Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 153 of 175
Found at i:46209697 original size:16 final size:16
Alignment explanation
Indices: 46209673--46209710 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
46209663 TTTGGTTCAC
* *
46209673 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
46209689 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
46209705 TGTAAT
1 TGTAAT
46209711 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:46209740 original size:45 final size:44
Alignment explanation
Indices: 46209689--46209783 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
46209679 GGATTAGAGG
*
46209689 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
46209734 TGTAATGGAATAGAGGCGTAATAGTAATCCTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
46209778 TGTAAT
1 TGTAAT
46209784 AGATGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 22 0.49
45 23 0.51
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:46209965 original size:18 final size:17
Alignment explanation
Indices: 46209944--46209978 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46209934 TTATTATTAA
*
46209944 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
46209962 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
46209979 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:46210044 original size:155 final size:157
Alignment explanation
Indices: 46209831--46210145 Score: 562
Period size: 155 Copynumber: 2.0 Consensus size: 157
46209821 TAGAATACCC
*
46209831 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
46209896 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTACTATTAAATATATTATAATTAAAA
46209961 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
46209988 TTAGCAGAAATTTGTTTTGGTAAATTA-T-TTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
46210051 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTACTATTAAATATATTATAATTAAAT
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTACTATTAAATATATTATAATTAAAA
46210116 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
46210143 TTA
1 TTA
46210146 ATATTCTTAA
Statistics
Matches: 152, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
155 126 0.83
156 1 0.01
157 25 0.16
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTACTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:46210217 original size:120 final size:121
Alignment explanation
Indices: 46210082--46210374 Score: 450
Period size: 120 Copynumber: 2.4 Consensus size: 121
46210072 ATCATATTTA
* *
46210082 AACATAATTACTATTAAATATATTATAATTAAATTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTAATATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
46210147 TATTCTTAAATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT-
66 TATTCTTAAATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAACTTG
* * *
46210202 AACATAACTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAT
1 AACATAATTAATATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
46210267 TATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAAGAAAACTTG
66 TATTCTTAAATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAACTTG
*
46210323 AA-ATAATTAATATTAAATATATT-TAAATTAAAATATATGATTTAATAAAATT
1 AACATAATTAATATTAAATATATTAT-AATTAAAATATATAATTTAATAAAATT
46210375 TAAAATAATT
Statistics
Matches: 159, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
119 4 0.03
120 153 0.96
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTAATATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTAAATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAACTTG
Found at i:46210428 original size:101 final size:93
Alignment explanation
Indices: 46210323--46210597 Score: 285
Period size: 91 Copynumber: 2.9 Consensus size: 93
46210313 AGAAAACTTG
* *
46210323 AAATAATTAATATTAAATAT-ATTTAAATTAA-AATATATGATTTAATAAAATTTAAAATAATTA
1 AAATAATTAATATTAAATATAATTT-AA-TAATAATATATAATTTCATAAAATTT----T--TT-
* * *
46210386 TAACTAATAAATTATATTTTATGAATTTGTATAATTTA
57 TAA-TAATAAATTATATTATATGAATTTATACAATTTA
* *
46210424 AAATAATAAATATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTTTTAATAATAA
1 AAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTTTTAATAATAA
* *
46210487 ATTTTCTTATATGAATTTATACAATTTA
66 ATTATATTATATGAATTTATACAATTTA
* *
46210515 AAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTTAATAATAA
1 AAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTTTTAATAAT-A
*
46210578 AATGT-TCTTATATGAATTTA
65 AAT-TATATTATATGAATTTA
46210598 CTAAAATCAA
Statistics
Matches: 157, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
91 86 0.55
92 22 0.14
93 3 0.02
95 1 0.01
99 1 0.01
100 3 0.02
101 37 0.24
102 4 0.03
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (93 bp):
AAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTTTTAATAATAA
ATTATATTATATGAATTTATACAATTTA
Found at i:46210481 original size:27 final size:27
Alignment explanation
Indices: 46210418--46210488 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
46210408 GAATTTGTAT
*
46210418 AATTTAA-AATAATAAATATTACATAT
1 AATTTAATAATAATAAATATTACATAA
* *
46210444 AATTTAATAATAATATATAATTTCATAA
1 AATTTAATAATAATAAAT-ATTACATAA
*
46210472 AATTT-TTAATAATAAAT
1 AATTTAATAATAATAAAT
46210489 TTTCTTATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
26 7 0.18
27 19 0.50
28 12 0.32
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (27 bp):
AATTTAATAATAATAAATATTACATAA
Found at i:46210485 original size:91 final size:91
Alignment explanation
Indices: 46210390--46210597 Score: 301
Period size: 91 Copynumber: 2.3 Consensus size: 91
46210380 TAATTATAAC
* * * *
46210390 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAATAAATATTACATATAATTTAATAAT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATAAATATTAAATATAATTTAATAAT
*
46210455 AATATATAATTTCATAAAATTTTTAA
66 AATATATAATTTCATAAAATTCTTAA
* * *
46210481 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATAAATATTAAATATAATTTAATAAT
*
46210546 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
46210572 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
46210598 CTAAAATCAA
Statistics
Matches: 106, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
91 86 0.81
92 19 0.18
93 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATAAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:46210489 original size:24 final size:26
Alignment explanation
Indices: 46210418--46210490 Score: 71
Period size: 28 Copynumber: 2.8 Consensus size: 26
46210408 GAATTTGTAT
*
46210418 AATTTAA-AATAATAAATATTACATAT
1 AATTTAATAATAATAAAT-TTACATAA
46210444 AATTTAATAATAATATATAATTT-CATAA
1 AATTTAATAAT-A-ATA-AATTTACATAA
*
46210472 AATTT-TTAATAATAAATTT
1 AATTTAATAATAATAAATTT
46210491 TCTTATATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
24 5 0.12
25 3 0.07
26 8 0.20
27 7 0.17
28 10 0.24
29 5 0.12
30 3 0.07
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (26 bp):
AATTTAATAATAATAAATTTACATAA
Found at i:46210557 original size:44 final size:43
Alignment explanation
Indices: 46210371--46210557 Score: 128
Period size: 44 Copynumber: 4.1 Consensus size: 43
46210361 GATTTAATAA
* * * *
46210371 AATTTAAAATAATTATAACTAATAAAT-TATATTTTATGAATTTGTAT
1 AATTTAAAATAA-T-TAA-TATTAAATATA-ATTTAAT-AATATATAT
* *
46210418 AATTTAAAATAATAAATATTACATATAATTTAATAATAATATAT
1 AATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATATAT
** * * * *
46210462 AATTTCATAAAATTTTTAATAATAAAT-T-TTCTTATATGAATTTATAC
1 AA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATATAT
46210509 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATAT
1 AATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATATAT
46210553 AATTT
1 AATTT
46210558 CATAAAATTC
Statistics
Matches: 109, Mismatches: 20, Indels: 25
0.71 0.13 0.16
Matches are distributed among these distances:
43 6 0.06
44 46 0.42
45 11 0.10
46 8 0.07
47 35 0.32
48 3 0.03
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (43 bp):
AATTTAAAATAATTAATATTAAATATAATTTAATAATATATAT
Found at i:46210572 original size:47 final size:47
Alignment explanation
Indices: 46210422--46210578 Score: 137
Period size: 47 Copynumber: 3.4 Consensus size: 47
46210412 TTGTATAATT
* * * * *
46210422 TAAAATAATAAATATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
* * * *
46210469 TAAAATTTTTAATAATAAAT-T--TTCTTAT-ATGAATTTATACAATT--
1 TAAAATTATTAATAATAAATATAATT-TAATAATG-ATATATA-ATTTCA
* *
46210513 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
*
46210560 TAAAATTCTTAATAATAAA
1 TAAAATTATTAATAATAAA
46210579 ATGTTCTTAT
Statistics
Matches: 83, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
44 21 0.25
45 13 0.16
46 13 0.16
47 36 0.43
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (47 bp):
TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
Found at i:46212020 original size:11 final size:11
Alignment explanation
Indices: 46212006--46212032 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
46211996 AAAAATCAAT
46212006 ACAAAAGTTTC
1 ACAAAAGTTTC
46212017 ACAAAAGTTTC
1 ACAAAAGTTTC
46212028 ACAAA
1 ACAAA
46212033 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:46217319 original size:19 final size:19
Alignment explanation
Indices: 46217297--46217357 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
46217287 ACAGGAAAAT
46217297 AAAAAAATTAAAAAAGTGA
1 AAAAAAATTAAAAAAGTGA
**
46217316 AAAAAAATTAGCAAA---A
1 AAAAAAATTAAAAAAGTGA
*
46217332 AAAAAAACTAAAAAAGTGA
1 AAAAAAATTAAAAAAGTGA
46217351 AAAAAAA
1 AAAAAAA
46217358 AAATTGGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 13 0.38
19 21 0.62
ACGTcount: A:0.77, C:0.03, G:0.08, T:0.11
Consensus pattern (19 bp):
AAAAAAATTAAAAAAGTGA
Found at i:46217462 original size:28 final size:29
Alignment explanation
Indices: 46217393--46217462 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
46217383 GACAATAGCT
* * *
46217393 TTTTCCTTGCATTTAAATGTTTTTATGTT
1 TTTTCCTTGCATTTAAATGTCTTAATGTC
*
46217422 TTTTCCATGCATTT-AATGTCTTAATGTC
1 TTTTCCTTGCATTTAAATGTCTTAATGTC
*
46217450 TTTTCCTTACATT
1 TTTTCCTTGCATT
46217463 CAACACTGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
28 22 0.63
29 13 0.37
ACGTcount: A:0.19, C:0.16, G:0.09, T:0.57
Consensus pattern (29 bp):
TTTTCCTTGCATTTAAATGTCTTAATGTC
Found at i:46218074 original size:20 final size:20
Alignment explanation
Indices: 46218019--46218077 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
46218009 ACACATTAAC
46218019 ATATATAAAAATAAAATAAAT
1 ATATATAAAAATAAAA-AAAT
46218040 ATATA-AAAAAT-AAAAAAT
1 ATATATAAAAATAAAAAAAT
**
46218058 ATATATAAATCTAAAAAAAT
1 ATATATAAAAATAAAAAAAT
46218078 TGTAAATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 9 0.26
19 7 0.21
20 13 0.38
21 5 0.15
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
ATATATAAAAATAAAAAAAT
Found at i:46218307 original size:19 final size:20
Alignment explanation
Indices: 46218283--46218329 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
46218273 TTTAATTATT
46218283 TTTTTATAATATT-TTTTGA-
1 TTTTTA-AATATTATTTTGAC
*
46218302 TTTTTAGATATTATTTTGAC
1 TTTTTAAATATTATTTTGAC
46218322 TTTTTAAA
1 TTTTTAAA
46218330 ATTTAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.21
19 12 0.50
20 7 0.29
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (20 bp):
TTTTTAAATATTATTTTGAC
Found at i:46218576 original size:19 final size:18
Alignment explanation
Indices: 46218532--46218580 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 18
46218522 AATATTATAA
46218532 TTTA-TTTTTATAATATT
1 TTTATTTTTTATAATATT
*
46218549 TTTCCATTTTTGTATATTATT
1 TTT--ATTTTT-TATAATATT
46218570 TTTATTTTTTA
1 TTTATTTTTTA
46218581 AAATTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
17 3 0.11
18 2 0.07
19 7 0.26
20 4 0.15
21 11 0.41
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTATTTTTTATAATATT
Found at i:46218626 original size:16 final size:16
Alignment explanation
Indices: 46218596--46218627 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46218586 TAAAATTATA
*
46218596 TATTTTTAAATTTTTT
1 TATTTTTAAACTTTTT
46218612 TATTTTTAAACTTTTT
1 TATTTTTAAACTTTTT
46218628 AAAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTTTTAAACTTTTT
Found at i:46229006 original size:25 final size:24
Alignment explanation
Indices: 46228971--46229082 Score: 93
Period size: 25 Copynumber: 4.5 Consensus size: 24
46228961 GACACACCAC
*
46228971 AGCTCGTATGAGCTTCCCATTATTA
1 AGCTCGCATGAGCTTCCCATT-TTA
*
46228996 AGCTCGCATGAGCTTCTCGA-TTTA
1 AGCTCGCATGAGCTTC-CCATTTTA
* *
46229020 CAGCTCGCATGAGCTTCCCTTTTTTC
1 -AGCTCGCATGAGCTTCCC-ATTTTA
* * *
46229046 AGCTCACATGAGTTTCCC-GTTTA
1 AGCTCGCATGAGCTTCCCATTTTA
*
46229069 CAGCTCGTATGAGC
1 -AGCTCGCATGAGC
46229083 ATACATGTAC
Statistics
Matches: 70, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
23 3 0.04
24 14 0.20
25 48 0.69
26 5 0.07
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.34
Consensus pattern (24 bp):
AGCTCGCATGAGCTTCCCATTTTA
Found at i:46229032 original size:50 final size:49
Alignment explanation
Indices: 46228969--46229082 Score: 156
Period size: 50 Copynumber: 2.3 Consensus size: 49
46228959 CGGACACACC
* *
46228969 ACAGCTCGTATGAGCTTCCCATTATTAAGCTCGCATGAGCTTCTCGATTT
1 ACAGCTCGTATGAGCTTCCCATTATTAAGCTCACATGAGCTTCCCG-TTT
* * * * *
46229019 ACAGCTCGCATGAGCTTCCCTTTTTTCAGCTCACATGAGTTTCCCGTTT
1 ACAGCTCGTATGAGCTTCCCATTATTAAGCTCACATGAGCTTCCCGTTT
46229068 ACAGCTCGTATGAGC
1 ACAGCTCGTATGAGC
46229083 ATACATGTAC
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 17 0.30
50 39 0.70
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.33
Consensus pattern (49 bp):
ACAGCTCGTATGAGCTTCCCATTATTAAGCTCACATGAGCTTCCCGTTT
Found at i:46240557 original size:16 final size:18
Alignment explanation
Indices: 46240536--46240572 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
46240526 TACACACGTT
46240536 ATATTA-TCA-AAATTTA
1 ATATTATTCATAAATTTA
*
46240552 ATATTATTCATTAATTTA
1 ATATTATTCATAAATTTA
46240570 ATA
1 ATA
46240573 ACATTACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 3 0.17
18 9 0.50
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATTATTCATAAATTTA
Found at i:46240815 original size:22 final size:22
Alignment explanation
Indices: 46240789--46240839 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
46240779 TGTTTGCTGC
*
46240789 CATTTTGATATTGT-TTAGCTAT
1 CATTTTGATATTATATTA-CTAT
*
46240811 CATTTTGCTATTATATTACTAT
1 CATTTTGATATTATATTACTAT
*
46240833 TATTTTG
1 CATTTTG
46240840 TTGTTATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.57
Consensus pattern (22 bp):
CATTTTGATATTATATTACTAT
Found at i:46242732 original size:42 final size:42
Alignment explanation
Indices: 46242673--46242756 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
46242663 CACTTTCGTC
46242673 CATGCAAAATGTGTATAAATGTGGTTTCAACACCAATCGGTT
1 CATGCAAAATGTGTATAAATGTGGTTTCAACACCAATCGGTT
* *
46242715 CATGCATAATGTGTATAAATGTTGTTTCAACACCAATCGGTT
1 CATGCAAAATGTGTATAAATGTGGTTTCAACACCAATCGGTT
46242757 AGCTAGAGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (42 bp):
CATGCAAAATGTGTATAAATGTGGTTTCAACACCAATCGGTT
Found at i:46245003 original size:20 final size:20
Alignment explanation
Indices: 46244980--46245030 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
46244970 TCTCAACAAA
*
46244980 AATTACAAAAAATTCAAAAT
1 AATTATAAAAAATTCAAAAT
* *
46245000 AATTTTTAAAAATTCAAAAT
1 AATTATAAAAAATTCAAAAT
*
46245020 ATTTATAAAAA
1 AATTATAAAAA
46245031 TTACAAAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTATAAAAAATTCAAAAT
Found at i:46245037 original size:20 final size:20
Alignment explanation
Indices: 46244987--46245038 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
46244977 AAAAATTACA
*
46244987 AAAAATTCAAAATAATTTTT
1 AAAAATTCAAAATAATTTAT
46245007 AAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTTAT
46245026 AAAAATTACAAAA
1 AAAAATT-CAAAA
46245039 ATTATATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:46249593 original size:17 final size:18
Alignment explanation
Indices: 46249559--46249593 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
46249549 ACTGCACGAC
46249559 CTCATGCAAATTACCAAAG
1 CTCATGCAAA-TACCAAAG
46249578 CTCATGCAAA-ACCAAA
1 CTCATGCAAATACCAAA
46249594 ATGAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.46, C:0.29, G:0.09, T:0.17
Consensus pattern (18 bp):
CTCATGCAAATACCAAAG
Found at i:46250370 original size:10 final size:11
Alignment explanation
Indices: 46250336--46250369 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
46250326 TTGGCCCGCC
46250336 TATATTAATTTT
1 TATA-TAATTTT
46250348 TATATAATTTT
1 TATATAATTTT
46250359 TATATAATTTT
1 TATATAATTTT
46250370 AAAATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATATAATTTT
Found at i:46250531 original size:30 final size:30
Alignment explanation
Indices: 46250495--46250553 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
46250485 CTTAACAATC
46250495 AAATGTCTCTAAAATAATAACAAAATTAAA
1 AAATGTCTCTAAAATAATAACAAAATTAAA
*
46250525 AAATGTCTTTAAAATAATAACAAAATTAA
1 AAATGTCTCTAAAATAATAACAAAATTAA
46250554 CAATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATGTCTCTAAAATAATAACAAAATTAAA
Found at i:46252986 original size:7 final size:6
Alignment explanation
Indices: 46252943--46252985 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
46252933 AAACTGTTTG
* *
46252943 TATTCTT TATTTT TATTTT TATTTT TGTTTT T-CTTT TATTTT T
1 TATT-TT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT T
46252986 TTAAAAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
5 4 0.12
6 24 0.75
7 4 0.12
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:46253633 original size:3 final size:3
Alignment explanation
Indices: 46253625--46253700 Score: 73
Period size: 3 Copynumber: 25.3 Consensus size: 3
46253615 ATTATCATCT
* * * *
46253625 TTA TTA TTA TTA TTG TTT TTA TTA TCT- TTA CTA TTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * *
46253670 TTA TTA TTA ATA TTA TTG TTA TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
46253701 GTTTTTATTT
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
2 1 0.02
3 56 0.97
4 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:46253900 original size:17 final size:17
Alignment explanation
Indices: 46253875--46253909 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
46253865 TATATATATA
*
46253875 TTATTTTATTTTATTTT
1 TTATCTTATTTTATTTT
46253892 TTATCTTATTTTATTTT
1 TTATCTTATTTTATTTT
46253909 T
1 T
46253910 ATAATTCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (17 bp):
TTATCTTATTTTATTTT
Found at i:46255156 original size:33 final size:33
Alignment explanation
Indices: 46255119--46255186 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
46255109 ATATAAATAT
46255119 GTATACATATATTCGTGAGAAAAAAAGAAAAAA
1 GTATACATATATTCGTGAGAAAAAAAGAAAAAA
46255152 GTATACATATATTCGTGAGAAAAAAAGAAAAAA
1 GTATACATATATTCGTGAGAAAAAAAGAAAAAA
46255185 GT
1 GT
46255187 TATATAGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.56, C:0.06, G:0.16, T:0.22
Consensus pattern (33 bp):
GTATACATATATTCGTGAGAAAAAAAGAAAAAA
Found at i:46255208 original size:33 final size:33
Alignment explanation
Indices: 46255119--46255201 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
46255109 ATATAAATAT
* * *
46255119 GTATACATATATTCGTGAGAAAAAAAGAAAAAA
1 GTATACAGATATACATGAGAAAAAAAGAAAAAA
* * *
46255152 GTATACATATATTCGTGAGAAAAAAAGAAAAAA
1 GTATACAGATATACATGAGAAAAAAAGAAAAAA
*
46255185 GTTATATAGATATACAT
1 G-TATACAGATATACAT
46255202 ATAAAAAGGT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 34 0.76
34 11 0.24
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.25
Consensus pattern (33 bp):
GTATACAGATATACATGAGAAAAAAAGAAAAAA
Found at i:46255328 original size:20 final size:20
Alignment explanation
Indices: 46255294--46255342 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
46255284 AAACTATCGT
* *
46255294 ATAATAATATGATAA-ATAAA
1 ATAATAAAATAATAATAT-AA
*
46255314 ATAATAAAATAATAATATTA
1 ATAATAAAATAATAATATAA
46255334 ATAATAAAA
1 ATAATAAAA
46255343 GATGATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
ATAATAAAATAATAATATAA
Found at i:46257271 original size:173 final size:173
Alignment explanation
Indices: 46256975--46257320 Score: 611
Period size: 173 Copynumber: 2.0 Consensus size: 173
46256965 AAAATTTATG
* *
46256975 ATCCTCCCATTGCATTTTATTTGTTTTGAATTATAGTTTTCATGATGTTTTGTATTTTAAATTTT
1 ATCCTCCCATTGCATTTTATTTGTTTTGAATTATAGTTTTCATCATGTTTTGCATTTTAAATTTT
* *
46257040 TATATCTCCACTCATTGCATTGTATGACCGTTGGTCACACCTTTTTAAGTGGGAGTGAGAAGCTA
66 TATATCTCCACTCATTGCATTGCATGACCGTTGGTCACACCTTTTTAAGTGGGAGTGAGAAACTA
*
46257105 CTCCTTCGTGAGGTTTTCACCTCCGTTCAGGATAGTGGATCGC
131 CTCCTTCGTGAGGTTTTCACCTCCGTGCAGGATAGTGGATCGC
* *
46257148 ATCCTCTCATTGCATTTTCTTTGTTTTGAATTATAGTTTTCATCATGTTTTGCATTTTAAATTTT
1 ATCCTCCCATTGCATTTTATTTGTTTTGAATTATAGTTTTCATCATGTTTTGCATTTTAAATTTT
*
46257213 TATATCTCCACTCATTGCATTGCATGACTGTTGGTCACACCTTTTTAAGTGGGAGTGAGAAACTA
66 TATATCTCCACTCATTGCATTGCATGACCGTTGGTCACACCTTTTTAAGTGGGAGTGAGAAACTA
*
46257278 CTCTTTCGTGAGGTTTTCACCTCCGTGCAGGATAGTGGATCGC
131 CTCCTTCGTGAGGTTTTCACCTCCGTGCAGGATAGTGGATCGC
46257321 TTTCGGGATA
Statistics
Matches: 164, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
173 164 1.00
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (173 bp):
ATCCTCCCATTGCATTTTATTTGTTTTGAATTATAGTTTTCATCATGTTTTGCATTTTAAATTTT
TATATCTCCACTCATTGCATTGCATGACCGTTGGTCACACCTTTTTAAGTGGGAGTGAGAAACTA
CTCCTTCGTGAGGTTTTCACCTCCGTGCAGGATAGTGGATCGC
Found at i:46258114 original size:19 final size:19
Alignment explanation
Indices: 46258090--46258136 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
46258080 ACGTCTCTTT
*
46258090 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
46258109 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
46258128 TATGCATTA
1 TTTGCATTA
46258137 GATTTTTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:46260064 original size:27 final size:27
Alignment explanation
Indices: 46260034--46260089 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
46260024 TCTTTGATTC
*
46260034 TTTTATTCTTTTCGATTTTCTTCCAAA
1 TTTTATTCTTTTAGATTTTCTTCCAAA
46260061 TTTTATTCTTTTAGATTTTCTTCCAAA
1 TTTTATTCTTTTAGATTTTCTTCCAAA
46260088 TT
1 TT
46260090 AATCTTGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.16, G:0.04, T:0.61
Consensus pattern (27 bp):
TTTTATTCTTTTAGATTTTCTTCCAAA
Found at i:46260945 original size:52 final size:48
Alignment explanation
Indices: 46260883--46261000 Score: 130
Period size: 51 Copynumber: 2.3 Consensus size: 48
46260873 AATTTATTTT
* * *
46260883 AAAAATTAAAATAAAAA-TTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTAAAA-AAAAATTTAAAAAAA--A-TTAAAAAAAAATTTAAAATT-A
*
46260935 AAAAATTAAAAAAAAGTATTTTAAAAAAATTAAAAAAAAATTTAAAATTA
1 AAAAATTAAAAAAAA--ATTTAAAAAAAATTAAAAAAAAATTTAAAATTA
46260985 AAAAATTAAAAAAAAA
1 AAAAATTAAAAAAAAA
46261001 GCATTTTAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
48 1 0.02
50 16 0.27
51 21 0.36
52 12 0.20
53 1 0.02
54 8 0.14
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (48 bp):
AAAAATTAAAAAAAAATTTAAAAAAAATTAAAAAAAAATTTAAAATTA
Found at i:46260957 original size:41 final size:42
Alignment explanation
Indices: 46260877--46261031 Score: 143
Period size: 41 Copynumber: 3.5 Consensus size: 42
46260867 ACCAAAAATT
46260877 TATTTTAAAAATTAAAATAAAAATT-AAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT-AAA-AAAAATTAAAAAAAAGTATTTTAAAAA
46260921 TATTTTAAAATT-AAAAAAATTAAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAA
* ** * *
46260962 AATTAAAAAAAAATTTAAAATTAAAAAATTAAAAAAAAAGCATTTTAAAAG
1 TATT---TTAAAA-TTAAAA--AA--AATT-AAAAAAAAGTATTTTAAAAA
46261013 TATTTTAAAATTAAAAAAA
1 TATTTTAAAATTAAAAAAA
46261032 TAAATAAAAA
Statistics
Matches: 92, Mismatches: 8, Indels: 23
0.75 0.07 0.19
Matches are distributed among these distances:
40 7 0.08
41 24 0.26
43 7 0.08
44 10 0.11
45 4 0.04
46 3 0.03
47 6 0.07
48 6 0.07
50 4 0.04
51 21 0.23
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (42 bp):
TATTTTAAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAA
Found at i:46261877 original size:1 final size:1
Alignment explanation
Indices: 46261873--46261963 Score: 56
Period size: 1 Copynumber: 91.0 Consensus size: 1
46261863 TAAAAATTGT
* * * * * * * * * * * *
46261873 AAAAAAAAAGAAGAAAAAAAAAGAAGAAAAAAAAAGAGAGAGAAAAAAGAAAAAGAAAGAAAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
46261938 AAAAAAAAAAAAAGAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
46261964 GGAGAGGCCA
Statistics
Matches: 62, Mismatches: 28, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (1 bp):
A
Found at i:46261889 original size:10 final size:9
Alignment explanation
Indices: 46261876--46261963 Score: 74
Period size: 9 Copynumber: 9.8 Consensus size: 9
46261866 AAATTGTAAA
46261876 AAAAAAGAAG
1 AAAAAA-AAG
46261886 AAAAAAAAAG
1 -AAAAAAAAG
*
46261896 AAGAAAAA-
1 AAAAAAAAG
* *
46261904 AAAAGAGAG
1 AAAAAAAAG
*
46261913 AGAAAAAAG
1 AAAAAAAAG
46261922 AAAAAGAAAG
1 AAAAA-AAAG
*
46261932 AAAAAGAA-
1 AAAAAAAAG
46261940 AAAAAAAA-
1 AAAAAAAAG
*
46261948 AAAGAAAAG
1 AAAAAAAAG
46261957 AAAAAAA
1 AAAAAAA
46261964 GGAGAGGCCA
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
8 19 0.31
9 25 0.40
10 12 0.19
11 6 0.10
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:46261889 original size:13 final size:13
Alignment explanation
Indices: 46261873--46261961 Score: 110
Period size: 13 Copynumber: 6.7 Consensus size: 13
46261863 TAAAAATTGT
46261873 AAAAAAAAAGAAG
1 AAAAAAAAAGAAG
46261886 AAAAAAAAAGAAG
1 AAAAAAAAAGAAG
46261899 AAAAAAAAAGAGAG
1 AAAAAAAAAGA-AG
*
46261913 AGAAAAAAGAAAAAG
1 A-AAAAAA-AAGAAG
*
46261928 AAAGAAAAAGAA-
1 AAAAAAAAAGAAG
46261940 AAAAAAAAA-AAG
1 AAAAAAAAAGAAG
46261952 AAAAGAAAAA
1 AAAA-AAAAA
46261962 AAGGAGAGGC
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
11 2 0.03
12 12 0.18
13 33 0.49
14 8 0.12
15 9 0.13
16 3 0.04
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAAG
Found at i:46261925 original size:19 final size:17
Alignment explanation
Indices: 46261873--46261963 Score: 83
Period size: 15 Copynumber: 5.8 Consensus size: 17
46261863 TAAAAATTGT
*
46261873 AAAAAAAAAGAAGAAAA-
1 AAAAAGAAAGAA-AAAAG
46261890 AAAAAG-AAGAAAAAA-
1 AAAAAGAAAGAAAAAAG
* *
46261905 AAAGAGAGAGAAAAAAG
1 AAAAAGAAAGAAAAAAG
46261922 AAAAAGAAAG-AAAAAG
1 AAAAAGAAAGAAAAAAG
46261938 -AAAA-AAA-AAAAAAG
1 AAAAAGAAAGAAAAAAG
46261952 -AAAAGAAA-AAAA
1 AAAAAGAAAGAAAA
46261964 GGAGAGGCCA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
14 13 0.20
15 20 0.31
16 19 0.29
17 13 0.20
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAGAAAAAAG
Found at i:46261936 original size:42 final size:42
Alignment explanation
Indices: 46261873--46261963 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
46261863 TAAAAATTGT
* *
46261873 AAAAAAAAAGAAGAAAAAAAAAG-AAGAAAAAAAAAGAGAGAG
1 AAAAAAAAAGAAGAAAAAAAAAGAAAAAAAAAAAAAGA-AAAG
*
46261915 AAAAAAGAAA-AAGAAAGAAAAAGAAAAAAAAAAAAAGAAAAG
1 AAAAAA-AAAGAAGAAAAAAAAAGAAAAAAAAAAAAAGAAAAG
46261957 AAAAAAA
1 AAAAAAA
46261964 GGAGAGGCCA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
41 1 0.02
42 27 0.61
43 16 0.36
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (42 bp):
AAAAAAAAAGAAGAAAAAAAAAGAAAAAAAAAAAAAGAAAAG
Found at i:46263381 original size:49 final size:48
Alignment explanation
Indices: 46263254--46263887 Score: 302
Period size: 49 Copynumber: 12.8 Consensus size: 48
46263244 ATACCATAGT
* ** * *
46263254 TTGCAATTTAAAAGATTGAAGCCACAATGGCGAATCTTACTTTCCCAGGCG
1 TTGCAA-TTAAAAGATTGAAGCCACAACGGCGAATCTCGC-TTCCC-GACA
* * * * * * *
46263305 GTGTAGTGGAACAGATTGAAGCTACAACGGCAAATCTCGCTTCCTCGACA
1 TTGCAAT-TAAAAGATTGAAGCCACAACGGCGAATCTCGCTTCC-CGACA
* ** * *
46263355 TTGCAATTAAAAGATTGATGCCACAACGGCGAATCTTACTTTCCCAGGCG
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTCGC-TTCCC-GACA
* * * * *
46263405 GTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCCTCGACA
1 TTGCAAT-TAAAAGATTGAAGCCACAACGGCGAATCTCGCTTCC-CGACA
* * ** * *
46263455 TTGCAATTAAAAGATTGAGGCCACAACGGTGAATCTTACTTTACCAGGCA
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTCGC-TT-CCCGACA
* * * * *
46263505 GTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACA
1 TTGCAAT-TAAAAGATTGAAGCCACAACGGCGAATCTCGCTT-CCCGACA
* * ** ** *
46263555 TTGCAATTAAAAGATTGAGGCCACAATGGCGAATCTTACTTCTAGGCGA
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTCGCTTCCCGAC-A
*** * * * * * *
46263604 -TGCAGCGGAACAGATTGAAGTCACAACAGCGGATCTAGCTTTCCCGTCA
1 TTGCA-ATTAAAAGATTGAAGCCACAACGGCGAATCTCGC-TTCCCGACA
** * * * ** * *
46263653 TTGCGTTTAAAAAGATTGAAGCTACAATGGTGAATCTTACTTCCAAGAGA
1 TTGCAATT-AAAAGATTGAAGCCACAACGGCGAATCTCGCTTCC-CGACA
*** * * * * *
46263703 -TGCAGCGGAACAGATTGAAGCTACGACGGTGAATCTTGCTTCCCTGACA
1 TTGCA-ATTAAAAGATTGAAGCCACAACGGCGAATCTCGCTTCCC-GACA
* * * ** **
46263752 TTGTAATTAAAAGATTGAGGCCACAACGGCGAAACTTACTTTCCC-AGG
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTCGC-TTCCCGACA
* * * * *
46263800 TGGTGCAGTGGAACAGATTGAAGTCACAACGGCGAATCTCGCTTCCCCGTCA
1 T--TGCAAT-TAAAAGATTGAAGCCACAACGGCGAATCTCGCTT-CCCGACA
* *
46263852 TTACAATTAAACGATTGAAGCCACAACGGCGAATCT
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCT
46263888 TACCTTCCTA
Statistics
Matches: 419, Mismatches: 140, Indels: 50
0.69 0.23 0.08
Matches are distributed among these distances:
48 9 0.02
49 193 0.46
50 105 0.25
51 111 0.26
52 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (48 bp):
TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTCGCTTCCCGACA
Found at i:46263808 original size:297 final size:299
Alignment explanation
Indices: 46263254--46263929 Score: 925
Period size: 297 Copynumber: 2.3 Consensus size: 299
46263244 ATACCATAGT
* * *
46263254 TTGCAATTTAAAAGATTGAAGCCACAATGGCGAATCTTACTTTCCCAGGCGGTGTAGTGGAACAG
1 TTGCAA-TTAAAAGATTGAAGCCACAATGGCGAATCTTAC-TTCCTAGGCGATGCAGTGGAACAG
* * *
46263319 ATTGAAGCTACAACGGCAAATCTCGCTTCCTCGACATTGCAATTAAAAGATTGATGCCACAACGG
64 ATTGAAGCTACAACAGCAAATCTAGCTTCCTCGACATTGCAATTAAAAGATTGAAGCCACAACGG
* * * *
46263384 CGAATCTTACTTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCC
129 CGAATCTTACTTTCCCAAGAGATGCAGCGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCC
* *
46263449 TCGACATTGCAATTAAAAGATTGAGGCCACAACGGTGAATCTTACTTTACCAGGCAGTGCAGTGG
194 TCGACATTGCAATTAAAAGATTGAGGCCACAACGGCGAAACTTACTTTACCAGGCAGTGCAGTGG
46263514 AACAGATTGAAG-CTACAACGGCGAATCTCGCTTCCCCGACA
259 AACAGATTGAAGTC-ACAACGGCGAATCTCGCTTCCCCGACA
* *
46263555 TTGCAATTAAAAGATTGAGGCCACAATGGCGAATCTTACTT-CTAGGCGATGCAGCGGAACAGAT
1 TTGCAATTAAAAGATTGAAGCCACAATGGCGAATCTTACTTCCTAGGCGATGCAGTGGAACAGAT
** * ** * *
46263619 TGAAG-TCACAACAGCGGATCTAGCTTTCC-CGTCATTGCGTTTAAAAAGATTGAAGCTACAATG
66 TGAAGCT-ACAACAGCAAATCTAGC-TTCCTCGACATTGCAATT-AAAAGATTGAAGCCACAACG
* * * *
46263682 GTGAATCTTAC-TT-CCAAGAGATGCAGCGGAACAGATTGAAGCTACGACGGTGAATCTTGCTTC
128 GCGAATCTTACTTTCCCAAGAGATGCAGCGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTC
* * **
46263745 C-CTGACATTGTAATTAAAAGATTGAGGCCACAACGGCGAAACTTACTTTCCCAGGTGGTGCAGT
193 CTC-GACATTGCAATTAAAAGATTGAGGCCACAACGGCGAAACTTACTTTACCAGGCAGTGCAGT
*
46263809 GGAACAGATTGAAGTCACAACGGCGAATCTCGCTTCCCCGTCA
257 GGAACAGATTGAAGTCACAACGGCGAATCTCGCTTCCCCGACA
* * * *
46263852 TTACAATTAAACGATTGAAGCCACAACGGCGAATCTTACCTTCCTAGGCGATGCAGTGGAATAGA
1 TTGCAATTAAAAGATTGAAGCCACAATGGCGAATCTTA-CTTCCTAGGCGATGCAGTGGAACAGA
46263917 TTGAAGCTACAAC
65 TTGAAGCTACAAC
46263930 GACGAATCTT
Statistics
Matches: 331, Mismatches: 36, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
296 1 0.00
297 174 0.53
298 53 0.16
299 64 0.19
300 33 0.10
301 6 0.02
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (299 bp):
TTGCAATTAAAAGATTGAAGCCACAATGGCGAATCTTACTTCCTAGGCGATGCAGTGGAACAGAT
TGAAGCTACAACAGCAAATCTAGCTTCCTCGACATTGCAATTAAAAGATTGAAGCCACAACGGCG
AATCTTACTTTCCCAAGAGATGCAGCGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCCTC
GACATTGCAATTAAAAGATTGAGGCCACAACGGCGAAACTTACTTTACCAGGCAGTGCAGTGGAA
CAGATTGAAGTCACAACGGCGAATCTCGCTTCCCCGACA
Found at i:46263946 original size:100 final size:100
Alignment explanation
Indices: 46263254--46263954 Score: 887
Period size: 100 Copynumber: 7.0 Consensus size: 100
46263244 ATACCATAGT
* * *
46263254 TTGCAATTTAAAAGATTGAAGCCACAATGGCGAATCTTACTTTCCCAGGCGGTGTAGTGGAACAG
1 TTGCAA-TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGTGGAACAG
* *
46263319 ATTGAAGCTACAACGGCAAATCTCGCTTCCTCGACA
65 ATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACA
* *
46263355 TTGCAATTAAAAGATTGATGCCACAACGGCGAATCTTACTTTCCCAGGCGGTGCAGTGGAACAGA
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGTGGAACAGA
*
46263420 TTGAAGCTACAACGGCGAATCTCGCTTCCTCGACA
66 TTGAAGCTACAACGGCGAATCTCGCTTCCCCGACA
* * *
46263455 TTGCAATTAAAAGATTGAGGCCACAACGGTGAATCTTACTTTACCAGGC-AGTGCAGTGGAACAG
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGA-TGCAGTGGAACAG
46263519 ATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACA
65 ATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACA
* * * *
46263555 TTGCAATTAAAAGATTGAGGCCACAATGGCGAATCTTAC-TT-CTAGGCGATGCAGCGGAACAGA
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGTGGAACAGA
* * * * *
46263618 TTGAAG-TCACAACAGCGGATCTAGCTTTCCCGTCA
66 TTGAAGCT-ACAACGGCGAATCTCGCTTCCCCGACA
** * * * * * *
46263653 TTGCGTTTAAAAAGATTGAAGCTACAATGGTGAATCTTAC-TT-CCAAGAGATGCAGCGGAACAG
1 TTGCAATT-AAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGTGGAACAG
* * * *
46263716 ATTGAAGCTACGACGGTGAATCTTGCTTCCCTGACA
65 ATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACA
* * * * *
46263752 TTGTAATTAAAAGATTGAGGCCACAACGGCGAAACTTACTTTCCCAGGTGGTGCAGTGGAACAGA
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGTGGAACAGA
*
46263817 TTGAAG-TCACAACGGCGAATCTCGCTTCCCCGTCA
66 TTGAAGCT-ACAACGGCGAATCTCGCTTCCCCGACA
* * * * *
46263852 TTACAATTAAACGATTGAAGCCACAACGGCGAATCTTACCTTCCTAGGCGATGCAGTGGAATAGA
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGTGGAACAGA
* *
46263917 TTGAAGCTACAACGACGAATCTTC-TTTCCCCGACA
66 TTGAAGCTACAACGGCGAATC-TCGCTTCCCCGACA
46263952 TTG
1 TTG
46263955 TAATCTCATT
Statistics
Matches: 525, Mismatches: 65, Indels: 21
0.86 0.11 0.03
Matches are distributed among these distances:
97 1 0.00
98 78 0.15
99 85 0.16
100 352 0.67
101 9 0.02
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (100 bp):
TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGATGCAGTGGAACAGA
TTGAAGCTACAACGGCGAATCTCGCTTCCCCGACA
Found at i:46264087 original size:172 final size:172
Alignment explanation
Indices: 46263801--46264126 Score: 379
Period size: 172 Copynumber: 1.9 Consensus size: 172
46263791 TTTCCCAGGT
* * ** *
46263801 GGTGCAGTGGAACAGATTGAAGTCACAACGGCGAATCTCGCTTCCCCGTCATTACAATTAAACGA
1 GGTGCAGCGGAACAGATTGAAGTCACAACGGCGAATCTCGCTTCCCCGACATTACAACCAAAAGA
** * * * *
46263866 TTGAAGCCACAACGGCGAATCTTACCTTCCTAGGCGATGCAGTGGAATAGATTGAAGCTACAACG
66 TTGAAGCCACAACAACGAATCTCACCTTCCTAGGCGATGCAATGGAATAGATTAAAGCCACAACG
46263931 ACGAATCTT-CTTTCCCCGACATTGTAATCTCATTTCCCTAGC
131 ACGAATCTTGCTTT-CCCGACATTGTAATCTCATTTCCCTAGC
* * * * * * * *
46263973 GGTGCAGCGGAATAGATTGAAGTTACGATGGTGAATCTCGTTTCCCCGACATTGCAGCCAAATAG
1 GGTGCAGCGGAACAGATTGAAGTCACAACGGCGAATCTCGCTTCCCCGACATTACAACCAAA-AG
* * *
46264038 ATTGAAGCTATAACAACGAATCTCA-CTTCTCT-GGCGATGTAATGGAATAGATTAAAGCCACAA
65 ATTGAAGCCACAACAACGAATCTCACCTTC-CTAGGCGATGCAATGGAATAGATTAAAGCCACAA
* **
46264101 TGGTGAATCTTGCTTTCCCGACATTG
129 CGACGAATCTTGCTTTCCCGACATTG
46264127 CAATTAAAAT
Statistics
Matches: 126, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
172 99 0.79
173 27 0.21
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (172 bp):
GGTGCAGCGGAACAGATTGAAGTCACAACGGCGAATCTCGCTTCCCCGACATTACAACCAAAAGA
TTGAAGCCACAACAACGAATCTCACCTTCCTAGGCGATGCAATGGAATAGATTAAAGCCACAACG
ACGAATCTTGCTTTCCCGACATTGTAATCTCATTTCCCTAGC
Found at i:46265805 original size:3 final size:3
Alignment explanation
Indices: 46265797--46265869 Score: 58
Period size: 3 Copynumber: 24.3 Consensus size: 3
46265787 TTATCATCTT
* * * *
46265797 TTA TTA TTA TTG TTT TTA TTA TCT- TTA CTA TTA TTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
* * * *
46265842 TTG TTA ATA TTA TTG TTA TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
46265870 GTTTTTATTT
Statistics
Matches: 53, Mismatches: 15, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
2 1 0.02
3 51 0.96
4 1 0.02
ACGTcount: A:0.26, C:0.03, G:0.07, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:46265817 original size:12 final size:12
Alignment explanation
Indices: 46265797--46265864 Score: 75
Period size: 12 Copynumber: 5.7 Consensus size: 12
46265787 TTATCATCTT
46265797 TTATTATTATTG
1 TTATTATTATTG
*
46265809 TTTTTATTATCT-
1 TTATTATTAT-TG
* *
46265821 TTACTATTATTA
1 TTATTATTATTG
*
46265833 TTAGTATTATTG
1 TTATTATTATTG
*
46265845 TTAATATTATTG
1 TTATTATTATTG
46265857 TTATTATT
1 TTATTATT
46265865 GTTATGTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
11 1 0.02
12 45 0.96
13 1 0.02
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (12 bp):
TTATTATTATTG
Found at i:46266133 original size:19 final size:19
Alignment explanation
Indices: 46266109--46266145 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46266099 ATATATTATT
*
46266109 TTATTTCATTTTTTTAATC
1 TTATTTCATTTTTATAATC
*
46266128 TTATTTTATTTTTATAAT
1 TTATTTCATTTTTATAAT
46266146 TCACATACGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATTTCATTTTTATAATC
Found at i:46266174 original size:18 final size:18
Alignment explanation
Indices: 46266151--46266185 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46266141 ATAATTCACA
* *
46266151 TACGTATATATTTTCTTC
1 TACGTACATATATTCTTC
46266169 TACGTACATATATTCTT
1 TACGTACATATATTCTT
46266186 ATGTTTTGTA
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:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (18 bp):
TACGTACATATATTCTTC
Found at i:46272819 original size:45 final size:45
Alignment explanation
Indices: 46272720--46272898 Score: 245
Period size: 45 Copynumber: 4.0 Consensus size: 45
46272710 ATTTGCCGGC
* * * *
46272720 TTACTGATTAGGCAC-TTATGTGCCGACTACTGTTACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTG
*
46272764 ATTACTGATTCGGCACTTTGTGTGTCGAATACTGTTATTGTTACTG
1 -TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTG
*
46272810 TTACCGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTG
* **
46272855 TTACAGATTCATCACTTTGTGTGTTC-AATACTGTTACTGTTACT
1 TTACTGATTCGGCACTTTGTGTG-TCGAATACTGTTACTGTTACT
46272899 ACTACCGTTA
Statistics
Matches: 122, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
45 95 0.78
46 27 0.22
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (45 bp):
TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGTTACTG
Found at i:46273429 original size:13 final size:15
Alignment explanation
Indices: 46273411--46273442 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
46273401 TATATGAAAT
46273411 AATGATT-TT-ATGA
1 AATGATTATTGATGA
46273424 AATGATTATTGATGA
1 AATGATTATTGATGA
46273439 AATG
1 AATG
46273443 CATGAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (15 bp):
AATGATTATTGATGA
Found at i:46274913 original size:26 final size:26
Alignment explanation
Indices: 46274874--46274939 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
46274864 GAGAAAGCAC
*
46274874 TAACGGG-AGCCTCAAAAAGAGCC-TT
1 TAACGGGAAG-CTCAAAAAGAGCCATA
**
46274899 TAATCGGGAAGCTCACGAAGAGCCATA
1 TAA-CGGGAAGCTCAAAAAGAGCCATA
*
46274926 TAACGGGATGCTCA
1 TAACGGGAAGCTCA
46274940 TAAGAGCTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
25 3 0.09
26 25 0.74
27 6 0.18
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.17
Consensus pattern (26 bp):
TAACGGGAAGCTCAAAAAGAGCCATA
Found at i:46278990 original size:24 final size:24
Alignment explanation
Indices: 46278952--46279062 Score: 125
Period size: 24 Copynumber: 4.6 Consensus size: 24
46278942 TCTCAAGCAC
* *
46278952 TATAATGGTAAGCTCATTGAGCCT
1 TATAACGGGAAGCTCATTGAGCCT
* *
46278976 TGTAACTGGAAGCTCATTGAGCCT
1 TATAACGGGAAGCTCATTGAGCCT
* **
46279000 TATAACGGGAAGCTTATCCTG-GCAA
1 TATAACGGGAAGCTCAT--TGAGCCT
46279025 TATAACGGGAAGCTCATTGAGCCT
1 TATAACGGGAAGCTCATTGAGCCT
*
46279049 TGTAACGGGAAGCT
1 TATAACGGGAAGCT
46279063 TATCCGGACA
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
23 2 0.03
24 49 0.69
25 18 0.25
26 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (24 bp):
TATAACGGGAAGCTCATTGAGCCT
Found at i:46279031 original size:25 final size:25
Alignment explanation
Indices: 46279000--46279087 Score: 101
Period size: 25 Copynumber: 3.6 Consensus size: 25
46278990 CATTGAGCCT
46279000 TATAACGGGAAGCTTATCCTGGCAA
1 TATAACGGGAAGCTTATCCTGGCAA
* **
46279025 TATAACGGGAAGCTCAT--TGAGCCT
1 TATAACGGGAAGCTTATCCTG-GCAA
*
46279049 TGTAACGGGAAGCTTATCC-GGACAA
1 TATAACGGGAAGCTTATCCTGG-CAA
46279074 TATAACGGGAAGCT
1 TATAACGGGAAGCT
46279088 CACAAAGAGC
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
23 2 0.04
24 18 0.35
25 31 0.61
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (25 bp):
TATAACGGGAAGCTTATCCTGGCAA
Found at i:46279041 original size:49 final size:49
Alignment explanation
Indices: 46278978--46279089 Score: 190
Period size: 49 Copynumber: 2.3 Consensus size: 49
46278968 TTGAGCCTTG
*
46278978 TAACTGGAAGCTCATTGAGCCTTATAACGGGAAGCTTATCCTGG-CAATA
1 TAACGGGAAGCTCATTGAGCCTTATAACGGGAAGCTTATCC-GGACAATA
*
46279027 TAACGGGAAGCTCATTGAGCCTTGTAACGGGAAGCTTATCCGGACAATA
1 TAACGGGAAGCTCATTGAGCCTTATAACGGGAAGCTTATCCGGACAATA
46279076 TAACGGGAAGCTCA
1 TAACGGGAAGCTCA
46279090 CAAAGAGCCT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
48 2 0.03
49 58 0.97
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (49 bp):
TAACGGGAAGCTCATTGAGCCTTATAACGGGAAGCTTATCCGGACAATA
Found at i:46291082 original size:12 final size:12
Alignment explanation
Indices: 46291038--46291087 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
46291028 AGGTAAGTAT
46291038 CTGTGATTGTTG
1 CTGTGATTGTTG
*
46291050 CTG-AATT-TTCGG
1 CTGTGATTGTT--G
*
46291062 CTTTGATTGTTG
1 CTGTGATTGTTG
46291074 CTGTGATTGTTG
1 CTGTGATTGTTG
46291086 CT
1 CT
46291088 AAATTTTCGG
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
10 2 0.07
11 3 0.10
12 20 0.67
13 3 0.10
14 2 0.07
ACGTcount: A:0.10, C:0.12, G:0.28, T:0.50
Consensus pattern (12 bp):
CTGTGATTGTTG
Found at i:46291329 original size:62 final size:62
Alignment explanation
Indices: 46291247--46291474 Score: 244
Period size: 62 Copynumber: 3.7 Consensus size: 62
46291237 TATTCCCCAA
* * * * *
46291247 AAGACCACATGGCCAAGGACACGGGCGTGTACCCAGACCGTGTAACTCAATGA-TTGTGGTCT
1 AAGACCACACGGCCAGGGACACGAGCGTGTACCCAGGCCGTGTAACTCACT-ATTTGTGGTCT
** * * * * *
46291309 AAGACCGTACGGCCAGGGACACAAGCATGTACCCAGGCCATGTAACTCACTATTTCTAGTCT
1 AAGACCACACGGCCAGGGACACGAGCGTGTACCCAGGCCGTGTAACTCACTATTTGTGGTCT
* *
46291371 AAGACCACACGGCCAGGGACACGAGCGTGTGCTCAGGCCGTGTAACTCACTATTTGTGGTC-
1 AAGACCACACGGCCAGGGACACGAGCGTGTACCCAGGCCGTGTAACTCACTATTTGTGGTCT
* * * * * * *
46291432 AAGACGACATGACTAAGGACACGGGCGTATACCCAGGCCGTGT
1 AAGACCACACGGCCAGGGACACGAGCGTGTACCCAGGCCGTGT
46291475 GAGTTATACG
Statistics
Matches: 135, Mismatches: 30, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
61 35 0.26
62 100 0.74
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (62 bp):
AAGACCACACGGCCAGGGACACGAGCGTGTACCCAGGCCGTGTAACTCACTATTTGTGGTCT
Found at i:46298319 original size:62 final size:62
Alignment explanation
Indices: 46298247--46298477 Score: 230
Period size: 62 Copynumber: 3.7 Consensus size: 62
46298237 TATTAGCGAA
** * * * *
46298247 AAGACCACACGACCAGGGACTTGGGTGTGTACCCAGGCCGTGTAACTTATTGTTTTTGGTCC
1 AAGACCACACGACCAGGGACACGGGCGTGTACCCAGGCCGTGTAACTCACTGTTTGTGGTCC
** * * ** *
46298309 AAGACCACACGGTCAGGGACACGAGCCTGTAAGCAGGCTGTGTAACTCACTGTTTGTGGTCC
1 AAGACCACACGACCAGGGACACGGGCGTGTACCCAGGCCGTGTAACTCACTGTTTGTGGTCC
* * * * * **
46298371 AAGACCACAC-AGCTAGGGACATGGACGTGTGCTCAGGTTGTGTAACTCACTGTTTGTGGTCC
1 AAGACCACACGA-CCAGGGACACGGGCGTGTACCCAGGCCGTGTAACTCACTGTTTGTGGTCC
* * * *
46298433 AATACCACACGACCAAGGACACAGGCGTGTAGCCAGGCCGTGTAA
1 AAGACCACACGACCAGGGACACGGGCGTGTACCCAGGCCGTGTAA
46298478 GTCATACCGG
Statistics
Matches: 132, Mismatches: 35, Indels: 4
0.77 0.20 0.02
Matches are distributed among these distances:
62 131 0.99
63 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (62 bp):
AAGACCACACGACCAGGGACACGGGCGTGTACCCAGGCCGTGTAACTCACTGTTTGTGGTCC
Found at i:46304303 original size:69 final size:69
Alignment explanation
Indices: 46304192--46304485 Score: 392
Period size: 69 Copynumber: 4.3 Consensus size: 69
46304182 ATTCACAAAT
* * * * * * *
46304192 ATTTGGACAGCAGTAAAAACATTTGGACAGCATTGACTTGTACGAAAAATGGACAACATTTAAGC
1 ATTTGGACAGCATTAATAACATTCGGACAGCATAGATTTGTACAAAAAATGGACAGCATTTAAGC
46304257 ACTA
66 ACTA
* * * *
46304261 ATTTGGATAGCATTAATAACATTCGGACAGCATAGATTTGTACCAAAAATAGATAGCATTTAAGC
1 ATTTGGACAGCATTAATAACATTCGGACAGCATAGATTTGTACAAAAAATGGACAGCATTTAAGC
46304326 ACTA
66 ACTA
* * *
46304330 ATTTGGAAAGCATTAATAACATTCAGACAACATAGATTTGTACAAAAAATGGACAGCATTTAAGC
1 ATTTGGACAGCATTAATAACATTCGGACAGCATAGATTTGTACAAAAAATGGACAGCATTTAAGC
46304395 ACTA
66 ACTA
* * * * *
46304399 ATTTGGACAGCATGAATAACATACGGATAGCAT-GAATTTGTATAAAAAATGGATAGCATTTAAG
1 ATTTGGACAGCATTAATAACATTCGGACAGCATAG-ATTTGTACAAAAAATGGACAGCATTTAAG
46304463 CACTA
65 CACTA
*
46304468 ATTTGGACAACATTAATA
1 ATTTGGACAGCATTAATA
46304486 TGCTAAAAAA
Statistics
Matches: 198, Mismatches: 26, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
68 1 0.01
69 197 0.99
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (69 bp):
ATTTGGACAGCATTAATAACATTCGGACAGCATAGATTTGTACAAAAAATGGACAGCATTTAAGC
ACTA
Found at i:46304548 original size:34 final size:33
Alignment explanation
Indices: 46304496--46304596 Score: 112
Period size: 35 Copynumber: 2.9 Consensus size: 33
46304486 TGCTAAAAAA
*
46304496 TGGACAGCATTTATACATGCAAAACAACCACATT
1 TGGACAACATTTA-ACATGCAAAACAACCACATT
*
46304530 TGGACAACATTATAACATGTAAAAACAACCACATT
1 TGGACAACATT-TAACATG-CAAAACAACCACATT
* ** *
46304565 TGGATATTATTTTAATATGCAAAACAACCACA
1 TGGACAACA-TTTAACATGCAAAACAACCACA
46304597 CTTTAATACC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
34 27 0.47
35 28 0.49
36 2 0.04
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.26
Consensus pattern (33 bp):
TGGACAACATTTAACATGCAAAACAACCACATT
Found at i:46305394 original size:43 final size:43
Alignment explanation
Indices: 46305347--46305443 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
46305337 TCCTAGATAT
* * **
46305347 GGTCTTACATGCT-ATCACATCTCGATGCCACTATCCTTGACAG
1 GGTCTTACATG-TAATCACATATCGATGCCAATATCCCAGACAG
* * *
46305390 GGTCTTACATGTAATCTCATATCGATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAATCACATATCGATGCCAATATCCCAGACAG
46305433 GGTCTTACATG
1 GGTCTTACATG
46305444 AAATTATACC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
42 1 0.02
43 45 0.98
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATATCGATGCCAATATCCCAGACAG
Found at i:46315391 original size:21 final size:21
Alignment explanation
Indices: 46315365--46315406 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
46315355 GCCTATAACG
46315365 GGTAGCTCCAAAGAGCAATTA
1 GGTAGCTCCAAAGAGCAATTA
*
46315386 GGTAGCTCCGAAGAGCAATTA
1 GGTAGCTCCAAAGAGCAATTA
46315407 ACGGGAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (21 bp):
GGTAGCTCCAAAGAGCAATTA
Found at i:46328212 original size:6 final size:6
Alignment explanation
Indices: 46328201--46328241 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
46328191 CTTAAAAAAC
*
46328201 TATAAA TATAAA TATAAA TA-AAA TGTAAA TATAAA TATAAA
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA
46328242 AACATTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (6 bp):
TATAAA
Found at i:46328229 original size:17 final size:17
Alignment explanation
Indices: 46328204--46328237 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46328194 AAAAAACTAT
46328204 AAATATAAATATAAATA
1 AAATATAAATATAAATA
*
46328221 AAATGTAAATATAAATA
1 AAATATAAATATAAATA
46328238 TAAAAACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATATAAATATAAATA
Found at i:46337213 original size:44 final size:44
Alignment explanation
Indices: 46337164--46337254 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
46337154 GTAGGTAAAA
*
46337164 TAATATTAAAATAACCTATACTAATTAGAGTTTAAGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATTAGAGTTTAAGTGGGAAAC
*
46337208 TAATATTAAAATAACCTACACTAATTAGAGTTTAAGTGGTAAAC
1 TAATATTAAAATAACCTACACTAATTAGAGTTTAAGTGGGAAAC
46337252 TAA
1 TAA
46337255 AAATAGAGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATTAGAGTTTAAGTGGGAAAC
Found at i:46373556 original size:19 final size:20
Alignment explanation
Indices: 46373532--46373574 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
46373522 GCTAAAATAA
*
46373532 TATCGATACC-AAATAAAAG
1 TATCGATACCTAAAGAAAAG
*
46373551 TATCGATACCTAAAGGAAAG
1 TATCGATACCTAAAGAAAAG
46373571 TATC
1 TATC
46373575 AGTACTTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.23
Consensus pattern (20 bp):
TATCGATACCTAAAGAAAAG
Found at i:46378949 original size:13 final size:13
Alignment explanation
Indices: 46378931--46378973 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
46378921 AAATTTGAAT
46378931 TATTTAGTGATAA
1 TATTTAGTGATAA
*
46378944 TATTTAG-G--AC
1 TATTTAGTGATAA
46378954 TATTTAGTGATAA
1 TATTTAGTGATAA
46378967 TATTTAG
1 TATTTAG
46378974 GAAAAGTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 8 0.32
11 1 0.04
12 1 0.04
13 15 0.60
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:46378957 original size:23 final size:23
Alignment explanation
Indices: 46378931--46378975 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
46378921 AAATTTGAAT
46378931 TATTTAGTGATAATATTTAGGAC
1 TATTTAGTGATAATATTTAGGAC
46378954 TATTTAGTGATAATATTTAGGA
1 TATTTAGTGATAATATTTAGGA
46378976 AAAGTCTAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (23 bp):
TATTTAGTGATAATATTTAGGAC
Found at i:46394263 original size:24 final size:24
Alignment explanation
Indices: 46394213--46394265 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
46394203 ATTAGTAAGT
*
46394213 TAAATAAACTATACTAATAAACGC
1 TAAATAAACTATACTAATAAACAC
* * *
46394237 TAAATATATTATACTAATAAATAC
1 TAAATAAACTATACTAATAAACAC
46394261 TAAAT
1 TAAAT
46394266 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (24 bp):
TAAATAAACTATACTAATAAACAC
Found at i:46396561 original size:39 final size:39
Alignment explanation
Indices: 46396507--46396581 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
46396497 GCTTCCTGTT
46396507 CAGTTATAACTGTCAACACTGAAAGGATCTCGCAGGGTG
1 CAGTTATAACTGTCAACACTGAAAGGATCTCGCAGGGTG
46396546 CAGTTATAACTGTCAACACTGAAAGGATCTCGCAGG
1 CAGTTATAACTGTCAACACTGAAAGGATCTCGCAGG
46396582 AAAACACCGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (39 bp):
CAGTTATAACTGTCAACACTGAAAGGATCTCGCAGGGTG
Found at i:46404725 original size:23 final size:23
Alignment explanation
Indices: 46404699--46404742 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
46404689 TACTAAAACA
*
46404699 TGTAGGTTGTAGATAAACCACCT
1 TGTAGGTCGTAGATAAACCACCT
*
46404722 TGTAGGTCGTGGATAAACCAC
1 TGTAGGTCGTAGATAAACCAC
46404743 TAAATTTGTA
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:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (23 bp):
TGTAGGTCGTAGATAAACCACCT
Found at i:46405681 original size:14 final size:11
Alignment explanation
Indices: 46405652--46405693 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
46405642 TCAGTTTCAG
46405652 TGTGGTGGTGA
1 TGTGGTGGTGA
*
46405663 TGTGGTGGTGC
1 TGTGGTGGTGA
*
46405674 TATGGTGGTGA
1 TGTGGTGGTGA
*
46405685 TTTGGTGGT
1 TGTGGTGGT
46405694 TTGGGGTGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.07, C:0.02, G:0.50, T:0.40
Consensus pattern (11 bp):
TGTGGTGGTGA
Found at i:46408074 original size:54 final size:54
Alignment explanation
Indices: 46408016--46408127 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 54
46408006 TGACTAAGGC
* * *
46408016 CACACAGCCGTGTCGTAGGCCGTGTGCCAGACCATGTAACTCACTAACTTGATT
1 CACACAGCCGTGTCGCAGACCGTGTGCCAGACCATGTAACTCACTAACTTGATA
* * * **
46408070 CACACGGCTGTGTCGCAGACGGTGTGCCAGACCATGTGGCTCACTAACTTGATA
1 CACACAGCCGTGTCGCAGACCGTGTGCCAGACCATGTAACTCACTAACTTGATA
46408124 CACA
1 CACA
46408128 TGATCATGTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.22
Consensus pattern (54 bp):
CACACAGCCGTGTCGCAGACCGTGTGCCAGACCATGTAACTCACTAACTTGATA
Found at i:46409914 original size:18 final size:17
Alignment explanation
Indices: 46409891--46409924 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
46409881 CAAAAATCAC
46409891 TTAACAAAACAAGTTTAT
1 TTAAC-AAACAAGTTTAT
*
46409909 TTAACAACCAAGTTTA
1 TTAACAAACAAGTTTA
46409925 ATAATCTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (17 bp):
TTAACAAACAAGTTTAT
Found at i:46414948 original size:4 final size:4
Alignment explanation
Indices: 46414939--46414966 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
46414929 TATTTTTATT
46414939 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
46414967 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:46417353 original size:18 final size:18
Alignment explanation
Indices: 46417332--46417370 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
46417322 GATTGAGAGT
* *
46417332 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
46417350 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
46417368 GAA
1 GAA
46417371 GTTGAAGAAA
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:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:46418783 original size:4 final size:4
Alignment explanation
Indices: 46418769--46418801 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
46418759 AAGTTTTATT
46418769 TTTA TTTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA
46418802 CTTAGTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:46422614 original size:4 final size:4
Alignment explanation
Indices: 46422605--46422632 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
46422595 TTATTTTATT
46422605 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
46422633 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:46443633 original size:3 final size:3
Alignment explanation
Indices: 46443625--46443682 Score: 55
Period size: 3 Copynumber: 18.7 Consensus size: 3
46443615 AAGGAATACT
* * *
46443625 ATA ATA ATA ATA A-C ATA ATT ATA ATTA ATA TTA ATA ATCA CATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA AT-A -ATA ATA
46443672 ATA ATA ATA AT
1 ATA ATA ATA AT
46443683 GAGGTAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 1 0.02
3 37 0.82
4 5 0.11
5 2 0.04
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:46443667 original size:27 final size:26
Alignment explanation
Indices: 46443629--46443680 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
46443619 AATACTATAA
*
46443629 TAATAATAACATAATTATAATTAATAT
1 TAATAATAACATAATAATAA-TAATAT
*
46443656 TAATAATCACATAATAATAATAATA
1 TAATAATAACATAATAATAATAATA
46443681 ATGAGGTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.37
Consensus pattern (26 bp):
TAATAATAACATAATAATAATAATAT
Found at i:46444749 original size:5 final size:6
Alignment explanation
Indices: 46444729--46444761 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
46444719 TTTTTGAAAT
*
46444729 AAAAGA AAAACA AAAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
46444762 CGCAAAGGAA
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:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:46446977 original size:18 final size:18
Alignment explanation
Indices: 46446954--46446994 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
46446944 GAGGATCCAC
46446954 CTCCGGCTTCGGCTCCGA
1 CTCCGGCTTCGGCTCCGA
46446972 CTCCGGCTTCGGCTCCGA
1 CTCCGGCTTCGGCTCCGA
*
46446990 GTCCG
1 CTCCG
46446995 AGTCCGGCTT
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:0.05, C:0.44, G:0.29, T:0.22
Consensus pattern (18 bp):
CTCCGGCTTCGGCTCCGA
Found at i:46447002 original size:18 final size:18
Alignment explanation
Indices: 46446954--46447003 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
46446944 GAGGATCCAC
*
46446954 CTCCGGCTTCGGCTCCGA
1 CTCCGGCTCCGGCTCCGA
*
46446972 CTCCGGCTTCGGCTCCGA
1 CTCCGGCTCCGGCTCCGA
*
46446990 GTCCGAG-TCCGGCT
1 CTCCG-GCTCCGGCT
46447004 TCAGCTCCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 28 0.97
19 1 0.03
ACGTcount: A:0.06, C:0.42, G:0.30, T:0.22
Consensus pattern (18 bp):
CTCCGGCTCCGGCTCCGA
Found at i:46447021 original size:24 final size:24
Alignment explanation
Indices: 46446966--46447022 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
46446956 CCGGCTTCGG
* * *
46446966 CTCCGACTCCGGCTTCGGCTCCGA
1 CTCCGAGTCCGGCTTCAGCTCCAA
*
46446990 GTCCGAGTCCGGCTTCAGCTCCAA
1 CTCCGAGTCCGGCTTCAGCTCCAA
*
46447014 CTCTGAGTC
1 CTCCGAGTC
46447023 TGACTTCGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.12, C:0.40, G:0.25, T:0.23
Consensus pattern (24 bp):
CTCCGAGTCCGGCTTCAGCTCCAA
Found at i:46447052 original size:18 final size:18
Alignment explanation
Indices: 46447029--46447063 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
46447019 AGTCTGACTT
46447029 CGAGTCCG-GCTCCGGCTC
1 CGAGTCCGAG-TCCGGCTC
46447047 CGAGTCCGAGTCCGGCT
1 CGAGTCCGAGTCCGGCT
46447064 TCAGCTTCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.09, C:0.40, G:0.34, T:0.17
Consensus pattern (18 bp):
CGAGTCCGAGTCCGGCTC
Found at i:46455742 original size:7 final size:7
Alignment explanation
Indices: 46455726--46455796 Score: 115
Period size: 7 Copynumber: 10.1 Consensus size: 7
46455716 TTAATATGTG
46455726 TTTGATT
1 TTTGATT
*
46455733 TTTTATT
1 TTTGATT
46455740 TTTGATT
1 TTTGATT
46455747 TTTGATT
1 TTTGATT
46455754 TTTGATT
1 TTTGATT
46455761 TTTGATT
1 TTTGATT
46455768 TTTGATT
1 TTTGATT
46455775 TTTGATT
1 TTTGATT
*
46455782 TTTTATT
1 TTTGATT
*
46455789 TTTTATT
1 TTTGATT
46455796 T
1 T
46455797 AAAAATGATA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 61 1.00
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.76
Consensus pattern (7 bp):
TTTGATT
Found at i:46460490 original size:24 final size:24
Alignment explanation
Indices: 46460458--46460503 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
46460448 TGACTACTCT
46460458 CATTAATTCTTCTATAATACCTCC
1 CATTAATTCTTCTATAATACCTCC
* *
46460482 CATTGATTCTTCTGTAATACCT
1 CATTAATTCTTCTATAATACCT
46460504 ATCACTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.04, T:0.43
Consensus pattern (24 bp):
CATTAATTCTTCTATAATACCTCC
Found at i:46460514 original size:24 final size:24
Alignment explanation
Indices: 46460461--46460514 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
46460451 CTACTCTCAT
* *
46460461 TAATTCTTCTATAATACCTCCCAT
1 TAATTCTTCTATAATACCTACCAC
* * *
46460485 TGATTCTTCTGTAATACCTATCAC
1 TAATTCTTCTATAATACCTACCAC
46460509 TAATTC
1 TAATTC
46460515 ACTTACACCT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.04, T:0.43
Consensus pattern (24 bp):
TAATTCTTCTATAATACCTACCAC
Found at i:46461305 original size:28 final size:27
Alignment explanation
Indices: 46461265--46461323 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 27
46461255 TTGAAGGTAG
46461265 CAACAAGGTTTGCAAGCTCAACAAGTCT
1 CAACAAGGTTTGCAAGCTCAACAAG-CT
46461293 CAACAAGGTTTGCAAGCTCAACAAGCT
1 CAACAAGGTTTGCAAGCTCAACAAGCT
46461320 CAAC
1 CAAC
46461324 CAATCACCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 6 0.19
28 25 0.81
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.19
Consensus pattern (27 bp):
CAACAAGGTTTGCAAGCTCAACAAGCT
Found at i:46465263 original size:51 final size:50
Alignment explanation
Indices: 46465160--46465358 Score: 286
Period size: 51 Copynumber: 4.1 Consensus size: 50
46465150 TGAGTACTTC
46465160 TGATCAGTGACAAGTGATAAGTGGTAG-TTTAGCTACACTTATCTGATCAG
1 TGAT-AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
* *
46465210 TGATACGTGACAAGTGATAAGTGGTAGCTTTAGCTACAGTTATCTGATTAG
1 TGATA-GTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
46465261 TGATAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC--
1 TGAT-AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
* *
46465310 -G---GTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATTTGATCAG
1 TGATAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
46465356 TGA
1 TGA
46465359 CAAGTGATAA
Statistics
Matches: 136, Mismatches: 6, Indels: 16
0.86 0.04 0.10
Matches are distributed among these distances:
44 41 0.30
47 1 0.01
48 1 0.01
49 1 0.01
50 25 0.18
51 66 0.49
52 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (50 bp):
TGATAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
Found at i:46465276 original size:44 final size:44
Alignment explanation
Indices: 46465216--46465365 Score: 183
Period size: 44 Copynumber: 3.2 Consensus size: 44
46465206 TCAGTGATAC
* * *
46465216 GTGACAAGTGATAAGTGGTAGCTTTAGCTACAGTTATCTGATTAGTGATAA
1 GTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATC-------TGATCA
* *
46465267 GTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCG
1 GTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATCTGATCA
*
46465311 GTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATTTGATCA
1 GTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATCTGATCA
46465355 GTGACAAGTGA
1 GTGACAAGTGA
46465366 TAAATGTGAT
Statistics
Matches: 93, Mismatches: 6, Indels: 7
0.88 0.06 0.07
Matches are distributed among these distances:
44 56 0.60
51 37 0.40
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (44 bp):
GTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATCTGATCA
Found at i:46465670 original size:11 final size:13
Alignment explanation
Indices: 46465656--46465688 Score: 52
Period size: 11 Copynumber: 2.7 Consensus size: 13
46465646 AATTTCACGA
46465656 AAAAATTTCG-T-
1 AAAAATTTCGTTC
46465667 AAAAATTTCGTTC
1 AAAAATTTCGTTC
46465680 AAAAATTTC
1 AAAAATTTC
46465689 AACGTTTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 1 0.05
13 9 0.45
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (13 bp):
AAAAATTTCGTTC
Found at i:46466412 original size:30 final size:30
Alignment explanation
Indices: 46466372--46466428 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
46466362 AGCTTAGGGA
*
46466372 CAAAAGTGTAAATATTCAAAAGTTTGGGGG
1 CAAAAGTGTAAATATTCAAAAATTTGGGGG
* * *
46466402 CAAAATTGTAATTTTTCAAAAATTTGG
1 CAAAAGTGTAAATATTCAAAAATTTGG
46466429 TTGGAGGACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.33
Consensus pattern (30 bp):
CAAAAGTGTAAATATTCAAAAATTTGGGGG
Found at i:46466824 original size:33 final size:33
Alignment explanation
Indices: 46466787--46467060 Score: 188
Period size: 33 Copynumber: 7.5 Consensus size: 33
46466777 TCCCCCAAGG
46466787 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
46466820 GGTTGCTAAGTGCTGATTCCACTGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
*
46466862 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
46466895 GGTTGCTAAGTGTTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
* *
46466937 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
46466970 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
*
46467012 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
46467045 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
46467061 ATCCACTAAT
Statistics
Matches: 189, Mismatches: 25, Indels: 54
0.71 0.09 0.20
Matches are distributed among these distances:
33 77 0.41
34 8 0.04
35 3 0.02
36 6 0.03
37 9 0.05
38 8 0.04
39 6 0.03
40 3 0.02
41 8 0.04
42 61 0.32
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:46466879 original size:42 final size:42
Alignment explanation
Indices: 46466820--46467031 Score: 226
Period size: 42 Copynumber: 5.5 Consensus size: 42
46466810 ATTCATTGGT
*
46466820 GGTTGCTAAGTGCTGATTCCACTGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
* *
46466862 GGTTGCTAAGTGCTGATTCC-CCG-A-C-T-CAT-TG---GT
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
*
46466895 GGTTGCTAAGTGTTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
* * *
46466937 GGTTGCTAAGTGCTGATTCC-CCGAATC----A-CTG---GT
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
*
46466970 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
46467012 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
46467032 CCGACTCATT
Statistics
Matches: 137, Mismatches: 15, Indels: 36
0.73 0.08 0.19
Matches are distributed among these distances:
33 40 0.29
34 9 0.07
35 1 0.01
36 5 0.04
37 4 0.03
38 4 0.03
39 5 0.04
40 1 0.01
41 8 0.06
42 60 0.44
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
Found at i:46466906 original size:75 final size:75
Alignment explanation
Indices: 46466783--46467066 Score: 505
Period size: 75 Copynumber: 3.8 Consensus size: 75
46466773 TGATTCCCCC
* *
46466783 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACTGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
46466848 TTAAATGTGA
66 TTAAATGTGA
*
46466858 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
46466923 TTAAATGTGA
66 TTAAATGTGA
* * *
46466933 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
46466998 TTAAATGTGA
66 TTAAATGTGA
*
46467008 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGAATCCAC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCAC
46467067 TAATAACGGA
Statistics
Matches: 198, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 198 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGA
Found at i:46467737 original size:20 final size:20
Alignment explanation
Indices: 46467712--46467751 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
46467702 GGGAAAAATT
46467712 TACGGAACATAATTTGGAGC
1 TACGGAACATAATTTGGAGC
*
46467732 TACGGAACTTAATTTGGAGC
1 TACGGAACATAATTTGGAGC
46467752 CATGTAGCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (20 bp):
TACGGAACATAATTTGGAGC
Found at i:46472183 original size:43 final size:42
Alignment explanation
Indices: 46472081--46472201 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 42
46472071 GATTTCGTGG
* * * * *
46472081 AAGACCATGTCTGGGACATCAGCATCGATATGAGATTACGTGT
1 AAGACCATGTCTGGGATAT-GGCATCGATATGTGATAACATGT
*
46472124 AAGACCCTGTCTGGGATAGTGGCATCGATATGTGATAACATGT
1 AAGACCATGTCTGGGATA-TGGCATCGATATGTGATAACATGT
*
46472167 AAGACCATGTCTGGGATATGGCATTG-TATGTGATA
1 AAGACCATGTCTGGGATATGGCATCGATATGTGATA
46472202 TATGTGTTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 9 0.13
42 7 0.10
43 52 0.75
44 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (42 bp):
AAGACCATGTCTGGGATATGGCATCGATATGTGATAACATGT
Found at i:46472754 original size:15 final size:15
Alignment explanation
Indices: 46472734--46472770 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
46472724 TTTTGGGAAG
*
46472734 TATGTTTCATGGTTA
1 TATGTTTCATGGCTA
46472749 TATGTTTCATGGCTA
1 TATGTTTCATGGCTA
46472764 TATGTTT
1 TATGTTT
46472771 TGGTTTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.19, C:0.08, G:0.19, T:0.54
Consensus pattern (15 bp):
TATGTTTCATGGCTA
Found at i:46474580 original size:50 final size:50
Alignment explanation
Indices: 46474465--46474757 Score: 433
Period size: 50 Copynumber: 5.8 Consensus size: 50
46474455 GATCATAACA
* * ** *
46474465 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* ** *
46474516 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
46474566 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
46474616 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
46474666 TGTCAATGCCATGTCCCAGATATGATCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
46474716 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
46474758 TTACCCAAAT
Statistics
Matches: 218, Mismatches: 24, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
50 186 0.85
51 32 0.15
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:46474873 original size:13 final size:13
Alignment explanation
Indices: 46474852--46474881 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
46474842 GCTTGGGTCA
46474852 TCATCAAATAAAT
1 TCATCAAATAAAT
*
46474865 TCATGAAATAAAT
1 TCATCAAATAAAT
46474878 TCAT
1 TCAT
46474882 AGTTGCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:46482226 original size:19 final size:21
Alignment explanation
Indices: 46482202--46482242 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
46482192 ATTTGCCTTC
46482202 TAAAAAT-ATTT-TTTTATTT
1 TAAAAATAATTTATTTTATTT
46482221 TAAAAATAATTTAGTTTTATTT
1 TAAAAATAATTTA-TTTTATTT
46482243 CTTAGAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
22 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TAAAAATAATTTATTTTATTT
Found at i:46482904 original size:30 final size:33
Alignment explanation
Indices: 46482868--46482946 Score: 92
Period size: 35 Copynumber: 2.4 Consensus size: 33
46482858 ATGTGGAGGG
*
46482868 TTTAA-TTGATTTTTTTG-T-ATTATTTTATGA
1 TTTAATTTAATTTTTTTGTTAATTATTTTATGA
*
46482898 TTTAATTTAATTTTTTTGTTAATTATTTTAGGAAA
1 TTTAATTTAATTTTTTTGTTAATTATTTTATG--A
*
46482933 CTTAATTTAATTTT
1 TTTAATTTAATTTT
46482947 AGATATTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 5 0.12
31 11 0.27
32 1 0.02
33 10 0.24
35 14 0.34
ACGTcount: A:0.28, C:0.01, G:0.08, T:0.63
Consensus pattern (33 bp):
TTTAATTTAATTTTTTTGTTAATTATTTTATGA
Found at i:46482981 original size:10 final size:9
Alignment explanation
Indices: 46482955--46483105 Score: 79
Period size: 10 Copynumber: 15.4 Consensus size: 9
46482945 TTAGATATTA
46482955 TATAAAAAT
1 TATAAAAAT
* *
46482964 TCTCAAAATT
1 TAT-AAAAAT
46482974 TATAAAAAT
1 TATAAAAAT
46482983 TATTAAAATAT
1 TA-TAAAA-AT
* *
46482994 TTTAGAAAT
1 TATAAAAAT
46483003 TATAGAAAAT
1 TATA-AAAAT
46483013 TATATAAGAAT
1 TATA-AA-AAT
* *
46483024 AATTAAAAT
1 TATAAAAAT
*
46483033 GATAAAAAT
1 TATAAAAAT
46483042 TAATAAAAAAAGT
1 T-AT--AAAAA-T
46483055 TATAAAAATT
1 TATAAAAA-T
* *
46483065 TATTAAAAG
1 TATAAAAAT
*
46483074 TATAAAAAGA
1 TATAAAAA-T
*
46483084 TATAAAAAC
1 TATAAAAAT
46483093 TA-AAAAAT
1 TATAAAAAT
46483101 ATATA
1 -TATA
46483106 TAAGAAAATT
Statistics
Matches: 109, Mismatches: 21, Indels: 23
0.71 0.14 0.15
Matches are distributed among these distances:
8 5 0.05
9 35 0.32
10 52 0.48
11 8 0.07
12 7 0.06
13 2 0.02
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (9 bp):
TATAAAAAT
Found at i:46482985 original size:30 final size:28
Alignment explanation
Indices: 46482951--46483050 Score: 96
Period size: 30 Copynumber: 3.4 Consensus size: 28
46482941 AATTTTAGAT
*
46482951 ATTATATAAAAATTCTCAAAATTTATAAAA
1 ATTATATAAAAATT-TTAAAA-TTATAAAA
46482981 ATTAT-TAAAATATTTTAGAAATTATAGAAA
1 ATTATATAAAA-ATTTTA-AAATTATA-AAA
* * *
46483011 ATTATATAAGAATAATTAAAATGATAAAA
1 ATTATATAAAAAT-TTTAAAATTATAAAA
46483040 ATTA-ATAAAAA
1 ATTATATAAAAA
46483051 AAGTTATAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
28 6 0.10
29 19 0.32
30 28 0.47
31 7 0.12
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (28 bp):
ATTATATAAAAATTTTAAAATTATAAAA
Found at i:46483091 original size:19 final size:19
Alignment explanation
Indices: 46483034--46483105 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
46483024 AATTAAAATG
*
46483034 ATAAAAATTAATAAAAAAAGTT
1 ATAAAAA-T-ATATAAAAAG-T
* *
46483056 ATAAAAATTTATTAAAAGT
1 ATAAAAATATATAAAAAGT
* *
46483075 ATAAAAAGATATAAAAACT
1 ATAAAAATATATAAAAAGT
46483094 A-AAAAATATATA
1 ATAAAAATATATA
46483106 TAAGAAAATT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
18 10 0.24
19 17 0.40
20 7 0.17
21 1 0.02
22 7 0.17
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (19 bp):
ATAAAAATATATAAAAAGT
Found at i:46483466 original size:20 final size:18
Alignment explanation
Indices: 46483419--46483465 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 18
46483409 TTTTAGAAAA
46483419 TTATAAAAAGTATATAAG
1 TTATAAAAAGTATATAAG
46483437 TTATTAAAAAGTAT-TAAATG
1 TTA-TAAAAAGTATAT-AA-G
46483457 TTATAAAAA
1 TTATAAAAA
46483466 AATTAAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 4 0.15
19 18 0.69
20 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (18 bp):
TTATAAAAAGTATATAAG
Found at i:46483552 original size:30 final size:30
Alignment explanation
Indices: 46483518--46483588 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
46483508 TATAATCCCT
* ** *
46483518 AAATCAATTAAGCCCTTTTAAAATAATTAA
1 AAATCAATTAAGCCATCATAAAATAATAAA
*
46483548 AAATCAATTAAACCATCATAAAATAATAAA
1 AAATCAATTAAGCCATCATAAAATAATAAA
46483578 AAAT-AATTAAG
1 AAATCAATTAAG
46483589 TCCTCCACGT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
29 6 0.17
30 29 0.83
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.28
Consensus pattern (30 bp):
AAATCAATTAAGCCATCATAAAATAATAAA
Found at i:46487273 original size:51 final size:51
Alignment explanation
Indices: 46487197--46487298 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
46487187 TCTTGGAAAT
46487197 CAATTGCATAAATAAAAGTGACTTACGATTAAACCTTCACTTAGTGAAAAC
1 CAATTGCATAAATAAAAGTGACTTACGATTAAACCTTCACTTAGTGAAAAC
46487248 CAATTGCATAAATAAAAGTGACTTACGATTAAACCTTCACTTAGTGAAAAC
1 CAATTGCATAAATAAAAGTGACTTACGATTAAACCTTCACTTAGTGAAAAC
46487299 ATGTTAAAGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (51 bp):
CAATTGCATAAATAAAAGTGACTTACGATTAAACCTTCACTTAGTGAAAAC
Found at i:46490175 original size:40 final size:40
Alignment explanation
Indices: 46490058--46490176 Score: 93
Period size: 40 Copynumber: 3.0 Consensus size: 40
46490048 TGATGTAAAT
* *
46490058 TTGAGTTATTAGTTAAATAGAATTTTAAGCATCTTAATTA
1 TTGAGTTATTAATTAAATAGAATTTTAGGCATCTTAATTA
* * * * ** *
46490098 -TAACTTAATTATTATTAGAGT-TAATTTT-GTTA-ATTAATTA
1 TTGAGTT-ATTA--ATTA-AATAGAATTTTAGGCATCTTAATTA
46490138 TTGAGTTATTAATTAAATAGAATTTTAGGCATCTTAATT
1 TTGAGTTATTAATTAAATAGAATTTTAGGCATCTTAATT
46490177 GTAACTTAAT
Statistics
Matches: 55, Mismatches: 16, Indels: 16
0.63 0.18 0.18
Matches are distributed among these distances:
37 2 0.04
38 10 0.18
39 6 0.11
40 21 0.38
41 5 0.09
42 9 0.16
43 2 0.04
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (40 bp):
TTGAGTTATTAATTAAATAGAATTTTAGGCATCTTAATTA
Found at i:46490209 original size:80 final size:80
Alignment explanation
Indices: 46490058--46490209 Score: 250
Period size: 80 Copynumber: 1.9 Consensus size: 80
46490048 TGATGTAAAT
*
46490058 TTGAGTTATTAGTTAAATAGAATTTTAAGCATCTTAATTATAACTTAATTATTATTAGAGTTAAT
1 TTGAGTTATTAATTAAATAGAATTTTAAGCATCTTAATTATAACTTAATTATTATTAGAGTTAAT
**
46490123 TTTGTTAATTAATTA
66 CATGTTAATTAATTA
* * *
46490138 TTGAGTTATTAATTAAATAGAATTTTAGGCATCTTAATTGTAACTTAATTATTGTTAGAGTTAAT
1 TTGAGTTATTAATTAAATAGAATTTTAAGCATCTTAATTATAACTTAATTATTATTAGAGTTAAT
46490203 CATGTTA
66 CATGTTA
46490210 GTTATTGTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (80 bp):
TTGAGTTATTAATTAAATAGAATTTTAAGCATCTTAATTATAACTTAATTATTATTAGAGTTAAT
CATGTTAATTAATTA
Found at i:46490772 original size:20 final size:21
Alignment explanation
Indices: 46490747--46490802 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
46490737 ATATTAAAAT
46490747 ATTAAAAACAA-AAAAATATC
1 ATTAAAAACAATAAAAATATC
*
46490767 ATTAAAAATAATAAAAATAT-
1 ATTAAAAACAATAAAAATATC
*
46490787 A-TAAAAA-ATTAAAAAT
1 ATTAAAAACAATAAAAAT
46490803 TATGACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 11 0.33
21 8 0.24
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (21 bp):
ATTAAAAACAATAAAAATATC
Found at i:46491191 original size:3 final size:3
Alignment explanation
Indices: 46491183--46491214 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
46491173 TATCAAGCGG
46491183 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
46491215 AGGACACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:46493792 original size:17 final size:18
Alignment explanation
Indices: 46493760--46493793 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46493750 ATAAAAACAA
*
46493760 ATAATTTTTGTTTAATTC
1 ATAATTGTTGTTTAATTC
46493778 ATAATTGTT-TTTAATT
1 ATAATTGTTGTTTAATT
46493794 TTTATAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (18 bp):
ATAATTGTTGTTTAATTC
Found at i:46501045 original size:15 final size:14
Alignment explanation
Indices: 46501025--46501070 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 14
46501015 AAGAAATTAG
46501025 TATATTATATTATA
1 TATATTATATTATA
46501039 TTATATTATATTATA
1 -TATATTATATTATA
*
46501054 TATATAATATTAGTA
1 TATATTATATTA-TA
46501069 TA
1 TA
46501071 GTGGTAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (14 bp):
TATATTATATTATA
Found at i:46501072 original size:5 final size:5
Alignment explanation
Indices: 46501025--46501065 Score: 66
Period size: 5 Copynumber: 8.4 Consensus size: 5
46501015 AAGAAATTAG
*
46501025 TATAT TATAT TATAT TATAT TATAT TATA- TATAT AATAT TA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA
46501066 GTATAGTGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
4 4 0.12
5 29 0.88
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:46507303 original size:6 final size:6
Alignment explanation
Indices: 46507292--46507326 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
46507282 TGAGGGGATC
46507292 AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGGG
1 AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGGG
46507327 GGAGTTGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (6 bp):
AGGGGA
Done.