Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 28 of 410
Found at i:7041332 original size:86 final size:87
Alignment explanation
Indices: 7041111--7041361 Score: 330
Period size: 86 Copynumber: 2.9 Consensus size: 87
7041101 GTGACAAAAA
* * * * *
7041111 CGCCTCTAAAAGTCATGGCTTTTAGCGGC-GTTTGTGCGAAAAGCGCCGCTAAAAGTCATAGCTT
1 CGCCACTAAAAGTCATGGCTTTTAGCGGCTGTTTGTGAGAAAAGCGCCGTTAAAAGCCATAACTT
*
7041175 TTAGTGGCGT-TTGTTGGGGAAG
66 TTAGTGGC-TCTTTTTGGGGAAG
* *
7041197 TGCCACTAAAAGTCATGACTTTTAGCGG-TGTTTGTGAGAAAAGCGCCGTTAAAAGCCATAACTT
1 CGCCACTAAAAGTCATGGCTTTTAGCGGCTGTTTGTGAGAAAAGCGCCGTTAAAAGCCATAACTT
7041261 TTAGTGGCTCTTTTTGGGGAAG
66 TTAGTGGCTCTTTTTGGGGAAG
* * * ** *
7041283 CGCCGCTAAAAGTCATGGCTTTTAGCGGCTTTTTTTG-GGGAAGCTCCGTTAAAAGCCATAACTT
1 CGCCACTAAAAGTCATGGCTTTTAGCGGCTGTTTGTGAGAAAAGCGCCGTTAAAAGCCATAACTT
*
7041347 TTAGTGGCGCTTTTT
66 TTAGTGGCTCTTTTT
7041362 TCACAAACGC
Statistics
Matches: 145, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
85 1 0.01
86 138 0.95
87 6 0.04
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (87 bp):
CGCCACTAAAAGTCATGGCTTTTAGCGGCTGTTTGTGAGAAAAGCGCCGTTAAAAGCCATAACTT
TTAGTGGCTCTTTTTGGGGAAG
Found at i:7041466 original size:31 final size:32
Alignment explanation
Indices: 7041431--7041511 Score: 110
Period size: 31 Copynumber: 2.5 Consensus size: 32
7041421 CTTCTTCATT
*
7041431 AAATCCAACCAAAAACAACAAATATAACAT-G
1 AAATCCAACCAAAAACAACAAATATAACATAA
* *
7041462 AAATCCAACCAAAAACAACAAATGTAGCATAAA
1 AAATCCAACCAAAAACAACAAATATAACAT-AA
*
7041495 AAATACAACCAAAAACA
1 AAATCCAACCAAAAACA
7041512 TTAAATCTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 28 0.64
33 16 0.36
ACGTcount: A:0.63, C:0.22, G:0.04, T:0.11
Consensus pattern (32 bp):
AAATCCAACCAAAAACAACAAATATAACATAA
Found at i:7046376 original size:7 final size:7
Alignment explanation
Indices: 7046364--7046446 Score: 51
Period size: 7 Copynumber: 11.7 Consensus size: 7
7046354 ACTAATTAAT
7046364 CTAAACC
1 CTAAACC
7046371 CTAAACC
1 CTAAACC
*
7046378 TCTAACCC
1 -CTAAACC
*
7046386 CT-ATCC
1 CTAAACC
*
7046392 CATAAACA
1 C-TAAACC
*
7046400 CTAAACT
1 CTAAACC
*
7046407 CTAAGCC
1 CTAAACC
**
7046414 CTAAATT
1 CTAAACC
* *
7046421 ATAAAGC
1 CTAAACC
7046428 CTAAACC
1 CTAAACC
*
7046435 CTTAACC
1 CTAAACC
7046442 CTAAA
1 CTAAA
7046447 TATACAATGA
Statistics
Matches: 56, Mismatches: 17, Indels: 6
0.71 0.22 0.08
Matches are distributed among these distances:
6 4 0.07
7 43 0.77
8 9 0.16
ACGTcount: A:0.41, C:0.35, G:0.02, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:7050549 original size:147 final size:147
Alignment explanation
Indices: 7050275--7050549 Score: 399
Period size: 147 Copynumber: 1.9 Consensus size: 147
7050265 AACGAGAAGG
* * * * *
7050275 TGGTGGAGAAAAGAAAATAATAGAGGGAACTGTAGTTGGGGTTGTGGGGACTGAAGGAATGCTTG
1 TGGTGGAGAAAAGAAAAGAATAGAGGGAACTGCAGTTGGGATTGCGGGGACAGAAGGAATGCTTG
* ***
7050340 GCAGAGGGGGCAGTCCTCTTGGCAATGTGGTAGGAAGTGGAGGAAGCGCCCCAGGGTTTGGGAGA
66 GCAGAGGGGGCAGTCCTCTTGGCAATGTGGTAGGAACTGGAGGAAGCGCCCCAGGCCGTGGGAGA
7050405 TTAGGGAAAGATGGCAA
131 TTAGGGAAAGATGGCAA
* * * *
7050422 TGGTGGA-AAAGAGAAAGGAATAGGGGGAATTGCAGTTGGGATTGCGGGGACAGAGGGAATGCTT
1 TGGTGGAGAAA-AGAAAAGAATAGAGGGAACTGCAGTTGGGATTGCGGGGACAGAAGGAATGCTT
* *
7050486 GGCAGAGGGGGCGGTCCTGTTGGCAATGTGGTAGGAACTGGAGGAAGCGCCCCAGGCCGTGGGA
65 GGCAGAGGGGGCAGTCCTCTTGGCAATGTGGTAGGAACTGGAGGAAGCGCCCCAGGCCGTGGGA
7050550 ATGATGGTCG
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
146 3 0.03
147 109 0.97
ACGTcount: A:0.27, C:0.12, G:0.43, T:0.18
Consensus pattern (147 bp):
TGGTGGAGAAAAGAAAAGAATAGAGGGAACTGCAGTTGGGATTGCGGGGACAGAAGGAATGCTTG
GCAGAGGGGGCAGTCCTCTTGGCAATGTGGTAGGAACTGGAGGAAGCGCCCCAGGCCGTGGGAGA
TTAGGGAAAGATGGCAA
Found at i:7054542 original size:93 final size:93
Alignment explanation
Indices: 7054435--7054605 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
7054425 GCCCATAAGT
* *
7054435 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
7054500 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
7054528 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
7054593 CGAGTTCGGATGC
66 CGAGTTCGGATGC
7054606 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:7054602 original size:46 final size:46
Alignment explanation
Indices: 7054427--7054602 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
7054417 TGTAACCCGC
* * *
7054427 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
7054473 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
7054523 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
7054566 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
7054603 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 64 0.58
47 29 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:7055058 original size:30 final size:30
Alignment explanation
Indices: 7055024--7055084 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
7055014 CATTTAATAC
*
7055024 AAACTTTGGAAAAATTACACTTTTTCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
7055054 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
7055084 A
1 A
7055085 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:7056799 original size:58 final size:58
Alignment explanation
Indices: 7056704--7056821 Score: 164
Period size: 58 Copynumber: 2.0 Consensus size: 58
7056694 GGTAAATCAT
* ** * *
7056704 ATACTTCGATGCTCACACAGATTTACGATAGTCCACAACTTATGCAGAATTACTACCA
1 ATACATCGATGCTCACACAGAACTACGATAGCCCACAACTTATGCAGAACTACTACCA
* * *
7056762 ATACATCGATGCTCACACAGAACTATGGTAGCCCACAACTTATGCAGAACTGCTACCA
1 ATACATCGATGCTCACACAGAACTACGATAGCCCACAACTTATGCAGAACTACTACCA
7056820 AT
1 AT
7056822 CACTATATTT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.25
Consensus pattern (58 bp):
ATACATCGATGCTCACACAGAACTACGATAGCCCACAACTTATGCAGAACTACTACCA
Found at i:7057363 original size:8 final size:8
Alignment explanation
Indices: 7057350--7057405 Score: 82
Period size: 8 Copynumber: 7.4 Consensus size: 8
7057340 TTTTACATAT
7057350 ATATAATA
1 ATATAATA
7057358 ATATAAT-
1 ATATAATA
7057365 ATAT-ATA
1 ATATAATA
*
7057372 ATGTAATA
1 ATATAATA
7057380 ATATAATA
1 ATATAATA
7057388 ATATAATA
1 ATATAATA
7057396 ATATAA-A
1 ATATAATA
7057403 ATA
1 ATA
7057406 ATATATTACT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
6 2 0.05
7 11 0.25
8 31 0.70
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:7057393 original size:13 final size:13
Alignment explanation
Indices: 7057346--7057408 Score: 62
Period size: 13 Copynumber: 5.0 Consensus size: 13
7057336 TTTGTTTTAC
7057346 ATAT-ATATAATA
1 ATATAATATAATA
7057358 ATATAATATATATA
1 ATATAATATA-ATA
*
7057372 ATGT-A-ATAAT-
1 ATATAATATAATA
7057382 ATAATAATATAATA
1 AT-ATAATATAATA
*
7057396 ATATAAAATAATA
1 ATATAATATAATA
7057409 TATTACTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
10 2 0.05
11 3 0.07
12 8 0.19
13 21 0.50
14 8 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (13 bp):
ATATAATATAATA
Found at i:7057459 original size:34 final size:34
Alignment explanation
Indices: 7057394--7057459 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
7057384 AATAATATAA
*
7057394 TAATATAAAATAATATATTACTTATTGATTAAGT
1 TAATATAAAATAATATATTACTTATTAATTAAGT
*
7057428 TAATATAATATATAATATA-TA-TTTTTAATTAA
1 TAATATAA-A-ATAATATATTACTTATTAATTAA
7057460 AATAACTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 17 0.61
35 3 0.11
36 8 0.29
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (34 bp):
TAATATAAAATAATATATTACTTATTAATTAAGT
Found at i:7059030 original size:17 final size:17
Alignment explanation
Indices: 7059008--7059061 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
7058998 ACCATTGTTT
7059008 AGTGGAAAAATTTTCTA
1 AGTGGAAAAATTTTCTA
* *
7059025 AGTGGAAAATTTTTTTA
1 AGTGGAAAAATTTTCTA
*
7059042 AGTGTTGTAAAATTTTCTA
1 AGTG--GAAAAATTTTCTA
7059061 A
1 A
7059062 AGTTCTCGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 19 0.63
19 11 0.37
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.43
Consensus pattern (17 bp):
AGTGGAAAAATTTTCTA
Found at i:7064534 original size:39 final size:39
Alignment explanation
Indices: 7064480--7064555 Score: 136
Period size: 39 Copynumber: 1.9 Consensus size: 39
7064470 ATGCAGAATA
7064480 CATATTAATGATGTTCAAACTATGACATAAT-TAAAGACT
1 CATATTAATGATGTTCAAACTATGACAT-ATCTAAAGACT
7064519 CATATTAATGATGTTCAAACTATGACATATCTAAAGA
1 CATATTAATGATGTTCAAACTATGACATATCTAAAGA
7064556 AACAAACTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 2 0.06
39 34 0.94
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (39 bp):
CATATTAATGATGTTCAAACTATGACATATCTAAAGACT
Found at i:7066076 original size:41 final size:41
Alignment explanation
Indices: 7066031--7066148 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
7066021 TGAAAGATAA
7066031 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
7066072 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
7066102 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
7066143 ATGTAG
1 ATGTAG
7066149 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:7066088 original size:71 final size:71
Alignment explanation
Indices: 7065999--7066162 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
7065989 GAGATGTATC
*
7065999 CCATGTAGGCAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
7066064 AGGACA
66 AGGACA
7066070 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
7066135 AGGACA
66 AGGACA
7066141 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
7066163 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:7069082 original size:18 final size:18
Alignment explanation
Indices: 7069059--7069099 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
7069049 GTTATTAGTG
7069059 GGAGATATCCGTACCGTA
1 GGAGATATCCGTACCGTA
7069077 GGAGATATCCGTACCGTA
1 GGAGATATCCGTACCGTA
*
7069095 AGAGA
1 GGAGA
7069100 ATTCCCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.20
Consensus pattern (18 bp):
GGAGATATCCGTACCGTA
Found at i:7071249 original size:3 final size:3
Alignment explanation
Indices: 7071241--7071348 Score: 75
Period size: 3 Copynumber: 37.7 Consensus size: 3
7071231 TCCTTATGAC
* * * *
7071241 TAT TAT TAT TAA TAT TCT TAT TAT CAC TAT TAT T-T T-T TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
7071286 CAA TA- TAT TAT TAC TA- CAGT TAC TAT TAT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
*
7071329 CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
7071349 ATTTTTAATA
Statistics
Matches: 81, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
2 11 0.14
3 69 0.85
4 1 0.01
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:7071255 original size:27 final size:27
Alignment explanation
Indices: 7071217--7071274 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
7071207 TTTATTTAAA
* * *
7071217 TATTATTTATATTATCCTTATGACTAT
1 TATTATTAATATTATCATTATCACTAT
* *
7071244 TATTATTAATATTCTTATTATCACTAT
1 TATTATTAATATTATCATTATCACTAT
7071271 TATT
1 TATT
7071275 TTTTATTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.10, G:0.02, T:0.57
Consensus pattern (27 bp):
TATTATTAATATTATCATTATCACTAT
Found at i:7071476 original size:11 final size:11
Alignment explanation
Indices: 7071447--7071498 Score: 54
Period size: 10 Copynumber: 4.8 Consensus size: 11
7071437 TTTTATACAC
7071447 TATTATTTTAT
1 TATTATTTTAT
* *
7071458 CA-TATTTTCT
1 TATTATTTTAT
*
7071468 TTTTATTTTAT
1 TATTATTTTAT
7071479 TATTA-TTTAT
1 TATTATTTTAT
7071489 TATTACTTTT
1 TATTA-TTTT
7071499 CATGTACGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
10 17 0.53
11 12 0.38
12 3 0.09
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:7071587 original size:20 final size:21
Alignment explanation
Indices: 7071543--7071590 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
7071533 TTACCTCTAT
7071543 TATA-ATTATTATTAATATTAG
1 TATATATT-TTATTAATATTAG
7071564 TATATATTTTATT-ATATGTA-
1 TATATATTTTATTAATAT-TAG
7071584 TATATAT
1 TATATAT
7071591 ATACTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 11 0.44
21 11 0.44
22 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
TATATATTTTATTAATATTAG
Found at i:7071837 original size:19 final size:19
Alignment explanation
Indices: 7071775--7071869 Score: 52
Period size: 20 Copynumber: 5.1 Consensus size: 19
7071765 CATATTTTTT
* * *
7071775 TATTTATTTTAATACTCTGA
1 TATTTTTTTTAATATTAT-A
* * *
7071795 TATTATTTATATTATTAT-
1 TATTTTTTTTAATATTATA
7071813 TA-TTTTTTTAATATTATA
1 TATTTTTTTTAATATTATA
* * *
7071831 TA-TTTTTATATATTTTGTA
1 TATTTTTTTTA-ATATTATA
* *
7071850 TATATTTTTTAATATCATA
1 TATTTTTTTTAATATTATA
7071869 T
1 T
7071870 TATTCATATA
Statistics
Matches: 55, Mismatches: 17, Indels: 7
0.70 0.22 0.09
Matches are distributed among these distances:
17 12 0.22
18 11 0.20
19 14 0.25
20 18 0.33
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (19 bp):
TATTTTTTTTAATATTATA
Found at i:7071843 original size:17 final size:17
Alignment explanation
Indices: 7071794--7071844 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
7071784 TAATACTCTG
7071794 ATATTATTTATATTATTAT
1 ATATT-TTTATA-TATTAT
*
7071813 -TATTTTTTTAATATTAT
1 ATATTTTTAT-ATATTAT
7071830 ATATTTTTATATATT
1 ATATTTTTATATATT
7071845 TTGTATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATTTTTATATATTAT
Found at i:7071851 original size:9 final size:9
Alignment explanation
Indices: 7071800--7071909 Score: 50
Period size: 10 Copynumber: 12.0 Consensus size: 9
7071790 TCTGATATTA
7071800 TTTATATTAT
1 TTTATA-TAT
*
7071810 TATTAT-TTT
1 T-TTATATAT
7071819 TTTA-ATAT
1 TTTATATAT
*
7071827 TATATAT-T
1 TTTATATAT
7071835 TTTATATATT
1 TTTATATA-T
7071845 TTGTATATAT
1 TT-TATATAT
*
7071855 TTTTTA-AT
1 TTTATATAT
* *
7071863 ATCATAT-T
1 TTTATATAT
*
7071871 ATTCATATAT
1 -TTTATATAT
7071881 TTTATTATAT
1 TTTA-TATAT
*
7071891 TATATATAT
1 TTTATATAT
*
7071900 CTTTTTATAT
1 -TTTATATAT
7071910 CATCTCATGT
Statistics
Matches: 76, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
8 21 0.28
9 22 0.29
10 23 0.30
11 10 0.13
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTATATAT
Found at i:7071853 original size:11 final size:10
Alignment explanation
Indices: 7071826--7071909 Score: 62
Period size: 10 Copynumber: 7.6 Consensus size: 10
7071816 TTTTTTAATA
7071826 TTATATATTT
1 TTATATATTT
7071836 TTATATATTT
1 TTATATATTT
7071846 TGTATATATTTT
1 T-TATATA-TTT
7071858 TTAATATCATATT
1 TT-ATAT-AT-TT
7071871 ATTCATATA-TT
1 -TT-ATATATTT
7071882 TTATTATATTAT
1 TTA-TATATT-T
* *
7071894 ATATATCTTT
1 TTATATATTT
7071904 TTATAT
1 TTATAT
7071910 CATCTCATGT
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
9 1 0.02
10 23 0.38
11 15 0.25
12 12 0.20
13 4 0.07
14 6 0.10
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (10 bp):
TTATATATTT
Found at i:7071864 original size:38 final size:36
Alignment explanation
Indices: 7071766--7071891 Score: 116
Period size: 37 Copynumber: 3.4 Consensus size: 36
7071756 TATTCCTTCC
*
7071766 ATATTTTTTTAT-TTATTTTAATACTCTGATATTATT--T
1 ATATTTTATTATATT-TTTTAATA-TC--ATATTATTCAT
* * *
7071803 ATATTATTATTAT-TTTTTTAATATTATATATTTTTAT
1 ATATT-TTATTATATTTTTTAATATCATAT-TATTCAT
*
7071840 ATATTTTGTATATATTTTTTAATATCATATTATTCAT
1 ATATTTTAT-TATATTTTTTAATATCATATTATTCAT
7071877 ATATTTTATTATATT
1 ATATTTTATTATATT
7071892 ATATATATCT
Statistics
Matches: 75, Mismatches: 8, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
34 4 0.05
35 3 0.04
36 10 0.13
37 35 0.47
38 23 0.31
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (36 bp):
ATATTTTATTATATTTTTTAATATCATATTATTCAT
Found at i:7071892 original size:21 final size:19
Alignment explanation
Indices: 7071794--7071909 Score: 85
Period size: 18 Copynumber: 5.7 Consensus size: 19
7071784 TAATACTCTG
*
7071794 ATATTATTTATATTATTAT
1 ATATTTTTTATATTATTAT
*
7071813 -TATTTTTT-TAATATTAT
1 ATATTTTTTATATTATTAT
*
7071830 ATATTTTTATATATTTTGTAT
1 ATATTTTT-TATATTAT-TAT
7071851 ATATTTTTTAATATCATATTATTCAT
1 ATA--TTTT--T-T-ATATTATT-AT
7071877 ATATTTTATTATATTA-TAT
1 ATATTTT-TTATATTATTAT
7071896 ATATCTTTTTATAT
1 ATAT-TTTTTATAT
7071910 CATCTCATGT
Statistics
Matches: 81, Mismatches: 5, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
17 8 0.10
18 14 0.17
19 13 0.16
20 8 0.10
21 12 0.15
22 1 0.01
23 6 0.07
24 4 0.05
25 4 0.05
26 11 0.14
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.64
Consensus pattern (19 bp):
ATATTTTTTATATTATTAT
Found at i:7071897 original size:28 final size:26
Alignment explanation
Indices: 7071836--7071897 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
7071826 TTATATATTT
*
7071836 TTATATATTTTGTATATATTTTTTAA
1 TTATATATTTTGCATATATTTTTTAA
7071862 -TATCATATTATT-CATATATTTTATTATA
1 TTAT-ATATT-TTGCATATATTTT-TTA-A
7071890 TTATATAT
1 TTATATAT
7071898 ATCTTTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
25 3 0.10
26 14 0.47
27 5 0.17
28 5 0.17
29 3 0.10
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (26 bp):
TTATATATTTTGCATATATTTTTTAA
Found at i:7071912 original size:45 final size:46
Alignment explanation
Indices: 7071824--7071912 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 46
7071814 ATTTTTTTAA
* *
7071824 TATTATATATTTTTATATATTTTGTATATATTTTTTAATATCATAT
1 TATTATATATTTTTATATATATTATATATATTTTTTAATATCATAT
7071870 TATTCATATA-TTTTAT-TATATTATATATATCTTTTT-ATATCAT
1 TATT-ATATATTTTTATATATATTATATATAT-TTTTTAATATCAT
7071913 CTCATGTACA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
45 19 0.49
46 15 0.38
47 5 0.13
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (46 bp):
TATTATATATTTTTATATATATTATATATATTTTTTAATATCATAT
Found at i:7071926 original size:45 final size:46
Alignment explanation
Indices: 7071834--7071926 Score: 102
Period size: 45 Copynumber: 2.0 Consensus size: 46
7071824 TATTATATAT
* * * *
7071834 TTTTATATATTTTGTATATATTTTTTAATATCATATTATTCATATA
1 TTTTATATATATTATATATATTTTTTAATATCATATCATTCACATA
*
7071880 TTTTAT-TATATTATATATATCTTTTT-ATATCATCTCATGT-ACATA
1 TTTTATATATATTATATATAT-TTTTTAATATCATATCAT-TCACATA
7071925 TT
1 TT
7071927 CTTGAATACT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
45 28 0.70
46 12 0.30
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (46 bp):
TTTTATATATATTATATATATTTTTTAATATCATATCATTCACATA
Found at i:7072253 original size:3 final size:3
Alignment explanation
Indices: 7072185--7072238 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
7072175 TACATACATC
7072185 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7072233 TTA TTA
1 TTA TTA
7072239 GTATATGTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7072380 original size:25 final size:25
Alignment explanation
Indices: 7072339--7072422 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
7072329 ATTATTTCTA
*
7072339 ATATGTATATATATA-TTTTAACAACT
1 ATAT-TATGTATATACTTTTAAC-ACT
* *
7072365 ATATTATGTATGTATTTTTAACACT
1 ATATTATGTATATACTTTTAACACT
* *
7072390 ATTTTATGTATATACTTTTAATA-T
1 ATATTATGTATATACTTTTAACACT
7072414 -TATTATGTA
1 ATATTATGTA
7072423 GTTATTTTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
23 8 0.16
24 1 0.02
25 30 0.60
26 11 0.22
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (25 bp):
ATATTATGTATATACTTTTAACACT
Found at i:7072430 original size:22 final size:23
Alignment explanation
Indices: 7072366--7072442 Score: 65
Period size: 25 Copynumber: 3.4 Consensus size: 23
7072356 TTAACAACTA
* *
7072366 TATTATGTATGTATTTTTAACACTAT
1 TATTATGTATATACTTTT-A-A-TAT
7072392 T-TTATGTATATACTTTTAATAT
1 TATTATGTATATACTTTTAATAT
7072414 TATTATGTAGT-TA-TTTTAATA-
1 TATTATGTA-TATACTTTTAATAT
7072435 TA-TATGTA
1 TATTATGTA
7072443 CATATTTATG
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
20 6 0.13
21 2 0.04
22 12 0.26
23 10 0.21
24 2 0.04
25 14 0.30
26 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (23 bp):
TATTATGTATATACTTTTAATAT
Found at i:7072448 original size:20 final size:22
Alignment explanation
Indices: 7072389--7072449 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
7072379 TTTTTAACAC
*
7072389 TATT-TTATGTATATACTTTTAA
1 TATTATTATGTACATA-TTTTAA
**
7072411 TATTATTATGTAGTTATTTTAA
1 TATTATTATGTACATATTTTAA
7072433 TA-TA-TATGTACATATTT
1 TATTATTATGTACATATTT
7072450 ATGTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 11 0.32
21 2 0.06
22 12 0.35
23 9 0.26
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (22 bp):
TATTATTATGTACATATTTTAA
Found at i:7072552 original size:15 final size:15
Alignment explanation
Indices: 7072507--7072546 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
7072497 ATGTTCATTT
*
7072507 TATATATATTATGTG
1 TATATATATTATGTA
*
7072522 TACATATATTATGTA
1 TATATATATTATGTA
7072537 TATATATATT
1 TATATATATT
7072547 TAGTATTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (15 bp):
TATATATATTATGTA
Found at i:7076417 original size:22 final size:22
Alignment explanation
Indices: 7076389--7076444 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
7076379 ATTCATGACT
*
7076389 AACATTCATTCATCGTTTATTC
1 AACATTCATTCATCATTTATTC
**
7076411 AACATTCATTTGTCATTTATTC
1 AACATTCATTCATCATTTATTC
*
7076433 ATTCATTCATTC
1 A-ACATTCATTC
7076445 TTTGCATGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.27, C:0.21, G:0.04, T:0.48
Consensus pattern (22 bp):
AACATTCATTCATCATTTATTC
Found at i:7087106 original size:39 final size:39
Alignment explanation
Indices: 7087048--7087134 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
7087038 TTCAGTGATG
* * * * *
7087048 TATATCCGGACTTAGGGTCCGTAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAAGCTACGTGCTGGAAA
7087087 TATATCCGGACTTAAGGTCCGCAAGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAAGCTACGTGCTGGAAA
*
7087126 TATGTCCGG
1 TATATCCGG
7087135 GCTAAAGTCC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAAGCTACGTGCTGGAAA
Found at i:7087148 original size:39 final size:39
Alignment explanation
Indices: 7087048--7087144 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 39
7087038 TTCAGTGATG
** * * * *
7087048 TATATCCGGACTTAGGGTCCGTAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAAGCTACGTGCTGGAAA
*
7087087 TATATCCGGACTTAAGGTCCGCAAGCTACGTGCTGGAAA
1 TATATCCGGACTTAAAGTCCGCAAGCTACGTGCTGGAAA
* *
7087126 TATGTCCGGGC-TAAAGTCC
1 TATATCCGGACTTAAAGTCC
7087145 CGCAGGCTTC
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
38 7 0.14
39 43 0.86
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGCAAGCTACGTGCTGGAAA
Found at i:7088020 original size:9 final size:9
Alignment explanation
Indices: 7088002--7088030 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
7087992 TTTGTCTTTC
7088002 AAAA-AAAA
1 AAAACAAAA
7088010 AAAACAAAA
1 AAAACAAAA
7088019 AAAACAAAA
1 AAAACAAAA
7088028 AAA
1 AAA
7088031 TCAACTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAACAAAA
Found at i:7088219 original size:64 final size:64
Alignment explanation
Indices: 7088105--7088224 Score: 179
Period size: 64 Copynumber: 1.9 Consensus size: 64
7088095 CATTAAAAAA
* * *
7088105 ATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGAGTCACACGCTGAGATATTTTTAGTTTCT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCCACACGCCGAGATATTTTTAGTTTCT
* *
7088169 ATCAACTCATATTGCGAGAGGTGAGTT-AGCCCTCGGGCCACATGCCGAGATATTTT
1 ATCAACTCATATTGCGAGAGGTGAGTTGAG-CCTCGAGCCACACGCCGAGATATTTT
7088225 CAATTTCTGT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
63 2 0.04
64 48 0.96
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (64 bp):
ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGCCACACGCCGAGATATTTTTAGTTTCT
Found at i:7088707 original size:21 final size:21
Alignment explanation
Indices: 7088641--7088710 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
7088631 TCTTATCTCC
* *
7088641 TTGAAGTTGTAGTAGAAC-C-
1 TTGAAGTTGTAGTGGAGCGCA
** *
7088660 TTGAAGTTACAATGGAGCTG-A
1 TTGAAGTTGTAGTGGAGC-GCA
*
7088681 TCGAAGTTGTAGTGGAGCGCA
1 TTGAAGTTGTAGTGGAGCGCA
7088702 TTGAAGTTG
1 TTGAAGTTG
7088711 CAGATCTTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
19 13 0.35
20 1 0.03
21 23 0.62
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.30
Consensus pattern (21 bp):
TTGAAGTTGTAGTGGAGCGCA
Found at i:7090237 original size:27 final size:27
Alignment explanation
Indices: 7090207--7090277 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
7090197 TTATTTTAAA
* *
7090207 TATTATTTATATTATCCTTATGACTAT
1 TATTATTTATATTATCATTATCACTAT
* * *
7090234 TATTATTAATATTCTTATTATCACTAT
1 TATTATTTATATTATCATTATCACTAT
* *
7090261 TATTTTTTATTTTATCA
1 TATTATTTATATTATCA
7090278 ATATATTATT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.30, C:0.10, G:0.01, T:0.59
Consensus pattern (27 bp):
TATTATTTATATTATCATTATCACTAT
Found at i:7090239 original size:3 final size:3
Alignment explanation
Indices: 7090231--7090335 Score: 78
Period size: 3 Copynumber: 36.7 Consensus size: 3
7090221 TCCTTATGAC
* * * *
7090231 TAT TAT TAT TAA TAT TCT TAT TAT CAC TAT TAT T-T T-T TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
7090276 CAA TA- TAT TAT TAC TA- TAGT TAC TAT TAT TA- TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
7090319 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
7090336 ATTTTTAATA
Statistics
Matches: 80, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
2 12 0.15
3 66 0.82
4 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:7090418 original size:3 final size:3
Alignment explanation
Indices: 7090410--7090672 Score: 70
Period size: 3 Copynumber: 85.0 Consensus size: 3
7090400 TTATTGTAAA
* * *
7090410 TAT TAT TAT TAT TAT TAT T-T TAT ACAC TAT TAT T-T TAT CA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* * * *
7090453 T-T TCT TTT TA- TAT TAT TAT TATT TAT TAT TAT TTT TCAT GTACG TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT T-AT -TA-T TAT
*
7090500 TAT T-T ATAT TAT TA- TAT CTACT T-T TACCT CTAT TAT AAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT -TA-T TAT TA--T -TAT TAT TAT TAT TAT
* * * *
7090545 TAA TAT TAG TAT ATAT T-T TAT TAT ATAT GTAT ATAT ATACT TTT TACA
1 TAT TAT TAT TAT -TAT TAT TAT TAT -TAT -TAT -TAT -TA-T TAT TA-T
* *
7090593 TAG TAT TAT CT-T TTT CTAT TAT TA- TATT TAT TAT TA- TATT TAT TAT
1 TAT TAT TAT -TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT
* *
7090639 T-T TCAC TAT TAT TAT TAT T-T T-T TAT CAT TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7090673 ACATATATAT
Statistics
Matches: 196, Mismatches: 30, Indels: 68
0.67 0.10 0.23
Matches are distributed among these distances:
2 27 0.14
3 124 0.63
4 39 0.20
5 4 0.02
6 2 0.01
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:7090486 original size:32 final size:31
Alignment explanation
Indices: 7090412--7090487 Score: 75
Period size: 32 Copynumber: 2.4 Consensus size: 31
7090402 ATTGTAAATA
7090412 TTATTATTATTATTATTTTATACACTATTATT
1 TTATTATTATT-TTATTTTATACACTATTATT
* * * *
7090444 TTATCA-TATTTTCTTTT-TATATTATTATTAT
1 TTATTATTATTTTATTTTATACACTATTA-T-T
7090475 TTATTATTATTTT
1 TTATTATTATTTT
7090488 TCATGTACGT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
29 8 0.22
30 7 0.19
31 10 0.28
32 11 0.31
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (31 bp):
TTATTATTATTTTATTTTATACACTATTATT
Found at i:7090829 original size:14 final size:13
Alignment explanation
Indices: 7090812--7090893 Score: 57
Period size: 14 Copynumber: 6.5 Consensus size: 13
7090802 TGTATATTAT
7090812 TATTATTTTTTTA
1 TATTATTTTTTTA
7090825 CTATTATATTTTTTA
1 -TATTAT-TTTTTTA
7090840 TA-TA--TTTTTA
1 TATTATTTTTTTA
*
7090850 TA-TATTTTTTAA
1 TATTATTTTTTTA
* * *
7090862 TATCATATTATTCA
1 TATTAT-TTTTTTA
*
7090876 TA-TATTTTATTA
1 TATTATTTTTTTA
7090888 TATTAT
1 TATTAT
7090894 GTATATATTT
Statistics
Matches: 54, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
10 10 0.19
12 13 0.24
13 9 0.17
14 15 0.28
15 7 0.13
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (13 bp):
TATTATTTTTTTA
Found at i:7090842 original size:34 final size:33
Alignment explanation
Indices: 7090780--7090850 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 33
7090770 ATTTTTTTAT
*
7090780 TTATTTTAATACTCTTATATTATGTATATTATTA
1 TTATTTTAATACTATTATATTATGTATA-TATTA
** * * *
7090814 TTATTTTTTTACTATTATATTTTTTATATATTT
1 TTATTTTAATACTATTATATTATGTATATATTA
7090847 TTAT
1 TTAT
7090851 ATATTTTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
33 8 0.26
34 23 0.74
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.66
Consensus pattern (33 bp):
TTATTTTAATACTATTATATTATGTATATATTA
Found at i:7090855 original size:21 final size:21
Alignment explanation
Indices: 7090829--7090904 Score: 73
Period size: 21 Copynumber: 3.4 Consensus size: 21
7090819 TTTTTACTAT
7090829 TATATTTTTTATATATTTTTA
1 TATATTTTTTATATATTTTTA
7090850 TATATTTTTTAATATCATATTATTCA
1 TATATTTTTT-ATAT-AT-TT-TT-A
* *
7090876 TATATTTTATTATAT-TATGTA
1 TATATTTT-TTATATATTTTTA
7090897 TATATTTT
1 TATATTTT
7090905 ATATCATCTC
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
21 19 0.40
22 5 0.11
23 3 0.06
24 3 0.06
25 2 0.04
26 13 0.28
27 2 0.04
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (21 bp):
TATATTTTTTATATATTTTTA
Found at i:7090880 original size:38 final size:37
Alignment explanation
Indices: 7090768--7090890 Score: 103
Period size: 36 Copynumber: 3.3 Consensus size: 37
7090758 CATTCCTTCC
* * *
7090768 ATATTTTTTTAT-TTATTTTAATACTCTTA-TATTATGT
1 ATATTTTTATATATT-TTTTAATA-TCATATTATTATAT
* * * *
7090805 ATATTATTAT-TATTTTTTTACTATTATATT-TTTTAT
1 ATATTTTTATATA-TTTTTTAATATCATATTATTATAT
7090841 ATATTTTTATATATTTTTTAATATCATATTATTCATAT
1 ATATTTTTATATATTTTTTAATATCATATTATT-ATAT
7090879 AT-TTTATTATAT
1 ATATTT-TTATAT
7090891 TATGTATATA
Statistics
Matches: 68, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
36 32 0.47
37 23 0.34
38 13 0.19
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (37 bp):
ATATTTTTATATATTTTTTAATATCATATTATTATAT
Found at i:7090907 original size:9 final size:9
Alignment explanation
Indices: 7090828--7090908 Score: 58
Period size: 9 Copynumber: 8.7 Consensus size: 9
7090818 TTTTTTACTA
*
7090828 TTATATTTT
1 TTATATATT
7090837 TTATATATTT
1 TTATATA-TT
7090847 TTATATATT
1 TTATATATT
* *
7090856 TTTTA-ATA
1 TTATATATT
*
7090864 TCATAT-TAT
1 TTATATAT-T
*
7090873 TCATATATT
1 TTATATATT
7090882 TTATTATATT
1 TTA-TATATT
7090892 ATGTATATATT
1 -T-TATATATT
7090903 TTATAT
1 TTATAT
7090909 CATCTCATGT
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
8 6 0.10
9 26 0.45
10 17 0.29
11 7 0.12
12 2 0.03
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.64
Consensus pattern (9 bp):
TTATATATT
Found at i:7090919 original size:23 final size:21
Alignment explanation
Indices: 7090799--7090906 Score: 70
Period size: 21 Copynumber: 5.2 Consensus size: 21
7090789 TACTCTTATA
7090799 TTATGTATATTAT-TAT-TATT
1 TTAT-TATATTATGTATATATT
* *
7090819 TT-TT-TACTAT-TATATTTT
1 TTATTATATTATGTATATATT
*
7090837 TTA-TATATT-TTTATATATTTT
1 TTATTATATTATGTATATA--TT
7090858 TTAATATCATATTAT-TCATATATT
1 TT-AT-T-ATATTATGT-ATATATT
7090882 TTATTATATTATGTATATATT
1 TTATTATATTATGTATATATT
7090903 TTAT
1 TTAT
7090907 ATCATCTCAT
Statistics
Matches: 71, Mismatches: 4, Indels: 25
0.71 0.04 0.25
Matches are distributed among these distances:
17 8 0.11
18 8 0.11
19 9 0.13
20 2 0.03
21 22 0.31
22 3 0.04
23 2 0.03
24 5 0.07
25 6 0.08
26 6 0.08
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (21 bp):
TTATTATATTATGTATATATT
Found at i:7090924 original size:23 final size:21
Alignment explanation
Indices: 7090877--7090925 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 21
7090867 TATTATTCAT
*
7090877 ATATTTTATTATATTATGTAT
1 ATATTTTATTATATTATGTAC
7090898 ATATTTTA-TATCATCTCATGTAC
1 ATATTTTATTAT-AT-T-ATGTAC
7090921 ATATT
1 ATATT
7090926 CTTGAATACT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 3 0.12
21 10 0.42
22 1 0.04
23 10 0.42
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (21 bp):
ATATTTTATTATATTATGTAC
Found at i:7091181 original size:3 final size:3
Alignment explanation
Indices: 7091173--7091241 Score: 113
Period size: 3 Copynumber: 23.3 Consensus size: 3
7091163 TACATACATC
7091173 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
7091221 TTA TTA GTA -TA TTT TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
7091242 ATATGTATAT
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
2 2 0.03
3 60 0.97
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7091258 original size:21 final size:21
Alignment explanation
Indices: 7091215--7091276 Score: 56
Period size: 25 Copynumber: 2.8 Consensus size: 21
7091205 ATTATTATTA
*
7091215 TTATTAT-TAT-TAGTATATTT
1 TTATTATATATGTA-TATATCT
7091235 TTATTATATATGTATATATCT
1 TTATTATATATGTATATATCT
7091256 TTAACATATATATATGTATAT
1 TT---AT-TATATATGTATAT
7091277 GTTTATGCAG
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
20 7 0.20
21 11 0.31
22 2 0.06
24 2 0.06
25 13 0.37
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.56
Consensus pattern (21 bp):
TTATTATATATGTATATATCT
Found at i:7091343 original size:2 final size:2
Alignment explanation
Indices: 7091336--7091362 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7091326 AATATGTATG
7091336 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7091363 TAACAACTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7091402 original size:25 final size:25
Alignment explanation
Indices: 7091352--7091436 Score: 77
Period size: 25 Copynumber: 3.4 Consensus size: 25
7091342 TATATATATA
* *
7091352 TATATATATATTAACAACTATATTATG
1 TATATAT-TTTTAAC-ACTATTTTATG
*
7091379 TATGTATTTTTAACACTATTTTATG
1 TATATATTTTTAACACTATTTTATG
*
7091404 TATATACTTTT-A-A-TATTATTATG
1 TATATATTTTTAACACTATT-TTATG
*
7091427 TATTTATTTT
1 TATATATTTT
7091437 AATATATATG
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
22 4 0.08
23 14 0.28
24 1 0.02
25 19 0.38
26 6 0.12
27 6 0.12
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (25 bp):
TATATATTTTTAACACTATTTTATG
Found at i:7091454 original size:20 final size:22
Alignment explanation
Indices: 7091174--7091455 Score: 75
Period size: 21 Copynumber: 12.9 Consensus size: 22
7091164 ACATACATCT
*
7091174 TATTATTAT-TAT-TATTATTAT
1 TATTATTATGTATATATT-TTAA
*
7091195 TATTATTAT-TAT-TATTATTAT
1 TATTATTATGTATATATT-TTAA
7091216 TATTATTAT-TAGTATATTTT--
1 TATTATTATGTA-TATATTTTAA
7091236 TATTATATATGTATATATCTTTAA
1 TATTAT-TATGTATATAT-TTTAA
* * *
7091260 CATATATATATGTATATGTTTATGCAG
1 TAT-TAT-TATGTATATATTT-T--AA
* **
7091287 TATTATTA-ATA-AT-TGTTTTG
1 TATTATTATGTATATAT-TTTAA
**
7091307 TAACATTAT-TAT-TATTTCTAA
1 TATTATTATGTATATATTT-TAA
* *
7091328 TA-T-GTATGTATATA-TAT-A
1 TATTATTATGTATATATTTTAA
* **
7091346 TA-TATATATATATATATTAACAA
1 TATTAT-TATGTATATATT-TTAA
*
7091369 CTA-TATTATGTATGTATTTTTAACA
1 -TATTATTATGTATATA-TTTT-A-A
7091394 CTATT-TTATGTATATACTTTTAA
1 -TATTATTATGTATATA-TTTTAA
*
7091417 TATTATTATGTATTTATTTTAA
1 TATTATTATGTATATATTTTAA
*
7091439 TA-TA-TATGTACATATTT
1 TATTATTATGTATATATTT
7091456 ATGTAGTATT
Statistics
Matches: 207, Mismatches: 25, Indels: 59
0.71 0.09 0.20
Matches are distributed among these distances:
18 4 0.02
19 4 0.02
20 42 0.20
21 49 0.24
22 23 0.11
23 28 0.14
24 15 0.07
25 35 0.17
26 4 0.02
27 3 0.01
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (22 bp):
TATTATTATGTATATATTTTAA
Found at i:7091454 original size:24 final size:22
Alignment explanation
Indices: 7091411--7091457 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
7091401 ATGTATATAC
**
7091411 TTTTAATATTATTATGTATTTA
1 TTTTAATATTATTACATATTTA
7091433 TTTTAATATATATGTACATATTTA
1 TTTTAATAT-TAT-TACATATTTA
7091457 T
1 T
7091458 GTAGTATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 3 0.14
24 9 0.43
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTAATATTATTACATATTTA
Found at i:7091560 original size:15 final size:15
Alignment explanation
Indices: 7091515--7091554 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
7091505 ATGTTCATTT
*
7091515 TATATATATTATGTG
1 TATATATATTATGTA
*
7091530 TACATATATTATGTA
1 TATATATATTATGTA
7091545 TATATATATT
1 TATATATATT
7091555 TAGTATTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (15 bp):
TATATATATTATGTA
Found at i:7118843 original size:147 final size:147
Alignment explanation
Indices: 7118544--7118811 Score: 396
Period size: 147 Copynumber: 1.8 Consensus size: 147
7118534 GGTAGAGAAA
* * *
7118544 AGAAAGGAATAGAGGGAACTGTAGTTGGGGTTATGGGGACTGAAGGAATGCTTGGCAGAGGGGGC
1 AGAAAGGAATAGAGGGAACTGCAATTGGGATTATGGGGACTGAAGGAATGCTTGGCAGAGGGGGC
* *** * *
7118609 AGTCCTCTTGGCAATGTGGTAGGAAGTGGAGGAAGCGCCCCAGGGTTTGGGAGATTAGGGAAATA
66 AGTCCTCTTGGCAATGTGGTAGGAAGTGGAGGAAGCACCCCAGGCCATGGGAGATGAGGGAAAGA
7118674 TGGCAATGGTGGAAAAG
131 TGGCAATGGTGGAAAAG
* * *
7118691 AGAAAGGAATATG-GGGAATTGCAATTGGGATTGTGGGGACTGAGGGAATGCTTGGCAGAGGGGG
1 AGAAAGGAATA-GAGGGAACTGCAATTGGGATTATGGGGACTGAAGGAATGCTTGGCAGAGGGGG
*
7118755 CAGTCCTGTTGGCAATGTGGTAGGAAGTGGAGGAAGCACCCCAGGCCATGGGA-ATGA
65 CAGTCCTCTTGGCAATGTGGTAGGAAGTGGAGGAAGCACCCCAGGCCATGGGAGATGA
7118812 TGGTCGGGAT
Statistics
Matches: 108, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
146 3 0.03
147 104 0.96
148 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.41, T:0.19
Consensus pattern (147 bp):
AGAAAGGAATAGAGGGAACTGCAATTGGGATTATGGGGACTGAAGGAATGCTTGGCAGAGGGGGC
AGTCCTCTTGGCAATGTGGTAGGAAGTGGAGGAAGCACCCCAGGCCATGGGAGATGAGGGAAAGA
TGGCAATGGTGGAAAAG
Found at i:7121040 original size:32 final size:32
Alignment explanation
Indices: 7120996--7121062 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
7120986 TACTCAATTG
* *
7120996 AATTTCCATACATACCTGTACCATCTCGTTCC
1 AATTTCCATACATACATGTACCATCTCGTGCC
* *
7121028 AATTTCCGTACATACATGTACCATCTTGTGCC
1 AATTTCCATACATACATGTACCATCTCGTGCC
7121060 AAT
1 AAT
7121063 CTCATACTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (32 bp):
AATTTCCATACATACATGTACCATCTCGTGCC
Found at i:7121204 original size:42 final size:41
Alignment explanation
Indices: 7121128--7121290 Score: 177
Period size: 42 Copynumber: 3.9 Consensus size: 41
7121118 TTGCTCGGGA
* * * * ** *
7121128 ATCTCGCACACTAAGTACAAATACGTAGATGAAGCTAAATCA
1 ATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCT-AATCG
*
7121170 ATCACGCACACTAAGTGCCAATGCATAGCCGAAGCT-ATCCTG
1 ATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTAAT-C-G
*
7121212 ATCTCACACACTAAGTGCCAATGCATAGCCGAAGCT-ATCCCG
1 ATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTAAT--CG
*
7121254 ATCTCGCACACTAAGTGCCAATGCATAGTCGAAGCTA
1 ATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTA
7121291 TCTCAAATAT
Statistics
Matches: 105, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
42 100 0.95
43 2 0.02
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.20
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTAATCG
Found at i:7121291 original size:42 final size:42
Alignment explanation
Indices: 7121174--7121292 Score: 211
Period size: 42 Copynumber: 2.8 Consensus size: 42
7121164 AAATCAATCA
*
7121174 CGCACACTAAGTGCCAATGCATAGCCGAAGCTATCCTGATCT
1 CGCACACTAAGTGCCAATGCATAGCCGAAGCTATCCCGATCT
*
7121216 CACACACTAAGTGCCAATGCATAGCCGAAGCTATCCCGATCT
1 CGCACACTAAGTGCCAATGCATAGCCGAAGCTATCCCGATCT
*
7121258 CGCACACTAAGTGCCAATGCATAGTCGAAGCTATC
1 CGCACACTAAGTGCCAATGCATAGCCGAAGCTATC
7121293 TCAAATATTT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.20
Consensus pattern (42 bp):
CGCACACTAAGTGCCAATGCATAGCCGAAGCTATCCCGATCT
Found at i:7124530 original size:147 final size:147
Alignment explanation
Indices: 7124220--7124494 Score: 428
Period size: 147 Copynumber: 1.9 Consensus size: 147
7124210 AACGAGAAGG
* * *
7124220 TGGTGGAGAAA-AGAAAGTAATAGAGGGAACTGTAGTTGGGGTTGTGGGGACTGAAGGAATGCTT
1 TGGTGGA-AAAGAGAAAGGAATAGAGGGAACTGCAGTTGGGATTGTGGGGACTGAAGGAATGCTT
**
7124284 GGCAGAGGGGGCAGTCCTCTTGGCAATGTGGTAGGAAGTGGAGGAAGCGCTCCAAGGTTTGGGAG
65 GGCAGAGGGGGCAGTCCTCTTGGCAATGTGGTAGGAAGTGGAGGAAGCGCTCCAAGGCATGGGAG
7124349 AATAGGGAAAGATGGCAA
130 AATAGGGAAAGATGGCAA
* * *
7124367 TGGTGGAAAAGAGAAAGGAATAGGGGGAATTGCAGTTGGGATTGTGGGGACTGAGGGAATGCTTG
1 TGGTGGAAAAGAGAAAGGAATAGAGGGAACTGCAGTTGGGATTGTGGGGACTGAAGGAATGCTTG
* *
7124432 GCAGAGGGGGCAGTCCTGTTGGCAATGTGGTAGGAAGTGGAGGAAGCGC-CCCAGGCCATGGGA
66 GCAGAGGGGGCAGTCCTCTTGGCAATGTGGTAGGAAGTGGAGGAAGCGCTCCAAGG-CATGGGA
7124495 ATGATGGTTG
Statistics
Matches: 116, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
146 8 0.07
147 108 0.93
ACGTcount: A:0.28, C:0.11, G:0.43, T:0.19
Consensus pattern (147 bp):
TGGTGGAAAAGAGAAAGGAATAGAGGGAACTGCAGTTGGGATTGTGGGGACTGAAGGAATGCTTG
GCAGAGGGGGCAGTCCTCTTGGCAATGTGGTAGGAAGTGGAGGAAGCGCTCCAAGGCATGGGAGA
ATAGGGAAAGATGGCAA
Found at i:7127366 original size:16 final size:16
Alignment explanation
Indices: 7127359--7127401 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
7127349 TTTCTTGTTT
7127359 TTCCTTTTCCTTTTTC
1 TTCCTTTTCCTTTTTC
*
7127375 TTCCTTCTCTACTTTTTC
1 TTCCTT-T-TCCTTTTTC
*
7127393 TTCTTTTTC
1 TTCCTTTTC
7127402 GATTTTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
16 7 0.32
17 2 0.09
18 13 0.59
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.67
Consensus pattern (16 bp):
TTCCTTTTCCTTTTTC
Found at i:7128142 original size:63 final size:62
Alignment explanation
Indices: 7128042--7128262 Score: 221
Period size: 63 Copynumber: 3.5 Consensus size: 62
7128032 GGGTTCATAT
* * * * *
7128042 GGCCAGGGACACGGGCGTATGCCTAGGCCATGTAACTCACTGTTTGGAGTGTAAAAACCACAC
1 GGCCAGGGACACAGGCGTGTGCCCAAGCCGTGTAACTCACTGTTTGGAGT-TAAAAACCACAC
* * * * *
7128105 AGCCAGGGACACGGGCGTGTGCCCAGGCCGTGTAACTCTCTGTTTGCAG-TATAAAACCACAC
1 GGCCAGGGACACAGGCGTGTGCCCAAGCCGTGTAACTCACTGTTTGGAGTTA-AAAACCACAC
* * * * * * *
7128167 GGTCAAGGACACAGGCATGTGCCCAAGCTGTGTAACTCAATGTTTGTG-CTTAAAAACCACAT
1 GGCCAGGGACACAGGCGTGTGCCCAAGCCGTGTAACTCACTGTTTG-GAGTTAAAAACCACAC
* *
7128229 GGCCAATGCACACAGGCGTGTGCCCAAGCCGTGT
1 GGCC-AGGGACACAGGCGTGTGCCCAAGCCGTGT
7128263 GGCAAGGTGT
Statistics
Matches: 131, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
61 2 0.02
62 59 0.45
63 70 0.53
ACGTcount: A:0.26, C:0.27, G:0.27, T:0.20
Consensus pattern (62 bp):
GGCCAGGGACACAGGCGTGTGCCCAAGCCGTGTAACTCACTGTTTGGAGTTAAAAACCACAC
Found at i:7128475 original size:20 final size:20
Alignment explanation
Indices: 7128450--7128488 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7128440 GGAACTATCA
*
7128450 TAGAATTAGGGGATTACAAT
1 TAGAATTAAGGGATTACAAT
7128470 TAGAATTAAGGGATTACAA
1 TAGAATTAAGGGATTACAA
7128489 CTAATTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (20 bp):
TAGAATTAAGGGATTACAAT
Found at i:7130947 original size:132 final size:133
Alignment explanation
Indices: 7130792--7131179 Score: 518
Period size: 131 Copynumber: 2.9 Consensus size: 133
7130782 AGAGAGTATG
* * * * * *
7130792 AGTGAAATTCTAAAGGAATCTTCGATCATTTTGGACAAACAG-GAAATAGAAACCCAGCACAATA
1 AGTGAAATTCTAAAGGGACCTTCGATTATTTTGGACAAACAGAGAAATTGCAACCCAGCACGATA
* * * * * *
7130856 GGGCACGATTCCCCGAATTGCCAAACATCGAATATTACCTTCGTTTTGAAGAGTTTTTAGAAA-A
66 GGGCACGATTCCGCGAATTGCCAAATATCAAATATTGCCTTCGTTTTAAAGAATTTTTA-AAAGA
7130920 CATA
130 CATA
* *
7130924 AGTGAAATTCAAAAGGGACCTTCGATTATTTTGAACAAA-AGAGAAATTGCAACCCAGCACGATA
1 AGTGAAATTCTAAAGGGACCTTCGATTATTTTGGACAAACAGAGAAATTGCAACCCAGCACGATA
* *
7130988 GGGCACGATTTCGCGAATTGCCAAATATCAAACATTGCCTTCG-TTTAAAGAATTTTTAAAAGAC
66 GGGCACGATTCCGCGAATTGCCAAATATCAAATATTGCCTTCGTTTTAAAGAATTTTTAAAAGAC
7131052 ATA
131 ATA
* * * *
7131055 GGTGAAATTCTAAAGGGACCTTCGATTACTTT-GAGCAAAC-GAGAAATTGCAACCCAACACGTT
1 AGTGAAATTCTAAAGGGACCTTCGATTATTTTGGA-CAAACAGAGAAATTGCAACCCAGCACGAT
* *
7131118 AGGGCACGATTCCGCGAATTGCCAAATATCAAATATCGCCTTCGTTTTAAAGAATTCTTAAA
65 AGGGCACGATTCCGCGAATTGCCAAATATCAAATATTGCCTTCGTTTTAAAGAATTTTTAAA
7131180 TAATTGTAAA
Statistics
Matches: 225, Mismatches: 26, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
130 4 0.02
131 115 0.51
132 106 0.47
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (133 bp):
AGTGAAATTCTAAAGGGACCTTCGATTATTTTGGACAAACAGAGAAATTGCAACCCAGCACGATA
GGGCACGATTCCGCGAATTGCCAAATATCAAATATTGCCTTCGTTTTAAAGAATTTTTAAAAGAC
ATA
Found at i:7146359 original size:131 final size:131
Alignment explanation
Indices: 7146218--7146556 Score: 439
Period size: 131 Copynumber: 2.6 Consensus size: 131
7146208 GGACACATAG
* * * * *
7146218 GAAATCGCAACCCAGCACAATAGGGCA-GATTCCCCAAATTGCCAAACATCGAATATTACCTTCG
1 GAAATTGCAACCCAGCACGATAGGGCACGATTCCGCGAATTGCCAAATATCGAATATTACCTTCG
* * * *
7146282 TTTTGAAGAGTTTTTAGAAA-ACATAAGTGAAATTCAAAAGGGACCTTCGATTATTTTGAACAAA
66 -TTTAAAGAATTTTTA-AAAGACATAAGTGAAATTCAAAAGGGACCTTCAATTACTTTGAACAAA
7146346 CGA
129 CGA
* *
7146349 GAAATTGCAACCCAGCACGATAGGGCACGATTCCGCGAATTGCCAAATATCGAACATTGCCTTCG
1 GAAATTGCAACCCAGCACGATAGGGCACGATTCCGCGAATTGCCAAATATCGAATATTACCTTCG
** ** *
7146414 TTTAAAGAATTTTTAAAAGACATGGGTGAAATTCTGAAGGGACCTTCAATTACTTTGAGCAAACG
66 TTTAAAGAATTTTTAAAAGACATAAGTGAAATTCAAAAGGGACCTTCAATTACTTTGAACAAACG
7146479 A
131 A
* * * ** *
7146480 GAAATTGCAACCCAACACGTTAGGGCACGATTTCGCGAATTGCCAAATATCGAATATCGCCTTTG
1 GAAATTGCAACCCAGCACGATAGGGCACGATTCCGCGAATTGCCAAATATCGAATATTACCTTCG
7146545 TTTTAAAGAATT
66 -TTTAAAGAATT
7146557 CATAAATAAT
Statistics
Matches: 183, Mismatches: 22, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
130 3 0.02
131 137 0.75
132 43 0.23
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (131 bp):
GAAATTGCAACCCAGCACGATAGGGCACGATTCCGCGAATTGCCAAATATCGAATATTACCTTCG
TTTAAAGAATTTTTAAAAGACATAAGTGAAATTCAAAAGGGACCTTCAATTACTTTGAACAAACG
A
Found at i:7147965 original size:2 final size:2
Alignment explanation
Indices: 7147958--7147996 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
7147948 GCATGTACAA
7147958 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7147997 GAAAATAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7149721 original size:18 final size:18
Alignment explanation
Indices: 7149698--7149732 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
7149688 TGGTGATTTT
7149698 ACTTAGTAGT-TTTACTTA
1 ACTTAGT-GTATTTACTTA
7149716 ACTTAGTGTATTTACTT
1 ACTTAGTGTATTTACTT
7149733 TTTGTAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.51
Consensus pattern (18 bp):
ACTTAGTGTATTTACTTA
Found at i:7160517 original size:47 final size:47
Alignment explanation
Indices: 7160464--7160557 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
7160454 GACGCAATGA
* * *
7160464 GGAATTGGTGAAGTTCAAGGTACCAAGCCGGTGGGGCTTGTTTGAGT
1 GGAATTGGTGAAGTTCAAGGTACCAAGCCGATGGGGCCTATTTGAGT
7160511 GGAATTGGTGAAGTTCAAGGTACCAAGCCGATGGGGCCTATTTGAGT
1 GGAATTGGTGAAGTTCAAGGTACCAAGCCGATGGGGCCTATTTGAGT
7160558 CCATATATAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.23, C:0.14, G:0.36, T:0.27
Consensus pattern (47 bp):
GGAATTGGTGAAGTTCAAGGTACCAAGCCGATGGGGCCTATTTGAGT
Found at i:7162196 original size:48 final size:48
Alignment explanation
Indices: 7162134--7162249 Score: 124
Period size: 48 Copynumber: 2.4 Consensus size: 48
7162124 AGATCCTGTA
** * *
7162134 TAAGACCACATCTAGGATATGGCATCAGCATTGACATGTGATCCCATG
1 TAAGACCATGTCTAGGACATGGCATCAGCATCGACATGTGATCCCATG
* ** * ** *
7162182 TAAGACCATGTCTAGGACATGGCTTTGGTATCGTTATGTGATTCCATG
1 TAAGACCATGTCTAGGACATGGCATCAGCATCGACATGTGATCCCATG
*
7162230 TAAGACCATGTCTGGGACAT
1 TAAGACCATGTCTAGGACAT
7162250 AACATTGGTA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (48 bp):
TAAGACCATGTCTAGGACATGGCATCAGCATCGACATGTGATCCCATG
Found at i:7162258 original size:48 final size:48
Alignment explanation
Indices: 7162169--7162267 Score: 153
Period size: 48 Copynumber: 2.1 Consensus size: 48
7162159 CAGCATTGAC
** *
7162169 ATGTGATCCCATGTAAGACCATGTCTAGGACATGGCTTTGGTATCGTT
1 ATGTGATCCCATGTAAGACCATGTCTAGGACATAACATTGGTATCGTT
* *
7162217 ATGTGATTCCATGTAAGACCATGTCTGGGACATAACATTGGTATCGTT
1 ATGTGATCCCATGTAAGACCATGTCTAGGACATAACATTGGTATCGTT
7162265 ATG
1 ATG
7162268 AGACATCGTG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (48 bp):
ATGTGATCCCATGTAAGACCATGTCTAGGACATAACATTGGTATCGTT
Found at i:7162280 original size:48 final size:48
Alignment explanation
Indices: 7162177--7162283 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 48
7162167 ACATGTGATC
** * * *
7162177 CCATGTAAGACCATGTCTAGGACATGGCTTTGGTATCGTTATGTGATT
1 CCATGTAAGACCATGTCTAGGACATAACATTGGTATCGTTATGAGAAT
*
7162225 CCATGTAAGACCATGTCTGGGACATAACATTGGTATCGTTATGAGACAT
1 CCATGTAAGACCATGTCTAGGACATAACATTGGTATCGTTATGAGA-AT
*
7162274 -CGTGTAAGAC
1 CCATGTAAGAC
7162284 TGTAGCTGGG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 50 0.98
49 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (48 bp):
CCATGTAAGACCATGTCTAGGACATAACATTGGTATCGTTATGAGAAT
Found at i:7162361 original size:48 final size:48
Alignment explanation
Indices: 7162308--7162400 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
7162298 TGGCTTCGAT
*
7162308 ATGTGTGATCCCATGTAAAACCATGTCTAGGACATGGCATTGGCATCA
1 ATGTGTGATCCCATGTAAAACCATATCTAGGACATGGCATTGGCATCA
* * *
7162356 ATGTGTGCTCCCATGTAAGACCATATCTAGGATATGGCATTGGCA
1 ATGTGTGATCCCATGTAAAACCATATCTAGGACATGGCATTGGCA
7162401 CCCTACCTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (48 bp):
ATGTGTGATCCCATGTAAAACCATATCTAGGACATGGCATTGGCATCA
Found at i:7164179 original size:29 final size:29
Alignment explanation
Indices: 7164137--7164195 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
7164127 CTAAGGGCAC
7164137 AAACAACTCCGCTTAATTATGACAAATGT
1 AAACAACTCCGCTTAATTATGACAAATGT
7164166 AAACAACTCCGCTTAATTATGACAAATGT
1 AAACAACTCCGCTTAATTATGACAAATGT
7164195 A
1 A
7164196 CTCTTAGACA
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:0.42, C:0.20, G:0.10, T:0.27
Consensus pattern (29 bp):
AAACAACTCCGCTTAATTATGACAAATGT
Found at i:7182478 original size:48 final size:48
Alignment explanation
Indices: 7182336--7182563 Score: 182
Period size: 48 Copynumber: 4.8 Consensus size: 48
7182326 GGGCTGATGA
* * * * * * *
7182336 GATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATTGA-CATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-TCATTATGT
* **
7182384 GATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATTGTTATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTATGT
* * *
7182432 GATTCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTATGT
* * * ** * *
7182480 GA-CATCGTGTAAGACCGTAG-CTGGGTTATCGGC-TTCG-AT-A-TGTGT
1 GATC-CCATGTAAGACCAT-GTCTGGGACAT-GGCATTGGCATCATTATGT
*
7182525 GATCCCATGTATGACCATGTCTGGGACATGGCATTGGCA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
7182564 CTGTAATATC
Statistics
Matches: 140, Mismatches: 32, Indels: 18
0.74 0.17 0.09
Matches are distributed among these distances:
44 4 0.03
45 25 0.18
46 3 0.02
47 3 0.02
48 101 0.72
49 4 0.03
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTATGT
Found at i:7183909 original size:46 final size:45
Alignment explanation
Indices: 7183853--7184027 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
7183843 TGGTTGAGCA
*
7183853 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
7183899 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAAG
* *
7183946 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
7183992 CCCGAGCTCGTTGAGTTAAGTCCGAGTTCACTTATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
7184028 TGCAAGTTAT
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 64 0.60
47 31 0.29
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:7184014 original size:93 final size:93
Alignment explanation
Indices: 7183850--7184020 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
7183840 GGATGGTTGA
* * * *
7183850 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGT
*
7183915 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TAAGTCCGAGTTCGTGAAATGTAACTAG
* *
7183943 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGT
7184008 TAAGTCCGAGTTC
66 TAAGTCCGAGTTC
7184021 ACTTATGTGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGT
TAAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:7189722 original size:25 final size:25
Alignment explanation
Indices: 7189692--7189739 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
7189682 TTATACCATG
* * *
7189692 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
7189717 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
7189740 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:7189808 original size:20 final size:20
Alignment explanation
Indices: 7189783--7189841 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
7189773 TAAATATGGT
7189783 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
7189803 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
7189823 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
7189842 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:7189919 original size:24 final size:24
Alignment explanation
Indices: 7189892--7190058 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
7189882 GAGGAAGTGA
7189892 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
7189916 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
7189940 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
7189964 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
7189987 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
7190011 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
7190035 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
7190059 ATGATAAAGC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 101 0.75
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:7190009 original size:71 final size:71
Alignment explanation
Indices: 7189892--7190059 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
7189882 GAGGAAGTGA
7189892 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
7189957 AGTTATC
65 AGTTATC
** *
7189964 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
7190029 GTTATT
66 GTTATC
*
7190035 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
7190060 TGATAAAGCA
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 54 0.61
72 35 0.39
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:7190285 original size:31 final size:31
Alignment explanation
Indices: 7190250--7190313 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
7190240 CGTTTACAGT
7190250 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* ** *
7190281 AAAGGCTTCGGTCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
7190312 AA
1 AA
7190314 CATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:7195423 original size:46 final size:45
Alignment explanation
Indices: 7195373--7195547 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
7195363 TGGTTGAGCA
7195373 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
7195419 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
7195465 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
7195511 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
7195548 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 98 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:7195527 original size:92 final size:92
Alignment explanation
Indices: 7195370--7195540 Score: 315
Period size: 92 Copynumber: 1.9 Consensus size: 92
7195360 GGATGGTTGA
* *
7195370 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
7195435 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
7195462 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
7195527 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
7195541 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:7198872 original size:2 final size:2
Alignment explanation
Indices: 7198865--7198905 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
7198855 TACTTTTGTT
7198865 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7198906 TAAAAGAGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7199418 original size:25 final size:26
Alignment explanation
Indices: 7199380--7199429 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
7199370 TCAAATATCT
7199380 CTTTTACATATTATTTATCTTAAACC
1 CTTTTACATATTATTTATCTTAAACC
* *
7199406 CTTTTATAT-TTATTTATTTTAAAC
1 CTTTTACATATTATTTATCTTAAAC
7199430 TATTTGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.56
Consensus pattern (26 bp):
CTTTTACATATTATTTATCTTAAACC
Found at i:7201100 original size:27 final size:27
Alignment explanation
Indices: 7201070--7201161 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
7201060 ATTACCAAAG
* *
7201070 TACCTTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* **
7201097 TACCCTTGATTTACAGAATTGTTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
7201124 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
7201151 TACCCTCGATT
1 TACCCTCGATT
7201162 GAGAAATTAC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:7201251 original size:27 final size:27
Alignment explanation
Indices: 7201193--7201400 Score: 145
Period size: 27 Copynumber: 7.7 Consensus size: 27
7201183 TGTAGGGTAG
*
7201193 AATTACCAAAATACCCCTAG-TTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
7201219 AATTACCAAAATACCATTAGTTTGTGA
1 AATTACCAAAATACCCTTAGTTTGTAA
* * *
7201246 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* **
7201273 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCTTAG-TTTGTAA
* *
7201300 AATTA-CAGAAATACCCTTGACTTTCTAAA
1 AATTACCA-AAATACCCTT-AGTTTGT-AA
* * * **
7201329 AATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCTTAGTTTGTAA
** * *
7201356 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
7201383 ATTTACCAAAACACCCTT
1 AATTACCAAAATACCCTT
7201401 GTAGGATGAA
Statistics
Matches: 142, Mismatches: 33, Indels: 13
0.76 0.18 0.07
Matches are distributed among these distances:
26 20 0.14
27 97 0.68
28 7 0.05
29 18 0.13
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAGTTTGTAA
Found at i:7202325 original size:25 final size:25
Alignment explanation
Indices: 7202291--7202349 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
7202281 GTGCTAAAAG
* *
7202291 GCCCCAGTTTACCGAAAAGGGCTTT
1 GCCCCAGTTTACCAAAAAAGGCTTT
*
7202316 GCCCCAGTTTATCAAAAAAGGCTTT
1 GCCCCAGTTTACCAAAAAAGGCTTT
* *
7202341 ACCCTAGTT
1 GCCCCAGTT
7202350 ATTAAAAGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (25 bp):
GCCCCAGTTTACCAAAAAAGGCTTT
Found at i:7202351 original size:24 final size:25
Alignment explanation
Indices: 7202292--7202362 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 25
7202282 TGCTAAAAGG
* * * *
7202292 CCCCAGTTTACCGAAAAGGGCTTTG
1 CCCCAGTTTATCAAAAAAGGCTTTA
7202317 CCCCAGTTTATCAAAAAAGGCTTTA
1 CCCCAGTTTATCAAAAAAGGCTTTA
* * *
7202342 CCCTAG-TTATTAAAAGAGGCT
1 CCCCAGTTTATCAAAAAAGGCT
7202363 AGGCCTCCAG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 13 0.33
25 26 0.67
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (25 bp):
CCCCAGTTTATCAAAAAAGGCTTTA
Found at i:7202556 original size:42 final size:42
Alignment explanation
Indices: 7202497--7202588 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
7202487 TAGTCTCCCC
* * *
7202497 AAATGGGCTTGTATACATTCATTGGTATTTCATGTGGTATTG
1 AAATGGGCTTGCATACATTCAATGATATTTCATGTGGTATTG
*
7202539 AAATGGGCTTGCATACATTCAATGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCAATGATATTTCATGTGGTATTG
7202581 AAATGGGC
1 AAATGGGC
7202589 CTATGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCAATGATATTTCATGTGGTATTG
Found at i:7202647 original size:31 final size:31
Alignment explanation
Indices: 7202612--7202695 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
7202602 CGTTTACAAT
7202612 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
7202643 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
7202674 AAAGGCTTCGGACCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
7202696 TCGAGACTGA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:7206384 original size:52 final size:47
Alignment explanation
Indices: 7206322--7206513 Score: 172
Period size: 47 Copynumber: 4.0 Consensus size: 47
7206312 GAAATCTGAT
* *
7206322 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-G-G---TGTGATATGTGC
* * *
7206374 TTCCGTATAAGAGCATATCCGGGATATGGCATCGGTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGC
* * **
7206421 TACTGTATAAGACCATATATGGGATATGGCATC-GTGTGATATGTG-
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGC
* * * * * *
7206466 ATCCGTGTAAGACCATGGCTGGGCTATGGCCTCGATATGTGATATGTG
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCG--GTGTGATATGTG
7206514 ACTATGTGCA
Statistics
Matches: 117, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
45 24 0.21
46 12 0.10
47 40 0.34
48 11 0.09
50 1 0.01
51 1 0.01
52 28 0.24
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.30
Consensus pattern (47 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGC
Found at i:7209093 original size:19 final size:19
Alignment explanation
Indices: 7209071--7209116 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
7209061 CTTCCTTTCT
7209071 TTTGCATT-CATTCCATACA
1 TTTGCATTGCATTCCAT-CA
*
7209090 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATTCCATCA
7209109 TTTGCATT
1 TTTGCATT
7209117 AAACTTTCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.46
Consensus pattern (19 bp):
TTTGCATTGCATTCCATCA
Found at i:7211225 original size:12 final size:12
Alignment explanation
Indices: 7211199--7211253 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
7211189 GGAAAAGGAA
*
7211199 AAAAATAAAAA-
1 AAAAAGAAAAAG
*
7211210 AAAAAGAATAAG
1 AAAAAGAAAAAG
7211222 AAAAAGAAAAAG
1 AAAAAGAAAAAG
* *
7211234 AAGAAGAAGAAG
1 AAAAAGAAAAAG
*
7211246 AAGAAGAA
1 AAAAAGAA
7211254 GAACCCAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
11 9 0.24
12 29 0.76
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:7211226 original size:18 final size:18
Alignment explanation
Indices: 7211205--7211256 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
7211195 GGAAAAAAAT
*
7211205 AAAAAAAAAAGAATAAGA
1 AAAAAAAAAAGAAGAAGA
*
7211223 AAAAGAAAAAGAAGAAGA
1 AAAAAAAAAAGAAGAAGA
* * *
7211241 AGAAGAAGAAGAAGAA
1 AAAAAAAAAAGAAGAA
7211257 CCCAATAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAAGAAGAAGA
Found at i:7211239 original size:3 final size:3
Alignment explanation
Indices: 7211213--7211256 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
7211203 ATAAAAAAAA
* * *
7211213 AAG AAT AAG AAA AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
7211257 CCCAATAACA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:7213048 original size:64 final size:64
Alignment explanation
Indices: 7212961--7213088 Score: 184
Period size: 64 Copynumber: 2.0 Consensus size: 64
7212951 TCATTCATGA
* * * *
7212961 CACATTTAGTTAGGAGCACTTGATCCATTTCGATCATAACATTCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAACACTTGATCCATTTCAATCATAACATCCTAATTATTTGACATAAGCAT
* * * *
7213025 CACATCTAGTTAGGAACATTTGATTCATTTCAATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAACACTTGATCCATTTCAATCATAACATCCTAATTATTTGACATAAGCAT
7213089 AGGCCTATGA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (64 bp):
CACATCTAGTTAGGAACACTTGATCCATTTCAATCATAACATCCTAATTATTTGACATAAGCAT
Found at i:7213349 original size:133 final size:133
Alignment explanation
Indices: 7213111--7213878 Score: 1112
Period size: 133 Copynumber: 5.8 Consensus size: 133
7213101 CCGATTCTAC
* * * * *
7213111 AGATCTTGTCTCCCTAAAGTTGCAGTGGTGCAGATCGAAGACGGTGAATCTTGTCTTCCTGGAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAAACGGTGAATCTTGTCTTCCTGAAGT
* * *
7213176 TACAGTGAAGCAGATTTAAGCCACTATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
*
7213241 TTT
131 TGT
* * * * *
7213244 AGATCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAAATGGTAAATCTTGTCTTCCTGAAGA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAAACGGTGAATCTTGTCTTCCTGAAGT
* * *
7213309 TGCAGTAAAGCAGATTTAAGCCACCATCCTATCTCTCTAAAGTTGTAGTGAAGTAGGCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
7213374 TGT
131 TGT
* * * * * *
7213377 AGATCTTGTCTCCCTAAAATTGCAGTGGAACAAATCGAAGATGGTGAATCTTATCTTCCTGAAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAAACGGTGAATCTTGTCTTCCTGAAGT
*
7213442 TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGAAGTAGGCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
7213507 TGT
131 TGT
* **
7213510 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAGACGGCAAATCTTGTCTTCCTGAAGT
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAAACGGTGAATCTTGTCTTCCTGAAGT
*
7213575 TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTAGAGTAGGCTGAAGAT
66 TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
7213640 TGT
131 TGT
* * * * *
7213643 AGATTTTGTCTCCCTGAAGTTGCAGTGGAGAAAATC-AAAGACAGTGAAT-TTATCTTACTGAAG
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAA-ACGGTGAATCTTGTCTTCCTGAAG
* *
7213706 TTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCT-AAGTCGTAGTGGAGTAGACTGAAGA
65 TTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
*
7213770 TAGT
130 TTGT
* *
7213774 AGATCTTGCCTCCCTGAAGTTGCAGTGGAGCAGATC-AAAGACGGTGAATCTTGTCTTCCTGAAG
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAA-ACGGTGAATCTTGTCTTCCTGAAG
* * * *
7213838 TTGTAGTGAAGCAGATTTAAGCCATCATTCTATCTCACTAA
65 TTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAA
7213879 GCAGTAATGG
Statistics
Matches: 574, Mismatches: 58, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
131 69 0.12
132 100 0.17
133 405 0.71
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (133 bp):
AGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAAATCGAAAACGGTGAATCTTGTCTTCCTGAAGT
TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAT
TGT
Found at i:7213530 original size:45 final size:45
Alignment explanation
Indices: 7213473--7213669 Score: 125
Period size: 45 Copynumber: 4.4 Consensus size: 45
7213463 CACCATCCTA
* * * * *
7213473 TCTCCCTAAAGTTGTAGTGAAGTAGGCTGAAGATTGTAGATCTTG
1 TCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGATTGCAGATCTTG
* * ** *
7213518 TCTCCCTGAAGTTGCAGTGGAGCA-AATCGAAGACGGCAAATCTTG
1 TCTCCCTGAAGTTGCAGTGAAGCAGACT-GAAGATTGCAGATCTTG
* * * * * * *
7213563 TCTTCCTGAAGTTGCAGTGAAGCAGATTTAAG---CCACCATCCTA
1 TCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGATTGCA-GATCTTG
* * * * * *
7213606 TCTCCCTAAAGTTGTAGT-AGAGTAGGCTGAAGATTGTAGATTTTG
1 TCTCCCTGAAGTTGCAGTGA-AGCAGACTGAAGATTGCAGATCTTG
7213651 TCTCCCTGAAGTTGCAGTG
1 TCTCCCTGAAGTTGCAGTG
7213670 GAGAAAATCA
Statistics
Matches: 111, Mismatches: 33, Indels: 15
0.70 0.21 0.09
Matches are distributed among these distances:
42 3 0.03
43 27 0.24
44 1 0.01
45 77 0.69
46 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (45 bp):
TCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGATTGCAGATCTTG
Found at i:7214140 original size:44 final size:45
Alignment explanation
Indices: 7214087--7214239 Score: 179
Period size: 44 Copynumber: 3.4 Consensus size: 45
7214077 CTATAAACCT
* *
7214087 TATCCCCCTGAAATTGCAGTGGTGTA-GG-TTAAAGTTATGAGTCC
1 TATCTCCCTGAAATTGCAGTGG-GAACGGATTAAAGTTATGAGTCC
7214131 TATCTCCCTGAAATTGCAGT-GGAACGGATTAAAGTTATGAGTCC
1 TATCTCCCTGAAATTGCAGTGGGAACGGATTAAAGTTATGAGTCC
* * * * * *
7214175 TATCTCCCTGAAATTACAGT-GGAACAGATTGAAGATAGTGAATCT
1 TATCTCCCTGAAATTGCAGTGGGAACGGATTAAAGTTA-TGAGTCC
*
7214220 TATCTCTCTGAAATTGCAGT
1 TATCTCCCTGAAATTGCAGT
7214240 AGAGCAGGTT
Statistics
Matches: 96, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 68 0.71
45 23 0.24
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (45 bp):
TATCTCCCTGAAATTGCAGTGGGAACGGATTAAAGTTATGAGTCC
Found at i:7214233 original size:45 final size:44
Alignment explanation
Indices: 7214087--7214298 Score: 167
Period size: 44 Copynumber: 4.8 Consensus size: 44
7214077 CTATAAACCT
* *** * * * *
7214087 TATCCCCCTGAAATTGCAGTGGTGTAGGTTAAAGTTATGAGTCC
1 TATCTCCCTGAAATTGCAGTGGAACAGATTGAAGATATGAATCC
* * * *
7214131 TATCTCCCTGAAATTGCAGTGGAACGGATTAAAGTTATGAGTCC
1 TATCTCCCTGAAATTGCAGTGGAACAGATTGAAGATATGAATCC
* *
7214175 TATCTCCCTGAAATTACAGTGGAACAGATTGAAGATAGTGAATCT
1 TATCTCCCTGAAATTGCAGTGGAACAGATTGAAGATA-TGAATCC
* * * * * * *
7214220 TATCTCTCTGAAATTGCAGTAGAGCAGGTTGAAGTTA-CAAGTCT
1 TATCTCCCTGAAATTGCAGTGGAACAGATTGAAGATATGAA-TCC
* * *
7214264 TATCTCCCT-AAAGTGGCAGTCGAATAGATTGAAGA
1 TATCTCCCTGAAA-TTGCAGTGGAACAGATTGAAGA
7214299 AAGCAGGTCT
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
43 5 0.04
44 98 0.71
45 36 0.26
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (44 bp):
TATCTCCCTGAAATTGCAGTGGAACAGATTGAAGATATGAATCC
Found at i:7214255 original size:89 final size:89
Alignment explanation
Indices: 7214131--7214326 Score: 209
Period size: 89 Copynumber: 2.2 Consensus size: 89
7214121 TTATGAGTCC
* * ** *
7214131 TATCTCCCTGAAATTGCAGTGGAACGGATTAAAGTTATGAGTCCTATCTCCCTGAAA-TTACAGT
1 TATCTCTCTGAAATTGCAGTAGAACGGATTAAAGTTACAAGTCCTATCTCCCT-AAAGTGACAGT
* * *
7214195 GGAACAGATTGAAGATAG-TGAATCT
65 CGAACAGATTGAAGAAAGCAG-ATCT
* * * *
7214220 TATCTCTCTGAAATTGCAGTAGAGCAGG-TTGAAGTTACAAGTCTTATCTCCCTAAAGTGGCAGT
1 TATCTCTCTGAAATTGCAGTAGAAC-GGATTAAAGTTACAAGTCCTATCTCCCTAAAGTGACAGT
* *
7214284 CGAATAGATTGAAGAAAGCAGGTCT
65 CGAACAGATTGAAGAAAGCAGATCT
*
7214309 TATCTCTTTGAAATTGCA
1 TATCTCTCTGAAATTGCA
7214327 ATGGAACAGA
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
88 3 0.03
89 83 0.93
90 3 0.03
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (89 bp):
TATCTCTCTGAAATTGCAGTAGAACGGATTAAAGTTACAAGTCCTATCTCCCTAAAGTGACAGTC
GAACAGATTGAAGAAAGCAGATCT
Found at i:7216643 original size:2 final size:2
Alignment explanation
Indices: 7216636--7216663 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7216626 CATTTTAACT
7216636 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7216664 GCACAAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7224114 original size:2 final size:2
Alignment explanation
Indices: 7224107--7224134 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7224097 CATTTTAACT
7224107 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7224135 GCACAAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7226258 original size:2 final size:2
Alignment explanation
Indices: 7226251--7226285 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7226241 TACTTTTGTT
7226251 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7226286 TAAAAGAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7226396 original size:2 final size:2
Alignment explanation
Indices: 7226386--7226420 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
7226376 TCACACATTG
*
7226386 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7226421 AAATTGAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:7226794 original size:26 final size:26
Alignment explanation
Indices: 7226765--7226815 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
7226755 TCAAATATCT
7226765 CTTTTACATATTATTTATCTTAAACC
1 CTTTTACATATTATTTATCTTAAACC
* *
7226791 CTTTTATATATTATTTATTTTAAAC
1 CTTTTACATATTATTTATCTTAAAC
7226816 TATTTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (26 bp):
CTTTTACATATTATTTATCTTAAACC
Found at i:7235145 original size:17 final size:18
Alignment explanation
Indices: 7235119--7235152 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7235109 CTTAGTCAAT
7235119 TTTTTCTTT-CCCTTAGC
1 TTTTTCTTTCCCCTTAGC
*
7235136 TTTTTGTTTCCCCTTAG
1 TTTTTCTTTCCCCTTAG
7235153 AGGATGAGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.06, C:0.26, G:0.09, T:0.59
Consensus pattern (18 bp):
TTTTTCTTTCCCCTTAGC
Found at i:7240343 original size:145 final size:147
Alignment explanation
Indices: 7240071--7240343 Score: 399
Period size: 145 Copynumber: 1.9 Consensus size: 147
7240061 AACGAGAAGG
* *
7240071 TGGTGGAGAAAAGAAAGGAATAGAGGGAACTGCAGTTGGGATTGTGGGGACTAAGGGAATGCTTG
1 TGGTGGAGAAAAGAAAGGAATAGAGGGAACTGCAATTGGGATTGTGGGGACTAACGGAATGCTTG
** * **
7240136 GCAGAGGGGGTAGTCCTCTTGGCAATGTGGTAGGAAATGGAGGAAGCGCCCCAGGGTTTGGGAGA
66 GCAGAGGGGACAGTCCTCTTGGCAATGTGGTAGGAAATGGAGGAAACGCCCCAGGGCATGGGAGA
7240201 TTAGGGAAAGATGGCAA
131 TTAGGGAAAGATGGCAA
* * * *
7240218 TGGTGGAGAAGAGAAAGGAATAG-GGGGATTGCAATTGGGATTGT-GGGACTGACGGAATGCTTG
1 TGGTGGAGAAAAGAAAGGAATAGAGGGAACTGCAATTGGGATTGTGGGGACTAACGGAATGCTTG
* *
7240281 GCAGAGGGGACAGTCCTGTTGGCAATGTGGTAGGAAGTGGAGGAAACGCCCC-GGGCCATGGGA
66 GCAGAGGGGACAGTCCTCTTGGCAATGTGGTAGGAAATGGAGGAAACGCCCCAGGG-CATGGGA
7240344 ATGATGGTCG
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
144 3 0.03
145 69 0.62
146 18 0.16
147 22 0.20
ACGTcount: A:0.28, C:0.11, G:0.42, T:0.19
Consensus pattern (147 bp):
TGGTGGAGAAAAGAAAGGAATAGAGGGAACTGCAATTGGGATTGTGGGGACTAACGGAATGCTTG
GCAGAGGGGACAGTCCTCTTGGCAATGTGGTAGGAAATGGAGGAAACGCCCCAGGGCATGGGAGA
TTAGGGAAAGATGGCAA
Found at i:7240852 original size:2 final size:2
Alignment explanation
Indices: 7240845--7240869 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7240835 ATTTTATAAC
7240845 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
7240870 TAATTTTAAT
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:7251072 original size:23 final size:23
Alignment explanation
Indices: 7251046--7251099 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
7251036 AAGAAGCAAA
7251046 TAGGGTTCGCATATTACTATATG
1 TAGGGTTCGCATATTACTATATG
*
7251069 TAGGGTTGGCATATTACTATATG
1 TAGGGTTCGCATATTACTATATG
7251092 TAGGGTTC
1 TAGGGTTC
7251100 ACATGTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (23 bp):
TAGGGTTCGCATATTACTATATG
Found at i:7253155 original size:22 final size:21
Alignment explanation
Indices: 7253111--7253156 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 21
7253101 TATTTACTAA
7253111 TTAATTCCTATAATAGATGTT
1 TTAATTCCTATAATAGATGTT
7253132 TTAATTCCTTTATAATA-ATGTT
1 TTAATTCC--TATAATAGATGTT
7253154 TTA
1 TTA
7253157 GTTAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.35
22 8 0.35
23 7 0.30
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.52
Consensus pattern (21 bp):
TTAATTCCTATAATAGATGTT
Found at i:7253305 original size:13 final size:13
Alignment explanation
Indices: 7253287--7253334 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
7253277 TACCAAACAC
7253287 TCAAATCAATTAA
1 TCAAATCAATTAA
7253300 TCAAATCAATTAA
1 TCAAATCAATTAA
*
7253313 T-AGAATTAATTAA
1 TCA-AATCAATTAA
*
7253326 TTAAATCAA
1 TCAAATCAA
7253335 CTACTACAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 1 0.03
13 29 0.94
14 1 0.03
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.33
Consensus pattern (13 bp):
TCAAATCAATTAA
Found at i:7255859 original size:63 final size:63
Alignment explanation
Indices: 7255746--7255876 Score: 154
Period size: 63 Copynumber: 2.1 Consensus size: 63
7255736 TGGTAAGTCG
* * * * *
7255746 TGTAACTCACTGTTTGGGAAATAGAGTCACATGAGCCAAAGGCATGGGCATGTGTCTAAACCA
1 TGTAACTCACTGTTTGGGAAATAGAGTCACACGAGCCAAAGACATAGGCATCTGTCCAAACCA
* * * * * * *
7255809 TGTAACTCACTGTTTTGGAATTAGATTCATACGGGCCAGAGACATAGGCATCTGTCCAAGCCA
1 TGTAACTCACTGTTTGGGAAATAGAGTCACACGAGCCAAAGACATAGGCATCTGTCCAAACCA
7255872 TGTAA
1 TGTAA
7255877 GAGAATTTTT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (63 bp):
TGTAACTCACTGTTTGGGAAATAGAGTCACACGAGCCAAAGACATAGGCATCTGTCCAAACCA
Found at i:7257691 original size:15 final size:15
Alignment explanation
Indices: 7257667--7257696 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7257657 ATACTGCAAT
7257667 GCACTACACCGCACC
1 GCACTACACCGCACC
*
7257682 GCACTGCACCGCACC
1 GCACTACACCGCACC
7257697 CCACCAACCA
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:0.23, C:0.53, G:0.17, T:0.07
Consensus pattern (15 bp):
GCACTACACCGCACC
Found at i:7260054 original size:17 final size:16
Alignment explanation
Indices: 7260034--7260067 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7260024 ATATATATAT
7260034 ATATAACAAAAGAAAGA
1 ATATAA-AAAAGAAAGA
*
7260051 ATATAAATAAGAAAGA
1 ATATAAAAAAGAAAGA
7260067 A
1 A
7260068 ACAGATCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.71, C:0.03, G:0.12, T:0.15
Consensus pattern (16 bp):
ATATAAAAAAGAAAGA
Found at i:7260060 original size:21 final size:20
Alignment explanation
Indices: 7260030--7260068 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
7260020 TTTTATATAT
*
7260030 ATATATATAACAAAAGAAAGA
1 ATATAAATAA-AAAAGAAAGA
*
7260051 ATATAAATAAGAAAGAAA
1 ATATAAATAAAAAAGAAA
7260069 CAGATCGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.69, C:0.03, G:0.10, T:0.18
Consensus pattern (20 bp):
ATATAAATAAAAAAGAAAGA
Done.