Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 20 of 222
Found at i:6292984 original size:24 final size:24
Alignment explanation
Indices: 6292922--6292989 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
6292912 TAAGAAAAGG
* *
6292922 GTTACAAGAAGATTAAAGGTGAAGA
1 GTTA-AAGAAGATGAAAGGTGAAAA
6292947 GTTAAAGAAGATGAAAGGTGAAAA
1 GTTAAAGAAGATGAAAGGTGAAAA
* * *
6292971 GTTGAGGAATATGAAAGGT
1 GTTAAAGAAGATGAAAGGT
6292990 TGAACATCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
24 34 0.89
25 4 0.11
ACGTcount: A:0.47, C:0.01, G:0.31, T:0.21
Consensus pattern (24 bp):
GTTAAAGAAGATGAAAGGTGAAAA
Found at i:6293813 original size:96 final size:94
Alignment explanation
Indices: 6293701--6293980 Score: 303
Period size: 94 Copynumber: 2.9 Consensus size: 94
6293691 GTTTGTCACT
** * * **
6293701 TAAATTAATTATAAAATTTTCAAAATTAGATTA-ATTTTCGTGTTTATTGTTTTGTAAGAAAAAA
1 TAAATTAATTATAAAATTTT-AAAATTAGATTAGGGTTTAGAGTTTAAGGTTTT-TAAG-AAAAA
* *
6293765 ATCAATTAAATTAGGGTTTAGGGTTACTTGAG
63 ATCAAATAAATTAGGGTTCAGGGTTACTTGAG
* * * * * *
6293797 TAATTTAATTAAAAAATTTTAAAGATCAAATTAGGGTTTAGAG-TTAAGGGTTTTAAGGAAAAAT
1 TAAATTAATTATAAAATTTTAAA-ATTAGATTAGGGTTTAGAGTTTAAGGTTTTTAAGAAAAAAT
6293861 CAAATAAATTAGGGTTCAGGGTTACTTGAG
65 CAAATAAATTAGGGTTCAGGGTTACTTGAG
* * * *
6293891 TAAATTAATTATAAATTTTTAATAAATTAGTTTAGGGTTTAGGGTTTAGGGTTTTTAAGTAAAAA
1 TAAATTAATTATAAAATTTT-A-AAATTAGATTAGGGTTTAGAGTTTAAGGTTTTTAAG-AAAAA
* *
6293956 CTCAAATAAATTAGGGTTCTGGGTT
63 ATCAAATAAATTAGGGTTCAGGGTT
6293981 TAAGGTTACT
Statistics
Matches: 152, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
94 51 0.34
95 23 0.15
96 46 0.30
97 32 0.21
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.40
Consensus pattern (94 bp):
TAAATTAATTATAAAATTTTAAAATTAGATTAGGGTTTAGAGTTTAAGGTTTTTAAGAAAAAATC
AAATAAATTAGGGTTCAGGGTTACTTGAG
Found at i:6293932 original size:7 final size:7
Alignment explanation
Indices: 6293920--6293944 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6293910 TAATAAATTA
6293920 GTTTAGG
1 GTTTAGG
6293927 GTTTAGG
1 GTTTAGG
6293934 GTTTAGG
1 GTTTAGG
6293941 GTTT
1 GTTT
6293945 TTAAGTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.40, T:0.48
Consensus pattern (7 bp):
GTTTAGG
Found at i:6294405 original size:125 final size:126
Alignment explanation
Indices: 6294013--6294439 Score: 694
Period size: 126 Copynumber: 3.4 Consensus size: 126
6294003 TTGTTAATTT
* **
6294013 AAAGAAGCTCCCACGTGGATGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCCCCTGAAAAAATAATTTCGAGTAGAC
*
6294078 ATTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAGTACTG
66 ATTTTTGAGCAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAGTACTG
* *
6294139 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAGAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCCCCTGAAAAAATAATTTCGAGTAGAC
* **
6294204 GTTTTTGAGCAAACAGTGTCAAAAACGCTTTAATTAGGATGCTTTGTCAGCAGAAGTACTG
66 ATTTTTGAGCAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAGTACTG
* * *
6294265 AAAGAAGCTCTCACGTGGACGGGCTTTTGCTATAGTAGCCCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCCCCTGAAAAAATAATTTCGAGTAGAC
* * * *
6294330 -TTTTTGAGCAAACAGTGTCAAAAATGCTTTAAGCAGGATGCTTTGTCAGCAGATGTATTG
66 ATTTTTGAGCAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAGTACTG
*
6294390 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTTGCCCCTGAAAAAA
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCCCCTGAAAAAA
6294440 GCTCCCACGT
Statistics
Matches: 280, Mismatches: 21, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
125 101 0.36
126 179 0.64
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCCCCTGAAAAAATAATTTCGAGTAGAC
ATTTTTGAGCAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:6298339 original size:11 final size:11
Alignment explanation
Indices: 6298325--6298384 Score: 75
Period size: 11 Copynumber: 5.4 Consensus size: 11
6298315 TCTTTTAAAT
6298325 AGAAATTTGAG
1 AGAAATTTGAG
6298336 AGAAATTTGAG
1 AGAAATTTGAG
* *
6298347 AGGAAGTTGAG
1 AGAAATTTGAG
*
6298358 AGGAATTTGAG
1 AGAAATTTGAG
*
6298369 AGAATATTAGAG
1 AGAA-ATTTGAG
6298381 AGAA
1 AGAA
6298385 TATTAGAGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
11 33 0.77
12 10 0.23
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.23
Consensus pattern (11 bp):
AGAAATTTGAG
Found at i:6298383 original size:12 final size:12
Alignment explanation
Indices: 6298366--6298393 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
6298356 AGAGGAATTT
6298366 GAGAGAATATTA
1 GAGAGAATATTA
6298378 GAGAGAATATTA
1 GAGAGAATATTA
6298390 GAGA
1 GAGA
6298394 AAGGATTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (12 bp):
GAGAGAATATTA
Found at i:6298385 original size:22 final size:20
Alignment explanation
Indices: 6298325--6298395 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 20
6298315 TCTTTTAAAT
6298325 AGAAATTTGAGAGAAATTTGAG
1 AGAAA-TTGAGAG-AATTTGAG
*
6298347 AGGAAGTTGAGAGGAATTTGAG
1 A-GAAATTGAGA-GAATTTGAG
6298369 AGAATATTAGAGAGAATATT-AG
1 AGAA-ATT-GAGAGAAT-TTGAG
6298391 AGAAA
1 AGAAA
6298396 GGATTTAGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
21 4 0.10
22 28 0.67
23 10 0.24
ACGTcount: A:0.46, C:0.00, G:0.30, T:0.24
Consensus pattern (20 bp):
AGAAATTGAGAGAATTTGAG
Found at i:6313577 original size:54 final size:54
Alignment explanation
Indices: 6313493--6313601 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
6313483 AATACTCAGG
*
6313493 CGGCAGGGTTGACCATATATTAAAGCCAACCCAAGTGCACTAAGTGCTTAGAAA
1 CGGCAGAGTTGACCATATATTAAAGCCAACCCAAGTGCACTAAGTGCTTAGAAA
*
6313547 CGGCAGAGTTGACCATATATTAAAGTCAACCCAAGTGCACTAAGTGCTTAGAAA
1 CGGCAGAGTTGACCATATATTAAAGCCAACCCAAGTGCACTAAGTGCTTAGAAA
6313601 C
1 C
6313602 TTAAGGCTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (54 bp):
CGGCAGAGTTGACCATATATTAAAGCCAACCCAAGTGCACTAAGTGCTTAGAAA
Found at i:6320245 original size:151 final size:152
Alignment explanation
Indices: 6319957--6320266 Score: 451
Period size: 151 Copynumber: 2.0 Consensus size: 152
6319947 TCTCGAGCTA
* * * * *
6319957 TTCACTTTCACGGGTCTGCTCACACAAGCTGTCAGTCATTCGTTTCTATTCAGTGCTACTCATAC
1 TTCACATTCACGGGTCTGCTCACACAAGCTGTCAGTCATTCATTACTACTCAGTGCTACTCACAC
* *
6320022 AAGCTGTCAGGTATCTGCAACACATACCAGTATACCCAGGCATTGGTAGAACTTAAGACCAGCAC
66 AAGCTGTCAGGTATCCGCAACACATACCAGTATACCCAGCCATTGGTAGAACTTAAGACCAGCAC
6320087 CCAGATTCACTTTAGTCACACT
131 CCAGATTCACTTTAGTCACACT
* * *
6320109 TTCACATT-ACGGGTCTGCTCACACAAGCTGTCAGTCTTTCATTACTACTCAGTGTTGCTCACAC
1 TTCACATTCACGGGTCTGCTCACACAAGCTGTCAGTCATTCATTACTACTCAGTGCTACTCACAC
* ** * * * *
6320173 AAGCTGTCAGGTATCCGCAATACATGTCGGTATGCTCAGCCATTGGTAGAACTTAAGACTAGCAC
66 AAGCTGTCAGGTATCCGCAACACATACCAGTATACCCAGCCATTGGTAGAACTTAAGACCAGCAC
*
6320238 CCGGATTCACTTTAGTCACACT
131 CCAGATTCACTTTAGTCACACT
6320260 TTCACAT
1 TTCACAT
6320267 AGAACCTTAG
Statistics
Matches: 140, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
151 133 0.95
152 7 0.05
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (152 bp):
TTCACATTCACGGGTCTGCTCACACAAGCTGTCAGTCATTCATTACTACTCAGTGCTACTCACAC
AAGCTGTCAGGTATCCGCAACACATACCAGTATACCCAGCCATTGGTAGAACTTAAGACCAGCAC
CCAGATTCACTTTAGTCACACT
Found at i:6325402 original size:13 final size:14
Alignment explanation
Indices: 6325365--6325396 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6325355 ATGGCCTACA
6325365 ATTTCACGAAATCG
1 ATTTCACGAAATCG
6325379 ATTTCACGAAAT-G
1 ATTTCACGAAATCG
6325392 ATTTC
1 ATTTC
6325397 GTGAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (14 bp):
ATTTCACGAAATCG
Found at i:6336837 original size:18 final size:19
Alignment explanation
Indices: 6336804--6336839 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6336794 TCAAATGAAC
*
6336804 TAAAATCATAAATATGTAA
1 TAAAATAATAAATATGTAA
6336823 TAAAATAAT-AATATGTA
1 TAAAATAATAAATATGTA
6336840 TAGATACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (19 bp):
TAAAATAATAAATATGTAA
Found at i:6339259 original size:112 final size:113
Alignment explanation
Indices: 6339061--6339275 Score: 360
Period size: 112 Copynumber: 1.9 Consensus size: 113
6339051 TTTCATGGAT
* **
6339061 GTCAAAATAAAAAAAAAAGGCCCACATCTAACTTGACTTAAATCTATCCAAAGATTTATTGTGTA
1 GTCAAAATAAAAAAAAAAGGCCCACATCTAACTTGACTTAAAGCTATCCAAAGATTTATTGTACA
* *
6339126 GATTACTATTCAAAGATCTATCTAAATATTTTTTTGAAGATGGAGTGA
66 AATTACTATTCAAAGATCTATCTAAATATTTGTTTGAAGATGGAGTGA
*
6339174 GTCAAAAT-AAAAAAAAAGGCCCACATCTAAGTTGACTTAAAGCTATCCAAAGATTTATTGTACA
1 GTCAAAATAAAAAAAAAAGGCCCACATCTAACTTGACTTAAAGCTATCCAAAGATTTATTGTACA
*
6339238 AATTACTATTCAAATATCTATCTAAATATTTGTTTGAA
66 AATTACTATTCAAAGATCTATCTAAATATTTGTTTGAA
6339276 CATCAGAGTG
Statistics
Matches: 95, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
112 87 0.92
113 8 0.08
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.33
Consensus pattern (113 bp):
GTCAAAATAAAAAAAAAAGGCCCACATCTAACTTGACTTAAAGCTATCCAAAGATTTATTGTACA
AATTACTATTCAAAGATCTATCTAAATATTTGTTTGAAGATGGAGTGA
Found at i:6341090 original size:15 final size:15
Alignment explanation
Indices: 6341070--6341118 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
6341060 TACTTTTCAA
6341070 TTTTTAAGAATTTAG
1 TTTTTAAGAATTTAG
* *
6341085 TTTTT-ATATTTGTA-
1 TTTTTAAGAATT-TAG
6341099 TTTTTAAGAATTTAG
1 TTTTTAAGAATTTAG
6341114 TTTTT
1 TTTTT
6341119 TTTTTAGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (15 bp):
TTTTTAAGAATTTAG
Found at i:6341489 original size:16 final size:16
Alignment explanation
Indices: 6341468--6341499 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6341458 TTTCAGATTT
6341468 ATTAACCACACACACG
1 ATTAACCACACACACG
*
6341484 ATTAACCACAGACACG
1 ATTAACCACACACACG
6341500 TGGCTCACTA
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:0.44, C:0.34, G:0.09, T:0.12
Consensus pattern (16 bp):
ATTAACCACACACACG
Found at i:6341754 original size:83 final size:83
Alignment explanation
Indices: 6341615--6341780 Score: 314
Period size: 83 Copynumber: 2.0 Consensus size: 83
6341605 CCGTCACACA
* *
6341615 GATTGTTAAACTTTCATATTACTTAGAGATAATAAGCAATATTCTTCCATACATTCATAAGTGAA
1 GATTGTTAAACTCTCATATTACTTAGAGAAAATAAGCAATATTCTTCCATACATTCATAAGTGAA
6341680 ACTACACGTATTTAATAC
66 ACTACACGTATTTAATAC
6341698 GATTGTTAAACTCTCATATTACTTAGAGAAAATAAGCAATATTCTTCCATACATTCATAAGTGAA
1 GATTGTTAAACTCTCATATTACTTAGAGAAAATAAGCAATATTCTTCCATACATTCATAAGTGAA
6341763 ACTACACGTATTTAATAC
66 ACTACACGTATTTAATAC
6341781 TCACAATCTC
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (83 bp):
GATTGTTAAACTCTCATATTACTTAGAGAAAATAAGCAATATTCTTCCATACATTCATAAGTGAA
ACTACACGTATTTAATAC
Found at i:6343862 original size:19 final size:19
Alignment explanation
Indices: 6343838--6343911 Score: 94
Period size: 19 Copynumber: 3.8 Consensus size: 19
6343828 ATTTTTGAGA
6343838 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
**
6343857 ATATGCAATCCAAGATATG
1 ATATGCAATCTTAGATATG
**
6343876 ATATATATAATCTTAGATATG
1 --ATATGCAATCTTAGATATG
6343897 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
6343912 ATATATGATT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 30 0.67
21 15 0.33
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:6345367 original size:98 final size:98
Alignment explanation
Indices: 6345244--6345440 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
6345234 TTAAAAATAA
* * * *
6345244 TAAAGGAAATATTTCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
6345309 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
6345342 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAATGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
6345407 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
6345440 T
1 T
6345441 TTTATTGTAC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:6354615 original size:22 final size:22
Alignment explanation
Indices: 6354574--6354615 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
6354564 CTTGAATTTT
*
6354574 TAAATTCAGAAAGTAGAAAAAC
1 TAAATTCAGAAAATAGAAAAAC
6354596 TAAATTCCAGAAAATA-AAAA
1 TAAATT-CAGAAAATAGAAAA
6354616 TAGGTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.19
Consensus pattern (22 bp):
TAAATTCAGAAAATAGAAAAAC
Found at i:6356551 original size:12 final size:13
Alignment explanation
Indices: 6356528--6356569 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
6356518 AAAAAAAGAG
*
6356528 ATTTGACATTATA
1 ATTTTACATTATA
6356541 ATTTT-CATTATA
1 ATTTTACATTATA
*
6356553 TTTTTACATT-TA
1 ATTTTACATTATA
6356565 ATTTT
1 ATTTT
6356570 TTTTTATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 17 0.68
13 8 0.32
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (13 bp):
ATTTTACATTATA
Found at i:6368304 original size:20 final size:20
Alignment explanation
Indices: 6368281--6368318 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6368271 TTATACTTTT
*
6368281 TAAAATAGCTTTACTTTAGG
1 TAAAATAGATTTACTTTAGG
*
6368301 TAAAATATATTTACTTTA
1 TAAAATAGATTTACTTTA
6368319 ATAATAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (20 bp):
TAAAATAGATTTACTTTAGG
Found at i:6369186 original size:45 final size:44
Alignment explanation
Indices: 6369085--6369259 Score: 260
Period size: 44 Copynumber: 4.0 Consensus size: 44
6369075 GTGCTTTCAT
* * *
6369085 ATGATGTCATAGCATCTTCCAGCTATGATCTTACTCATTTTATC
1 ATGATGTCATAACATCTTTCAGCTATGGTCTTACTCATTTTATC
*
6369129 ATGATGTCATAACATCTTTTAGCTATGGTCTTACTCATTTTTATC
1 ATGATGTCATAACATCTTTCAGCTATGGTCTTACTCA-TTTTATC
* *
6369174 ATGATGCCATAACATCTTTCAACTATGGTCTTACTCATTTTATC
1 ATGATGTCATAACATCTTTCAGCTATGGTCTTACTCATTTTATC
* * *
6369218 ATAATGTCATAACATCTTTTAGCTATGGACTTACTCATTTTA
1 ATGATGTCATAACATCTTTCAGCTATGGTCTTACTCATTTTA
6369260 GGCATATAGC
Statistics
Matches: 118, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
44 77 0.65
45 41 0.35
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (44 bp):
ATGATGTCATAACATCTTTCAGCTATGGTCTTACTCATTTTATC
Found at i:6369236 original size:89 final size:89
Alignment explanation
Indices: 6369085--6369258 Score: 285
Period size: 89 Copynumber: 2.0 Consensus size: 89
6369075 GTGCTTTCAT
* * * *
6369085 ATGATGTCATAGCATCTTCCAGCTATGATCTTACTCATTTTATCATGATGTCATAACATCTTTTA
1 ATGATGCCATAACATCTTCCAACTATGATCTTACTCATTTTATCATAATGTCATAACATCTTTTA
*
6369150 GCTATGGTCTTACTCATTTTTATC
66 GCTATGGACTTACTCATTTTTATC
* *
6369174 ATGATGCCATAACATCTTTCAACTATGGTCTTACTCATTTTATCATAATGTCATAACATCTTTTA
1 ATGATGCCATAACATCTTCCAACTATGATCTTACTCATTTTATCATAATGTCATAACATCTTTTA
6369239 GCTATGGACTTACTCATTTT
66 GCTATGGACTTACTCATTTT
6369259 AGGCATATAG
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 78 1.00
ACGTcount: A:0.26, C:0.20, G:0.10, T:0.43
Consensus pattern (89 bp):
ATGATGCCATAACATCTTCCAACTATGATCTTACTCATTTTATCATAATGTCATAACATCTTTTA
GCTATGGACTTACTCATTTTTATC
Found at i:6369697 original size:16 final size:17
Alignment explanation
Indices: 6369656--6369700 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
6369646 CATTTTTCTA
6369656 TATTTTTATAATAATATT
1 TATTTTT-TAATAATATT
* *
6369674 TATATTTTAA-AATTTT
1 TATTTTTTAATAATATT
6369690 TATTTTTTAAT
1 TATTTTTTAAT
6369701 TCATATAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 14 0.61
17 3 0.13
18 6 0.26
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTTTTTAATAATATT
Found at i:6369775 original size:19 final size:19
Alignment explanation
Indices: 6369729--6369785 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 19
6369719 TTTTAATTTC
6369729 ATAATTTAT-ATAATTATTTT
1 ATAATTTATAATAA-T-TTTT
*
6369749 AGTCATTTATAATAATTTTT
1 A-TAATTTATAATAATTTTT
*
6369769 ATAATTTTTAAATAATT
1 ATAATTTAT-AATAATT
6369786 ATAATATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 6 0.19
20 13 0.42
21 8 0.26
22 4 0.13
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
ATAATTTATAATAATTTTT
Found at i:6369782 original size:20 final size:20
Alignment explanation
Indices: 6369754--6369808 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
6369744 ATTTTAGTCA
6369754 TTTATAATAATTTTTATAATT
1 TTTA-AATAATTTTTATAATT
* * *
6369775 TTTAAATAATTATAATATTT
1 TTTAAATAATTTTTATAATT
**
6369795 TTTTTATAATTTTT
1 TTTAAATAATTTTT
6369809 TGCACATTTA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTAAATAATTTTTATAATT
Found at i:6369854 original size:29 final size:30
Alignment explanation
Indices: 6369822--6369879 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
6369812 ACATTTATAC
6369822 TTTTTTT-T-AATCTTTAATA-TTTTTAATA
1 TTTTTTTATAAAT-TTTAATATTTTTTAATA
6369850 TTTTTTTATAAATTTTAATATTTTTTAATA
1 TTTTTTTATAAATTTTAATATTTTTTAATA
6369880 ATTTGAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 7 0.26
29 8 0.30
30 12 0.44
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (30 bp):
TTTTTTTATAAATTTTAATATTTTTTAATA
Found at i:6369857 original size:20 final size:19
Alignment explanation
Indices: 6369834--6369883 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 19
6369824 TTTTTTAATC
*
6369834 TTTAATATTTTTAATATTT
1 TTTAATAATTTTAATATTT
*
6369853 TTTTATAAATTTTAATATTT
1 TTTAAT-AATTTTAATATTT
6369873 TTTAATAATTT
1 TTTAATAATTT
6369884 GAAGTATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTAATAATTTTAATATTT
Found at i:6369875 original size:10 final size:10
Alignment explanation
Indices: 6369834--6369879 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
6369824 TTTTTTAATC
6369834 TTTAATA-TT
1 TTTAATATTT
6369843 TTTAATATTT
1 TTTAATATTT
* **
6369853 TTTTATAAAT
1 TTTAATATTT
6369863 TTTAATATTT
1 TTTAATATTT
6369873 TTTAATA
1 TTTAATA
6369880 ATTTGAAGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
9 7 0.23
10 23 0.77
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTAATATTT
Found at i:6370024 original size:16 final size:16
Alignment explanation
Indices: 6370003--6370035 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6369993 CGTTTGGTTC
6370003 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
6370019 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
6370035 G
1 G
6370036 ACATAATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.24
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:6370391 original size:29 final size:31
Alignment explanation
Indices: 6370358--6370432 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 31
6370348 AAATATAATT
*
6370358 TAAAATAATTATTATTAAATATAA-T-TTAA
1 TAAAATAATTATTATTAAATAAAATTCTTAA
* *
6370387 TAAAA-AATATATAATTTAATAAAATTCTTAA
1 TAAAATAAT-TATTATTAAATAAAATTCTTAA
* *
6370418 TAAAATTATTCTTAT
1 TAAAATAATTATTAT
6370433 ATGAATTTAC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
28 3 0.08
29 17 0.47
30 1 0.03
31 13 0.36
32 2 0.06
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (31 bp):
TAAAATAATTATTATTAAATAAAATTCTTAA
Found at i:6370469 original size:60 final size:60
Alignment explanation
Indices: 6370284--6370470 Score: 201
Period size: 60 Copynumber: 3.1 Consensus size: 60
6370274 ATATAATTTA
6370284 ATAAAATTCTTAATATTAAA-TATTCTTATATGAATTTACTAAAATCATAATATATAATACT
1 ATAAAATTCTTAATA--AAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACT
* * * *
6370345 ATAAAATATAATTTAA-AATAATTATTATTAAATAT-AATTTAAT-AAA--A-AATATATAAT-T
1 ATAAAAT-T--CTTAATAA-AATTATTCTT--ATATGAATTTACTAAAATCATAATATATAATAC
6370403 T
60 T
6370404 AATAAAATTCTTAATAAAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACT
1 -ATAAAATTCTTAATAAAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACT
6370465 ATAAAA
1 ATAAAA
6370471 ATAATATATA
Statistics
Matches: 103, Mismatches: 8, Indels: 31
0.73 0.06 0.22
Matches are distributed among these distances:
55 4 0.04
56 7 0.07
57 16 0.16
58 2 0.02
59 3 0.03
60 33 0.32
61 10 0.10
62 3 0.03
63 10 0.10
64 11 0.11
65 4 0.04
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.41
Consensus pattern (60 bp):
ATAAAATTCTTAATAAAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACT
Found at i:6373700 original size:19 final size:19
Alignment explanation
Indices: 6373660--6373706 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
6373650 CACTTAATGC
** *
6373660 TTATATTAA-TATTAATAT
1 TTATATTAATTAAAAATAA
6373678 TTATATTAATTAAAAATAA
1 TTATATTAATTAAAAATAA
6373697 TTATATTAAT
1 TTATATTAAT
6373707 ATTAAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTATATTAATTAAAAATAA
Found at i:6375212 original size:43 final size:43
Alignment explanation
Indices: 6374813--6375195 Score: 586
Period size: 43 Copynumber: 8.9 Consensus size: 43
6374803 TCGCTAAAAG
* * * *
6374813 TCATGACCTTTAGCGGCGCTTTTCCCTCAAACGTCGCTATAAA
1 TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA
** *
6374856 TCATGACTTTTAGCGATGCTTTTCCCACAAACGCCACTATAGA
1 TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA
*
6374899 TCATGACTTTTAGTGGCGCTTTTCCCACAAACGCCGCTATAGA
1 TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA
*
6374942 TCATGACTTTTAGCGGTGCTTTTCCCACAAACGCCGCTATAGA
1 TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA
*
6374985 TCATGACTTTTAGCGGCACTTTTCCCACAAACGCCGCTATAGA
1 TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA
*
6375028 TCATGACTTTTAGCGGCGCTTTTCCCAAAAACGCCGCTATAGA
1 TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA
* * *
6375071 TCATGACTTTTAGTGGCGCTTTTCCCAAAAATGCCGCTATAGA
1 TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA
* * *
6375114 TCATGACTTTTAACGGCGCTTCTCCCACAAACGCCGTTATAGA
1 TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA
** *
6375157 TCATGACTTTTAGCGGTACTTTTCCCACAAATGCCGCTA
1 TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTA
6375196 AAGAATACGA
Statistics
Matches: 309, Mismatches: 31, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 309 1.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (43 bp):
TCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGA
Found at i:6375544 original size:21 final size:21
Alignment explanation
Indices: 6375520--6375582 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
6375510 TTCTCCTCTG
* *
6375520 CTCTGTTGCTCTCGCTGTTGC
1 CTCTGCTGCTCTCGCTGCTGC
6375541 CTCTGCTGCTCTCGCTGCTGC
1 CTCTGCTGCTCTCGCTGCTGC
* *
6375562 CTCTGCTTCCCTCGCTGCTGC
1 CTCTGCTGCTCTCGCTGCTGC
6375583 ATCTACTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.00, C:0.41, G:0.22, T:0.37
Consensus pattern (21 bp):
CTCTGCTGCTCTCGCTGCTGC
Found at i:6377917 original size:9 final size:9
Alignment explanation
Indices: 6377899--6378028 Score: 116
Period size: 9 Copynumber: 15.3 Consensus size: 9
6377889 GTCTGATGTA
*
6377899 TTATGAAAG
1 TTATGTAAG
6377908 TTATGTAAG
1 TTATGTAAG
6377917 TTATGT-A-
1 TTATGTAAG
*
6377924 TTATGAAAG
1 TTATGTAAG
6377933 TTATGTAAG
1 TTATGTAAG
6377942 TTATGT-A-
1 TTATGTAAG
6377949 TTATGTAAG
1 TTATGTAAG
*
6377958 TTACGTAAG
1 TTATGTAAG
6377967 TTATGTAAG
1 TTATGTAAG
6377976 TTATGT-A-
1 TTATGTAAG
*
6377983 TTAT-TGAAA
1 TTATGT-AAG
* * *
6377992 TAATTTAAA
1 TTATGTAAG
6378001 TTATGTAAG
1 TTATGTAAG
6378010 TTATGT-A-
1 TTATGTAAG
*
6378017 TTATGAAAG
1 TTATGTAAG
6378026 TTA
1 TTA
6378029 CGTATTATTT
Statistics
Matches: 101, Mismatches: 10, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
6 1 0.01
7 20 0.20
8 8 0.08
9 71 0.70
10 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.18, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:6377923 original size:25 final size:25
Alignment explanation
Indices: 6377894--6377973 Score: 142
Period size: 25 Copynumber: 3.2 Consensus size: 25
6377884 CATAAGTCTG
6377894 ATGTATTATGAAAGTTATGTAAGTT
1 ATGTATTATGAAAGTTATGTAAGTT
6377919 ATGTATTATGAAAGTTATGTAAGTT
1 ATGTATTATGAAAGTTATGTAAGTT
* *
6377944 ATGTATTATGTAAGTTACGTAAGTT
1 ATGTATTATGAAAGTTATGTAAGTT
6377969 ATGTA
1 ATGTA
6377974 AGTTATGTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.44
Consensus pattern (25 bp):
ATGTATTATGAAAGTTATGTAAGTT
Found at i:6377937 original size:34 final size:34
Alignment explanation
Indices: 6377924--6378028 Score: 133
Period size: 34 Copynumber: 3.1 Consensus size: 34
6377914 AAGTTATGTA
*
6377924 TTATGAAAGTTATGTAAGTTATGTATTATGTAAG
1 TTATGAAAGTTATGTAAGTTATGTATTATGAAAG
* *
6377958 TTACGTAAGTTATGTAAGTTATGTATTATTGAAA-
1 TTATGAAAGTTATGTAAGTTATGTATTA-TGAAAG
* *
6377992 TAATTTAAA-TTATGTAAGTTATGTATTATGAAAG
1 TTA-TGAAAGTTATGTAAGTTATGTATTATGAAAG
6378026 TTA
1 TTA
6378029 CGTATTATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
33 5 0.08
34 49 0.82
35 6 0.10
ACGTcount: A:0.37, C:0.01, G:0.17, T:0.45
Consensus pattern (34 bp):
TTATGAAAGTTATGTAAGTTATGTATTATGAAAG
Found at i:6377972 original size:59 final size:59
Alignment explanation
Indices: 6377908--6378171 Score: 218
Period size: 59 Copynumber: 4.4 Consensus size: 59
6377898 ATTATGAAAG
* * * *
6377908 TTATGTAAGTTATGTATTATGAAAGTTATGTAAGTTATGTATTATGTAAGTTACGTAAG
1 TTATGTAAGTTATGTATTATGAAAATTATGTAAGTTATGTATTATGTAAATAACGTAAA
*
6377967 TTATGTAAGTTATGTATTATTGAAATAATTTAAATTATGTAAGTTATGTATTATG-AAAGTTACG
1 TTATGTAAGTTATGTATTA-TG-----A---AAATTATGTAAGTTATGTATTATGTAAA-TAACG
6378031 T--A
56 TAAA
* * * * * * * **
6378033 TTATTTAA-ATA-ATATCATCACAA--ATGTAAGTTATGTATTATTTAAATAAATTAAA
1 TTATGTAAGTTATGTATTATGAAAATTATGTAAGTTATGTATTATGTAAATAACGTAAA
* * **
6378088 TTATGTAAGTTATGTATTATGAAAATAATGTAAGTTATGTATTATTTAAATAATTTAAA
1 TTATGTAAGTTATGTATTATGAAAATTATGTAAGTTATGTATTATGTAAATAACGTAAA
6378147 TTATGTAAGTTATGTATTATTGAAA
1 TTATGTAAGTTATGTATTA-TGAAA
6378172 TAATTTAAAT
Statistics
Matches: 167, Mismatches: 20, Indels: 35
0.75 0.09 0.16
Matches are distributed among these distances:
53 21 0.13
54 3 0.02
55 10 0.06
56 2 0.01
57 8 0.05
58 1 0.01
59 69 0.41
60 7 0.04
63 1 0.01
64 4 0.02
65 3 0.02
66 7 0.04
67 2 0.01
68 29 0.17
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.45
Consensus pattern (59 bp):
TTATGTAAGTTATGTATTATGAAAATTATGTAAGTTATGTATTATGTAAATAACGTAAA
Found at i:6378099 original size:34 final size:34
Alignment explanation
Indices: 6378016--6378200 Score: 194
Period size: 34 Copynumber: 5.6 Consensus size: 34
6378006 TAAGTTATGT
* *
6378016 ATTATGAAAGTTACGTATTATTTAAATAATATCATCACA
1 ATTATGTAAGTTATGTATTATTTAAATAA-AT--T-A-A
6378055 A--ATGTAAGTTATGTATTATTTAAATAAATTAA
1 ATTATGTAAGTTATGTATTATTTAAATAAATTAA
*
6378087 ATTATGTAAGTTATGTATTA--T-GA-AAA-T--
1 ATTATGTAAGTTATGTATTATTTAAATAAATTAA
*
6378114 A--ATGTAAGTTATGTATTATTTAAATAATTTAA
1 ATTATGTAAGTTATGTATTATTTAAATAAATTAA
* *
6378146 ATTATGTAAGTTATGTATTATTGAAATAATTTAA
1 ATTATGTAAGTTATGTATTATTTAAATAAATTAA
6378180 ATTATGTAAGTTATGTATTAT
1 ATTATGTAAGTTATGTATTAT
6378201 GAAAGTTATG
Statistics
Matches: 129, Mismatches: 6, Indels: 27
0.80 0.04 0.17
Matches are distributed among these distances:
25 17 0.13
27 2 0.02
28 1 0.01
29 3 0.02
30 4 0.03
31 1 0.01
32 4 0.03
33 1 0.01
34 69 0.53
36 2 0.02
37 24 0.19
39 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (34 bp):
ATTATGTAAGTTATGTATTATTTAAATAAATTAA
Found at i:6378100 original size:9 final size:9
Alignment explanation
Indices: 6378084--6378212 Score: 71
Period size: 9 Copynumber: 15.2 Consensus size: 9
6378074 TTAAATAAAT
6378084 TAAATTATG
1 TAAATTATG
*
6378093 TAAGTTATG
1 TAAATTATG
6378102 T--ATTATG
1 TAAATTATG
* *
6378109 AAAATAATG
1 TAAATTATG
*
6378118 TAAGTTATG
1 TAAATTATG
*
6378127 T--ATTATT
1 TAAATTATG
* *
6378134 TAAATAATT
1 TAAATTATG
6378143 TAAATTATG
1 TAAATTATG
*
6378152 TAAGTTATG
1 TAAATTATG
6378161 T--ATTAT-
1 TAAATTATG
* *
6378167 TGAAATAATT
1 T-AAATTATG
6378177 TAAATTATG
1 TAAATTATG
*
6378186 TAAGTTATG
1 TAAATTATG
6378195 T--ATTATG
1 TAAATTATG
6378202 -AAAGTTATG
1 TAAA-TTATG
6378211 TA
1 TA
6378213 TTATTTAAAT
Statistics
Matches: 89, Mismatches: 19, Indels: 23
0.68 0.15 0.18
Matches are distributed among these distances:
6 1 0.01
7 19 0.21
8 1 0.01
9 66 0.74
10 2 0.02
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (9 bp):
TAAATTATG
Found at i:6378113 original size:25 final size:25
Alignment explanation
Indices: 6378085--6378153 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
6378075 TAAATAAATT
*
6378085 AAATTATGTAAGTTATGTATTATGA
1 AAATAATGTAAGTTATGTATTATGA
**
6378110 AAATAATGTAAGTTATGTATTATTT
1 AAATAATGTAAGTTATGTATTATGA
* *
6378135 AAATAATTTAAATTATGTA
1 AAATAATGTAAGTTATGTA
6378154 AGTTATGTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (25 bp):
AAATAATGTAAGTTATGTATTATGA
Found at i:6378173 original size:59 final size:59
Alignment explanation
Indices: 6378055--6378187 Score: 223
Period size: 59 Copynumber: 2.3 Consensus size: 59
6378045 TATCATCACA
6378055 AATGTAAGTTATGTATTATTTAAATAAATTAAATTATGTAAGTTATGTATTATGAAAAT
1 AATGTAAGTTATGTATTATTTAAATAAATTAAATTATGTAAGTTATGTATTATGAAAAT
*
6378114 AATGTAAGTTATGTATTATTTAAATAATTTAAATTATGTAAGTTATGTATTATTG-AAAT
1 AATGTAAGTTATGTATTATTTAAATAAATTAAATTATGTAAGTTATGTATTA-TGAAAAT
* *
6378173 AATTTAAATTATGTA
1 AATGTAAGTTATGTA
6378188 AGTTATGTAT
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
59 68 0.97
60 2 0.03
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (59 bp):
AATGTAAGTTATGTATTATTTAAATAAATTAAATTATGTAAGTTATGTATTATGAAAAT
Found at i:6378187 original size:180 final size:180
Alignment explanation
Indices: 6377908--6378249 Score: 603
Period size: 180 Copynumber: 1.9 Consensus size: 180
6377898 ATTATGAAAG
* * * * *
6377908 TTATGTAAGTTATGTATTATGAAAGTTATGTAAGTTATGTATTATGTAAGTTACGTAAGTTATGT
1 TTATGTAAGTTATGTATTATGAAAATAATGTAAGTTATGTATTATGTAAATAACGTAAATTATGT
6377973 AAGTTATGTATTATTGAAATAATTTAAATTATGTAAGTTATGTATTATGAAAGTTACGTATTATT
66 AAGTTATGTATTATTGAAATAATTTAAATTATGTAAGTTATGTATTATGAAAGTTACGTATTATT
6378038 TAAATAATATCATCACAAATGTAAGTTATGTATTATTTAAATAAATTAAA
131 TAAATAATATCATCACAAATGTAAGTTATGTATTATTTAAATAAATTAAA
* **
6378088 TTATGTAAGTTATGTATTATGAAAATAATGTAAGTTATGTATTATTTAAATAATTTAAATTATGT
1 TTATGTAAGTTATGTATTATGAAAATAATGTAAGTTATGTATTATGTAAATAACGTAAATTATGT
*
6378153 AAGTTATGTATTATTGAAATAATTTAAATTATGTAAGTTATGTATTATGAAAGTTATGTATTATT
66 AAGTTATGTATTATTGAAATAATTTAAATTATGTAAGTTATGTATTATGAAAGTTACGTATTATT
6378218 TAAATAATATCATCACAAATGTAAGTTATGTA
131 TAAATAATATCATCACAAATGTAAGTTATGTA
6378250 ATAGTCCTAT
Statistics
Matches: 153, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
180 153 1.00
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.44
Consensus pattern (180 bp):
TTATGTAAGTTATGTATTATGAAAATAATGTAAGTTATGTATTATGTAAATAACGTAAATTATGT
AAGTTATGTATTATTGAAATAATTTAAATTATGTAAGTTATGTATTATGAAAGTTACGTATTATT
TAAATAATATCATCACAAATGTAAGTTATGTATTATTTAAATAAATTAAA
Found at i:6379718 original size:13 final size:14
Alignment explanation
Indices: 6379693--6379722 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
6379683 GTCATTATCG
6379693 AACATGATAAGCAA
1 AACATGATAAGCAA
6379707 AACATG-TAAGCAA
1 AACATGATAAGCAA
6379720 AAC
1 AAC
6379723 GTGTGTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.57, C:0.17, G:0.13, T:0.13
Consensus pattern (14 bp):
AACATGATAAGCAA
Found at i:6381296 original size:7 final size:7
Alignment explanation
Indices: 6381284--6381552 Score: 96
Period size: 7 Copynumber: 36.9 Consensus size: 7
6381274 AGTAATTAAT
6381284 CTAAACC
1 CTAAACC
6381291 CTAAA-C
1 CTAAACC
6381297 CTATAACC
1 CTA-AACC
6381305 ACTAAATCC
1 -CTAAA-CC
6381314 CTTAAACC
1 C-TAAACC
6381322 CTAAACC
1 CTAAACC
* *
6381329 CAAAATC
1 CTAAACC
* *
6381336 ATAAGCC
1 CTAAACC
6381343 CTAAACTC
1 CTAAAC-C
*
6381351 GACTTAAATC
1 --C-TAAACC
*
6381361 GTAAACC
1 CTAAACC
*
6381368 TTAAACC
1 CTAAACC
6381375 CT-AACC
1 CTAAACC
6381381 TCTAAACC
1 -CTAAACC
*
6381389 TTAAACC
1 CTAAACC
6381396 CT-AACC
1 CTAAACC
*
6381402 CTATACC
1 CTAAACC
*
6381409 CTAAACT
1 CTAAACC
*
6381416 GTAAACC
1 CTAAACC
* * *
6381423 GTAATCA
1 CTAAACC
6381430 CTAAACC
1 CTAAACC
*
6381437 CATAATCC
1 C-TAAACC
*
6381445 ATAAACC
1 CTAAACC
* **
6381452 TTAAATA
1 CTAAACC
*
6381459 GT-AACTC
1 CTAAAC-C
*
6381466 ATAAACC
1 CTAAACC
*
6381473 TTAAACC
1 CTAAACC
*
6381480 TTAAACC
1 CTAAACC
*
6381487 ATAAACC
1 CTAAACC
*
6381494 ATAAACC
1 CTAAACC
*
6381501 ATAAACC
1 CTAAACC
*
6381508 ATGTATAATCC
1 --CTA-AA-CC
6381519 CTAAACC
1 CTAAACC
*
6381526 CTAAATC
1 CTAAACC
* *
6381533 TTATACC
1 CTAAACC
*
6381540 CTAAACT
1 CTAAACC
6381547 CTAAAC
1 CTAAAC
6381553 TGTAATGATA
Statistics
Matches: 197, Mismatches: 46, Indels: 38
0.70 0.16 0.14
Matches are distributed among these distances:
6 16 0.08
7 136 0.69
8 22 0.11
9 13 0.07
10 4 0.02
11 6 0.03
ACGTcount: A:0.43, C:0.31, G:0.03, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:6382798 original size:41 final size:41
Alignment explanation
Indices: 6382741--6382890 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
6382731 TTTAACATAT
*
6382741 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
6382782 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* * * *
6382823 TCACCGACACTTAGCCTGCTAAG-TTCATAACCCGGTTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTT-ATAACCTGATTCAGA
*
6382864 TCACCGGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
6382891 AAGTCTGAAT
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
40 2 0.02
41 92 0.96
42 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:6382909 original size:82 final size:83
Alignment explanation
Indices: 6382739--6382915 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 83
6382729 AATTTAACAT
* * *
6382739 ATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACGTAGCCTGCTAG
1 ATTCACCGGCACTTAGCCTGCTAAGCTTATAACCCGATTCAGATCACCGGCACGTAGCCTGCTAG
**
6382804 GTTTATAACCTGATTCAG
66 ACTTATAACCTGATTCAG
* * *
6382822 A-TCACCGACACTTAGCCTGCTAAG-TTCATAACCCGGTTCAGATCACCGGCACTTAGCCTGCTA
1 ATTCACCGGCACTTAGCCTGCTAAGCTT-ATAACCCGATTCAGATCACCGGCACGTAGCCTGCTA
*
6382885 GACTTA-AAGTCTGAATT-A-
65 GACTTATAA-CCTG-ATTCAG
6382903 ATTCACCGGCACT
1 ATTCACCGGCACT
6382916 ACATCTGCTA
Statistics
Matches: 80, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
81 5 0.06
82 71 0.89
83 4 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (83 bp):
ATTCACCGGCACTTAGCCTGCTAAGCTTATAACCCGATTCAGATCACCGGCACGTAGCCTGCTAG
ACTTATAACCTGATTCAG
Found at i:6384140 original size:41 final size:41
Alignment explanation
Indices: 6384082--6384298 Score: 335
Period size: 41 Copynumber: 5.3 Consensus size: 41
6384072 AATTTAACAT
* *
6384082 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* ** *
6384123 ATTCATATCACTAGCACTTAGCCTACTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
6384164 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
6384205 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * * *
6384246 ATTTAGATCACCGGCATTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
6384287 ATTCAAATCACC
1 ATTCAGATCACC
6384299 AATTTCAAAC
Statistics
Matches: 160, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 160 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:6385824 original size:13 final size:13
Alignment explanation
Indices: 6385806--6385830 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6385796 CAATCAAATG
6385806 CACACAAAATAAA
1 CACACAAAATAAA
6385819 CACACAAAATAA
1 CACACAAAATAA
6385831 TATTAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:6387948 original size:40 final size:40
Alignment explanation
Indices: 6387903--6388005 Score: 145
Period size: 41 Copynumber: 2.5 Consensus size: 40
6387893 CTTAATTTTT
*
6387903 GCGGCGTTTTTCAAAAAGCGCCACTAATGCTCGACCTATA
1 GCGGCGTTTTTCAAAAAGCGCCACTAATGATCGACCTATA
* *
6387943 GCGGCGATTTTT-AAGCAGGCGCCACTAATGATCGACCTATA
1 GCGGCG-TTTTTCAA-AAAGCGCCACTAATGATCGACCTATA
*
6387984 GCGGCATTTTTCAAAAAGCGCC
1 GCGGCGTTTTTCAAAAAGCGCC
6388006 GCAAATGCCG
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
40 19 0.35
41 35 0.65
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCGCCACTAATGATCGACCTATA
Found at i:6388117 original size:40 final size:39
Alignment explanation
Indices: 6388058--6388188 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 39
6388048 TTAAATTTTT
*
6388058 GCGGCGTTTTTAAACAATCACTGCTTATGCTCGACCTATA
1 GCGGCGTTTTT-AACAATCACCGCTTATGCTCGACCTATA
* *
6388098 GCGGCGCTTGTTTAA-AATCACCGCTAATGCTCGACTTATA
1 GCGGCG-TT-TTTAACAATCACCGCTTATGCTCGACCTATA
* * *
6388138 GCGGTGTTTTTAAACAAGCGCCGC-TAGTGCTCGACCTATA
1 GCGGCGTTTTT-AACAATCACCGCTTA-TGCTCGACCTATA
6388178 GCGGCGTTTTT
1 GCGGCGTTTTT
6388189 TAAGAAGCGT
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
38 3 0.04
39 5 0.06
40 62 0.81
41 4 0.05
42 3 0.04
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.31
Consensus pattern (39 bp):
GCGGCGTTTTTAACAATCACCGCTTATGCTCGACCTATA
Found at i:6388148 original size:154 final size:151
Alignment explanation
Indices: 6387771--6388161 Score: 421
Period size: 154 Copynumber: 2.5 Consensus size: 151
6387761 CGGGTTGTTA
* *
6387771 CACTAATGCTCGACCTATAGCGGCGTTTTTCAAAAACCACCGCTAATGATAGACCTATGGCGGTG
1 CACTAATGCTCGACCTATAGCGGCGTTTTT--AAAACCACCGCTAATGATCGACCTATAGCGGTG
** * * *
6387836 TTTACCAGAAAGCGCCGCTAATGCCACTAAAGCTCAAAATAAAACAACAGCACTGTGCTTAATTT
64 TTTTTCAAAAAGCGCCGCAAATGCCACTAAAGCTCAAAACAAAACAACAGCACTGTGCTTAATTT
*
6387901 TTGCGGCGTTTTTCAAAAAGCGC
129 TTGCGGCGTTTTTCAAAAAGCAC
** * * *
6387924 CACTAATGCTCGACCTATAGCGGCGATTTTTAAGCAGGCGCCACTAATGATCGACCTATAGCGGC
1 CACTAATGCTCGACCTATAGCGGCG-TTTTTAA--AACCACCGCTAATGATCGACCTATAGCGGT
* * * **
6387989 ATTTTTCAAAAAGCGCCGCAAATGCCGCTAAAGCTCAACACAAAATGAC-G-ACGTTGTGCTTAA
63 GTTTTTCAAAAAGCGCCGCAAATGCCACTAAAGCTCAAAACAAAACAACAGCAC--TGTGCTT-A
*
6388052 ATTTTTGCGGCGTTTTT-AAACAATCAC
125 ATTTTTGCGGCGTTTTTCAAA-AAGCAC
** * * * *
6388079 TGCTTATGCTCGACCTATAGCGGCGCTTGTTTAAAATCACCGCTAATGCTCGACTTATAGCGGTG
1 CACTAATGCTCGACCTATAGCGGCG-TT-TTTAAAACCACCGCTAATGATCGACCTATAGCGGTG
6388144 TTTTT-AAACAAGCGCCGC
64 TTTTTCAAA-AAGCGCCGC
6388162 TAGTGCTCGA
Statistics
Matches: 198, Mismatches: 31, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
152 4 0.02
153 29 0.15
154 114 0.58
155 46 0.23
156 5 0.03
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (151 bp):
CACTAATGCTCGACCTATAGCGGCGTTTTTAAAACCACCGCTAATGATCGACCTATAGCGGTGTT
TTTCAAAAAGCGCCGCAAATGCCACTAAAGCTCAAAACAAAACAACAGCACTGTGCTTAATTTTT
GCGGCGTTTTTCAAAAAGCAC
Found at i:6388197 original size:40 final size:39
Alignment explanation
Indices: 6388085--6388229 Score: 139
Period size: 40 Copynumber: 3.6 Consensus size: 39
6388075 TCACTGCTTA
* * * *
6388085 TGCTCGACCTATAGCGGCGCTTGTTTAAAATCACCGCTAA
1 TGCTCGACCTATAGCGGCG-TTTTTTAAAAGCGCCGCTAG
* * *
6388125 TGCTCGACTTATAGCGGTGTTTTTAAACAAGCGCCGCTAG
1 TGCTCGACCTATAGCGGCGTTTTTTAA-AAGCGCCGCTAG
* *
6388165 TGCTCGACCTATAGCGGCGTTTTTTAAGAAGCGTCACT-G
1 TGCTCGACCTATAGCGGCGTTTTTTAA-AAGCGCCGCTAG
* * *
6388204 ATGCCCGAGCTATAGCGACGTTTTTT
1 -TGCTCGACCTATAGCGGCGTTTTTT
6388230 GTCCAAACGC
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
39 7 0.08
40 80 0.92
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.30
Consensus pattern (39 bp):
TGCTCGACCTATAGCGGCGTTTTTTAAAAGCGCCGCTAG
Found at i:6388218 original size:80 final size:80
Alignment explanation
Indices: 6388058--6388228 Score: 186
Period size: 80 Copynumber: 2.1 Consensus size: 80
6388048 TTAAATTTTT
* * * *
6388058 GCGGCGTTTTTAAACAATCACTGCTTATGCTCGACCTATAGCGGCGCTTGTTTAAAATCACCGCT
1 GCGGCGTTTTTAAACAAGCACCGCTTATGCTCGACCTATAGCGGCGCTTGTTTAAAAGCACCACT
*
6388123 AATGCTCGACTTATA
66 AATGCCCGACTTATA
* * * **
6388138 GCGGTGTTTTTAAACAAGCGCCGC-TAGTGCTCGACCTATAGCGGCG-TTTTTTAAGAAGCGTCA
1 GCGGCGTTTTTAAACAAGCACCGCTTA-TGCTCGACCTATAGCGGCGCTTGTTTAA-AAGCACCA
*
6388201 CTGATGCCCGAGC-TATA
64 CTAATGCCCGA-CTTATA
*
6388218 GCGACGTTTTT
1 GCGGCGTTTTT
6388229 TGTCCAAACG
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
79 9 0.12
80 65 0.87
81 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (80 bp):
GCGGCGTTTTTAAACAAGCACCGCTTATGCTCGACCTATAGCGGCGCTTGTTTAAAAGCACCACT
AATGCCCGACTTATA
Found at i:6389412 original size:18 final size:19
Alignment explanation
Indices: 6389380--6389422 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
6389370 TTTAAAATTT
6389380 TTTTATAAATAATTTAAAA
1 TTTTATAAATAATTTAAAA
* *
6389399 TTTTA-AAATTATTTTAAA
1 TTTTATAAATAATTTAAAA
6389417 TTTTAT
1 TTTTAT
6389423 TTTATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTATAAATAATTTAAAA
Found at i:6393106 original size:18 final size:18
Alignment explanation
Indices: 6393071--6393115 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
6393061 GCAATAAGTG
*
6393071 ACGTTTTGAAAATTAATA
1 ACGTTTTGAAAATGAATA
6393089 ACGTTTTGAAAGA-GAATA
1 ACGTTTTGAAA-ATGAATA
6393107 AC-TTTTGAA
1 ACGTTTTGAA
6393116 TACGAATCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 7 0.28
18 17 0.68
19 1 0.04
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.36
Consensus pattern (18 bp):
ACGTTTTGAAAATGAATA
Found at i:6394566 original size:12 final size:12
Alignment explanation
Indices: 6394549--6394575 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6394539 GGTGGCATTG
6394549 TTTTGTTTTTCT
1 TTTTGTTTTTCT
6394561 TTTTGTTTTTCT
1 TTTTGTTTTTCT
6394573 TTT
1 TTT
6394576 CCATTTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (12 bp):
TTTTGTTTTTCT
Found at i:6395791 original size:5 final size:5
Alignment explanation
Indices: 6395758--6395831 Score: 53
Period size: 5 Copynumber: 14.8 Consensus size: 5
6395748 TTTGTGTAAC
* * *
6395758 TCTGT TCAGT TCTGCT T-TGT T-TCGT TCTGT TCTGC TCTGT TCTGT TCTAT
1 TCTGT TCTGT TCTG-T TCTGT TCT-GT TCTGT TCTGT TCTGT TCTGT TCTGT
** * *
6395808 AATGT TCTGC TCTGT CCTGT TCTG
1 TCTGT TCTGT TCTGT TCTGT TCTG
6395832 GTTGGTTTGT
Statistics
Matches: 52, Mismatches: 14, Indels: 6
0.72 0.19 0.08
Matches are distributed among these distances:
4 3 0.06
5 46 0.88
6 3 0.06
ACGTcount: A:0.05, C:0.23, G:0.19, T:0.53
Consensus pattern (5 bp):
TCTGT
Found at i:6395804 original size:20 final size:20
Alignment explanation
Indices: 6395758--6395805 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
6395748 TTTGTGTAAC
* *
6395758 TCTGTTCAGTTCTGCTTTGT
1 TCTGTTCTGTTCTGCTCTGT
6395778 T-TCGTTCTGTTCTGCTCTGT
1 TCT-GTTCTGTTCTGCTCTGT
6395798 TCTGTTCT
1 TCTGTTCT
6395806 ATAATGTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.02, C:0.23, G:0.19, T:0.56
Consensus pattern (20 bp):
TCTGTTCTGTTCTGCTCTGT
Found at i:6398074 original size:26 final size:24
Alignment explanation
Indices: 6398045--6398112 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 24
6398035 GCCATGATCA
*
6398045 GTAAGCTCAT-TCTGAGTTGAAGAACG
1 GTAAGCTCATATC-GAGCTG-A-AACG
6398071 GTAAGCTC-TATCGAGCTGAAACG
1 GTAAGCTCATATCGAGCTGAAACG
*
6398094 GTAAGCTCATA-AGAGCTGA
1 GTAAGCTCATATCGAGCTGA
6398113 TATATCAGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
23 19 0.50
24 3 0.08
25 6 0.16
26 10 0.26
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (24 bp):
GTAAGCTCATATCGAGCTGAAACG
Found at i:6405286 original size:40 final size:40
Alignment explanation
Indices: 6405242--6405321 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
6405232 TAAGTAAGCA
6405242 TTAAAGCTTAGTAAGCCCGTATAATAGAATTAAACTTACC
1 TTAAAGCTTAGTAAGCCCGTATAATAGAATTAAACTTACC
*
6405282 TTAAAGCTTAGTAAGCTCGTATAATAGAATTAAACTTACC
1 TTAAAGCTTAGTAAGCCCGTATAATAGAATTAAACTTACC
6405322 ACAATACATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (40 bp):
TTAAAGCTTAGTAAGCCCGTATAATAGAATTAAACTTACC
Found at i:6411360 original size:39 final size:38
Alignment explanation
Indices: 6411317--6411401 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 38
6411307 TTAAAATAAT
* *
6411317 TAAAAATTTAAAAATATTATAAAATATTA-TAGAAAATCA
1 TAAAAATTTAAAAA-ATTATAAAA-ATTACAAAAAAATCA
* * *
6411356 TAAAAAAATTATAAAATTATAAAAATTACAAAAAAATTA
1 T-AAAAATTTAAAAAATTATAAAAATTACAAAAAAATCA
6411395 TAAAAAT
1 TAAAAAT
6411402 ATATAAAAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
38 9 0.24
39 18 0.47
40 11 0.29
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (38 bp):
TAAAAATTTAAAAAATTATAAAAATTACAAAAAAATCA
Found at i:6411404 original size:8 final size:9
Alignment explanation
Indices: 6411317--6411409 Score: 73
Period size: 10 Copynumber: 9.6 Consensus size: 9
6411307 TTAAAATAAT
6411317 TAAAAATT-
1 TAAAAATTA
6411325 TAAAAATATTA
1 T-AAAA-ATTA
6411336 TAAAATATTA
1 TAAAA-ATTA
6411346 TAGAAAATCATA
1 TA-AAAAT--TA
*
6411358 AAAAAATTA
1 TAAAAATTA
6411367 T-AAAATTA
1 TAAAAATTA
6411375 TAAAAATTACA
1 TAAAAATT--A
*
6411386 AAAAAATTA
1 TAAAAATTA
6411395 TAAAAATATA
1 TAAAAAT-TA
6411405 TAAAA
1 TAAAA
6411410 GTGAAAAATT
Statistics
Matches: 71, Mismatches: 4, Indels: 18
0.76 0.04 0.19
Matches are distributed among these distances:
8 9 0.13
9 19 0.27
10 23 0.32
11 17 0.24
12 3 0.04
ACGTcount: A:0.67, C:0.02, G:0.01, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:6411417 original size:28 final size:28
Alignment explanation
Indices: 6411326--6411411 Score: 84
Period size: 28 Copynumber: 2.9 Consensus size: 28
6411316 TTAAAAATTT
* *
6411326 AAAAATATTATAAAATATTATAGAAAA-TCAT
1 AAAAAAATTATAAAA-A-TATA-AAAAGT-AC
* *
6411357 AAAAAAATTATAAAATTATAAAAATTAC
1 AAAAAAATTATAAAAATATAAAAAGTAC
6411385 AAAAAAATTATAAAAATATATAAAAGT
1 AAAAAAATTATAAAAATATA-AAAAGT
6411412 GAAAAATTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
28 24 0.50
29 10 0.21
31 14 0.29
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (28 bp):
AAAAAAATTATAAAAATATAAAAAGTAC
Found at i:6414522 original size:22 final size:22
Alignment explanation
Indices: 6414473--6414515 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
6414463 TGGACAAGCC
*
6414473 ACCACATAATTGCCGATAAACG
1 ACCACATAATTGCAGATAAACG
6414495 ACCACATAATTGCAGATAAAC
1 ACCACATAATTGCAGATAAAC
6414516 TGCCACAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.26, G:0.12, T:0.19
Consensus pattern (22 bp):
ACCACATAATTGCAGATAAACG
Found at i:6414780 original size:18 final size:19
Alignment explanation
Indices: 6414750--6414786 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
6414740 TTTGCACAAA
*
6414750 CATCACAATCACATAATAT
1 CATCACAATCACACAATAT
6414769 CATCAC-ATCACACAATAT
1 CATCACAATCACACAATAT
6414787 ACTTTTCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (19 bp):
CATCACAATCACACAATAT
Found at i:6422422 original size:96 final size:96
Alignment explanation
Indices: 6422258--6422451 Score: 361
Period size: 96 Copynumber: 2.0 Consensus size: 96
6422248 CTGAAACAAA
*
6422258 TAAATTCAGATTTTGGCTTTTGGGTTTAATTAAGAATGTCTAATATTTTAAATAGATTAGTTGAA
1 TAAATTCAGATTTTGACTTTTGGGTTTAATTAAGAATGTCTAATATTTTAAATAGATTAGTTGAA
6422323 ACAAAATGCCACCAAAATGACCTCTTTTGTG
66 ACAAAATGCCACCAAAATGACCTCTTTTGTG
6422354 TAAATTCAGATTTTGACTTTTGGGTTTAATTAAGAATGTCTAATATTTTAAATAGATTAGTTGAA
1 TAAATTCAGATTTTGACTTTTGGGTTTAATTAAGAATGTCTAATATTTTAAATAGATTAGTTGAA
* *
6422419 ACAAAATGCCGCCAAAGTGACCTCTTTTGTG
66 ACAAAATGCCACCAAAATGACCTCTTTTGTG
6422450 TA
1 TA
6422452 GATTAGTTTA
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (96 bp):
TAAATTCAGATTTTGACTTTTGGGTTTAATTAAGAATGTCTAATATTTTAAATAGATTAGTTGAA
ACAAAATGCCACCAAAATGACCTCTTTTGTG
Found at i:6424872 original size:18 final size:19
Alignment explanation
Indices: 6424831--6424874 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
6424821 TGTTAATTTC
*
6424831 ATGAATTATATAATGTATG
1 ATGAAATATATAATGTATG
*
6424850 ATGAAATATAT-ATTTATG
1 ATGAAATATATAATGTATG
*
6424868 TTGAAAT
1 ATGAAAT
6424875 GAGAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (19 bp):
ATGAAATATATAATGTATG
Found at i:6425010 original size:46 final size:46
Alignment explanation
Indices: 6424943--6425332 Score: 646
Period size: 46 Copynumber: 8.6 Consensus size: 46
6424933 TTTGAGTACT
*
6424943 TCTGATCAAGTGACAAAGTGATAAGTGGTAACTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
6424989 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
6425035 TCTGATCAAGTGACAAAGTGATAAGTGGAAGCTTTAGCTACACCTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
6425081 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACCTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
6425127 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
6425172 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* * *
6425217 TCTGATTAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
6425263 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
6425308 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
6425333 ATCATACGTA
Statistics
Matches: 328, Mismatches: 15, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
43 12 0.04
44 5 0.02
45 104 0.32
46 207 0.63
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:6427849 original size:17 final size:18
Alignment explanation
Indices: 6427829--6427863 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
6427819 TTTTATTCTA
6427829 GTTTTGGTTT-AAGTTTT
1 GTTTTGGTTTAAAGTTTT
*
6427846 GTTTTGTTTTAAAGTTTT
1 GTTTTGGTTTAAAGTTTT
6427864 AAAGTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.14, C:0.00, G:0.20, T:0.66
Consensus pattern (18 bp):
GTTTTGGTTTAAAGTTTT
Found at i:6429012 original size:23 final size:23
Alignment explanation
Indices: 6428963--6429012 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
6428953 CACACCAAAC
*
6428963 TTTGGACAGCATAAATACATCAA
1 TTTGGACAGCATAAATACAACAA
* * *
6428986 TTTGGGCAGCATATATACAACAG
1 TTTGGACAGCATAAATACAACAA
6429009 TTTG
1 TTTG
6429013 AGCAACATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (23 bp):
TTTGGACAGCATAAATACAACAA
Found at i:6429095 original size:23 final size:23
Alignment explanation
Indices: 6429066--6429236 Score: 144
Period size: 23 Copynumber: 7.3 Consensus size: 23
6429056 TTAAGCATCA
* *
6429066 AAATTGGACAGCATATATGTAAC
1 AAATTGGGCAGCATATATGTATC
* * * *
6429089 AAATTGGGCAACATTTAAGCATC
1 AAATTGGGCAGCATATATGTATC
*
6429112 AAAATTGGGCAGCATATATGTAGC
1 -AAATTGGGCAGCATATATGTATC
* * * *
6429136 AAATTGGGTAGCATTTAAGCATC
1 AAATTGGGCAGCATATATGTATC
* *
6429159 AAAATTGGACAGCATATATGTAGC
1 -AAATTGGGCAGCATATATGTATC
* * *
6429183 AAATTGGGCAGCATTTAAGCATC
1 AAATTGGGCAGCATATATGTATC
* * *
6429206 AAAATTGGACAGCATACATGTAAC
1 -AAATTGGGCAGCATATATGTATC
6429230 AAATTGG
1 AAATTGG
6429237 TTCAACTCAT
Statistics
Matches: 112, Mismatches: 33, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
23 60 0.54
24 52 0.46
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (23 bp):
AAATTGGGCAGCATATATGTATC
Found at i:6429118 original size:47 final size:47
Alignment explanation
Indices: 6429049--6429236 Score: 313
Period size: 47 Copynumber: 4.0 Consensus size: 47
6429039 CAGCATATAT
6429049 GCAACATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGG
1 GCAACATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGG
* *
6429096 GCAACATTTAAGCATCAAAATTGGGCAGCATATATGTAGCAAATTGG
1 GCAACATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGG
* * *
6429143 GTAGCATTTAAGCATCAAAATTGGACAGCATATATGTAGCAAATTGG
1 GCAACATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGG
* *
6429190 GCAGCATTTAAGCATCAAAATTGGACAGCATACATGTAACAAATTGG
1 GCAACATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGG
6429237 TTCAACTCAT
Statistics
Matches: 133, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.26
Consensus pattern (47 bp):
GCAACATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGG
Found at i:6429218 original size:24 final size:24
Alignment explanation
Indices: 6429053--6429220 Score: 162
Period size: 24 Copynumber: 7.1 Consensus size: 24
6429043 ATATATGCAA
*
6429053 CATTTAAGCATCAAAATTGGACAG
1 CATTTAAGCATCAAAATTGGGCAG
* * * * *
6429077 CATATATGTAAC-AAATTGGGCAA
1 CATTTAAGCATCAAAATTGGGCAG
6429100 CATTTAAGCATCAAAATTGGGCAG
1 CATTTAAGCATCAAAATTGGGCAG
* * * * *
6429124 CATATATGTAGC-AAATTGGGTAG
1 CATTTAAGCATCAAAATTGGGCAG
*
6429147 CATTTAAGCATCAAAATTGGACAG
1 CATTTAAGCATCAAAATTGGGCAG
* * * *
6429171 CATATATGTAGC-AAATTGGGCAG
1 CATTTAAGCATCAAAATTGGGCAG
*
6429194 CATTTAAGCATCAAAATTGGACAG
1 CATTTAAGCATCAAAATTGGGCAG
6429218 CAT
1 CAT
6429221 ACATGTAACA
Statistics
Matches: 109, Mismatches: 32, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
23 53 0.49
24 56 0.51
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (24 bp):
CATTTAAGCATCAAAATTGGGCAG
Found at i:6430165 original size:43 final size:42
Alignment explanation
Indices: 6430078--6430201 Score: 126
Period size: 43 Copynumber: 2.9 Consensus size: 42
6430068 AACTCGTACA
* * * *
6430078 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCACGTATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACAC-AATCG
* *
6430121 ATGTC-ACTGTCCCAGACATGGTCTTACACGTAAACACAAGTCG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACACGTAAACACAA-TCG
* *
6430164 ATGCCAACATCCCAGATGTGGTCTTACACG-ATAACACA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTA-AACACA
6430202 TCTCGAAAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
42 4 0.06
43 61 0.91
44 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAATCG
Found at i:6436182 original size:23 final size:23
Alignment explanation
Indices: 6436133--6436182 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
6436123 CACACCAAAC
*
6436133 TTTGGACAGCATAAATACATCAA
1 TTTGGACAGCATAAATACAACAA
* * *
6436156 TTTGGGCAGCATATATACAACAG
1 TTTGGACAGCATAAATACAACAA
6436179 TTTG
1 TTTG
6436183 AGCAACATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (23 bp):
TTTGGACAGCATAAATACAACAA
Found at i:6436265 original size:23 final size:23
Alignment explanation
Indices: 6436236--6436406 Score: 137
Period size: 23 Copynumber: 7.3 Consensus size: 23
6436226 TTAAGCATCA
* *
6436236 AAATTGGACAGCATATATGTAAC
1 AAATTGGGCAGCATATATGTATC
* * * *
6436259 AAATTGGGCAACATTTAAGCATC
1 AAATTGGGCAGCATATATGTATC
*
6436282 AAAATTGGGCAGCATATATGTAGC
1 -AAATTGGGCAGCATATATGTATC
* * * *
6436306 AAATTGGGTAGCATTTAAGCATC
1 AAATTGGGCAGCATATATGTATC
* *
6436329 AAAATTGGACAGCATATATGTAGC
1 -AAATTGGGCAGCATATATGTATC
* *
6436353 AAATTGGGCAGCATTTAAT-CATC
1 AAATTGGGCAGCATAT-ATGTATC
* * *
6436376 AAAATTGGACAGCATACATGTAAC
1 -AAATTGGGCAGCATATATGTATC
6436400 AAATTGG
1 AAATTGG
6436407 TTCAACTCAT
Statistics
Matches: 112, Mismatches: 31, Indels: 10
0.73 0.20 0.07
Matches are distributed among these distances:
23 60 0.54
24 52 0.46
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (23 bp):
AAATTGGGCAGCATATATGTATC
Found at i:6436288 original size:47 final size:47
Alignment explanation
Indices: 6436219--6436406 Score: 304
Period size: 47 Copynumber: 4.0 Consensus size: 47
6436209 CAGCATATAT
6436219 GCAACATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGG
1 GCAACATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGG
* *
6436266 GCAACATTTAAGCATCAAAATTGGGCAGCATATATGTAGCAAATTGG
1 GCAACATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGG
* * *
6436313 GTAGCATTTAAGCATCAAAATTGGACAGCATATATGTAGCAAATTGG
1 GCAACATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGG
* * *
6436360 GCAGCATTTAATCATCAAAATTGGACAGCATACATGTAACAAATTGG
1 GCAACATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGG
6436407 TTCAACTCAT
Statistics
Matches: 132, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (47 bp):
GCAACATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGG
Found at i:6436289 original size:24 final size:24
Alignment explanation
Indices: 6436223--6436390 Score: 153
Period size: 24 Copynumber: 7.1 Consensus size: 24
6436213 ATATATGCAA
*
6436223 CATTTAAGCATCAAAATTGGACAG
1 CATTTAAGCATCAAAATTGGGCAG
* * * * *
6436247 CATATATGTAAC-AAATTGGGCAA
1 CATTTAAGCATCAAAATTGGGCAG
6436270 CATTTAAGCATCAAAATTGGGCAG
1 CATTTAAGCATCAAAATTGGGCAG
* * * * *
6436294 CATATATGTAGC-AAATTGGGTAG
1 CATTTAAGCATCAAAATTGGGCAG
*
6436317 CATTTAAGCATCAAAATTGGACAG
1 CATTTAAGCATCAAAATTGGGCAG
* * * *
6436341 CATATATGTAGC-AAATTGGGCAG
1 CATTTAAGCATCAAAATTGGGCAG
* *
6436364 CATTTAATCATCAAAATTGGACAG
1 CATTTAAGCATCAAAATTGGGCAG
6436388 CAT
1 CAT
6436391 ACATGTAACA
Statistics
Matches: 108, Mismatches: 33, Indels: 6
0.73 0.22 0.04
Matches are distributed among these distances:
23 52 0.48
24 56 0.52
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (24 bp):
CATTTAAGCATCAAAATTGGGCAG
Found at i:6437342 original size:43 final size:44
Alignment explanation
Indices: 6437255--6437368 Score: 130
Period size: 43 Copynumber: 2.7 Consensus size: 44
6437245 AACTCGTACA
* * *
6437255 ATGCCAA-TGTCCCAGACGTGGTCTTACATGTAATCACGTATCG
1 ATGCCAACTGTCCCAGACGTGGTCTTACACGTAAACACGAATCG
*
6437298 ATGGC-ACTGTCCCAGACAG-GGTCTTACACGTAAACAC-AAGTCG
1 ATGCCAACTGTCCCAGAC-GTGGTCTTACACGTAAACACGAA-TCG
*
6437341 ATGCCAAC-GTCCCAGATGTGGTCTTACA
1 ATGCCAACTGTCCCAGACGTGGTCTTACA
6437369 TGATAACACA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
42 3 0.05
43 54 0.90
44 3 0.05
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (44 bp):
ATGCCAACTGTCCCAGACGTGGTCTTACACGTAAACACGAATCG
Found at i:6438540 original size:14 final size:15
Alignment explanation
Indices: 6438521--6438549 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6438511 TCACGAAACT
6438521 TTCACACAT-ATAAA
1 TTCACACATAATAAA
6438535 TTCACACATAATAAA
1 TTCACACATAATAAA
6438550 CACATAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:6440815 original size:36 final size:36
Alignment explanation
Indices: 6440775--6440883 Score: 191
Period size: 36 Copynumber: 3.0 Consensus size: 36
6440765 GCTAAGCTAC
*
6440775 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
* *
6440811 CACTTATCACTTTTTCGCTTGATCAGATAAATGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
6440847 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
6440883 C
1 C
6440884 TAAAGTTACC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 68 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
Found at i:6440898 original size:46 final size:46
Alignment explanation
Indices: 6440847--6440965 Score: 202
Period size: 46 Copynumber: 2.6 Consensus size: 46
6440837 ATAAATGTAG
* * *
6440847 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGTTAC
1 CACTTATCACTTTATCTCTTGATCAGATAAGTGTAGCTAAAGCTAC
*
6440893 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTATCTCTTGATCAGATAAGTGTAGCTAAAGCTAC
6440939 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTATCTCTTGATCAGA
6440966 AGTACTCAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.37
Consensus pattern (46 bp):
CACTTATCACTTTATCTCTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:6442637 original size:24 final size:24
Alignment explanation
Indices: 6442589--6442635 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
6442579 ACTGGTCATA
*
6442589 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
6442613 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
6442636 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:6443678 original size:27 final size:27
Alignment explanation
Indices: 6443638--6443993 Score: 351
Period size: 27 Copynumber: 13.2 Consensus size: 27
6443628 AGAGGTCGAT
6443638 AAATGA-TCGAAATACCCCCATAGGGTA
1 AAATGACT-GAAATACCCCCATAGGGTA
* * * *
6443665 AATTGACTAAAATAACCCCGTAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* *
6443692 AAATAACTGAAATACCCCCATAAGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
** *
6443719 AAATGACCAAAATACCCCTATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
** * *
6443746 AAATGACCAAAATACCCTCATAGTGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* *
6443773 GAATGACTGAAATACCCCAATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * *
6443800 AAATAACCGAAATACCCCTATAGGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* ***
6443827 AAAT-AATCGAAATA-CCCCATAAAATA
1 AAATGACT-GAAATACCCCCATAGGGTA
* *
6443853 AAATGACTGAAATACCTCCATAAGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* *
6443880 AAATGACCGAAATACCCCCATAAGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * * *
6443907 GAATGACCGAAATACCCTCATAAGGTA
1 AAATGACTGAAATACCCCCATAGGGTA
* * *
6443934 GAATGA-TCGAAATATCCCCATAAGGTA
1 AAATGACT-GAAATACCCCCATAGGGTA
*
6443961 AAATGACTGAAATACCCCCATAGAGTA
1 AAATGACTGAAATACCCCCATAGGGTA
6443988 AAATGA
1 AAATGA
6443994 TTGTTATACT
Statistics
Matches: 274, Mismatches: 49, Indels: 12
0.82 0.15 0.04
Matches are distributed among these distances:
26 19 0.07
27 253 0.92
28 2 0.01
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (27 bp):
AAATGACTGAAATACCCCCATAGGGTA
Found at i:6443782 original size:81 final size:79
Alignment explanation
Indices: 6443638--6443993 Score: 408
Period size: 81 Copynumber: 4.4 Consensus size: 79
6443628 AGAGGTCGAT
* * * * *
6443638 AAATGATCGAAATACCCCCATAGGGTAAATTGACTAAAATAACCCCGTAGGGTAAAATAACTGAA
1 AAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAAT-ACCCCATA-GGTAAAATGACTGAA
6443703 ATACCCCCATAAGGTA
64 ATACCCCCATAAGGTA
* * *
6443719 AAATGACCAAAATACCCCTATAGGGTAAAATGACCAAAATACCCTCATAGTGTAGAATGACTGAA
1 AAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCC-CATAG-GTAAAATGACTGAA
* *
6443784 ATACCCCAATAGGGTA
64 ATACCCCCATAAGGTA
* * * * * **
6443800 AAATAACCGAAATACCCCTATAGGGTAAAATAATCGAAATACCCCATAAAATAAAATGACTGAAA
1 AAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCAT-AGGTAAAATGACTGAAA
*
6443865 TACCTCCATAAGGTA
65 TACCCCCATAAGGTA
* * * *
6443880 AAATGACCGAAATACCCCCATAAGGTAGAATGACCGAAATACCCTCATAAGGTAGAATGA-TCGA
1 AAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCC-CAT-AGGTAAAATGACT-GA
*
6443944 AATATCCCCATAAGGTA
63 AATACCCCCATAAGGTA
* *
6443961 AAATGACTGAAATACCCCCATAGAGTAAAATGA
1 AAATGACCGAAATACCCCCATAGGGTAAAATGA
6443994 TTGTTATACT
Statistics
Matches: 234, Mismatches: 36, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
80 72 0.31
81 162 0.69
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (79 bp):
AAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCATAGGTAAAATGACTGAAAT
ACCCCCATAAGGTA
Found at i:6444264 original size:26 final size:26
Alignment explanation
Indices: 6444228--6444304 Score: 102
Period size: 26 Copynumber: 3.0 Consensus size: 26
6444218 TTTACCACAT
*
6444228 ATACTGTTACTGGTAGCTTTGCTGCG
1 ATACTGATACTGGTAGCTTTGCTGCG
* *
6444254 ATACTGATACTGGCAGCTCTGCTGCG
1 ATACTGATACTGGTAGCTTTGCTGCG
*
6444280 ATGCT-ATTACTGGTAGCTTTGCTGC
1 ATACTGA-TACTGGTAGCTTTGCTGC
6444305 AATATTTGTG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
25 1 0.02
26 43 0.98
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (26 bp):
ATACTGATACTGGTAGCTTTGCTGCG
Found at i:6444445 original size:28 final size:28
Alignment explanation
Indices: 6444397--6444490 Score: 120
Period size: 28 Copynumber: 3.4 Consensus size: 28
6444387 TACTGCACTG
*
6444397 CACTGCTACTGTATTGGGCTAAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
* *
6444425 CATTGATT-CTGTATTGGGCTAAAGCCCA
1 CACTG-TTACTGTATTGGGCTAAGGCCCA
* *
6444453 CACTGTTACTATATTGGGCTAAGGCCTA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
6444481 CACTG-TACTG
1 CACTGTTACTG
6444491 CCACTGAATA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 6 0.11
28 49 0.88
29 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.30
Consensus pattern (28 bp):
CACTGTTACTGTATTGGGCTAAGGCCCA
Found at i:6447144 original size:27 final size:27
Alignment explanation
Indices: 6447124--6447471 Score: 320
Period size: 27 Copynumber: 12.9 Consensus size: 27
6447114 TAAAATAATT
** *
6447124 GAAATACCCCTGTAGGGTAAAATGATC
1 GAAATACCCCCATAGGGTAAAATGACC
* * *
6447151 GAAATACCACCGTATGGTAAAATGACC
1 GAAATACCCCCATAGGGTAAAATGACC
* * * *
6447178 AAAATACCCTCATAGGGTAAAATAACT
1 GAAATACCCCCATAGGGTAAAATGACC
* *** **
6447205 GAAATACCCTCAATAAAATAAAATGATT
1 GAAATACCC-CCATAGGGTAAAATGACC
** * * *
6447233 GAAATACCCTTATCGGGTAGAATAACC
1 GAAATACCCCCATAGGGTAAAATGACC
* * *
6447260 AAAATACCCCCATAGAGTAAAATGACT
1 GAAATACCCCCATAGGGTAAAATGACC
* * * * * *
6447287 AAAATACCCCTATAAGATAGAATGATC
1 GAAATACCCCCATAGGGTAAAATGACC
* *
6447314 GAAATACCCCCCATAAGGTAAAATGACA
1 GAAATA-CCCCCATAGGGTAAAATGACC
*
6447342 GAAATACCCCCATAGGGTAAAATGATC
1 GAAATACCCCCATAGGGTAAAATGACC
*
6447369 GAAATACCCCCATAGGGTAAAATGACT
1 GAAATACCCCCATAGGGTAAAATGACC
* *
6447396 GAAATACCCCCATAGGGTAAAATAACT
1 GAAATACCCCCATAGGGTAAAATGACC
* *
6447423 GAAATACCCCC-TAGGATAAAATGATC
1 GAAATACCCCCATAGGGTAAAATGACC
*
6447449 GAAATACCCCCATAAGGTAAAAT
1 GAAATACCCCCATAGGGTAAAAT
6447472 AACTATTATA
Statistics
Matches: 256, Mismatches: 62, Indels: 6
0.79 0.19 0.02
Matches are distributed among these distances:
26 22 0.09
27 192 0.75
28 42 0.16
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.20
Consensus pattern (27 bp):
GAAATACCCCCATAGGGTAAAATGACC
Found at i:6447318 original size:109 final size:109
Alignment explanation
Indices: 6447113--6447471 Score: 370
Period size: 109 Copynumber: 3.3 Consensus size: 109
6447103 CCCTTACAGG
* * * * *
6447113 ATAAAATAATTGAAATACCCCTGTAGGGTAAAATGATCGAAATACCACCGTATGGTAAAATGACC
1 ATAAAATGATTGAAATACCCCTATAGGGTAAAATGATCGAAATACCCCCATA-GGTAAAATGACT
* * *
6447178 AAAATA-CCCTCATAGGGTAAAATAACTGAAATACCCTCAATAAA
65 AAAATACCCCTCATAAGATAAAATAACTGAAATACCCCCAATAAA
* * * * * *
6447222 ATAAAATGATTGAAATACCCTTATCGGGTAGAATAACCAAAATACCCCCATAGAGTAAAATGACT
1 ATAAAATGATTGAAATACCCCTATAGGGTAAAATGATCGAAATACCCCCATAG-GTAAAATGACT
* * * *
6447287 AAAATACCCCT-ATAAGATAGAATGA-TCGAAATACCCCCCATAAG
65 AAAATACCCCTCATAAGATAAAATAACT-GAAATACCCCCAATAAA
* ** *
6447331 GTAAAATGACAGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACT
1 ATAAAATGATTGAAATACCCCTATAGGGTAAAATGATCGAAATACCCCCATA-GGTAAAATGACT
* * * **
6447396 GAAATACCCC-CATAGGGTAAAATAACTGAAATACCCCC--TAGG
65 AAAATACCCCTCATAAGATAAAATAACTGAAATACCCCCAATAAA
* * *
6447438 ATAAAATGATCGAAATACCCCCATAAGGTAAAAT
1 ATAAAATGATTGAAATACCCCTATAGGGTAAAAT
6447472 AACTATTATA
Statistics
Matches: 206, Mismatches: 38, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
107 33 0.16
108 2 0.01
109 165 0.80
110 6 0.03
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.20
Consensus pattern (109 bp):
ATAAAATGATTGAAATACCCCTATAGGGTAAAATGATCGAAATACCCCCATAGGTAAAATGACTA
AAATACCCCTCATAAGATAAAATAACTGAAATACCCCCAATAAA
Found at i:6447775 original size:23 final size:24
Alignment explanation
Indices: 6447726--6447775 Score: 57
Period size: 26 Copynumber: 2.0 Consensus size: 24
6447716 GTGATATTGA
*
6447726 TACTGGCAGCTTTGTTGCGATGCTAT
1 TACTGGCAGCTTTGCTGCGA--CTAT
*
6447752 TACTGGTAGCTTTGCTGCGA-TAT
1 TACTGGCAGCTTTGCTGCGACTAT
6447775 T
1 T
6447776 GGTGTGTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 4 0.18
26 18 0.82
ACGTcount: A:0.16, C:0.18, G:0.26, T:0.40
Consensus pattern (24 bp):
TACTGGCAGCTTTGCTGCGACTAT
Found at i:6447930 original size:28 final size:28
Alignment explanation
Indices: 6447878--6447969 Score: 116
Period size: 28 Copynumber: 3.3 Consensus size: 28
6447868 TGCACTGCAT
* *
6447878 TGTTACTGTATTGGGCAAAGACCCACAC
1 TGTTACTGTATTGGGCTAAGGCCCACAC
*
6447906 TGATT-TTGTATTGGGCTAAGGCCCACAC
1 TG-TTACTGTATTGGGCTAAGGCCCACAC
* *
6447934 TGTTACTGTATTAGGCTAAGGCCCAAAC
1 TGTTACTGTATTGGGCTAAGGCCCACAC
6447962 TG-TACTGT
1 TGTTACTGT
6447970 CACTGAATAG
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 8 0.14
28 46 0.82
29 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (28 bp):
TGTTACTGTATTGGGCTAAGGCCCACAC
Found at i:6449638 original size:23 final size:23
Alignment explanation
Indices: 6449607--6449682 Score: 118
Period size: 23 Copynumber: 3.3 Consensus size: 23
6449597 GCACATAAGT
6449607 GCTA-CACTGATATGTAGCCGAA
1 GCTACCACTGATATGTAGCCGAA
*
6449629 GCTACCACTGATATGTAGCCGTA
1 GCTACCACTGATATGTAGCCGAA
* *
6449652 GCTACCACTGAAATGTAGCTGAA
1 GCTACCACTGATATGTAGCCGAA
6449675 GCTACCAC
1 GCTACCAC
6449683 AGATCAATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 4 0.08
23 45 0.92
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
GCTACCACTGATATGTAGCCGAA
Found at i:6458152 original size:30 final size:30
Alignment explanation
Indices: 6458118--6458177 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
6458108 GAATTGGATC
6458118 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
* *
6458148 AAATCAAATTTTCATGTATACAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
6458178 TATTAAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.32
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTACACA
Found at i:6463509 original size:49 final size:49
Alignment explanation
Indices: 6463452--6463555 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
6463442 TCATGTGTTA
* * *
6463452 TAATTTTATAAAGTGTTGATCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
*
6463501 TAATTTTATAAAGTTTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
6463550 TAATTT
1 TAATTT
6463556 GTTTTTTTCT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.52
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:6464978 original size:21 final size:21
Alignment explanation
Indices: 6464937--6464979 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
6464927 AATAAAGTAG
*
6464937 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
6464958 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
6464979 A
1 A
6464980 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:6465044 original size:28 final size:28
Alignment explanation
Indices: 6465008--6465208 Score: 83
Period size: 28 Copynumber: 6.9 Consensus size: 28
6464998 TAATATTAAG
*
6465008 AATTTTATTAAATTATATATTTTTATTA
1 AATTATATTAAATTATATATTTTTATTA
* * *
6465036 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTAAATTATATATTTTTATTA
*
6465062 AATTATATT---TTATAGTATTATATATTA
1 AATTATATTAAATTATA-TATT-TTTATTA
* * * *
6465089 TGATTTTAGTAAATTCATATAAGAATATTAATATTAA
1 -AATTATATTAAATT-ATAT----AT-TT-TTATT-A
*
6465126 GAATTTTATTAAATTATATATTTTTATTA
1 -AATTATATTAAATTATATATTTTTATTA
* * * *
6465155 AATTATATTTAA-TA-ATAATTATGTTA
1 AATTATATTAAATTATATATTTTTATTA
* *
6465181 AAATATGATTAAATTATTTATTATTTAT
1 AATTAT-ATTAAATTATATATT-TTTAT
6465209 ATTAATAATC
Statistics
Matches: 128, Mismatches: 25, Indels: 38
0.67 0.13 0.20
Matches are distributed among these distances:
23 4 0.03
25 3 0.02
26 27 0.21
27 15 0.12
28 32 0.25
29 4 0.03
30 7 0.05
31 5 0.04
32 5 0.04
35 3 0.02
36 10 0.08
37 13 0.10
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (28 bp):
AATTATATTAAATTATATATTTTTATTA
Found at i:6465067 original size:119 final size:119
Alignment explanation
Indices: 6464944--6465182 Score: 453
Period size: 119 Copynumber: 2.0 Consensus size: 119
6464934 TAGATTATAT
6464944 ATTAT-TTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATA-TTAATATTAAG
*
6465008 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
65 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
6465063 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTAATATTAAGA
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTAATATTAAGA
6465128 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
66 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
6465182 A
1 A
6465183 ATATGATTAA
Statistics
Matches: 118, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
119 71 0.60
120 47 0.40
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.52
Consensus pattern (119 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTAATATTAAGA
ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
Found at i:6465137 original size:18 final size:18
Alignment explanation
Indices: 6465114--6465161 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
6465104 CATATAAGAA
6465114 TATTAATATTA-AGAATTT
1 TATTAA-ATTATAGAATTT
* *
6465132 TATTAAATTATATATTTT
1 TATTAAATTATAGAATTT
6465150 TATTAAATTATA
1 TATTAAATTATA
6465162 TTTAATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
TATTAAATTATAGAATTT
Found at i:6467125 original size:18 final size:20
Alignment explanation
Indices: 6467090--6467130 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
6467080 ATATTATTTT
*
6467090 AAAATATATATAATACATCA
1 AAAATATATATAAAACATCA
*
6467110 AAAATAT-TA-AAAACATTA
1 AAAATATATATAAAACATCA
6467128 AAA
1 AAA
6467131 TAAATGTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 10 0.53
19 2 0.11
20 7 0.37
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAATATATATAAAACATCA
Found at i:6470363 original size:31 final size:33
Alignment explanation
Indices: 6470320--6470383 Score: 114
Period size: 31 Copynumber: 2.0 Consensus size: 33
6470310 GAGTCTCTTT
6470320 TTTTTCCCTAATTTGGTACCTAAACTTG-AAAA
1 TTTTTCCCTAATTTGGTACCTAAACTTGTAAAA
6470352 TTTTT-CCTAATTTGGTACCTAAACTTGTAAAA
1 TTTTTCCCTAATTTGGTACCTAAACTTGTAAAA
6470384 CATATACAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 22 0.71
32 9 0.29
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.42
Consensus pattern (33 bp):
TTTTTCCCTAATTTGGTACCTAAACTTGTAAAA
Found at i:6471292 original size:20 final size:19
Alignment explanation
Indices: 6471267--6471308 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6471257 AAATAATTTC
*
6471267 TAGAAAATATTAATTTTTTT
1 TAGAAAA-ATTAATATTTTT
*
6471287 TAGAAAAGTTAATATTTTT
1 TAGAAAAATTAATATTTTT
6471306 TAG
1 TAG
6471309 TGTTTGGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (19 bp):
TAGAAAAATTAATATTTTT
Found at i:6473128 original size:19 final size:18
Alignment explanation
Indices: 6473088--6473128 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
6473078 ATTGCCTCTA
6473088 AATAATAACAAAATTAAC
1 AATAATAACAAAATTAAC
6473106 AATAA-AACAAAAGTTATAC
1 AATAATAACAAAA-TTA-AC
6473125 AATA
1 AATA
6473129 TCCAAACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.33
18 8 0.38
19 6 0.29
ACGTcount: A:0.66, C:0.10, G:0.02, T:0.22
Consensus pattern (18 bp):
AATAATAACAAAATTAAC
Found at i:6482254 original size:23 final size:24
Alignment explanation
Indices: 6482224--6482289 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
6482214 GCGCATTCTA
* *
6482224 TTTGGCCTGTGTGGTGTA-TTTTG
1 TTTGGCCTTTGTGGTGTACTTATG
*
6482247 TTTGGCCTTTGTGGCGTACTTATG
1 TTTGGCCTTTGTGGTGTACTTATG
*
6482271 TTTGGCCTTTGTGATGTAC
1 TTTGGCCTTTGTGGTGTAC
6482290 CCTATATGTC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 16 0.43
24 21 0.57
ACGTcount: A:0.08, C:0.14, G:0.30, T:0.48
Consensus pattern (24 bp):
TTTGGCCTTTGTGGTGTACTTATG
Found at i:6482277 original size:24 final size:24
Alignment explanation
Indices: 6482224--6482338 Score: 90
Period size: 23 Copynumber: 4.8 Consensus size: 24
6482214 GCGCATTCTA
* * *
6482224 TTTGGCCTGTGTGGTGTA-TTTTG
1 TTTGGCCTTTGTGGCGTACTTATG
6482247 TTTGGCCTTTGTGGCGTACTTATG
1 TTTGGCCTTTGTGGCGTACTTATG
** * *
6482271 TTTGGCCTTTGTGATGTACCCTATA
1 TTTGGCCTTTGTGGCGTA-CTTATG
* * * * *
6482296 TGTCGTCTTTGTGGCATA-TTCTG
1 TTTGGCCTTTGTGGCGTACTTATG
*
6482319 TTGGGCCTTTGTGGCGTACT
1 TTTGGCCTTTGTGGCGTACT
6482339 CTGCTAAGTT
Statistics
Matches: 68, Mismatches: 21, Indels: 5
0.72 0.22 0.05
Matches are distributed among these distances:
23 31 0.46
24 21 0.31
25 16 0.24
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (24 bp):
TTTGGCCTTTGTGGCGTACTTATG
Found at i:6490174 original size:27 final size:27
Alignment explanation
Indices: 6490144--6490208 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
6490134 ACAACAATTC
**
6490144 CAACAGCAACAACTCCTCCAACAACAA
1 CAACAGCAACAACAACTCCAACAACAA
** *
6490171 CAACAGCAACTGCAACTTCAACAACAA
1 CAACAGCAACAACAACTCCAACAACAA
*
6490198 CAAGAGCAACA
1 CAACAGCAACA
6490209 TGAACAACAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.49, C:0.35, G:0.08, T:0.08
Consensus pattern (27 bp):
CAACAGCAACAACAACTCCAACAACAA
Found at i:6490206 original size:21 final size:21
Alignment explanation
Indices: 6490162--6490217 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
6490152 ACAACTCCTC
* * *
6490162 CAACAACAACAACAGCAACTG
1 CAACATCAACAACAACAACAG
* *
6490183 CAACTTCAACAACAACAAGAG
1 CAACATCAACAACAACAACAG
*
6490204 CAACATGAACAACA
1 CAACATCAACAACA
6490218 GTTACAGTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.54, C:0.30, G:0.09, T:0.07
Consensus pattern (21 bp):
CAACATCAACAACAACAACAG
Found at i:6492888 original size:23 final size:24
Alignment explanation
Indices: 6492841--6492886 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
6492831 GAAAAATATT
6492841 AAATATATATATTTTTTATTTTTA
1 AAATATATATATTTTTTATTTTTA
6492865 AAATATA-ATAATTTTTTATTTT
1 AAATATATAT-ATTTTTTATTTT
6492887 AAGTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
AAATATATATATTTTTTATTTTTA
Found at i:6492997 original size:9 final size:9
Alignment explanation
Indices: 6492983--6493010 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
6492973 TTTTGTTACA
6492983 ACAATTAAT
1 ACAATTAAT
6492992 ACAATTAAT
1 ACAATTAAT
6493001 ACAATTAAT
1 ACAATTAAT
6493010 A
1 A
6493011 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:6493032 original size:68 final size:68
Alignment explanation
Indices: 6492953--6493162 Score: 379
Period size: 68 Copynumber: 3.1 Consensus size: 68
6492943 TCAAGTTTGT
*
6492953 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
6493018 AAA
66 AAA
6493021 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
6493086 AAA
66 AAA
*
6493089 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAGTACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
6493152 AAT
66 AAA
6493155 TTTACTAA
1 TTTACTAA
6493163 CAATTAATTT
Statistics
Matches: 139, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
66 27 0.19
67 1 0.01
68 111 0.80
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.40
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:6493063 original size:9 final size:9
Alignment explanation
Indices: 6493051--6493078 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
6493041 TTTTATTACA
6493051 ACAATTAAT
1 ACAATTAAT
6493060 ACAATTAAT
1 ACAATTAAT
6493069 ACAATTAAT
1 ACAATTAAT
6493078 A
1 A
6493079 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:6493172 original size:16 final size:16
Alignment explanation
Indices: 6493151--6493192 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
6493141 AATAATTTGA
*
6493151 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
6493167 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
6493183 TAGTTTTAAT
1 TAATTTTAAT
6493193 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:6511259 original size:14 final size:14
Alignment explanation
Indices: 6511242--6511283 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
6511232 TCACTCAAAA
6511242 TTCAAAATTCAAGT
1 TTCAAAATTCAAGT
* *
6511256 TTCAAATTTCAAAT
1 TTCAAAATTCAAGT
6511270 TTCAAAAGTTCAAG
1 TTCAAAA-TTCAAG
6511284 AATATCCCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
TTCAAAATTCAAGT
Found at i:6512056 original size:13 final size:13
Alignment explanation
Indices: 6512012--6512061 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
6512002 ATTTAAGAAT
*
6512012 ATTTTAATTGATA
1 ATTTTAATTTATA
* *
6512025 ATTTTTAAAATTATT
1 A-TTTT-AATTTATA
6512040 ATTTTAATTTATA
1 ATTTTAATTTATA
6512053 ATTTTAATT
1 ATTTTAATT
6512062 AAAAAAATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 16 0.53
14 8 0.27
15 6 0.20
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
ATTTTAATTTATA
Found at i:6515312 original size:28 final size:28
Alignment explanation
Indices: 6515278--6515334 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
6515268 AGTAGTACGC
6515278 TGGGACAGTAAACAC-AGATAAAGTTTGT
1 TGGGACAGTAAACACGAGATAAA-TTTGT
*
6515306 TGGGACAGTAAACACGAGGTAAATTTGT
1 TGGGACAGTAAACACGAGATAAATTTGT
6515334 T
1 T
6515335 AGGAGGCGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 21 0.78
29 6 0.22
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (28 bp):
TGGGACAGTAAACACGAGATAAATTTGT
Found at i:6516378 original size:35 final size:35
Alignment explanation
Indices: 6516327--6516396 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
6516317 GACCTAGTTA
*
6516327 AAGAACTTACTAAGTTCATTTGAACTTACAGTAGT
1 AAGAACTCACTAAGTTCATTTGAACTTACAGTAGT
*
6516362 AAGAACTCACTTAGTTCATTTGAACTTACAGTAGT
1 AAGAACTCACTAAGTTCATTTGAACTTACAGTAGT
6516397 GTGGCTGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (35 bp):
AAGAACTCACTAAGTTCATTTGAACTTACAGTAGT
Found at i:6517752 original size:15 final size:15
Alignment explanation
Indices: 6517732--6517763 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
6517722 TAAACTATTG
6517732 AAATAATGAAGCTTC
1 AAATAATGAAGCTTC
6517747 AAATAATGAAGCTTC
1 AAATAATGAAGCTTC
6517762 AA
1 AA
6517764 GTGAGTTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (15 bp):
AAATAATGAAGCTTC
Found at i:6518235 original size:58 final size:58
Alignment explanation
Indices: 6518143--6518276 Score: 144
Period size: 58 Copynumber: 2.3 Consensus size: 58
6518133 ATACGTAGCT
* * * * * * *
6518143 TAAGACAATGGATGAAAGTCGCCATGACAGCATGGTATAAGGTAAAATGTATATGGCG
1 TAAGACCATAGATGAAAGGCGCCATGACAGCATGGTACAAAGTAAAAGGTATATGACG
* * *
6518201 TAAGACCATAGATGAAAGGCGCCATGGC-GACATGGTACAAAGTATAAGGTATATGATG
1 TAAGACCATAGATGAAAGGCGCCATGACAG-CATGGTACAAAGTAAAAGGTATATGACG
* *
6518259 TAAAACCATAGACGAAAG
1 TAAGACCATAGATGAAAG
6518277 ATGTTATGGC
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
57 1 0.02
58 62 0.98
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.20
Consensus pattern (58 bp):
TAAGACCATAGATGAAAGGCGCCATGACAGCATGGTACAAAGTAAAAGGTATATGACG
Found at i:6519645 original size:15 final size:16
Alignment explanation
Indices: 6519608--6519646 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
6519598 TTATTTTTTA
*
6519608 TTTTATTATTAGATTG
1 TTTTATTATTAGACTG
*
6519624 TTTTATTTTTAGACTG
1 TTTTATTATTAGACTG
6519640 -TTTATTA
1 TTTTATTA
6519647 GCAGCTGAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.64
Consensus pattern (16 bp):
TTTTATTATTAGACTG
Found at i:6521307 original size:17 final size:16
Alignment explanation
Indices: 6521260--6521307 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
6521250 GGCATATAAT
*
6521260 ATTTGGATAGATTATTG
1 ATTT-GATAGATTATTA
*
6521277 ATTTGATAAAATTAGTTA
1 ATTTGAT-AGATTA-TTA
6521295 ATTTGATAGATTA
1 ATTTGATAGATTA
6521308 ACTAATTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 3 0.12
17 14 0.54
18 9 0.35
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.46
Consensus pattern (16 bp):
ATTTGATAGATTATTA
Done.