Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 21 of 136
Found at i:6658115 original size:42 final size:42
Alignment explanation
Indices: 6658060--6658159 Score: 173
Period size: 42 Copynumber: 2.4 Consensus size: 42
6658050 CTATATGAAT
* *
6658060 GGCACTAAGTGTGCGGAATTAAAATGATGATGTTGAATAATA
1 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACA
*
6658102 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACA
6658144 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
6658160 TACCGAGAGC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACA
Found at i:6659061 original size:23 final size:24
Alignment explanation
Indices: 6658994--6659076 Score: 98
Period size: 23 Copynumber: 3.5 Consensus size: 24
6658984 CGATTCAAGT
* *
6658994 CCAATTTTGGTGTAAAAATGCTGC
1 CCAATTTTGGTGTATATATGCTGC
*
6659018 CCAA-TTTGGTGTCTATATGCTGC
1 CCAATTTTGGTGTATATATGCTGC
* *
6659041 CCAA-TTTGGTGTATATTTGCTGT
1 CCAATTTTGGTGTATATATGCTGC
*
6659064 CAAATTTTGGTGT
1 CCAATTTTGGTGT
6659077 TAAAAAAATG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 39 0.76
24 12 0.24
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.41
Consensus pattern (24 bp):
CCAATTTTGGTGTATATATGCTGC
Found at i:6667240 original size:17 final size:17
Alignment explanation
Indices: 6667207--6667494 Score: 130
Period size: 17 Copynumber: 16.5 Consensus size: 17
6667197 AAAACACAAA
6667207 AAAATTTTA-AAACACG
1 AAAATTTTAGAAACACG
* *
6667223 AGAATTTTAGAGACACG
1 AAAATTTTAGAAACACG
*
6667240 AAAATTCTTAAAAACACG
1 AAAATT-TTAGAAACACG
6667258 AAAATTTT-GAAAACACG
1 AAAATTTTAG-AAACACG
*
6667275 ACAATTTT-GAAACACG
1 AAAATTTTAGAAACACG
*
6667291 AGAAATTTTTTTGAAAACACG
1 A-AAA--TTTTAG-AAACACG
*** *
6667312 ---ATTTTTTTAACGCG
1 AAAATTTTAGAAACACG
6667326 AAAATTTGT-GAAACACG
1 AAAATTT-TAGAAACACG
* *
6667343 AGAATTGTT-GAAATCAAG
1 AAAATT-TTAGAAA-CACG
* *
6667361 AAAATTTTGGAAAACACA
1 AAAATTTTAG-AAACACG
* *
6667379 AAAATTTTTGAAATACG
1 AAAATTTTAGAAACACG
*
6667396 AAAGTTTTTAGAAAACACG
1 AAA-ATTTTAG-AAACACG
* *
6667415 AAAATTTTTTTG-ATCATCG
1 AAAA--TTTTAGAAACA-CG
* *
6667434 -GAATTTTTGAGAACACG
1 AAAATTTTAGA-AACACG
6667451 AAAA-TTTATGAAACACAG
1 AAAATTTTA-GAAACAC-G
**
6667469 AAGTTTTTAGAAAACACG
1 AAAATTTTAG-AAACACG
6667487 AAAATTTT
1 AAAATTTT
6667495 TTTGGCGACA
Statistics
Matches: 208, Mismatches: 36, Indels: 54
0.70 0.12 0.18
Matches are distributed among these distances:
14 5 0.02
15 5 0.02
16 22 0.11
17 70 0.34
18 65 0.31
19 28 0.13
20 6 0.03
21 7 0.03
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (17 bp):
AAAATTTTAGAAACACG
Found at i:6667255 original size:35 final size:33
Alignment explanation
Indices: 6667207--6667494 Score: 131
Period size: 35 Copynumber: 8.2 Consensus size: 33
6667197 AAAACACAAA
*
6667207 AAAATTTTAAAACACGAGAATTTT-AGAGACACG
1 AAAATTTTAAAACACGAGAATTTTGA-AAACACG
*
6667240 AAAATTCTTAAAAACACGAAAATTTTGAAAACACG
1 AAAATT-TT-AAAACACGAGAATTTTGAAAACACG
* *
6667275 ACAATTTTGAAACACGAGAAATTTTTTTGAAAACACG
1 AAAATTTTAAAACACGAG-AA---TTTTGAAAACACG
* ** * *
6667312 --ATTTTTTTAACGCGAAAATTTGTG-AAACACG
1 AAAATTTTAAAACACGAGAATTT-TGAAAACACG
* * * * *
6667343 AGAATTGTTGAAATCAAGAAAATTTTGGAAAACACA
1 AAAATT-TT-AAAACACGAGAATTTT-GAAAACACG
* *
6667379 AAAATTTTTGAAATACGA-AAGTTTTTAGAAAACACG
1 AAAA-TTTTAAAACACGAGAA--TTTT-GAAAACACG
** * *
6667415 AAAATTTTTTTGATCATCG-GAATTTTTGAGAACACG
1 AAAA--TTTTAAAACA-CGAGAA-TTTTGAAAACACG
*
6667451 AAAATTTATGAAACAC-AGAAGTTTTTAGAAAACACG
1 AAAATTT-TAAAACACGAGAA--TTTT-GAAAACACG
6667487 AAAATTTT
1 AAAATTTT
6667495 TTTGGCGACA
Statistics
Matches: 198, Mismatches: 33, Indels: 46
0.71 0.12 0.17
Matches are distributed among these distances:
31 10 0.05
32 2 0.01
33 17 0.09
34 20 0.10
35 63 0.32
36 55 0.28
37 27 0.14
38 4 0.02
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (33 bp):
AAAATTTTAAAACACGAGAATTTTGAAAACACG
Found at i:6667387 original size:68 final size:67
Alignment explanation
Indices: 6667256--6667387 Score: 144
Period size: 68 Copynumber: 1.9 Consensus size: 67
6667246 CTTAAAAACA
* * * **
6667256 CGAAAATTTTGAAAACACGACAATTTTGAAACACGAGAAATTTTTTTGAAAACACGATTTTTTTA
1 CGAAAATTTTGAAAACACGACAATTTTGAAACAC-AGAAATATTTTGGAAAACACAAAATTTTTA
6667321 ACG
65 ACG
*
6667324 CGAAAATTTGTG-AAACACGAGAATTGTTGAAATCA-AGAAA-ATTTTGGAAAACACAAAAATTT
1 CGAAAATTT-TGAAAACACGACAATT-TTGAAA-CACAGAAATATTTTGGAAAACAC-AAAATTT
6667386 TT
62 TT
6667388 GAAATACGAA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
67 12 0.22
68 32 0.59
69 8 0.15
70 2 0.04
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.30
Consensus pattern (67 bp):
CGAAAATTTTGAAAACACGACAATTTTGAAACACAGAAATATTTTGGAAAACACAAAATTTTTAA
CG
Found at i:6667404 original size:18 final size:19
Alignment explanation
Indices: 6667197--6667496 Score: 123
Period size: 18 Copynumber: 16.9 Consensus size: 19
6667187 ATTTTAAAAA
* **
6667197 AAAACACAAAAAAATTTT-
1 AAAACACGAAAATTTTTTG
* *
6667215 AAAACACGAGAA-TTTTAG
1 AAAACACGAAAATTTTTTG
* * *
6667233 -AGACACGAAAA-TTCTTA
1 AAAACACGAAAATTTTTTG
6667250 AAAACACGAAAA--TTTTG
1 AAAACACGAAAATTTTTTG
*
6667267 AAAACACGACAA--TTTTG
1 AAAACACGAAAATTTTTTG
6667284 -AAACACGAGAAATTTTTTTG
1 AAAACACGA-AAA-TTTTTTG
6667304 AAAACACG---ATTTTTT-
1 AAAACACGAAAATTTTTTG
* * *
6667319 -TAACGCGAAAA-TTTGTG
1 AAAACACGAAAATTTTTTG
* *
6667336 -AAACACGAGAA-TTGTTG
1 AAAACACGAAAATTTTTTG
* * *
6667353 AAATCAAGAAAA-TTTTGG
1 AAAACACGAAAATTTTTTG
*
6667371 AAAACAC-AAAAATTTTTG
1 AAAACACGAAAATTTTTTG
* * *
6667389 -AAATACGAAAGTTTTTAG
1 AAAACACGAAAATTTTTTG
6667407 AAAACACGAAAATTTTTTTG
1 AAAACACGAAAA-TTTTTTG
* *
6667427 --ATCATCG-GAA-TTTTTG
1 AAAACA-CGAAAATTTTTTG
* *
6667443 AGAACACGAAAA-TTTATG
1 AAAACACGAAAATTTTTTG
* *
6667461 -AAACAC-AGAAGTTTTTAG
1 AAAACACGA-AAATTTTTTG
6667479 AAAACACGAAAATTTTTT
1 AAAACACGAAAATTTTTT
6667497 TGGCGACATG
Statistics
Matches: 210, Mismatches: 48, Indels: 47
0.69 0.16 0.15
Matches are distributed among these distances:
14 5 0.02
16 25 0.12
17 68 0.32
18 69 0.33
19 24 0.11
20 12 0.06
21 7 0.03
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.29
Consensus pattern (19 bp):
AAAACACGAAAATTTTTTG
Found at i:6667439 original size:72 final size:72
Alignment explanation
Indices: 6667363--6667498 Score: 211
Period size: 72 Copynumber: 1.9 Consensus size: 72
6667353 AAATCAAGAA
* *
6667363 AATTTTGGAAAACACAAAAATTTTTGAAATAC-GAAAGTTTTTAGAAAACACGAAAATTTTTTTG
1 AATTTTGGAAAACACAAAAATTTATGAAACACAG-AAGTTTTTAGAAAACACGAAAATTTTTTTG
6667427 ATCATCGG
65 ATCATCGG
* * *
6667435 AATTTTTGAGAACACGAAAATTTATGAAACACAGAAGTTTTTAGAAAACACGAAAATTTTTTTG
1 AATTTTGGAAAACACAAAAATTTATGAAACACAGAAGTTTTTAGAAAACACGAAAATTTTTTTG
6667499 GCGACATGGG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 57 0.98
73 1 0.02
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (72 bp):
AATTTTGGAAAACACAAAAATTTATGAAACACAGAAGTTTTTAGAAAACACGAAAATTTTTTTGA
TCATCGG
Found at i:6667701 original size:20 final size:20
Alignment explanation
Indices: 6667676--6667714 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6667666 CGTGATCTTA
6667676 TTAAAACACGAGAATTTTTT
1 TTAAAACACGAGAATTTTTT
*
6667696 TTAAAACACGAGGATTTTT
1 TTAAAACACGAGAATTTTT
6667715 GAATATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (20 bp):
TTAAAACACGAGAATTTTTT
Found at i:6668356 original size:12 final size:11
Alignment explanation
Indices: 6668327--6668377 Score: 58
Period size: 10 Copynumber: 5.1 Consensus size: 11
6668317 CCGACTGTGA
6668327 TATTTTT-TTC
1 TATTTTTCTTC
6668337 TATTTTTCTTC
1 TATTTTTCTTC
6668348 TA-TTTT-TTC
1 TATTTTTCTTC
6668357 T-TTTTTCTTC
1 TATTTTTCTTC
*
6668367 -CTTTTTCTTC
1 TATTTTTCTTC
6668377 T
1 T
6668378 TTCCTTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
9 8 0.22
10 23 0.64
11 5 0.14
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (11 bp):
TATTTTTCTTC
Found at i:6668361 original size:19 final size:19
Alignment explanation
Indices: 6668329--6668379 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
6668319 GACTGTGATA
6668329 TTTTTTTCTATTTTTCTT-C
1 TTTTTTTCT-TTTTTCTTCC
6668348 TATTTTTTCTTTTTTCTTCC
1 T-TTTTTTCTTTTTTCTTCC
6668368 TTTTTCTTCTTT
1 TTTTT-TTCTTT
6668380 CCTTTTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTTCTTTTTTCTTCC
Found at i:6668540 original size:21 final size:21
Alignment explanation
Indices: 6668478--6668540 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
6668468 GCCCCCCTTC
* *
6668478 TCTTCCTCTCTCTCTCTTTTCTT
1 TCTT-CTCT-TCTTTCTTTTTTT
* *
6668501 TCTTGTCTTTTTTCTTTTTTT
1 TCTTCTCTTCTTTCTTTTTTT
6668522 TCTTCTCTTCTTTCTTTTT
1 TCTTCTCTTCTTTCTTTTT
6668541 GGCTGCTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 27 0.79
22 3 0.09
23 4 0.12
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (21 bp):
TCTTCTCTTCTTTCTTTTTTT
Found at i:6668991 original size:30 final size:30
Alignment explanation
Indices: 6668951--6669037 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
6668941 ATATTGGGCC
*
6668951 AAATGTAATTTTTAAAAAGTTTAGGGGTT-
1 AAATGAAATTTTTAAAAAGTTTAGGGGTTG
* *
6668980 AAAGTGAAATTTTGAGAAAGTTTAGGGGTTG
1 AAA-TGAAATTTTTAAAAAGTTTAGGGGTTG
* * * *
6669011 GAATGTAATTTTTGAAAAGTTCAGGGG
1 AAATGAAATTTTTAAAAAGTTTAGGGG
6669038 CCAAAATGTA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
29 3 0.06
30 42 0.89
31 2 0.04
ACGTcount: A:0.36, C:0.01, G:0.28, T:0.36
Consensus pattern (30 bp):
AAATGAAATTTTTAAAAAGTTTAGGGGTTG
Found at i:6669046 original size:30 final size:30
Alignment explanation
Indices: 6668922--6669048 Score: 93
Period size: 30 Copynumber: 4.3 Consensus size: 30
6668912 ATTTGGGGTA
*
6668922 AAAATGTAATTTTAGGAAAA-TATT--GGGCC
1 AAAATGTAATTTT-TGAAAAGT-TTAGGGGCC
* **
6668951 -AAATGTAATTTTTAAAAAGTTTAGGGGTT
1 AAAATGTAATTTTTGAAAAGTTTAGGGGCC
* * **
6668980 AAAGTG-AAATTTTGAGAAAGTTTAGGGGTT
1 AAAATGTAATTTTTGA-AAAGTTTAGGGGCC
** *
6669010 GGAATGTAATTTTTGAAAAGTTCAGGGGCC
1 AAAATGTAATTTTTGAAAAGTTTAGGGGCC
6669040 AAAATGTAA
1 AAAATGTAA
6669049 ATTATGTTTT
Statistics
Matches: 76, Mismatches: 16, Indels: 11
0.74 0.16 0.11
Matches are distributed among these distances:
27 6 0.08
28 13 0.17
29 10 0.13
30 39 0.51
31 8 0.11
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.33
Consensus pattern (30 bp):
AAAATGTAATTTTTGAAAAGTTTAGGGGCC
Found at i:6670068 original size:16 final size:16
Alignment explanation
Indices: 6670047--6670079 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6670037 AATGGAAAGG
6670047 TTGAAAAGGATAACAA
1 TTGAAAAGGATAACAA
*
6670063 TTGAAAAGGATATCAA
1 TTGAAAAGGATAACAA
6670079 T
1 T
6670080 GGAATGGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.06, G:0.18, T:0.24
Consensus pattern (16 bp):
TTGAAAAGGATAACAA
Found at i:6672197 original size:46 final size:45
Alignment explanation
Indices: 6672147--6672290 Score: 150
Period size: 46 Copynumber: 3.2 Consensus size: 45
6672137 TATTCTGCCA
**
6672147 GCCTTTATGACGCATTTTGTTAGCCTTTGTAGCGTAATCTGATTTG
1 GCCTTTATG-CGCATTTTGTTAGCCTTTGCGGCGTAATCTGATTTG
* * * * *
6672193 GCCTTTATGGCGTATTTTGCTAGCCTTTGCGGTGTATTCT-A-TTA
1 GCCTTTAT-GCGCATTTTGTTAGCCTTTGCGGCGTAATCTGATTTG
* * *
6672237 GCCTTTGTG-GCATATTTTTTAGCCTTTGCGGCGTAATTTGATTTG
1 GCCTTTATGCGCAT-TTTGTTAGCCTTTGCGGCGTAATCTGATTTG
6672282 GCCTTTATG
1 GCCTTTATG
6672291 GCGTATTCTA
Statistics
Matches: 78, Mismatches: 16, Indels: 9
0.76 0.16 0.09
Matches are distributed among these distances:
42 3 0.04
43 21 0.27
44 10 0.13
45 11 0.14
46 32 0.41
47 1 0.01
ACGTcount: A:0.15, C:0.17, G:0.23, T:0.45
Consensus pattern (45 bp):
GCCTTTATGCGCATTTTGTTAGCCTTTGCGGCGTAATCTGATTTG
Found at i:6672229 original size:22 final size:22
Alignment explanation
Indices: 6672160--6672276 Score: 83
Period size: 22 Copynumber: 5.3 Consensus size: 22
6672150 TTTATGACGC
**
6672160 ATTTTGTTAGCCTTTGTAGCGT
1 ATTTTGTTAGCCTTTGCGGCGT
* * * **
6672182 AATCTGATTTGGCCTTTATGGCGT
1 ATTTTG--TTAGCCTTTGCGGCGT
* *
6672206 ATTTTGCTAGCCTTTGCGGTGT
1 ATTTTGTTAGCCTTTGCGGCGT
* * * *
6672228 ATTCTATTAGCCTTTGTGGCAT
1 ATTTTGTTAGCCTTTGCGGCGT
6672250 ATTTT-TTAGCCTTTGCGGCGT
1 ATTTTGTTAGCCTTTGCGGCGT
*
6672271 AATTTG
1 ATTTTG
6672277 ATTTGGCCTT
Statistics
Matches: 70, Mismatches: 22, Indels: 6
0.71 0.22 0.06
Matches are distributed among these distances:
21 18 0.26
22 35 0.50
24 17 0.24
ACGTcount: A:0.15, C:0.16, G:0.23, T:0.46
Consensus pattern (22 bp):
ATTTTGTTAGCCTTTGCGGCGT
Found at i:6672238 original size:68 final size:68
Alignment explanation
Indices: 6672091--6672244 Score: 191
Period size: 68 Copynumber: 2.3 Consensus size: 68
6672081 GTTTGTGGCA
* * * * *
6672091 CATTCTATTAACCTTTGTGGTGTAATCTGATTTGGCTTTTATGGCGTATTCTGCCAGCCTTTATG
1 CATTCTATTAGCCTTTGTAGCGTAATCTGATTTGGCCTTTATGGCGTATTCTGCCAGCCTTTACG
6672156 ACG
66 ACG
* * * * *
6672159 CATTTTGTTAGCCTTTGTAGCGTAATCTGATTTGGCCTTTATGGCGTATTTTGCTAGCCTTTGCG
1 CATTCTATTAGCCTTTGTAGCGTAATCTGATTTGGCCTTTATGGCGTATTCTGCCAGCCTTTACG
**
6672224 GTG
66 ACG
*
6672227 TATTCTATTAGCCTTTGT
1 CATTCTATTAGCCTTTGT
6672245 GGCATATTTT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.45
Consensus pattern (68 bp):
CATTCTATTAGCCTTTGTAGCGTAATCTGATTTGGCCTTTATGGCGTATTCTGCCAGCCTTTACG
ACG
Found at i:6672288 original size:89 final size:90
Alignment explanation
Indices: 6672160--6672323 Score: 249
Period size: 89 Copynumber: 1.8 Consensus size: 90
6672150 TTTATGACGC
* * * *
6672160 ATTTTGTTAGCCTTTGTAGCGTAATCTGATTTGGCCTTTATGGCGTATTTTGCTAGCCTTTGCGG
1 ATTTTGTTAGCCTTTGCAGCGTAATCTGATTTGGCCTTTATGGCGTATTCTACTAACCTTTGCGG
*
6672225 TGTATTCTATTAGCCTTTGTGGCAT
66 TGTACTCTATTAGCCTTTGTGGCAT
* * *
6672250 ATTTT-TTAGCCTTTGCGGCGTAATTTGATTTGGCCTTTATGGCGTATTCTACTAACCTTTGTGG
1 ATTTTGTTAGCCTTTGCAGCGTAATCTGATTTGGCCTTTATGGCGTATTCTACTAACCTTTGCGG
6672314 TGTACTCTAT
66 TGTACTCTAT
6672324 GTATTGATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
89 61 0.92
90 5 0.08
ACGTcount: A:0.15, C:0.17, G:0.22, T:0.46
Consensus pattern (90 bp):
ATTTTGTTAGCCTTTGCAGCGTAATCTGATTTGGCCTTTATGGCGTATTCTACTAACCTTTGCGG
TGTACTCTATTAGCCTTTGTGGCAT
Found at i:6678037 original size:22 final size:22
Alignment explanation
Indices: 6678012--6678060 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
6678002 ATAAGTTAGC
*
6678012 AACCTGGTGAACCTTACCATTA
1 AACCTGGTGAACCTTACAATTA
* *
6678034 AACCTGGTGGACCTTACAATTC
1 AACCTGGTGAACCTTACAATTA
6678056 AACCT
1 AACCT
6678061 AACGGGCCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (22 bp):
AACCTGGTGAACCTTACAATTA
Found at i:6680477 original size:25 final size:24
Alignment explanation
Indices: 6680439--6680508 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
6680429 ACAAACCGAC
6680439 CCACAACTCGTGTGAGCATTTACAG
1 CCACAACTC-TGTGAGCATTTACAG
* *
6680464 CCACAACTCATGTGATCATTTACCG
1 CCACAACTC-TGTGAGCATTTACAG
*
6680489 TCACAACTTCTGTGAGCATT
1 CCACAAC-TCTGTGAGCATT
6680509 GTTCTCGCGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 37 0.95
26 2 0.05
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (24 bp):
CCACAACTCTGTGAGCATTTACAG
Found at i:6683198 original size:52 final size:52
Alignment explanation
Indices: 6683116--6683221 Score: 176
Period size: 52 Copynumber: 2.0 Consensus size: 52
6683106 GAGCCTATTT
* *
6683116 ATAGGCTAAATTTGTAGGTCAAATACTCTTAAAATAAGCCACACTAATCAGA
1 ATAGGCTAAATTCGTAGGTCAAATAATCTTAAAATAAGCCACACTAATCAGA
* *
6683168 ATAGGTTAAATTCGTAGGTCAAATAATCTTAAAATAATCCACACTAATCAGA
1 ATAGGCTAAATTCGTAGGTCAAATAATCTTAAAATAAGCCACACTAATCAGA
6683220 AT
1 AT
6683222 TTGATTGGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.28
Consensus pattern (52 bp):
ATAGGCTAAATTCGTAGGTCAAATAATCTTAAAATAAGCCACACTAATCAGA
Found at i:6684050 original size:30 final size:30
Alignment explanation
Indices: 6684014--6684082 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
6684004 CACGAGCATT
6684014 GTTTTGAGCATCCAAGAAATCGTCTTGCAA
1 GTTTTGAGCATCCAAGAAATCGTCTTGCAA
* *
6684044 GTTTTGAGCATCCAAGAAATCTTCTTGCAT
1 GTTTTGAGCATCCAAGAAATCGTCTTGCAA
6684074 GTTTTGAGC
1 GTTTTGAGC
6684083 GAAAGAAGGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (30 bp):
GTTTTGAGCATCCAAGAAATCGTCTTGCAA
Found at i:6686169 original size:37 final size:37
Alignment explanation
Indices: 6686119--6686193 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
6686109 CAGATTCAAG
6686119 GGAGCCTTCAACCCTAGATGATTTTACTTAATTTTTA
1 GGAGCCTTCAACCCTAGATGATTTTACTTAATTTTTA
6686156 GGAGCCTTCAACCCTAGATGATTTTACTTAATTTTTA
1 GGAGCCTTCAACCCTAGATGATTTTACTTAATTTTTA
6686193 G
1 G
6686194 TTTTCTTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.40
Consensus pattern (37 bp):
GGAGCCTTCAACCCTAGATGATTTTACTTAATTTTTA
Found at i:6687236 original size:27 final size:27
Alignment explanation
Indices: 6687185--6687236 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
6687175 ACATATCAAA
*
6687185 TTATAATATTTTTATTTTCATATTACT
1 TTATAATATTTTTATGTTCATATTACT
6687212 TTATAAT-TTATTTAATGTTCA-ATTA
1 TTATAATATT-TTT-ATGTTCATATTA
6687237 TTATAACCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 2 0.09
27 14 0.64
28 6 0.27
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.60
Consensus pattern (27 bp):
TTATAATATTTTTATGTTCATATTACT
Found at i:6688673 original size:27 final size:27
Alignment explanation
Indices: 6688635--6688690 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
6688625 AAGTCACTTG
6688635 ATGAGAAATGAGAAATTTGTGGGAGGT
1 ATGAGAAATGAGAAATTTGTGGGAGGT
6688662 ATGAGAAATGAGAAATTTGTGGGAGGT
1 ATGAGAAATGAGAAATTTGTGGGAGGT
6688689 AT
1 AT
6688691 TTATAAGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.27
Consensus pattern (27 bp):
ATGAGAAATGAGAAATTTGTGGGAGGT
Found at i:6691442 original size:41 final size:41
Alignment explanation
Indices: 6691397--6691483 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
6691387 TTAGATTAGT
*
6691397 GCCGCAAATAATATAGGTTTTAGCGGCGTTTTTG-TTAAAGC
1 GCCGCAAATAATATAGGTTTTAGCGGCGTTTCTGCTT-AAGC
** * * *
6691438 GCCGCAAATGTTCTGGGTTTTCGCGGCGTTTCTGCTTAAGC
1 GCCGCAAATAATATAGGTTTTAGCGGCGTTTCTGCTTAAGC
6691479 GCCGC
1 GCCGC
6691484 TAAAAACATT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 37 0.95
42 2 0.05
ACGTcount: A:0.18, C:0.22, G:0.28, T:0.32
Consensus pattern (41 bp):
GCCGCAAATAATATAGGTTTTAGCGGCGTTTCTGCTTAAGC
Found at i:6691445 original size:114 final size:114
Alignment explanation
Indices: 6690760--6691427 Score: 1124
Period size: 114 Copynumber: 5.9 Consensus size: 114
6690750 CGGCGTTTGC
* ** * *
6690760 AAAAACT-AAACCCAGACGACGTTGTTTGGAGAAACTTCGGTGACATTAGTGGTGTTTTTCGAAT
1 AAAAACTAAAACCCAGACGACGTCGTTTGGAGGCACTTCGGTGACATTAGTGGCGTTTTTCGAGT
6690824 AGCGCCGCTAATAATATGAGTATTAGCGGTGTTTCTGTAAAAATACCGT
66 AGCGCCGCTAATAATATGAGTATTAGCGGTGTTTCTGTAAAAATACCGT
* *
6690873 AAAAACTAAAACCCAGACGACGTCGTTTGGAGGCACTTCGGTGACATTAGTGGCGTTTTTTGAAT
1 AAAAACTAAAACCCAGACGACGTCGTTTGGAGGCACTTCGGTGACATTAGTGGCGTTTTTCGAGT
6690938 AGCGCCGCTAATAATATGAGTATTAGCGGTGTTTCTGTAAAAATACCGT
66 AGCGCCGCTAATAATATGAGTATTAGCGGTGTTTCTGTAAAAATACCGT
6690987 AAAAACTAAAACCCAGACGACGTCGTTTGGAGGCACTTCGGTGACATTAGTGGCGTTTTTCGAGT
1 AAAAACTAAAACCCAGACGACGTCGTTTGGAGGCACTTCGGTGACATTAGTGGCGTTTTTCGAGT
6691052 AGCGCCGCTAATAATATGAGTATTAGCGGTGTTTCTGTAAAAATACCGT
66 AGCGCCGCTAATAATATGAGTATTAGCGGTGTTTCTGTAAAAATACCGT
6691101 AAAAACTAAAACCCAGACGACGTCGTTTGGAGGCACTTCGGTGACATTAGTGGCGTTTTTCGAGT
1 AAAAACTAAAACCCAGACGACGTCGTTTGGAGGCACTTCGGTGACATTAGTGGCGTTTTTCGAGT
6691166 AGCGCCGCTAATAATATGAGTATTAGCGGTGTTTCTGTAAAAATACCGT
66 AGCGCCGCTAATAATATGAGTATTAGCGGTGTTTCTGTAAAAATACCGT
6691215 AAAAACTAAAACCCAGACGACGTCGTTTGGAGGCACTTCGGTGACATTAGTGGCGTTTTTCGAGT
1 AAAAACTAAAACCCAGACGACGTCGTTTGGAGGCACTTCGGTGACATTAGTGGCGTTTTTCGAGT
* * * *
6691280 AGCGCCGCTAATAATATGAGTATTAGCGGCGTTTCTATAAAAATGCCGC
66 AGCGCCGCTAATAATATGAGTATTAGCGGTGTTTCTGTAAAAATACCGT
* * * * * *
6691329 AAAAACTAAACCCCAGACGACGTCATTTGGAGACACTTCGGTGACTTTAGTGGCGTTTTTAGATT
1 AAAAACTAAAACCCAGACGACGTCGTTTGGAGGCACTTCGGTGACATTAGTGGCGTTTTTCGAGT
* * * *
6691394 AGTGCCGCAAATAATAT-AGGTTTTAGCGGCGTTT
66 AGCGCCGCTAATAATATGA-GTATTAGCGGTGTTT
6691428 TTGTTAAAGC
Statistics
Matches: 533, Mismatches: 20, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
113 8 0.02
114 525 0.98
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (114 bp):
AAAAACTAAAACCCAGACGACGTCGTTTGGAGGCACTTCGGTGACATTAGTGGCGTTTTTCGAGT
AGCGCCGCTAATAATATGAGTATTAGCGGTGTTTCTGTAAAAATACCGT
Found at i:6692222 original size:14 final size:15
Alignment explanation
Indices: 6692196--6692226 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
6692186 TATATATATA
6692196 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
6692211 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAT
6692225 TA
1 TA
6692227 AGGGTTGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:6692309 original size:15 final size:16
Alignment explanation
Indices: 6692289--6692327 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
6692279 ACGTTAGTGG
6692289 TTAAGAG-TTAGGGAT
1 TTAAGAGTTTAGGGAT
*
6692304 TTAAGAGGTTTAGGGTT
1 TTAAGA-GTTTAGGGAT
6692321 TTAAGAG
1 TTAAGAG
6692328 GGTCGGGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 6 0.29
16 2 0.10
17 13 0.62
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.36
Consensus pattern (16 bp):
TTAAGAGTTTAGGGAT
Found at i:6692318 original size:17 final size:17
Alignment explanation
Indices: 6692296--6692328 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6692286 TGGTTAAGAG
6692296 TTAGGGATTTAAGAGGT
1 TTAGGGATTTAAGAGGT
*
6692313 TTAGGGTTTTAAGAGG
1 TTAGGGATTTAAGAGG
6692329 GTCGGGTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.36, T:0.36
Consensus pattern (17 bp):
TTAGGGATTTAAGAGGT
Found at i:6692698 original size:20 final size:20
Alignment explanation
Indices: 6692669--6692721 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
6692659 AAATAAAATT
*
6692669 AAAATTAAAATTAAA-ATACA
1 AAAATCAAAATTAAATATA-A
*
6692689 AAAATCAAAATGAAATATAA
1 AAAATCAAAATTAAATATAA
*
6692709 AAACTCTAAAATT
1 AAAATC-AAAATT
6692722 TTTAATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.66, C:0.08, G:0.02, T:0.25
Consensus pattern (20 bp):
AAAATCAAAATTAAATATAA
Found at i:6693232 original size:84 final size:83
Alignment explanation
Indices: 6693015--6693286 Score: 251
Period size: 84 Copynumber: 3.2 Consensus size: 83
6693005 AATTTTATCA
* * * * * ** * **
6693015 TTTTTGTAAACAAAATGGTGTCGTTTTGCCTGGCATATTAACGGCATTAGTGGCATTACGCCGAA
1 TTTTT-TAAACAAAACGGTGTCATTTTCCCTGGCACATTAACGACATTAGTGGCGCTATGGTGAA
**
6693080 AACGCTGCAAA-TTGTCGGGG
65 AACGCCACAAAGTT-TC-GGG
* ** * * ** * * * *
6693100 TTTTTTTTAATGAAATGGTGTCGTTTTAACTAGCACATTAAGGGCATTAGTGGTGCTATGGT-AA
1 -TTTTTTAAACAAAACGGTGTCATTTTCCCTGGCACATTAACGACATTAGTGGCGCTATGGTGAA
*
6693164 AAGCGCCGCAAAGTTTTCGGG
65 AA-CGCCACAAAG-TTTCGGG
*
6693185 TTTTTTAAACCAAACGGTGTCATTTTCCCTGGCACATTAACGACATTAGTGGCGCTATGGTGAAA
1 TTTTTTAAACAAAACGGTGTCATTTTCCCTGGCACATTAACGACATTAGTGGCGCTATGGTGAAA
6693250 ACGCCACAAAGTTTCGGG
66 ACGCCACAAAGTTTCGGG
6693268 TTTTTTAAACAAAACGGTG
1 TTTTTTAAACAAAACGGTG
6693287 CCGTTTTGCC
Statistics
Matches: 154, Mismatches: 28, Indels: 11
0.80 0.15 0.06
Matches are distributed among these distances:
83 25 0.16
84 63 0.41
85 57 0.37
86 7 0.05
87 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (83 bp):
TTTTTTAAACAAAACGGTGTCATTTTCCCTGGCACATTAACGACATTAGTGGCGCTATGGTGAAA
ACGCCACAAAGTTTCGGG
Found at i:6695594 original size:91 final size:91
Alignment explanation
Indices: 6695492--6695681 Score: 346
Period size: 91 Copynumber: 2.1 Consensus size: 91
6695482 AATGAAATTA
6695492 AAAAATTTTTAAAATTCT-ATAAGCATTTTAATTAAAATAAGATATTTCATTTAACTAATAGCAT
1 AAAAA-TTTT-AAATTCTCATAAGCATTTTAATTAAAATAAGATATTTCATTTAACTAATAGCAT
6695556 TATAAACATTGAGATACCAAATTATGTC
64 TATAAACATTGAGATACCAAATTATGTC
6695584 AAAAATTTTAAATTCTCATAAGCATTTTAATTAAAATAAGATATTTCATTTAACTAATAGCATTA
1 AAAAATTTTAAATTCTCATAAGCATTTTAATTAAAATAAGATATTTCATTTAACTAATAGCATTA
*
6695649 TAAACATTGAGATACCAAATTATGTT
66 TAAACATTGAGATACCAAATTATGTC
6695675 AAAAATT
1 AAAAATT
6695682 AAAATATAAA
Statistics
Matches: 96, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
90 7 0.07
91 84 0.88
92 5 0.05
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.38
Consensus pattern (91 bp):
AAAAATTTTAAATTCTCATAAGCATTTTAATTAAAATAAGATATTTCATTTAACTAATAGCATTA
TAAACATTGAGATACCAAATTATGTC
Found at i:6702571 original size:66 final size:66
Alignment explanation
Indices: 6702461--6702597 Score: 179
Period size: 66 Copynumber: 2.1 Consensus size: 66
6702451 NNNNNNNNNN
*
6702461 TGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTAAAAGCAGATGCAGCAGCGAGAGAAG
1 TGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTAAAAGCAGATGCAGCAGCAAGAGAAG
6702526 C
66 C
* * * * *
6702527 TGAGGTTCAACGAAAG-TATGAAGAACTCCAGC-AGCAGCTTAAAGCAGATGCGGTAGCAAGAGA
1 TGAGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAACTAAAAGCAGATGCAGCAGCAAGAGA
6702590 AGC
64 AGC
*
6702593 AGAGG
1 TGAGG
6702598 CGGCAGTGAG
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
65 1 0.02
66 57 0.92
67 4 0.06
ACGTcount: A:0.41, C:0.18, G:0.28, T:0.14
Consensus pattern (66 bp):
TGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTAAAAGCAGATGCAGCAGCAAGAGAAG
C
Found at i:6702609 original size:21 final size:21
Alignment explanation
Indices: 6702588--6702680 Score: 96
Period size: 21 Copynumber: 4.4 Consensus size: 21
6702578 GGTAGCAAGA
** * *
6702588 GAAGCAGAGGCGGCAGTGAGA
1 GAAGCAGAGGCTACAGCGAGG
* *
6702609 GAAGTACAGGCTACAGCGAGG
1 GAAGCAGAGGCTACAGCGAGG
* * *
6702630 GAAACAGAGGCTAAAGTGAGG
1 GAAGCAGAGGCTACAGCGAGG
*
6702651 GAAGCAGAGGCTGCAGCGAGG
1 GAAGCAGAGGCTACAGCGAGG
6702672 GAAGCAGAG
1 GAAGCAGAG
6702681 CAGCGTCAAA
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.35, C:0.15, G:0.43, T:0.06
Consensus pattern (21 bp):
GAAGCAGAGGCTACAGCGAGG
Found at i:6703076 original size:43 final size:43
Alignment explanation
Indices: 6703029--6703426 Score: 325
Period size: 43 Copynumber: 9.3 Consensus size: 43
6703019 AGGTGTTGGC
* * * * *
6703029 CTTTAGTGGCGTTTTTGGTCAAAGCACCGCTAAAGATAAGGGT
1 CTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAGGGT
* * *
6703072 CTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGGT
1 CTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAGGGT
* * *
6703115 CTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGGT
1 CTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAGGGT
** * * *
6703158 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGGTAAAGATTAGGTT
1 CTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAGGGT
* * ** * *
6703201 CTTTAGTGACGTTTGTGGTCGAAGCGCAGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAGGGT
** ** * *
6703244 CTATT-GCGGCGTTTAAGGGGAAAGCGCCGCTAAAGATTAGGTT
1 CT-TTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAGGGT
* * * ** *
6703287 CTTTCGTGGCATTTGTGGTTGAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAGGGT
* * ** *
6703330 CTATT-GCGGCGTTTGAGAG-AAAAGCGCCGCTAAAGACCCTGAT
1 CT-TTAGCGGCGTTTGTG-GTAAAAGCGCCGCTAAAGATCAGGGT
* * * *** * *
6703373 CTTTAGCCGCGCTTCTCCCAAAAACGCCGCTAAAGATCAAGGT
1 CTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAGGGT
6703416 CTTTAGCGGCG
1 CTTTAGCGGCG
6703427 CTTCCACTAA
Statistics
Matches: 281, Mismatches: 68, Indels: 12
0.78 0.19 0.03
Matches are distributed among these distances:
42 4 0.01
43 272 0.97
44 5 0.02
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAGGGT
Found at i:6703428 original size:43 final size:43
Alignment explanation
Indices: 6703349--6703493 Score: 130
Period size: 43 Copynumber: 3.4 Consensus size: 43
6703339 CGTTTGAGAG
* ** *
6703349 AAAAGCGCCGCTAAAGACCCTGATCTTTAGCCGCGCTTCTCCC
1 AAAAACGCCGCTAAAGACCAAGATCTTTAGCGGCGCTTCTCCC
* * *
6703392 AAAAACGCCGCTAAAGATCAAGGTCTTTAGCGGCGCTTC-CAC
1 AAAAACGCCGCTAAAGACCAAGATCTTTAGCGGCGCTTCTCCC
* * * * * * * * *
6703434 TAAAGCGCCGCTATAGACCAACACCTTTAGCGGCGTTTATTTCT
1 AAAAACGCCGCTAAAGACCAAGATCTTTAGCGGCGCTT-CTCCC
6703478 AAAAACGCCGCTAAAG
1 AAAAACGCCGCTAAAG
6703494 TTAGCGGCGC
Statistics
Matches: 78, Mismatches: 22, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
42 32 0.41
43 33 0.42
44 13 0.17
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACCAAGATCTTTAGCGGCGCTTCTCCC
Found at i:6707291 original size:16 final size:17
Alignment explanation
Indices: 6707270--6707301 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6707260 TTTTATTTAA
6707270 TTATTTAAA-TAAAATT
1 TTATTTAAATTAAAATT
6707286 TTATTTAAATTAAAAT
1 TTATTTAAATTAAAAT
6707302 GATAAAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATTTAAATTAAAATT
Found at i:6708015 original size:389 final size:390
Alignment explanation
Indices: 6707288--6708066 Score: 1551
Period size: 389 Copynumber: 2.0 Consensus size: 390
6707278 ATAAAATTTT
6707288 ATTTAAATTAAAATGATAAAGTAATAAAATTTTATATGTATACTTTTAAGTTTTTATAATGCTTA
1 ATTTAAATTAAAATGATAAAGTAATAAAATTTTATATGTATACTTTTAAGTTTTTATAATGCTTA
6707353 TTATTTTTTAGAATTTTTAAATTTTTTAATGATGATGTCATTATAATATCATTGTTGCCACGTAT
66 TTATTTTTTAGAATTTTTAAATTTTTTAATGATGATGTCATTATAATATCATTGTTGCCACGTAT
6707418 CTTAGACTTAACAACGTTACCAAAAAAAAATCAAAATAGTGGATAAAATAAATTAGATATCAAAT
131 CTTAGACTTAACAACGTTACCAAAAAAAAATCAAAATAGTGGATAAAATAAATTAGATATCAAAT
6707483 TGTGACAAAAAAAAAATCATTAGTACCATGTTGGAAAAGGATGTCTAGTTCAAGGCCAAATGAGT
196 TGTGACAAAAAAAAAATCATTAGTACCATGTTGGAAAAGGATGTCTAGTTCAAGGCCAAATGAGT
6707548 TTTTAAACCTTTGGAGATTTATTTTAAAGTTGTAACTTAAGCTATTTATTTTTAATATATATAAT
261 TTTTAAACCTTTGGAGATTTATTTTAAAGTTGTAACTTAAGCTATTTATTTTTAATATATATAAT
6707613 TATTGAAAACATAAATATGCTTACAATAAAATTTATTATTTTAAAGTTGTAGCTTAAATTATACG
326 TATTGAAAACATAAATATGCTTACAATAAAATTTATTATTTTAAAGTTGTAGCTTAAATTATACG
6707678 ATTTAAATT-AAATGATAAAGTAATAAAATTTTATATGTATACTTTTAAGTTTTTATAATGCTTA
1 ATTTAAATTAAAATGATAAAGTAATAAAATTTTATATGTATACTTTTAAGTTTTTATAATGCTTA
6707742 TTATTTTTTAGAATTTTTAAATTTTTTAATGATGATGTCATTATAATATCATTGTTGCCACGTAT
66 TTATTTTTTAGAATTTTTAAATTTTTTAATGATGATGTCATTATAATATCATTGTTGCCACGTAT
6707807 CTTAGACTTAACAACGTTACCAAAAAAAAATCAAAATAGTGGATAAAATAAATTAGATATCAAAT
131 CTTAGACTTAACAACGTTACCAAAAAAAAATCAAAATAGTGGATAAAATAAATTAGATATCAAAT
6707872 TGTGACAAAAAAAAAATCATTAGTACCATGTTGGAAAAGGATGTCTAGTTCAAGGCCAAATGAGT
196 TGTGACAAAAAAAAAATCATTAGTACCATGTTGGAAAAGGATGTCTAGTTCAAGGCCAAATGAGT
6707937 TTTTAAACCTTTGGAGATTTATTTTAAAGTTGTAACTTAAGCTATTTATTTTTAATATATATAAT
261 TTTTAAACCTTTGGAGATTTATTTTAAAGTTGTAACTTAAGCTATTTATTTTTAATATATATAAT
6708002 TATTGAAAACATAAATATGCTTACAATAAAATTTATTATTTTAAAGTTGTAGCTTAAATTATACG
326 TATTGAAAACATAAATATGCTTACAATAAAATTTATTATTTTAAAGTTGTAGCTTAAATTATACG
6708067 GTAATATCAA
Statistics
Matches: 389, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
389 380 0.98
390 9 0.02
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (390 bp):
ATTTAAATTAAAATGATAAAGTAATAAAATTTTATATGTATACTTTTAAGTTTTTATAATGCTTA
TTATTTTTTAGAATTTTTAAATTTTTTAATGATGATGTCATTATAATATCATTGTTGCCACGTAT
CTTAGACTTAACAACGTTACCAAAAAAAAATCAAAATAGTGGATAAAATAAATTAGATATCAAAT
TGTGACAAAAAAAAAATCATTAGTACCATGTTGGAAAAGGATGTCTAGTTCAAGGCCAAATGAGT
TTTTAAACCTTTGGAGATTTATTTTAAAGTTGTAACTTAAGCTATTTATTTTTAATATATATAAT
TATTGAAAACATAAATATGCTTACAATAAAATTTATTATTTTAAAGTTGTAGCTTAAATTATACG
Found at i:6717644 original size:50 final size:50
Alignment explanation
Indices: 6717563--6717660 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 50
6717553 ACCTTATTCT
* * *
6717563 AATCAATGTCAAATAGAAAGAGAGAAGTTCTATACAGATTCTACTTGTAC
1 AATCAATATCAAATAGAAAGAGAGAACTTCTATACAGATTCCACTTGTAC
* * **
6717613 AATCAATATCAAATAG-AAGAAGTGTACTTCTATATGGATTCCACTTGT
1 AATCAATATCAAATAGAAAG-AGAGAACTTCTATACAGATTCCACTTGT
6717661 GTAGCCTGTA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 3 0.08
50 37 0.93
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (50 bp):
AATCAATATCAAATAGAAAGAGAGAACTTCTATACAGATTCCACTTGTAC
Found at i:6723889 original size:17 final size:17
Alignment explanation
Indices: 6723864--6723913 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
6723854 AACTATGTTG
* * *
6723864 ATAATTAAAATATTACA
1 ATAAATAAAATAATAAA
6723881 ATAAATAAAA-AATAAA
1 ATAAATAAAATAATAAA
6723897 ATAAAATAAAATAATAA
1 AT-AAATAAAATAATAA
6723914 TAAAATTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 6 0.21
17 17 0.61
18 5 0.18
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAAATAAAATAATAAA
Found at i:6723899 original size:5 final size:5
Alignment explanation
Indices: 6723889--6723919 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
6723879 CAATAAATAA
6723889 AAAAT AAAAT AAAAT AAAAT AATAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AA-AAT AAAAT
6723920 TCTTATTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:6723901 original size:16 final size:16
Alignment explanation
Indices: 6723880--6723918 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
6723870 AAAATATTAC
6723880 AATAAATAAAAAATAA-
1 AATAAA-AAAAAATAAT
*
6723896 AATAAAATAAAATAAT
1 AATAAAAAAAAATAAT
6723912 AATAAAA
1 AATAAAA
6723919 TTCTTATTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
AATAAAAAAAAATAAT
Found at i:6729173 original size:31 final size:31
Alignment explanation
Indices: 6729135--6729235 Score: 107
Period size: 31 Copynumber: 3.3 Consensus size: 31
6729125 TAATCACATT
*
6729135 AATATTAAATTAATAAAATATTATCTAGATA
1 AATATTAAATTAATAAAATAATATCTAGATA
** * *
6729166 AATATTAAATT-A-AATTTAATATCTCATATT
1 AATATTAAATTAATAAAATAATATCT-AGATA
* * *
6729196 GATATTAAATTAATAAAATACTATGTAGATA
1 AATATTAAATTAATAAAATAATATCTAGATA
6729227 AATATTAAA
1 AATATTAAA
6729236 ATTATGAGAT
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
29 9 0.17
30 14 0.26
31 23 0.43
32 8 0.15
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (31 bp):
AATATTAAATTAATAAAATAATATCTAGATA
Found at i:6729681 original size:85 final size:85
Alignment explanation
Indices: 6729538--6729707 Score: 313
Period size: 85 Copynumber: 2.0 Consensus size: 85
6729528 ATACACTTGG
**
6729538 CCCGGTTCAACCAGTTTTGGGTCTCGATTTTGGTTTTTGATTCTCAGGTCCAATCTTCGATCTCG
1 CCCGGTTCAACCAGTTTTGGGTCTCGATTTCAGTTTTTGATTCTCAGGTCCAATCTTCGATCTCG
*
6729603 GGTCCAATTTTTAAGTTCAA
66 AGTCCAATTTTTAAGTTCAA
6729623 CCCGGTTCAACCAGTTTTGGGTCTCGATTTCAGTTTTTGATTCTCAGGTCCAATCTTCGATCTCG
1 CCCGGTTCAACCAGTTTTGGGTCTCGATTTCAGTTTTTGATTCTCAGGTCCAATCTTCGATCTCG
6729688 AGTCCAATTTTTAAGTTCAA
66 AGTCCAATTTTTAAGTTCAA
6729708 TTACCCATTA
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (85 bp):
CCCGGTTCAACCAGTTTTGGGTCTCGATTTCAGTTTTTGATTCTCAGGTCCAATCTTCGATCTCG
AGTCCAATTTTTAAGTTCAA
Found at i:6730828 original size:22 final size:22
Alignment explanation
Indices: 6730803--6730847 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
6730793 AAGATTATGG
6730803 ACTCGTTTAGATTATCTACTGA
1 ACTCGTTTAGATTATCTACTGA
6730825 ACTCGTTTAGATTATCTACTGA
1 ACTCGTTTAGATTATCTACTGA
6730847 A
1 A
6730848 GTAAGTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (22 bp):
ACTCGTTTAGATTATCTACTGA
Found at i:6731320 original size:17 final size:18
Alignment explanation
Indices: 6731298--6731332 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6731288 TGGTAGGGAT
6731298 TAAA-TTGAAGGCAAAAA
1 TAAATTTGAAGGCAAAAA
*
6731315 TAAATTTGAGGGCAAAAA
1 TAAATTTGAAGGCAAAAA
6731333 GCGTGAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.54, C:0.06, G:0.20, T:0.20
Consensus pattern (18 bp):
TAAATTTGAAGGCAAAAA
Found at i:6732312 original size:13 final size:14
Alignment explanation
Indices: 6732284--6732312 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6732274 TCCCTCCATA
6732284 TTTTTAATTTTGTT
1 TTTTTAATTTTGTT
6732298 TTTTTAATTTT-TT
1 TTTTTAATTTTGTT
6732311 TT
1 TT
6732313 CCAAGTACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (14 bp):
TTTTTAATTTTGTT
Found at i:6733754 original size:41 final size:39
Alignment explanation
Indices: 6733632--6733767 Score: 125
Period size: 40 Copynumber: 3.5 Consensus size: 39
6733622 ATCAGTTTGG
* * * *
6733632 CACCCAGTGCCTCATCGGATAATTCAAAGGAATAATTTGA
1 CACCCAGTGCCTCATCGAATAATCCGAA-GAATAAATTGA
* * ** * *
6733672 CACCCAATGTCTCATCGGCTAAACCGAAG--TAAATTGG
1 CACCCAGTGCCTCATCGAATAATCCGAAGAATAAATTGA
6733709 CACCCAGTGCCTCATCGAATTAATCCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAA-TAATCCGAAG-AATAAATTGA
6733750 CACCCAGTGTCC-CATCGA
1 CACCCAGTG-CCTCATCGA
6733768 CTCAAAGTCT
Statistics
Matches: 77, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
37 21 0.27
38 9 0.12
39 1 0.01
40 22 0.29
41 22 0.29
42 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGAATAATCCGAAGAATAAATTGA
Found at i:6735107 original size:3 final size:3
Alignment explanation
Indices: 6735099--6735130 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6735089 TGTTTTGTTT
6735099 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6735131 TATTTACTTA
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6736981 original size:27 final size:27
Alignment explanation
Indices: 6736962--6737218 Score: 271
Period size: 27 Copynumber: 9.5 Consensus size: 27
6736952 GGGTATAACA
6736962 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
6736989 GTCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
6737016 GTTATTCTACCCTATGGGGGTACTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* ** *
6737043 GTCATTTTATCCTATGCAGGTAATTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
** * **
6737070 GTCATTTTACCCCGTGAGGGTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
6737097 GTCATTCTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
6737124 GTCATTCTACCCTATGAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
6737151 GTCATTTAACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * * *
6737178 ATCATTCTATCTTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
6737205 GTCATTTTATCCTA
1 GTCATTTTACCCTA
6737219 ATGAGGTATT
Statistics
Matches: 186, Mismatches: 44, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 186 1.00
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:6737091 original size:81 final size:80
Alignment explanation
Indices: 6736962--6737229 Score: 329
Period size: 81 Copynumber: 3.3 Consensus size: 80
6736952 GGGTATAACA
* * * * *
6736962 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTATGGGGGTATTTCGGTTATTCTACC
1 GTCATTTTACCCTAT-GAGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTGGTCATTCTACC
* *
6737027 CTATGGGGGTACTTCG
65 TTATGGGGGTATTTCG
* * ** *
6737043 GTCATTTTATCCTATGCAGGTAATTCGGTCATTTTACCCCGTGAGGGTATTTTAGTCATTCTACC
1 GTCATTTTACCCTATG-AGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTGGTCATTCTACC
6737108 TTATGGGGGTATTTCG
65 TTATGGGGGTATTTCG
* * * * *
6737124 GTCATTCTACCCTATGAGGGTATTTCAGTCATTTAACCCTATGAGGGTATTTTGATCATTCTATC
1 GTCATTTTACCCTATGA-GGTATTTCGGTCATTTTACCCTATGAGGGTATTTTGGTCATTCTACC
*
6737189 TTATGGGGGTATTTCA
65 TTATGGGGGTATTTCG
*
6737205 GTCATTTTATCCTAATGAGGTATTT
1 GTCATTTTACCCT-ATGAGGTATTT
6737230 TGTTCATAAC
Statistics
Matches: 159, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
80 2 0.01
81 153 0.96
82 4 0.03
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.41
Consensus pattern (80 bp):
GTCATTTTACCCTATGAGGTATTTCGGTCATTTTACCCTATGAGGGTATTTTGGTCATTCTACCT
TATGGGGGTATTTCG
Found at i:6737869 original size:24 final size:24
Alignment explanation
Indices: 6737844--6737890 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
6737834 CCAAAACCCC
6737844 AATATTCTCTCATCAAATCTCTCCA
1 AATA-TCTCTCATCAAATCTCTCCA
* *
6737869 AATATCTCTCCTCAATTCTCTC
1 AATATCTCTCATCAAATCTCTC
6737891 TATGACCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (24 bp):
AATATCTCTCATCAAATCTCTCCA
Found at i:6740177 original size:27 final size:26
Alignment explanation
Indices: 6740145--6740399 Score: 260
Period size: 27 Copynumber: 9.5 Consensus size: 26
6740135 TCTTCACTTA
**
6740145 GGGGTATAATAGTCATTTTACCCTAT
1 GGGGTATTTTAGTCATTTTACCCTAT
*
6740171 GGAGGTATTTTGGTCATTTTACCCTAT
1 GG-GGTATTTTAGTCATTTTACCCTAT
* *
6740198 GGGGTTATTTCAGTCATTTTACCTTAT
1 GGGG-TATTTTAGTCATTTTACCCTAT
* * *
6740225 AGGGGTATTTTGGTCATTCTACACTAT
1 -GGGGTATTTTAGTCATTTTACCCTAT
* *
6740252 AGGGGTATTTCGAG-CATTCTACCCTAT
1 -GGGGTATTT-TAGTCATTTTACCCTAT
6740279 AGGGGTATTTTAGTCATTTTACCCTATT
1 -GGGGTATTTTAGTCATTTTACCCTA-T
*
6740307 GGGGTATTTCAGTCATTTTACCCTAT
1 GGGGTATTTTAGTCATTTTACCCTAT
* * *
6740333 GGGGTATTTCAGTCATTCTACCCAAT
1 GGGGTATTTTAGTCATTTTACCCTAT
* ** *
6740359 AGGGATATTTCGGTTATTTTACCCTAT
1 -GGGGTATTTTAGTCATTTTACCCTAT
6740386 GGAGGTATTTTAGT
1 GG-GGTATTTTAGT
6740400 ATAACAGTGT
Statistics
Matches: 194, Mismatches: 27, Indels: 15
0.82 0.11 0.06
Matches are distributed among these distances:
26 33 0.17
27 155 0.80
28 6 0.03
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.42
Consensus pattern (26 bp):
GGGGTATTTTAGTCATTTTACCCTAT
Found at i:6740213 original size:54 final size:52
Alignment explanation
Indices: 6740155--6740399 Score: 294
Period size: 54 Copynumber: 4.6 Consensus size: 52
6740145 GGGGTATAAT
* *
6740155 AGTCATTTTACCCTATGGAGGTATTTTGGTCATTTTACCCTATGGGGTTATTTC
1 AGTCATTTTACCCTATGG-GGTATTTTAGTCATTCTACCCTATGGGG-TATTTC
* * *
6740209 AGTCATTTTACCTTATAGGGGTATTTTGGTCATTCTACACTATAGGGGTATTTC
1 AGTCATTTTACCCTAT-GGGGTATTTTAGTCATTCTACCCTAT-GGGGTATTTC
* *
6740263 GAG-CATTCTACCCTATAGGGGTATTTTAGTCATTTTACCCTATTGGGGTATTTC
1 -AGTCATTTTACCCTAT-GGGGTATTTTAGTCATTCTACCCTA-TGGGGTATTTC
* * *
6740317 AGTCATTTTACCCTATGGGGTATTTCAGTCATTCTACCCAATAGGGATATTTC
1 AGTCATTTTACCCTATGGGGTATTTTAGTCATTCTACCCTAT-GGGGTATTTC
* *
6740370 GGTTATTTTACCCTATGGAGGTATTTTAGT
1 AGTCATTTTACCCTATGG-GGTATTTTAGT
6740400 ATAACAGTGT
Statistics
Matches: 168, Mismatches: 16, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
52 1 0.01
53 49 0.29
54 109 0.65
55 9 0.05
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (52 bp):
AGTCATTTTACCCTATGGGGTATTTTAGTCATTCTACCCTATGGGGTATTTC
Found at i:6745173 original size:34 final size:35
Alignment explanation
Indices: 6745129--6745195 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
6745119 CAGTAAAATA
*
6745129 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
6745163 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
6745196 CTAGTGTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:6746306 original size:46 final size:46
Alignment explanation
Indices: 6746233--6746321 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
6746223 TTACTGTATG
* * * *
6746233 ATATCGGTTGTATTGGTTGATATGTATAAGTTCTAAACCAATATCA
1 ATATCGATTGTATTAGTTGACAAGTATAAGTTCTAAACCAATATCA
* *
6746279 ATATCGATTGTATTAGTTGGCAAGTATAAGTTCTAAATCAATA
1 ATATCGATTGTATTAGTTGACAAGTATAAGTTCTAAACCAATA
6746322 CTAAGTAGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (46 bp):
ATATCGATTGTATTAGTTGACAAGTATAAGTTCTAAACCAATATCA
Found at i:6754375 original size:24 final size:24
Alignment explanation
Indices: 6754310--6754388 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
6754300 GCCATGTAAC
*
6754310 GGGAAGCT-TATGTGAGCCATATAAT
1 GGGAAGCTCTA-GAGAGCCA-ATAAT
* *
6754335 AGGAAGCTCTAGAGAGCCACTAAT
1 GGGAAGCTCTAGAGAGCCAATAAT
* *
6754359 GGGAAGCTCATA-CGAGCCAATAAC
1 GGGAAGCTC-TAGAGAGCCAATAAT
6754383 GGGAAG
1 GGGAAG
6754389 GTTCAAGTGA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
24 27 0.60
25 16 0.36
26 2 0.04
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (24 bp):
GGGAAGCTCTAGAGAGCCAATAAT
Found at i:6756758 original size:16 final size:17
Alignment explanation
Indices: 6756723--6756760 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
6756713 AATAAACATT
*
6756723 TTAAAATAATTTCCCAAA
1 TTAAAAAAATTT-CCAAA
6756741 TTAAAAAAATTT-CAAA
1 TTAAAAAAATTTCCAAA
6756757 TTAA
1 TTAA
6756761 TTCTAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (17 bp):
TTAAAAAAATTTCCAAA
Found at i:6763577 original size:27 final size:27
Alignment explanation
Indices: 6763513--6763585 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
6763503 TTTTTTGAGG
6763513 GGGAAGTAAAAGTTTTAGGAGAAAGTAAA
1 GGGAAGTAAAAGTTTT-GG-GAAAGTAAA
* **
6763542 AGGAA--AAAAGTTTTGGGAATTTAAA
1 GGGAAGTAAAAGTTTTGGGAAAGTAAA
*
6763567 GGGAAGTAAAATTTTTGGG
1 GGGAAGTAAAAGTTTTGGG
6763586 GGGAAAGTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
25 11 0.30
26 2 0.05
27 20 0.54
29 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (27 bp):
GGGAAGTAAAAGTTTTGGGAAAGTAAA
Found at i:6763582 original size:74 final size:73
Alignment explanation
Indices: 6763439--6763598 Score: 207
Period size: 74 Copynumber: 2.2 Consensus size: 73
6763429 GAGGTTTGGA
* ** * *
6763439 GGAAGTAAAAGTTTTGGGAAGAAAGTAAAAGGAAAAAAGTTTTGGGGGTTTGGAAATAAATAAAT
1 GGAAGTAAAAGTTTTAGGAAGAAAGTAAAAGGAAAAAAGTTTTGGGAATTT-GAAAGAAATAAAA
6763504 TTTTTGAGGG
65 TTTTTG-GGG
*
6763514 GGAAGTAAAAGTTTTAGG-AGAAAGTAAAAGGAAAAAAGTTTTGGGAATTT-AAAGGGAAGTAAA
1 GGAAGTAAAAGTTTTAGGAAGAAAGTAAAAGGAAAAAAGTTTTGGGAATTTGAAA--GAAATAAA
6763577 ATTTTTGGGG
64 ATTTTTGGGG
6763587 GGAAAGTAAAAG
1 GG-AAGTAAAAG
6763599 AGTTTGAGGG
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
72 3 0.04
73 5 0.07
74 51 0.67
75 17 0.22
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.26
Consensus pattern (73 bp):
GGAAGTAAAAGTTTTAGGAAGAAAGTAAAAGGAAAAAAGTTTTGGGAATTTGAAAGAAATAAAAT
TTTTGGGG
Found at i:6765804 original size:43 final size:43
Alignment explanation
Indices: 6765756--6766006 Score: 378
Period size: 43 Copynumber: 5.8 Consensus size: 43
6765746 GATTTTACAA
* * *
6765756 AAACGCCGCTAAAGGTCATTACCTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTCTCCCAC
*
6765799 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTCTTCCAC
1 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTCTCCCAC
*
6765842 AAACGCCGCTATAGATCATGA-CTTGTAGTGGCGCTTCTCCCAC
1 AAACGCCGCTATAGATCATGACCTT-TAGCGGCGCTTCTCCCAC
* * * *
6765885 AAACGCTGCTATAGATCATGACTTTTAGCGGCCCTTCTCCTAC
1 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTCTCCCAC
* * *
6765928 AAATGCCGCTACAGATCATGACTTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTCTCCCAC
6765971 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTT
1 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTT
6766007 TTTTTTATAA
Statistics
Matches: 187, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
42 3 0.02
43 182 0.97
44 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTCTCCCAC
Found at i:6766061 original size:129 final size:129
Alignment explanation
Indices: 6765756--6766063 Score: 289
Period size: 129 Copynumber: 2.4 Consensus size: 129
6765746 GATTTTACAA
* ** * * * ** * * *
6765756 AAACGCCGCTAAAGGTCATTACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGATCATGAC
1 AAACGCCGCTAAAGATCACGACGTTTAGCGACCCTTCTCAAAAAAATGCCGCTACAGATCATGAC
* *
6765821 CTTTAGCGGCGCTTCTTCCACAAACGCCGCTATAGATCATGACTTGTAGTGGCGCTTCTCCCAC
66 CTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGATCATGACTTGTAGCGGCGCTTCTCCCAC
* * * * * ** *
6765885 AAACGCTGCTATAGATCATGACTTTTAGCGGCCCTTCTCCTACAAATGCCGCTACAGATCATGAC
1 AAACGCCGCTAAAGATCACGACGTTTAGCGACCCTTCTCAAAAAAATGCCGCTACAGATCATGAC
* * ***
6765950 TTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGATCATGACCTT-TAGCGGCGCTTTTTTTTA
66 CTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGATCATGA-CTTGTAGCGGCGC-TTCTCCCA
*
6766014 T
129 C
** * *
6766015 AAACGCCGCTAAAGAAT-ACGA-GTTTAGCGACGTTTTTTAAAAAAATGCC
1 AAACGCCGCTAAAG-ATCACGACGTTTAGCGACCCTTCTCAAAAAAATGCC
6766064 ACTAATTTTG
Statistics
Matches: 147, Mismatches: 29, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
129 123 0.84
130 22 0.15
131 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.27
Consensus pattern (129 bp):
AAACGCCGCTAAAGATCACGACGTTTAGCGACCCTTCTCAAAAAAATGCCGCTACAGATCATGAC
CTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGATCATGACTTGTAGCGGCGCTTCTCCCAC
Found at i:6766395 original size:21 final size:21
Alignment explanation
Indices: 6766350--6766395 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
6766340 CCTCTGCTCT
* *
6766350 GCTTCTCTCGCTGCAGCCTCT
1 GCTTCTCTCGCTGCAGCATCA
*
6766371 GCTTCTCTCGCTGCTGCATCA
1 GCTTCTCTCGCTGCAGCATCA
6766392 GCTT
1 GCTT
6766396 TAAGTTGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.07, C:0.39, G:0.20, T:0.35
Consensus pattern (21 bp):
GCTTCTCTCGCTGCAGCATCA
Found at i:6766468 original size:87 final size:87
Alignment explanation
Indices: 6766350--6766543 Score: 289
Period size: 87 Copynumber: 2.2 Consensus size: 87
6766340 CCTCTGCTCT
* * * *
6766350 GCTTCTCTCGCTGCAGCCTCTGCTTCTCTCGCTGCTGCATCAGCTTTAAGTTGTAGCTGGAGTTC
1 GCTTCTCTCGATGCTGCCTCTACTTCCCTCGCTGCTGCATCAGCTTTAAGTTGTAGCTGGAGTTC
*
6766415 TTCATAATTTCTTTGAACTTCA
66 TTCATAATTTCTTTGAACCTCA
* * *
6766437 GCTTCTCTCGATGCTGCCTCTACTTCCCTCGCTGTTGCATCTGCTTTAAGTTGTAGTTGGAGTTC
1 GCTTCTCTCGATGCTGCCTCTACTTCCCTCGCTGCTGCATCAGCTTTAAGTTGTAGCTGGAGTTC
* *
6766502 TTCATATTTTCTTTGGACCTCA
66 TTCATAATTTCTTTGAACCTCA
*
6766524 GCTTTTCTCGATGCTGCCTC
1 GCTTCTCTCGATGCTGCCTC
6766544 CGCTTTAAGT
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 96 1.00
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.41
Consensus pattern (87 bp):
GCTTCTCTCGATGCTGCCTCTACTTCCCTCGCTGCTGCATCAGCTTTAAGTTGTAGCTGGAGTTC
TTCATAATTTCTTTGAACCTCA
Found at i:6767349 original size:19 final size:19
Alignment explanation
Indices: 6767325--6767362 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6767315 AGTTTGAAAG
*
6767325 TACGTAATACCTCTCCTTT
1 TACGTAATACATCTCCTTT
6767344 TACGTAATACATCTCCTTT
1 TACGTAATACATCTCCTTT
6767363 CTTTGAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.42
Consensus pattern (19 bp):
TACGTAATACATCTCCTTT
Found at i:6770458 original size:27 final size:27
Alignment explanation
Indices: 6770407--6770458 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
6770397 GTTACTAAAA
* *
6770407 TTCTCTTTGAGTTTTCTTTTTAAGAAT
1 TTCTCTTTGAGTTTTATTTTGAAGAAT
6770434 TTCTC-TTGAGTTTTATTTTAGAAGA
1 TTCTCTTTGAGTTTTATTTT-GAAGA
6770459 GTTTTAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.21, C:0.10, G:0.13, T:0.56
Consensus pattern (27 bp):
TTCTCTTTGAGTTTTATTTTGAAGAAT
Found at i:6774493 original size:40 final size:38
Alignment explanation
Indices: 6774400--6774537 Score: 114
Period size: 40 Copynumber: 3.5 Consensus size: 38
6774390 CGTTTGGACA
* * *
6774400 AAAAACGCGGGTAAAAATCGAGCATTAGCGGCGCTTTATG
1 AAAAACGCCGCTAAAAA-CGAGCATTAGCGGCG-TTTTTG
* ** *
6774440 GAAATTGCTGCTAAAGAACGAGCATTAGCGGCGTTTTCTG
1 AAAAACGCCGCTAAA-AACGAGCATTAGCGGCGTTTT-TG
* * *
6774480 AAAAACGCCGCTAAAAATGAGCATTCGCGACAGTTTTTAG
1 AAAAACGCCGCTAAAAACGAGCATTAGCGGC-GTTTTT-G
* *
6774520 AAAAATGCCGCAAAAAAC
1 AAAAACGCCGCTAAAAAC
6774538 CTAAGCCCAA
Statistics
Matches: 78, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
39 17 0.22
40 59 0.76
41 2 0.03
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (38 bp):
AAAAACGCCGCTAAAAACGAGCATTAGCGGCGTTTTTG
Found at i:6774630 original size:41 final size:41
Alignment explanation
Indices: 6774571--6774725 Score: 238
Period size: 41 Copynumber: 3.8 Consensus size: 41
6774561 TGACATTTTA
*
6774571 GGGTTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCG
1 GGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCG
* *
6774612 GGGTTTTAGCGGCGTTTTTGAAAAAGCGCAGCGAATGCTCG
1 GGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCG
* *
6774653 GGGTTTTTGCGGCGTTTTTGAAAAAGCGCTGCTAATGCTCG
1 GGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCG
* * *
6774694 AGGCTTTAGCGGCGTTTTTGAAAAAGCACCGC
1 GGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGC
6774726 AAAAAACATT
Statistics
Matches: 103, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 103 1.00
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (41 bp):
GGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCG
Found at i:6775096 original size:14 final size:15
Alignment explanation
Indices: 6775070--6775107 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
6775060 GTTTAGGGGG
6775070 TATGGATTTAGGGAC
1 TATGGATTTAGGGAC
*
6775085 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAC
6775099 TATGG-TTTA
1 TATGGATTTA
6775108 AGGGTTGGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.26, C:0.03, G:0.32, T:0.39
Consensus pattern (15 bp):
TATGGATTTAGGGAC
Found at i:6776216 original size:54 final size:54
Alignment explanation
Indices: 6776134--6776243 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 54
6776124 GCGTCCACGA
*
6776134 GGGGGCGATTTGTTGCCACGTCAGCAAAGCGCGTTGACGTGACTGCGATTTCCT
1 GGGGGCGATTTGTTGCCACGTCAGCAAAGCGCGCTGACGTGACTGCGATTTCCT
* *
6776188 GGGGGCGATTTGTTGCCACGTCAGCAAAGCGCGCTGACGTGGCTGTGATTTCCT
1 GGGGGCGATTTGTTGCCACGTCAGCAAAGCGCGCTGACGTGACTGCGATTTCCT
6776242 GG
1 GG
6776244 TGCGTGAACA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.15, C:0.24, G:0.35, T:0.25
Consensus pattern (54 bp):
GGGGGCGATTTGTTGCCACGTCAGCAAAGCGCGCTGACGTGACTGCGATTTCCT
Found at i:6776834 original size:9 final size:9
Alignment explanation
Indices: 6776820--6776849 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6776810 TTTTTTCTCC
6776820 AAAATCCTA
1 AAAATCCTA
6776829 AAAATCCTA
1 AAAATCCTA
*
6776838 AAAACCCTA
1 AAAATCCTA
6776847 AAA
1 AAA
6776850 CCCTAAACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.60, C:0.23, G:0.00, T:0.17
Consensus pattern (9 bp):
AAAATCCTA
Found at i:6778295 original size:30 final size:31
Alignment explanation
Indices: 6778247--6778306 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
6778237 AAACATTTTA
* *
6778247 TTTTCCCCCCAAAGTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
6778277 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
6778307 TCCCACCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.18, C:0.42, G:0.02, T:0.38
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:6779578 original size:16 final size:17
Alignment explanation
Indices: 6779551--6779583 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6779541 TCTACATCAC
*
6779551 TAGTTAAAGAAACTAAA
1 TAGTTAAAGAAAATAAA
6779568 TAGTT-AAGAAAATAAA
1 TAGTTAAAGAAAATAAA
6779584 ACAGTAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.61, C:0.03, G:0.12, T:0.24
Consensus pattern (17 bp):
TAGTTAAAGAAAATAAA
Found at i:6780280 original size:76 final size:76
Alignment explanation
Indices: 6780154--6780305 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
6780144 AATGCTTTTA
*
6780154 AAACGTGAAGATTTGATATCTCAAATGAAAGTTGTCTAGCTATATACCATTTGCAAGTTATATTA
1 AAACGTGAAGATTTGATATCTCAAATCAAAGTTGTCTAGCTATATACCATTTGCAAGTTATATTA
6780219 AAGAACTTGTC
66 AAGAACTTGTC
6780230 AAACGTGAAGATTTGATATCTCAAATCAAAGTTGTCTAGCTATATACCATTTGCAAGTTATATTA
1 AAACGTGAAGATTTGATATCTCAAATCAAAGTTGTCTAGCTATATACCATTTGCAAGTTATATTA
6780295 AAGAACTTGTC
66 AAGAACTTGTC
6780306 TTCACTATTG
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (76 bp):
AAACGTGAAGATTTGATATCTCAAATCAAAGTTGTCTAGCTATATACCATTTGCAAGTTATATTA
AAGAACTTGTC
Found at i:6782663 original size:43 final size:43
Alignment explanation
Indices: 6782609--6782710 Score: 150
Period size: 43 Copynumber: 2.4 Consensus size: 43
6782599 TTTTCATGAC
* * * *
6782609 CTTTAACGGCGTTTTTGGGGAAAGCGTCGTTAAAGGTCATGTT
1 CTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGTT
* *
6782652 CTTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGTT
6782695 CTTTAGCGGCGTTTTT
1 CTTTAGCGGCGTTTTT
6782711 TTGCATAAAC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.19, C:0.16, G:0.30, T:0.35
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCATGTT
Found at i:6785571 original size:26 final size:24
Alignment explanation
Indices: 6785524--6785571 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
6785514 ATTAAAATTG
**
6785524 TAAATATATTGATTTTTGCCTCCT
1 TAAATATATTGATTTTAACCTCCT
6785548 TAAATATATTGATTAATTAACCTC
1 TAAATATATTGATT--TTAACCTC
6785572 AAAAATTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
26 6 0.30
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.46
Consensus pattern (24 bp):
TAAATATATTGATTTTAACCTCCT
Found at i:6789332 original size:13 final size:13
Alignment explanation
Indices: 6789316--6789369 Score: 81
Period size: 13 Copynumber: 4.2 Consensus size: 13
6789306 TACTTTTAAA
6789316 AAGTGCTTTTCAG
1 AAGTGCTTTTCAG
*
6789329 AAGTGCTTGTCAG
1 AAGTGCTTTTCAG
6789342 AAGTGCTTTTCAG
1 AAGTGCTTTTCAG
* *
6789355 AAGTACTTTTGAG
1 AAGTGCTTTTCAG
6789368 AA
1 AA
6789370 ATTTGAGTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (13 bp):
AAGTGCTTTTCAG
Found at i:6789369 original size:26 final size:26
Alignment explanation
Indices: 6789306--6789369 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
6789296 AGTTCTTTAT
*
6789306 TACTTTTAAAAAGTGCTTTTCAGAAG
1 TACTTTTAAGAAGTGCTTTTCAGAAG
* * *
6789332 TGCTTGTCAGAAGTGCTTTTCAGAAG
1 TACTTTTAAGAAGTGCTTTTCAGAAG
*
6789358 TACTTTTGAGAA
1 TACTTTTAAGAA
6789370 ATTTGAGTGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (26 bp):
TACTTTTAAGAAGTGCTTTTCAGAAG
Found at i:6790688 original size:5 final size:5
Alignment explanation
Indices: 6790678--6790703 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
6790668 CTTGAAAATT
6790678 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
6790704 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:6792615 original size:19 final size:19
Alignment explanation
Indices: 6792569--6792617 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
6792559 AACAACTTCA
* * *
6792569 AAATATTAAACTGAAGAGG
1 AAATATAAAACAGAAGAAG
*
6792588 AACTAATAAAACAGAAGAAG
1 AAAT-ATAAAACAGAAGAAG
6792608 AAATATAAAA
1 AAATATAAAA
6792618 GAAACTTTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.63, C:0.06, G:0.14, T:0.16
Consensus pattern (19 bp):
AAATATAAAACAGAAGAAG
Found at i:6794263 original size:23 final size:23
Alignment explanation
Indices: 6794237--6794282 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
6794227 TGTTGAAGAT
6794237 AGTGAATATTTTTCATTGAACTA
1 AGTGAATATTTTTCATTGAACTA
6794260 AGTGAATATTTTTCATTGAACTA
1 AGTGAATATTTTTCATTGAACTA
6794283 GGCTTCGCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (23 bp):
AGTGAATATTTTTCATTGAACTA
Found at i:6798010 original size:30 final size:31
Alignment explanation
Indices: 6797976--6798037 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
6797966 GTTCCAAAAT
* * *
6797976 AATCATTAAATTATTC-AAAAGTTTTATTTA
1 AATCACTAAACTATTCAAAAAATTTTATTTA
*
6798006 AATCACTGAACTATTCAAAAAATTTTATTTA
1 AATCACTAAACTATTCAAAAAATTTTATTTA
6798037 A
1 A
6798038 GTTAGACCTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (31 bp):
AATCACTAAACTATTCAAAAAATTTTATTTA
Found at i:6805154 original size:14 final size:14
Alignment explanation
Indices: 6805137--6805175 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
6805127 ACATATCAAT
6805137 CTTACCATATTAGG
1 CTTACCATATTAGG
6805151 CTTACCATATTAGG
1 CTTACCATATTAGG
*
6805165 CATACCATATT
1 CTTACCATATT
6805176 TCAATCATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (14 bp):
CTTACCATATTAGG
Found at i:6806476 original size:21 final size:21
Alignment explanation
Indices: 6806450--6806511 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
6806440 TGAACACGCC
* *
6806450 AACAGAAGCTTATAAGAGCTT
1 AACAGAAGCTCATAAGAGCTA
*
6806471 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
*
6806492 AACATAAGCTCATAAGAGCT
1 AACAGAAGCTCATAAGAGCT
6806512 GATCCACCCG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:6815611 original size:24 final size:24
Alignment explanation
Indices: 6815584--6815635 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
6815574 TTAGTAGGTC
*
6815584 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
6815608 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
6815632 AAAT
1 AAAT
6815636 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:6816160 original size:20 final size:21
Alignment explanation
Indices: 6816137--6816187 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
6816127 ATTTTTGTTC
6816137 ATTTTTATAACTTTTAAATA-
1 ATTTTTATAACTTTTAAATAT
*
6816157 ATTTTTCAT-ACTTTTATATAT
1 ATTTTT-ATAACTTTTAAATAT
*
6816178 TTTTTTATAA
1 ATTTTTATAA
6816188 TTATTTAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTTATAACTTTTAAATAT
Found at i:6820779 original size:26 final size:24
Alignment explanation
Indices: 6820750--6820808 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
6820740 CTTAGGGGTT
6820750 TTTTTTTTACTTTGGGGTTGTAATAA
1 TTTTTTTT--TTTGGGGTTGTAATAA
* *
6820776 -TTTTTCTTTTGGGTTTGTAATAA
1 TTTTTTTTTTTGGGGTTGTAATAA
*
6820799 TTATTTTTTT
1 TTTTTTTTTT
6820809 ATTTTATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 15 0.54
24 7 0.25
25 6 0.21
ACGTcount: A:0.17, C:0.03, G:0.15, T:0.64
Consensus pattern (24 bp):
TTTTTTTTTTTGGGGTTGTAATAA
Found at i:6820784 original size:22 final size:24
Alignment explanation
Indices: 6820753--6820800 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 24
6820743 AGGGGTTTTT
6820753 TTTTTAC-TTTGGGGTTGTAATAA
1 TTTTTACTTTTGGGGTTGTAATAA
*
6820776 TTTTT-CTTTTGGGTTTGTAATAA
1 TTTTTACTTTTGGGGTTGTAATAA
6820799 TT
1 TT
6820801 ATTTTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.19, C:0.04, G:0.19, T:0.58
Consensus pattern (24 bp):
TTTTTACTTTTGGGGTTGTAATAA
Found at i:6820786 original size:23 final size:23
Alignment explanation
Indices: 6820760--6820808 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
6820750 TTTTTTTTAC
6820760 TTTGGGGTTGTAATAATT-TTTCT
1 TTTGGGGTTGTAATAATTATTT-T
*
6820783 TTTGGGTTTGTAATAATTATTTT
1 TTTGGGGTTGTAATAATTATTTT
6820806 TTT
1 TTT
6820809 ATTTTATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.18, C:0.02, G:0.18, T:0.61
Consensus pattern (23 bp):
TTTGGGGTTGTAATAATTATTTT
Found at i:6832292 original size:161 final size:160
Alignment explanation
Indices: 6832008--6832312 Score: 434
Period size: 161 Copynumber: 1.9 Consensus size: 160
6831998 ATAGAAAATT
* * *
6832008 TAACAAAAAGAGATAGAAAAATTTTTAGGATAACAAAAATTGGCAGAGAGGAAACAAAAGGAACA
1 TAACAAAAAGAGACAGAAAAATTTTTAGGATAACAAAAATTAGCAAAGAGGAAACAAAAGGAACA
* * *
6832073 ACAAAAGAGAGAAAAGGTTTACCTAAAGGAGGCTCCGATGAAGGGGAGGAGTGCTAGTGGTCGGA
66 ACAAAAGAGAGAAAAGGTTTACCTAAAGGAAGCTACGATGAAGGGGAGGAGTGCTAGTGGTCAGA
6832138 GGCAAAGGAAGCAAACTCTACTTAAATGGG
131 GGCAAAGGAAGCAAACTCTACTTAAATGGG
* *
6832168 TAACAAAAAGA-AGCAGAAAAATTTTTAGGGTAAGAAAAATTAGCAAAGAGGAAAACGAAAA-GA
1 TAACAAAAAGAGA-CAGAAAAATTTTTAGGATAACAAAAATTAGCAAAGAGG-AAAC-AAAAGGA
** * * * *
6832231 ACAACGGAAGAGAGAAAATGTTTACTTGAAGGAAGCTACGATGAAGGGTAGGAGTGCTAGTGGTC
63 ACAACAAAAGAGAGAAAAGGTTTACCTAAAGGAAGCTACGATGAAGGGGAGGAGTGCTAGTGGTC
*
6832296 AGAGTCAAAGGAAGCAA
128 AGAGGCAAAGGAAGCAA
6832313 GGGAGTGGTT
Statistics
Matches: 127, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
159 1 0.01
160 44 0.35
161 78 0.61
162 4 0.03
ACGTcount: A:0.46, C:0.10, G:0.28, T:0.16
Consensus pattern (160 bp):
TAACAAAAAGAGACAGAAAAATTTTTAGGATAACAAAAATTAGCAAAGAGGAAACAAAAGGAACA
ACAAAAGAGAGAAAAGGTTTACCTAAAGGAAGCTACGATGAAGGGGAGGAGTGCTAGTGGTCAGA
GGCAAAGGAAGCAAACTCTACTTAAATGGG
Found at i:6833852 original size:23 final size:23
Alignment explanation
Indices: 6833825--6833870 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6833815 TTAACCGAAT
*
6833825 TAATTTGGTTGGGA-GTCGGTTAA
1 TAATTT-GTTGGAAGGTCGGTTAA
*
6833848 TAATTTTTTGGAAGGTCGGTTAA
1 TAATTTGTTGGAAGGTCGGTTAA
6833871 CTGTTAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.24, C:0.04, G:0.30, T:0.41
Consensus pattern (23 bp):
TAATTTGTTGGAAGGTCGGTTAA
Found at i:6834566 original size:18 final size:19
Alignment explanation
Indices: 6834524--6834573 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
6834514 ATTACAAAAA
* *
6834524 AAAACTTCAAAATAATTTTT
1 AAAA-TTCAAAATAATCTAT
6834544 AAAATTCAAAAT-ATCTAT
1 AAAATTCAAAATAATCTAT
*
6834562 AAAATTCCAAAT
1 AAAATTCAAAAT
6834574 TTTATATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 15 0.56
19 8 0.30
20 4 0.15
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATTCAAAATAATCTAT
Found at i:6834875 original size:26 final size:26
Alignment explanation
Indices: 6834843--6834897 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
6834833 ACTCAATTCA
*
6834843 ACTCGACTCAAATTTCATTTCACTTG
1 ACTCGACTCAAATTTCATTTCACTCG
* *
6834869 ACTCGACTTAAATTTTATTTCACTCG
1 ACTCGACTCAAATTTCATTTCACTCG
6834895 ACT
1 ACT
6834898 AAATTCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.40
Consensus pattern (26 bp):
ACTCGACTCAAATTTCATTTCACTCG
Found at i:6834883 original size:21 final size:20
Alignment explanation
Indices: 6834859--6834902 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
6834849 CTCAAATTTC
*
6834859 ATTTCACTTGACTCGACTTAA
1 ATTTCACTTCACTCGAC-TAA
* *
6834880 ATTTTATTTCACTCGACTAA
1 ATTTCACTTCACTCGACTAA
6834900 ATT
1 ATT
6834903 CAAAAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (20 bp):
ATTTCACTTCACTCGACTAA
Found at i:6835204 original size:25 final size:25
Alignment explanation
Indices: 6835142--6835199 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 25
6835132 GATTTTTTAT
*
6835142 TTTATTTAATATTAATGTAATTATA
1 TTTATTTAATATTAATGTAATTAAA
*
6835167 TTTATTTAATATTAATTTAAATTTAAA
1 TTTATTTAATATTAATGT-AA-TTAAA
6835194 TTTATT
1 TTTATT
6835200 ATATTGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 17 0.59
26 2 0.07
27 10 0.34
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTATTTAATATTAATGTAATTAAA
Found at i:6835273 original size:20 final size:18
Alignment explanation
Indices: 6835222--6835275 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 18
6835212 AAATATTTAT
6835222 TTTTATGTATTTTTAAAA
1 TTTTATGTATTTTTAAAA
*
6835240 TTCATTAT-TTTTTTTGAAAA
1 TT--TTATGTATTTTT-AAAA
6835260 TATTTATGTATTTTTA
1 T-TTTATGTATTTTTA
6835276 TATATTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
18 2 0.07
19 11 0.38
20 15 0.52
21 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.63
Consensus pattern (18 bp):
TTTTATGTATTTTTAAAA
Found at i:6836430 original size:14 final size:14
Alignment explanation
Indices: 6836404--6836437 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
6836394 ATATACAGTA
6836404 AGAAATGAAATAAC
1 AGAAATGAAATAAC
6836418 AGAAA-GAACATAAC
1 AGAAATGAA-ATAAC
6836432 AGAAAT
1 AGAAAT
6836438 ATAACTGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.65, C:0.09, G:0.15, T:0.12
Consensus pattern (14 bp):
AGAAATGAAATAAC
Found at i:6840735 original size:14 final size:14
Alignment explanation
Indices: 6840709--6840742 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
6840699 ATATACAGTA
6840709 AGAAATGAAATAAC
1 AGAAATGAAATAAC
6840723 AGAAA-GAACATAAC
1 AGAAATGAA-ATAAC
6840737 AGAAAT
1 AGAAAT
6840743 ATAACTGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.65, C:0.09, G:0.15, T:0.12
Consensus pattern (14 bp):
AGAAATGAAATAAC
Found at i:6843313 original size:16 final size:16
Alignment explanation
Indices: 6843292--6843333 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
6843282 AATAATTTGA
*
6843292 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
6843308 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
6843324 TAGTTTTAAT
1 TAATTTTAAT
6843334 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:6843353 original size:21 final size:21
Alignment explanation
Indices: 6843307--6843367 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 21
6843297 TTACTAACAA
* * *
6843307 TTAATTTTAATAACAATTAGTT
1 TTAATTTTATTAA-AAATAATT
6843329 TTAATTTTATTAAAAATAATT
1 TTAATTTTATTAAAAATAATT
6843350 TTAATTTTAATTAAAAAT
1 TTAATTTT-ATTAAAAAT
6843368 GGGCCTGGCC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 14 0.40
22 21 0.60
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TTAATTTTATTAAAAATAATT
Found at i:6844977 original size:13 final size:13
Alignment explanation
Indices: 6844959--6844983 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6844949 CCTGGAGATT
6844959 TAATGAGCAAATG
1 TAATGAGCAAATG
6844972 TAATGAGCAAAT
1 TAATGAGCAAAT
6844984 TTTTATTAGT
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:0.48, C:0.08, G:0.20, T:0.24
Consensus pattern (13 bp):
TAATGAGCAAATG
Found at i:6847838 original size:22 final size:22
Alignment explanation
Indices: 6847789--6847838 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
6847779 ATAGTCTAGT
* * *
6847789 TTTTAGTTTATTAAAAAATATA
1 TTTTATTTTAGTAAAAAATAAA
*
6847811 TATTATTTTAGTAAAAAATAAA
1 TTTTATTTTAGTAAAAAATAAA
6847833 TTTTAT
1 TTTTAT
6847839 ATTATATATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
TTTTATTTTAGTAAAAAATAAA
Found at i:6862536 original size:41 final size:41
Alignment explanation
Indices: 6862480--6862591 Score: 143
Period size: 41 Copynumber: 2.7 Consensus size: 41
6862470 TGATTCGATA
* * *
6862480 CACCGGCTTTTAGCCTGCTAGACCTATAGTCTGAAATATAT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCTGAAATATAT
* * *
6862521 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCTGAAATATAT
* * *
6862562 CACCGGCATCAAGCCCGCTAGACATAAAGT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGT
6862592 TTGTATTACA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACCTAAAGTCTGAAATATAT
Found at i:6862761 original size:76 final size:75
Alignment explanation
Indices: 6862679--6862821 Score: 182
Period size: 76 Copynumber: 1.9 Consensus size: 75
6862669 TGAATATACA
* * * *
6862679 TACATAATCGAAACTTTCACAT-ACATATATAAAT-TCCATACTTAAATTCATTACAAGAACATA
1 TACATAATC-AAAC-CTCACATAACATATATAAATGTCC-TACCTAAATTCAATAAAAGAACATA
6862742 TACACATAATCTT
63 TACACATAATCTT
* *
6862755 TACATAATCAAACCTCATATAAACTTATATAAATGTCCTACCTAAATTCAATAAAAGAACATATA
1 TACATAATCAAACCTCACAT-AACATATATAAATGTCCTACCTAAATTCAATAAAAGAACATATA
6862820 CA
65 CA
6862822 TATATGTAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
74 5 0.09
75 4 0.07
76 46 0.79
77 3 0.05
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.31
Consensus pattern (75 bp):
TACATAATCAAACCTCACATAACATATATAAATGTCCTACCTAAATTCAATAAAAGAACATATAC
ACATAATCTT
Found at i:6871308 original size:41 final size:41
Alignment explanation
Indices: 6871247--6871326 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
6871237 ACTGGCTTTT
*
6871247 AGCCTGCTAGACCTACAGTCTGAAATATATCACCGGCATTA
1 AGCCTGCTAGACCTAAAGTCTGAAATATATCACCGGCATTA
* * *
6871288 AGCCTGCTAGACGTAAAGTCTGAATTATTTCACCGGCAT
1 AGCCTGCTAGACCTAAAGTCTGAAATATATCACCGGCAT
6871327 CAATCTTGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACCTAAAGTCTGAAATATATCACCGGCATTA
Found at i:6871337 original size:41 final size:41
Alignment explanation
Indices: 6871247--6871339 Score: 123
Period size: 41 Copynumber: 2.3 Consensus size: 41
6871237 ACTGGCTTTT
* *
6871247 AGCCTGCTAGACCTACAGTCTGAAATATATCACCGGCATTA
1 AGCCTGCTAGACCTAAAGTCTGAAATATATCACCGGCATCA
* * *
6871288 AGCCTGCTAGACGTAAAGTCTGAATTATTTCACCGGCATCA
1 AGCCTGCTAGACCTAAAGTCTGAAATATATCACCGGCATCA
* *
6871329 ATCTTGCTAGA
1 AGCCTGCTAGA
6871340 AATAAAATCT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACCTAAAGTCTGAAATATATCACCGGCATCA
Found at i:6874225 original size:17 final size:18
Alignment explanation
Indices: 6874198--6874231 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6874188 TAATTTTGTT
6874198 TAAGTTATGTTAATTAAG
1 TAAGTTATGTTAATTAAG
6874216 TAAG-TATGTTAATTAA
1 TAAGTTATGTTAATTAA
6874232 TTAGTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (18 bp):
TAAGTTATGTTAATTAAG
Found at i:6874670 original size:28 final size:27
Alignment explanation
Indices: 6874639--6874732 Score: 84
Period size: 28 Copynumber: 3.3 Consensus size: 27
6874629 AAATTAGCGC
*
6874639 GCTTATCGTAATTAATTCACACTTCGGT
1 GCTTATCGTAATTAATT-GCACTTCGGT
*
6874667 GCTTATCATTGTAA--AATATGCACTTTGGT
1 GCTTATC---GTAATTAAT-TGCACTTCGGT
* *
6874696 GCTTATTGTAATTATTTTGCACTTCGGT
1 GCTTATCGTAATTA-ATTGCACTTCGGT
6874724 GCTTATCGT
1 GCTTATCGT
6874733 TATTTGCATT
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
26 4 0.08
28 26 0.49
29 18 0.34
30 1 0.02
31 4 0.08
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (27 bp):
GCTTATCGTAATTAATTGCACTTCGGT
Found at i:6884979 original size:2 final size:2
Alignment explanation
Indices: 6884972--6885012 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
6884962 AAAGTTACAA
6884972 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6885013 CAGCATATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6897861 original size:24 final size:26
Alignment explanation
Indices: 6897806--6897861 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 26
6897796 AATATATCAT
6897806 AAATTTTTATATTCTTTTAGTTTATA
1 AAATTTTTATATTCTTTTAGTTTATA
*
6897832 ATATTTTTAT-TT-TTTTAGATTT-TA
1 AAATTTTTATATTCTTTTAG-TTTATA
6897856 AAATTT
1 AAATTT
6897862 AAGTCCAGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 13 0.48
25 5 0.19
26 9 0.33
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (26 bp):
AAATTTTTATATTCTTTTAGTTTATA
Found at i:6900272 original size:4 final size:4
Alignment explanation
Indices: 6900265--6900316 Score: 61
Period size: 4 Copynumber: 12.8 Consensus size: 4
6900255 TTAAAACATG
* *
6900265 ATTA ATTA ATTA ATTA ATTA ATTA ATTAA ACTA AGTTA ATTA ACT- ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT-A ATTA A-TTA ATTA ATTA ATTA
6900314 ATT
1 ATT
6900317 GAAGTATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 2 0.05
4 33 0.80
5 6 0.15
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (4 bp):
ATTA
Found at i:6904071 original size:48 final size:48
Alignment explanation
Indices: 6903996--6904141 Score: 177
Period size: 48 Copynumber: 3.1 Consensus size: 48
6903986 TACTATGCGT
* * * *
6903996 ACCGATAATCTGTTATGACACACGGGTGGGACGGTCTGTGTGCAAGCC
1 ACCGATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
* * *
6904044 ACCGATATTCTGTTGTGACACAAGGGTGGCACGGACTATGTGCAGGCC
1 ACCGATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
* * * * *
6904092 ACCAAGAATCTGTTATTACACGA-GGTGGTACGGACTGTGTGCAGGCC
1 ACCGATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
6904139 ACC
1 ACC
6904142 AAGAAATTTG
Statistics
Matches: 83, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
47 25 0.30
48 58 0.70
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (48 bp):
ACCGATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
Found at i:6905161 original size:15 final size:15
Alignment explanation
Indices: 6905141--6905171 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6905131 TGTATTTGGT
6905141 ATATGATTTGGTATG
1 ATATGATTTGGTATG
6905156 ATATGATTTGGTATG
1 ATATGATTTGGTATG
6905171 A
1 A
6905172 AGTAAGGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (15 bp):
ATATGATTTGGTATG
Found at i:6906242 original size:29 final size:28
Alignment explanation
Indices: 6906169--6906244 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
6906159 TTTTCACAAA
*
6906169 TTTTTTATTCATTTATTTATTTTAAACCC
1 TTTTTTATT-ATTTATTTATTTTAAAACC
* * **
6906198 TTTTCTCTTATATTATTTATTTTAAAATG
1 TTTTTTATTAT-TTATTTATTTTAAAACC
6906227 TTTTATTATTATTTATTT
1 TTTT-TTATTATTTATTT
6906245 CAAGTTTTCC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
28 2 0.05
29 31 0.82
30 5 0.13
ACGTcount: A:0.25, C:0.08, G:0.01, T:0.66
Consensus pattern (28 bp):
TTTTTTATTATTTATTTATTTTAAAACC
Found at i:6906358 original size:31 final size:29
Alignment explanation
Indices: 6906296--6906417 Score: 87
Period size: 29 Copynumber: 4.3 Consensus size: 29
6906286 ATTATCCATT
* * * *
6906296 TTTTTATATATATTATTTATTTTGAATTG
1 TTTTTATACATATCATTTATTTTAAACTG
6906325 TTTTTATACATATCATTTATTTTTTAAACTG
1 TTTTTATACATATCATTTA--TTTTAAACTG
*
6906356 TTTTGTAT--AT-T-ATTTATTTGAAA-T-
1 TTTT-TATACATATCATTTATTTTAAACTG
* *
6906380 TTCTTTTTACATATTATTTATTTTAAACT-
1 TT-TTTATACATATCATTTATTTTAAACTG
6906409 TTTTATATA
1 TTTT-TATA
6906418 TTATTTTAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
24 4 0.05
25 3 0.04
26 8 0.11
27 1 0.01
28 18 0.24
29 24 0.32
30 2 0.03
31 12 0.16
32 3 0.04
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (29 bp):
TTTTTATACATATCATTTATTTTAAACTG
Found at i:6906387 original size:28 final size:25
Alignment explanation
Indices: 6906297--6906423 Score: 92
Period size: 28 Copynumber: 4.6 Consensus size: 25
6906287 TTATCCATTT
**
6906297 TTTTATATATATTATTTATTTTGAATTG
1 TTTT-TATATATTATTTA-TTTGAA-AC
* *
6906325 TTTTTATACATATCATTTATTTTTTAAAC
1 TTTTTAT--ATATTATTTA--TTTGAAAC
*
6906354 TGTTTTGTATATTATTTATTTGAAATTTC
1 T-TTTTATATATTATTTATTTGAAA---C
* *
6906383 TTTTTACATATTATTTATTTTAAAC
1 TTTTTATATATTATTTATTTGAAAC
6906408 TTTTTATATATTATTT
1 TTTTTATATATTATTT
6906424 TAAATTGTCT
Statistics
Matches: 81, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
25 16 0.20
26 6 0.07
27 3 0.04
28 33 0.41
29 12 0.15
30 11 0.14
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTTTATATATTATTTATTTGAAAC
Found at i:6906399 original size:56 final size:54
Alignment explanation
Indices: 6906297--6906423 Score: 161
Period size: 57 Copynumber: 2.3 Consensus size: 54
6906287 TTATCCATTT
6906297 TTTTATATATATTATTTATTTTGAATTGTTTTTATACATATCATTTATTTTTTAAAC
1 TTTT-TATATATTATTTATTTTGAATTGTTTTTATACATATCATTTA--TTTTAAAC
* *
6906354 TGTTTTGTATATTATTTA-TTTGAAATT-TCTTTT-TACATATTATTTATTTTAAAC
1 T-TTTTATATATTATTTATTTTG-AATTGT-TTTTATACATATCATTTATTTTAAAC
6906408 TTTTTATATATTATTT
1 TTTTTATATATTATTT
6906424 TAAATTGTCT
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
53 14 0.22
54 9 0.14
56 17 0.27
57 21 0.33
58 3 0.05
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (54 bp):
TTTTTATATATTATTTATTTTGAATTGTTTTTATACATATCATTTATTTTAAAC
Found at i:6906444 original size:75 final size:72
Alignment explanation
Indices: 6906342--6906478 Score: 175
Period size: 75 Copynumber: 1.9 Consensus size: 72
6906332 ACATATCATT
* * * * *
6906342 TATTTTTTAAACTGTTTTGTATATTATTTATTTGAAATTTCTTTTTACATATTATTTATTTTAAA
1 TATTTTTTAAACTGTCTTCTATATTATTTATTTGAAATTGCATTGT--ATATTATTTATTTTAAA
6906407 CTTTTTATA
64 CTTTTTATA
* * *
6906416 TATTATTTTAAATTGTCTTCTATGTTATTTATTTTAAATTGCATTGTATATTATTTATTTTAA
1 TATT-TTTTAAACTGTCTTCTATATTATTTATTTGAAATTGCATTGTATATTATTTATTTTAA
6906479 TTTGTTTTGC
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
73 16 0.30
74 4 0.07
75 34 0.63
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.61
Consensus pattern (72 bp):
TATTTTTTAAACTGTCTTCTATATTATTTATTTGAAATTGCATTGTATATTATTTATTTTAAACT
TTTTATA
Found at i:6906492 original size:26 final size:26
Alignment explanation
Indices: 6906305--6906533 Score: 143
Period size: 26 Copynumber: 8.8 Consensus size: 26
6906295 TTTTTTATAT
* *
6906305 ATATTATTTATTTTGAATTGTTTTTATAC
1 ATATTATTTATTTTAAATTG--TTT-TGC
* * *
6906334 ATATCATTTATTTTTTAAACTGTTTTGT
1 ATATTATTTA--TTTTAAATTGTTTTGC
* * *
6906362 ATATTATTTATTTGAAATTTCTTTTTAC
1 ATATTATTTATTTTAAA-TT-GTTTTGC
*
6906390 ATATTATTTATTTTAAACT-TTTT--
1 ATATTATTTATTTTAAATTGTTTTGC
*
6906413 ATA-TA-TTATTTTAAATTGTCTT-C
1 ATATTATTTATTTTAAATTGTTTTGC
* ** *
6906436 TATGTTATTTATTTTAAATTGCATTGT
1 -ATATTATTTATTTTAAATTGTTTTGC
*
6906463 ATATTATTTATTTTAATTTGTTTTGC
1 ATATTATTTATTTTAAATTGTTTTGC
* *
6906489 ATATTA-TTACTTTGAATTGTTTT--
1 ATATTATTTATTTTAAATTGTTTTGC
* * *
6906512 ATACTATTTACTTCAAATTGTT
1 ATATTATTTATTTTAAATTGTT
6906534 CTATATATTA
Statistics
Matches: 159, Mismatches: 30, Indels: 27
0.74 0.14 0.12
Matches are distributed among these distances:
21 11 0.07
22 5 0.03
23 8 0.05
24 15 0.09
25 20 0.13
26 48 0.30
27 2 0.01
28 30 0.19
29 12 0.08
31 8 0.05
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.60
Consensus pattern (26 bp):
ATATTATTTATTTTAAATTGTTTTGC
Done.