Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 85 of 120
Found at i:24675295 original size:40 final size:40
Alignment explanation
Indices: 24675215--24675437 Score: 232
Period size: 40 Copynumber: 5.6 Consensus size: 40
24675205 GAACGTTTAT
* * *
24675215 AACTGGCAGTGACACTATAAACACTACGATAATATTACTG
1 AACTGGCAGTGACACTATAAACACTGCGATATTACTACTG
* * * * **
24675255 AACTGGCAGTGACATTGTAAAAACTGCAATGCTA-TCACTG
1 AACTGGCAGTGACACTATAAACACTGCGATATTACT-ACTG
* * *
24675295 AATTGACAGTGACACTATAAACACTGCGATATTACTACTA
1 AACTGGCAGTGACACTATAAACACTGCGATATTACTACTG
* *
24675335 AACTGGCAATGACACTGTAAACACTGCGATATTACTACTG
1 AACTGGCAGTGACACTATAAACACTGCGATATTACTACTG
* * * **
24675375 AACTGGTAGTGACACTATAAACACTGCAATATTATTACCA
1 AACTGGCAGTGACACTATAAACACTGCGATATTACTACTG
* * *
24675415 AACTAGCCGTGACACTGTAAACA
1 AACTGGCAGTGACACTATAAACA
24675438 TTGCTAAACT
Statistics
Matches: 149, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 147 0.99
41 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (40 bp):
AACTGGCAGTGACACTATAAACACTGCGATATTACTACTG
Found at i:24675428 original size:120 final size:120
Alignment explanation
Indices: 24675215--24675437 Score: 277
Period size: 120 Copynumber: 1.9 Consensus size: 120
24675205 GAACGTTTAT
* * * *
24675215 AACTGGCAGTGACACTATAAACACTACGATAATATTACTGAACTGGCAGTGACATTGTAAAAACT
1 AACTGGCAATGACACTATAAACACTACGATAATACTACTGAACTGGCAGTGACACTATAAAAACT
* ** *
24675280 GCAATGCTATCACTGAATTGACAGTGACACTATAAACACTGCGATATTACTACTA
66 GCAATACTATCACCAAATAGACAGTGACACTATAAACACTGCGATATTACTACTA
* * * * *
24675335 AACTGGCAATGACACTGTAAACACTGCGATATTACTACTGAACTGGTAGTGACACTATAAACACT
1 AACTGGCAATGACACTATAAACACTACGATAATACTACTGAACTGGCAGTGACACTATAAAAACT
* * * *
24675400 GCAATATTATTACCAAACTAG-CCGTGACACTGTAAACA
66 GCAATACTATCACCAAA-TAGACAGTGACACTATAAACA
24675438 TTGCTAAACT
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
120 83 0.98
121 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (120 bp):
AACTGGCAATGACACTATAAACACTACGATAATACTACTGAACTGGCAGTGACACTATAAAAACT
GCAATACTATCACCAAATAGACAGTGACACTATAAACACTGCGATATTACTACTA
Found at i:24675436 original size:80 final size:80
Alignment explanation
Indices: 24675215--24675459 Score: 278
Period size: 80 Copynumber: 3.1 Consensus size: 80
24675205 GAACGTTTAT
* * * * *
24675215 AACTGGCAGTGACACTATAAACACTACGATAATATTACTGAACTGGCAGTGACATTGTAAAAACT
1 AACTGGCAGTGACACTATAAACACTGCGATATTATTACTAAACTGGCAGTGACACTGTAAACACT
*
24675280 GCAATGCTATCACTG
66 GCAATACTATCACTG
* * * *
24675295 AATTGACAGTGACACTATAAACACTGCGATATTACTACTAAACTGGCAATGACACTGTAAACACT
1 AACTGGCAGTGACACTATAAACACTGCGATATTATTACTAAACTGGCAGTGACACTGTAAACACT
* *
24675360 GCGATATTA-CTACTG
66 GCAATACTATC-ACTG
* * * * * *
24675375 AACTGGTAGTGACACTATAAACACTGCAATATTATTACCAAACTAGCCGTGACACTGTAAACATT
1 AACTGGCAGTGACACTATAAACACTGCGATATTATTACTAAACTGGCAGTGACACTGTAAACACT
* *
24675440 GCTAA-ACTGTCAATG
66 GC-AATACTATCACTG
24675455 AACTG
1 AACTG
24675460 TATTACCACT
Statistics
Matches: 136, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
79 1 0.01
80 133 0.98
81 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.26
Consensus pattern (80 bp):
AACTGGCAGTGACACTATAAACACTGCGATATTATTACTAAACTGGCAGTGACACTGTAAACACT
GCAATACTATCACTG
Found at i:24678152 original size:15 final size:15
Alignment explanation
Indices: 24678124--24678165 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
24678114 AAATTAGTTT
*
24678124 AATTGGTTTAATTTA
1 AATTGATTTAATTTA
*
24678139 AATTGATTTGATTTA
1 AATTGATTTAATTTA
24678154 AATTGATTTAAT
1 AATTGATTTAAT
24678166 GACCCTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (15 bp):
AATTGATTTAATTTA
Found at i:24678597 original size:2 final size:2
Alignment explanation
Indices: 24678590--24678672 Score: 148
Period size: 2 Copynumber: 41.5 Consensus size: 2
24678580 TTAGATTTTC
24678590 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
24678632 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24678673 ATTATATTGT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:24692584 original size:104 final size:103
Alignment explanation
Indices: 24692436--24692627 Score: 244
Period size: 104 Copynumber: 1.8 Consensus size: 103
24692426 GACAATAACA
* * * * * *
24692436 TCAACACCCTCTCCTCCTAAACCTTTAACACCCTCACCACCTTTACTGCTAGCAACCTCAACACC
1 TCAACACCCTCTCCACCTAAACCTTCAACACCATCACCACCTTTACTGCCAACAACCTC-AC-CA
24692501 CTTT-CACTTAAACCTTCACCACTTTTACTATCAACAACC
64 CTTTCCACTTAAACCTTCACCACTTTTACTATCAACAACC
* * *
24692540 TCAACACCCTC-CCAACCTAAACCTTCAGCACCATCACCATCTTTATTGCCAACAACCTCACCAC
1 TCAACACCCTCTCC-ACCTAAACCTTCAACACCATCACCACCTTTACTGCCAACAACCTCACCAC
24692604 TTTCCCCACTTAAACCTTCACCAC
65 TTT--CCACTTAAACCTTCACCAC
24692628 CATCCTCACC
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
102 5 0.07
103 4 0.05
104 48 0.64
105 18 0.24
ACGTcount: A:0.29, C:0.44, G:0.02, T:0.25
Consensus pattern (103 bp):
TCAACACCCTCTCCACCTAAACCTTCAACACCATCACCACCTTTACTGCCAACAACCTCACCACT
TTCCACTTAAACCTTCACCACTTTTACTATCAACAACC
Found at i:24693484 original size:30 final size:30
Alignment explanation
Indices: 24693438--24693529 Score: 114
Period size: 30 Copynumber: 3.1 Consensus size: 30
24693428 TCATAAATCG
* *
24693438 AAAACCATAAAAGAAAATCCCCAAAATCAA
1 AAAACCCTAAAAGAAAATCTCCAAAATCAA
* *
24693468 AAAACCCTAAATGAAAATCTCAAAAATCAA
1 AAAACCCTAAAAGAAAATCTCCAAAATCAA
**
24693498 ATTACCCTAAACA-AAAATCTCCAAAATCAA
1 AAAACCCTAAA-AGAAAATCTCCAAAATCAA
24693528 AA
1 AA
24693530 CTCCTAACCC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.60, C:0.23, G:0.02, T:0.15
Consensus pattern (30 bp):
AAAACCCTAAAAGAAAATCTCCAAAATCAA
Found at i:24693536 original size:29 final size:28
Alignment explanation
Indices: 24693409--24693536 Score: 98
Period size: 30 Copynumber: 4.4 Consensus size: 28
24693399 AAAATACACA
* **
24693409 AAAATCCTAAACAAATGTCT-CATAAATC
1 AAAACCCTAAACAAAAATCTCCA-AAATC
* *
24693437 GAAAACCATAAA-AGAAAATCCCCAAAATC
1 -AAAACCCTAAACA-AAAATCTCCAAAATC
** *
24693466 AAAAAACCCTAAATGAAAATCTCAAAAATC
1 --AAAACCCTAAACAAAAATCTCCAAAATC
24693496 AAATTACCCTAAACAAAAATCTCCAAAATC
1 AAA--ACCCTAAACAAAAATCTCCAAAATC
24693526 AAAACTCCTAA
1 AAAAC-CCTAA
24693537 CCCAAGATCC
Statistics
Matches: 79, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
28 6 0.08
29 23 0.29
30 50 0.63
ACGTcount: A:0.55, C:0.23, G:0.03, T:0.18
Consensus pattern (28 bp):
AAAACCCTAAACAAAAATCTCCAAAATC
Found at i:24708569 original size:17 final size:17
Alignment explanation
Indices: 24708528--24708569 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
24708518 TTTTTTTCAT
*
24708528 TTTCTTTTGTTTCTCCT
1 TTTCTTTTGTTTCTCCA
* *
24708545 TTTATTTTTTTTCTCCA
1 TTTCTTTTGTTTCTCCA
24708562 TTTCTTTT
1 TTTCTTTT
24708570 AACATAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTCTTTTGTTTCTCCA
Found at i:24710319 original size:15 final size:15
Alignment explanation
Indices: 24710299--24710329 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24710289 GTACCAGTCC
*
24710299 ACTTCTATCGATACA
1 ACTTCTATCCATACA
24710314 ACTTCTATCCATACA
1 ACTTCTATCCATACA
24710329 A
1 A
24710330 GTCCATTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.32
Consensus pattern (15 bp):
ACTTCTATCCATACA
Found at i:24710341 original size:20 final size:20
Alignment explanation
Indices: 24710316--24710355 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
24710306 TCGATACAAC
*
24710316 TTCTATCCATACAAGTCCAT
1 TTCTATCCATACAAATCCAT
**
24710336 TTCTATTGATACAAATCCAT
1 TTCTATCCATACAAATCCAT
24710356 GGTCCACTTC
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:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (20 bp):
TTCTATCCATACAAATCCAT
Found at i:24710774 original size:13 final size:12
Alignment explanation
Indices: 24710740--24710771 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
24710730 TATTTATATA
24710740 TTTTAAAATTTT
1 TTTTAAAATTTT
*
24710752 TTTTAGAATTTT
1 TTTTAAAATTTT
24710764 TTTTAAAA
1 TTTTAAAA
24710772 ATTATTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (12 bp):
TTTTAAAATTTT
Found at i:24713589 original size:6 final size:6
Alignment explanation
Indices: 24713578--24713602 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24713568 GAAAGAAGAG
24713578 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
24713603 TCAATTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:24715283 original size:3 final size:3
Alignment explanation
Indices: 24715275--24715335 Score: 59
Period size: 3 Copynumber: 20.3 Consensus size: 3
24715265 GTGAAAAAAT
* * * * * * *
24715275 ATA ATA ATA ATA ATA ATA ATA ACA ACA ACA ACA ACA ACA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
24715323 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
24715336 AACTTGTGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.21
Consensus pattern (3 bp):
ATA
Found at i:24717445 original size:13 final size:13
Alignment explanation
Indices: 24717427--24717451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24717417 TTGATCGACC
24717427 CGTTGACTTTGAT
1 CGTTGACTTTGAT
24717440 CGTTGACTTTGA
1 CGTTGACTTTGA
24717452 CCAGACATGT
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:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (13 bp):
CGTTGACTTTGAT
Found at i:24720027 original size:59 final size:58
Alignment explanation
Indices: 24719931--24720099 Score: 205
Period size: 59 Copynumber: 2.9 Consensus size: 58
24719921 GAAGGTTTGG
** * * * *
24719931 GGTAATTTTTAGTGAAATCGGGGTTAAAATGGGATTTTGGAAAGTTCGA-GGGTTAAAT
1 GGTAATTTTCGGTAAAATCGGGGTTAAAATGGAATTTTAGAAAGTT-GAGGGGTAAAAT
** *
24719989 GGTAATGTTTCGGTAAAATCGGGGTTAAAATAAAATTTTAGAAAGTTTAGGGGTAAAAT
1 GGTAAT-TTTCGGTAAAATCGGGGTTAAAATGGAATTTTAGAAAGTTGAGGGGTAAAAT
* *
24720048 GGTAATTTTGGGTAAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTTAGGG
1 GGTAATTTTCGGTAAAATCGGGGTT-AAAATGGAATTTTAGAAAGTTGAGGG
24720100 ACTAGAGAGT
Statistics
Matches: 96, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
58 25 0.26
59 71 0.74
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (58 bp):
GGTAATTTTCGGTAAAATCGGGGTTAAAATGGAATTTTAGAAAGTTGAGGGGTAAAAT
Found at i:24720822 original size:15 final size:14
Alignment explanation
Indices: 24720784--24720824 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
24720774 CTCTTCTTCT
24720784 TTCTTTTTCTTTTA
1 TTCTTTTTCTTTTA
* *
24720798 TTCCTTTTCTTTTG
1 TTCTTTTTCTTTTA
24720812 TTCTTTATTCTTT
1 TTCTTT-TTCTTT
24720825 ATTTCAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.76
Consensus pattern (14 bp):
TTCTTTTTCTTTTA
Found at i:24721534 original size:16 final size:18
Alignment explanation
Indices: 24721508--24721540 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24721498 ATAGACAAAG
24721508 AAAACGGACAAT-AAGCC
1 AAAACGGACAATCAAGCC
24721525 AAAA-GGACAATCAAGC
1 AAAACGGACAATCAAGC
24721541 TAATACTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.55, C:0.21, G:0.18, T:0.06
Consensus pattern (18 bp):
AAAACGGACAATCAAGCC
Found at i:24723134 original size:19 final size:19
Alignment explanation
Indices: 24723094--24723138 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
24723084 TTTTATTAGG
24723094 ATTTAATATTTAAGATATT
1 ATTTAATATTTAAGATATT
* *
24723113 ATTTATTATTTAA-ATTTGT
1 ATTTAATATTTAAGATAT-T
24723132 ATTTAAT
1 ATTTAAT
24723139 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAGATATT
Found at i:24723142 original size:24 final size:24
Alignment explanation
Indices: 24723113--24723160 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
24723103 TTAAGATATT
24723113 ATTTATTATTTA-AATTTGTATTTA
1 ATTTA-TATTTATAATTTGTATTTA
* *
24723137 ATTTATGTTTATATTTTGTATTTA
1 ATTTATATTTATAATTTGTATTTA
24723161 TTTTTTAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
ATTTATATTTATAATTTGTATTTA
Found at i:24723972 original size:21 final size:21
Alignment explanation
Indices: 24723935--24723993 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
24723925 TTCGACTTCC
* *
24723935 CTATTTT-TATTTCTTTTAGTT
1 CTATTTTCT-TTTATTTTAATT
24723956 CTATTTTCTTTTATTTTTAATT
1 CTATTTTCTTTTA-TTTTAATT
*
24723978 CT-GTTTCTTTTATTTT
1 CTATTTTCTTTTATTTT
24723994 TCCTTAGATC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 4 0.12
21 19 0.58
22 10 0.30
ACGTcount: A:0.14, C:0.10, G:0.03, T:0.73
Consensus pattern (21 bp):
CTATTTTCTTTTATTTTAATT
Found at i:24725570 original size:21 final size:21
Alignment explanation
Indices: 24725546--24725585 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24725536 GCAATCTATA
*
24725546 GATTTCCAAAAGCAAACTGTG
1 GATTTCCAAAAGAAAACTGTG
*
24725567 GATTTTCAAAAGAAAACTG
1 GATTTCCAAAAGAAAACTG
24725586 AGGCATCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.25
Consensus pattern (21 bp):
GATTTCCAAAAGAAAACTGTG
Found at i:24729601 original size:12 final size:12
Alignment explanation
Indices: 24729584--24729638 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
24729574 GGCAACCTAA
24729584 TTATTTTTATTT
1 TTATTTTTATTT
24729596 TTATTTTTATTT
1 TTATTTTTATTT
*
24729608 TCTA-TCTTA-TT
1 T-TATTTTTATTT
*
24729619 TTATTTATT-TAT
1 TTATTT-TTATTT
24729631 TTATTTTT
1 TTATTTTT
24729639 GTCCAGGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
10 2 0.06
11 6 0.17
12 26 0.72
13 2 0.06
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (12 bp):
TTATTTTTATTT
Found at i:24729620 original size:17 final size:17
Alignment explanation
Indices: 24729595--24729637 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
24729585 TATTTTTATT
24729595 TTTATTTTTATTT-TCTA
1 TTTA-TTTTATTTATCTA
*
24729612 TCTTATTTTATTTATTTA
1 T-TTATTTTATTTATCTA
24729630 TTTATTTT
1 TTTATTTT
24729638 TGTCCAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTATTTTATTTATCTA
Found at i:24730491 original size:107 final size:105
Alignment explanation
Indices: 24730321--24730512 Score: 235
Period size: 107 Copynumber: 1.8 Consensus size: 105
24730311 ATGTGTTAGA
* * * * *
24730321 TGAGTAACCGAGGTGGAGTGCTTGGTTGTCATTTCACTTCGCGTCAAAAGGGCTAATACATTC-T
1 TGAGTAACCGAGATGGAGTGCTTGGGTATCATTTCACTTCGCGTCAAAAGAGCCAATACATTCTT
24730385 ACAAAAAAAAAAGAGAAGAAAAAAAATTGAGAGCATGTTGGGT
66 A-AAAAAAAAAA-A-AAGAAAAAAAATTGAGAGCATGTTGGGT
* * * **
24730428 TGAGTAATCCG-GATGGAGTTCTTGGGTATCATTTCATTTCGCGTCAAAAGATCCAATGTATTCT
1 TGAGTAA-CCGAGATGGAGTGCTTGGGTATCATTTCACTTCGCGTCAAAAGAGCCAATACATTCT
*
24730492 TAAAGAAAAAAAAAAGAAAAA
65 TAAAAAAAAAAAAAAGAAAAA
24730513 TTCACAAAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
105 8 0.11
106 1 0.01
107 58 0.81
108 5 0.07
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (105 bp):
TGAGTAACCGAGATGGAGTGCTTGGGTATCATTTCACTTCGCGTCAAAAGAGCCAATACATTCTT
AAAAAAAAAAAAAAGAAAAAAAATTGAGAGCATGTTGGGT
Found at i:24731105 original size:19 final size:19
Alignment explanation
Indices: 24731083--24731127 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
24731073 TTATATTAGG
24731083 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
24731102 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
24731121 ATTTAAT
1 ATTTAAT
24731128 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:24731963 original size:21 final size:21
Alignment explanation
Indices: 24731920--24731978 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
24731910 TCGATTTCCT
*
24731920 TATTTTCTATT-TCTTTTAGTTC
1 TATTTTCT-TTAT-TTTTAATTC
24731942 TATTTTCTTTATTTTTAATTC
1 TATTTTCTTTATTTTTAATTC
*
24731963 T-GTTTCTTTTATTTTT
1 TATTTTC-TTTATTTTT
24731979 CCTTAGATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 4 0.12
21 20 0.61
22 9 0.27
ACGTcount: A:0.14, C:0.10, G:0.03, T:0.73
Consensus pattern (21 bp):
TATTTTCTTTATTTTTAATTC
Found at i:24734661 original size:15 final size:15
Alignment explanation
Indices: 24734641--24734670 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24734631 CGTTTGTGGA
*
24734641 ATTATTTAATTAATT
1 ATTATTCAATTAATT
24734656 ATTATTCAATTAATT
1 ATTATTCAATTAATT
24734671 TGTCTTAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTATTCAATTAATT
Found at i:24739777 original size:23 final size:23
Alignment explanation
Indices: 24739750--24739796 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
24739740 GTTCAACTAT
*
24739750 ATGTTCATAAACATGCTCGTTTA
1 ATGTTCATAAACATGCTCGATTA
* * *
24739773 ATGTTCGTGAACATGTTCGATTA
1 ATGTTCATAAACATGCTCGATTA
24739796 A
1 A
24739797 GTTAAATGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (23 bp):
ATGTTCATAAACATGCTCGATTA
Found at i:24742546 original size:9 final size:9
Alignment explanation
Indices: 24742519--24742555 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
24742509 TTGTATATGG
24742519 TTATTTTAA
1 TTATTTTAA
24742528 TT-TTTT-A
1 TTATTTTAA
24742535 TTATTTTAA
1 TTATTTTAA
*
24742544 TTATTATAA
1 TTATTTTAA
24742553 TTA
1 TTA
24742556 AGATAATTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
7 3 0.12
8 8 0.32
9 14 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTATTTTAA
Found at i:24743169 original size:24 final size:24
Alignment explanation
Indices: 24743137--24743187 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
24743127 ATAATTCATC
24743137 TTCAATCTATACTCCTGTAGTAAA
1 TTCAATCTATACTCCTGTAGTAAA
*
24743161 TTCAATCTATACTCCTGTAGTAGA
1 TTCAATCTATACTCCTGTAGTAAA
24743185 TTC
1 TTC
24743188 TTGTGTCATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (24 bp):
TTCAATCTATACTCCTGTAGTAAA
Found at i:24745543 original size:34 final size:33
Alignment explanation
Indices: 24745465--24745555 Score: 94
Period size: 35 Copynumber: 2.7 Consensus size: 33
24745455 TGTTTGATAA
* *
24745465 ATTAAA-AAATTAAAGTTATGAAATATATTTATAT
1 ATTAAATAAATTAAA--TATAAAATATAATTATAT
**
24745499 ATTATTTAAATTAAATATAAAATATAATTATACT
1 ATTAAATAAATTAAATATAAAATATAATTATA-T
*
24745533 ATTAAATAAATGTAAATGTAAAA
1 ATTAAATAAAT-TAAATATAAAA
24745556 AAATAAAGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
33 15 0.32
34 14 0.30
35 18 0.38
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (33 bp):
ATTAAATAAATTAAATATAAAATATAATTATAT
Found at i:24748846 original size:427 final size:424
Alignment explanation
Indices: 24748012--24748868 Score: 1403
Period size: 427 Copynumber: 2.0 Consensus size: 424
24748002 GCAGCCATTT
* *
24748012 AAGCATTTGCAATTTATGTTTTGTCTCAGCGAACACAGACATACAAACAACAAGTAATCTTATAT
1 AAGCATTTGCAATTTATGTTTTGTCTCAGCGAAAACAGACATACAAACAACAAGAAATCTTATAT
24748077 TTAATTATATTAAGCCGGTACTAAAGTCCCGGAGTGCTCGGAACCCGTGTGTTAGCATGTATTCG
66 TTAATTATATTAAGCCGGTACTAAAGTCCCGGAGTGCTCGGAACCCGTGTGTTAGCATGTATTCG
* *
24748142 AGTTGCGTTAGTCGTGTTGCTGCTAGGACTTTACCCTCCTATTGTAATTTATCAAAAAAAAAAAT
131 AGTCGCGTTAGTCGTGTTGCTGCTAGGACTTTACCCTCCTATTATAATTTATCAAAAAAAAAAAT
*
24748207 CCCTGAGTGCCCGAACTCCAAAGCCCAACAAAATAGAAATAGAAAATACAACAAAAATTGCGTTT
196 CCCTGAGTGCCCAAACTCCAAAGCCCAACAAAATAGAAATAGAAAATACAAC--AAATTGCGTTT
24748272 GCCGGGAGTCGAACCCAGGTCTATTGCTTGGAAGGCAATTATCCTAACCGTTGGACTACAAACGC
259 GCCGGGAGTCGAACCCAGGTCTATTGCTTGGAAGGCAATTATCCTAACCGTTGGACTACAAACGC
* * * **
24748337 TTCGATGGCAACGTACCTTAATTTGCTACAACCACAATATTAAAACTAACTTACATTAGTTATAT
324 TTCGATGGCAACGTACCTTAATATGCTACAACCAAAATAATAAAACTAACTTACATTAACTATAT
24748402 TAGGGCCTGTTGAAGTCCCTGAGTGCCCAAACTCCG
389 TAGGGCCTGTTGAAGTCCCTGAGTGCCCAAACTCCG
24748438 AAGCATTTGCAATTTATGTTTTGTCTCAGCGAAAACAGACATACAAACAACAAGAAATCTTATAT
1 AAGCATTTGCAATTTATGTTTTGTCTCAGCGAAAACAGACATACAAACAACAAGAAATCTTATAT
* ** *
24748503 TTAATTATATTAGGCCGGTGTTAAAGTCCCGGAGTGCTCGGAATCCCGTGTGTTAGCCTGTATTC
66 TTAATTATATTAAGCCGGTACTAAAGTCCCGGAGTGCTCGGAA-CCCGTGTGTTAGCATGTATTC
* * * *
24748568 GAGTCGCGTTAGTCGTGTTGCTGCTAGGGCTTTGCCTTCCTATTATAATTTATCACAAAAAAAAG
130 GAGTCGCGTTAGTCGTGTTGCTGCTAGGACTTTACCCTCCTATTATAATTTATCA-AAAAAAAAA
*
24748633 GTCCCTGAGTGCCCAAACTCCAAAGCCCAACAAAATAGAAATAGAAAATACAAC-AATTGCGTTT
194 ATCCCTGAGTGCCCAAACTCCAAAGCCCAACAAAATAGAAATAGAAAATACAACAAATTGCGTTT
*
24748697 GCCGGGAGTCGAACCCGGGTCTATTGCTTGGAAGGCAATTATCCTAACCGTTGGACTACAAACGC
259 GCCGGGAGTCGAACCCAGGTCTATTGCTTGGAAGGCAATTATCCTAACCGTTGGACTACAAACGC
* * * * * *
24748762 TTTGATGGCAATGTACCTTAGTAAT-CTATAATCACAAAATAATGAAACTAACTTTCATTAACTA
324 TTCGATGGCAACGTACCTTAAT-ATGCTACAA-C-CAAAATAATAAAACTAACTTACATTAACTA
24748826 TATTAGGGCCTGTTGAAGTCCCTGAGTGCCCAAACTCCG
386 TATTAGGGCCTGTTGAAGTCCCTGAGTGCCCAAACTCCG
24748865 AAGC
1 AAGC
24748869 CCAACAAAAT
Statistics
Matches: 400, Mismatches: 26, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
425 98 0.25
426 105 0.26
427 137 0.34
428 60 0.15
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (424 bp):
AAGCATTTGCAATTTATGTTTTGTCTCAGCGAAAACAGACATACAAACAACAAGAAATCTTATAT
TTAATTATATTAAGCCGGTACTAAAGTCCCGGAGTGCTCGGAACCCGTGTGTTAGCATGTATTCG
AGTCGCGTTAGTCGTGTTGCTGCTAGGACTTTACCCTCCTATTATAATTTATCAAAAAAAAAAAT
CCCTGAGTGCCCAAACTCCAAAGCCCAACAAAATAGAAATAGAAAATACAACAAATTGCGTTTGC
CGGGAGTCGAACCCAGGTCTATTGCTTGGAAGGCAATTATCCTAACCGTTGGACTACAAACGCTT
CGATGGCAACGTACCTTAATATGCTACAACCAAAATAATAAAACTAACTTACATTAACTATATTA
GGGCCTGTTGAAGTCCCTGAGTGCCCAAACTCCG
Found at i:24749159 original size:203 final size:204
Alignment explanation
Indices: 24748633--24749169 Score: 700
Period size: 203 Copynumber: 2.6 Consensus size: 204
24748623 CAAAAAAAAG
*
24748633 GTCCCTGAGTGCCCAAACTCCAAAGCCCAACAAAATAGAAATAGAAAATACAACAATTGCGTTTG
1 GTCCCTGAGTGCCCAAACTCCAAAGCCCAACAAAATA-AAATAG-AAATA-AGCAATTGCGTTTG
*
24748698 CCGGGAGTCGAACCCGGGTCTATTGCTTGGAAGGCAATTATCCTAACCGTTGGACTACAAACGCT
63 CCGGGAGTCGAACCCGGGTCTATTGCTTGGAAGGCAATTATCCTAACCGTTGGACTACAAACACT
* * *
24748763 TTGATGGCAATGTACCTTAGTAATCTATAATCACAAAATAATGAAACTAACTTTCATTAACTATA
128 TTCATGACAATGTACCTCAGTAATCTATAATCACAAAATAATGAAACTAA---TCATTAACTATA
24748828 TTAGGGCCTGTTGAA
190 TTAGGGCCTGTTGAA
* *
24748843 GTCCCTGAGTGCCCAAACTCCGAAGCCCAACAAAATCAAAATAGAAA-ACGCAGA-TGCGTTTGC
1 GTCCCTGAGTGCCCAAACTCCAAAGCCCAACAAAAT-AAAATAGAAATAAGCA-ATTGCGTTTGC
24748906 CGGGAGTCGAACCCGGGTCTATTGCTTGGAAGGCAATTATCCTAACCGTTGGACTACAAACAC-T
64 CGGGAGTCGAACCCGGGTCTATTGCTTGGAAGGCAATTATCCTAACCGTTGGACTACAAACACTT
** *
24748970 TCATTGTACAA-GTATGTCAGCTAATTTA-AATC-CTAAAATAA-GAAAACGTAA-C-TTAACTA
129 TCA-TG-ACAATGTACCTCAG-TAATCTATAATCAC-AAAATAATG-AAAC-TAATCATTAACTA
* *
24749029 TATTATGTCCTGTTGAA
188 TATTAGGGCCTGTTGAA
**
24749046 GTCCCT-AGTGCCCAAACTCCAAAGCCCAACAAAA-AAATATAGAAATAGAGCTTTTGCGTTTGC
1 GTCCCTGAGTGCCCAAACTCCAAAGCCCAACAAAATAAA-ATAGAAATA-AGCAATTGCGTTTGC
* * *
24749109 CGGGAGTTGAACCCGGATCTATTGCTTGGAAGGCAATTATCCTTACCGTTGGACTACAAAC
64 CGGGAGTCGAACCCGGGTCTATTGCTTGGAAGGCAATTATCCTAACCGTTGGACTACAAAC
24749170 GCTCGATTGG
Statistics
Matches: 296, Mismatches: 19, Indels: 31
0.86 0.05 0.09
Matches are distributed among these distances:
200 3 0.01
201 7 0.02
202 28 0.09
203 97 0.33
204 1 0.00
206 5 0.02
207 96 0.32
208 14 0.05
209 3 0.01
210 41 0.14
211 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (204 bp):
GTCCCTGAGTGCCCAAACTCCAAAGCCCAACAAAATAAAATAGAAATAAGCAATTGCGTTTGCCG
GGAGTCGAACCCGGGTCTATTGCTTGGAAGGCAATTATCCTAACCGTTGGACTACAAACACTTTC
ATGACAATGTACCTCAGTAATCTATAATCACAAAATAATGAAACTAATCATTAACTATATTAGGG
CCTGTTGAA
Found at i:24754413 original size:14 final size:14
Alignment explanation
Indices: 24754391--24754439 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
24754381 TCGATCTTGA
*
24754391 ATTTTAAGTTC-ATG
1 ATTTAAAGTTCGA-G
24754405 ATTTAAAGTTCGAG
1 ATTTAAAGTTCGAG
*
24754419 ATTTAAAGTTTGAG
1 ATTTAAAGTTCGAG
24754433 ATTTAAA
1 ATTTAAA
24754440 ATTTGAAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 31 0.97
15 1 0.03
ACGTcount: A:0.37, C:0.04, G:0.16, T:0.43
Consensus pattern (14 bp):
ATTTAAAGTTCGAG
Found at i:24754435 original size:28 final size:28
Alignment explanation
Indices: 24754404--24754470 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
24754394 TTAAGTTCAT
*
24754404 GATTTAAAGTTCG-AGATTTAAAGTTTGA
1 GATTTAAAATTCGAAG-TTTAAAGTTTGA
*
24754432 GATTTAAAATTTGAAGTTTAAAGTTTGA
1 GATTTAAAATTCGAAGTTTAAAGTTTGA
* *
24754460 AATCTAAAATT
1 GATTTAAAATT
24754471 TAAGGTTCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 32 0.94
29 2 0.06
ACGTcount: A:0.40, C:0.03, G:0.16, T:0.40
Consensus pattern (28 bp):
GATTTAAAATTCGAAGTTTAAAGTTTGA
Found at i:24754460 original size:14 final size:14
Alignment explanation
Indices: 24754404--24754459 Score: 78
Period size: 14 Copynumber: 4.0 Consensus size: 14
24754394 TTAAGTTCAT
*
24754404 GATTTAAAGTTCGA
1 GATTTAAAGTTTGA
24754418 GATTTAAAGTTTGA
1 GATTTAAAGTTTGA
*
24754432 GATTTAAAATTTGA
1 GATTTAAAGTTTGA
24754446 -AGTTTAAAGTTTGA
1 GA-TTTAAAGTTTGA
24754460 AATCTAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
13 1 0.03
14 37 0.97
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.41
Consensus pattern (14 bp):
GATTTAAAGTTTGA
Found at i:24754467 original size:14 final size:14
Alignment explanation
Indices: 24754405--24754467 Score: 72
Period size: 14 Copynumber: 4.5 Consensus size: 14
24754395 TAAGTTCATG
* *
24754405 ATTTAAAGTTCGAG
1 ATTTAAAGTTTGAA
*
24754419 ATTTAAAGTTTGAG
1 ATTTAAAGTTTGAA
*
24754433 ATTTAAAATTTGAA
1 ATTTAAAGTTTGAA
*
24754447 GTTTAAAGTTTGAA
1 ATTTAAAGTTTGAA
*
24754461 ATCTAAA
1 ATTTAAA
24754468 ATTTAAGGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 42 1.00
ACGTcount: A:0.41, C:0.03, G:0.16, T:0.40
Consensus pattern (14 bp):
ATTTAAAGTTTGAA
Found at i:24757055 original size:9 final size:9
Alignment explanation
Indices: 24757041--24757065 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
24757031 TACTGTTTTG
24757041 AATTTAAGA
1 AATTTAAGA
24757050 AATTTAAGA
1 AATTTAAGA
24757059 AATTTAA
1 AATTTAA
24757066 ATGAAAATTT
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (9 bp):
AATTTAAGA
Found at i:24761536 original size:26 final size:26
Alignment explanation
Indices: 24761496--24761565 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
24761486 TTTTTTGGGA
*
24761496 AATGTTTTATAATTTTAAGGATTTTTG
1 AATG-TTTATAATTTTAAGGATCTTTG
* **
24761523 AATGTTTAAAATTTTAATTATCTTTG
1 AATGTTTATAATTTTAAGGATCTTTG
*
24761549 AAT-TTTATAGTTTTAAG
1 AATGTTTATAATTTTAAG
24761566 AAATAACAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
25 11 0.31
26 21 0.58
27 4 0.11
ACGTcount: A:0.33, C:0.01, G:0.11, T:0.54
Consensus pattern (26 bp):
AATGTTTATAATTTTAAGGATCTTTG
Found at i:24764796 original size:7 final size:7
Alignment explanation
Indices: 24764784--24764810 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
24764774 GTAAAAAAAT
24764784 AATATAA
1 AATATAA
24764791 AATATAA
1 AATATAA
24764798 AATATAA
1 AATATAA
24764805 AATATA
1 AATATA
24764811 TCAAGTTTTA
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):
AATATAA
Found at i:24770188 original size:20 final size:19
Alignment explanation
Indices: 24770149--24770202 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
24770139 AAATATTATA
* *
24770149 AAAAATATTAAAATTTATT
1 AAAATTATTAAAATTAATT
*
24770168 ATAATTATTAGAAATTAATT
1 AAAATTATTA-AAATTAATT
24770188 AAAATT-TATAAAATT
1 AAAATTAT-TAAAATT
24770203 TATAACAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAATTATTAAAATTAATT
Found at i:24770207 original size:9 final size:10
Alignment explanation
Indices: 24770154--24770205 Score: 63
Period size: 9 Copynumber: 5.3 Consensus size: 10
24770144 TTATAAAAAA
24770154 TATTAAAATT
1 TATTAAAATT
*
24770164 TATTATAA-T
1 TATTAAAATT
24770173 TATTAGAAATT
1 TATTA-AAATT
*
24770184 AATTAAAATT
1 TATTAAAATT
24770194 TA-TAAAATT
1 TATTAAAATT
24770203 TAT
1 TAT
24770206 AACAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 15 0.43
10 15 0.43
11 5 0.14
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (10 bp):
TATTAAAATT
Found at i:24770592 original size:20 final size:20
Alignment explanation
Indices: 24770569--24770617 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
24770559 ATAATAATTA
24770569 TTATAAATTTTAATATTTTT
1 TTATAAATTTTAATATTTTT
* * *
24770589 TTATACATTTTTAGTTTTTTT
1 TTATA-AATTTTAATATTTTT
24770610 TTATAAAT
1 TTATAAAT
24770618 CTAGAATGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (20 bp):
TTATAAATTTTAATATTTTT
Found at i:24771489 original size:30 final size:27
Alignment explanation
Indices: 24771414--24771497 Score: 73
Period size: 30 Copynumber: 3.0 Consensus size: 27
24771404 GTAATTCATT
*
24771414 CAATTTTA-TAATTTTTTTATAATTTTC
1 CAATTTTATTAA-TTTTTAATAATTTTC
24771441 CAATTTT-TATAATATTTTAATAATTTCTC
1 CAATTTTAT-TAAT-TTTTAATAATTT-TC
* *
24771470 GTAATTTTATTAACTTTTTAATCATTTT
1 -CAATTTTATTAA-TTTTTAATAATTTT
24771498 AAAGATTTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
27 8 0.17
28 14 0.30
29 3 0.06
30 20 0.43
31 2 0.04
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (27 bp):
CAATTTTATTAATTTTTAATAATTTTC
Found at i:24773912 original size:25 final size:25
Alignment explanation
Indices: 24773884--24773946 Score: 99
Period size: 26 Copynumber: 2.5 Consensus size: 25
24773874 ATTTTAACAT
24773884 CAAATTTTTGAAGAAGGAAAAGAAG
1 CAAATTTTTGAAGAAGGAAAAGAAG
*
24773909 CAAAATTTTTGAAGAAGGAAAGGAAG
1 C-AAATTTTTGAAGAAGGAAAAGAAG
*
24773935 TAAATTTTTGAA
1 CAAATTTTTGAA
24773947 TAAGAGTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 12 0.34
26 23 0.66
ACGTcount: A:0.49, C:0.03, G:0.22, T:0.25
Consensus pattern (25 bp):
CAAATTTTTGAAGAAGGAAAAGAAG
Found at i:24776772 original size:20 final size:21
Alignment explanation
Indices: 24776733--24776772 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
24776723 AGCATTTTGG
**
24776733 GTTTAGGGTTTTAATTATTTA
1 GTTTAGGGTTTTAAAGATTTA
24776754 GTTTAGGG-TTTAAAGATTT
1 GTTTAGGGTTTTAAAGATTT
24776773 GTAAAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.53
Consensus pattern (21 bp):
GTTTAGGGTTTTAAAGATTTA
Found at i:24776907 original size:13 final size:14
Alignment explanation
Indices: 24776862--24776905 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
24776852 GTTTTTAAGA
* *
24776862 TTTAAGATTTAGAG
1 TTTAAAATTTAGGG
*
24776876 TTTTAAATTTAGGG
1 TTTAAAATTTAGGG
*
24776890 TTTAAAATTTATGG
1 TTTAAAATTTAGGG
24776904 TT
1 TT
24776906 AAGGAAGTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (14 bp):
TTTAAAATTTAGGG
Found at i:24780155 original size:49 final size:48
Alignment explanation
Indices: 24780096--24780461 Score: 336
Period size: 49 Copynumber: 7.5 Consensus size: 48
24780086 TTCCCTTCAT
* * *
24780096 GTTGCAGCTTAACTTTTTCCCTTCATGCTTCTGAGGTACTAGATTCGCC
1 GTTGCGGCTTAAATCTTTCCCTTCATGCTTC-GAGGTACTAGATTCGCC
* * * * *
24780145 GTTGCGGCTTAAATCTTTCCTTTTATATCTTCGTGGTACTAGATTCGTC
1 GTTGCGGCTTAAATCTTTCCCTTCAT-GCTTCGAGGTACTAGATTCGCC
* * * *
24780194 GTTGCGGCTTTAAATCTTTCTCTTCATGCTTTTGAGGTACAAGGTTCGCC
1 GTTGCGGC-TTAAATCTTTCCCTTCATGC-TTCGAGGTACTAGATTCGCC
* * * * *
24780244 GTTGCGACTTAAACCTTTCCCTCCATATCTTCGTGGTACTAGATTCGCC
1 GTTGCGGCTTAAATCTTTCCCTTCAT-GCTTCGAGGTACTAGATTCGCC
* * * * * * *
24780293 GTTGTGGCTTTAATCTTTCTCTTCATGCTTTTGAGGTACAAGGTTCGTC
1 GTTGCGGCTTAAATCTTTCCCTTCATGC-TTCGAGGTACTAGATTCGCC
* * * * * *
24780342 GTTGCGACTTAAACCTTTCCCTTTATATCTTCGTGGTACTAGATTCACC
1 GTTGCGGCTTAAATCTTTCCCTTCAT-GCTTCGAGGTACTAGATTCGCC
* * * *
24780391 GTTGCGGCTTAAATTTTTCCCTTCATGCTTCAGAGGTACAAGGTTCACC
1 GTTGCGGCTTAAATCTTTCCCTTCATGCTTC-GAGGTACTAGATTCGCC
* *
24780440 GTTGCGACTTAAACCTTTCCCT
1 GTTGCGGCTTAAATCTTTCCCT
24780462 CCAAACTTGT
Statistics
Matches: 248, Mismatches: 62, Indels: 14
0.77 0.19 0.04
Matches are distributed among these distances:
48 5 0.02
49 200 0.81
50 43 0.17
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (48 bp):
GTTGCGGCTTAAATCTTTCCCTTCATGCTTCGAGGTACTAGATTCGCC
Found at i:24780352 original size:98 final size:98
Alignment explanation
Indices: 24780111--24780464 Score: 510
Period size: 98 Copynumber: 3.6 Consensus size: 98
24780101 AGCTTAACTT
* * * * * **
24780111 TTTCCCTTCATGCTTCTGAGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCTTTTATATCTT
1 TTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTT
*
24780176 CGTGGTACTAGATTCGTCGTTGCGGCTTTAAATC
66 CGTGGTACTAGATTCGCCGTTGCGGCTTT-AATC
* *
24780210 TTTCTCTTCATGCTTTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTT
1 TTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTT
*
24780275 CGTGGTACTAGATTCGCCGTTGTGGCTTTAATC
66 CGTGGTACTAGATTCGCCGTTGCGGCTTTAATC
* * * **
24780308 TTTCTCTTCATGCTTTTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCCTTTATATCTT
1 TTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTT
* * *
24780373 CGTGGTACTAGATTCACCGTTGCGGCTTAAATT
66 CGTGGTACTAGATTCGCCGTTGCGGCTTTAATC
* *
24780406 TTTCCCTTCATGCTTCAGAGGTACAAGGTTCACCGTTGCGACTTAAACCTTTCCCTCCA
1 TTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCA
24780465 AACTTGTAGA
Statistics
Matches: 230, Mismatches: 25, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
98 147 0.64
99 83 0.36
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (98 bp):
TTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCTCCATATCTT
CGTGGTACTAGATTCGCCGTTGCGGCTTTAATC
Found at i:24785624 original size:144 final size:144
Alignment explanation
Indices: 24785364--24785652 Score: 578
Period size: 144 Copynumber: 2.0 Consensus size: 144
24785354 GAGGATGGTA
24785364 CCGCCCCTGCTGAATGGATTCAGGGCTTTCCCAACAAATAATTATACGAGAGCTTAATGTCCATT
1 CCGCCCCTGCTGAATGGATTCAGGGCTTTCCCAACAAATAATTATACGAGAGCTTAATGTCCATT
24785429 ACCAAAAAATCTACCTCATATGTGTTCGGGCCAATTTGCAACGGTATTTCAATTCTGCCCCATCA
66 ACCAAAAAATCTACCTCATATGTGTTCGGGCCAATTTGCAACGGTATTTCAATTCTGCCCCATCA
24785494 CTTTTCTTTCCGTT
131 CTTTTCTTTCCGTT
24785508 CCGCCCCTGCTGAATGGATTCAGGGCTTTCCCAACAAATAATTATACGAGAGCTTAATGTCCATT
1 CCGCCCCTGCTGAATGGATTCAGGGCTTTCCCAACAAATAATTATACGAGAGCTTAATGTCCATT
24785573 ACCAAAAAATCTACCTCATATGTGTTCGGGCCAATTTGCAACGGTATTTCAATTCTGCCCCATCA
66 ACCAAAAAATCTACCTCATATGTGTTCGGGCCAATTTGCAACGGTATTTCAATTCTGCCCCATCA
24785638 CTTTTCTTTCCGTT
131 CTTTTCTTTCCGTT
24785652 C
1 C
24785653 TGTCGAAAGC
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
144 145 1.00
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (144 bp):
CCGCCCCTGCTGAATGGATTCAGGGCTTTCCCAACAAATAATTATACGAGAGCTTAATGTCCATT
ACCAAAAAATCTACCTCATATGTGTTCGGGCCAATTTGCAACGGTATTTCAATTCTGCCCCATCA
CTTTTCTTTCCGTT
Found at i:24793828 original size:21 final size:21
Alignment explanation
Indices: 24793789--24793828 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24793779 TAAGAGTAAA
*
24793789 ACGTTGTGGTGGTCGACGAGC
1 ACGTTGTGGTGCTCGACGAGC
24793810 ACGTTGCTGGTGCTC-ACGA
1 ACGTTG-TGGTGCTCGACGA
24793829 CATTCAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.15, C:0.23, G:0.38, T:0.25
Consensus pattern (21 bp):
ACGTTGTGGTGCTCGACGAGC
Found at i:24794155 original size:18 final size:18
Alignment explanation
Indices: 24794134--24794180 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
24794124 CTCGGGGTTA
*
24794134 GGCTTAAGCTC-GAGATCG
1 GGCTCAAGCTCTG-GATCG
*
24794152 GGCTCAGGCTCTGGATCG
1 GGCTCAAGCTCTGGATCG
*
24794170 GGCTCAGGCTC
1 GGCTCAAGCTC
24794181 AGCCGGTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.15, C:0.28, G:0.36, T:0.21
Consensus pattern (18 bp):
GGCTCAAGCTCTGGATCG
Found at i:24796056 original size:21 final size:21
Alignment explanation
Indices: 24795995--24796058 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
24795985 GATGAAAATA
24795995 AATATTAAT-TTTTA-ATTATT
1 AATA-TAATATTTTATATTATT
* * *
24796015 TATTTATTACTTTTAATATTATT
1 AATATAATA-TTTT-ATATTATT
24796038 AATATAATATTTTATATTATT
1 AATATAATATTTTATATTATT
24796059 TGAGATAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
19 3 0.09
20 2 0.06
21 12 0.35
22 5 0.15
23 12 0.35
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
AATATAATATTTTATATTATT
Found at i:24796722 original size:14 final size:14
Alignment explanation
Indices: 24796697--24796730 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
24796687 TTCATACCCG
24796697 TTTTTTTATTAATA
1 TTTTTTTATTAATA
24796711 TTATTTTT-TTAATA
1 TT-TTTTTATTAATA
24796725 TTTTTT
1 TTTTTT
24796731 AATATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 10 0.53
15 5 0.26
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTTTATTAATA
Found at i:24797118 original size:16 final size:16
Alignment explanation
Indices: 24797097--24797128 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
24797087 ACCCAAGAGT
24797097 TTTTAAGGGTTTAAAC
1 TTTTAAGGGTTTAAAC
24797113 TTTTAAGGGTTTAAAC
1 TTTTAAGGGTTTAAAC
24797129 ACCTGAGCCT
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:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (16 bp):
TTTTAAGGGTTTAAAC
Found at i:24807140 original size:18 final size:18
Alignment explanation
Indices: 24807117--24807166 Score: 86
Period size: 17 Copynumber: 2.9 Consensus size: 18
24807107 TTTTTAGAAG
24807117 TATTTTTAAAATAAAAAA
1 TATTTTTAAAATAAAAAA
24807135 TATTTTTAAAAT-AAAAA
1 TATTTTTAAAATAAAAAA
24807152 TATTTTT-AAATAAAA
1 TATTTTTAAAATAAAA
24807167 TGTTTTCGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 4 0.13
17 15 0.48
18 12 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TATTTTTAAAATAAAAAA
Found at i:24811264 original size:31 final size:31
Alignment explanation
Indices: 24811229--24811298 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
24811219 TTAGTATATC
* *
24811229 ATTTGGTACTTATGTTTGGCTTCAATATTTA
1 ATTTGGTACTTAAGTTTGGCTTCAATATTCA
* * * * *
24811260 ATTTGATATTTAAGTTTTGTTTTAATATTCA
1 ATTTGGTACTTAAGTTTGGCTTCAATATTCA
24811291 ATTTGGTA
1 ATTTGGTA
24811299 ACCCGATCAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.54
Consensus pattern (31 bp):
ATTTGGTACTTAAGTTTGGCTTCAATATTCA
Found at i:24811716 original size:30 final size:31
Alignment explanation
Indices: 24811682--24811747 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
24811672 TTACAAAATG
*
24811682 GTCACTA-AGCTATTTGAAA-TTTTCATTTAA
1 GTCACTAGA-CTATTCGAAAGTTTTCATTTAA
* *
24811712 GTCACTAGACTGTTCGAAAGTTTTTATTTAA
1 GTCACTAGACTATTCGAAAGTTTTCATTTAA
24811743 GTCAC
1 GTCAC
24811748 AGGGTGGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 15 0.48
31 16 0.52
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (31 bp):
GTCACTAGACTATTCGAAAGTTTTCATTTAA
Found at i:24813043 original size:2 final size:2
Alignment explanation
Indices: 24813036--24813060 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24813026 TTTGGATTAC
24813036 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
24813061 TGATTCTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24814982 original size:13 final size:13
Alignment explanation
Indices: 24814966--24814991 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24814956 GGCCAAAACT
24814966 ATATATATATATA
1 ATATATATATATA
24814979 ATATATATATATA
1 ATATATATATATA
24814992 TCCCTATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATATATATA
Found at i:24819158 original size:33 final size:32
Alignment explanation
Indices: 24819121--24819262 Score: 135
Period size: 33 Copynumber: 4.4 Consensus size: 32
24819111 CTTTTTCTCC
* * *
24819121 TCTTCCTTCTTCTTCTCTTCATCTTTCTTGGGT
1 TCTTCCTTCTT-TGCTCTTCTTCCTTCTTGGGT
* * * *
24819154 TCTTCCTTTTTTG--GTTCTTCCTTCTTAGGC
1 TCTTCCTTCTTTGCTCTTCTTCCTTCTTGGGT
*
24819184 TCTTCTTTCTTCTGCTCTTCTTCCTTCTTGGGT
1 TCTTCCTTCTT-TGCTCTTCTTCCTTCTTGGGT
* * * *
24819217 TCTTCTTTCTTTGGCTCCTCCTCTTTCTTGGGT
1 TCTTCCTTCTTT-GCTCTTCTTCCTTCTTGGGT
24819250 TCTTCCTTCTTTG
1 TCTTCCTTCTTTG
24819263 GCTCCGCCTT
Statistics
Matches: 89, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
30 21 0.24
31 2 0.02
32 3 0.03
33 63 0.71
ACGTcount: A:0.01, C:0.30, G:0.12, T:0.57
Consensus pattern (32 bp):
TCTTCCTTCTTTGCTCTTCTTCCTTCTTGGGT
Found at i:24819171 original size:15 final size:15
Alignment explanation
Indices: 24819151--24819263 Score: 59
Period size: 15 Copynumber: 7.1 Consensus size: 15
24819141 ATCTTTCTTG
24819151 GGTTCTTCCTTTTTT
1 GGTTCTTCCTTTTTT
* *
24819166 GGTTCTTCCTTCTTA
1 GGTTCTTCCTTTTTT
*
24819181 GGCTCTT-CTTTCTTCT
1 GGTTCTTCCTTT-TT-T
* * *
24819197 GCTCTTCTTCCTTCTTG
1 G--GTTCTTCCTTTTTT
24819214 GGTTCTT-CTTTCTTT
1 GGTTCTTCCTTT-TTT
* *
24819229 GGCTCCTCCTCTTTCTT
1 GGTTCTTCCT-TTT-TT
*
24819246 GGGTTCTTCCTTCTTT
1 -GGTTCTTCCTTTTTT
24819262 GG
1 GG
24819264 CTCCGCCTTC
Statistics
Matches: 71, Mismatches: 17, Indels: 20
0.66 0.16 0.19
Matches are distributed among these distances:
14 6 0.08
15 35 0.49
16 6 0.08
17 7 0.10
18 14 0.20
19 3 0.04
ACGTcount: A:0.01, C:0.28, G:0.15, T:0.56
Consensus pattern (15 bp):
GGTTCTTCCTTTTTT
Found at i:24819187 original size:48 final size:47
Alignment explanation
Indices: 24819121--24819263 Score: 144
Period size: 48 Copynumber: 3.0 Consensus size: 47
24819111 CTTTTTCTCC
*** *
24819121 TCTTCCTTCTTCTTCTCTTCATCTTTCTTGGGTTCTTCCTTTTTTGGT
1 TCTTCCTTCTTAGGCTCTTC-TCTTTCTTGGGTTCTTCCTTCTTTGGT
* ** *
24819169 TCTTCCTTCTTAGGCTCTTCTTTCTTC-TGCTCTTCTTCCTTCTTGGGT
1 TCTTCCTTCTTAGGCTCTTCTCT-TTCTTG-GGTTCTTCCTTCTTTGGT
* * *
24819217 TCTTCTTTCTTTGGCTCCTCCTCTTTCTTGGGTTCTTCCTTCTTTGG
1 TCTTCCTTCTTAGGCT-CTTCTCTTTCTTGGGTTCTTCCTTCTTTGG
24819264 CTCCGCCTTC
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
47 4 0.05
48 65 0.86
49 7 0.09
ACGTcount: A:0.01, C:0.29, G:0.13, T:0.57
Consensus pattern (47 bp):
TCTTCCTTCTTAGGCTCTTCTCTTTCTTGGGTTCTTCCTTCTTTGGT
Found at i:24819195 original size:18 final size:17
Alignment explanation
Indices: 24819168--24819266 Score: 66
Period size: 15 Copynumber: 6.0 Consensus size: 17
24819158 CCTTTTTTGG
24819168 TTCTTCCTTCTTAGGCTC
1 TTCTTCCTTCTT-GGCTC
*
24819186 TTCTTTCTTC-T-GCTC
1 TTCTTCCTTCTTGGCTC
*
24819201 TTCTTCCTTCTTGG--G
1 TTCTTCCTTCTTGGCTC
*
24819216 TTCTTCTTTCTTTGGCTC
1 TTCTTCCTTC-TTGGCTC
* * * *
24819234 CTCCTCTTTCTTGG--G
1 TTCTTCCTTCTTGGCTC
24819249 TTCTTCCTTCTTTGGCTC
1 TTCTTCCTTC-TTGGCTC
24819267 CGCCTTCTTC
Statistics
Matches: 61, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
15 29 0.48
16 9 0.15
17 6 0.10
18 17 0.28
ACGTcount: A:0.01, C:0.31, G:0.13, T:0.55
Consensus pattern (17 bp):
TTCTTCCTTCTTGGCTC
Found at i:24819263 original size:33 final size:33
Alignment explanation
Indices: 24819145--24819267 Score: 137
Period size: 33 Copynumber: 3.8 Consensus size: 33
24819135 CTCTTCATCT
*
24819145 TTCTTGGGTTCTTCCTTTTTTGG-T--TCTTCC
1 TTCTTGGGTTCTTCCTTCTTTGGCTCCTCTTCC
* * * *
24819175 TTCTTAGGCTCTTCTTTCTTCT-GCTCTTCTTCC
1 TTCTTGGGTTCTTCCTTCTT-TGGCTCCTCTTCC
* * *
24819208 TTCTTGGGTTCTTCTTTCTTTGGCTCCTCCTCT
1 TTCTTGGGTTCTTCCTTCTTTGGCTCCTCTTCC
24819241 TTCTTGGGTTCTTCCTTCTTTGGCTCC
1 TTCTTGGGTTCTTCCTTCTTTGGCTCC
24819268 GCCTTCTTCT
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
30 17 0.22
31 2 0.03
32 1 0.01
33 58 0.74
ACGTcount: A:0.01, C:0.29, G:0.15, T:0.55
Consensus pattern (33 bp):
TTCTTGGGTTCTTCCTTCTTTGGCTCCTCTTCC
Found at i:24820494 original size:2 final size:2
Alignment explanation
Indices: 24820487--24820522 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
24820477 AGCGAAAAAC
24820487 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
24820523 GGGTGATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:24822559 original size:16 final size:17
Alignment explanation
Indices: 24822527--24822559 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24822517 TATGTATGTA
24822527 TAATAAATATATAAAAT
1 TAATAAATATATAAAAT
*
24822544 TAATAATTAT-TAAAAT
1 TAATAAATATATAAAAT
24822560 CTATAAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATAAATATATAAAAT
Found at i:24822709 original size:16 final size:15
Alignment explanation
Indices: 24822684--24822728 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
24822674 AATACATAAA
24822684 ATAATATTATAATAT
1 ATAATATTATAATAT
24822699 ATAACTATTATAATA-
1 ATAA-TATTATAATAT
*
24822714 ATATTAATTATAATA
1 ATAAT-ATTATAATA
24822729 AATGATATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 1 0.04
15 16 0.59
16 10 0.37
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATATTATAATAT
Found at i:24822950 original size:12 final size:12
Alignment explanation
Indices: 24822922--24822969 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
24822912 ATACTACTAT
24822922 TATATA-TA-AA
1 TATATATTATAA
24822932 TAT-TATTATAA
1 TATATATTATAA
24822943 TATATATTATAA
1 TATATATTATAA
*
24822955 TA-AAATATATAA
1 TATATAT-TATAA
24822967 TAT
1 TAT
24822970 TACATAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
9 2 0.06
10 5 0.16
11 8 0.25
12 17 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TATATATTATAA
Found at i:24822951 original size:15 final size:15
Alignment explanation
Indices: 24822907--24822964 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
24822897 TAAGTAATAA
*
24822907 ATAATATACTACTATT
1 ATAATATA-TATTATT
*
24822923 ATATATAAATATTATT
1 ATA-ATATATATTATT
*
24822939 ATAATATATATTATA
1 ATAATATATATTATT
*
24822954 ATAAAATATAT
1 ATAATATATAT
24822965 AATATTACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
15 20 0.56
16 12 0.33
17 4 0.11
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATATATATTATT
Found at i:24827998 original size:29 final size:29
Alignment explanation
Indices: 24827956--24828173 Score: 249
Period size: 29 Copynumber: 7.4 Consensus size: 29
24827946 GTTTGGGATC
*
24827956 AAAATGT-ATTTTTTGAAAGTTCGGGGGTA
1 AAAATGTGA-TTTTTGGAAGTTCGGGGGTA
* * *
24827985 AAAATGTGATTTTTGGGAGTTCGAGGATA
1 AAAATGTGATTTTTGGAAGTTCGGGGGTA
** *
24828014 AAAATGTGATTTTTGGAAGTTTAGGGGAA
1 AAAATGTGATTTTTGGAAGTTCGGGGGTA
* * *
24828043 AAAATGTAATTTTTGGAAGTTCGAGGGCA
1 AAAATGTGATTTTTGGAAGTTCGGGGGTA
*
24828072 AAAATGTGATTTTTAAGAAGTTCGGGGGTA
1 AAAATGTGATTTTT-GGAAGTTCGGGGGTA
*
24828102 AAAATGTGATTTTTGGAAGTTTGGGGGGTA
1 AAAATGTGATTTTTGGAAG-TTCGGGGGTA
* ***
24828132 AAAATTTGATTTTTGGAAGTTTAAGGGTA
1 AAAATGTGATTTTTGGAAGTTCGGGGGTA
*
24828161 AAAATGTAATTTT
1 AAAATGTGATTTT
24828174 GAAAAATTTA
Statistics
Matches: 159, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
29 105 0.66
30 54 0.34
ACGTcount: A:0.33, C:0.02, G:0.28, T:0.36
Consensus pattern (29 bp):
AAAATGTGATTTTTGGAAGTTCGGGGGTA
Found at i:24828183 original size:29 final size:30
Alignment explanation
Indices: 24828151--24828225 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
24828141 TTTTTGGAAG
24828151 TTTAAGGGTAAAAATGTAAT-TTTGAAAAA
1 TTTAAGGGTAAAAATGTAATATTTGAAAAA
* * * *
24828180 TTTAGGGGTAAAAGTGTAATATTTGAGAAG
1 TTTAAGGGTAAAAATGTAATATTTGAAAAA
*
24828210 TTTAAGGGTCAAAATG
1 TTTAAGGGTAAAAATG
24828226 GGATTTTTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 18 0.47
30 20 0.53
ACGTcount: A:0.41, C:0.01, G:0.24, T:0.33
Consensus pattern (30 bp):
TTTAAGGGTAAAAATGTAATATTTGAAAAA
Found at i:24830409 original size:99 final size:98
Alignment explanation
Indices: 24830285--24830708 Score: 365
Period size: 99 Copynumber: 4.3 Consensus size: 98
24830275 CTAAGGTGCT
* * * * *
24830285 AGGTTCGTCGTTGCGGCCTTAACCTTTCCCATCACGTCTT-TTAAGGTATCGGATTCGTCGTCGC
1 AGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTT-AGGTACCGGATTCG-CGTTGC
24830349 GGCCTTAATCCTTCCCTTCATTTCTTCATGGTATC
64 GGCCTTAATCCTTCCCTTCATTTCTTCATGGTATC
* * * * *
24830384 AGGTTCGCCGTTGCGGTCTCAACCTTTCCCGTCATATCTTCTTAGGTACC-GAGTTTGCTGTTAC
1 AGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGA-TTCGC-GTTGC
* * *
24830448 GG-CTTCAA-CCTTTCCCTTCGTATCTTCGTGGTATC
64 GGCCTT-AATCC-TTCCCTTCATTTCTTCATGGTATC
* * * ** * *
24830483 GGGTTCGCCTTTTCTCCCTCAACCTTTCCCATCATATCTTCTAAGGTACCGGATTCGCCGTTGCG
1 AGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGATTCG-CGTTGCG
* * *
24830548 GCCTCAATCCTTCCTTTCATTTCTTTATGGTATC
65 GCCTTAATCCTTCCCTTCATTTCTTCATGGTATC
* * * * * * *
24830582 AGGTTCGTCGTTACGACTTCAACCTTTCCTATCACATCTTCTTAGGTACCGGGTTCGCCGTTACG
1 AGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGATTCG-CGTTGCG
* * ** * *
24830647 GCCTCAA-CCTTTCCCATCACATCTTTTAAGGTATC
65 GCCTTAATCC-TTCCCTTCATTTC-TTCATGGTATC
*
24830682 -GGATTCACCGTTGCGGCCTCAATCCTT
1 AGG-TTCGCCGTTGCGGCCTCAA-CCTT
24830709 CCTTTCATTT
Statistics
Matches: 261, Mismatches: 51, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
98 10 0.04
99 214 0.82
100 33 0.13
101 4 0.02
ACGTcount: A:0.15, C:0.31, G:0.18, T:0.36
Consensus pattern (98 bp):
AGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGATTCGCGTTGCGG
CCTTAATCCTTCCCTTCATTTCTTCATGGTATC
Found at i:24830654 original size:149 final size:148
Alignment explanation
Indices: 24830360--24830863 Score: 488
Period size: 149 Copynumber: 3.4 Consensus size: 148
24830350 GCCTTAATCC
* * * * ** *
24830360 TTCCCTTCATTTCTTC-ATGGTATCAGG-TTCGCCGTTGCGGTCTCAA-CCTTTCCCGTCATATC
1 TTCCCATCATATCTTCTAAGGTATC-GGATTCGCCGTTGCGGCCTCAATCC-TTCCTTTCATTTC
* * * * * *
24830422 TTCTTAGGTACCGAGTTTG-CTGTTACGGCTTCAACCTTTCCCTTCGTATCTTCGT-GGTATCGG
64 TTCAT-GGTACAGAGTTCGTC-GTTACGGCTTCAACCTTT-CCTTCGCATCTTCTTAGGTACCGG
* * **
24830485 GTTCGCCTTTTCTCCCTCAACCT
126 GTTCGCCGTTACGGCCTCAACCT
*
24830508 TTCCCATCATATCTTCTAAGGTACCGGATTCGCCGTTGCGGCCTCAATCCTTCCTTTCATTTCTT
1 TTCCCATCATATCTTCTAAGGTATCGGATTCGCCGTTGCGGCCTCAATCCTTCCTTTCATTTCTT
* * *
24830573 TATGGTATCAG-GTTCGTCGTTACGACTTCAACCTTTCCTATCACATCTTCTTAGGTACCGGGTT
66 CATGGTA-CAGAGTTCGTCGTTACGGCTTCAACCTTTCCT-TCGCATCTTCTTAGGTACCGGGTT
24830637 CGCCGTTACGGCCTCAACCT
129 CGCCGTTACGGCCTCAACCT
* * *
24830657 TTCCCATCACATCTTTTAAGGTATCGGATTCACCGTTGCGGCCTCAATCCTTCCTTTCATTTCTT
1 TTCCCATCATATCTTCTAAGGTATCGGATTCGCCGTTGCGGCCTCAATCCTTCCTTTCATTTCTT
* * * * *
24830722 CATGGTACCGAGTTCGTCGTTGCGGCCTCAACCTTTCCTTTCGCATCTT-TTAAGGTACCGGATC
66 CATGGTACAGAGTTCGTCGTTACGGCTTCAACCTTTCC-TTCGCATCTTCTT-AGGTACCGGGTT
* *
24830786 CACCGTTGCGGCCTCAATCC-
129 CGCCGTTACGGCCTCAA-CCT
* * * ** * * *
24830806 TTCCCTTTATATC-TCTAGGGTATTAGATTTGCCATTGTGGCCTCAAT-CTTCCCTTTCA
1 TTCCCATCATATCTTCTAAGGTATCGGATTCGCCGTTGCGGCCTCAATCCTT-CCTTTCA
24830864 AACCTATAGA
Statistics
Matches: 298, Mismatches: 46, Indels: 24
0.81 0.12 0.07
Matches are distributed among these distances:
147 6 0.02
148 87 0.29
149 200 0.67
150 5 0.02
ACGTcount: A:0.15, C:0.31, G:0.17, T:0.37
Consensus pattern (148 bp):
TTCCCATCATATCTTCTAAGGTATCGGATTCGCCGTTGCGGCCTCAATCCTTCCTTTCATTTCTT
CATGGTACAGAGTTCGTCGTTACGGCTTCAACCTTTCCTTCGCATCTTCTTAGGTACCGGGTTCG
CCGTTACGGCCTCAACCT
Found at i:24830729 original size:99 final size:99
Alignment explanation
Indices: 24830626--24830809 Score: 296
Period size: 99 Copynumber: 1.9 Consensus size: 99
24830616 CATCTTCTTA
* * *
24830626 GGTACCGGGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTTTAAGGTATCGGATTCACC
1 GGTACCGAGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGGATCCACC
24830691 GTTGCGGCCTCAATCCTTCCTTTCATTTCTTCAT
66 GTTGCGGCCTCAATCCTTCCTTTCATTTCTTCAT
* * ** *
24830725 GGTACCGAGTTCGTCGTTGCGGCCTCAACCTTTCCTTTCGCATCTTTTAAGGTACCGGATCCACC
1 GGTACCGAGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGGATCCACC
24830790 GTTGCGGCCTCAATCCTTCC
66 GTTGCGGCCTCAATCCTTCC
24830810 CTTTATATCT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 77 1.00
ACGTcount: A:0.15, C:0.33, G:0.19, T:0.33
Consensus pattern (99 bp):
GGTACCGAGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGGATCCACC
GTTGCGGCCTCAATCCTTCCTTTCATTTCTTCAT
Found at i:24830731 original size:198 final size:198
Alignment explanation
Indices: 24830293--24830763 Score: 531
Period size: 198 Copynumber: 2.4 Consensus size: 198
24830283 CTAGGTTCGT
* * ** * * * *
24830293 CGTTGCGGCCTTAACCTTTCCCATCACGTCTTTTAAGGTATCGGATTCGTCGTCGCGGCCTTAAT
1 CGTTGCGCCCTCAACCTTTCCCATCATATCTTCTAAGGTACCGGATTCGTCGTTGCGGCCTCAAT
* * * * *
24830358 CCTTCCCTTCATTTCTTCATGGTATCAGGTTCGCCGTTGCGGTCTCAACCTTTCCCGTCATATCT
66 CCTTCCTTTCATTTCTTCATGGTATCAGGTTCGCCGTTACGCTCTCAACCTTTCCCATCACATCT
* * * * ** *
24830423 TCTTAGGTACCGAGTTTGCTGTTACGGCTTCAACCTTTCCCTTCGTATCTTCGTGGTATCGGGTT
131 TCTTAGGTACCGAGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTCGTGGTATCGGATT
*
24830488 CGC
196 CAC
* * * *
24830491 CTTTTCTCCCTCAACCTTTCCCATCATATCTTCTAAGGTACCGGATTCGCCGTTGCGGCCTCAAT
1 CGTTGCGCCCTCAACCTTTCCCATCATATCTTCTAAGGTACCGGATTCGTCGTTGCGGCCTCAAT
* * *
24830556 CCTTCCTTTCATTTCTTTATGGTATCAGGTTCGTCGTTACGACT-TCAACCTTTCCTATCACATC
66 CCTTCCTTTCATTTCTTCATGGTATCAGGTTCGCCGTTACG-CTCTCAACCTTTCCCATCACATC
* *
24830620 TTCTTAGGTACCGGGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTT-TTAAGGTATCGG
130 TTCTTAGGTACCGAGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTCGT--GGTATCGG
24830684 ATTCAC
193 ATTCAC
* ** * *
24830690 CGTTGCGGCCTCAATCC-TTCCTTTCATTTCTTC-ATGGTACC-GAGTTCGTCGTTGCGGCCTCA
1 CGTTGCGCCCTCAA-CCTTTCCCATCATATCTTCTAAGGTACCGGA-TTCGTCGTTGCGGCCTCA
24830752 A-CCTTTCCTTTC
64 ATCC-TTCCTTTC
24830764 GCATCTTTTA
Statistics
Matches: 228, Mismatches: 39, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
197 5 0.02
198 185 0.81
199 36 0.16
200 2 0.01
ACGTcount: A:0.15, C:0.31, G:0.17, T:0.37
Consensus pattern (198 bp):
CGTTGCGCCCTCAACCTTTCCCATCATATCTTCTAAGGTACCGGATTCGTCGTTGCGGCCTCAAT
CCTTCCTTTCATTTCTTCATGGTATCAGGTTCGCCGTTACGCTCTCAACCTTTCCCATCACATCT
TCTTAGGTACCGAGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTCGTGGTATCGGATT
CAC
Found at i:24830800 original size:50 final size:50
Alignment explanation
Indices: 24830288--24830813 Score: 306
Period size: 50 Copynumber: 10.6 Consensus size: 50
24830278 AGGTGCTAGG
* * ** * *
24830288 TTCGTCGTTGCGGCCTTAACCTTTCCCATCACGTCTTTTAAGGTATCGGA
1 TTCGCCGTTGCGGCCTCAACCTTTCCTTTCACATCTTTTAAGGTACCGGA
* * * * ** * * *
24830338 TTCGTCGTCGCGGCCTTAATCC-TTCCCTTCATTTC-TTCATGGTATCAGG-
1 TTCGCCGTTGCGGCCTCAA-CCTTTCCTTTCACATCTTTTAAGGTA-CCGGA
* ** *
24830387 TTCGCCGTTGCGGTCTCAACCTTTCCCGTCATATCTTCTT-AGGTACC-GA
1 TTCGCCGTTGCGGCCTCAACCTTTCCTTTCACATCTT-TTAAGGTACCGGA
* * * * * ** * * *
24830436 GTTTGCTGTTACGGCTTCAACCTTTCCCTTCGTATCTTCGT--GGTATCGGG
1 -TTCGCCGTTGCGGCCTCAACCTTTCCTTTCACATCTT-TTAAGGTACCGGA
* * ** ** * *
24830486 TTCGCCTTTTCTCCCTCAACCTTTCCCATCATATCTTCTAAGGTACCGGA
1 TTCGCCGTTGCGGCCTCAACCTTTCCTTTCACATCTTTTAAGGTACCGGA
** * *
24830536 TTCGCCGTTGCGGCCTCAATCC-TTCCTTTCATTTC-TTTATGGTATCAGG-
1 TTCGCCGTTGCGGCCTCAA-CCTTTCCTTTCACATCTTTTAAGGTA-CCGGA
* * * * * *
24830585 TTCGTCGTTACGACTTCAACCTTTCCTATCACATCTTCTT-AGGTACCGGG
1 TTCGCCGTTGCGGCCTCAACCTTTCCTTTCACATCTT-TTAAGGTACCGGA
* ** *
24830635 TTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTTTAAGGTATCGGA
1 TTCGCCGTTGCGGCCTCAACCTTTCCTTTCACATCTTTTAAGGTACCGGA
* ** * *
24830685 TTCACCGTTGCGGCCTCAATCC-TTCCTTTCATTTC-TTCATGGTACC-GA
1 TTCGCCGTTGCGGCCTCAA-CCTTTCCTTTCACATCTTTTAAGGTACCGGA
* *
24830733 GTTCGTCGTTGCGGCCTCAACCTTTCCTTTCGCATCTTTTAAGGTACCGGA
1 -TTCGCCGTTGCGGCCTCAACCTTTCCTTTCACATCTTTTAAGGTACCGGA
* * *
24830784 TCCACCGTTGCGGCCTCAATCCTTCCCTTT
1 TTCGCCGTTGCGGCCTCAA-CCTTTCCTTT
24830814 ATATCTCTAG
Statistics
Matches: 369, Mismatches: 84, Indels: 45
0.74 0.17 0.09
Matches are distributed among these distances:
48 10 0.03
49 139 0.38
50 200 0.54
51 20 0.05
ACGTcount: A:0.15, C:0.31, G:0.17, T:0.37
Consensus pattern (50 bp):
TTCGCCGTTGCGGCCTCAACCTTTCCTTTCACATCTTTTAAGGTACCGGA
Found at i:24830848 original size:99 final size:99
Alignment explanation
Indices: 24830634--24830863 Score: 259
Period size: 99 Copynumber: 2.3 Consensus size: 99
24830624 TAGGTACCGG
* * ** * *
24830634 GTTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTTTAAGGTATCGGATTCACCGTTGCGGC
1 GTTCGCCATTGCGGCCTCAACCTTTCCTTTCACATCTTTTAAGGTACCGGATCCACCGTTGCGGC
* * *
24830699 CTCAATCCTTCCTTTCATTTCTTCATGGTACCGA
66 CTCAATCCTTCCTTTCATATCTTCAGGGTACAGA
* * *
24830733 GTTCGTCGTTGCGGCCTCAACCTTTCCTTTCGCATCTTTTAAGGTACCGGATCCACCGTTGCGGC
1 GTTCGCCATTGCGGCCTCAACCTTTCCTTTCACATCTTTTAAGGTACCGGATCCACCGTTGCGGC
*
24830798 CTCAATCCTTCCCTTT-ATATC-TCTAGGGTATTAGA
66 CTCAATCCTT-CCTTTCATATCTTC-AGGGTA-CAGA
* * * *
24830833 -TTTGCCATTGTGGCCTCAATCTTCCCTTTCA
1 GTTCGCCATTGCGGCCTCAACCTTTCCTTTCA
24830864 AACCTATAGA
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
98 2 0.02
99 101 0.92
100 7 0.06
ACGTcount: A:0.16, C:0.31, G:0.17, T:0.36
Consensus pattern (99 bp):
GTTCGCCATTGCGGCCTCAACCTTTCCTTTCACATCTTTTAAGGTACCGGATCCACCGTTGCGGC
CTCAATCCTTCCTTTCATATCTTCAGGGTACAGA
Found at i:24831750 original size:46 final size:46
Alignment explanation
Indices: 24831698--24831791 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
24831688 CAAATGGTAG
24831698 TTTTTCGTGTCAGTCTTTGTAAGTCTCAGTCATTTTTACGATGATC
1 TTTTTCGTGTCAGTCTTTGTAAGTCTCAGTCATTTTTACGATGATC
24831744 TTTTTCGTGTCAGTCTTTGTAAGTCTCAGTCATTTTTACGATGATC
1 TTTTTCGTGTCAGTCTTTGTAAGTCTCAGTCATTTTTACGATGATC
24831790 TT
1 TT
24831792 CTTGATGTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (46 bp):
TTTTTCGTGTCAGTCTTTGTAAGTCTCAGTCATTTTTACGATGATC
Found at i:24835050 original size:23 final size:23
Alignment explanation
Indices: 24835018--24835071 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
24835008 ACGCTAGCGC
* *
24835018 GCTTATTGTTTCACACTTCGTGT
1 GCTTACTGTTTCACACCTCGTGT
*
24835041 GCTTACTGTTTCGCACCTCGTGT
1 GCTTACTGTTTCACACCTCGTGT
*
24835064 GCCTACTG
1 GCTTACTG
24835072 ATTTGCGCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.11, C:0.28, G:0.20, T:0.41
Consensus pattern (23 bp):
GCTTACTGTTTCACACCTCGTGT
Found at i:24835109 original size:45 final size:45
Alignment explanation
Indices: 24835060--24835161 Score: 143
Period size: 45 Copynumber: 2.3 Consensus size: 45
24835050 TTCGCACCTC
* *
24835060 GTGTGCCTACTGATTTGCGCTATGTGCGCCTAC-TGATTGCACTGT
1 GTGTGCCTACTG-CTTGCACTATGTGCGCCTACATGATTGCACTGT
* *
24835105 GTGTGCCTACTGCTTGCACTGTGTGTGCCTACATGATTGCACTGT
1 GTGTGCCTACTGCTTGCACTATGTGCGCCTACATGATTGCACTGT
*
24835150 GTGTGCTTACTG
1 GTGTGCCTACTG
24835162 TTTCCCCAGC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 16 0.31
45 35 0.69
ACGTcount: A:0.13, C:0.24, G:0.27, T:0.36
Consensus pattern (45 bp):
GTGTGCCTACTGCTTGCACTATGTGCGCCTACATGATTGCACTGT
Found at i:24835148 original size:23 final size:22
Alignment explanation
Indices: 24835060--24835161 Score: 141
Period size: 22 Copynumber: 4.5 Consensus size: 22
24835050 TTCGCACCTC
* *
24835060 GTGTGCCTACTGATTTGCGCTAT
1 GTGTGCCTACTGA-TTGCACTGT
*
24835083 GTGCGCCTACTGATTGCACTGT
1 GTGTGCCTACTGATTGCACTGT
*
24835105 GTGTGCCTACTGCTTGCACTGT
1 GTGTGCCTACTGATTGCACTGT
24835127 GTGTGCCTACATGATTGCACTGT
1 GTGTGCCTAC-TGATTGCACTGT
*
24835150 GTGTGCTTACTG
1 GTGTGCCTACTG
24835162 TTTCCCCAGC
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
22 39 0.55
23 32 0.45
ACGTcount: A:0.13, C:0.24, G:0.27, T:0.36
Consensus pattern (22 bp):
GTGTGCCTACTGATTGCACTGT
Found at i:24836001 original size:10 final size:10
Alignment explanation
Indices: 24835986--24836027 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
24835976 TTGAATTGAT
24835986 TTTAAATTTA
1 TTTAAATTTA
24835996 TTTAAATTTAAA
1 TTTAAATTT--A
*
24836008 CTTAAATTTA
1 TTTAAATTTA
24836018 TTTAAATTTA
1 TTTAAATTTA
24836028 AACTTGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 19 0.68
12 9 0.32
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (10 bp):
TTTAAATTTA
Found at i:24836004 original size:6 final size:6
Alignment explanation
Indices: 24835986--24836047 Score: 53
Period size: 6 Copynumber: 11.2 Consensus size: 6
24835976 TTGAATTGAT
*
24835986 TTTAAA TTT--A TTTAAA TTTAAA CTTAAA TTT--A TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* **
24836030 CTT-GT TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA T
24836048 ACACTTAGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
4 8 0.19
5 2 0.05
6 33 0.77
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:24836007 original size:16 final size:17
Alignment explanation
Indices: 24836001--24836047 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
24835991 ATTTATTTAA
*
24836001 ATTTAAACTTAAATT-T
1 ATTTAAATTTAAATTGT
24836017 ATTTAAATTTAAACTTGT
1 ATTTAAATTTAAA-TTGT
24836035 -TTTAAATTTAAAT
1 ATTTAAATTTAAAT
24836048 ACACTTAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 13 0.46
17 14 0.50
18 1 0.04
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (17 bp):
ATTTAAATTTAAATTGT
Found at i:24836012 original size:22 final size:22
Alignment explanation
Indices: 24835987--24836032 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
24835977 TGAATTGATT
24835987 TTAAATTTATTTAAATTTAAAC
1 TTAAATTTATTTAAATTTAAAC
24836009 TTAAATTTATTTAAATTTAAAC
1 TTAAATTTATTTAAATTTAAAC
24836031 TT
1 TT
24836033 GTTTTAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (22 bp):
TTAAATTTATTTAAATTTAAAC
Found at i:24837946 original size:28 final size:27
Alignment explanation
Indices: 24837894--24838035 Score: 110
Period size: 29 Copynumber: 5.0 Consensus size: 27
24837884 TGAACTGTCT
*
24837894 AAAAATTACATTTTGACCCTAAAACTTC
1 AAAAATTACATTTTGACCC-CAAACTTC
24837922 AAAAAATTACATTTTGACCCCAAACTTC
1 -AAAAATTACATTTTGACCCCAAACTTC
*
24837950 CAAAATTACCATTTT-ACCCCTAAACTTTC
1 AAAAATTA-CATTTTGACCCC-AAAC-TTC
* * * *
24837979 CAAAATTCCATTTTTAACCCC-AATTTC
1 AAAAATTACA-TTTTGACCCCAAACTTC
24838006 ACCTAAAATTACTATTTT-ACCCCTAAACTT
1 A---AAAATTAC-ATTTTGACCCC-AAACTT
24838036 TCCCAAATTC
Statistics
Matches: 95, Mismatches: 7, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
27 15 0.16
28 21 0.22
29 38 0.40
30 16 0.17
31 5 0.05
ACGTcount: A:0.38, C:0.27, G:0.01, T:0.34
Consensus pattern (27 bp):
AAAAATTACATTTTGACCCCAAACTTC
Found at i:24837993 original size:29 final size:28
Alignment explanation
Indices: 24837924--24838052 Score: 115
Period size: 29 Copynumber: 4.5 Consensus size: 28
24837914 AAAACTTCAA
* *
24837924 AAAATTACATTTTGACCCCAAAC-TTCC
1 AAAATTCCATTTTTACCCCAAACTTTCC
24837951 AAAATTACCA-TTTTACCCCTAAACTTTCC
1 AAAATT-CCATTTTTACCCC-AAACTTTCC
24837980 AAAATTCCATTTTTAACCCC-AA-TTTCACC
1 AAAATTCCATTTTT-ACCCCAAACTTT--CC
*
24838009 TAAAATTAC-TATTTTACCCCTAAACTTTCC
1 -AAAATTCCAT-TTTTACCCC-AAACTTTCC
*
24838039 CAAATTCCATTTTT
1 AAAATTCCATTTTT
24838053 GACCTTAATT
Statistics
Matches: 84, Mismatches: 5, Indels: 24
0.74 0.04 0.21
Matches are distributed among these distances:
27 17 0.20
28 11 0.13
29 32 0.38
30 19 0.23
31 2 0.02
32 3 0.04
ACGTcount: A:0.34, C:0.29, G:0.01, T:0.36
Consensus pattern (28 bp):
AAAATTCCATTTTTACCCCAAACTTTCC
Found at i:24838014 original size:30 final size:28
Alignment explanation
Indices: 24837924--24838086 Score: 92
Period size: 29 Copynumber: 5.7 Consensus size: 28
24837914 AAAACTTCAA
* *
24837924 AAAATTACATTTTGACCCCAAACTT--CC
1 AAAATTACATTTTTACCCC-AATTTCACC
24837951 AAAATTACCA-TTTTACCCCTAAACTTT--CC
1 AAAATTA-CATTTTTACCCC--AA-TTTCACC
*
24837980 AAAATTCCATTTTTAACCCCAATTTCACC
1 AAAATTACATTTTT-ACCCCAATTTCACC
24838009 TAAAATTAC-TATTTTACCCCTAAACTTTC-CC
1 -AAAATTACAT-TTTTACCCC--AA-TTTCACC
* **
24838040 -AAATTCCATTTTTGACCTTAATTTCACC
1 AAAATTACATTTTT-ACCCCAATTTCACC
24838068 AAAAATTACA-TTTTACCCC
1 -AAAATTACATTTTTACCCC
24838087 CGGGCATCCA
Statistics
Matches: 109, Mismatches: 10, Indels: 33
0.72 0.07 0.22
Matches are distributed among these distances:
27 22 0.20
28 16 0.15
29 36 0.33
30 27 0.25
31 4 0.04
32 4 0.04
ACGTcount: A:0.34, C:0.29, G:0.01, T:0.36
Consensus pattern (28 bp):
AAAATTACATTTTTACCCCAATTTCACC
Found at i:24838028 original size:59 final size:58
Alignment explanation
Indices: 24837894--24838086 Score: 209
Period size: 59 Copynumber: 3.3 Consensus size: 58
24837884 TGAACTGTCT
* * * *
24837894 AAAAATTACATTTTGA-CCCTAAAAC-TTCAAAAAATTACA-TTTTGACCCCAAACTT--CC
1 AAAAATTACATTTT-ACCCCT-AAACTTTC-CAAAATTCCATTTTTAACCCC-AATTTCACC
24837951 -AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACC
1 AAAAATTA-CATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACC
* * * **
24838009 TAAAATTACTATTTTACCCCTAAACTTTCCCAAATTCCATTTTTGACCTTAATTTCACC
1 AAAAATTAC-ATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACC
24838068 AAAAATTACATTTTACCCC
1 AAAAATTACATTTTACCCC
24838087 CGGGCATCCA
Statistics
Matches: 119, Mismatches: 9, Indels: 15
0.83 0.06 0.10
Matches are distributed among these distances:
56 24 0.20
57 22 0.18
58 13 0.11
59 60 0.50
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.35
Consensus pattern (58 bp):
AAAAATTACATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACC
Found at i:24842439 original size:18 final size:19
Alignment explanation
Indices: 24842418--24842456 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
24842408 GATTGATTGA
24842418 TTATATCTCT-TTG-ATCTT
1 TTATATCT-TGTTGCATCTT
24842436 TTATATCTTGTTGCATCTT
1 TTATATCTTGTTGCATCTT
24842455 TT
1 TT
24842457 CCATTTGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.05
18 11 0.58
19 7 0.37
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (19 bp):
TTATATCTTGTTGCATCTT
Found at i:24842685 original size:29 final size:29
Alignment explanation
Indices: 24842653--24842711 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
24842643 ATGTTAACAG
24842653 ATACAATGCTTATAAATGCATGTATGTAT
1 ATACAATGCTTATAAATGCATGTATGTAT
24842682 ATACAATGCTTATAAATGCATGTATGTAT
1 ATACAATGCTTATAAATGCATGTATGTAT
24842711 A
1 A
24842712 AGAAAGGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (29 bp):
ATACAATGCTTATAAATGCATGTATGTAT
Found at i:24844565 original size:29 final size:28
Alignment explanation
Indices: 24844533--24844824 Score: 181
Period size: 29 Copynumber: 10.0 Consensus size: 28
24844523 AGTTTCAAAG
*
24844533 AGTTTGGGGTCAAAATGTGATTTTTAAAA
1 AGTTTGGGGTAAAAATGTGATTTTT-AAA
* ***
24844562 AGTTCGAGGGTAAAAATGTGATTTTTGGG
1 AGTTTG-GGGTAAAAATGTGATTTTTAAA
** * *
24844591 AGTTCAAGGATAAAAATGTGATTTTTGAA
1 AGTT-TGGGGTAAAAATGTGATTTTTAAA
*
24844620 AGTTTTGGGGTAAAAATGTGAATTTTAAA
1 AG-TTTGGGGTAAAAATGTGATTTTTAAA
* * **
24844649 AGTTTAGGGGTAAAAATATAATTTTTGGA
1 AGTTT-GGGGTAAAAATGTGATTTTTAAA
**
24844678 AGTACGGGAGTAAAAATGTGATTTTTAAGA
1 AGTTTGGG-GTAAAAATGTGATTTTTAA-A
* * *
24844708 AGTTCAGGGGTAAAAATATGATTTTTGTAA
1 AGTT-TGGGGTAAAAATGTGATTTTT-AAA
** * * *
24844738 TTTTTGGGG-AAAAATATAATTTTTTAGA
1 AGTTTGGGGTAAAAATGTGA-TTTTTAAA
* * * *
24844766 AGTTCGAGTGTAAAAATGTAATTTTTGAGA
1 AGTTTG-GGGTAAAAATGTGATTTTT-AAA
* * *
24844796 AGTTTAAGGGTCAAAATGGGATTTTTAAA
1 AGTTT-GGGGTAAAAATGTGATTTTTAAA
24844825 CAAATAGGGG
Statistics
Matches: 202, Mismatches: 48, Indels: 26
0.73 0.17 0.09
Matches are distributed among these distances:
28 19 0.09
29 105 0.52
30 74 0.37
31 4 0.02
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (28 bp):
AGTTTGGGGTAAAAATGTGATTTTTAAA
Found at i:24844616 original size:59 final size:57
Alignment explanation
Indices: 24844538--24844822 Score: 223
Period size: 58 Copynumber: 4.9 Consensus size: 57
24844528 CAAAGAGTTT
* * * * *
24844538 GGGGTCAAAATGTGATTTTTAAAAAGTTCGAGGGTAAAAATGTGATTTTTGGGAGTTCA
1 GGGGTAAAAATATGATTTTT-GAAAGTTCG-GGGTAAAAATGTGATTTTTAGAAGTTCA
* * * * * * *
24844597 AGGATAAAAATGTGATTTTTGAAAGTTTTGGGGTAAAAATGTGAATTTTAAAAGTTTA
1 GGGGTAAAAATATGATTTTTGAAAG-TTCGGGGTAAAAATGTGATTTTTAGAAGTTCA
* * *
24844655 GGGGTAAAAATATAATTTTTGGAAGTACGGGAGTAAAAATGTGATTTTTAAGAAGTTCA
1 GGGGTAAAAATATGATTTTTGAAAGTTCGGG-GTAAAAATGTGATTTTT-AGAAGTTCA
** * * *
24844714 GGGGTAAAAATATGATTTTTGTAATTTTTGGGG-AAAAATATAATTTTTTAGAAGTTC-
1 GGGGTAAAAATATGATTTTTG-AAAGTTCGGGGTAAAAATGTGA-TTTTTAGAAGTTCA
* * * ** * *
24844771 GAGTGTAAAAATGTAATTTTTGAGAAGTTTAAGGGTCAAAATGGGATTTTTA
1 G-GGGTAAAAATATGATTTTTGA-AAG-TTCGGGGTAAAAATGTGATTTTTA
24844823 AACAAATAGG
Statistics
Matches: 178, Mismatches: 39, Indels: 18
0.76 0.17 0.08
Matches are distributed among these distances:
57 6 0.03
58 97 0.54
59 64 0.36
60 11 0.06
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.36
Consensus pattern (57 bp):
GGGGTAAAAATATGATTTTTGAAAGTTCGGGGTAAAAATGTGATTTTTAGAAGTTCA
Found at i:24844812 original size:88 final size:88
Alignment explanation
Indices: 24844533--24844824 Score: 288
Period size: 88 Copynumber: 3.3 Consensus size: 88
24844523 AGTTTCAAAG
* * * * * * *
24844533 AGTTT-GGGGTCAAAATGTGATTTTTAAAAAG-TTCGAGGGTAAAAATGTGATTTTTGGGAGTTC
1 AGTTTAGGGGTAAAAATGTGATTTTT-AAAAGTTTAG-GGGTAAAAATATAATTTTTAGAAGTAC
*
24844596 AAG-GATAAAAATGTGATTTTTGA-A
64 GAGAG-TAAAAATGTGATTTTTGAGA
* * * *
24844620 AGTTTTGGGGTAAAAATGTGAATTTTAAAAGTTTAGGGGTAAAAATATAATTTTTGGAAGTACGG
1 AGTTTAGGGGTAAAAATGTGATTTTTAAAAGTTTAGGGGTAAAAATATAATTTTTAGAAGTACGA
*
24844685 GAGTAAAAATGTGATTTTTAAGA
66 GAGTAAAAATGTGATTTTTGAGA
* * ** * * *
24844708 AGTTCAGGGGTAAAAATATGATTTTTGTAATTTTTGGGG-AAAAATATAATTTTTTAGAAGTTCG
1 AGTTTAGGGGTAAAAATGTGATTTTTAAAAGTTTAGGGGTAAAAATATAA-TTTTTAGAAGTACG
* *
24844772 AGTGTAAAAATGTAATTTTTGAGA
65 AGAGTAAAAATGTGATTTTTGAGA
* * *
24844796 AGTTTAAGGGTCAAAATGGGATTTTTAAA
1 AGTTTAGGGGTAAAAATGTGATTTTTAAA
24844825 CAAATAGGGG
Statistics
Matches: 169, Mismatches: 31, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
87 61 0.36
88 108 0.64
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (88 bp):
AGTTTAGGGGTAAAAATGTGATTTTTAAAAGTTTAGGGGTAAAAATATAATTTTTAGAAGTACGA
GAGTAAAAATGTGATTTTTGAGA
Found at i:24851346 original size:27 final size:27
Alignment explanation
Indices: 24851316--24851370 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
24851306 CAACAAATTG
24851316 AACTAAATTGAACGAACATAAAAACTT
1 AACTAAATTGAACGAACATAAAAACTT
24851343 AACTAAATTGAACGAACATAAAAACTT
1 AACTAAATTGAACGAACATAAAAACTT
24851370 A
1 A
24851371 GGATTGACGA
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:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (27 bp):
AACTAAATTGAACGAACATAAAAACTT
Found at i:24852628 original size:93 final size:93
Alignment explanation
Indices: 24852512--24852700 Score: 362
Period size: 93 Copynumber: 2.0 Consensus size: 93
24852502 GTATTTTGCT
24852512 TTTAATTGTTCTTTCTCTACTTCTTTTAAATTTATTTTATCATCATAGTAAATTCAACATTTACT
1 TTTAATTGTTCTTTCTCTACTTCTTTTAAATTTATTTTATCATCATAGTAAATTCAACATTTACT
24852577 TTTTAA-TTTTATCATCTTTTCTTATTC
66 TTTTAATTTTTATCATCTTTTCTTATTC
24852604 TTTAATTGTTCTTTTCTCTACTTCTTTTAAATTTATTTTATCATCATAGTAAATTCAACATTTAC
1 TTTAATTGTTC-TTTCTCTACTTCTTTTAAATTTATTTTATCATCATAGTAAATTCAACATTTAC
24852669 TTTTTAATTTTTATCATCTTTTCTTATTC
65 TTTTTAATTTTTATCATCTTTTCTTATTC
24852698 TTT
1 TTT
24852701 TATCACTTTC
Statistics
Matches: 95, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
92 11 0.12
93 60 0.63
94 24 0.25
ACGTcount: A:0.24, C:0.15, G:0.02, T:0.59
Consensus pattern (93 bp):
TTTAATTGTTCTTTCTCTACTTCTTTTAAATTTATTTTATCATCATAGTAAATTCAACATTTACT
TTTTAATTTTTATCATCTTTTCTTATTC
Found at i:24852715 original size:19 final size:21
Alignment explanation
Indices: 24852677--24852715 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
24852667 ACTTTTTAAT
*
24852677 TTTTATCATCTTTTCTTATTC
1 TTTTATCATCTTTTCATATTC
24852698 TTTTATCA-C-TTTCATATT
1 TTTTATCATCTTTTCATATT
24852716 TTATCTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 1 0.06
21 8 0.47
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTATCATCTTTTCATATTC
Found at i:24852883 original size:24 final size:24
Alignment explanation
Indices: 24852842--24852888 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
24852832 ACCTAAATAA
24852842 TTTTTAAAAAAATATATTTTTAAG
1 TTTTTAAAAAAATATATTTTTAAG
* * *
24852866 TTTTTAATAAATTTTATTTTTAA
1 TTTTTAAAAAAATATATTTTTAA
24852889 CCTTATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTTTAAAAAAATATATTTTTAAG
Found at i:24858107 original size:6 final size:6
Alignment explanation
Indices: 24858089--24858171 Score: 68
Period size: 6 Copynumber: 14.0 Consensus size: 6
24858079 AAATGATTTT
*
24858089 TTTAAA TTT--A TTTGAA TTTAAA TTT--A TCTTAAA TTTAATTA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA--A TTTAAA
* *
24858136 TTT-AC CTTAAA TTTAAA TTTAAA TTTAAA TTATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA
24858172 CAAATTTAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
4 6 0.10
5 5 0.08
6 40 0.63
7 6 0.10
8 6 0.10
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:24858137 original size:25 final size:25
Alignment explanation
Indices: 24858090--24858162 Score: 96
Period size: 25 Copynumber: 2.9 Consensus size: 25
24858080 AATGATTTTT
* *
24858090 TTAAATTTATTTGAATTTAAATTTATC
1 TTAAATTTAATT--ATTTAAATTTACC
24858117 TTAAATTTAATTATTTAAATTTACC
1 TTAAATTTAATTATTTAAATTTACC
24858142 TTAAATTTAA--ATTTAAATTTA
1 TTAAATTTAATTATTTAAATTTA
24858163 AATTATAAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.25
25 22 0.50
27 11 0.25
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.53
Consensus pattern (25 bp):
TTAAATTTAATTATTTAAATTTACC
Found at i:24860049 original size:30 final size:30
Alignment explanation
Indices: 24860015--24860173 Score: 230
Period size: 30 Copynumber: 5.3 Consensus size: 30
24860005 AATTGTCCTG
* *
24860015 AAATTACATTTTAACCTTAAAACTTTTGCA
1 AAATTACATTTTAACCCTAAAACTTTTCCA
* *
24860045 AAATTATATTTTAACCTTAAAACTTTTCCA
1 AAATTACATTTTAACCCTAAAACTTTTCCA
24860075 AAATTACATTTTAACCCTAAAACTTTTCCA
1 AAATTACATTTTAACCCTAAAACTTTTCCA
* *
24860105 AAATTATATTTTAACCCTAAAAC-TTTCTAA
1 AAATTACATTTTAACCCTAAAACTTTTC-CA
* *
24860135 AAATTACATTTTAACCCTGAAACTTTTCCC
1 AAATTACATTTTAACCCTAAAACTTTTCCA
24860165 AAATTACAT
1 AAATTACAT
24860174 AACTTTTCCA
Statistics
Matches: 117, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
29 4 0.03
30 109 0.93
31 4 0.03
ACGTcount: A:0.40, C:0.19, G:0.01, T:0.39
Consensus pattern (30 bp):
AAATTACATTTTAACCCTAAAACTTTTCCA
Found at i:24860179 original size:19 final size:19
Alignment explanation
Indices: 24860155--24860192 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
24860145 TTAACCCTGA
*
24860155 AACTTTTCCCAAATTACAT
1 AACTTTTCCAAAATTACAT
24860174 AACTTTTCCAAAATTACAT
1 AACTTTTCCAAAATTACAT
24860193 TTCGACCCCA
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:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (19 bp):
AACTTTTCCAAAATTACAT
Found at i:24860216 original size:29 final size:29
Alignment explanation
Indices: 24860174--24860442 Score: 255
Period size: 30 Copynumber: 9.2 Consensus size: 29
24860164 CAAATTACAT
*
24860174 AACTTTTCCAAAATTACATTTCGACCCCA
1 AACTTTTCCAAAATTACATTTTGACCCCA
*
24860203 AACTTTTCCAAAATTACATTTTGACCCTAA
1 AACTTTTCCAAAATTACATTTTGACCC-CA
*
24860233 AAC-TTTCTAAAAATTACATTTTGACCCCTA
1 AACTTTTC-CAAAATTACATTTTGACCCC-A
**
24860263 AACTTTTTAAAAATT-CATTTTGACCCCA
1 AACTTTTCCAAAATTACATTTTGACCCCA
* * * *
24860291 AAATTTTTCAAAATTATATTTTAACCCCTA
1 AACTTTTCCAAAATTACATTTTGACCCC-A
* * *
24860321 AACTTTT-TAAAA-TATATTTTGACCTCGA
1 AACTTTTCCAAAATTACATTTTGACC-CCA
* *
24860349 AACTTTTCCAAAATTACATTTTAACCCTAA
1 AACTTTTCCAAAATTACATTTTGACCC-CA
* *
24860379 AACTTTTCTAAAATTATATTTTGACCCCAA
1 AACTTTTCCAAAATTACATTTTGACCCC-A
24860409 AAC--TTCCAAAAATTACCATTTT-ACCCTCA
1 AACTTTTCC-AAAATTA-CATTTTGACCC-CA
24860438 AACTT
1 AACTT
24860443 CCCTAAATCC
Statistics
Matches: 201, Mismatches: 23, Indels: 30
0.79 0.09 0.12
Matches are distributed among these distances:
28 36 0.18
29 77 0.38
30 85 0.42
31 3 0.01
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.38
Consensus pattern (29 bp):
AACTTTTCCAAAATTACATTTTGACCCCA
Found at i:24860247 original size:78 final size:79
Alignment explanation
Indices: 24860095--24860251 Score: 194
Period size: 78 Copynumber: 2.0 Consensus size: 79
24860085 TTAACCCTAA
* * *
24860095 AACTTTTCCAAAATTATATTTTAACCCTAAAACTTTCTAAAAATTACATTTTAACCCTGAAACTT
1 AACTTTTCCAAAATTACATTTCAACCCTAAAACTTTCTAAAAATTACATTTTAACCCTAAAACTT
**
24860160 TTCCCAAATTACAT
66 TTCAAAAATTACAT
* * * *
24860174 AACTTTTCCAAAATTACATTTCGACCC-CAAACTTT-TCCAAAATTACATTTTGACCCTAAAAC-
1 AACTTTTCCAAAATTACATTTCAACCCTAAAACTTTCT-AAAAATTACATTTTAACCCTAAAACT
24860236 TTTCTAAAAATTACAT
65 TTTC-AAAAATTACAT
24860252 TTTGACCCCT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
77 5 0.07
78 38 0.57
79 24 0.36
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.36
Consensus pattern (79 bp):
AACTTTTCCAAAATTACATTTCAACCCTAAAACTTTCTAAAAATTACATTTTAACCCTAAAACTT
TTCAAAAATTACAT
Found at i:24860266 original size:108 final size:109
Alignment explanation
Indices: 24860065--24860269 Score: 333
Period size: 108 Copynumber: 1.9 Consensus size: 109
24860055 TTAACCTTAA
* *
24860065 AACTTTTCCAAAATTACATTTTAACCCTAAAACTTTTCCAAAATTATATTTTAACCCTAAAACTT
1 AACTTTTCCAAAATTACATTTCAACCCTAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTT
24860130 TCTAAAAATTACATTTTAACCCTGAAACTTTTCCCAAATTACAT
66 TCTAAAAATTACATTTTAACCCTGAAACTTTTCCCAAATTACAT
* * *
24860174 AACTTTTCCAAAATTACATTTCGACCC-CAAACTTTTCCAAAATTACATTTTGACCCTAAAACTT
1 AACTTTTCCAAAATTACATTTCAACCCTAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTT
*
24860238 TCTAAAAATTACATTTTGACCCCT-AAACTTTT
66 TCTAAAAATTACATTTT-AACCCTGAAACTTTT
24860270 TAAAAATTCA
Statistics
Matches: 89, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
108 59 0.66
109 30 0.34
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.37
Consensus pattern (109 bp):
AACTTTTCCAAAATTACATTTCAACCCTAAAACTTTTCCAAAATTACATTTTAACCCTAAAACTT
TCTAAAAATTACATTTTAACCCTGAAACTTTTCCCAAATTACAT
Found at i:24860282 original size:59 final size:58
Alignment explanation
Indices: 24860183--24860442 Score: 264
Period size: 59 Copynumber: 4.4 Consensus size: 58
24860173 TAACTTTTCC
* * *
24860183 AAAATTACATTTCGACCCC-AAACTTTTCCAAAATTACATTTTGACCCTAAAACTTTCTA
1 AAAATTACATTT-TACCCCTAAACTTTT-TAAAATTACATTTTGACCCCAAAACTTTCTA
* *
24860242 AAAATTACATTTTGACCCCTAAACTTTTTAAAAATT-CATTTTGACCCCAAAA-TTTTTC
1 AAAATTACATTTT-ACCCCTAAACTTTTT-AAAATTACATTTTGACCCCAAAACTTTCTA
* * * * *
24860300 AAAATTATATTTTAACCCCTAAACTTTTTAAAA-TATATTTTGACCTCGAAACTTT-TCC
1 AAAATTACATTTT-ACCCCTAAACTTTTTAAAATTACATTTTGACCCCAAAACTTTCT-A
* * *
24860358 AAAATTACATTTTAACCCTAAAACTTTTCTAAAATTATATTTTGACCCCAAAAC-TTCCA
1 AAAATTACATTTTACCCCT-AAACTTTT-TAAAATTACATTTTGACCCCAAAACTTTCTA
24860417 AAAATTACCATTTTA-CCCTCAAACTT
1 AAAATTA-CATTTTACCCCT-AAACTT
24860443 CCCTAAATCC
Statistics
Matches: 173, Mismatches: 17, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
56 1 0.01
57 23 0.13
58 55 0.32
59 56 0.32
60 38 0.22
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.37
Consensus pattern (58 bp):
AAAATTACATTTTACCCCTAAACTTTTTAAAATTACATTTTGACCCCAAAACTTTCTA
Found at i:24860318 original size:58 final size:58
Alignment explanation
Indices: 24860177--24860431 Score: 277
Period size: 58 Copynumber: 4.3 Consensus size: 58
24860167 ATTACATAAC
** * *
24860177 TTTTCCAAAATTACATTTCGACCCC-AAACTTTTCCAAAATTACATTTTGACCCTAAAA
1 TTTTCCAAAATTACATTTTAACCCCTAAACTTTT-TAAAATTACATTTTGACCCCAAAA
* * *
24860235 CTTTCTAAAAATTACATTTTGACCCCTAAACTTTTTAAAAATT-CATTTTGACCCCAAAA
1 TTTTC-CAAAATTACATTTTAACCCCTAAACTTTTT-AAAATTACATTTTGACCCCAAAA
* * * * *
24860294 TTTTTCAAAATTATATTTTAACCCCTAAACTTTTTAAAA-TATATTTTGACCTCGAAAC
1 TTTTCCAAAATTACATTTTAACCCCTAAACTTTTTAAAATTACATTTTGACC-CCAAAA
*
24860352 TTTTCCAAAATTACATTTTAA-CCCTAAAACTTTTCTAAAATTATATTTTGACCCCAAAA
1 TTTTCCAAAATTACATTTTAACCCCT-AAACTTTT-TAAAATTACATTTTGACCCCAAAA
*
24860411 -CTTCCAAAAATTACCATTTTA
1 TTTTCC-AAAATTA-CATTTTA
24860432 CCCTCAAACT
Statistics
Matches: 169, Mismatches: 18, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
56 1 0.01
57 17 0.10
58 66 0.39
59 52 0.31
60 33 0.20
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.38
Consensus pattern (58 bp):
TTTTCCAAAATTACATTTTAACCCCTAAACTTTTTAAAATTACATTTTGACCCCAAAA
Found at i:24860443 original size:29 final size:28
Alignment explanation
Indices: 24860179--24860444 Score: 118
Period size: 29 Copynumber: 9.1 Consensus size: 28
24860169 TACATAACTT
**
24860179 TTCCAAAATTACATTTCGACCC-CAAAC
1 TTCCAAAATTACATTTTAACCCTCAAAC
* *
24860206 TTTTCCAAAATTACATTTTGACCCTAAAAC
1 --TTCCAAAATTACATTTTAACCCTCAAAC
* *
24860236 TTTCTAAAAATTACATTTTGACCC-CTAAAC
1 -TTC-CAAAATTACATTTTAACCCTC-AAAC
** * *
24860266 TTTTTAAAAATT-CATTTTGACCC-CAAAATT
1 --TTCCAAAATTACATTTTAACCCTC-AAA-C
* *
24860296 TTTCAAAATTATATTTTAACCC-CTAAAC
1 TTCCAAAATTACATTTTAACCCTC-AAAC
** * *
24860324 TTTTTAAAA-TATATTTTGA-CCTCGAAAC
1 -TTCCAAAATTACATTTTAACCCTC-AAAC
*
24860352 TTTTCCAAAATTACATTTTAACCCTAAAAC
1 --TTCCAAAATTACATTTTAACCCTCAAAC
* * *
24860382 TTTTCTAAAATTATATTTTGACCC-CAAAAC
1 --TTCCAAAATTACATTTTAACCCTC-AAAC
24860412 TTCCAAAAATTACCATTTT-ACCCTCAAAC
1 TTCC-AAAATTA-CATTTTAACCCTCAAAC
24860441 TTCC
1 TTCC
24860445 CTAAATCCCA
Statistics
Matches: 196, Mismatches: 26, Indels: 30
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.01
28 26 0.13
29 86 0.44
30 76 0.39
31 6 0.03
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (28 bp):
TTCCAAAATTACATTTTAACCCTCAAAC
Found at i:24860450 original size:29 final size:29
Alignment explanation
Indices: 24860359--24860465 Score: 83
Period size: 30 Copynumber: 3.6 Consensus size: 29
24860349 AACTTTTCCA
* **
24860359 AAATTACATTTTAACCCTAAAACTTTTCT
1 AAATTACATTTTAACCCTCAAACTTCCCT
* * **
24860388 AAAATTATATTTTGACCC-CAAAACTTCCAA
1 -AAATTACATTTTAACCCTC-AAACTTCCCT
24860418 AAATTACCATTTT-ACCCTCAAACTTCCCT
1 AAATTA-CATTTTAACCCTCAAACTTCCCT
**
24860447 AAATCCCATTTTTAACCCT
1 AAATTACA-TTTTAACCCT
24860466 AATTTCACCA
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
28 2 0.03
29 26 0.43
30 32 0.53
ACGTcount: A:0.36, C:0.27, G:0.01, T:0.36
Consensus pattern (29 bp):
AAATTACATTTTAACCCTCAAACTTCCCT
Found at i:24872280 original size:68 final size:68
Alignment explanation
Indices: 24872163--24872757 Score: 895
Period size: 68 Copynumber: 8.6 Consensus size: 68
24872153 ATTATTTCCT
* * *
24872163 ATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGATCAA
1 ATCCTCTTGAAATTGAAGTAAAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
24872228 TGTC
65 CGTC
* *
24872232 GTCCTCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAT
1 ATCCTCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
24872297 GTC
66 GTC
* * *
24872300 GTCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAT
1 ATCCTCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
24872365 GTC
66 GTC
* * * *
24872368 GTCCTCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAAAGCAAC
1 ATCCTCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
24872433 GTC
66 GTC
* *
24872436 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCTCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
24872501 GTC
66 GTC
24872504 ATCCTCTTGAAATTGAAGTAGAA-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTA-AAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
24872568 CGTC
65 CGTC
*
24872572 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCTCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
24872637 GTC
66 GTC
* *
24872640 ATCCTCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGGAATTGAAATAAGAGCAAG
1 ATCCTCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC-A-
*
24872705 ATCATTTTCC
64 A-C---GT-C
* *
24872715 TATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTAT
1 -ATCCTCTTGAAATTGAAGTAAAG-TGGATAACACGTCTTTAT
24872758 TTCTCTAAGG
Statistics
Matches: 494, Mismatches: 21, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
67 1 0.00
68 426 0.86
69 24 0.05
70 1 0.00
71 1 0.00
74 1 0.00
75 1 0.00
76 23 0.05
77 16 0.03
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (68 bp):
ATCCTCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
GTC
Found at i:24873078 original size:16 final size:16
Alignment explanation
Indices: 24873059--24873109 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
24873049 TTAAATTGAT
*
24873059 TTTAAATTTATTTGAA
1 TTTAAATTTATTTAAA
24873075 TTTAAATTTATCTTAAA
1 TTTAAATTTAT-TTAAA
24873092 TTT-AA-TTATTTAAA
1 TTTAAATTTATTTAAA
24873106 TTTA
1 TTTA
24873110 CCTTAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
14 8 0.25
15 4 0.12
16 13 0.41
17 7 0.22
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:24873082 original size:27 final size:25
Alignment explanation
Indices: 24873048--24873126 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 25
24873038 TAATTAAGAG
* *
24873048 TTTAAATTGATTTTAAATTTATTTGAA
1 TTTAAATTGATCTTAAATTTAATT--A
*
24873075 TTTAAATTTATCTTAAATTTAATTA
1 TTTAAATTGATCTTAAATTTAATTA
* *
24873100 TTTAAATTTACCTTAAATTTAAATTA
1 TTTAAATTGATCTTAAATTT-AATTA
24873126 T
1 T
24873127 AAAACAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
25 20 0.43
26 6 0.13
27 21 0.45
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (25 bp):
TTTAAATTGATCTTAAATTTAATTA
Found at i:24873923 original size:9 final size:10
Alignment explanation
Indices: 24873909--24873935 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
24873899 TTAATTATTT
24873909 AAAAAAAACA
1 AAAAAAAACA
24873919 AAAAAAAACA
1 AAAAAAAACA
24873929 AAAAAAA
1 AAAAAAA
24873936 TATGAAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:24875080 original size:29 final size:30
Alignment explanation
Indices: 24874965--24875267 Score: 343
Period size: 30 Copynumber: 10.2 Consensus size: 30
24874955 GTAAGTCCCT
*
24874965 AAAACTTTTCCAAAATTACATTTTGACCCC
1 AAAACTTTTCCAAAATTATATTTTGACCCC
24874995 AAAAACTTTTCCAAAATTATATTTTGACCCC
1 -AAAACTTTTCCAAAATTATATTTTGACCCC
* *
24875026 AAAACTTTTCTAAAAAATTACA--TTGA-CCC
1 AAAACTTTTC--CAAAATTATATTTTGACCCC
*
24875055 AAAATTTTTCCAAAATTATATTTTGACCCC
1 AAAACTTTTCCAAAATTATATTTTGACCCC
* **
24875085 AAAAC-TTTCCAAAATTACA-TTTGACCTT
1 AAAACTTTTCCAAAATTATATTTTGACCCC
* * * *
24875113 GAAAC-TTTCTAAAAATTACATTTT-AACCC
1 AAAACTTTTC-CAAAATTATATTTTGACCCC
* * *
24875142 AAAATTTTTCCAAAATTATATTTTAACCCT
1 AAAACTTTTCCAAAATTATATTTTGACCCC
* * *
24875172 AAAAC-TTTCTAAAATTATATTTTAACCCT
1 AAAACTTTTCCAAAATTATATTTTGACCCC
*
24875201 GAAACTTTTCCAAAATTATATTTTGACCCC
1 AAAACTTTTCCAAAATTATATTTTGACCCC
*
24875231 AAAACTTTTCTAAAATTATATTTTGACCCC
1 AAAACTTTTCCAAAATTATATTTTGACCCC
24875261 AAAACTT
1 AAAACTT
24875268 CCAGAAATTA
Statistics
Matches: 233, Mismatches: 29, Indels: 21
0.82 0.10 0.07
Matches are distributed among these distances:
27 8 0.03
28 15 0.06
29 82 0.35
30 91 0.39
31 29 0.12
32 8 0.03
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.37
Consensus pattern (30 bp):
AAAACTTTTCCAAAATTATATTTTGACCCC
Found at i:24875295 original size:59 final size:58
Alignment explanation
Indices: 24874965--24875296 Score: 320
Period size: 59 Copynumber: 5.6 Consensus size: 58
24874955 GTAAGTCCCT
*
24874965 AAAACTTTTCCAAAATTACATTTTGACCCCAAAAACTTTTCCAAAATTATATTTTGACCCC
1 AAAAC-TTTCCAAAATTACATTTTGACCCC--AAACTTTTCTAAAATTATATTTTGACCCC
* * * *
24875026 AAAACTTTTCTAAAAAATTACA--TTGACCCAAAATTTTTCCAAAATTATATTTTGACCCC
1 AAAAC-TTTC--CAAAATTACATTTTGACCCCAAACTTTTCTAAAATTATATTTTGACCCC
** * *
24875085 AAAACTTTCCAAAATTACA-TTTGACCTTGAAAC-TTTCTAAAAATTACATTTT-AACCC
1 AAAACTTTCCAAAATTACATTTTGACC-CCAAACTTTTCT-AAAATTATATTTTGACCCC
* * * * * *
24875142 AAAATTTTTCCAAAATTATATTTTAACCCTAAAAC-TTTCTAAAATTATATTTTAACCCT
1 AAAA-CTTTCCAAAATTACATTTTGACCC-CAAACTTTTCTAAAATTATATTTTGACCCC
* *
24875201 GAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCTAAAATTATATTTTGACCCC
1 AAAAC-TTTCCAAAATTACATTTTGACCCC-AAACTTTTCTAAAATTATATTTTGACCCC
24875261 AAAAC-TTCCAGAAATTACCATTTT-ACCCTCAAACTT
1 AAAACTTTCCA-AAATTA-CATTTTGACCC-CAAACTT
24875297 CCTTAAATCC
Statistics
Matches: 230, Mismatches: 26, Indels: 32
0.80 0.09 0.11
Matches are distributed among these distances:
56 9 0.04
57 18 0.08
58 49 0.21
59 96 0.42
60 32 0.14
61 17 0.07
63 9 0.04
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (58 bp):
AAAACTTTCCAAAATTACATTTTGACCCCAAACTTTTCTAAAATTATATTTTGACCCC
Found at i:24877417 original size:6 final size:6
Alignment explanation
Indices: 24877406--24877431 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
24877396 ATCAAATATT
24877406 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
24877432 TTTATAAAAA
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:24878188 original size:26 final size:24
Alignment explanation
Indices: 24878159--24878207 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
24878149 TTTTAAAGAG
*
24878159 TTTTTATTTTTTATTTTTAAAATATA
1 TTTTTATGTTTTA--TTTAAAATATA
24878185 TTTTTATGTTTTATTTAAAATAT
1 TTTTTATGTTTTATTTAAAATAT
24878208 TAAAAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.45
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTTATGTTTTATTTAAAATATA
Found at i:24878831 original size:18 final size:19
Alignment explanation
Indices: 24878810--24878845 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24878800 ATATACAAAT
*
24878810 AAAATA-AAAATATATTAC
1 AAAATATAAAATAGATTAC
24878828 AAAATATAAAATAGATTA
1 AAAATATAAAATAGATTA
24878846 AACAGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAATATAAAATAGATTAC
Done.