Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 82 of 295
Found at i:23949948 original size:3 final size:3
Alignment explanation
Indices: 23949921--23949987 Score: 61
Period size: 3 Copynumber: 23.0 Consensus size: 3
23949911 TTTTTATTAT
* * *
23949921 TTC TT- TTC TTT TTC TT- TT- TTT TTC TTC TTC CTC TT- TTC TTC TTCC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT-C
23949966 TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TT-C TTC TTC TTC TTC
23949988 AAAGTCTAGC
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
2 8 0.15
3 40 0.74
4 6 0.11
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:23949957 original size:14 final size:14
Alignment explanation
Indices: 23949940--23949986 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 14
23949930 TTTTCTTTTT
23949940 TTTTCTTCTTCCTC
1 TTTTCTTCTTCCTC
23949954 TTTTCTTCTTCCTTC
1 TTTTCTTCTTCC-TC
*
23949969 TTCTTCCTTCTTCTTC
1 TT-TT-CTTCTTCCTC
23949985 TT
1 TT
23949987 CAAAGTCTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 12 0.41
15 4 0.14
16 6 0.21
17 7 0.24
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTCTTCTTCCTC
Found at i:23949971 original size:10 final size:10
Alignment explanation
Indices: 23949956--23949984 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
23949946 TCTTCCTCTT
23949956 TTCTTCTTCC
1 TTCTTCTTCC
23949966 TTCTTCTTCC
1 TTCTTCTTCC
23949976 TTCTTCTTC
1 TTCTTCTTC
23949985 TTCAAAGTCT
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:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:23949974 original size:13 final size:13
Alignment explanation
Indices: 23949942--23949987 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
23949932 TTCTTTTTTT
23949942 TTCTTCTTCC-TC
1 TTCTTCTTCCTTC
23949954 TT-TTCTT-CTTCC
1 TTCTTCTTCCTT-C
23949966 TTCTTCTTCCTTC
1 TTCTTCTTCCTTC
23949979 TTCTTCTTC
1 TTCTTCTTC
23949988 AAAGTCTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.20
12 5 0.17
13 15 0.50
14 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTTCCTTC
Found at i:23950373 original size:29 final size:29
Alignment explanation
Indices: 23950340--23950456 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
23950330 TGTAATTTTT
*
23950340 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
23950369 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
23950399 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
23950428 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
23950457 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:23950395 original size:30 final size:30
Alignment explanation
Indices: 23950355--23950456 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
23950345 ATTTAGGATT
*
23950355 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
23950385 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
23950415 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
23950445 AAAATGCAATTT
1 AAAATGAAATTT
23950457 TTATTTTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:23950476 original size:13 final size:15
Alignment explanation
Indices: 23950452--23950485 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
23950442 GTCAAAATGC
23950452 AATTTTTATTTTT-A
1 AATTTTTATTTTTGA
23950466 AATTTTT-TTTTTGA
1 AATTTTTATTTTTGA
23950480 AATTTT
1 AATTTT
23950486 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (15 bp):
AATTTTTATTTTTGA
Found at i:23953010 original size:21 final size:20
Alignment explanation
Indices: 23952940--23953010 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
23952930 GGTCAAAAGT
*
23952940 CCGTGTGAAGAGGGGCACACGG
1 CCGTGTGAAGA--GGCACACGC
**
23952962 CCGTGTGGCTGAGGCACACGC
1 CCGTGT-GAAGAGGCACACGC
* *
23952983 TCTTGTGAAGAGAGCACACGC
1 CCGTGTGAAGAG-GCACACGC
23953004 CCGTGTG
1 CCGTGTG
23953011 GACCAGGGAT
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
20 4 0.11
21 25 0.66
22 6 0.16
23 3 0.08
ACGTcount: A:0.20, C:0.27, G:0.38, T:0.15
Consensus pattern (20 bp):
CCGTGTGAAGAGGCACACGC
Found at i:23954165 original size:48 final size:48
Alignment explanation
Indices: 23954113--23954212 Score: 119
Period size: 48 Copynumber: 2.1 Consensus size: 48
23954103 TAAGCCATCA
* * * * *
23954113 TAGTTTGGCTATCTAGGATGGTAGTATATTAAAGGGTATAAACCATTG
1 TAGTTGGGCCATCCAGGATAGTAATATATTAAAGGGTATAAACCATTG
** * *
23954161 TAGTTGGGCCATCCCTGATAGTAATATATTGAATGGTATAAACCATTG
1 TAGTTGGGCCATCCAGGATAGTAATATATTAAAGGGTATAAACCATTG
23954209 TAGT
1 TAGT
23954213 CGGGTCACTG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (48 bp):
TAGTTGGGCCATCCAGGATAGTAATATATTAAAGGGTATAAACCATTG
Found at i:23956057 original size:20 final size:20
Alignment explanation
Indices: 23956020--23956059 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
23956010 TTTTTCTATA
** *
23956020 ATTTTATATTTTTTAATAAT
1 ATTTTATAGGTTTAAATAAT
23956040 ATTTTATAGGTTTAAATAAT
1 ATTTTATAGGTTTAAATAAT
23956060 TAGAAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
ATTTTATAGGTTTAAATAAT
Found at i:23959680 original size:11 final size:11
Alignment explanation
Indices: 23959664--23959702 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
23959654 GAGATAGAGC
23959664 GGGATAGGGTA
1 GGGATAGGGTA
* *
23959675 GGGATAGAG-C
1 GGGATAGGGTA
23959685 GGGATAGGGTA
1 GGGATAGGGTA
23959696 GGGATAG
1 GGGATAG
23959703 ATGTATCTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.28, C:0.03, G:0.54, T:0.15
Consensus pattern (11 bp):
GGGATAGGGTA
Found at i:23959682 original size:21 final size:21
Alignment explanation
Indices: 23959656--23959703 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
23959646 ATTAGACTGA
23959656 GATAGAGCGGGATAGGGTAGG
1 GATAGAGCGGGATAGGGTAGG
23959677 GATAGAGCGGGATAGGGTAGG
1 GATAGAGCGGGATAGGGTAGG
23959698 GATAGA
1 GATAGA
23959704 TGTATCTAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.04, G:0.50, T:0.15
Consensus pattern (21 bp):
GATAGAGCGGGATAGGGTAGG
Found at i:23960965 original size:3 final size:3
Alignment explanation
Indices: 23960959--23960993 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
23960949 AAAAAAAAAG
23960959 AGA AGA AGA AGA AGA AGAA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AG-A AGA AGA AGA AGA AGA A
23960994 AAAAAGGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:23960982 original size:16 final size:16
Alignment explanation
Indices: 23960956--23960994 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
23960946 GTGAAAAAAA
23960956 AAGAGAAGAAGAAGAAG
1 AAGA-AAGAAGAAGAAG
23960973 AAGAAAGAAGAAGAAG
1 AAGAAAGAAGAAGAAG
23960989 AAGAAA
1 AAGAAA
23960995 AAAAGGTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
AAGAAAGAAGAAGAAG
Found at i:23963089 original size:6 final size:6
Alignment explanation
Indices: 23963080--23963117 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
23963070 TCATGCACCA
*
23963080 GAGCCG GAGCCG GAGCCG GAGCCG GAGCCA GAGCCG GA
1 GAGCCG GAGCCG GAGCCG GAGCCG GAGCCG GAGCCG GA
23963118 ACTACACTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.21, C:0.32, G:0.47, T:0.00
Consensus pattern (6 bp):
GAGCCG
Found at i:23963271 original size:33 final size:33
Alignment explanation
Indices: 23963221--23963386 Score: 219
Period size: 33 Copynumber: 5.0 Consensus size: 33
23963211 TATCTTCAGC
* *
23963221 CCACCATC-GTACTCTGCTCCTTCTGGCTCGTAT
1 CCACCA-CAGTACTCCGCTCCTTCTAGCTCGTAT
* * * *
23963254 CCACTACAGTACTCTGCTTCTTCCAGCTCGTAT
1 CCACCACAGTACTCCGCTCCTTCTAGCTCGTAT
23963287 CCACCACCA-TACTCCGCTCCTTCTAGCTCGTAT
1 CCACCA-CAGTACTCCGCTCCTTCTAGCTCGTAT
*
23963320 CCACCACCGTACTCCGCTCCTTCTAGCTCGTAT
1 CCACCACAGTACTCCGCTCCTTCTAGCTCGTAT
* *
23963353 CCACCACCGTACTCCGCTCCTTCTGGCTCGTAT
1 CCACCACAGTACTCCGCTCCTTCTAGCTCGTAT
23963386 C
1 C
23963387 TATCGACATT
Statistics
Matches: 120, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
32 2 0.02
33 116 0.97
34 2 0.02
ACGTcount: A:0.15, C:0.43, G:0.13, T:0.30
Consensus pattern (33 bp):
CCACCACAGTACTCCGCTCCTTCTAGCTCGTAT
Found at i:23963306 original size:66 final size:66
Alignment explanation
Indices: 23963221--23963432 Score: 255
Period size: 66 Copynumber: 3.2 Consensus size: 66
23963211 TATCTTCAGC
* * * * *
23963221 CCACCATCGTACTCTGCTCCTTCTGGCTCGTATCCACTACAGTACTCTGCTTCTTCCAGCTCGTA
1 CCACCACCATACTCCGCTCCTTCTGGCTCGTATCCACCACAGTACTCTGCTCCTTCCAGCTCGTA
23963286 T
66 T
* * * *
23963287 CCACCACCATACTCCGCTCCTTCTAGCTCGTATCCACCACCGTACTCCGCTCCTTCTAGCTCGTA
1 CCACCACCATACTCCGCTCCTTCTGGCTCGTATCCACCACAGTACTCTGCTCCTTCCAGCTCGTA
23963352 T
66 T
* * * * * * * *
23963353 CCACCACCGTACTCCGCTCCTTCTGGCTCGTATCTATCGACA-TTCTCTACTCCTCCCGGCTTGT
1 CCACCACCATACTCCGCTCCTTCTGGCTCGTATCCA-CCACAGTACTCTGCTCCTTCCAGCTCGT
23963417 AT
65 AT
23963419 CCACCACCATACTC
1 CCACCACCATACTC
23963433 TACTCCTCCA
Statistics
Matches: 123, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
66 120 0.98
67 3 0.02
ACGTcount: A:0.16, C:0.42, G:0.12, T:0.30
Consensus pattern (66 bp):
CCACCACCATACTCCGCTCCTTCTGGCTCGTATCCACCACAGTACTCTGCTCCTTCCAGCTCGTA
T
Found at i:23963419 original size:33 final size:33
Alignment explanation
Indices: 23963221--23963441 Score: 140
Period size: 33 Copynumber: 6.7 Consensus size: 33
23963211 TATCTTCAGC
* * * * *
23963221 CCACCATCGTACTCTGCTCCTTCTGGCTCGTAT
1 CCACCACCATACTCTACTCCTCCCGGCTCGTAT
* * * * *
23963254 CCACTA-CAGTACTCTGCTTCTTCCAGCTCGTAT
1 CCACCACCA-TACTCTACTCCTCCCGGCTCGTAT
** * **
23963287 CCACCACCATACTCCGCTCCTTCTAGCTCGTAT
1 CCACCACCATACTCTACTCCTCCCGGCTCGTAT
* ** * **
23963320 CCACCACCGTACTCCGCTCCTTCTAGCTCGTAT
1 CCACCACCATACTCTACTCCTCCCGGCTCGTAT
* ** * *
23963353 CCACCACCGTACTCCGCTCCTTCTGGCTCGTAT
1 CCACCACCATACTCTACTCCTCCCGGCTCGTAT
* * * *
23963386 CTATCGA-CATTCTCTACTCCTCCCGGCTTGTAT
1 CCA-CCACCATACTCTACTCCTCCCGGCTCGTAT
23963419 CCACCACCATACTCTACTCCTCC
1 CCACCACCATACTCTACTCCTCC
23963442 AGAGTCGTAT
Statistics
Matches: 161, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
32 3 0.02
33 154 0.96
34 4 0.02
ACGTcount: A:0.16, C:0.43, G:0.11, T:0.30
Consensus pattern (33 bp):
CCACCACCATACTCTACTCCTCCCGGCTCGTAT
Found at i:23963439 original size:99 final size:99
Alignment explanation
Indices: 23963221--23963439 Score: 242
Period size: 99 Copynumber: 2.2 Consensus size: 99
23963211 TATCTTCAGC
* * * * *
23963221 CCACCATCGTACTCTGCTCCTTCTGGCTCGTATCCACTACAGTACTCTGCTTCTTCCAGCTCGTA
1 CCACCACCGTACTCTGCTCCTTCTAGCTCGTATCCACCACAGTACTCCGCTCCTTCCAGCTCGTA
* * *
23963286 TCCACCACCATACTCCGCTCCTTCTAGCTCGTAT
66 TCCACCACCATACTCCACTCCTCCCAGCTCGTAT
* * **
23963320 CCACCACCGTACTCCGCTCCTTCTAGCTCGTATCCACCACCGTACTCCGCTCCTTCTGGCTCGTA
1 CCACCACCGTACTCTGCTCCTTCTAGCTCGTATCCACCACAGTACTCCGCTCCTTCCAGCTCGTA
* * * * * *
23963385 TCTATCGA-CATTCTCTACTCCTCCCGGCTTGTAT
66 TCCA-CCACCATACTCCACTCCTCCCAGCTCGTAT
* *
23963419 CCACCACCATACTCTACTCCT
1 CCACCACCGTACTCTGCTCCT
23963440 CCAGAGTCGT
Statistics
Matches: 98, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
99 96 0.98
100 2 0.02
ACGTcount: A:0.16, C:0.42, G:0.11, T:0.30
Consensus pattern (99 bp):
CCACCACCGTACTCTGCTCCTTCTAGCTCGTATCCACCACAGTACTCCGCTCCTTCCAGCTCGTA
TCCACCACCATACTCCACTCCTCCCAGCTCGTAT
Found at i:23966722 original size:15 final size:15
Alignment explanation
Indices: 23966685--23966738 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
23966675 AAATACCTTA
23966685 TTTT-TTTCTTCTTCT
1 TTTTCTTTCTTC-TCT
* *
23966700 TTTCCTTTCTTCCCT
1 TTTTCTTTCTTCTCT
23966715 TTTTCTTTC-TCTCT
1 TTTTCTTTCTTCTCT
*
23966729 TTTTCCTTCT
1 TTTTCTTTCT
23966739 GCTAATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 12 0.38
15 13 0.41
16 7 0.22
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTCTTTCTTCTCT
Found at i:23966736 original size:21 final size:19
Alignment explanation
Indices: 23966686--23966738 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
23966676 AATACCTTAT
*
23966686 TTTTTTCTTCTTCTTTTCC
1 TTTTTCCTTCTTCTTTTCC
*
23966705 TTTCTTCCCTTTTTCTTTCTCTC
1 TTT-TT-CCTTCTTCTTT-TC-C
23966728 TTTTTCCTTCT
1 TTTTTCCTTCT
23966739 GCTAATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 3 0.11
20 2 0.07
21 14 0.52
22 4 0.15
23 4 0.15
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTCCTTCTTCTTTTCC
Found at i:23967613 original size:3 final size:3
Alignment explanation
Indices: 23967607--23967633 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
23967597 TTTTTTAAAT
23967607 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
23967634 TTAAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23968309 original size:32 final size:31
Alignment explanation
Indices: 23968250--23968311 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 31
23968240 CCAAACAATG
23968250 TTTTCTTTTTCTTATATAAATATTTATTGTCA
1 TTTTCTTTTTC-TATATAAATATTTATTGTCA
*
23968282 TTTTCTTTTTC-ATAGTAATTATGTTATTGT
1 TTTTCTTTTTCTATA-TAAATAT-TTATTGT
23968312 TACTGAGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 3 0.11
31 6 0.22
32 18 0.67
ACGTcount: A:0.23, C:0.08, G:0.06, T:0.63
Consensus pattern (31 bp):
TTTTCTTTTTCTATATAAATATTTATTGTCA
Found at i:23969692 original size:23 final size:22
Alignment explanation
Indices: 23969649--23969703 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
23969639 GTCCTCATAT
* *
23969649 TTTTTTGTTTTGTGTAATTTAA
1 TTTTTTCTTTTATGTAATTTAA
*
23969671 TTTTTTCTTTTATGTTATTTTAA
1 TTTTTTCTTTTATG-TAATTTAA
*
23969694 -CTTTTCTTTT
1 TTTTTTCTTTT
23969704 TTCTTTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 21 0.75
23 7 0.25
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.73
Consensus pattern (22 bp):
TTTTTTCTTTTATGTAATTTAA
Found at i:23969953 original size:10 final size:10
Alignment explanation
Indices: 23969938--23969985 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
23969928 AAGAGAATGA
23969938 AAAAAAAAAG
1 AAAAAAAAAG
23969948 AAAAAAAAAG
1 AAAAAAAAAG
**
23969958 AAAGTTAAAAG
1 AAA-AAAAAAG
* *
23969969 AATATAAAAG
1 AAAAAAAAAG
23969979 AAAAAAA
1 AAAAAAA
23969986 TTAAATTGCT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
10 24 0.77
11 7 0.23
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.08
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:23970723 original size:22 final size:22
Alignment explanation
Indices: 23970694--23970742 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
23970684 TATAATTAAA
*
23970694 AATT-ATTTATAAAATAATATTT
1 AATTAATTTATAAAAAAAT-TTT
*
23970716 -ATTAATTTTTAAAAAAATTTT
1 AATTAATTTATAAAAAAATTTT
23970737 AATTAA
1 AATTAA
23970743 GTTGGTGTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTAATTTATAAAAAAATTTT
Found at i:23975153 original size:158 final size:158
Alignment explanation
Indices: 23974865--23975184 Score: 604
Period size: 158 Copynumber: 2.0 Consensus size: 158
23974855 TTTAAAATCG
23974865 ATTTTAGGATGTCAAAAGAACAGAAATGCGTGCTTTTAGTTTTGCCTATGAAATTTAATGTATAA
1 ATTTTAGGATGTCAAAAGAACAGAAATGCGTGCTTTTAGTTTTGCCTATGAAATTTAATGTATAA
23974930 TCTATATGGTTAATTGTCAATGCTTCCACCTCTTCTGATGCTTTTTATACCATAATATGTGCATG
66 TCTATATGGTTAATTGTCAATGCTTCCACCTCTTCTGATGCTTTTTATACCATAATATGTGCATG
23974995 GTTTGTATTCTGCACATATCAGTTATCA
131 GTTTGTATTCTGCACATATCAGTTATCA
*
23975023 ATTTTAGGATGTCAAAAGAACAGAAATGCGTGCTTTTAGTTTTGCCTATGAAATTTAGTGTATAA
1 ATTTTAGGATGTCAAAAGAACAGAAATGCGTGCTTTTAGTTTTGCCTATGAAATTTAATGTATAA
* * *
23975088 TCTATATGTTTAATTGTCAATGCTTCCACTTCTTCTGTTGCTTTTTATACCATAATATGTGCATG
66 TCTATATGGTTAATTGTCAATGCTTCCACCTCTTCTGATGCTTTTTATACCATAATATGTGCATG
23975153 GTTTGTATTCTGCACATATCAGTTATCA
131 GTTTGTATTCTGCACATATCAGTTATCA
23975181 ATTT
1 ATTT
23975185 ATTGAAATTA
Statistics
Matches: 158, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
158 158 1.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.42
Consensus pattern (158 bp):
ATTTTAGGATGTCAAAAGAACAGAAATGCGTGCTTTTAGTTTTGCCTATGAAATTTAATGTATAA
TCTATATGGTTAATTGTCAATGCTTCCACCTCTTCTGATGCTTTTTATACCATAATATGTGCATG
GTTTGTATTCTGCACATATCAGTTATCA
Found at i:23985137 original size:18 final size:20
Alignment explanation
Indices: 23985096--23985138 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
23985086 TTTTATTTGG
*
23985096 TTTTATTTTTATGAGAATAC
1 TTTTATTTTTATGAAAATAC
*
23985116 TTTTA-TTTTAT-AAAATAT
1 TTTTATTTTTATGAAAATAC
23985134 TTTTA
1 TTTTA
23985139 AATCACTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 10 0.48
19 6 0.29
20 5 0.24
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTTATTTTTATGAAAATAC
Found at i:23987273 original size:12 final size:12
Alignment explanation
Indices: 23987256--23987281 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23987246 GACTCAACTT
23987256 GATTTATTAACA
1 GATTTATTAACA
23987268 GATTTATTAACA
1 GATTTATTAACA
23987280 GA
1 GA
23987282 AACCTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (12 bp):
GATTTATTAACA
Found at i:23987708 original size:9 final size:9
Alignment explanation
Indices: 23987694--23987724 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
23987684 CAGATACCAT
23987694 ATGGAAGTA
1 ATGGAAGTA
23987703 ATGGAAGTA
1 ATGGAAGTA
23987712 ATGGAAGTA
1 ATGGAAGTA
23987721 ATGG
1 ATGG
23987725 GATGCTTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (9 bp):
ATGGAAGTA
Found at i:23987838 original size:10 final size:10
Alignment explanation
Indices: 23987823--23987852 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
23987813 ATAAAACAAT
23987823 AATTTAAAAC
1 AATTTAAAAC
23987833 AATTTAAAAC
1 AATTTAAAAC
*
23987843 AATTCAAAAC
1 AATTTAAAAC
23987853 TAGGATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (10 bp):
AATTTAAAAC
Found at i:23991806 original size:38 final size:38
Alignment explanation
Indices: 23991763--23991838 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
23991753 TTCATCCTTT
23991763 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
23991801 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
23991839 GAAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:23993113 original size:40 final size:40
Alignment explanation
Indices: 23993024--23993168 Score: 177
Period size: 40 Copynumber: 3.6 Consensus size: 40
23993014 TACTCGAATG
*
23993024 ATATCC-GAGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGA-CTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
*
23993065 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGACTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
23993105 ATATCCGGACTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGACTAAGTCCCGAAGGCATTTGTGCTAGCGACT
** *
23993145 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGACTAAGTCCCGAAGGC
23993169 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 26 0.28
42 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGACTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:23994979 original size:43 final size:43
Alignment explanation
Indices: 23994931--23995023 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
23994921 ATTCTAGAAA
23994931 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
23994974 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
23995017 TATTTTC
1 TATTTTC
23995024 CCAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:23999621 original size:18 final size:19
Alignment explanation
Indices: 23999598--23999637 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
23999588 GTATATATTT
23999598 TAAATTTAATTAGG-TAGA
1 TAAATTTAATTAGGATAGA
* *
23999616 TAAATTTTATTTGGATAGA
1 TAAATTTAATTAGGATAGA
23999635 TAA
1 TAA
23999638 GTTTTATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (19 bp):
TAAATTTAATTAGGATAGA
Found at i:23999634 original size:19 final size:18
Alignment explanation
Indices: 23999598--23999645 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
23999588 GTATATATTT
*
23999598 TAAATTTAATTAGGTAGA
1 TAAATTTTATTAGGTAGA
*
23999616 TAAATTTTATTTGGATAGA
1 TAAATTTTATTAGG-TAGA
*
23999635 TAAGTTTTATT
1 TAAATTTTATT
23999646 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.48
Consensus pattern (18 bp):
TAAATTTTATTAGGTAGA
Found at i:23999714 original size:43 final size:44
Alignment explanation
Indices: 23999659--23999751 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
23999649 ATTCTAGAAA
23999659 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCTATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
23999702 TATTTTCT-TTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
23999745 TATTTTC
1 TATTTTC
23999752 CCAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (44 bp):
TATTTTCTATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:24004301 original size:32 final size:31
Alignment explanation
Indices: 24004217--24004280 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
24004207 ATTATTAAAA
24004217 ATAATTAAAATTTCTTCTCTTTTCTCCCGTC
1 ATAATTAAAATTTCTTCTCTTTTCTCCCGTC
24004248 ATAATTAAAATTTCTTCTCTTTTCTCCCGTC
1 ATAATTAAAATTTCTTCTCTTTTCTCCCGTC
24004279 AT
1 AT
24004281 TTCTTTCCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.23, C:0.25, G:0.03, T:0.48
Consensus pattern (31 bp):
ATAATTAAAATTTCTTCTCTTTTCTCCCGTC
Found at i:24012998 original size:43 final size:43
Alignment explanation
Indices: 24012937--24013026 Score: 180
Period size: 43 Copynumber: 2.1 Consensus size: 43
24012927 GCTAGACGCA
24012937 TTTTTCTTTCGAACGTCCCTACGAGTATTGGGAACAATTATTG
1 TTTTTCTTTCGAACGTCCCTACGAGTATTGGGAACAATTATTG
24012980 TTTTTCTTTCGAACGTCCCTACGAGTATTGGGAACAATTATTG
1 TTTTTCTTTCGAACGTCCCTACGAGTATTGGGAACAATTATTG
24013023 TTTT
1 TTTT
24013027 GGTTAAAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (43 bp):
TTTTTCTTTCGAACGTCCCTACGAGTATTGGGAACAATTATTG
Found at i:24029637 original size:46 final size:46
Alignment explanation
Indices: 24029570--24029744 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
24029560 TGTAACCCGC
24029570 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
* *
24029616 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C-A-TTCGCAT
* * * **
24029666 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
** *
24029709 CCATAAATGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
24029745 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 62 0.58
47 26 0.24
48 3 0.03
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:24029689 original size:93 final size:93
Alignment explanation
Indices: 24029577--24029748 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
24029567 CGCCCATAAG
** *
24029577 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCA
24029642 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
*
24029670 CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCA
*
24029735 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
24029749 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:24034275 original size:6 final size:6
Alignment explanation
Indices: 24034264--24034289 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
24034254 GTAAATAAAT
24034264 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
24034290 CTTTACAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:24035688 original size:23 final size:22
Alignment explanation
Indices: 24035636--24035688 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
24035626 TCCACGTCTT
*
24035636 TTTCTTTTGTTTCTTTCTCTAA
1 TTTCTTTTCTTTCTTTCTCTAA
24035658 -TTCATTTTCTCTTCTTTCT-TCAA
1 TTTC-TTTTCT-TTCTTTCTCT-AA
24035681 TTTCTTTT
1 TTTCTTTT
24035689 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 6 0.23
23 14 0.54
24 3 0.12
ACGTcount: A:0.09, C:0.21, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTCTCTAA
Found at i:24038072 original size:6 final size:6
Alignment explanation
Indices: 24038061--24038086 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
24038051 GTAAATAAAT
24038061 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
24038087 CTTTACAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:24038789 original size:19 final size:20
Alignment explanation
Indices: 24038765--24038803 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
24038755 TTATTAAACT
*
24038765 TAATGCATATG-ATGAAATG
1 TAATGCAAATGAATGAAATG
24038784 TAATGCAAATGAATGAAATG
1 TAATGCAAATGAATGAAATG
24038804 AAAGTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.46, C:0.05, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGAATGAAATG
Found at i:24042612 original size:23 final size:23
Alignment explanation
Indices: 24042586--24042656 Score: 78
Period size: 22 Copynumber: 3.2 Consensus size: 23
24042576 AAAAGGTTTC
*
24042586 AAATGAATAATGTATAAA-ACTTA
1 AAATAAATAAT-TATAAAGACTTA
24042609 AAATAAATAA-TA-AAAGAGCTTA
1 AAATAAATAATTATAAAGA-CTTA
*
24042631 AAATAAATAATT-TAAAGATTTA
1 AAATAAATAATTATAAAGACTTA
24042653 AAAT
1 AAAT
24042657 GAATGACATA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
20 3 0.07
21 3 0.07
22 21 0.50
23 15 0.36
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.30
Consensus pattern (23 bp):
AAATAAATAATTATAAAGACTTA
Found at i:24042735 original size:26 final size:26
Alignment explanation
Indices: 24042609--24042790 Score: 103
Period size: 26 Copynumber: 7.1 Consensus size: 26
24042599 ATAAAACTTA
* *
24042609 AAATAA-ATAATAAAAGAGCTTAAAAT
1 AAATAATAT-ATAAAATAGTTTAAAAT
*
24042635 AAATAAT-T-T-AAAGA-TTTAAAAT
1 AAATAATATATAAAATAGTTTAAAAT
* * * * *
24042657 GAATGACATATAAAACAGTTTAAATT
1 AAATAATATATAAAATAGTTTAAAAT
* *
24042683 AAATGCTATATATGAAAAT--TTT-GAAT
1 AAAT--AATATAT-AAAATAGTTTAAAAT
*
24042709 AGATAATATATAAAATAGTTTAAAAT
1 AAATAATATATAAAATAGTTTAAAAT
* * *
24042735 AAAGAGTATATAAAAAGTATTTTAAAAT
1 AAATAATATAT-AAAA-TAGTTTAAAAT
* *
24042763 AAATAATATATAGAA-AGTTCAAAAT
1 AAATAATATATAAAATAGTTTAAAAT
24042788 AAA
1 AAA
24042791 AAAATGAAAG
Statistics
Matches: 119, Mismatches: 24, Indels: 27
0.70 0.14 0.16
Matches are distributed among these distances:
22 11 0.09
23 11 0.09
24 8 0.07
25 18 0.15
26 33 0.28
27 10 0.08
28 24 0.20
29 4 0.03
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.31
Consensus pattern (26 bp):
AAATAATATATAAAATAGTTTAAAAT
Found at i:24042745 original size:52 final size:52
Alignment explanation
Indices: 24042644--24042790 Score: 131
Period size: 52 Copynumber: 2.8 Consensus size: 52
24042634 TAAATAATTT
* * * * *
24042644 AAAGA-TTTAAAATGAATGACATATAAAACAGTTTAAATTAAATGCTATATATG
1 AAAGATTTTAAAATAAATAATATATAAAA-AGTTTAAAATAAATGCTATATA-A
* * *
24042697 AAA-ATTTT-GAATAGATAATATATAAAATAGTTTAAAATAAA-GAGTATATAA
1 AAAGATTTTAAAATAAATAATATATAAAA-AGTTTAAAATAAATG-CTATATAA
* *
24042748 AAAGTATTTTAAAATAAATAATATATAGAAAGTTCAAAATAAA
1 AAAG-ATTTTAAAATAAATAATATATAAAAAGTTTAAAATAAA
24042791 AAAATGAAAG
Statistics
Matches: 76, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
51 4 0.05
52 33 0.43
53 23 0.30
54 16 0.21
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.32
Consensus pattern (52 bp):
AAAGATTTTAAAATAAATAATATATAAAAAGTTTAAAATAAATGCTATATAA
Found at i:24042746 original size:28 final size:26
Alignment explanation
Indices: 24042713--24042790 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 26
24042703 TTGAATAGAT
24042713 AATATATAAAATAGTTTAAAATAAAG
1 AATATATAAAATAGTTTAAAATAAAG
* * *
24042739 AGTATATAAAAAGTATTTTAAAATAAAT
1 AATATAT-AAAA-TAGTTTAAAATAAAG
* *
24042767 AATATATAGAA-AGTTCAAAATAAA
1 AATATATAAAATAGTTTAAAATAAA
24042791 AAAATGAAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
25 11 0.26
26 6 0.14
27 7 0.16
28 19 0.44
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.31
Consensus pattern (26 bp):
AATATATAAAATAGTTTAAAATAAAG
Found at i:24043579 original size:20 final size:21
Alignment explanation
Indices: 24043543--24043581 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
24043533 AAAAAATTTG
24043543 AAACCCCTTTTTGTTTCTCCA
1 AAACCCCTTTTTGTTTCTCCA
24043564 AAACCCCTTTTT-TTTCTC
1 AAACCCCTTTTTGTTTCTC
24043582 TTGGTCCTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.18, C:0.33, G:0.03, T:0.46
Consensus pattern (21 bp):
AAACCCCTTTTTGTTTCTCCA
Found at i:24046390 original size:20 final size:20
Alignment explanation
Indices: 24046348--24046393 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
24046338 CTTTAACTTA
* *
24046348 TATTTTCACTATTTAGTTAT
1 TATTTTCAATATTTAGTCAT
24046368 TATTTTCAATATTTA-TCATT
1 TATTTTCAATATTTAGTCA-T
24046388 TATTTT
1 TATTTT
24046394 TTTTGTTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.63
Consensus pattern (20 bp):
TATTTTCAATATTTAGTCAT
Found at i:24052320 original size:39 final size:39
Alignment explanation
Indices: 24052264--24052342 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
24052254 TAGTAGCACC
*
24052264 GAAAATTTATATCTTTGATTTCTTCTGCAATTAAAATTT
1 GAAAATTTATATATTTGATTTCTTCTGCAATTAAAATTT
* *
24052303 GAAAATTTATATATTTGATTTCTTCTGTAATTAAATTTT
1 GAAAATTTATATATTTGATTTCTTCTGCAATTAAAATTT
24052342 G
1 G
24052343 CAAAGAGAAG
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:0.33, C:0.08, G:0.09, T:0.51
Consensus pattern (39 bp):
GAAAATTTATATATTTGATTTCTTCTGCAATTAAAATTT
Found at i:24055007 original size:19 final size:18
Alignment explanation
Indices: 24054957--24055016 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
24054947 TAAGGTTCCT
24054957 TTTTAATTTTTATATAAA
1 TTTTAATTTTTATATAAA
*
24054975 TTTTAAGATTTTATGA-AAA
1 TTTTAA-TTTTTAT-ATAAA
*
24054994 TTTTAATTTATTAT-TATA
1 TTTTAATTT-TTATATAAA
24055012 TTTTA
1 TTTTA
24055017 TGACTTTTGG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
18 15 0.43
19 19 0.54
20 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTAATTTTTATATAAA
Found at i:24055051 original size:18 final size:18
Alignment explanation
Indices: 24055028--24055066 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
24055018 GACTTTTGGA
24055028 TTTTTATAAT-TTTTACAT
1 TTTTTA-AATATTTTACAT
*
24055046 TTTTTAAATATTTTATAT
1 TTTTTAAATATTTTACAT
24055064 TTT
1 TTT
24055067 CTTTTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTAAATATTTTACAT
Found at i:24055129 original size:33 final size:33
Alignment explanation
Indices: 24055082--24055146 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
24055072 TTAAAATTCA
24055082 ACCAATCATGAACATCGTATTCAATTATCCTTC
1 ACCAATCATGAACATCGTATTCAATTATCCTTC
*
24055115 ACCAGTCATGAACATCGTATTCAATTATCCTT
1 ACCAATCATGAACATCGTATTCAATTATCCTT
24055147 ATTCGCTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (33 bp):
ACCAATCATGAACATCGTATTCAATTATCCTTC
Found at i:24055246 original size:42 final size:42
Alignment explanation
Indices: 24055153--24055238 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 42
24055143 CCTTATTCGC
* *
24055153 TTACTTTAAAATAGTATAAAAAATTAAACTTGTTTGTTCACT
1 TTACTTTAAAATAGTATAAAAAATTAAACTTGATTGTTAACT
*
24055195 TTACTTTAAAATAGTATAAAAGATTAAA-TTGATTGATTAACT
1 TTACTTTAAAATAGTATAAAAAATTAAACTTGATTG-TTAACT
24055237 TT
1 TT
24055239 TTATTAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 6 0.15
42 34 0.85
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (42 bp):
TTACTTTAAAATAGTATAAAAAATTAAACTTGATTGTTAACT
Found at i:24057070 original size:12 final size:12
Alignment explanation
Indices: 24057047--24057096 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 12
24057037 AATAACATTT
24057047 ATTTTTCATATAA
1 ATTTTT-ATATAA
*
24057060 ATTTTTTTATAA
1 ATTTTTATATAA
*
24057072 ATTTGTTACATAA
1 ATTT-TTATATAA
24057085 ATTTTTCATATA
1 ATTTTT-ATATA
24057097 CATCATTGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 11 0.35
13 20 0.65
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (12 bp):
ATTTTTATATAA
Found at i:24058068 original size:6 final size:7
Alignment explanation
Indices: 24058052--24058078 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
24058042 GCGTTTAAAC
24058052 AAAATTA
1 AAAATTA
24058059 AAAATTA
1 AAAATTA
24058066 AAAATTA
1 AAAATTA
24058073 AAAATT
1 AAAATT
24058079 TTTGGGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AAAATTA
Found at i:24061621 original size:44 final size:44
Alignment explanation
Indices: 24061553--24061641 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
24061543 TTCTGTTTTC
24061553 AGTTTTCCACTTAAACTCTAATTAGTGTA-AGTTATTTTAATATT
1 AGTTTTCCACTTAAACTCTAATTAGTGTAGA-TTATTTTAATATT
* * *
24061597 AGTTTTCCACTTAAATTTTGATTAGTGTAGATTATTTTAATATT
1 AGTTTTCCACTTAAACTCTAATTAGTGTAGATTATTTTAATATT
24061641 A
1 A
24061642 TTGACCTACA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 40 0.98
45 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.49
Consensus pattern (44 bp):
AGTTTTCCACTTAAACTCTAATTAGTGTAGATTATTTTAATATT
Found at i:24062788 original size:18 final size:17
Alignment explanation
Indices: 24062765--24062808 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
24062755 TATAAATTTT
24062765 AAAAATTTATAAAAATAA
1 AAAAATTTATAAAAA-AA
24062783 AAAAATATT-TAAAAAAA
1 AAAAAT-TTATAAAAAAA
*
24062800 ATAAATTTA
1 AAAAATTTA
24062809 ATTTTTTGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 2 0.09
17 7 0.30
18 12 0.52
19 2 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAATTTATAAAAAAA
Found at i:24062798 original size:20 final size:20
Alignment explanation
Indices: 24062765--24062804 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
24062755 TATAAATTTT
*
24062765 AAAAATTT-ATAAAAATAAA
1 AAAAATTTAAAAAAAATAAA
24062784 AAAATATTTAAAAAAAATAAA
1 AAAA-ATTTAAAAAAAATAAA
24062805 TTTAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 4 0.22
21 10 0.56
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAAATTTAAAAAAAATAAA
Found at i:24064480 original size:16 final size:16
Alignment explanation
Indices: 24064459--24064515 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
24064449 TTTGGTTCGC
*
24064459 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
24064475 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
24064491 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
24064507 TGTAATGGA
1 TGTAATGGA
24064516 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:24064782 original size:18 final size:17
Alignment explanation
Indices: 24064761--24064795 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24064751 TTATTATTAA
*
24064761 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24064779 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24064796 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:24068894 original size:3 final size:3
Alignment explanation
Indices: 24068888--24068935 Score: 87
Period size: 3 Copynumber: 15.7 Consensus size: 3
24068878 TTCACTACTA
24068888 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT GTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
24068934 TA
1 TA
24068936 GTGTATACTT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:24069080 original size:3 final size:3
Alignment explanation
Indices: 24069074--24069207 Score: 59
Period size: 3 Copynumber: 46.7 Consensus size: 3
24069064 TTTATAATAC
* * * * * *
24069074 TAT TAT TA- TAA TCT TAT T-T TAT TAT TAT CAT TCT TAT TAA TA- CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** *
24069119 TAT TAT TAT T-T TAT CA- TAT TAT TAT T-T TAT ATAT TAT TGC TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * * * *
24069162 TAT TAA CA- TAC TAT TAT TAT TAT TA- TACT TAT TAA TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
24069206 TA
1 TA
24069208 GTACTAGTAT
Statistics
Matches: 99, Mismatches: 22, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
2 13 0.13
3 81 0.82
4 5 0.05
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:24069098 original size:19 final size:20
Alignment explanation
Indices: 24069074--24069111 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
24069064 TTTATAATAC
24069074 TATTATTAT-AATCTTATTT
1 TATTATTATCAATCTTATTT
*
24069093 TATTATTATCATTCTTATT
1 TATTATTATCAATCTTATT
24069112 AATACATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTATTATCAATCTTATTT
Found at i:24069140 original size:16 final size:15
Alignment explanation
Indices: 24069119--24069156 Score: 67
Period size: 16 Copynumber: 2.5 Consensus size: 15
24069109 ATTAATACAT
24069119 TATTATTATTTTATCA
1 TATTATTATTTTAT-A
24069135 TATTATTATTTTATA
1 TATTATTATTTTATA
24069150 TATTATT
1 TATTATT
24069157 GCTGTTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTATTATTTTATA
Found at i:24069381 original size:23 final size:23
Alignment explanation
Indices: 24069353--24069408 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
24069343 ATTTCTTATT
**
24069353 TTTTATATTACTAGTTATATATA
1 TTTTATATTACTACATATATATA
* * *
24069376 TTTTATATTATTTCATGTATATA
1 TTTTATATTACTACATATATATA
24069399 TTTTATATTA
1 TTTTATATTA
24069409 TCCTTATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTTATATTACTACATATATATA
Found at i:24074164 original size:13 final size:13
Alignment explanation
Indices: 24074146--24074170 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24074136 CATCTAGGAA
24074146 TTGTAAATAACAT
1 TTGTAAATAACAT
24074159 TTGTAAATAACA
1 TTGTAAATAACA
24074171 ATTACAAATA
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:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (13 bp):
TTGTAAATAACAT
Found at i:24074520 original size:20 final size:19
Alignment explanation
Indices: 24074476--24074513 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
24074466 ATCCAAACAC
*
24074476 CAGAAAAGTAAATTATTTT
1 CAGAAAAATAAATTATTTT
24074495 CAGAAAAATAAATTATTTT
1 CAGAAAAATAAATTATTTT
24074514 TTAGAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (19 bp):
CAGAAAAATAAATTATTTT
Found at i:24074523 original size:14 final size:14
Alignment explanation
Indices: 24074504--24074541 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
24074494 TCAGAAAAAT
*
24074504 AAATTATTTTTTAG
1 AAATTATTTTTCAG
24074518 AAATTATTTTTCAG
1 AAATTATTTTTCAG
*
24074532 AAAATATTTT
1 AAATTATTTT
24074542 ATTGGTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (14 bp):
AAATTATTTTTCAG
Found at i:24088863 original size:5 final size:6
Alignment explanation
Indices: 24088824--24088873 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
24088814 AAGTGAATAT
* * *
24088824 TTTTTA TTATTTA TTGTTA TTTTT- GTTTTG TTTTTA TTTTTA TTTTTA
1 TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
24088872 TT
1 TT
24088874 AATTTTCTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
5 4 0.11
6 27 0.73
7 6 0.16
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:24089582 original size:22 final size:22
Alignment explanation
Indices: 24089528--24089583 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
24089518 TTAGTCATAA
*
24089528 GGCCGTGTGCCTCTTTTCACAC
1 GGCCGTGTGCCTCTCTTCACAC
* *
24089550 GGCCCTATGCCTCTCTTCACAC
1 GGCCGTGTGCCTCTCTTCACAC
*
24089572 GGGCGTGTGCCT
1 GGCCGTGTGCCT
24089584 TAGTCACACA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.09, C:0.38, G:0.25, T:0.29
Consensus pattern (22 bp):
GGCCGTGTGCCTCTCTTCACAC
Found at i:24093492 original size:37 final size:37
Alignment explanation
Indices: 24093434--24093541 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
24093424 CAGCTCGAAT
* *
24093434 AATCCCCACACGTAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
24093471 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
24093508 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
24093542 ATATATTTCC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:24093725 original size:34 final size:34
Alignment explanation
Indices: 24093682--24093746 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
24093672 ATATATACAC
24093682 ATCTCATACATATTTCACATTAGCCATTCGGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCAT
24093716 ATCTCATACATATTTCACATTAGCCATTCGG
1 ATCTCATACATATTTCACATTAGCCATTCGG
24093747 ATTTACCACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.35
Consensus pattern (34 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCAT
Found at i:24093770 original size:48 final size:48
Alignment explanation
Indices: 24093713--24093909 Score: 304
Period size: 48 Copynumber: 4.1 Consensus size: 48
24093703 AGCCATTCGG
*
24093713 CATATCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATA
1 CATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA
* ** *
24093761 TATATCTCATACATATTTCATGTTAGCCATTTGGCTTTACCACATATA
1 CATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA
* *
24093809 CATATCTCATACATATTTCATATTGGCCATTCGGCTTTACCACATATA
1 CATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA
* *
24093857 CATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATA
1 CATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA
*
24093905 TATAT
1 CATAT
24093910 ATTTATCTTG
Statistics
Matches: 135, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 135 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (48 bp):
CATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA
Found at i:24103449 original size:28 final size:28
Alignment explanation
Indices: 24103409--24103468 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
24103399 CAACGAGCTA
24103409 TTGGTGTGTTGGTTGGTTACATGATGTG
1 TTGGTGTGTTGGTTGGTTACATGATGTG
24103437 TTGGTGTGTTGGTTGGTTACATGATGTG
1 TTGGTGTGTTGGTTGGTTACATGATGTG
24103465 TTGG
1 TTGG
24103469 ATGGGTCTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.10, C:0.03, G:0.40, T:0.47
Consensus pattern (28 bp):
TTGGTGTGTTGGTTGGTTACATGATGTG
Found at i:24107836 original size:10 final size:9
Alignment explanation
Indices: 24107816--24107840 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
24107806 CCTTCAACTT
24107816 AAAAAAGAA
1 AAAAAAGAA
24107825 AAAAAAGAA
1 AAAAAAGAA
24107834 AAAAAAG
1 AAAAAAG
24107841 TTCATGGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:24110317 original size:17 final size:17
Alignment explanation
Indices: 24110275--24110321 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
24110265 AATTCAATTT
24110275 TAATATAAAT-ATTCAA
1 TAATATAAATAATTCAA
24110291 T-ATGATTAAATAATTCAA
1 TAAT-A-TAAATAATTCAA
24110309 TAATATAAATAAT
1 TAATATAAATAAT
24110322 ATAAAATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.07
16 2 0.07
17 13 0.48
18 8 0.30
19 2 0.07
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (17 bp):
TAATATAAATAATTCAA
Found at i:24110945 original size:18 final size:18
Alignment explanation
Indices: 24110919--24110953 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24110909 ATTCGAGTTG
*
24110919 ACTCGAATAACTCGATTA
1 ACTCAAATAACTCGATTA
*
24110937 ACTCAAATAACTTGATT
1 ACTCAAATAACTCGATT
24110954 CATTTAATTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (18 bp):
ACTCAAATAACTCGATTA
Found at i:24121219 original size:41 final size:40
Alignment explanation
Indices: 24121120--24121266 Score: 116
Period size: 40 Copynumber: 3.6 Consensus size: 40
24121110 CTTTTATCAA
** *
24121120 ATCACCGGCATTTAGCCTGCTAGGTTTTAAACCCGAATTC
1 ATCACCGGCATTTAGCCTGCTAGACTTTAAACCCGAACTC
*** ** *
24121160 ATCACCGGCACGAAGCCTGCTAGACTTTAAGTCTGAACTC
1 ATCACCGGCATTTAGCCTGCTAGACTTTAAACCCGAACTC
* * * *
24121200 ATTCACCGGCATTTCGCCTGCTAGGCTTGAAGCCCGATA-TC
1 A-TCACCGGCATTTAGCCTGCTAGACTTTAAACCCGA-ACTC
*
24121241 ATTTCACTGGCATTATAGCCTGCTAG
1 A--TCACCGGCATT-TAGCCTGCTAG
24121267 GCCCGAAGCC
Statistics
Matches: 84, Mismatches: 19, Indels: 5
0.78 0.18 0.05
Matches are distributed among these distances:
40 32 0.38
41 30 0.36
42 12 0.14
43 10 0.12
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (40 bp):
ATCACCGGCATTTAGCCTGCTAGACTTTAAACCCGAACTC
Found at i:24123232 original size:14 final size:15
Alignment explanation
Indices: 24123203--24123232 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24123193 CAAAATTTAG
24123203 ACATGATACTTTCAC
1 ACATGATACTTTCAC
24123218 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
24123232 A
1 A
24123233 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:24124947 original size:49 final size:48
Alignment explanation
Indices: 24124893--24124985 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
24124883 GTTAGTTTAT
* *
24124893 TACTTTTCATAAGCCTCCCCCCATATGTCTAAGAGCAGGGCCACTCTAC
1 TACTTTCCATAAGCCT-CCCCCATACGTCTAAGAGCAGGGCCACTCTAC
** *
24124942 TACTTTCCATAAGCCTCCCCCATACGTCTGGGAGCAGGGTCACT
1 TACTTTCCATAAGCCTCCCCCATACGTCTAAGAGCAGGGCCACT
24124986 TTCTTAGGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 24 0.62
49 15 0.38
ACGTcount: A:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (48 bp):
TACTTTCCATAAGCCTCCCCCATACGTCTAAGAGCAGGGCCACTCTAC
Found at i:24125003 original size:48 final size:48
Alignment explanation
Indices: 24124888--24125155 Score: 189
Period size: 49 Copynumber: 5.5 Consensus size: 48
24124878 GTAGGGTTAG
* * * **
24124888 TTTATTACTTTTCATAAGCCTCCCCCCATATGTCTAAGAGCAGGGCCAC
1 TTTATTACTTTCCGTAAGCCT-CCCCCATACGTCTGGGAGCAGGGCCAC
* * * *
24124937 TCTACTACTTTCCATAAGCCTCCCCCATACGTCTGGGAGCAGGGTCAC
1 TTTATTACTTTCCGTAAGCCTCCCCCATACGTCTGGGAGCAGGGCCAC
* * * * * * *
24124985 TTTCTTAGGTTT-CGTAAGCTTTCCCCTTACATTTGGGAGCAGGGCCAC
1 TTTATTA-CTTTCCGTAAGCCTCCCCCATACGTCTGGGAGCAGGGCCAC
* * * * ** *
24125033 TTTATTACTTTCCGTAAGCCTCCTCCCATGCGTCTAGGAACAAGTTCAT
1 TTTATTACTTTCCGTAAGCCTCC-CCCATACGTCTGGGAGCAGGGCCAC
* * * * * * * *
24125082 TTTATTACTTTTCATAAGTCTCCCCCCATGCGTCTAGGAGCATGACCAT
1 TTTATTACTTTCCGTAAGCCT-CCCCCATACGTCTGGGAGCAGGGCCAC
*
24125131 TTTATTACTTAT-CATAAGCCTCCCC
1 TTTATTACTT-TCCGTAAGCCTCCCC
24125156 ATGTGTTTGG
Statistics
Matches: 174, Mismatches: 40, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
47 3 0.02
48 75 0.43
49 93 0.53
50 3 0.02
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.33
Consensus pattern (48 bp):
TTTATTACTTTCCGTAAGCCTCCCCCATACGTCTGGGAGCAGGGCCAC
Found at i:24126896 original size:23 final size:24
Alignment explanation
Indices: 24126870--24126919 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
24126860 ATATAAACAT
24126870 CAAGA-ATACATGTACTTTGTGAC
1 CAAGATATACATGTACTTTGTGAC
24126893 CAAGATATACATGTACTTTGTGAC
1 CAAGATATACATGTACTTTGTGAC
24126917 CAA
1 CAA
24126920 TATACTAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (24 bp):
CAAGATATACATGTACTTTGTGAC
Found at i:24133090 original size:14 final size:15
Alignment explanation
Indices: 24133071--24133100 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
24133061 GGCAACCTAT
24133071 ATTTATTT-ATTTTA
1 ATTTATTTGATTTTA
24133085 ATTTATTTGATTTTA
1 ATTTATTTGATTTTA
24133100 A
1 A
24133101 ACTTAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
ATTTATTTGATTTTA
Found at i:24137142 original size:19 final size:19
Alignment explanation
Indices: 24137102--24137144 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
24137092 TTTCGATCTT
*
24137102 TTTTTTATTTCATTCAAAAA
1 TTTTTTATTT-ATTAAAAAA
24137122 TTTTTTATTT-TTAAAACAA
1 TTTTTTATTTATTAAAA-AA
24137141 TTTT
1 TTTT
24137145 AAATTACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 6 0.29
20 10 0.48
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTTATTTATTAAAAAA
Found at i:24137385 original size:6 final size:6
Alignment explanation
Indices: 24137374--24137400 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
24137364 ATATATTTGA
24137374 TTTCTC TTTCTC TTTCTC TTTCTC TTT
1 TTTCTC TTTCTC TTTCTC TTTCTC TTT
24137401 TGTTCGTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTCTC
Found at i:24144847 original size:17 final size:17
Alignment explanation
Indices: 24144825--24144867 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
24144815 TGTTAAAAAA
*
24144825 TATAAATTTTGGATTTT
1 TATAAATTTTGGAATTT
*
24144842 TATAAATATTTTGAATTT
1 TATAAAT-TTTGGAATTT
*
24144860 TAAAAATT
1 TATAAATT
24144868 ATTTTGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (17 bp):
TATAAATTTTGGAATTT
Found at i:24144852 original size:19 final size:20
Alignment explanation
Indices: 24144830--24144885 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
24144820 AAAAATATAA
* *
24144830 ATTTTGGATTTTTATAAA-T
1 ATTTTGGAATTTTAAAAATT
24144849 ATTTT-GAATTTTAAAAATT
1 ATTTTGGAATTTTAAAAATT
*
24144868 ATTTTGAAAATTTTAAAA
1 ATTTTG-GAATTTTAAAA
24144886 TTACTTGTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 10 0.32
19 11 0.35
21 10 0.32
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (20 bp):
ATTTTGGAATTTTAAAAATT
Found at i:24144881 original size:21 final size:18
Alignment explanation
Indices: 24144839--24144885 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 18
24144829 AATTTTGGAT
*
24144839 TTTTATAAATATTTTGAA
1 TTTTAAAAATATTTTGAA
24144857 TTTTAAAAATTATTTTGAAAA
1 TTTTAAAAA-TATTTTG--AA
24144878 TTTTAAAA
1 TTTTAAAA
24144886 TTACTTGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 8 0.32
19 7 0.28
21 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (18 bp):
TTTTAAAAATATTTTGAA
Found at i:24165085 original size:24 final size:24
Alignment explanation
Indices: 24165065--24165143 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
24165055 AATTTCACTT
24165065 TCCAAATACAACCAATATTCAATA
1 TCCAAATACAACCAATATTCAATA
* * * * * *
24165089 TCCAAATTTC-A-TATTAACTCACTT
1 TCCAAA-TACAACCAAT-ATTCAATA
24165113 TCCAAATACAACCAATATTCAATA
1 TCCAAATACAACCAATATTCAATA
24165137 TCCAAAT
1 TCCAAAT
24165144 TTCATATTAA
Statistics
Matches: 39, Mismatches: 12, Indels: 8
0.66 0.20 0.14
Matches are distributed among these distances:
23 4 0.10
24 31 0.79
25 4 0.10
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.30
Consensus pattern (24 bp):
TCCAAATACAACCAATATTCAATA
Found at i:24165130 original size:48 final size:48
Alignment explanation
Indices: 24165059--24165154 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
24165049 GAGTTTAATT
24165059 TCACTTTCCAAATACAACCAATATTCAATATCCAAATTTCATATTAAC
1 TCACTTTCCAAATACAACCAATATTCAATATCCAAATTTCATATTAAC
24165107 TCACTTTCCAAATACAACCAATATTCAATATCCAAATTTCATATTAAC
1 TCACTTTCCAAATACAACCAATATTCAATATCCAAATTTCATATTAAC
24165155 ACATATATTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (48 bp):
TCACTTTCCAAATACAACCAATATTCAATATCCAAATTTCATATTAAC
Found at i:24165175 original size:5 final size:5
Alignment explanation
Indices: 24165161--24165207 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
24165151 TAACACATAT
* * *
24165161 ATTCA TTTCA ATTCA ATTCA ATTCA A-TCA ACTTTA AATCA ATTCA AT
1 ATTCA ATTCA ATTCA ATTCA ATTCA ATTCA A-TTCA ATTCA ATTCA AT
24165208 AATCAAAGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
4 4 0.12
5 27 0.79
6 3 0.09
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTCA
Found at i:24165882 original size:16 final size:15
Alignment explanation
Indices: 24165861--24165890 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
24165851 AAGTCTTGCG
24165861 TCTTTCTTTCTCTTTT
1 TCTTTCTTTC-CTTTT
24165877 TCTTTCTTTCCTTT
1 TCTTTCTTTCCTTT
24165891 CTATTTTCGT
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:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
TCTTTCTTTCCTTTT
Found at i:24165898 original size:20 final size:20
Alignment explanation
Indices: 24165861--24165898 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24165851 AAGTCTTGCG
*
24165861 TCTTTCTTTCTCTTTTTCTT
1 TCTTTCTTTCTCATTTTCTT
24165881 TCTTTCCTTTCT-ATTTTC
1 TCTTT-CTTTCTCATTTTC
24165899 GTTTGGCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (20 bp):
TCTTTCTTTCTCATTTTCTT
Found at i:24170636 original size:29 final size:27
Alignment explanation
Indices: 24170599--24170655 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
24170589 TTTTCTTTTC
* * *
24170599 TTTTATTTTATAATCTCCTTTTACTTTA
1 TTTTATTTTAAAACCACCTTTTA-TTTA
24170627 TTTTAATTTTAAAACCACCTTTTATTTA
1 TTTT-ATTTTAAAACCACCTTTTATTTA
24170655 T
1 T
24170656 ATAAAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.26, C:0.14, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTTATTTTAAAACCACCTTTTATTTA
Found at i:24174055 original size:31 final size:31
Alignment explanation
Indices: 24174015--24174087 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
24174005 GTTTTTGACT
24174015 TTTTGGACAGTTTTCCACTTAGATCAGTGATA
1 TTTT-GACAGTTTTCCACTTAGATCAGTGATA
24174047 TTTTGACAGTTTTCCACTTAGATCAGTGATA
1 TTTTGACAGTTTTCCACTTAGATCAGTGATA
24174078 TTTTGA-AGTT
1 TTTTGACAGTT
24174088 AAATTAGGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 4 0.10
31 33 0.80
32 4 0.10
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.44
Consensus pattern (31 bp):
TTTTGACAGTTTTCCACTTAGATCAGTGATA
Found at i:24185051 original size:8 final size:8
Alignment explanation
Indices: 24185018--24185060 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
24185008 AAAATCTAAG
*
24185018 ATTTTTTT
1 ATTTTATT
*
24185026 ATATTTAAT
1 AT-TTTATT
*
24185035 ATATTATT
1 ATTTTATT
24185043 ATTTTATT
1 ATTTTATT
24185051 ATTTTATT
1 ATTTTATT
24185059 AT
1 AT
24185061 ATAATAAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
8 23 0.79
9 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
ATTTTATT
Found at i:24185095 original size:5 final size:5
Alignment explanation
Indices: 24185085--24185111 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
24185075 TTATGTTTTA
24185085 ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT AT
24185112 AAACTAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:24186403 original size:15 final size:15
Alignment explanation
Indices: 24186383--24186439 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
24186373 CGATGAATTT
24186383 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* * *
24186398 ATTGAAATTGTTTTG
1 ATTGAATTTATATTG
24186413 ATTGAATTTATATTG
1 ATTGAATTTATATTG
24186428 ATTGAA-TTATAT
1 ATTGAATTTATAT
24186440 AATATATATG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 6 0.17
15 30 0.83
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:24186858 original size:21 final size:22
Alignment explanation
Indices: 24186823--24186869 Score: 78
Period size: 21 Copynumber: 2.1 Consensus size: 22
24186813 AGGCACTTTA
24186823 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA-TTCAGGCACCTCG
24186846 TGTGTCGTA-TCAGGCACCTCG
1 TGTGTCGTATTCAGGCACCTCG
24186867 TGT
1 TGT
24186870 ACCGTTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 15 0.62
23 9 0.38
ACGTcount: A:0.13, C:0.26, G:0.28, T:0.34
Consensus pattern (22 bp):
TGTGTCGTATTCAGGCACCTCG
Found at i:24186881 original size:21 final size:21
Alignment explanation
Indices: 24186834--24186883 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
24186824 GTGTCGTATT
**
24186834 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTACCGTA
*
24186855 TCAGGCACCTCGTGTACCGTT
1 TCAGGCACCTCGTGTACCGTA
*
24186876 TTAGGCAC
1 TCAGGCAC
24186884 TTTATGTGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.16, C:0.30, G:0.26, T:0.28
Consensus pattern (21 bp):
TCAGGCACCTCGTGTACCGTA
Found at i:24191626 original size:17 final size:18
Alignment explanation
Indices: 24191604--24191637 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
24191594 TTGTTTATAA
24191604 TTTAAAAAA-TTAATTAT
1 TTTAAAAAATTTAATTAT
24191621 TTTAAAAAATTTAATTA
1 TTTAAAAAATTTAATTA
24191638 AAGTTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTAAAAAATTTAATTAT
Found at i:24194372 original size:16 final size:16
Alignment explanation
Indices: 24194351--24194383 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24194341 TATTCTCAAA
*
24194351 TATTAATTAATTAATT
1 TATTAATTAACTAATT
24194367 TATTAATTAACTAATT
1 TATTAATTAACTAATT
24194383 T
1 T
24194384 TTCCAACACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTAATTAACTAATT
Found at i:24196076 original size:17 final size:17
Alignment explanation
Indices: 24196054--24196087 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
24196044 TAGATCCTAG
24196054 ATTCGTTTATGGATTTA
1 ATTCGTTTATGGATTTA
24196071 ATTCGTTTATGGATTTA
1 ATTCGTTTATGGATTTA
24196088 TTCACTTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.53
Consensus pattern (17 bp):
ATTCGTTTATGGATTTA
Found at i:24201889 original size:13 final size:14
Alignment explanation
Indices: 24201863--24201892 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24201853 TCTTAAAAGG
24201863 TTTTGTTTCTTCTT
1 TTTTGTTTCTTCTT
24201877 TTTTGTTTC-TCTT
1 TTTTGTTTCTTCTT
24201890 TTT
1 TTT
24201893 ATTAGTTCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.00, C:0.13, G:0.07, T:0.80
Consensus pattern (14 bp):
TTTTGTTTCTTCTT
Found at i:24203735 original size:18 final size:19
Alignment explanation
Indices: 24203687--24203737 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
24203677 TCACTCGAAC
*
24203687 CTAACTCTCTCTATTCTCT
1 CTAACTCTCTCAATTCTCT
24203706 CTAAGCT-T-TCAATTCTCT
1 CTAA-CTCTCTCAATTCTCT
24203724 C-AACTCTCTCAATT
1 CTAACTCTCTCAATT
24203738 TTTGTTCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 2 0.07
17 3 0.11
18 16 0.57
19 5 0.18
20 2 0.07
ACGTcount: A:0.22, C:0.33, G:0.02, T:0.43
Consensus pattern (19 bp):
CTAACTCTCTCAATTCTCT
Found at i:24205766 original size:35 final size:36
Alignment explanation
Indices: 24205720--24205788 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
24205710 TCCGTCCTGC
* *
24205720 CTTCTTTTTCTTCCATTCTTCAAAT-TTTTCCATAT
1 CTTCTTCTTCTTCCATTCTTCAAATCTCTTCCATAT
*
24205755 CTTCTTCTTCTTCTATTCTTCAAATCTCTTCCAT
1 CTTCTTCTTCTTCCATTCTTCAAATCTCTTCCAT
24205789 TTTTCCTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 23 0.77
36 7 0.23
ACGTcount: A:0.16, C:0.29, G:0.00, T:0.55
Consensus pattern (36 bp):
CTTCTTCTTCTTCCATTCTTCAAATCTCTTCCATAT
Found at i:24206802 original size:22 final size:24
Alignment explanation
Indices: 24206761--24206805 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
24206751 CATGAAAATT
24206761 ACCAAAAAACAAAGAGAATAAAAA
1 ACCAAAAAACAAAGAGAATAAAAA
*
24206785 ACCAAAAGA-AAAGA-AATAAAA
1 ACCAAAAAACAAAGAGAATAAAA
24206806 CTCTTTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 5 0.25
24 8 0.40
ACGTcount: A:0.76, C:0.11, G:0.09, T:0.04
Consensus pattern (24 bp):
ACCAAAAAACAAAGAGAATAAAAA
Found at i:24207493 original size:5 final size:5
Alignment explanation
Indices: 24207483--24207536 Score: 81
Period size: 5 Copynumber: 10.8 Consensus size: 5
24207473 TTCATATTCA
* * *
24207483 AACAC AACAC AACAC AACAC AACAC AACAC AATAC AACAC AACAT AACAT
1 AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACAC AACAC
24207533 AACA
1 AACA
24207537 TAACCATAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.61, C:0.33, G:0.00, T:0.06
Consensus pattern (5 bp):
AACAC
Found at i:24207600 original size:13 final size:13
Alignment explanation
Indices: 24207582--24207609 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24207572 GATAGGAAAG
24207582 CATAAGTCGTAAA
1 CATAAGTCGTAAA
24207595 CATAAGTCGTAAA
1 CATAAGTCGTAAA
24207608 CA
1 CA
24207610 ACAATATGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.21
Consensus pattern (13 bp):
CATAAGTCGTAAA
Found at i:24207971 original size:32 final size:32
Alignment explanation
Indices: 24207930--24207994 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
24207920 TAATCTAGTT
24207930 TAGTTAGGTTTATGTTTGATTCTGAGTAGCTA
1 TAGTTAGGTTTATGTTTGATTCTGAGTAGCTA
24207962 TAGTTAGGTTTATGTTTGATTCTGAGTAGCTA
1 TAGTTAGGTTTATGTTTGATTCTGAGTAGCTA
24207994 T
1 T
24207995 CATCTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.06, G:0.25, T:0.48
Consensus pattern (32 bp):
TAGTTAGGTTTATGTTTGATTCTGAGTAGCTA
Found at i:24209480 original size:15 final size:15
Alignment explanation
Indices: 24209462--24209501 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
24209452 ACTCTATTCC
* *
24209462 CTTTAATCATGGTAA
1 CTTTAGTCATAGTAA
24209477 CTTTAGTCATAGTAA
1 CTTTAGTCATAGTAA
24209492 CTTTAGTCAT
1 CTTTAGTCAT
24209502 TGCTTGAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (15 bp):
CTTTAGTCATAGTAA
Found at i:24210528 original size:40 final size:40
Alignment explanation
Indices: 24210482--24210558 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
24210472 TGAAAAACGC
* *
24210482 CGCTAAAGAACGAGCATTAGCGATGTTTTTTAAAAAATGT
1 CGCTAAAGAACGAGCATTAGCGACGCTTTTTAAAAAATGT
*
24210522 CGCTAAAGAACGAGCATTAGCGGCGCTTTTTAAAAAA
1 CGCTAAAGAACGAGCATTAGCGACGCTTTTTAAAAAA
24210559 ACGCAGCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.26
Consensus pattern (40 bp):
CGCTAAAGAACGAGCATTAGCGACGCTTTTTAAAAAATGT
Found at i:24210947 original size:14 final size:14
Alignment explanation
Indices: 24210896--24211099 Score: 65
Period size: 14 Copynumber: 14.3 Consensus size: 14
24210886 TTAATTATCA
*
24210896 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
*
24210910 TTATGGTATAGGGT
1 TTATGGTTTAGGGT
*
24210924 GTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* * *
24210938 TTAAGCTTTAAGAGT
1 TTATGGTTT-AGGGT
*
24210953 TACTAT--TTTAAGGT
1 T--TATGGTTTAGGGT
**
24210967 TTATGAATTATGGGT
1 TTATGGTTTA-GGGT
* * *
24210982 TT-TGGGATTATGAT
1 TTAT-GGTTTAGGGT
* *
24210996 TTATGGTTTATGAT
1 TTATGGTTTAGGGT
* * * *
24211010 TTAAGGGTTGGGAGA
1 TTATGGTTTAGG-GT
**
24211025 CAATGG-TTAGGGGT
1 TTATGGTTTA-GGGT
*
24211039 TTAGGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
24211053 TTATGGTTTTATGAT
1 TTATGG-TTTAGGGT
* * *
24211068 TTATGATTTATGTT
1 TTATGGTTTAGGGT
*
24211082 TTATGATTTAGGGT
1 TTATGGTTTAGGGT
24211096 TTAT
1 TTAT
24211100 AGGGATACGG
Statistics
Matches: 140, Mismatches: 38, Indels: 24
0.69 0.19 0.12
Matches are distributed among these distances:
12 3 0.02
14 97 0.69
15 38 0.27
17 2 0.01
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:24211060 original size:21 final size:21
Alignment explanation
Indices: 24211036--24211099 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
24211026 AATGGTTAGG
* *
24211036 GGTTTAGGGTTTAGGGTTTAT
1 GGTTTATGATTTAGGGTTTAT
* *
24211057 GGTTTTATGATTTATGATTTAT
1 GGTTT-ATGATTTAGGGTTTAT
*
24211079 GTTTTATGATTTAGGGTTTAT
1 GGTTTATGATTTAGGGTTTAT
24211100 AGGGATACGG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
21 19 0.54
22 16 0.46
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.55
Consensus pattern (21 bp):
GGTTTATGATTTAGGGTTTAT
Found at i:24211070 original size:7 final size:7
Alignment explanation
Indices: 24211060--24211091 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
24211050 GGTTTATGGT
24211060 TTTATGA
1 TTTATGA
24211067 TTTATGA
1 TTTATGA
*
24211074 TTTATGT
1 TTTATGA
24211081 TTTATGA
1 TTTATGA
24211088 TTTA
1 TTTA
24211092 GGGTTTATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (7 bp):
TTTATGA
Found at i:24213358 original size:43 final size:43
Alignment explanation
Indices: 24213297--24213382 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
24213287 TTAATCAAGG
24213297 CATATACTGCAGCATACACAATGGCTTCCAAATTCTTGACCCT
1 CATATACTGCAGCATACACAATGGCTTCCAAATTCTTGACCCT
24213340 CATATACTGCAGCATACACAATGGCTTCCAAATTCTTGACCCT
1 CATATACTGCAGCATACACAATGGCTTCCAAATTCTTGACCCT
24213383 TCTAACAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.28
Consensus pattern (43 bp):
CATATACTGCAGCATACACAATGGCTTCCAAATTCTTGACCCT
Found at i:24217890 original size:43 final size:43
Alignment explanation
Indices: 24217837--24217958 Score: 167
Period size: 42 Copynumber: 2.9 Consensus size: 43
24217827 TAAAAGGTTA
*
24217837 TGATTTTTAGTGGCGTTTGTAGGAAAAGTGTCGCTAAAGGTCG
1 TGATTTTTAGTGGCGTTTGTAGGAAAAGTGCCGCTAAAGGTCG
* * *
24217880 TGTTTTTTAGTGGCGTTTTTAGG-GAAGTGCCGCTAAAGGTCG
1 TGATTTTTAGTGGCGTTTGTAGGAAAAGTGCCGCTAAAGGTCG
* * *
24217922 TGATCTTTAGTGGCGTTTGT-GGGAAAGTGCTGCTAAA
1 TGATTTTTAGTGGCGTTTGTAGGAAAAGTGCCGCTAAA
24217959 AACCATGACT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 2 0.03
42 46 0.67
43 21 0.30
ACGTcount: A:0.20, C:0.11, G:0.33, T:0.36
Consensus pattern (43 bp):
TGATTTTTAGTGGCGTTTGTAGGAAAAGTGCCGCTAAAGGTCG
Done.