Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 313 of 352
Found at i:102113053 original size:30 final size:30
Alignment explanation
Indices: 102113019--102113081 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
102113009 ACTTATTTTA
102113019 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* * *
102113049 TTGTTAATTTTTTTATTATTTTAGAGGCGT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
102113079 TTG
1 TTG
102113082 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.22, C:0.03, G:0.16, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:102124125 original size:25 final size:24
Alignment explanation
Indices: 102124097--102124144 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
102124087 ATCATGGGAA
102124097 AAATGTG-AAGACATTGAAATGTATT
1 AAATGTGAAAGA-ATTGAAA-GTATT
102124122 AAATGTGAAAGAATTGAAAGTAT
1 AAATGTGAAAGAATTGAAAGTAT
102124145 AATATATGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.18
25 14 0.64
26 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.29
Consensus pattern (24 bp):
AAATGTGAAAGAATTGAAAGTATT
Found at i:102136573 original size:24 final size:24
Alignment explanation
Indices: 102136544--102136621 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
102136534 GAACAGTGTA
102136544 ATTATTACATCTACAAAGAGCTTT
1 ATTATTACATCTACAAAGAGCTTT
* * * * *
102136568 ATTATT-C-TGTGATATTACAG-TGTA
1 ATTATTACATCT-ACA-AAGAGCT-TT
102136592 ATTATTACATCTACAAAGAGCTTT
1 ATTATTACATCTACAAAGAGCTTT
102136616 ATTATT
1 ATTATT
102136622 CTGTGATATT
Statistics
Matches: 38, Mismatches: 10, Indels: 12
0.63 0.17 0.20
Matches are distributed among these distances:
22 2 0.05
23 4 0.11
24 26 0.68
25 4 0.11
26 2 0.05
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (24 bp):
ATTATTACATCTACAAAGAGCTTT
Found at i:102136592 original size:48 final size:48
Alignment explanation
Indices: 102136536--102136631 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
102136526 CAGTGAAAGA
102136536 ACAGTGTAATTATTACATCTACAAAGAGCTTTATTATTCTGTGATATT
1 ACAGTGTAATTATTACATCTACAAAGAGCTTTATTATTCTGTGATATT
102136584 ACAGTGTAATTATTACATCTACAAAGAGCTTTATTATTCTGTGATATT
1 ACAGTGTAATTATTACATCTACAAAGAGCTTTATTATTCTGTGATATT
102136632 CTCATTTTGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (48 bp):
ACAGTGTAATTATTACATCTACAAAGAGCTTTATTATTCTGTGATATT
Found at i:102138487 original size:15 final size:15
Alignment explanation
Indices: 102138467--102138497 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
102138457 ATCTTGGAAC
102138467 TAAGAAATGTTGTGT
1 TAAGAAATGTTGTGT
102138482 TAAGAAATGTTGTGT
1 TAAGAAATGTTGTGT
102138497 T
1 T
102138498 TCTTTATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (15 bp):
TAAGAAATGTTGTGT
Found at i:102143692 original size:2 final size:2
Alignment explanation
Indices: 102143685--102143715 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
102143675 ACTACAGGAT
102143685 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
102143716 TTACTATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:102148462 original size:31 final size:30
Alignment explanation
Indices: 102148420--102148479 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
102148410 ATCTCTATCT
* *
102148420 TTTTTAAAGATTTAAATTA-AATTTTTATCAA
1 TTTTAAAAGA-TTAAAGTATAA-TTTTATCAA
102148451 TTTTAAAAGATTAAAGTATAATTTTATCA
1 TTTTAAAAGATTAAAGTATAATTTTATCA
102148480 TTATTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (30 bp):
TTTTAAAAGATTAAAGTATAATTTTATCAA
Found at i:102148504 original size:16 final size:17
Alignment explanation
Indices: 102148480--102148512 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
102148470 AATTTTATCA
*
102148480 TTATTAATT-TAAAATT
1 TTATAAATTATAAAATT
102148496 TTATAAATTATAAAATT
1 TTATAAATTATAAAATT
102148513 AAGCAGGGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTATAAATTATAAAATT
Found at i:102148514 original size:23 final size:22
Alignment explanation
Indices: 102148470--102148514 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
102148460 ATTAAAGTAT
* * *
102148470 AATTTTATCATTATTAATTTAA
1 AATTTTATAATTATAAAATTAA
102148492 AATTTTATAAATTATAAAATTAA
1 AATTTTAT-AATTATAAAATTAA
102148515 GCAGGGCCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTTTATAATTATAAAATTAA
Found at i:102156025 original size:30 final size:31
Alignment explanation
Indices: 102155966--102156027 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
102155956 TAATTTTTTC
* *
102155966 TGAATAGTTTAGTGACTTAAATAGAAACTTT
1 TGAATAATTTAATGACTTAAATAGAAACTTT
* *
102155997 TGAATAATTTAATGAC-TAAATTGTAACTTT
1 TGAATAATTTAATGACTTAAATAGAAACTTT
102156027 T
1 T
102156028 TTAATTAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (31 bp):
TGAATAATTTAATGACTTAAATAGAAACTTT
Found at i:102160930 original size:4 final size:4
Alignment explanation
Indices: 102160921--102160955 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
102160911 TTTCCCAACA
102160921 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
102160956 GATACCATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:102162726 original size:18 final size:18
Alignment explanation
Indices: 102162693--102162727 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
102162683 GTATTTGATG
**
102162693 TATTTTATTTTTAAAATT
1 TATTTTATTTAAAAAATT
102162711 TATTTTATTTAAAAAAT
1 TATTTTATTTAAAAAAT
102162728 ATAAAAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTTTATTTAAAAAATT
Found at i:102169553 original size:31 final size:30
Alignment explanation
Indices: 102169505--102169578 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 30
102169495 TTTCCTCTAT
* *
102169505 TTTTGCTACTGATTTCCCTCCCTTTTACTCC
1 TTTTGCTACCGATTTCCCTCCATTTTACT-C
*
102169536 TTTTACTACCGATTTCCCTCCATTTTACTC
1 TTTTGCTACCGATTTCCCTCCATTTTACTC
102169566 TTTGTGCTACCGA
1 TTT-TGCTACCGA
102169579 AATTCCTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 4 0.11
31 34 0.89
ACGTcount: A:0.14, C:0.32, G:0.08, T:0.46
Consensus pattern (30 bp):
TTTTGCTACCGATTTCCCTCCATTTTACTC
Found at i:102178076 original size:138 final size:140
Alignment explanation
Indices: 102177796--102178215 Score: 628
Period size: 141 Copynumber: 3.0 Consensus size: 140
102177786 CCAACTCCAC
* *
102177796 ATGCTACCATTTGGTCATAGCTTGAAAAGACTCTCTCTAATTCTACTACTAATCTTACGAGATAA
1 ATGCTACCATTAGGTCATAGCTTGAAAAGAC-CTCTCTAATCCTACTACTAATCTTACGAGATAA
* * * *
102177861 ATCACTAGCTTAATGAGACCTACGTCAATCTCTTCGTCTATACAAGTCCCTCCTCTAAAAAGAGT
65 ATCACTAGCTCAATGAGACCCACGTCAATCTCTTCATCTATACAAGTCCCTCCTCTAAAAAGAGA
102177926 CAAACTCTCTT
130 CAAACTCTCTT
*
102177937 ATGCTACCATTAGGTCATAACTTGAAAAGA-CTCTCTAATCCTACTACTAATCTTACGAGATAAA
1 ATGCTACCATTAGGTCATAGCTTGAAAAGACCTCTCTAATCCTACTACTAATCTTACGAGATAAA
*
102178001 TCACTAGCTCAATGAGACCCAC-ACAATCTCTTCATCTATACAAGTCCCTCCTCTAAAAAGAGAC
66 TCACTAGCTCAATGAGACCCACGTCAATCTCTTCATCTATACAAGTCCCTCCTCTAAAAAGAGAC
102178065 AAACTCTCTT
131 AAACTCTCTT
* * * * * * *
102178075 ATGCTATCATTAAGTCATAGCTTAAAAAGACTCTCTCTAATCTTACTACTAATTTTACAAAATAA
1 ATGCTACCATTAGGTCATAGCTTGAAAAGAC-CTCTCTAATCCTACTACTAATCTTACGAGATAA
* * * * *
102178140 ATCGCTAGCACAATGAGACTCACGTCAATCTCTTCATCTATACAAGTGCGTCCTCTAAAAAGAGA
65 ATCACTAGCTCAATGAGACCCACGTCAATCTCTTCATCTATACAAGTCCCTCCTCTAAAAAGAGA
102178205 CAAACTCTCTT
130 CAAACTCTCTT
102178216 CCTCCAAGAG
Statistics
Matches: 254, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
138 75 0.30
139 53 0.21
140 49 0.19
141 77 0.30
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.30
Consensus pattern (140 bp):
ATGCTACCATTAGGTCATAGCTTGAAAAGACCTCTCTAATCCTACTACTAATCTTACGAGATAAA
TCACTAGCTCAATGAGACCCACGTCAATCTCTTCATCTATACAAGTCCCTCCTCTAAAAAGAGAC
AAACTCTCTT
Found at i:102179796 original size:41 final size:40
Alignment explanation
Indices: 102179745--102179836 Score: 150
Period size: 40 Copynumber: 2.3 Consensus size: 40
102179735 GATTATGCAT
102179745 TAGCGGCGTTTGCA-CAAAAACGCCGCTAAAAAACTGAGTAA
1 TAGCGGCGTTTGCAGCAAAAACGCCGCT--AAAACTGAGTAA
*
102179786 TAGCGGCGTTTGGAGCAAAAACGCCGCTAAAACTGAGTAA
1 TAGCGGCGTTTGCAGCAAAAACGCCGCTAAAACTGAGTAA
102179826 TAGCGGCGTTT
1 TAGCGGCGTTT
102179837 TTGGTCCAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
40 23 0.47
41 13 0.27
42 13 0.27
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.20
Consensus pattern (40 bp):
TAGCGGCGTTTGCAGCAAAAACGCCGCTAAAACTGAGTAA
Found at i:102179829 original size:40 final size:40
Alignment explanation
Indices: 102179745--102179877 Score: 153
Period size: 41 Copynumber: 3.3 Consensus size: 40
102179735 GATTATGCAT
102179745 TAGCGGCGTTTGCACAAAAACGCCGCTAAAAAACTGAGTAA
1 TAGCGGCGTTTGCACAAAAACGCCGCT-AAAAACTGAGTAA
*
102179786 TAGCGGCGTTTGGAGCAAAAACGCCGCT-AAAACTGAGTAA
1 TAGCGGCGTTTGCA-CAAAAACGCCGCTAAAAACTGAGTAA
** * * * *
102179826 TAGCGGCGTTTTTGGTC-CAAATGCCGCTAAAAACTTAGAAA
1 TAGCGGCG--TTTGCACAAAAACGCCGCTAAAAACTGAGTAA
102179867 TAGCGGCGTTT
1 TAGCGGCGTTT
102179878 TTTAAGAAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
39 3 0.04
40 29 0.35
41 32 0.39
42 18 0.22
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (40 bp):
TAGCGGCGTTTGCACAAAAACGCCGCTAAAAACTGAGTAA
Found at i:102179840 original size:42 final size:42
Alignment explanation
Indices: 102179759--102179879 Score: 151
Period size: 40 Copynumber: 2.9 Consensus size: 42
102179749 GGCGTTTGCA
102179759 CAAAAACGCCGCTAAAAAACTGAGTAATAGCGGCG--TTTGGAG
1 CAAAAACGCCGCT-AAAAACTGAGTAATAGCGGCGTTTTTGG-G
*
102179801 CAAAAACGCCGCT-AAAACTGAGTAATAGCGGCGTTTTTGGT
1 CAAAAACGCCGCTAAAAACTGAGTAATAGCGGCGTTTTTGGG
* * * *
102179842 C-CAAATGCCGCTAAAAACTTAGAAATAGCGGCGTTTTT
1 CAAAAACGCCGCTAAAAACTGAGTAATAGCGGCGTTTTT
102179880 TAAGAAAACG
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
40 29 0.41
41 24 0.34
42 18 0.25
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (42 bp):
CAAAAACGCCGCTAAAAACTGAGTAATAGCGGCGTTTTTGGG
Found at i:102179893 original size:41 final size:41
Alignment explanation
Indices: 102179761--102179893 Score: 146
Period size: 41 Copynumber: 3.2 Consensus size: 41
102179751 CGTTTGCACA
102179761 AAAACGCCGCTAAAAAACTGAGTAATAGCGGCG--TTTGGAG
1 AAAACGCCGCT-AAAAACTGAGTAATAGCGGCGTTTTTGGAG
**
102179801 CAAAAACGCCGCT-AAAACTGAGTAATAGCGGCGTTTTTGGTC
1 --AAAACGCCGCTAAAAACTGAGTAATAGCGGCGTTTTTGGAG
* * * * **
102179843 CAAATGCCGCTAAAAACTTAGAAATAGCGGCGTTTTTTAAG
1 AAAACGCCGCTAAAAACTGAGTAATAGCGGCGTTTTTGGAG
102179884 AAAACGCCGC
1 AAAACGCCGC
102179894 AAATAGTTGA
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
40 29 0.38
41 31 0.41
42 16 0.21
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACTGAGTAATAGCGGCGTTTTTGGAG
Found at i:102187006 original size:17 final size:17
Alignment explanation
Indices: 102186961--102186997 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
102186951 TAGGAGTTTC
102186961 AACAATAATCATAACAA
1 AACAATAATCATAACAA
102186978 AACAATAATCATAACAA
1 AACAATAATCATAACAA
102186995 AAC
1 AAC
102186998 TTTAATCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.65, C:0.19, G:0.00, T:0.16
Consensus pattern (17 bp):
AACAATAATCATAACAA
Found at i:102189371 original size:3 final size:3
Alignment explanation
Indices: 102189363--102189467 Score: 51
Period size: 3 Copynumber: 36.3 Consensus size: 3
102189353 AAGGAATATT
* * * * *
102189363 ATA ATA ATA A-C ATA ATA ATA ATA TTA ATA ATC AT- ATT ATA GTTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * *
102189407 GTA ATT CTA ATA CTA ATT A-A ATA ATA AT- ATA A-A A-A ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
*
102189449 ATA ATA ACA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
102189468 AGTAAAAATA
Statistics
Matches: 76, Mismatches: 19, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
2 10 0.13
3 61 0.80
4 5 0.07
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:102189371 original size:11 final size:11
Alignment explanation
Indices: 102189331--102189466 Score: 59
Period size: 11 Copynumber: 11.9 Consensus size: 11
102189321 ATGTGGGTAG
102189331 AATAATAA-AT
1 AATAATAATAT
102189341 AATAAGTAA-AT
1 AATAA-TAATAT
* *
102189352 AAAGGAATATTAT
1 -AA-TAATAATAT
*
102189365 AATAATAACAT
1 AATAATAATAT
102189376 AATAATAATATT
1 AATAATAATA-T
102189388 AATAATCATATTAT
1 AATAAT-A-A-TAT
* * *
102189402 AGTTAGTAATTCT
1 A-ATAATAA-TAT
*
102189415 AATACTAAT-T
1 AATAATAATAT
102189425 AAATAATAATAT
1 -AATAATAATAT
102189437 AA-AA-AATA-
1 AATAATAATAT
*
102189445 AATAATAATAAC
1 AATAATAAT-AT
102189457 AATAATAATA
1 AATAATAATA
102189467 AAGTAAAAAT
Statistics
Matches: 99, Mismatches: 12, Indels: 29
0.71 0.09 0.21
Matches are distributed among these distances:
8 2 0.02
9 6 0.06
10 11 0.11
11 33 0.33
12 28 0.28
13 10 0.10
14 4 0.04
15 5 0.05
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (11 bp):
AATAATAATAT
Found at i:102192814 original size:12 final size:12
Alignment explanation
Indices: 102192797--102192821 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
102192787 ACCCAAAACC
102192797 CTTAGCCCAAAA
1 CTTAGCCCAAAA
102192809 CTTAGCCCAAAA
1 CTTAGCCCAAAA
102192821 C
1 C
102192822 ACTAACCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (12 bp):
CTTAGCCCAAAA
Found at i:102193825 original size:16 final size:15
Alignment explanation
Indices: 102193794--102193836 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
102193784 CCTTCATTCC
*
102193794 ATTATTATTATTACT
1 ATTATTATTTTTACT
102193809 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
102193825 ATCATTATTTTT
1 ATTATTATTTTT
102193837 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:102201502 original size:13 final size:13
Alignment explanation
Indices: 102201486--102201549 Score: 94
Period size: 13 Copynumber: 4.9 Consensus size: 13
102201476 TTTAAACCAA
102201486 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
102201499 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
102201512 ACTTTTTCACAA-C
1 AC-TTTTCAAAAGC
*
102201525 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
102201538 ACTTTTCAAAAG
1 ACTTTTCAAAAG
102201550 TATTGCCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
12 7 0.16
13 30 0.67
14 8 0.18
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:102202004 original size:24 final size:26
Alignment explanation
Indices: 102201977--102202032 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
102201967 AACATTTGGC
*
102201977 ATTTGAACTT-AATATTTTTT-TCTA
1 ATTTGAACTTCAATATTTTTTATCCA
* *
102202001 ATTTGGTACTTCAATTTTTTTTATCCA
1 ATTT-GAACTTCAATATTTTTTATCCA
102202028 ATTTG
1 ATTTG
102202033 GTACTTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 4 0.15
25 5 0.19
26 10 0.38
27 7 0.27
ACGTcount: A:0.25, C:0.11, G:0.07, T:0.57
Consensus pattern (26 bp):
ATTTGAACTTCAATATTTTTTATCCA
Found at i:102202044 original size:27 final size:25
Alignment explanation
Indices: 102201983--102202040 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 25
102201973 TGGCATTTGA
* *
102201983 ACTTAATATTTTTTTCTAATTTGGT
1 ACTTAATTTTTTTTTCCAATTTGGT
102202008 ACTTCAATTTTTTTTATCCAATTTGGT
1 ACTT-AATTTTTTTT-TCCAATTTGGT
102202035 ACTTAA
1 ACTTAA
102202041 ATTTGACACT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 4 0.14
26 11 0.38
27 14 0.48
ACGTcount: A:0.26, C:0.12, G:0.07, T:0.55
Consensus pattern (25 bp):
ACTTAATTTTTTTTTCCAATTTGGT
Found at i:102205495 original size:18 final size:18
Alignment explanation
Indices: 102205468--102205509 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
102205458 CTTTTTTAGG
102205468 AATG-TTTTTG-TCTCAAA
1 AATGCTTTTTGTTC-CAAA
*
102205485 AGTGCTTTTTGTTCCAAA
1 AATGCTTTTTGTTCCAAA
102205503 AATGCTT
1 AATGCTT
102205510 CTTAGAAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 3 0.14
18 16 0.76
19 2 0.10
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.45
Consensus pattern (18 bp):
AATGCTTTTTGTTCCAAA
Found at i:102205919 original size:143 final size:138
Alignment explanation
Indices: 102205578--102205950 Score: 410
Period size: 139 Copynumber: 2.7 Consensus size: 138
102205568 TCCCATCTTT
* * * * * *
102205578 ACCAGGCATATATTCTGCCTCCTCCATATGTGGAATAAGCAACTCGACAACCCCATTTGATCATT
1 ACCAGGCATATATCCTGCTTCTTCCATATGTAGAATAAGCAACTCTACAACCCCATTTGATCATG
* * *
102205643 TTCAGTAAATCACTTCAGTTTCTTAAGCTTCTCTTCTCTTCAAGTCCCACTTTCAAGATCATGTA
66 TTCAGT-AATTACTTCAGTTTCTTCAGCTTCTCTCCTCTTCAAGTCCCACTTTCAAGATCATGTA
**
102205708 TCAATGTAA
130 TCAATCAAA
* * * *
102205717 ACCAGGCATTTACCCTGTTTCTTCCATATGTAGAACAAGCAACT-TAACAACCCCATTTGATCAT
1 ACCAGGCATATATCCTGCTTCTTCCATATGTAGAATAAGCAACTCT-ACAACCCCATTTGATCAT
* * * *
102205781 GTTCAGTACCTTACTTCAGTTTCTTCAGCTTTTCTCCT-TTGAAGTCCTA-TCTTCAAGATCATG
65 GTTCAGTA-ATTACTTCAGTTTCTTCAGCTTCTCTCCTCTTCAAGTCCCACT-TTCAAGATCATG
102205844 TATCAAACAATCAAA
128 TAT----CAATCAAA
* * * *
102205859 ACCAGGCATGTATCCTAGCTTCTTCCATATTTAGAATATGCAACTCTATAACCCCATTTGATCAT
1 ACCAGGCATATATCCT-GCTTCTTCCATATGTAGAATAAGCAACTCTACAACCCCATTTGATCAT
* *
102205924 GTTCAATAATTCACTTCAGTTTTTTCA
65 GTTCAGTAATT-ACTTCAGTTTCTTCA
102205951 AATCCCATCT
Statistics
Matches: 195, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
137 1 0.01
138 25 0.13
139 84 0.43
142 22 0.11
143 62 0.32
144 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (138 bp):
ACCAGGCATATATCCTGCTTCTTCCATATGTAGAATAAGCAACTCTACAACCCCATTTGATCATG
TTCAGTAATTACTTCAGTTTCTTCAGCTTCTCTCCTCTTCAAGTCCCACTTTCAAGATCATGTAT
CAATCAAA
Found at i:102209750 original size:42 final size:42
Alignment explanation
Indices: 102209702--102210033 Score: 405
Period size: 42 Copynumber: 7.7 Consensus size: 42
102209692 AGCCCCACAA
**
102209702 TTAATCCCACCTCAATTAGGATTTATCTTTTTAACATTTCAT
1 TTAATCCCACCTCAATTAGGATTTATCTTTTTAATTTTTCAT
* **
102209744 TTAATCCCAACTCAATTAGGATTTATCTTTTTAACATTTCAT
1 TTAATCCCACCTCAATTAGGATTTATCTTTTTAATTTTTCAT
* *
102209786 TTAATCCCAACTCAATTAGGATTTATCTTTTTTAGCTTTTT-AT
1 TTAATCCCACCTCAATTAGGATTTATC-TTTTTA-ATTTTTCAT
* *
102209829 TTAATCCCAACTTAATTAGGATTTAAGCTTATCTTTTTAATTTTTCAT
1 TTAATCCCACCTCAATTAGGA--T----TTATCTTTTTAATTTTTCAT
* * * *
102209877 TTAATCTCACCTCAATTAAGATTTATCTTTTTAGTTTTTTAT
1 TTAATCCCACCTCAATTAGGATTTATCTTTTTAATTTTTCAT
* *
102209919 TTAATCACACCTCAATTAGGATTTATCTTTTTATTTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATCTTTTTAATTTTTCAT
* * *
102209961 TTAATCTCACCTCAATTAGGATTCATTTTTTTAATTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATCTTTTTAATTTTTCAT
* *
102210003 TTAATCTCACCTCAATTAGGATTTATGTTTT
1 TTAATCCCACCTCAATTAGGATTTATCTTTT
102210034 CAGGAGGATT
Statistics
Matches: 259, Mismatches: 22, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
42 191 0.74
43 28 0.11
44 3 0.01
45 1 0.00
46 1 0.00
47 5 0.02
48 25 0.10
49 5 0.02
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (42 bp):
TTAATCCCACCTCAATTAGGATTTATCTTTTTAATTTTTCAT
Found at i:102209934 original size:133 final size:128
Alignment explanation
Indices: 102209702--102210033 Score: 413
Period size: 133 Copynumber: 2.6 Consensus size: 128
102209692 AGCCCCACAA
* ** * *
102209702 TTAATCCCACCTCAATTAGGA-T-TTATCTTTTTAACATTTCATTTAATCCCAACTCAATTAGGA
1 TTAATCCCAACTCAATTAGGATTCTTATCTTTTTAATTTTTCATTTAATCTCACCTCAATTAGGA
*
102209765 TTTATCTTTTTAACATTTCATTTAATCCCAACTCAATTAGGATTTATCTTTTTTAGCTTTTT-AT
66 TTTATCTTTTTAACATTTCATTTAATCACAACTCAATTAGGATTTATC-TTTTTA-CTTTTTCAT
*
102209829 TTAATCCCAACTTAATTAGGATTTAAGCTTATCTTTTTAATTTTTCATTTAATCTCACCTCAATT
1 TTAATCCCAACTCAATTAGGA-TT---CTTATCTTTTTAATTTTTCATTTAATCTCACCTCAATT
* *** * * *
102209894 AAGATTTATCTTTTTAGTTTTTTATTTAATCACACCTCAATTAGGATTTATCTTTTTATTTTTTC
62 AGGATTTATCTTTTTAACATTTCATTTAATCACAACTCAATTAGGATTTATCTTTTTACTTTTTC
102209959 AT
127 AT
* * *
102209961 TTAATCTCACCTCAATTAGGATTC--ATTTTTTTAATTTTTCATTTAATCTCACCTCAATTAGGA
1 TTAATCCCAACTCAATTAGGATTCTTATCTTTTTAATTTTTCATTTAATCTCACCTCAATTAGGA
*
102210024 TTTATGTTTT
66 TTTATCTTTT
102210034 CAGGAGGATT
Statistics
Matches: 178, Mismatches: 20, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
126 46 0.26
127 19 0.11
128 1 0.01
129 1 0.01
131 7 0.04
132 26 0.15
133 78 0.44
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (128 bp):
TTAATCCCAACTCAATTAGGATTCTTATCTTTTTAATTTTTCATTTAATCTCACCTCAATTAGGA
TTTATCTTTTTAACATTTCATTTAATCACAACTCAATTAGGATTTATCTTTTTACTTTTTCAT
Found at i:102215382 original size:14 final size:14
Alignment explanation
Indices: 102215363--102215398 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
102215353 TTGTTTCACT
102215363 AAAAATAATTT-TCG
1 AAAAATAATTTCT-G
102215377 AAAAATAATTTCTG
1 AAAAATAATTTCTG
102215391 AAAAATAA
1 AAAAATAA
102215399 CTTACCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 20 0.95
15 1 0.05
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (14 bp):
AAAAATAATTTCTG
Found at i:102215762 original size:38 final size:39
Alignment explanation
Indices: 102215686--102215763 Score: 99
Period size: 38 Copynumber: 2.0 Consensus size: 39
102215676 TAAAATTAAA
*
102215686 ATATTAAATAATTTATTAAAATGATAAATTATATTAATT
1 ATATTAAATAATTTATTAAAATGATAAATTATAATAATT
*
102215725 ATATT-AATAATTTATT-ATATGACTAAA-TATAAATAATT
1 ATATTAAATAATTTATTAAAATGA-TAAATTAT-AATAATT
102215763 A
1 A
102215764 AAAATGTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
37 8 0.23
38 22 0.63
39 5 0.14
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (39 bp):
ATATTAAATAATTTATTAAAATGATAAATTATAATAATT
Found at i:102215839 original size:12 final size:12
Alignment explanation
Indices: 102215822--102215846 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
102215812 TAATTATTTT
102215822 TAAAAATAATAA
1 TAAAAATAATAA
102215834 TAAAAATAATAA
1 TAAAAATAATAA
102215846 T
1 T
102215847 TTATTAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TAAAAATAATAA
Found at i:102226143 original size:6 final size:6
Alignment explanation
Indices: 102226132--102226198 Score: 125
Period size: 6 Copynumber: 11.2 Consensus size: 6
102226122 TAAGCACTTG
*
102226132 CATATA CATATA CATATG CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
102226180 CATATA CATATA CATATA C
1 CATATA CATATA CATATA C
102226199 TAAAAAAGAT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.33
Consensus pattern (6 bp):
CATATA
Found at i:102227433 original size:17 final size:17
Alignment explanation
Indices: 102227411--102227443 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
102227401 TGGGAAATAA
*
102227411 AAAATTTTCGTATTTTT
1 AAAATTTTCGAATTTTT
102227428 AAAATTTTCGAATTTT
1 AAAATTTTCGAATTTT
102227444 ATTTTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (17 bp):
AAAATTTTCGAATTTTT
Found at i:102228141 original size:152 final size:151
Alignment explanation
Indices: 102227613--102228269 Score: 1047
Period size: 150 Copynumber: 4.4 Consensus size: 151
102227603 AAATATATTA
*
102227613 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTATATTAATTTA
1 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTA
*
102227678 GTAAATAACC-TGATTTTGGCCCTTTCTTTGTATTTTAAAAATTTTCGGATTTTATTTTTAAAAA
66 GTAAATAACCTTGATTTTGGCCCTTTCTTTGTATTTTTAAAATTTTCGGATTTTATTTTTAAAAA
* *
102227742 TACACTATTTTCGTATTTTAT
131 TATACTATTTTCTTATTTTAT
* *
102227763 TTTTTATATTATTTTAGTACATAATGTTTTAAATATATTATTTTAGTGTTTTTTATATTAATTTA
1 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTA
* *
102227828 GTAAATAACCCTGATTTTAGCCCTTTCTTTGTATTTTTAAAATTTTCGGATTTTATTTTTAAAAA
66 GTAAATAACCTTGATTTTGGCCCTTTCTTTGTATTTTTAAAATTTTCGGATTTTATTTTTAAAAA
102227893 TATACTATTTTCTTATTTTA-
131 TATACTATTTTCTTATTTTAT
* * *
102227913 TTTTTATATTATTTTAGAACATAATGTTTCAAATATATTATTTTAATGTTTTTTATATTAATTTA
1 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTA
* *
102227978 GTAAATAACCTTGATTTTGGCCATTTCTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAA
66 GTAAATAACCTTGATTTTGGCCCTTTCTTTGTATTTTTAAAATTTTCGGATTTTATTTTTAAAAA
*
102228043 TATACTATTTTTTTATTTTATT
131 TATACTATTTTCTTATTTTA-T
*
102228065 TTTTTATATTGTTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTA
1 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTA
* * * * *
102228130 ATAAATAACCTTGATTTTGGCCCTTTGTTTGTATTTTTAATATTTTCAGATTTTATTTTTTAAAA
66 GTAAATAACCTTGATTTTGGCCCTTTCTTTGTATTTTTAAAATTTTCGGATTTTATTTTTAAAAA
* *
102228195 TATACTATTTTCGTA----GT
131 TATACTATTTTCTTATTTTAT
*
102228212 TTTTTATATTATTTTAGAACATAATGTTTCAAATGTATTATTTTAGTGTTTTTATATA
1 TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTT-TATA
102228270 AAAAACCTAA
Statistics
Matches: 474, Mismatches: 29, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
147 52 0.11
148 4 0.01
150 214 0.45
151 70 0.15
152 134 0.28
ACGTcount: A:0.29, C:0.07, G:0.08, T:0.56
Consensus pattern (151 bp):
TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTA
GTAAATAACCTTGATTTTGGCCCTTTCTTTGTATTTTTAAAATTTTCGGATTTTATTTTTAAAAA
TATACTATTTTCTTATTTTAT
Found at i:102228155 original size:302 final size:298
Alignment explanation
Indices: 102227420--102228269 Score: 1217
Period size: 302 Copynumber: 2.9 Consensus size: 298
102227410 AAAAATTTTC
* * * * * *
102227420 GTATTTTTAAAATTTTCGAATTTTATTTTTTAATATATACTATTTTCATATTTTATTTTTT-TAT
1 GTATTTTAAAAATTTTCGGATTTTATTTTTAAAAATACACTATTTTCGTATTTTATTTTTTATAT
* *
102227484 TATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTTATATTAATTTAGTAAATAA
66 TATTTTAGTACATAATGTTTCAAATATATTATTTTAGT-GTTTTTTATATTAATTTAATAAATAA
* * * *
102227549 CCCTGATTTT-GACCATTTCTTTGTATTTTCAAAATTTT-TGAATTTTA-TTTT-CAAA-A-A-T
130 CCCTGATTTTAG-CCCTTTCTTTGTATTTTTAAAATTTTCAG-ATTTTATTTTTAAAAATATACT
* *
102227607 A------TATTATTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTT
193 ATTTTCGTATTATTTTTATATTATTTTAGAACATAATGTTTCAAATGTATTATTTTAGTGTTTTT
*
102227666 TATATTAATTTAGTAAATAACCTGATTTTGGCCCTTTCTTT
258 TATATTAATTTAGTAAATAACCTGATTTTGGCCATTTCTTT
102227707 GTATTTTAAAAATTTTCGGATTTTATTTTTAAAAATACACTATTTTCGTATTTTATTTTTTATAT
1 GTATTTTAAAAATTTTCGGATTTTATTTTTAAAAATACACTATTTTCGTATTTTATTTTTTATAT
* *
102227772 TATTTTAGTACATAATGTTTTAAATATATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAAC
66 TATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAATAAATAAC
*
102227837 CCTGATTTTAGCCCTTTCTTTGTATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATT
131 CCTGATTTTAGCCCTTTCTTTGTATTTTTAAAATTTTCAGATTTTATTTTTAAAAATATACTATT
* * *
102227902 TTCTTATTTTATTTTTATATTATTTTAGAACATAATGTTTCAAATATATTATTTTAATGTTTTTT
196 TTCGTA--TTATTTTTATATTATTTTAGAACATAATGTTTCAAATGTATTATTTTAGTGTTTTTT
102227967 ATATTAATTTAGTAAATAACCTTGATTTTGGCCATTTCTTT
259 ATATTAATTTAGTAAATAACC-TGATTTTGGCCATTTCTTT
* * * **
102228008 GTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTTTTTATTTTATTTTTTTATA
1 GTATTTTAAAAATTTTCGGATTTTATTTTTAAAAATACACTATTTTCGTATTTTA-TTTTTTATA
* *
102228073 TTGTTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAATAAATAA
65 TTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAATAAATAA
* * * * *
102228138 CCTTGATTTTGGCCCTTTGTTTGTATTTTTAATATTTTCAGATTTTATTTTTTAAAATATACTAT
130 CCCTGATTTTAGCCCTTTCTTTGTATTTTTAAAATTTTCAGATTTTATTTTTAAAAATATACTAT
*
102228203 TTTCGTAGT-TTTTTATATTATTTTAGAACATAATGTTTCAAATGTATTATTTTAGTGTTTTTAT
195 TTTCGTATTATTTTTATATTATTTTAGAACATAATGTTTCAAATGTATTATTTTAGTGTTTTT-T
102228267 ATA
259 ATA
102228270 AAAAACCTAA
Statistics
Matches: 508, Mismatches: 36, Indels: 25
0.89 0.06 0.04
Matches are distributed among these distances:
287 120 0.24
288 46 0.09
289 3 0.01
290 1 0.00
291 1 0.00
292 2 0.00
298 2 0.00
299 51 0.10
300 79 0.16
301 68 0.13
302 135 0.27
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (298 bp):
GTATTTTAAAAATTTTCGGATTTTATTTTTAAAAATACACTATTTTCGTATTTTATTTTTTATAT
TATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAATAAATAAC
CCTGATTTTAGCCCTTTCTTTGTATTTTTAAAATTTTCAGATTTTATTTTTAAAAATATACTATT
TTCGTATTATTTTTATATTATTTTAGAACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAT
ATTAATTTAGTAAATAACCTGATTTTGGCCATTTCTTT
Found at i:102228465 original size:27 final size:27
Alignment explanation
Indices: 102228397--102228467 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
102228387 AGTATAGAAA
* * * *
102228397 AACCGGTGTCGCCTATGCCAGAGGTAC
1 AACCGGTGCCGCCTCTACCAGAGGCAC
102228424 AACCGGTGCCGCCTCTACCAGAGGCAC
1 AACCGGTGCCGCCTCTACCAGAGGCAC
*
102228451 AACCGGTGCCTCCTCTA
1 AACCGGTGCCGCCTCTA
102228468 GGACCCACAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.21, C:0.37, G:0.25, T:0.17
Consensus pattern (27 bp):
AACCGGTGCCGCCTCTACCAGAGGCAC
Found at i:102235834 original size:12 final size:12
Alignment explanation
Indices: 102235819--102235843 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
102235809 TTAATGATTT
102235819 TTGTGATTATTA
1 TTGTGATTATTA
102235831 TTGTGATTATTA
1 TTGTGATTATTA
102235843 T
1 T
102235844 AGTTATAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (12 bp):
TTGTGATTATTA
Found at i:102238045 original size:12 final size:12
Alignment explanation
Indices: 102238028--102238052 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
102238018 AAGTATATCA
102238028 GCTTTAGTTTTT
1 GCTTTAGTTTTT
102238040 GCTTTAGTTTTT
1 GCTTTAGTTTTT
102238052 G
1 G
102238053 AGGTATAGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.20, T:0.64
Consensus pattern (12 bp):
GCTTTAGTTTTT
Found at i:102239081 original size:22 final size:24
Alignment explanation
Indices: 102239020--102239088 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 24
102239010 CTCGACTTTC
102239020 ATTTTCATATGCTTATCAAATATA
1 ATTTTCATATGCTTATCAAATATA
* *
102239044 AGTATT-ATAT--TAATCAAAT-T-
1 A-TTTTCATATGCTTATCAAATATA
102239064 ATTTTCATATGCTTATCAAATATA
1 ATTTTCATATGCTTATCAAATATA
102239088 A
1 A
102239089 GTATACTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
19 3 0.09
20 5 0.14
21 1 0.03
22 16 0.46
23 1 0.03
24 6 0.17
25 3 0.09
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (24 bp):
ATTTTCATATGCTTATCAAATATA
Found at i:102239441 original size:21 final size:21
Alignment explanation
Indices: 102239417--102239462 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
102239407 TACAATCGTA
102239417 TTAATATTTA-ATTATAAATAT
1 TTAATATTTATATT-TAAATAT
*
102239438 TTAATTTTTATATTTAAATAT
1 TTAATATTTATATTTAAATAT
102239459 TTAA
1 TTAA
102239463 AAATAGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTAATATTTATATTTAAATAT
Found at i:102239739 original size:13 final size:13
Alignment explanation
Indices: 102239721--102239745 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
102239711 ACACTCAAAT
102239721 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
102239734 TTCTCAAAAGCA
1 TTCTCAAAAGCA
102239746 ATGAAAAACT
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:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:102244487 original size:16 final size:17
Alignment explanation
Indices: 102244466--102244511 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
102244456 CGTAAAAAGT
102244466 TAAAATAATTTAAAT-A
1 TAAAATAATTTAAATCA
* *
102244482 TAAAATAATTAAAATCT
1 TAAAATAATTTAAATCA
*
102244499 TAAAATGATTTAA
1 TAAAATAATTTAA
102244512 TTATGAATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
TAAAATAATTTAAATCA
Found at i:102244544 original size:40 final size:40
Alignment explanation
Indices: 102244500--102244586 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
102244490 TTAAAATCTT
* *
102244500 AAAATGATTTAATTATGAATTGATATGAACATATAACAAA
1 AAAATCATTTAATTATAAATTGATATGAACATATAACAAA
* * *
102244540 AAAATCCTTTAATTATAAATTGATTTGAACATGTAACCAAA
1 AAAATCATTTAATTATAAATTGATATGAACATATAA-CAAA
*
102244581 ATAATC
1 AAAATC
102244587 CAAATTTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 31 0.77
41 9 0.22
ACGTcount: A:0.49, C:0.09, G:0.08, T:0.33
Consensus pattern (40 bp):
AAAATCATTTAATTATAAATTGATATGAACATATAACAAA
Found at i:102248576 original size:16 final size:16
Alignment explanation
Indices: 102248555--102248587 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
102248545 TAACTATAGT
102248555 ATTATCCAAGTGCATA
1 ATTATCCAAGTGCATA
102248571 ATTATCCAAGTGCATA
1 ATTATCCAAGTGCATA
102248587 A
1 A
102248588 CTAGTATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (16 bp):
ATTATCCAAGTGCATA
Found at i:102249584 original size:19 final size:19
Alignment explanation
Indices: 102249560--102249598 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
102249550 CTTAAAACAT
102249560 AATAA-TTTCAATATCCAAC
1 AATAATTTTCAATAT-CAAC
102249579 AATAATTTTCAATATCAAC
1 AATAATTTTCAATATCAAC
102249598 A
1 A
102249599 TCCAACCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAATTTTCAATATCAAC
Found at i:102253321 original size:35 final size:35
Alignment explanation
Indices: 102253282--102253348 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
102253272 GTATGTTTTG
102253282 AAATGACCAAAATTGGTAT-G-TGTTAATGTATCTTT
1 AAATGACCAAAA-TGGTATGGTTGTT-ATGTATCTTT
*
102253317 AAATGGCCAAAATGGTATGGTTGTTATGTATC
1 AAATGACCAAAATGGTATGGTTGTTATGTATC
102253349 AATTATGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 6 0.21
35 19 0.66
36 4 0.14
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (35 bp):
AAATGACCAAAATGGTATGGTTGTTATGTATCTTT
Found at i:102255187 original size:46 final size:46
Alignment explanation
Indices: 102255119--102255209 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
102255109 TATATATACA
* *
102255119 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
* *
102255165 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATAT
102255210 ATACACTTCC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:102255252 original size:22 final size:22
Alignment explanation
Indices: 102255226--102255301 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
102255216 TTCCACGTTC
102255226 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
102255248 ATCACATATATG-CATGT-T-CACATTT
1 ATCACAT-T-GGCCAT-TCTGC-C--TT
*
102255273 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
102255295 ATCACAT
1 ATCACAT
102255302 ATGTGCATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 17 0.40
23 8 0.19
24 7 0.17
25 10 0.24
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.36
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:102255257 original size:47 final size:47
Alignment explanation
Indices: 102255183--102255423 Score: 340
Period size: 47 Copynumber: 5.1 Consensus size: 47
102255173 ACACATTTCG
* * * * * *
102255183 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
* *
102255230 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
102255277 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
102255324 CATCGGCCATTCGGCCTTATCACACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CACATATATGCATGTTCACATTCATCA
*
102255373 CATTGGCCATTCGGCCTTATCACAAATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
102255420 CATT
1 CATT
102255424 TGCCTTGGCT
Statistics
Matches: 176, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
46 1 0.01
47 129 0.73
49 46 0.26
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:102255388 original size:96 final size:94
Alignment explanation
Indices: 102255183--102255422 Score: 338
Period size: 96 Copynumber: 2.5 Consensus size: 94
102255173 ACACATTTCG
* * * * * * * *
102255183 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCACATTGGCCATTCTGCCT
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCACATCGGCCATTCGGCCT
*
102255247 TATCACATATATGCATGTTCACATTTATCA
65 TATCACATATATGCATGTTCACATTCATCA
*
102255277 CATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCACATCGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATCGGCCATTCGGCCTT
*
102255342 ATCACACATATGTGCATGTTCACATTCATCA
66 AT--CACATATATGCATGTTCACATTCATCA
*
102255373 CATTGGCCATTCGGCCTTATCACAAATATGCATGTTCACATTCATCACAT
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
102255423 TTGCCTTGGC
Statistics
Matches: 130, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
93 1 0.01
94 56 0.43
96 73 0.56
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (94 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATCGGCCATTCGGCCTT
ATCACATATATGCATGTTCACATTCATCA
Found at i:102261669 original size:10 final size:10
Alignment explanation
Indices: 102261652--102261691 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
102261642 TAATTTTAAG
102261652 ATTTATCTTT
1 ATTTATCTTT
*
102261662 AATTATCTTT
1 ATTTATCTTT
102261672 ATTTAT-TTGT
1 ATTTATCTT-T
102261682 ATTTATCTTT
1 ATTTATCTTT
102261692 TGGAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 2 0.08
10 22 0.85
11 2 0.08
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:102263570 original size:21 final size:21
Alignment explanation
Indices: 102263523--102263571 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
102263513 AAAAAAAAGA
102263523 TTAGTAATTGATCTAAATTAT
1 TTAGTAATTGATCTAAATTAT
102263544 TT-GTAATT-ATTCTAAAATT-T
1 TTAGTAATTGA-TCT-AAATTAT
102263564 TTAGTAAT
1 TTAGTAAT
102263572 GTTTCGTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 1 0.04
20 12 0.48
21 12 0.48
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (21 bp):
TTAGTAATTGATCTAAATTAT
Found at i:102271064 original size:21 final size:21
Alignment explanation
Indices: 102271017--102271065 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
102271007 AAAAAAATGA
102271017 TTAGTAATTTATCTAAATTAT
1 TTAGTAATTTATCTAAATTAT
102271038 TT-GTAATTGT-TCTGAAATT-T
1 TTAGTAATT-TATCT-AAATTAT
102271058 TTAGTAAT
1 TTAGTAAT
102271066 GCTCCGTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.53
Consensus pattern (21 bp):
TTAGTAATTTATCTAAATTAT
Found at i:102275192 original size:25 final size:25
Alignment explanation
Indices: 102275156--102275225 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
102275146 AGGCCCATTT
102275156 TTCACAGCTTGTGTGAGCATTCTGA
1 TTCACAGCTTGTGTGAGCATTCTGA
* *
102275181 TTCATAGTTTGTGTGAGCATTCTGA
1 TTCACAGCTTGTGTGAGCATTCTGA
*
102275206 TTCACAGCTCGTGTGAGCAT
1 TTCACAGCTTGTGTGAGCAT
102275226 ACATGTACAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (25 bp):
TTCACAGCTTGTGTGAGCATTCTGA
Found at i:102297756 original size:23 final size:23
Alignment explanation
Indices: 102297730--102297775 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
102297720 ACCAAAGTTA
102297730 GTCATTCTTTTTATGTTCTCGAG
1 GTCATTCTTTTTATGTTCTCGAG
102297753 GTCATTCTTTTTATGTTCTCGAG
1 GTCATTCTTTTTATGTTCTCGAG
102297776 ATTGACATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.17, G:0.17, T:0.52
Consensus pattern (23 bp):
GTCATTCTTTTTATGTTCTCGAG
Found at i:102302250 original size:4 final size:4
Alignment explanation
Indices: 102302243--102302286 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
102302233 GCTATATATA
102302243 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
102302287 CATATTGACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:102306800 original size:40 final size:41
Alignment explanation
Indices: 102306723--102306804 Score: 130
Period size: 40 Copynumber: 2.0 Consensus size: 41
102306713 TTAGCCCGTC
* *
102306723 AGCCAAATATACACATATATATATTTAATGAATGCTCAATTT
1 AGCCAAATATACACA-ATACACATTTAATGAATGCTCAATTT
102306765 AGCCAAATATACAC-ATACACATTTAATGAATGCTCAATTT
1 AGCCAAATATACACAATACACATTTAATGAATGCTCAATTT
102306805 GCAAGCATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 24 0.63
42 14 0.37
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (41 bp):
AGCCAAATATACACAATACACATTTAATGAATGCTCAATTT
Found at i:102311921 original size:15 final size:15
Alignment explanation
Indices: 102311901--102311938 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
102311891 TAAGACTTCA
102311901 AATTTAAACCAA-AAT
1 AATTTAAA-CAATAAT
102311916 AATTTAAA-AATAAT
1 AATTTAAACAATAAT
102311930 AATTTAAAC
1 AATTTAAAC
102311939 TGTCACATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 8 0.38
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.32
Consensus pattern (15 bp):
AATTTAAACAATAAT
Found at i:102320519 original size:20 final size:20
Alignment explanation
Indices: 102320491--102320540 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
102320481 AAATATAACT
*
102320491 TTTAA-TATTATGT-AATTAC
1 TTTAATTATTATATGAATT-C
102320510 TTTAATTATTATATGAATTC
1 TTTAATTATTATATGAATTC
*
102320530 TTTTATTATTA
1 TTTAATTATTA
102320541 AGATATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 5 0.19
20 18 0.67
21 4 0.15
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTAATTATTATATGAATTC
Found at i:102321115 original size:3 final size:3
Alignment explanation
Indices: 102321109--102321133 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
102321099 TTAATTCTTC
102321109 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
102321134 GTTGTTGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:102332865 original size:54 final size:54
Alignment explanation
Indices: 102332774--102332880 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
102332764 TTGTATGACC
* * * *
102332774 CAAGTCAGTGAGTTATACGGGCTGAGACACAGGCTGGGACACGGTCGTGTGTCT
1 CAAGTCAGTGAGTTACACGGGCAGAGACACAGGCTGGGACACGGCCATGTGTCT
* *
102332828 CAAGTCAGTGAGTTACACGGGCA-AGGATAC-GGACTGGGTCACGGCCATGTGTC
1 CAAGTCAGTGAGTTACACGGGCAGA-GACACAGG-CTGGGACACGGCCATGTGTC
102332881 CCCTATTTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 3 0.07
54 42 0.93
ACGTcount: A:0.23, C:0.21, G:0.35, T:0.21
Consensus pattern (54 bp):
CAAGTCAGTGAGTTACACGGGCAGAGACACAGGCTGGGACACGGCCATGTGTCT
Found at i:102333099 original size:15 final size:15
Alignment explanation
Indices: 102333079--102333114 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
102333069 ATCGAAAGTA
102333079 GAAGTAGTAGTAGTC
1 GAAGTAGTAGTAGTC
102333094 GAAGTAGTAGTAGTC
1 GAAGTAGTAGTAGTC
102333109 GAAGTA
1 GAAGTA
102333115 TGGTTCAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.25
Consensus pattern (15 bp):
GAAGTAGTAGTAGTC
Found at i:102333995 original size:18 final size:19
Alignment explanation
Indices: 102333974--102334010 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
102333964 TTTTTTAAAA
102333974 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
*
102333992 TATAAATATTTTGAATTTT
1 TATAAATATTTAGAATTTT
102334011 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:102334050 original size:20 final size:20
Alignment explanation
Indices: 102333965--102334050 Score: 86
Period size: 20 Copynumber: 4.2 Consensus size: 20
102333955 TTTAGAATTT
*
102333965 TTTTTAAAATATAAATTTTAGAA
1 TTTTTAAAA-AT-TATTTT-GAA
*
102333988 TTTTTATAAA-TATTTTGAA
1 TTTTTAAAAATTATTTTGAA
*
102334007 -TTTTAAAAATTATTTTCAA
1 TTTTTAAAAATTATTTTGAA
* *
102334026 ATTTTAAAAATTACTTTGAA
1 TTTTTAAAAATTATTTTGAA
102334046 TTTTT
1 TTTTT
102334051 TTTTTTGTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
18 8 0.15
19 11 0.20
20 26 0.48
22 1 0.02
23 8 0.15
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAA
Found at i:102341889 original size:6 final size:6
Alignment explanation
Indices: 102341878--102341921 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
102341868 GAAACCAGAA
* * *
102341878 CCGGAG CTGGAG CCGGAG CCGGAG CCGGAT CCGGAG CTGGAG CC
1 CCGGAG CCGGAG CCGGAG CCGGAG CCGGAG CCGGAG CCGGAG CC
102341922 ACTGCTTCAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.16, C:0.32, G:0.45, T:0.07
Consensus pattern (6 bp):
CCGGAG
Found at i:102343065 original size:11 final size:10
Alignment explanation
Indices: 102343018--102343065 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
102343008 AAAAAATTAG
*
102343018 GGAAAAAAGA
1 GGAAAGAAGA
102343028 GGGAAAGAAGA
1 -GGAAAGAAGA
*
102343039 GGAAAGATGA
1 GGAAAGAAGA
102343049 -GAAAGAAGAA
1 GGAAAGAAG-A
102343059 GGAAAGA
1 GGAAAGA
102343066 TATGCAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 7 0.22
10 10 0.31
11 15 0.47
ACGTcount: A:0.60, C:0.00, G:0.38, T:0.02
Consensus pattern (10 bp):
GGAAAGAAGA
Found at i:102343519 original size:18 final size:17
Alignment explanation
Indices: 102343492--102343526 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
102343482 ACAACTTTAT
102343492 TTAATAATTAATTAAAA
1 TTAATAATTAATTAAAA
102343509 TTAATTAATTAATTAAAA
1 TTAA-TAATTAATTAAAA
102343527 ATTTTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATAATTAATTAAAA
Found at i:102349628 original size:21 final size:18
Alignment explanation
Indices: 102349586--102349631 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 18
102349576 TAAGATTTTG
*
102349586 AGTTTGAGTTCAAGTTAA
1 AGTTTGAGTTAAAGTTAA
102349604 AGTTTGAGGTTAAAGGTTAAA
1 AGTTTGA-GTTAAA-GTT-AA
102349625 AGTTTGA
1 AGTTTGA
102349632 AGTTTAGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 7 0.29
19 5 0.21
20 3 0.12
21 9 0.38
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (18 bp):
AGTTTGAGTTAAAGTTAA
Found at i:102350379 original size:18 final size:17
Alignment explanation
Indices: 102350356--102350394 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
102350346 AAACCTTGTT
102350356 TTTTAAAGCTTATATATA
1 TTTTAAAGCTTATAT-TA
**
102350374 TTTTAAATTTTATATTA
1 TTTTAAAGCTTATATTA
102350391 TTTT
1 TTTT
102350395 GACTTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTAAAGCTTATATTA
Found at i:102351325 original size:34 final size:34
Alignment explanation
Indices: 102351265--102351344 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 34
102351255 TGGCTCTTCG
* *
102351265 AAATATAAGATTATATTTCGTAATAAGATTACCT
1 AAATATAAGATTATATGTCGAAATAAGATTACCT
* *
102351299 AAATATAAGATTATA-GTGGAATATAAGATTATCT
1 AAATATAAGATTATATGTCGAA-ATAAGATTACCT
* *
102351333 CAATGTAAGATT
1 AAATATAAGATT
102351345 CATGTGTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 3 0.08
34 36 0.92
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.36
Consensus pattern (34 bp):
AAATATAAGATTATATGTCGAAATAAGATTACCT
Found at i:102362910 original size:63 final size:61
Alignment explanation
Indices: 102362753--102362945 Score: 197
Period size: 63 Copynumber: 3.1 Consensus size: 61
102362743 ACGGTGCTTC
* * *
102362753 CTTCCTCCACGAGAAGCGGTCCGGTACTCGAATCCTTAGCTTTGGCTTCAGTATGCTCAGGTT
1 CTTCCTCCACGAGAAGC-GTTCGGTACTCAAATCC-TAGCTTTGGCTTCAGTATGATCAGGTT
* * * * * * *
102362816 CTTCCTCCGCAACAAGCATTCTGGTACTCAAATCCTCACCTTTGGCTTCAGTAGGATCAGGTA
1 CTTCCTCCACGAGAAGCGTTC-GGTACTCAAATCCT-AGCTTTGGCTTCAGTATGATCAGGTT
* * * * *
102362879 CTTCCTCCATGGGAAGCTGTTCGGTAGTCAAATCCATAGCTTTGGGTTCACTATGATCAGGTT
1 CTTCCTCCACGAGAAGC-GTTCGGTACTCAAATCC-TAGCTTTGGCTTCAGTATGATCAGGTT
102362942 CTTC
1 CTTC
102362946 TGTCTTGTAT
Statistics
Matches: 104, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
62 3 0.03
63 97 0.93
64 4 0.04
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.31
Consensus pattern (61 bp):
CTTCCTCCACGAGAAGCGTTCGGTACTCAAATCCTAGCTTTGGCTTCAGTATGATCAGGTT
Found at i:102369929 original size:16 final size:16
Alignment explanation
Indices: 102369890--102369929 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
102369880 AATAGAGTTG
*
102369890 TCGATTGAGTCTTAAT
1 TCGATTGGGTCTTAAT
102369906 TCGATTGGGTCTTAAT
1 TCGATTGGGTCTTAAT
102369922 TCGATTGG
1 TCGATTGG
102369930 TATCGGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.20, C:0.12, G:0.25, T:0.42
Consensus pattern (16 bp):
TCGATTGGGTCTTAAT
Found at i:102382399 original size:9 final size:9
Alignment explanation
Indices: 102382385--102382409 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
102382375 TGGGTTGAGG
102382385 ATGAATTAC
1 ATGAATTAC
102382394 ATGAATTAC
1 ATGAATTAC
102382403 ATGAATT
1 ATGAATT
102382410 TCCATTTTTA
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:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (9 bp):
ATGAATTAC
Found at i:102388183 original size:31 final size:31
Alignment explanation
Indices: 102388141--102388201 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
102388131 ATGGTCATTG
102388141 AACTATCCAAAAGTTTTCATTGAAGTCACTA
1 AACTATCCAAAAGTTTTCATTGAAGTCACTA
* * *
102388172 AACTATTCAAAAGTTTTTATTTAAGTCACT
1 AACTATCCAAAAGTTTTCATTGAAGTCACT
102388202 GGGTTGTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (31 bp):
AACTATCCAAAAGTTTTCATTGAAGTCACTA
Found at i:102392958 original size:18 final size:17
Alignment explanation
Indices: 102392935--102392974 Score: 71
Period size: 18 Copynumber: 2.3 Consensus size: 17
102392925 TTATGGCAAA
102392935 TTTTCTAGCAGGGATCG
1 TTTTCTAGCAGGGATCG
102392952 CTTTTCTAGCAGGGATCG
1 -TTTTCTAGCAGGGATCG
102392970 TTTTC
1 TTTTC
102392975 CACGAGGCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.15, C:0.20, G:0.25, T:0.40
Consensus pattern (17 bp):
TTTTCTAGCAGGGATCG
Found at i:102399776 original size:6 final size:6
Alignment explanation
Indices: 102399767--102399799 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
102399757 TCATGATGAT
*
102399767 TATCTC TATCTC TATCTT TATCTC TATCTC TAT
1 TATCTC TATCTC TATCTC TATCTC TATCTC TAT
102399800 ACCTATCGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.18, C:0.27, G:0.00, T:0.55
Consensus pattern (6 bp):
TATCTC
Found at i:102403408 original size:23 final size:23
Alignment explanation
Indices: 102403366--102403409 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
102403356 CTTGTATCAG
*
102403366 TTTAGTTTAAATTCATTTTATCT
1 TTTAGTTTAAATTCACTTTATCT
*
102403389 TTTAGTTTAAATTTACTTTAT
1 TTTAGTTTAAATTCACTTTAT
102403410 TTTATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTAGTTTAAATTCACTTTATCT
Found at i:102403413 original size:16 final size:15
Alignment explanation
Indices: 102403389--102403459 Score: 58
Period size: 16 Copynumber: 4.7 Consensus size: 15
102403379 CATTTTATCT
*
102403389 TTTAGTTTAAATTTA
1 TTTATTTTAAATTTA
*
102403404 CTTTATTTTATATTTA
1 -TTTATTTTAAATTTA
* *
102403420 -AT-TTTTAAATTTG
1 TTTATTTTAAATTTA
102403433 TGTTA-TTTAAATTTTA
1 T-TTATTTTAAA-TTTA
102403449 TTTATTTTAAA
1 TTTATTTTAAA
102403460 AACCTATAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
13 9 0.21
14 1 0.02
15 10 0.23
16 23 0.53
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (15 bp):
TTTATTTTAAATTTA
Found at i:102403609 original size:19 final size:19
Alignment explanation
Indices: 102403569--102403605 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
102403559 AATTAGCTAT
*
102403569 TAATTAATTTAATATAATA
1 TAATTAATTTAAAATAATA
102403588 TAATTAA-TTAAAATAATA
1 TAATTAATTTAAAATAATA
102403606 ATAAAATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAATTAATTTAAAATAATA
Found at i:102408909 original size:33 final size:33
Alignment explanation
Indices: 102408839--102408924 Score: 86
Period size: 33 Copynumber: 2.6 Consensus size: 33
102408829 CTGGATGAGT
* * * *
102408839 GGAGTACGGCGGTGGATATGGGTCAGGAGTAGT
1 GGAGTATGGAGGTGGATATGGGTCAGGAGGAGC
* *
102408872 GGAGTATGGTGGTGGATATGGG-CCGGAAGGAGC
1 GGAGTATGGAGGTGGATATGGGTCAGG-AGGAGC
102408905 GGAGTACT-GAGGTGGATATG
1 GGAGTA-TGGAGGTGGATATG
102408925 AGCAGGGATG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
32 3 0.07
33 41 0.91
34 1 0.02
ACGTcount: A:0.22, C:0.08, G:0.49, T:0.21
Consensus pattern (33 bp):
GGAGTATGGAGGTGGATATGGGTCAGGAGGAGC
Found at i:102410830 original size:16 final size:16
Alignment explanation
Indices: 102410811--102410845 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
102410801 ATAAAATAAT
102410811 ATTATATAAAAATTAC
1 ATTATATAAAAATTAC
*
102410827 ATTATATATAAATTAC
1 ATTATATAAAAATTAC
102410843 ATT
1 ATT
102410846 TAAAAAGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTATATAAAAATTAC
Found at i:102410954 original size:97 final size:103
Alignment explanation
Indices: 102410836--102411087 Score: 317
Period size: 97 Copynumber: 2.5 Consensus size: 103
102410826 CATTATATAT
* *
102410836 AAATTACATT--TAAAAAGTCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAA-CG
1 AAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCA
* * *
102410898 TAAATTGCTAACAAAATAACTATA-AA-T-TTTTTTT-
66 AAAAGTACTAACAAAATAACTATACAATTATTTTTTTA
*
102410932 AAA-TACATTACTAAAAAATCACAAAACA-AATAACTAAACACTAACAATTTATATAACCTAATC
1 AAATTACATTACTAAAAAATCACAAAACACTA-AACTAAACACTAACAATTTATATAACCTAATC
*
102410995 AAAAAGTATTAACAAAATAACTATACAATTATTTTTTTAA
65 AAAAAGTACTAACAAAATAACTATACAATTATTTTTTT-A
*
102411035 AAATTTACATTACTAAAAAAATCACAAAATC-CTATACTAAACACTAACAATTT
1 AAA-TTACATTACT-AAAAAATCACAAAA-CACTAAACTAAACACTAACAATTT
102411088 GTAACCTAAT
Statistics
Matches: 133, Mismatches: 9, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
95 6 0.05
96 4 0.03
97 46 0.35
98 21 0.16
99 2 0.02
100 1 0.01
101 7 0.05
103 3 0.02
105 9 0.07
106 32 0.24
107 2 0.02
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.30
Consensus pattern (103 bp):
AAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCA
AAAAGTACTAACAAAATAACTATACAATTATTTTTTTA
Found at i:102411074 original size:106 final size:97
Alignment explanation
Indices: 102410846--102411120 Score: 322
Period size: 106 Copynumber: 2.7 Consensus size: 97
102410836 AAATTACATT
* * * **
102410846 TAAAAAGTCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAA-CGTAAATTGCTAAC
1 TAAAAAATCACAAAAC-CTATACTAAACACTAACAATTTATATAACCTAATCATAAATTATTAAC
102410910 AAAATAACTATAAATTTTTTTTAAATACATTAC
65 AAAATAACTATAAATTTTTTTTAAATACATTAC
** * *
102410943 TAAAAAATCACAAAACAAATAACTAAACACTAACAATTTATATAACCTAATCAAAAAGTATTAAC
1 TAAAAAATCACAAAACCTAT-ACTAAACACTAACAATTTATATAACCTAATCATAAATTATTAAC
102411008 AAAATAACTATACAATTATTTTTTTAAAAATTTACATTAC
65 AAAATAACTATA-AA-T-TTTTTTT--AAA--TACATTAC
*
102411048 TAAAAAAATCACAAAATCCTATACTAAACACTAACAA-TT-TGTAACCTAATCCCATAAATTATT
1 T-AAAAAATCACAAAA-CCTATACTAAACACTAACAATTTATATAACCTAAT--CATAAATTATT
102411111 AACAAAATAA
62 AACAAAATAA
102411121 ATAACTATAA
Statistics
Matches: 151, Mismatches: 14, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
96 1 0.01
97 44 0.29
98 21 0.14
99 2 0.01
100 1 0.01
101 7 0.05
103 3 0.02
104 10 0.07
105 11 0.07
106 48 0.32
107 3 0.02
ACGTcount: A:0.53, C:0.16, G:0.02, T:0.29
Consensus pattern (97 bp):
TAAAAAATCACAAAACCTATACTAAACACTAACAATTTATATAACCTAATCATAAATTATTAACA
AAATAACTATAAATTTTTTTTAAATACATTAC
Found at i:102411202 original size:34 final size:34
Alignment explanation
Indices: 102411163--102411275 Score: 111
Period size: 34 Copynumber: 3.2 Consensus size: 34
102411153 TTATAATAAA
102411163 ATTACTAACAAAATATTTAACAAAATAATTTTAT
1 ATTACTAACAAAATATTTAACAAAATAATTTTAT
* *** * *
102411197 ATTACTAA-AAACTCACAAAACACAACAATTTATAAT
1 ATTACTAACAAAAT-ATTTAACAAAATAATTT-T-AT
*
102411233 AAATTACTAACAAAATATTTAACAAAATAATTTTAC
1 --ATTACTAACAAAATATTTAACAAAATAATTTTAT
102411269 ATTACTA
1 ATTACTA
102411276 TAAACTCACC
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
33 4 0.07
34 27 0.45
35 1 0.02
36 3 0.05
37 1 0.02
38 20 0.33
39 4 0.07
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (34 bp):
ATTACTAACAAAATATTTAACAAAATAATTTTAT
Found at i:102411216 original size:41 final size:41
Alignment explanation
Indices: 102411170--102411292 Score: 97
Period size: 41 Copynumber: 3.2 Consensus size: 41
102411160 AAAATTACTA
102411170 ACAAAATATTTAACAAAATAATTTTATATTACTAAAAACTC
1 ACAAAATATTTAACAAAATAATTTTATATTACTAAAAACTC
* * * *
102411211 AC---A-A---AACACAACAA-TTTATA--A-TAAATTACTA
1 ACAAAATATTTAACAAAATAATTTTATATTACTAAA-AACTC
* *
102411242 ACAAAATATTTAACAAAATAATTTTACATTACTATAAACTC
1 ACAAAATATTTAACAAAATAATTTTATATTACTAAAAACTC
*
102411283 ACCAAATATT
1 ACAAAATATT
102411293 AAACTAAACA
Statistics
Matches: 59, Mismatches: 11, Indels: 24
0.63 0.12 0.26
Matches are distributed among these distances:
30 4 0.07
31 6 0.10
33 6 0.10
34 9 0.15
35 1 0.02
37 1 0.02
38 9 0.15
39 5 0.08
41 15 0.25
42 3 0.05
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.32
Consensus pattern (41 bp):
ACAAAATATTTAACAAAATAATTTTATATTACTAAAAACTC
Found at i:102411245 original size:72 final size:74
Alignment explanation
Indices: 102411136--102411284 Score: 257
Period size: 72 Copynumber: 2.0 Consensus size: 74
102411126 TATAACAAGA
*
102411136 CACAAAACACTAAAAATTTATAATAAAATTACTAACAAAATATTTAACAAAATAATTTTATATTA
1 CACAAAACACTAAAAATTTATAATAAAATTACTAACAAAATATTTAACAAAATAATTTTACATTA
102411201 CTAAAAACT
66 CTAAAAACT
*
102411210 CACAAAACAC-AACAATTTATAAT-AAATTACTAACAAAATATTTAACAAAATAATTTTACATTA
1 CACAAAACACTAAAAATTTATAATAAAATTACTAACAAAATATTTAACAAAATAATTTTACATTA
*
102411273 CTATAAACT
66 CTAAAAACT
102411282 CAC
1 CAC
102411285 CAAATATTAA
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
72 50 0.69
73 12 0.17
74 10 0.14
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (74 bp):
CACAAAACACTAAAAATTTATAATAAAATTACTAACAAAATATTTAACAAAATAATTTTACATTA
CTAAAAACT
Found at i:102411361 original size:59 final size:60
Alignment explanation
Indices: 102411298--102411415 Score: 193
Period size: 59 Copynumber: 2.0 Consensus size: 60
102411288 ATATTAAACT
* *
102411298 AAACACAACAATTTATAACATAATCCTAAATTACTAATAAATTAATTTT-AAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
* *
102411357 AAACACAAAAATTTATAATATAATCCTAAATTACTAACAAATTAGTTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
102411416 TAAAAAACAA
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
59 45 0.83
60 9 0.17
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:102411963 original size:24 final size:24
Alignment explanation
Indices: 102411914--102411964 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
102411904 TATTTTTAAT
* *
102411914 AAAAATAAAATAATATTTTATTTA
1 AAAAACAAAATAATATTTTATGTA
102411938 AAAAACAAAA-AATATTTTAATGTA
1 AAAAACAAAATAATATTTT-ATGTA
102411962 AAA
1 AAA
102411965 GAGGTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAAACAAAATAATATTTTATGTA
Found at i:102411964 original size:23 final size:22
Alignment explanation
Indices: 102411901--102411964 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
102411891 ATATATATTT
*
102411901 AAATATTTTTAA-TAAAAATAAA
1 AAATA-TTTTAATTAAAAACAAA
*
102411923 ATAATATTTTATTTAAAAAACAAA
1 A-AATATTTTAATT-AAAAACAAA
102411947 AAATATTTTAATGTAAAA
1 AAATATTTTAAT-TAAAA
102411965 GAGGTGTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
22 6 0.17
23 19 0.54
24 10 0.29
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
AAATATTTTAATTAAAAACAAA
Found at i:102412494 original size:12 final size:13
Alignment explanation
Indices: 102412464--102412503 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
102412454 TACTAAACAC
102412464 AAATAATAA--AA
1 AAATAATAATTAA
*
102412475 AAATAATATTTAA
1 AAATAATAATTAA
102412488 AAA-AATAATTAA
1 AAATAATAATTAA
102412500 AAAT
1 AAAT
102412504 TAAATACGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 8 0.33
12 11 0.46
13 5 0.21
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATAATAATTAA
Found at i:102414624 original size:23 final size:23
Alignment explanation
Indices: 102414596--102414641 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
102414586 TGTTCCATAG
102414596 TTGGACAAAGATTGAAAATAGTT
1 TTGGACAAAGATTGAAAATAGTT
102414619 TTGGACAAAGATTGAAAATAGTT
1 TTGGACAAAGATTGAAAATAGTT
102414642 GTTCTCCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.30
Consensus pattern (23 bp):
TTGGACAAAGATTGAAAATAGTT
Found at i:102419424 original size:5 final size:5
Alignment explanation
Indices: 102419411--102419443 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
102419401 AATATTAAGC
*
102419411 TATAC TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TAT
102419444 GCTTCCTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:102429684 original size:25 final size:26
Alignment explanation
Indices: 102429656--102429706 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
102429646 CTATTTTTAT
*
102429656 TAGATT-GATATCT-AAATTTTTTTTC
1 TAGATTAG-TATCTAAAATGTTTTTTC
102429681 TAGATTAGTATCTAAAATGTTTTTTC
1 TAGATTAGTATCTAAAATGTTTTTTC
102429707 ATCCGTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.29, C:0.08, G:0.10, T:0.53
Consensus pattern (26 bp):
TAGATTAGTATCTAAAATGTTTTTTC
Found at i:102437326 original size:18 final size:18
Alignment explanation
Indices: 102437303--102437339 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
102437293 CACCGTTGAG
102437303 GTGAATTAGAATAAGGGA
1 GTGAATTAGAATAAGGGA
102437321 GTGAATTAGAATAAGGGA
1 GTGAATTAGAATAAGGGA
102437339 G
1 G
102437340 CAGGCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.35, T:0.22
Consensus pattern (18 bp):
GTGAATTAGAATAAGGGA
Found at i:102441044 original size:21 final size:21
Alignment explanation
Indices: 102441006--102441045 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
102440996 CCTTAGCGCA
* * *
102441006 ATTGGGTCATTGCGAGATGAC
1 ATTGGCTCATTACAAGATGAC
102441027 ATTGGCTCATTACAAGATG
1 ATTGGCTCATTACAAGATG
102441046 CAGTTAGTGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (21 bp):
ATTGGCTCATTACAAGATGAC
Found at i:102443343 original size:12 final size:11
Alignment explanation
Indices: 102443321--102443389 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 11
102443311 GTGCACATTA
102443321 TTTATATTATT
1 TTTATATTATT
102443332 TTTATGATTATT
1 TTTAT-ATTATT
102443344 ATTGTAT-TTATT
1 -TT-TATATTATT
*
102443356 TTTACTACTATT
1 TTTA-TATTATT
*
102443368 ATTATATTTATT
1 TTTATA-TTATT
*
102443380 ATTAGTATTA
1 TTTA-TATTA
102443390 GTGTTATAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
10 2 0.04
11 10 0.21
12 29 0.60
13 4 0.08
14 3 0.06
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (11 bp):
TTTATATTATT
Found at i:102443376 original size:24 final size:23
Alignment explanation
Indices: 102443317--102443379 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 23
102443307 TCATGTGCAC
*
102443317 ATTATTTATATTATTTTTATGATT
1 ATTATTTAT-TTATTTTTATGACT
102443341 ATTATTGTATTTATTTTTACT-ACT
1 ATTATT-TATTTATTTTTA-TGACT
102443365 ATTATTATATTTATT
1 ATTATT-TATTTATT
102443380 ATTAGTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 31 0.89
25 4 0.11
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (23 bp):
ATTATTTATTTATTTTTATGACT
Found at i:102443644 original size:50 final size:48
Alignment explanation
Indices: 102443584--102443723 Score: 131
Period size: 50 Copynumber: 2.8 Consensus size: 48
102443574 TATGTATTAT
* *
102443584 ATATATTTTTTAATGCTATATTATGTATATATTTTTAATA-TCACATTATTC
1 ATATA-TTTTT-AT-CTATATTATGTATATACTTTTAATACT-ACATTATGC
* * * *
102443635 ATATATTTTT-TATATTATCCCATGTAAATACTTTCAATACTACATTATGC
1 ATATATTTTTATCTA-TAT--TATGTATATACTTTTAATACTACATTATGC
* *
102443685 ATATATTTTTGTCTATATTATATATATACTTTTAATACT
1 ATATATTTTTATCTATATTATGTATATACTTTTAATACT
102443724 CAATACTATT
Statistics
Matches: 73, Mismatches: 11, Indels: 13
0.75 0.11 0.13
Matches are distributed among these distances:
47 2 0.03
48 21 0.29
50 41 0.56
51 9 0.12
ACGTcount: A:0.34, C:0.11, G:0.04, T:0.52
Consensus pattern (48 bp):
ATATATTTTTATCTATATTATGTATATACTTTTAATACTACATTATGC
Found at i:102444261 original size:22 final size:22
Alignment explanation
Indices: 102444236--102444289 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 22
102444226 TTTAATATTG
** *
102444236 TATTTTTATTATTATGTATATA
1 TATTTTTATTACCACGTATATA
* *
102444258 TATTCTTAATACCACGTATATA
1 TATTTTTATTACCACGTATATA
*
102444280 TTTTTTTATT
1 TATTTTTATT
102444290 TCTATTATTA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (22 bp):
TATTTTTATTACCACGTATATA
Found at i:102444524 original size:15 final size:15
Alignment explanation
Indices: 102444504--102444535 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
102444494 TTATTATCGT
102444504 TTTATACTATTATTA
1 TTTATACTATTATTA
*
102444519 TTTATATTATTATTA
1 TTTATACTATTATTA
102444534 TT
1 TT
102444536 ATCGTTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTATACTATTATTA
Found at i:102444594 original size:14 final size:14
Alignment explanation
Indices: 102444575--102444601 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
102444565 TTTGCCATGT
102444575 TTTATTTATTTATA
1 TTTATTTATTTATA
102444589 TTTATTTATTTAT
1 TTTATTTATTTAT
102444602 TTACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATTTATTTATA
Found at i:102446275 original size:19 final size:17
Alignment explanation
Indices: 102446251--102446296 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 17
102446241 AAAAATTACA
102446251 AAAAAAAATCAAAATATTT
1 AAAAAAAATC-AAAT-TTT
*
102446270 ATAAAAAATTCAAATTTT
1 A-AAAAAAATCAAATTTT
102446288 AAAAAAAAT
1 AAAAAAAAT
102446297 TTAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 7 0.29
18 4 0.17
19 5 0.21
20 8 0.33
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAAAAATCAAATTTT
Found at i:102446288 original size:18 final size:20
Alignment explanation
Indices: 102446250--102446302 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 20
102446240 TAAAAATTAC
*
102446250 AAAAAAAAATCAAAATATTT
1 AAAAAAAATTCAAAATATTT
*
102446270 ATAAAAAATTC-AAAT-TTT
1 AAAAAAAATTCAAAATATTT
*
102446288 AAAAAAAATTTAAAA
1 AAAAAAAATTCAAAA
102446303 AAATTCTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 12 0.43
19 7 0.25
20 9 0.32
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAAAAATTCAAAATATTT
Found at i:102446843 original size:32 final size:32
Alignment explanation
Indices: 102446781--102446845 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
102446771 TTGACAAAAG
** *
102446781 TTATACATTTTGGTACCTGAAGATAGCAATAT
1 TTATACATTTTGGTACCCAAAGATAACAATAT
*
102446813 TTATACATTTTGGTACCCAAATATAACAATAT
1 TTATACATTTTGGTACCCAAAGATAACAATAT
102446845 T
1 T
102446846 AACTTTTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (32 bp):
TTATACATTTTGGTACCCAAAGATAACAATAT
Found at i:102447761 original size:9 final size:9
Alignment explanation
Indices: 102447729--102447781 Score: 65
Period size: 9 Copynumber: 6.0 Consensus size: 9
102447719 TCATTTTCTG
102447729 TTATT-TAT
1 TTATTATAT
102447737 TTATTATA-
1 TTATTATAT
*
102447745 ATATTTATAT
1 TTA-TTATAT
102447755 TTATTATAT
1 TTATTATAT
*
102447764 TTATTGTAT
1 TTATTATAT
102447773 TTATTATAT
1 TTATTATAT
102447782 GTCTTAGTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
8 7 0.18
9 29 0.76
10 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (9 bp):
TTATTATAT
Found at i:102447879 original size:24 final size:26
Alignment explanation
Indices: 102447832--102447898 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 26
102447822 TATACTTATG
* *
102447832 TATTATATTATATATGTAATTTTT-T
1 TATTATATTATATATATAATTTTTAA
*
102447857 TA-TATATTATATATAT-GTGTTTTAA
1 TATTATATTATATATATAAT-TTTTAA
*
102447882 TATTATGTTATATATAT
1 TATTATATTATATATAT
102447899 TATATATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 1 0.03
24 17 0.49
25 4 0.11
26 13 0.37
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (26 bp):
TATTATATTATATATATAATTTTTAA
Found at i:102447936 original size:22 final size:26
Alignment explanation
Indices: 102447891--102447936 Score: 64
Period size: 23 Copynumber: 1.9 Consensus size: 26
102447881 ATATTATGTT
102447891 ATATATATTATATATATATATTTCCA
1 ATATATATTATATATATATATTTCCA
102447917 ATAT-TATTA-AT-TATAT-TTTC
1 ATATATATTATATATATATATTTC
102447937 TTATAATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
23 5 0.25
24 2 0.10
25 5 0.25
26 4 0.20
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (26 bp):
ATATATATTATATATATATATTTCCA
Found at i:102448482 original size:23 final size:21
Alignment explanation
Indices: 102448433--102448488 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
102448423 TAAATATCAT
*
102448433 ATTTTCTATATATTATGTATAC
1 ATTTT-TATATATTACGTATAC
*
102448455 ATTTTTATATATTACGTATAT
1 ATTTTTATATATTACGTATAC
102448476 ATCTTTTA-ATATT
1 AT-TTTTATATATT
102448489 GTACTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (21 bp):
ATTTTTATATATTACGTATAC
Found at i:102448683 original size:16 final size:15
Alignment explanation
Indices: 102448663--102448698 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
102448653 AAATATTATG
102448663 TTATGTATGTATATA
1 TTATGTATGTATATA
*
102448678 TATATGTATTTATATA
1 T-TATGTATGTATATA
102448694 TTATG
1 TTATG
102448699 CACACTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (15 bp):
TTATGTATGTATATA
Found at i:102452264 original size:8 final size:8
Alignment explanation
Indices: 102452251--102452278 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
102452241 AAATATAAAA
102452251 TAAAATTT
1 TAAAATTT
102452259 TAAAATTT
1 TAAAATTT
102452267 TAAAATTT
1 TAAAATTT
102452275 TAAA
1 TAAA
102452279 GGAGATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
TAAAATTT
Found at i:102454149 original size:20 final size:20
Alignment explanation
Indices: 102454124--102454169 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
102454114 AAAGTTTCAG
*
102454124 TACCTTCATGAAAA-TATCGA
1 TACCTTCA-AAAAAGTATCGA
*
102454144 TACCTTTAAAAAAGTATCGA
1 TACCTTCAAAAAAGTATCGA
102454164 TACCTT
1 TACCTT
102454170 ACCTAGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (20 bp):
TACCTTCAAAAAAGTATCGA
Found at i:102455925 original size:5 final size:5
Alignment explanation
Indices: 102455911--102455943 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
102455901 GATTTTTTTT
*
102455911 AAAA- AAAAG AAAAG AAAAG AAACG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
102455944 ACTTACCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:102456616 original size:3 final size:3
Alignment explanation
Indices: 102456608--102456897 Score: 76
Period size: 3 Copynumber: 97.3 Consensus size: 3
102456598 TTCTAATACC
* * *
102456608 ATT ATT ATT ATT ATT -TT ACT ATT ATT ATT TTT CA-T ACAT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT A-TT AT-T ATT
** * * * ** * **
102456654 ATT ATT CGT GTT ATT ACT ATT ATT AAT GCT CTT ATT ATT GCT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
102456702 ATT CCTT -TT ACT ATT ACT ATT ATT ATT ACT ATT ATT ACT ATCT TTT
1 ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
* * * * * *
102456748 TTT ATGT -TC ATT TTT ATT AAT ATT ATT ATT A-T AAT CTT ATT -TT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * ** * * *
102456791 AGT ACT ATT ATC ATT -TT TTT AAA ATT ATT GTT ACT ATT ATT CTT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * * * * * *
102456837 ACC ATT -TA ATAC ATT ATT ACT ATT TTT GTT ATT ATT ATT ATT ACT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
102456882 ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
102456898 CATTTTCTTT
Statistics
Matches: 200, Mismatches: 71, Indels: 32
0.66 0.23 0.11
Matches are distributed among these distances:
2 14 0.07
3 174 0.87
4 12 0.06
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:102456703 original size:12 final size:12
Alignment explanation
Indices: 102456664--102456897 Score: 90
Period size: 12 Copynumber: 20.0 Consensus size: 12
102456654 ATTATTCGTG
102456664 TTATTACTATTA
1 TTATTACTATTA
* * *
102456676 TTAATGCTCTTA
1 TTATTACTATTA
*
102456688 TTATTGCTATTA
1 TTATTACTATTA
* *
102456700 TTATTCCTTTTA
1 TTATTACTATTA
*
102456712 CTATTACTATTA
1 TTATTACTATTA
102456724 TTATTACTATTA
1 TTATTACTATTA
* * *
102456736 TTACTATCTTTTT
1 TTATTA-CTATTA
* *
102456749 TTATGTTC-ATTT
1 TTAT-TACTATTA
*
102456761 TTATTAATATTA
1 TTATTACTATTA
* *
102456773 TTATTA-TAATC
1 TTATTACTATTA
* *
102456784 TTATT-TTAGTA
1 TTATTACTATTA
*
102456795 CTATTA-TCATT-
1 TTATTACT-ATTA
* **
102456806 TTTTTAAAATTA
1 TTATTACTATTA
*
102456818 TTGTTACTATTA
1 TTATTACTATTA
* * **
102456830 TTCTT-TTACCA
1 TTATTACTATTA
* *
102456841 -T-TTAATA-CA
1 TTATTACTATTA
*
102456850 TTATTACTATTT
1 TTATTACTATTA
* *
102456862 TTGTTATTATTA
1 TTATTACTATTA
102456874 TTATTACTATTA
1 TTATTACTATTA
*
102456886 TTATTATTATTA
1 TTATTACTATTA
102456898 CATTTTCTTT
Statistics
Matches: 164, Mismatches: 46, Indels: 24
0.70 0.20 0.10
Matches are distributed among these distances:
9 4 0.02
10 4 0.02
11 32 0.20
12 115 0.70
13 8 0.05
14 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (12 bp):
TTATTACTATTA
Found at i:102457121 original size:6 final size:6
Alignment explanation
Indices: 102457110--102457146 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
102457100 TTACCGTCAT
102457110 TATTAC TATTAC TATTAC TATTA- T-TTAC TATTAC TAT
1 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TAT
102457147 ATTATTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 3 0.10
5 2 0.07
6 24 0.83
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.54
Consensus pattern (6 bp):
TATTAC
Found at i:102457140 original size:22 final size:21
Alignment explanation
Indices: 102457108--102457154 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
102457098 TATTACCGTC
102457108 ATTA-TTACTATTACTATTACT
1 ATTATTTACTATTACTA-TACT
*
102457129 ATTATTTACTATTACTATATT
1 ATTATTTACTATTACTATACT
102457150 ATTAT
1 ATTAT
102457155 CATTTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTATTTACTATTACTATACT
Found at i:102457480 original size:18 final size:18
Alignment explanation
Indices: 102457457--102457495 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
102457447 GTTATTTATT
*
102457457 TATATATACATATATATA
1 TATATACACATATATATA
* *
102457475 TATATACACATTTTTATA
1 TATATACACATATATATA
102457493 TAT
1 TAT
102457496 CTTTCCAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.49
Consensus pattern (18 bp):
TATATACACATATATATA
Found at i:102457492 original size:16 final size:16
Alignment explanation
Indices: 102457453--102457495 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
102457443 ATATGTTATT
*
102457453 TATTTATATATACATA
1 TATTTATATATACACA
*
102457469 TATATATATATACACA
1 TATTTATATATACACA
*
102457485 TTTTTATATAT
1 TATTTATATAT
102457496 CTTTCCAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (16 bp):
TATTTATATATACACA
Done.