
AAAATAATTAGAATTATAAAA
Found at i:25610482 original size:9 final size:9
Alignment explanation
Indices: 25610470--25610509 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
25610460 TTTTGTTAAA
25610470 AATTAACCG
1 AATTAACCG
*
25610479 AATTACCCG
1 AATTAACCG
*
25610488 AATTACCCG
1 AATTAACCG
25610497 AATTAACCG
1 AATTAACCG
25610506 AATT
1 AATT
25610510 GAATCACTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:25635124 original size:22 final size:22
Alignment explanation
Indices: 25635084--25635125 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
25635074 TTTACATTTG
*
25635084 TTTTTATTAATTCATTTATTAT
1 TTTTTATTAATTAATTTATTAT
25635106 TTTTTATT-ATTAATATTATT
1 TTTTTATTAATTAAT-TTATT
25635126 GGTATACTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTTATTAATTAATTTATTAT
Found at i:25641512 original size:24 final size:24
Alignment explanation
Indices: 25641485--25641532 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
25641475 AAATTATTAC
*
25641485 TTAGGTTCCATAATTTAATTTAAT
1 TTAGGTTCAATAATTTAATTTAAT
25641509 TTAGGTTCAATAATTTAATTTAAT
1 TTAGGTTCAATAATTTAATTTAAT
25641533 AATTATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.50
Consensus pattern (24 bp):
TTAGGTTCAATAATTTAATTTAAT
Found at i:25642764 original size:24 final size:24
Alignment explanation
Indices: 25642737--25642784 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
25642727 AAATTATTAC
*
25642737 TTAGGTTCCATAATTTAATTTAAT
1 TTAGGTTCAATAATTTAATTTAAT
25642761 TTAGGTTCAATAATTTAATTTAAT
1 TTAGGTTCAATAATTTAATTTAAT
25642785 AATTATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.50
Consensus pattern (24 bp):
TTAGGTTCAATAATTTAATTTAAT
Done.