Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 197 of 240
Found at i:59864232 original size:27 final size:28
Alignment explanation
Indices: 59864202--59864286 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 28
59864192 AAAAGGAAAA
59864202 ATAATTAAAAATTTAAAA-TTAAAATAT
1 ATAATTAAAAATTTAAAATTTAAAATAT
* *
59864229 ATAA--ATAAATTCTAAAATTTAAAAAAT
1 ATAATTAAAAATT-TAAAATTTAAAATAT
*
59864256 ATATATTAAAACCTTTACAAATTTAAAATAT
1 ATA-ATTAAAA-ATTTA-AAATTTAAAATAT
59864287 TAAAAAATAG
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
25 6 0.13
26 5 0.11
27 15 0.33
28 1 0.02
30 5 0.11
31 14 0.30
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (28 bp):
ATAATTAAAAATTTAAAATTTAAAATAT
Found at i:59868319 original size:29 final size:29
Alignment explanation
Indices: 59868287--59868586 Score: 292
Period size: 29 Copynumber: 11.2 Consensus size: 29
59868277 GTTAGGTTTT
59868287 TAAATTAGGTTAGGGTTAGGGTTTTTAAA
1 TAAATTAGGTTAGGGTTAGGGTTTTTAAA
*
59868316 TAAATTAGGTTA-GG--A---TTTTTAAT
1 TAAATTAGGTTAGGGTTAGGGTTTTTAAA
* *
59868339 TAAA-T----TA-GGTTACGGTTTTTAAT
1 TAAATTAGGTTAGGGTTAGGGTTTTTAAA
* *
59868362 TAAATTAGGGTAGGGTTAGGGTTTTTAAT
1 TAAATTAGGTTAGGGTTAGGGTTTTTAAA
* *
59868391 TAAATTAGGTTAAGGTTAGGG-TTTTAAT
1 TAAATTAGGTTAGGGTTAGGGTTTTTAAA
59868419 TAAATTAGGTTAGGGTTAGGGTTTTTAAA
1 TAAATTAGGTTAGGGTTAGGGTTTTTAAA
59868448 TAAATTAGGTTAGGG-T----TTTTT-AA
1 TAAATTAGGTTAGGGTTAGGGTTTTTAAA
59868471 TAAATTAGGTTA-----A-GGTTTTTAAA
1 TAAATTAGGTTAGGGTTAGGGTTTTTAAA
* *
59868494 TCAATTAGGCTAGGGTTAGGGTTTTTAAA
1 TAAATTAGGTTAGGGTTAGGGTTTTTAAA
* * *
59868523 TAAATTAGGTTAGGGTTAAGATTTTTAAT
1 TAAATTAGGTTAGGGTTAGGGTTTTTAAA
* *
59868552 TAAATTAGGTTAGGGTTAGGG-TATGAAA
1 TAAATTAGGTTAGGGTTAGGGTTTTTAAA
59868580 TAAATTA
1 TAAATTA
59868587 CGATTTTTAT
Statistics
Matches: 231, Mismatches: 18, Indels: 45
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.02
20 1 0.00
22 6 0.03
23 49 0.21
24 6 0.03
26 1 0.00
28 44 0.19
29 120 0.52
ACGTcount: A:0.33, C:0.01, G:0.24, T:0.42
Consensus pattern (29 bp):
TAAATTAGGTTAGGGTTAGGGTTTTTAAA
Found at i:59868379 original size:52 final size:52
Alignment explanation
Indices: 59868323--59868568 Score: 253
Period size: 52 Copynumber: 4.6 Consensus size: 52
59868313 AAATAAATTA
* *
59868323 GGTTAGGATTTTTAATTAAATTAGGTTACGGTTTTTAATTAAATTAGGGTAG
1 GGTTAGGATTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
59868375 GGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAGGTTAG
1 GGTTAGGATTTTTAATTAAATTAGGTT-A-G---GGTTTTTAATTAAATTAGGTTAG
* * *
59868432 GGTTAGGGTTTTTAAATAAATTAGGTTAGGGTTTTTTAA-TAAATTAGGTTAA
1 GGTTAGGATTTTTAATTAAATTAGGTTAGGG-TTTTTAATTAAATTAGGTTAG
*** ** * *** *
59868484 GGTTTTTA-AATCAATTAGGCTAGGGTTAGGGTTTTTAAATAAATTAGGTTAG
1 GGTTAGGATTTTTAATTAAATTA-GGTTAGGGTTTTTAATTAAATTAGGTTAG
*
59868536 GGTTAAGATTTTTAATTAAATTAGGTTAGGGTT
1 GGTTAGGATTTTTAATTAAATTAGGTTAGGGTT
59868569 AGGGTATGAA
Statistics
Matches: 157, Mismatches: 28, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
51 14 0.09
52 79 0.50
53 15 0.10
55 1 0.01
56 1 0.01
57 47 0.30
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.43
Consensus pattern (52 bp):
GGTTAGGATTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:59868429 original size:132 final size:133
Alignment explanation
Indices: 59868286--59868586 Score: 473
Period size: 132 Copynumber: 2.3 Consensus size: 133
59868276 AGTTAGGTTT
59868286 TTAAATTAGGTTAGGGTTAGGGTTTTTAAATAAATTAGGTTA-GGATTTTTAATTAAATTAGGTT
1 TTAAATTAGGTTAGGGTTAGGGTTTTTAAATAAATTAGGTTAGGGATTTTTAA-TAAATTAGGTT
* * * * *
59868350 ACGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTT-AGGGTT
65 AAGGTTTTTAAATAAATTAGGCTAGGGTTAGGGTTTTTAAATAAATTAGGTTAAGGTTAAGAGTT
59868414 TTAA
130 TTAA
*
59868418 TTAAATTAGGTTAGGGTTAGGGTTTTTAAATAAATTAGGTTAGGGTTTTTTAATAAATTAGGTTA
1 TTAAATTAGGTTAGGGTTAGGGTTTTTAAATAAATTAGGTTAGGGATTTTTAATAAATTAGGTTA
* * *
59868483 AGGTTTTTAAATCAATTAGGCTAGGGTTAGGGTTTTTAAATAAATTAGGTTAGGGTTAAGATTTT
66 AGGTTTTTAAATAAATTAGGCTAGGGTTAGGGTTTTTAAATAAATTAGGTTAAGGTTAAGAGTTT
59868548 TAA
131 TAA
* *
59868551 TTAAATTAGGTTAGGGTTAGGG-TATGAAATAAATTA
1 TTAAATTAGGTTAGGGTTAGGGTTTTTAAATAAATTA
59868587 CGATTTTTAT
Statistics
Matches: 156, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
132 117 0.75
133 39 0.25
ACGTcount: A:0.33, C:0.01, G:0.24, T:0.43
Consensus pattern (133 bp):
TTAAATTAGGTTAGGGTTAGGGTTTTTAAATAAATTAGGTTAGGGATTTTTAATAAATTAGGTTA
AGGTTTTTAAATAAATTAGGCTAGGGTTAGGGTTTTTAAATAAATTAGGTTAAGGTTAAGAGTTT
TAA
Found at i:59868537 original size:23 final size:23
Alignment explanation
Indices: 59868249--59868539 Score: 228
Period size: 23 Copynumber: 11.7 Consensus size: 23
59868239 AAATTATGTA
59868249 AAATTAGGTTAGGG-TTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
59868271 AAATTA-GTTA-GGTTTTTAAATT
1 AAATTAGGTTAGGGTTTTTAAA-T
**
59868293 AGGTTAGGGTTAGGGTTTTTAAAT
1 AAATTA-GGTTAGGGTTTTTAAAT
* *
59868317 AAATTAGGTTAGGATTTTTAATT
1 AAATTAGGTTAGGGTTTTTAAAT
* *
59868340 AAATTAGGTTACGGTTTTTAATT
1 AAATTAGGTTAGGGTTTTTAAAT
*
59868363 AAATTAGGGTAGGGTTAGGGTTTTTAATT
1 AAA-T----TA-GGTTAGGGTTTTTAAAT
* *
59868392 AAATTAGGTTAAGGTTAGGGTTTTAATT
1 AAATTAGGTT-A-G---GGTTTTTAAAT
59868420 AAATTAGGTTAGGGTTAGGGTTTTTAAAT
1 -AA--A--TTA-GGTTAGGGTTTTTAAAT
*
59868449 AAATTAGGTTAGGGTTTTTTAAT
1 AAATTAGGTTAGGGTTTTTAAAT
*
59868472 AAATTAGGTTAAGGTTTTTAAAT
1 AAATTAGGTTAGGGTTTTTAAAT
*
59868495 CAATTAGGCTAGGGTTAGGGTTTTTAAAT
1 -AA--A--TTA-GGTTAGGGTTTTTAAAT
59868524 AAATTAGGTTAGGGTT
1 AAATTAGGTTAGGGTT
59868540 AAGATTTTTA
Statistics
Matches: 223, Mismatches: 18, Indels: 55
0.75 0.06 0.19
Matches are distributed among these distances:
20 2 0.01
21 11 0.05
22 11 0.05
23 90 0.40
24 20 0.09
25 11 0.05
26 3 0.01
28 19 0.09
29 46 0.21
31 1 0.00
32 1 0.00
33 4 0.02
34 4 0.02
ACGTcount: A:0.32, C:0.01, G:0.24, T:0.43
Consensus pattern (23 bp):
AAATTAGGTTAGGGTTTTTAAAT
Found at i:59868594 original size:104 final size:103
Alignment explanation
Indices: 59868383--59868595 Score: 250
Period size: 104 Copynumber: 2.1 Consensus size: 103
59868373 AGGGTTAGGG
* * * * *
59868383 TTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAA
1 TTTTTAAATAAATTAGGCTAAGGTTAGGGTTTTAAATAAATTAGGTTAGGGTTAAGATTTTTAAA
*** ** *
59868448 TAAATTAGGTTAGGGTTTTTTAATAAATTAGGTTAAGG
66 TAAATTAGGTTAGGGTTGGGTAATAAATTAAATTAAGA
* *
59868486 TTTTTAAATCAATTAGGCTAGGGTTAGGGTTTTTAAATAAATTAGGTTAGGGTTAAGATTTTTAA
1 TTTTTAAATAAATTAGGCTAAGGTTAGGG-TTTTAAATAAATTAGGTTAGGGTTAAGATTTTTAA
* *
59868551 TTAAATTAGGTTAGGGTTAGGGT-ATGAAA-TAAATTACGA
65 ATAAATTAGGTTAGGGTT-GGGTAAT-AAATTAAATTAAGA
59868590 TTTTTA
1 TTTTTA
59868596 TTACATCAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
103 25 0.27
104 63 0.68
105 4 0.04
ACGTcount: A:0.33, C:0.01, G:0.23, T:0.43
Consensus pattern (103 bp):
TTTTTAAATAAATTAGGCTAAGGTTAGGGTTTTAAATAAATTAGGTTAGGGTTAAGATTTTTAAA
TAAATTAGGTTAGGGTTGGGTAATAAATTAAATTAAGA
Found at i:59870955 original size:29 final size:30
Alignment explanation
Indices: 59870899--59870963 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
59870889 GCCATTGATG
*
59870899 AAAATATAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTAAAATTATTTTAAA
* *
59870929 AAAATATAAAAAAATTGAAATTATTTAAAA
1 AAAATATAAAAAAATTAAAATTATTTTAAA
59870959 AAAAT
1 AAAAT
59870964 GAAATTGAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (30 bp):
AAAATATAAAAAAATTAAAATTATTTTAAA
Found at i:59871022 original size:22 final size:21
Alignment explanation
Indices: 59870997--59871047 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
59870987 TAATATGGAT
*
59870997 TTGAGAGATTTTTGGAATGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
*
59871019 TTGAGAGGATTTTGTAAGGAAA
1 TTGAGA-GATTTTGGAAGGAAA
59871041 TTGAGAG
1 TTGAGAG
59871048 TTTAAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.88
23 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.33
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:59871063 original size:52 final size:52
Alignment explanation
Indices: 59871000--59871098 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 52
59870990 TATGGATTTG
* * *
59871000 AGAGATTTTTGGAATGAAATTGAGAGGATTTTGTAAGGAAATTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGAGTTTA
59871052 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGA
1 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGA
59871099 TAGGATTTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.30
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGAGTTTA
Found at i:59871082 original size:22 final size:22
Alignment explanation
Indices: 59871052--59871098 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
59871042 TGAGAGTTTA
59871052 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
*
59871074 AGAGGATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
59871096 AGA
1 AGA
59871099 TAGGATTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.34, T:0.26
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:59876737 original size:31 final size:31
Alignment explanation
Indices: 59876701--59876762 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
59876691 AAATAATTTT
59876701 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
*
59876732 AAAGAGTTTTATTAGGATTCAATTTCTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
59876763 TAATTTGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.44
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:59886356 original size:92 final size:88
Alignment explanation
Indices: 59886187--59886360 Score: 206
Period size: 92 Copynumber: 1.9 Consensus size: 88
59886177 GTCATCAAAC
*
59886187 TTTTCAAAAAAAGCAATTAAGCACTTACTCTTCTTTTTCACTCAATTAGATACTTGAACTTTCAA
1 TTTTCAAAAAAAGCAATTAAGCACTTACTCTTCTTTTTCACTCAATTAGATACTTCAACTTTCAA
*
59886252 AATGCATTAAAAAGCCCTCAAATT
66 AATGCA-TAAAAAACCCTCAAATT
* * * * * * * *
59886276 TTTTCAAACAAAGCAATTAAGCCCTTGCCTTTTTTTTTTTACATTCAATTGGGTACTTCAA-TTG
1 TTTTCAAAAAAAGCAATTAAGCACTT-AC-TCTTCTTTTT-CACTCAATTAGATACTTCAACTT-
59886340 TCAAAATGCATAAAAAACCCT
62 TCAAAATGCATAAAAAACCCT
59886361 TTAACCGTTA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
89 24 0.34
90 1 0.01
91 20 0.28
92 26 0.37
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (88 bp):
TTTTCAAAAAAAGCAATTAAGCACTTACTCTTCTTTTTCACTCAATTAGATACTTCAACTTTCAA
AATGCATAAAAAACCCTCAAATT
Found at i:59890295 original size:17 final size:18
Alignment explanation
Indices: 59890263--59890298 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
59890253 AAAAATTCAG
*
59890263 AAAATTATACATAAAAAT
1 AAAATTATACAAAAAAAT
59890281 AAAATT-TACAAAAAAAT
1 AAAATTATACAAAAAAAT
59890298 A
1 A
59890299 CAATAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAATTATACAAAAAAAT
Found at i:59890358 original size:32 final size:33
Alignment explanation
Indices: 59890322--59890389 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
59890312 ATATTAGTTG
* * *
59890322 AAATTAATAATATTATTACA-AAATATGTAAAA
1 AAATTAATAAAATTATAAAACAAATATGTAAAA
* *
59890354 AAATTTATAAAATTATAAAACAAATATTTAAAA
1 AAATTAATAAAATTATAAAACAAATATGTAAAA
59890387 AAA
1 AAA
59890390 GCTTAAAGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (33 bp):
AAATTAATAAAATTATAAAACAAATATGTAAAA
Found at i:59890853 original size:11 final size:11
Alignment explanation
Indices: 59890839--59890872 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
59890829 ACGCCCGATT
59890839 AATGGTTGGTC
1 AATGGTTGGTC
*
59890850 AAT-GCTGGTC
1 AATGGTTGGTC
59890860 AATGGTTGGTC
1 AATGGTTGGTC
59890871 AA
1 AA
59890873 CATTAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.24, C:0.12, G:0.32, T:0.32
Consensus pattern (11 bp):
AATGGTTGGTC
Found at i:59890944 original size:13 final size:13
Alignment explanation
Indices: 59890928--59890952 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59890918 AAATATTTAA
59890928 TATTTTAATTTTC
1 TATTTTAATTTTC
59890941 TATTTTAATTTT
1 TATTTTAATTTT
59890953 AATTTAATAA
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:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTTAATTTTC
Found at i:59890970 original size:19 final size:18
Alignment explanation
Indices: 59890914--59890970 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 18
59890904 ATTTTTTAAT
59890914 ATTTAAATATTTAATATTTTA
1 ATTT-AATATTT--TATTTTA
**
59890935 ATTTTCTATTTTAATTTTA
1 ATTTAATATTTT-ATTTTA
59890954 ATTTAATAATTTTATTT
1 ATTTAAT-ATTTTATTT
59890971 AAATAAATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 15 0.50
20 10 0.33
21 4 0.13
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTAATATTTTATTTTA
Found at i:59893322 original size:41 final size:41
Alignment explanation
Indices: 59893265--59893414 Score: 221
Period size: 41 Copynumber: 3.7 Consensus size: 41
59893255 TTTAACATAT
*
59893265 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* * *
59893306 TCACCAGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
59893347 TCACCGGCACTTAGCCTGCTAGG-TTCATAACCTGGTTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTT-ATAACCTGATTCAGA
* *
59893388 TCACCGACACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
59893415 AAGTCTGAAT
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
40 2 0.02
41 94 0.96
42 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:59893451 original size:82 final size:83
Alignment explanation
Indices: 59893263--59893439 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 83
59893253 AATTTAACAT
*
59893263 ATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCAGCACGTAGCCTGCTAG
1 ATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCAGCACGTAGCCTGCTAG
**
59893328 GTTTATAACCTGATTCAG
66 ACTTATAACCTGATTCAG
* *
59893346 A-TCACCGGCACTTAGCCTGCTAGG-TTCATAACCTGGTTCAGATCACC-GACACTTAGCCTGCT
1 ATTCACCGGCACTTAGCCTGCTAGGCTT-ATAACCTGATTCAGATCACCAG-CACGTAGCCTGCT
*
59893408 AGACTTA-AAGTCTGAATT-A-
64 AGACTTATAA-CCTG-ATTCAG
59893427 ATTCACCGGCACT
1 ATTCACCGGCACT
59893440 ACATCTGCTA
Statistics
Matches: 83, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
81 6 0.07
82 73 0.88
83 4 0.05
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (83 bp):
ATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCAGCACGTAGCCTGCTAG
ACTTATAACCTGATTCAG
Found at i:59895482 original size:13 final size:13
Alignment explanation
Indices: 59895464--59895488 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59895454 CAATCAAAGG
59895464 CACACAAAATAAA
1 CACACAAAATAAA
59895477 CACACAAAATAA
1 CACACAAAATAA
59895489 TATTAAAAAA
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:59895766 original size:40 final size:40
Alignment explanation
Indices: 59895630--59895766 Score: 125
Period size: 40 Copynumber: 3.4 Consensus size: 40
59895620 CGTTTGGATA
* * *
59895630 AAAAACGCCGCTAAAAATCGAGCATTAACGGTGCTTTACA-
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCG-TTTTCAG
* * * * * *
59895670 TAAAACGCCACTAAATATCGAGCATTAGTGGCGCTTTAAG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTCAG
***
59895710 AAAAGTACCGCTAAAAAT-GAGCATTAGCGGCGTTTTCTAG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTC-AG
*
59895750 AAAAACGCCGCAAAAAA
1 AAAAACGCCGCTAAAAA
59895767 CATAAGCCCA
Statistics
Matches: 73, Mismatches: 22, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
39 19 0.26
40 54 0.74
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.20
Consensus pattern (40 bp):
AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTCAG
Found at i:59895856 original size:41 final size:41
Alignment explanation
Indices: 59895804--59896127 Score: 461
Period size: 41 Copynumber: 7.9 Consensus size: 41
59895794 CCTTTCGGGG
* * * *
59895804 CTTTAGAGGTGTTTTTGAAAAAGCGCCGCTAATGCTCGGGA
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGT
* *
59895845 CTTTAGCGGTGTTTTTGAAAAAGCGCTGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGT
* *
59895886 CTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTCTAGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGT
* *
59895927 CTTTAGAGGCGTTTTTGAAAAAGCACCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGT
*
59895968 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC-GAGA
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTG-GT
*
59896009 CTTTAGCGGTGTTTTTGAAAAAGCGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGT
* ** *
59896050 CTTTAGCGGCATTTTCAAAAAAGTGCCGCTAATGCTCTGGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGT
* * *
59896091 CTTTAGTGGCATTTTCGAAAAAGCGCCGCTAATGCTC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
59896128 AAAAATATTT
Statistics
Matches: 256, Mismatches: 25, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
40 1 0.00
41 254 0.99
42 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGT
Found at i:59896686 original size:73 final size:74
Alignment explanation
Indices: 59896592--59896741 Score: 200
Period size: 74 Copynumber: 2.0 Consensus size: 74
59896582 TAAGAGTTAG
* *
59896592 AGATTTAGGGTTTATGGATTCAATGTTA-GGTTAGGGTTTAGATTAATTAGTATGTTTT-AGTT-
1 AGATTTAGGGGTTATGGATTC-AGGTTAGGGTTAGGGTTTAGATTAATTAGTAT-TTTTAAGTTA
59896654 TATATTAAATA
64 TATATTAAATA
* *
59896665 AGATTTAGGGGTTA-GGTATTCAGGTTAGGGGTTAGGGTTTAGATTAATTAGTGTTTTTAATTTA
1 AGATTTAGGGGTTATGG-ATTCAGGTTA-GGGTTAGGGTTTAGATTAATTAGTATTTTTAAGTTA
59896729 TATATTAAATA
64 TATATTAAATA
59896740 AG
1 AG
59896742 CTTATTTAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
72 7 0.10
73 21 0.31
74 27 0.40
75 13 0.19
ACGTcount: A:0.30, C:0.01, G:0.24, T:0.45
Consensus pattern (74 bp):
AGATTTAGGGGTTATGGATTCAGGTTAGGGTTAGGGTTTAGATTAATTAGTATTTTTAAGTTATA
TATTAAATA
Found at i:59896842 original size:21 final size:21
Alignment explanation
Indices: 59896800--59896851 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
59896790 TAGGGGTTTA
*
59896800 AAGGTTTAAGGGTTGGGATTT
1 AAGGTTTAAGGGTTGAGATTT
*
59896821 AAGGTTTAGGGGTT-AGACTTT
1 AAGGTTTAAGGGTTGAGA-TTT
* *
59896842 ATGGGTTAAG
1 AAGGTTTAAG
59896852 AGTTAGGGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.25, C:0.02, G:0.37, T:0.37
Consensus pattern (21 bp):
AAGGTTTAAGGGTTGAGATTT
Found at i:59899885 original size:86 final size:86
Alignment explanation
Indices: 59899795--59899975 Score: 355
Period size: 86 Copynumber: 2.1 Consensus size: 86
59899785 AATATAATTG
59899795 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
1 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
59899860 TGTTAAGTATTAATGTTGATA
66 TGTTAAGTATTAATGTTGATA
59899881 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
1 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
59899946 TGTTAAGTATTAATGTTGATA
66 TGTTAAGTATTAATGTTGATA
59899967 TAATT-TTAT
1 TAATTATTAT
59899976 GTGGAGAGAA
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 4 0.04
86 91 0.96
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (86 bp):
TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
TGTTAAGTATTAATGTTGATA
Found at i:59900117 original size:51 final size:51
Alignment explanation
Indices: 59900042--59900261 Score: 325
Period size: 51 Copynumber: 4.1 Consensus size: 51
59900032 TATACGTAAA
59900042 AATTAT-CATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
59900092 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGG----TAA-A-T-----AAC-ATTAAACCAAC
59900155 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
59900206 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
59900257 AATTA
1 AATTA
59900262 AACCAACAAT
Statistics
Matches: 157, Mismatches: 0, Indels: 25
0.86 0.00 0.14
Matches are distributed among these distances:
50 6 0.04
51 92 0.59
52 3 0.02
55 3 0.02
56 1 0.01
57 2 0.01
58 1 0.01
59 3 0.02
62 3 0.02
63 43 0.27
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (51 bp):
AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
Found at i:59900149 original size:12 final size:12
Alignment explanation
Indices: 59900132--59900159 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
59900122 GGTAAATAAC
59900132 ATTAAACCAACA
1 ATTAAACCAACA
59900144 ATTAAACCAACA
1 ATTAAACCAACA
59900156 ATTA
1 ATTA
59900160 TACATACACC
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:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (12 bp):
ATTAAACCAACA
Found at i:59900159 original size:63 final size:63
Alignment explanation
Indices: 59900081--59900210 Score: 260
Period size: 63 Copynumber: 2.1 Consensus size: 63
59900071 GGTAAATAAC
59900081 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
59900144 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
59900207 ATTA
1 ATTA
59900211 TACATACACC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.28
Consensus pattern (63 bp):
ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
Found at i:59900183 original size:114 final size:114
Alignment explanation
Indices: 59900042--59900321 Score: 537
Period size: 114 Copynumber: 2.5 Consensus size: 114
59900032 TATACGTAAA
59900042 AATTAT-CATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
59900106 CAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
66 CAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
59900155 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
59900220 CAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
66 CAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
59900269 AATTATACATACACCAACAATGTTTTTTAGGG-ACAATAACATTAAACCAACAA
1 AATTATACATACACCAACAATGTTTTTTAGGGTA-AATAACATTAAACCAACAA
59900322 GTAATTTTAG
Statistics
Matches: 165, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
113 7 0.04
114 158 0.96
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (114 bp):
AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTATACATACAC
CAACAATGTTTTTTAGGGTAAATAACATTAAACCAACAATTAAACCAAC
Found at i:59900262 original size:63 final size:63
Alignment explanation
Indices: 59900195--59900321 Score: 238
Period size: 63 Copynumber: 2.0 Consensus size: 63
59900185 GGTAAATAAC
59900195 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGTA-AATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGG-ACAATAACATTAAACCAACA
59900258 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGACAATAACATTAAACCAACA
1 ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGACAATAACATTAAACCAACA
59900321 A
1 A
59900322 GTAATTTTAG
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
62 1 0.02
63 62 0.98
ACGTcount: A:0.48, C:0.20, G:0.06, T:0.26
Consensus pattern (63 bp):
ATTAAACCAACAATTATACATACACCAACAATGTTTTTTAGGGACAATAACATTAAACCAACA
Found at i:59900263 original size:12 final size:12
Alignment explanation
Indices: 59900246--59900273 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
59900236 GGTAAATAAC
59900246 ATTAAACCAACA
1 ATTAAACCAACA
59900258 ATTAAACCAACA
1 ATTAAACCAACA
59900270 ATTA
1 ATTA
59900274 TACATACACC
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:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (12 bp):
ATTAAACCAACA
Found at i:59900319 original size:33 final size:33
Alignment explanation
Indices: 59900218--59900321 Score: 85
Period size: 33 Copynumber: 3.2 Consensus size: 33
59900208 TTATACATAC
59900218 ACCAACAATGTTTTTTAGGGTA-AATAACATTAA
1 ACCAACAATGTTTTTTAGGG-ACAATAACATTAA
** *** *
59900251 ACCAACAA----TTAAACCAACAATTATACA-TAC
1 ACCAACAATGTTTTTTAGGGACAA-TA-ACATTAA
59900281 ACCAACAATGTTTTTTAGGGACAATAACATTAA
1 ACCAACAATGTTTTTTAGGGACAATAACATTAA
59900314 ACCAACAA
1 ACCAACAA
59900322 GTAATTTTAG
Statistics
Matches: 51, Mismatches: 12, Indels: 16
0.65 0.15 0.20
Matches are distributed among these distances:
28 1 0.02
29 5 0.10
30 12 0.24
31 3 0.06
32 3 0.06
33 20 0.39
34 7 0.14
ACGTcount: A:0.47, C:0.19, G:0.08, T:0.26
Consensus pattern (33 bp):
ACCAACAATGTTTTTTAGGGACAATAACATTAA
Found at i:59900330 original size:33 final size:34
Alignment explanation
Indices: 59900267--59900377 Score: 115
Period size: 33 Copynumber: 3.4 Consensus size: 34
59900257 AATTAAACCA
* *
59900267 ACAATTATACATACACCAACAATGT-TTTTTAGGG
1 ACAATTATACATAAACCAACAA-GTAATTTTAGGG
59900301 ACAA-TA-ACATTAAACCAACAAGTAATTTTA-GG
1 ACAATTATACA-TAAACCAACAAGTAATTTTAGGG
* * *
59900333 TCAATTATACATACACCAACAATTAATTTTA-GG
1 ACAATTATACATAAACCAACAAGTAATTTTAGGG
*
59900366 TCAATTATACAT
1 ACAATTATACAT
59900378 GCTTTATAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
32 10 0.15
33 51 0.75
34 7 0.10
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (34 bp):
ACAATTATACATAAACCAACAAGTAATTTTAGGG
Found at i:59903599 original size:120 final size:120
Alignment explanation
Indices: 59903402--59904386 Score: 1794
Period size: 120 Copynumber: 8.2 Consensus size: 120
59903392 TTTTCAAGTT
59903402 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
59903467 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
59903522 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
59903587 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
59903642 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
59903707 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
59903762 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
59903827 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
59903882 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
59903947 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
59904002 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* * *
59904067 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
59904123 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
59904188 TAATATAAGAATATT-ATCCAATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
59904244 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
59904309 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
59904364 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
59904387 TAAATATGAT
Statistics
Matches: 853, Mismatches: 9, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
119 2 0.00
120 614 0.72
121 235 0.28
122 2 0.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
Found at i:59904001 original size:18 final size:17
Alignment explanation
Indices: 59903973--59904007 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59903963 ATTATTAAGA
*
59903973 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
59903990 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
59904008 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:59904243 original size:18 final size:17
Alignment explanation
Indices: 59904215--59904249 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59904205 CCAATTAAGA
*
59904215 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
59904232 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
59904250 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:59904363 original size:18 final size:17
Alignment explanation
Indices: 59904335--59904369 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59904325 ATTATTAAGA
*
59904335 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
59904352 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
59904370 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:59904583 original size:44 final size:45
Alignment explanation
Indices: 59904534--59904624 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
59904524 ACCTCTATTC
* * *
59904534 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
59904578 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
59904623 CA
1 CA
59904625 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:59904626 original size:16 final size:16
Alignment explanation
Indices: 59904605--59904673 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
59904595 GATTAGCTAT
59904605 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
59904621 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
59904638 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
59904654 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
59904670 TACA
1 TACA
59904674 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:59904647 original size:33 final size:32
Alignment explanation
Indices: 59904605--59904673 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
59904595 GATTAGCTAT
59904605 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
59904638 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
59904670 TACA
1 TACA
59904674 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:59904849 original size:50 final size:50
Alignment explanation
Indices: 59904788--59905135 Score: 617
Period size: 50 Copynumber: 7.0 Consensus size: 50
59904778 AAACCATTTG
* *
59904788 ATATATTTAAATATTAATTTAAATATAATTAATAAATAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
59904838 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
*
59904888 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATGAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
*
59904938 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATGAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
*
59904988 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATGAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
*
59905038 ATATATTTAAATATTAGTTTAAATAGAATTAATAATTAAGTTTAAATAAA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
*
59905088 ATATATTTAAATATTAATTTAAATAGAATTAATAAATATA-TTTAAATA
1 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATA-AGTTTAAATA
59905136 TTAGTTTAAA
Statistics
Matches: 290, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
50 289 1.00
51 1 0.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (50 bp):
ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAA
Found at i:59904868 original size:15 final size:14
Alignment explanation
Indices: 59904818--59905068 Score: 77
Period size: 15 Copynumber: 19.6 Consensus size: 14
59904808 AAATATAATT
*
59904818 AATAAATAAGTTTA
1 AATAAATTAGTTTA
59904832 AATAAAATATA-TTTA
1 AAT-AAAT-TAGTTTA
59904847 AAT--ATTAGTTTA
1 AATAAATTAGTTTA
*
59904859 AATAGA--A--TT-
1 AATAAATTAGTTTA
*
59904868 AATAAATAAGTTTA
1 AATAAATTAGTTTA
59904882 AATAAAATATA-TTTA
1 AAT-AAAT-TAGTTTA
59904897 AAT--ATTAGTTTA
1 AATAAATTAGTTTA
*
59904909 AATAGA--A--TT-
1 AATAAATTAGTTTA
*
59904918 AATAAATAAGTTTA
1 AATAAATTAGTTTA
59904932 AATGAAATATA-TTTA
1 AAT-AAAT-TAGTTTA
59904947 AAT--ATTAGTTTA
1 AATAAATTAGTTTA
*
59904959 AATAGA--A--TT-
1 AATAAATTAGTTTA
*
59904968 AATAAATAAGTTTA
1 AATAAATTAGTTTA
59904982 AATGAAATATA-TTTA
1 AAT-AAAT-TAGTTTA
59904997 AAT--ATTAGTTTA
1 AATAAATTAGTTTA
*
59905009 AATAGA--A--TT-
1 AATAAATTAGTTTA
*
59905018 AATAAATAAGTTTA
1 AATAAATTAGTTTA
59905032 AATGAAATATA-TTTA
1 AAT-AAAT-TAGTTTA
59905047 AAT--ATTAGTTTA
1 AATAAATTAGTTTA
59905059 AATAGAATTA
1 AATA-AATTA
59905069 ATAATTAAGT
Statistics
Matches: 182, Mismatches: 9, Indels: 91
0.65 0.03 0.32
Matches are distributed among these distances:
9 20 0.11
10 8 0.04
11 14 0.08
12 49 0.27
13 8 0.04
14 19 0.10
15 59 0.32
16 5 0.03
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (14 bp):
AATAAATTAGTTTA
Found at i:59905118 original size:15 final size:14
Alignment explanation
Indices: 59905071--59905120 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
59905061 TAGAATTAAT
59905071 AATTAAGTTTAAATA
1 AATTAA-TTTAAATA
*
59905086 AAATATATTTAAAT-
1 AATTA-ATTTAAATA
59905100 -ATTAATTTAAATA
1 AATTAATTTAAATA
59905113 GAATTAAT
1 -AATTAAT
59905121 AAATATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 8 0.28
13 3 0.10
15 17 0.59
16 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (14 bp):
AATTAATTTAAATA
Found at i:59909501 original size:43 final size:43
Alignment explanation
Indices: 59909423--59909537 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 43
59909413 TTTGTAATAT
*
59909423 AAGCGCCGCTAAAGGTCATGATTTTTAGCAACGTTTATG-GTAA
1 AAGCGCCGCTAAAGGTCATGATTTTTAGTAACGTTTATGTG-AA
* * *
59909466 AAGTGCCGCTAAAGGTCATGATTTTTAGTAGCGTTTGTGTGAA
1 AAGCGCCGCTAAAGGTCATGATTTTTAGTAACGTTTATGTGAA
* ** *
59909509 AAGCGCCTCTAAAGACCATGATCTTTAGT
1 AAGCGCCGCTAAAGGTCATGATTTTTAGT
59909538 GGCATTTGTG
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 61 0.98
44 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCATGATTTTTAGTAACGTTTATGTGAA
Found at i:59909546 original size:43 final size:43
Alignment explanation
Indices: 59909423--59909579 Score: 118
Period size: 43 Copynumber: 3.7 Consensus size: 43
59909413 TTTGTAATAT
* ** * * * * * *
59909423 AAGCGCCGCTAAAGGTCATGATTTTTAGCAACGTTTATGGTAA
1 AAGCGCCACTAAAGACCATGATCTTTAGTAGCATTTGTGGAAA
* * ** * *
59909466 AAGTGCCGCTAAAGGTCATGATTTTTAGTAGCGTTTGTGTG-AA
1 AAGCGCCACTAAAGACCATGATCTTTAGTAGCATTTGTG-GAAA
* *
59909509 AAGCGCCTCTAAAGACCATGATCTTTAGTGGCATTTGTGGAAA
1 AAGCGCCACTAAAGACCATGATCTTTAGTAGCATTTGTGGAAA
** *
59909552 AAGCATCACTAAATACCATGATCTTTAG
1 AAGCGCCACTAAAGACCATGATCTTTAG
59909580 CGGCGTTTTT
Statistics
Matches: 97, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
42 1 0.01
43 95 0.98
44 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (43 bp):
AAGCGCCACTAAAGACCATGATCTTTAGTAGCATTTGTGGAAA
Found at i:59909554 original size:86 final size:85
Alignment explanation
Indices: 59909362--59909554 Score: 194
Period size: 86 Copynumber: 2.3 Consensus size: 85
59909352 AAGTCATGTT
* * * *
59909362 TTTAGCGGCATTTGT-GAAAAAGTGTCGCTAAAAGTTATTTTTATAGTGGCGTTTGTAATATAAG
1 TTTAGCGGCATTTGTGGAAAAAGTGCCGCTAAAAGTCATTTTTATAGTAGCGTTTGTAATAAAAG
** *
59909426 CGCCGCTAAAGGTCATGATT
66 CGCCGCTAAAGACCATGATC
** * * * * *
59909446 TTTAGCAACGTTTATGGTAAAAGTGCCGCTAAAGGTCATGATTTT-TAGTAGCGTTTGT-GTGAA
1 TTTAGCGGCATTTGTGGAAAAAGTGCCGCTAAAAGTCAT--TTTTATAGTAGCGTTTGTAAT-AA
*
59909509 AAGCGCCTCTAAAGACCATGATC
63 AAGCGCCGCTAAAGACCATGATC
*
59909532 TTTAGTGGCATTTGTGGAAAAAG
1 TTTAGCGGCATTTGTGGAAAAAG
59909555 CATCACTAAA
Statistics
Matches: 84, Mismatches: 21, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
84 11 0.13
85 20 0.24
86 49 0.58
87 4 0.05
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (85 bp):
TTTAGCGGCATTTGTGGAAAAAGTGCCGCTAAAAGTCATTTTTATAGTAGCGTTTGTAATAAAAG
CGCCGCTAAAGACCATGATC
Found at i:59913087 original size:46 final size:46
Alignment explanation
Indices: 59912980--59913147 Score: 288
Period size: 46 Copynumber: 3.7 Consensus size: 46
59912970 TACGTATGAT
* *
59912980 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
59913023 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
59913069 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
59913115 CACTTATCACTTTGTCACTTGATCAGATAAGTG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTG
59913148 ATAAGTGATC
Statistics
Matches: 118, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
43 10 0.08
44 5 0.04
45 20 0.17
46 83 0.70
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:59914169 original size:49 final size:47
Alignment explanation
Indices: 59914066--59914182 Score: 128
Period size: 47 Copynumber: 2.4 Consensus size: 47
59914056 GATTTCCGTA
* * * *
59914066 TAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGCTACAGTG
1 TAAGACCATAGCTGGGCTATGACATCAGTATGATATGTGCTACAGTG
* *
59914113 TAAGACCATAGCTGGGCTATGACATCAGTATGTATTATGTGATTA-TGTG
1 TAAGACCATAGCTGGGCTATGACATCAGTATG-A-TATGTG-CTACAGTG
* *
59914162 TAAGACCATAGTTGGACTATG
1 TAAGACCATAGCTGGGCTATG
59914183 GCATTAAGAA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 28 0.47
48 1 0.02
49 28 0.47
50 2 0.03
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.32
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCTATGACATCAGTATGATATGTGCTACAGTG
Found at i:59918207 original size:46 final size:46
Alignment explanation
Indices: 59918151--59918301 Score: 293
Period size: 46 Copynumber: 3.3 Consensus size: 46
59918141 TCTGATCAGT
59918151 GACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAAGA
1 GACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAAGA
59918197 GACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAAGA
1 GACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAAGA
*
59918243 GACAAAGTGATAAGTGGTAGGTTTAGCTACACTTATCTGATTAAGA
1 GACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAAGA
59918289 GACAAAGTGATAA
1 GACAAAGTGATAA
59918302 ATCAAGTGAC
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 104 1.00
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (46 bp):
GACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAAGA
Found at i:59918349 original size:66 final size:66
Alignment explanation
Indices: 59918243--59918367 Score: 205
Period size: 66 Copynumber: 1.9 Consensus size: 66
59918233 CTGATTAAGA
* * *
59918243 GACAAAGTGATAAGTGGTAGGTTTAGCTACACTTATCTGATTAAGAGACAAAGTGATAAATCAAG
1 GACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAATCAAG
59918308 T
66 T
* *
59918309 GACAAATTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAA
1 GACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAA
59918368 GTGGTAGCTT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (66 bp):
GACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAATCAAG
T
Found at i:59918369 original size:46 final size:46
Alignment explanation
Indices: 59918302--59918505 Score: 333
Period size: 46 Copynumber: 4.5 Consensus size: 46
59918292 AAAGTGATAA
* *
59918302 ATCAAGTGACAAATTGATAAGTGATAGCTTTAGCTACACTTATCTG
1 ATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
*
59918348 ATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCAACACTTATCTG
1 ATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
*
59918394 ATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
1 ATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
*
59918440 ATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTG
1 ATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
*
59918485 ATC-AGGGAC-AAGTGATAAGTG
1 ATCAAGTGACAAAGTGATAAGTG
59918506 ATCATATGTA
Statistics
Matches: 150, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
43 12 0.08
44 5 0.03
45 19 0.13
46 114 0.76
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (46 bp):
ATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG
Found at i:59918394 original size:112 final size:112
Alignment explanation
Indices: 59918197--59918413 Score: 353
Period size: 112 Copynumber: 1.9 Consensus size: 112
59918187 CTGATTAAGA
* *
59918197 GACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAAGAGACAAAGTGATAAGTGGTA
1 GACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTA
* * * *
59918262 GGTTTAGCTACACTTATCTGATTAAGAGACAAAGTGATAAATCAAGT
66 GCTTTAGCAACACTTATCTGATCAAGAGAAAAAGTGATAAATCAAGT
* *
59918309 GACAAATTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTA
1 GACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTA
*
59918374 GCTTTAGCAACACTTATCTGATCAAGTGAAAAAGTGATAA
66 GCTTTAGCAACACTTATCTGATCAAGAGAAAAAGTGATAA
59918414 GTGGTAGCTT
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
112 96 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (112 bp):
GACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTA
GCTTTAGCAACACTTATCTGATCAAGAGAAAAAGTGATAAATCAAGT
Found at i:59918436 original size:158 final size:158
Alignment explanation
Indices: 59918148--59918459 Score: 525
Period size: 158 Copynumber: 2.0 Consensus size: 158
59918138 ACTTCTGATC
* *
59918148 AGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAAGAGACAAAGTGATAAGTG
1 AGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* * * *
59918213 GTAGCTTTAGCTACACTTATCTGATTAAGAGACAAAGTGATAAGTGGTAGGTTTAGCTACACTTA
66 GTAGCTTTAGCAACACTTATCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
59918278 TCTGATTAAGAGACAAAGTGATAAATCA
131 TCTGATCAAGAGACAAAGTGATAAATCA
* *
59918306 AGTGACAAATTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 AGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
59918371 GTAGCTTTAGCAACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
66 GTAGCTTTAGCAACACTTATCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
59918436 TCTGATCAAGTGACAAAGTGATAA
131 TCTGATCAAGAGACAAAGTGATAA
59918460 GTGGTAGCCT
Statistics
Matches: 143, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
158 143 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (158 bp):
AGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
GTAGCTTTAGCAACACTTATCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAATCA
Found at i:59922665 original size:21 final size:21
Alignment explanation
Indices: 59922581--59922748 Score: 101
Period size: 21 Copynumber: 8.0 Consensus size: 21
59922571 TATTTTCTTA
*
59922581 CAGTTTAGCTCTTATGAGCTT
1 CAGTTTAACTCTTATGAGCTT
*
59922602 CAG-TTAACT-TATATGAGTTT
1 CAGTTTAACTCT-TATGAGCTT
* * *
59922622 CAATTTAACTCTTCT-AGGTTT
1 CAGTTTAACTCTTATGA-GCTT
* *
59922643 CAGTTTAGCTCTTTTGAGCTT
1 CAGTTTAACTCTTATGAGCTT
* * *
59922664 CAGTTTAACCCTTATGGGTTT
1 CAGTTTAACTCTTATGAGCTT
* * *
59922685 CCGTTCAGCTCTTATGAGCTT
1 CAGTTTAACTCTTATGAGCTT
* * *
59922706 CCA-TTTAACCCTTATGGGTTT
1 -CAGTTTAACTCTTATGAGCTT
* * * *
59922727 CCGTTTAGCACTTATGTGCTT
1 CAGTTTAACTCTTATGAGCTT
59922748 C
1 C
59922749 TGTGCAGCCT
Statistics
Matches: 110, Mismatches: 30, Indels: 14
0.71 0.19 0.09
Matches are distributed among these distances:
19 1 0.01
20 17 0.15
21 89 0.81
22 3 0.03
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.43
Consensus pattern (21 bp):
CAGTTTAACTCTTATGAGCTT
Found at i:59922684 original size:42 final size:41
Alignment explanation
Indices: 59922613--59922748 Score: 164
Period size: 42 Copynumber: 3.2 Consensus size: 41
59922603 AGTTAACTTA
* * * * *
59922613 TATGAGTTTCAATTTAACTCTTCTAGGTTTCAGTTTAGCTCT
1 TATGAGCTTC-ATTTAACCCTTATGGGTTTCCGTTTAGCTCT
* *
59922655 TTTGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCT
1 TATGAGCTTCA-TTTAACCCTTATGGGTTTCCGTTTAGCTCT
*
59922697 TATGAGCTTCCATTTAACCCTTATGGGTTTCCGTTTAGCACT
1 TATGAGCTT-CATTTAACCCTTATGGGTTTCCGTTTAGCTCT
*
59922739 TATGTGCTTC
1 TATGAGCTTC
59922749 TGTGCAGCCT
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
41 2 0.02
42 77 0.95
43 2 0.02
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.44
Consensus pattern (41 bp):
TATGAGCTTCATTTAACCCTTATGGGTTTCCGTTTAGCTCT
Found at i:59930565 original size:11 final size:12
Alignment explanation
Indices: 59930537--59930565 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
59930527 AATATATATA
59930537 TGAGAGAAAACT
1 TGAGAGAAAACT
59930549 TGAGAGAAAAC-
1 TGAGAGAAAACT
59930560 TGAGAG
1 TGAGAG
59930566 CATATGGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.48, C:0.07, G:0.31, T:0.14
Consensus pattern (12 bp):
TGAGAGAAAACT
Found at i:59936685 original size:20 final size:21
Alignment explanation
Indices: 59936654--59936711 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
59936644 CTTTATATAT
*
59936654 TTTGAAATTTTTATAAA-TAA
1 TTTGAATTTTTTATAAATTAA
*
59936674 TTTGAATTTTTTGA-AAATTAT
1 TTTGAATTTTTT-ATAAATTAA
59936695 TTTGAATTATTTTATAA
1 TTTGAATT-TTTTATAA
59936712 TTTTTGTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 14 0.44
21 12 0.38
22 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (21 bp):
TTTGAATTTTTTATAAATTAA
Found at i:59936713 original size:21 final size:20
Alignment explanation
Indices: 59936651--59936713 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
59936641 TTTCTTTATA
* *
59936651 TATTTTGAAATTTTTATAAA
1 TATTTTGAATTTTTTATAAT
* *
59936671 TAATTTGAATTTTTTGAAAAT
1 TATTTTGAATTTTTT-ATAAT
59936692 TATTTTGAATTATTTTATAAT
1 TATTTTGAATT-TTTTATAAT
59936713 T
1 T
59936714 TTTGTTGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
20 13 0.37
21 18 0.51
22 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
TATTTTGAATTTTTTATAAT
Found at i:59941591 original size:82 final size:82
Alignment explanation
Indices: 59941489--59941647 Score: 266
Period size: 82 Copynumber: 1.9 Consensus size: 82
59941479 GTAGTTAAGC
* * *
59941489 TATCCTCTACTCTTAGGACTATGT-AGGTCACATAACTTGTCTTATTTGAAGTTGGTAATCTTTT
1 TATCCTCTACTCTTAGGACTATGTGA-GTCAAATAACTTGTCCTATTTGAAGTTGATAATCTTTT
59941553 CATCAAAATCAGTCATAA
65 CATCAAAATCAGTCATAA
*
59941571 TATCCTCTGCTCTTAGGACTATGTGAGTCAAATAACTTGTCCTATTTGAAGTTGATAATCTTTTC
1 TATCCTCTACTCTTAGGACTATGTGAGTCAAATAACTTGTCCTATTTGAAGTTGATAATCTTTTC
59941636 ATCAAAATCAGT
66 ATCAAAATCAGT
59941648 TGACAATGAA
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
82 71 0.99
83 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (82 bp):
TATCCTCTACTCTTAGGACTATGTGAGTCAAATAACTTGTCCTATTTGAAGTTGATAATCTTTTC
ATCAAAATCAGTCATAA
Found at i:59945080 original size:28 final size:28
Alignment explanation
Indices: 59945021--59945089 Score: 66
Period size: 28 Copynumber: 2.5 Consensus size: 28
59945011 TAAATTATAC
**
59945021 TTTTTAAATAATTTTAATAGTTTCTAGT
1 TTTTTAAATAATTTTAATAGTTTCTAAA
* * * *
59945049 TTTTTTAATAATTTTTATATTTTTTAAA
1 TTTTTAAATAATTTTAATAGTTTCTAAA
* *
59945077 TTTTAAAAAAATT
1 TTTTTAAATAATT
59945090 AATTGCTTAC
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (28 bp):
TTTTTAAATAATTTTAATAGTTTCTAAA
Found at i:59952032 original size:17 final size:16
Alignment explanation
Indices: 59951996--59952055 Score: 54
Period size: 17 Copynumber: 3.8 Consensus size: 16
59951986 ATTATTTTAA
*
59951996 TAATTTAATATTAAATT
1 TAATTTAATATT-TATT
59952013 TAATTTAATATTTATCT
1 TAATTTAATATTTAT-T
*
59952030 TAA--TAGTATTT-TAT
1 TAATTTAATATTTAT-T
59952044 TAATTTAATATT
1 TAATTTAATATT
59952056 AAAATGATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
14 5 0.14
15 7 0.19
16 8 0.22
17 16 0.44
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
TAATTTAATATTTATT
Found at i:59952057 original size:11 final size:11
Alignment explanation
Indices: 59951982--59952057 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
59951972 ATTCCAAAAA
*
59951982 TAATATTATTT
1 TAATATTAATT
59951993 TAATAATTTAATAT
1 TAAT-A-TTAAT-T
59952007 TAA-ATTTAATT
1 TAATA-TTAATT
*
59952018 TAATATTTATCT
1 TAATATTAAT-T
*
59952030 TAATAGT-ATT
1 TAATATTAATT
59952040 T--TATTAATT
1 TAATATTAATT
59952049 TAATATTAA
1 TAATATTAA
59952058 AATGATTATA
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 20 0.38
12 16 0.30
13 4 0.08
14 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:59952274 original size:26 final size:22
Alignment explanation
Indices: 59952245--59952292 Score: 60
Period size: 26 Copynumber: 2.0 Consensus size: 22
59952235 AGTTGTAGAG
59952245 AGAAAATTCTCTGAAGAGATTATTTT
1 AGAAAATT-TCT-AA-AGA-TATTTT
59952271 AGAAAATTTCTAAAGATATTTT
1 AGAAAATTTCTAAAGATATTTT
59952293 TCTGATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.27
23 3 0.14
24 2 0.09
25 3 0.14
26 8 0.36
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (22 bp):
AGAAAATTTCTAAAGATATTTT
Found at i:59956236 original size:21 final size:21
Alignment explanation
Indices: 59956212--59956280 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
59956202 AAAAAAAGGC
59956212 ATCAATATTTATAAAAACATG
1 ATCAATATTTATAAAAACATG
* **
59956233 ATCAATATATT-TTAAGTCATG
1 ATCAATAT-TTATAAAAACATG
* *
59956254 GT-AA-CTTTATAAAAACATG
1 ATCAATATTTATAAAAACATG
59956273 ATCAATAT
1 ATCAATAT
59956281 ATTTTAAGTC
Statistics
Matches: 34, Mismatches: 10, Indels: 8
0.65 0.19 0.15
Matches are distributed among these distances:
18 2 0.06
19 9 0.26
20 4 0.12
21 17 0.50
22 2 0.06
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.36
Consensus pattern (21 bp):
ATCAATATTTATAAAAACATG
Found at i:59956242 original size:23 final size:23
Alignment explanation
Indices: 59956216--59956284 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 23
59956206 AAAGGCATCA
59956216 ATATTTATAAAAACATGATCAAT
1 ATATTTATAAAAACATGATCAAT
** *
59956239 ATATTT-T-AAGTCATGGT--A-
1 ATATTTATAAAAACATGATCAAT
*
59956257 A-CTTTATAAAAACATGATCAAT
1 ATATTTATAAAAACATGATCAAT
59956279 ATATTT
1 ATATTT
59956285 TAAGTCATGG
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
17 3 0.09
18 2 0.06
19 8 0.25
21 8 0.25
22 2 0.06
23 9 0.28
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (23 bp):
ATATTTATAAAAACATGATCAAT
Found at i:59956263 original size:40 final size:40
Alignment explanation
Indices: 59956219--59956311 Score: 186
Period size: 40 Copynumber: 2.3 Consensus size: 40
59956209 GGCATCAATA
59956219 TTTATAAAAACATGATCAATATATTTTAAGTCATGGTAAC
1 TTTATAAAAACATGATCAATATATTTTAAGTCATGGTAAC
59956259 TTTATAAAAACATGATCAATATATTTTAAGTCATGGTAAC
1 TTTATAAAAACATGATCAATATATTTTAAGTCATGGTAAC
59956299 TTTATAAAAACAT
1 TTTATAAAAACAT
59956312 ATTATTAACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.38
Consensus pattern (40 bp):
TTTATAAAAACATGATCAATATATTTTAAGTCATGGTAAC
Found at i:59956293 original size:21 final size:21
Alignment explanation
Indices: 59956229--59956293 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
59956219 TTTATAAAAA
59956229 CATGATCAATATATTTTAAGT
1 CATGATCAATATATTTTAAGT
* * * **
59956250 CATGGT-AACT-T-TATAAAAA
1 CATGATCAA-TATATTTTAAGT
59956269 CATGATCAATATATTTTAAGT
1 CATGATCAATATATTTTAAGT
59956290 CATG
1 CATG
59956294 GTAACTTTAT
Statistics
Matches: 30, Mismatches: 10, Indels: 8
0.62 0.21 0.17
Matches are distributed among these distances:
19 10 0.33
20 6 0.20
21 14 0.47
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (21 bp):
CATGATCAATATATTTTAAGT
Found at i:59959561 original size:14 final size:14
Alignment explanation
Indices: 59959538--59959577 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
59959528 ACAGAAAAGT
*
59959538 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
59959552 AAACCATTTTACGG
1 AAAACATTTTACAG
59959566 AAAACATTTTAC
1 AAAACATTTTAC
59959578 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:59959569 original size:34 final size:35
Alignment explanation
Indices: 59959503--59959569 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
59959493 CAAACACCAG
* **
59959503 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAACCATTTTACAGAAAAGT
*
59959538 AAAACATTTTCCAG-AAACCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAACCATTTTACAGAAAA
59959570 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAACCATTTTACAGAAAAGT
Found at i:59962440 original size:37 final size:37
Alignment explanation
Indices: 59962399--59962474 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
59962389 AAAGATGATT
*
59962399 TTCACCTTTTGAATTATATAAATAAATTATTTTTGTC
1 TTCACCTTTTGAATTATATAAATAAACTATTTTTGTC
*
59962436 TTCACCTTTTGAATTATATAAATAAGCTATTTTTGTC
1 TTCACCTTTTGAATTATATAAATAAACTATTTTTGTC
59962473 TT
1 TT
59962475 TCATATATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.51
Consensus pattern (37 bp):
TTCACCTTTTGAATTATATAAATAAACTATTTTTGTC
Found at i:59982270 original size:73 final size:73
Alignment explanation
Indices: 59982139--59982275 Score: 184
Period size: 73 Copynumber: 1.9 Consensus size: 73
59982129 TCTCTGACTT
* * *
59982139 GGGTCACACGGTCAAGCCACACGCCCGTGTGCTAGGCCATGTAAGCATACTAACTTGCATTAATA
1 GGGTCACACGGCCAAGCCACACGCCCATGTGCTAGGCCATGTAAGCATACTAACTTGCACTAATA
59982204 AGATGCAG
66 AGATGCAG
* ** * * **
59982212 GGGTCACACGGCCAAGCCACATGCCCATGTGCTAGGCTGTGTGAGCATTCTATTTTGCACTAAT
1 GGGTCACACGGCCAAGCCACACGCCCATGTGCTAGGCCATGTAAGCATACTAACTTGCACTAAT
59982276 TAAAAGATAC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
73 54 1.00
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (73 bp):
GGGTCACACGGCCAAGCCACACGCCCATGTGCTAGGCCATGTAAGCATACTAACTTGCACTAATA
AGATGCAG
Found at i:59982915 original size:52 final size:52
Alignment explanation
Indices: 59982833--59982931 Score: 180
Period size: 52 Copynumber: 1.9 Consensus size: 52
59982823 TACAAAATAA
*
59982833 GGAAAATAAAACAGAGTAAACATTTCATGCTTAGTAAGTTCGTATAAAACAG
1 GGAAAATAAAACAGAGTAAACATTTAATGCTTAGTAAGTTCGTATAAAACAG
*
59982885 GGAAAATAAAACAGAGTAAGCATTTAATGCTTAGTAAGTTCGTATAA
1 GGAAAATAAAACAGAGTAAACATTTAATGCTTAGTAAGTTCGTATAA
59982932 CATGGAATCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.45, C:0.10, G:0.18, T:0.26
Consensus pattern (52 bp):
GGAAAATAAAACAGAGTAAACATTTAATGCTTAGTAAGTTCGTATAAAACAG
Found at i:59985586 original size:24 final size:24
Alignment explanation
Indices: 59985556--59985619 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
59985546 GAAGCCAAGT
* *
59985556 GTAGAGATGAAAATTAGTACTAGG
1 GTAGAGATGAAAATGAGTACGAGG
* *
59985580 GTGGAGATGAAGATGAGTACGAGG
1 GTAGAGATGAAAATGAGTACGAGG
* *
59985604 GTAGAGGTGAAGATGA
1 GTAGAGATGAAAATGA
59985620 AGAAGATGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.38, C:0.03, G:0.39, T:0.20
Consensus pattern (24 bp):
GTAGAGATGAAAATGAGTACGAGG
Found at i:59987773 original size:19 final size:18
Alignment explanation
Indices: 59987751--59987796 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
59987741 TGAGAGGTAG
*
59987751 TTTCTTTATTCTTTTTTTA
1 TTTCTTTATT-TTATTTTA
59987770 TTTCGTTTATTTTATTTTA
1 TTTC-TTTATTTTATTTTA
*
59987789 TTTTTTTA
1 TTTCTTTA
59987797 AAGAAGGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.17
19 14 0.58
20 6 0.25
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTCTTTATTTTATTTTA
Found at i:59989241 original size:131 final size:131
Alignment explanation
Indices: 59989007--59989278 Score: 472
Period size: 131 Copynumber: 2.1 Consensus size: 131
59988997 GAAAATCTTG
* *
59989007 AAAATAAAGGCAATATTCCATATTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTGGGTTTCGA
1 AAAATAAAGGAAATATTCCACATTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTGGGTTTCGA
*
59989072 TTTTTCTCGCGTTGAACCTAAATAACCAAATATCCTTTTAAAACTAAAATAAATGTGTTTTAAAT
66 TTTTTCTCGCGTTGAACCTAAATAACCAAATATCCTTTTAAAACTAAAATAAATATGTTTTAAAT
59989137 A
131 A
* *
59989138 AAAATAAAGGAAATATTCCGCATTTGGAAATTCGAGAAGTTGTGCCCTAACTTACTGGGTTTCGA
1 AAAATAAAGGAAATATTCCACATTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTGGGTTTCGA
**
59989203 TTTTTCTCGCGTTGAACCTAAATAACTGAATATCCTTTTAAAACTAAAATAAATATGTTTTAAAT
66 TTTTTCTCGCGTTGAACCTAAATAACCAAATATCCTTTTAAAACTAAAATAAATATGTTTTAAAT
59989268 A
131 A
*
59989269 AAAACAAAGG
1 AAAATAAAGG
59989279 CGAGCTTATT
Statistics
Matches: 133, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
131 133 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (131 bp):
AAAATAAAGGAAATATTCCACATTTAGAAATTCGAGAAGTTGTGCCCTAACTTACTGGGTTTCGA
TTTTTCTCGCGTTGAACCTAAATAACCAAATATCCTTTTAAAACTAAAATAAATATGTTTTAAAT
A
Found at i:59992446 original size:27 final size:27
Alignment explanation
Indices: 59992416--59992469 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
59992406 TCGGGTTTCC
59992416 ACGCTTCAACCATTTTCTTCAAAATCT
1 ACGCTTCAACCATTTTCTTCAAAATCT
59992443 ACGCTTCAACCATTTTCTTCAAAATCT
1 ACGCTTCAACCATTTTCTTCAAAATCT
59992470 TATTATTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.30, G:0.04, T:0.37
Consensus pattern (27 bp):
ACGCTTCAACCATTTTCTTCAAAATCT
Found at i:59992754 original size:8 final size:8
Alignment explanation
Indices: 59992741--59992771 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
59992731 AGAAAATGGA
59992741 GATGTTGC
1 GATGTTGC
59992749 GATGTTGC
1 GATGTTGC
59992757 GATGTTGC
1 GATGTTGC
59992765 GAT-TTGC
1 GATGTTGC
59992772 ACATCAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.17
8 19 0.83
ACGTcount: A:0.13, C:0.13, G:0.35, T:0.39
Consensus pattern (8 bp):
GATGTTGC
Found at i:59997515 original size:31 final size:31
Alignment explanation
Indices: 59997502--59997628 Score: 76
Period size: 31 Copynumber: 3.7 Consensus size: 31
59997492 ATTTATTTTA
59997502 AAAATTAAAAAAATTAAAAAAAAGTATTTTAA
1 AAAATTAAAAAAATTAAAAAAAAGTATTTT-A
59997534 AAATATTTTAAAATTAAAAAAATTTAAAAAAAAGTATTTTA
1 AAA-A---T-----TAAAAAAA-TTAAAAAAAAGTATTTTA
***
59997575 AAAATATTTTAAAATT-AAAAAAAGTATTTTA
1 AAAAT-TAAAAAAATTAAAAAAAAGTATTTTA
***
59997606 AAAATATTTTAAAATTAAAAAAA
1 AAAAT-TAAAAAAATTAAAAAAA
59997629 TTAAAAAAAT
Statistics
Matches: 80, Mismatches: 4, Indels: 22
0.75 0.04 0.21
Matches are distributed among these distances:
31 31 0.39
32 11 0.14
33 6 0.08
36 1 0.01
37 1 0.01
40 1 0.01
41 12 0.15
42 17 0.21
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (31 bp):
AAAATTAAAAAAATTAAAAAAAAGTATTTTA
Found at i:59997535 original size:11 final size:11
Alignment explanation
Indices: 59997520--59997619 Score: 63
Period size: 11 Copynumber: 9.4 Consensus size: 11
59997510 AAAAATTAAA
59997520 AAAAAGTATTTT
1 AAAAA-TATTTT
59997532 AAAAATATTTT
1 AAAAATATTTT
59997543 --AAA-A--TT
1 AAAAATATTTT
* *
59997549 AAAAAAATTTAAA
1 AAAAATATTT--T
59997562 AAAAAGTATTTT
1 AAAAA-TATTTT
59997574 AAAAATATTTT
1 AAAAATATTTT
**
59997585 --AAA-ATTAA
1 AAAAATATTTT
59997593 AAAAAGTATTTT
1 AAAAA-TATTTT
59997605 AAAAATATTTT
1 AAAAATATTTT
59997616 AAAA
1 AAAA
59997620 TTAAAAAAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 25
0.68 0.07 0.25
Matches are distributed among these distances:
6 2 0.03
8 7 0.10
9 7 0.10
10 3 0.04
11 23 0.33
12 18 0.26
13 5 0.07
14 4 0.06
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:59997554 original size:42 final size:42
Alignment explanation
Indices: 59997495--59997597 Score: 181
Period size: 42 Copynumber: 2.5 Consensus size: 42
59997485 ACCAAAAATT
59997495 TATTTTAAAAATT-AAAAAAATTAAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAA
*
59997537 TATTTTAAAATTAAAAAAATTTAAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAA
59997579 TATTTTAAAATTAAAAAAA
1 TATTTTAAAATTAAAAAAA
59997598 GTATTTTAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
41 6 0.10
42 53 0.90
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (42 bp):
TATTTTAAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAA
Found at i:59997574 original size:73 final size:72
Alignment explanation
Indices: 59997495--59997637 Score: 234
Period size: 73 Copynumber: 2.0 Consensus size: 72
59997485 ACCAAAAATT
59997495 TATTTTAAAAAT-TAAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTT
1 TATTTTAAAAATATAAAAAAATT-AAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAA-TT
59997559 AAAAAAAAG
64 AAAAAAAAG
***
59997568 TATTTTAAAAATATTTTAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTAA
1 TATTTTAAAAATATAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTAA
59997633 AAAAA
66 AAAAA
59997638 TAAATATATT
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
72 9 0.14
73 50 0.76
74 7 0.11
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (72 bp):
TATTTTAAAAATATAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTAA
AAAAAAG
Found at i:59997614 original size:42 final size:41
Alignment explanation
Indices: 59997495--59997619 Score: 180
Period size: 42 Copynumber: 3.0 Consensus size: 41
59997485 ACCAAAAATT
*
59997495 TATTTTAAAAATTAAAAAAATTAAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAA
59997537 TATTTTAAAATTAAAAAAATTTAAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTT-AAAAAAAGTATTTTAAAAA
**
59997579 TATTTTAAAATTAAAAAAAGTATTTTAAAAA-TATTTTAAAA
1 TATTTTAAAATTAAAAAAA-T-TTAAAAAAAGTATTTTAAAA
59997620 TTAAAAAAAT
Statistics
Matches: 77, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
41 15 0.19
42 54 0.70
43 6 0.08
44 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (41 bp):
TATTTTAAAATTAAAAAAATTTAAAAAAAGTATTTTAAAAA
Found at i:60005051 original size:28 final size:28
Alignment explanation
Indices: 60004978--60005051 Score: 76
Period size: 34 Copynumber: 2.4 Consensus size: 28
60004968 CGAATATAAT
60004978 AAATATTTTTTTTTATTTTTTAATTTTA
1 AAATATTTTTTTTTATTTTTTAATTTTA
*
60005006 AAATACTTTTAAAATTTTTTATTTTTTATTTTTA
1 AAATA--TTT----TTTTTTATTTTTTAATTTTA
*
60005040 AAATAATTTTTT
1 AAATATTTTTTT
60005052 AATGTTTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
28 9 0.24
30 3 0.08
32 2 0.05
34 24 0.63
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (28 bp):
AAATATTTTTTTTTATTTTTTAATTTTA
Found at i:60019166 original size:6 final size:6
Alignment explanation
Indices: 60019155--60019188 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
60019145 TTCAATTTTG
60019155 AATTGA AATTGA AATTGA AATTGA AATTGA AATT
1 AATTGA AATTGA AATTGA AATTGA AATTGA AATT
60019189 TTTGTTGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (6 bp):
AATTGA
Found at i:60024202 original size:20 final size:23
Alignment explanation
Indices: 60024179--60024219 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
60024169 TTGATGTGTA
60024179 TGATT-TT-TATTATT-TTATGC
1 TGATTCTTATATTATTATTATGC
60024199 TGATTCTTATATTATTATTAT
1 TGATTCTTATATTATTATTAT
60024220 ATGATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 7 0.39
23 4 0.22
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.63
Consensus pattern (23 bp):
TGATTCTTATATTATTATTATGC
Found at i:60024856 original size:17 final size:19
Alignment explanation
Indices: 60024836--60024880 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
60024826 TTAAAATAGT
60024836 AACAAAATTA-AAAATAA-
1 AACAAAATTATAAAATAAC
*
60024853 AACAAAAGTTATACAATAAC
1 AACAAAA-TTATAAAATAAC
60024873 AACAAAAT
1 AACAAAAT
60024881 AGTAGCAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.29
18 3 0.12
19 7 0.29
20 7 0.29
ACGTcount: A:0.69, C:0.11, G:0.02, T:0.18
Consensus pattern (19 bp):
AACAAAATTATAAAATAAC
Found at i:60037004 original size:9 final size:9
Alignment explanation
Indices: 60036986--60037059 Score: 51
Period size: 9 Copynumber: 8.2 Consensus size: 9
60036976 GAAAATGGGA
*
60036986 CCAGGTGGG
1 CCAGGAGGG
60036995 CCAGGAGGG
1 CCAGGAGGG
*
60037004 CCACCG-GGG
1 CCA-GGAGGG
* *
60037013 CCAGGTGGA
1 CCAGGAGGG
*
60037022 CCAGGGGGG
1 CCAGGAGGG
***
60037031 CCTCCAGGG
1 CCAGGAGGG
*
60037040 CCAGGAGGA
1 CCAGGAGGG
60037049 CCAGGAGGG
1 CCAGGAGGG
60037058 CC
1 CC
60037060 TCCAGGATGG
Statistics
Matches: 48, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
8 1 0.02
9 46 0.96
10 1 0.02
ACGTcount: A:0.18, C:0.30, G:0.49, T:0.04
Consensus pattern (9 bp):
CCAGGAGGG
Found at i:60037016 original size:27 final size:27
Alignment explanation
Indices: 60036986--60037065 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 27
60036976 GAAAATGGGA
* *
60036986 CCAGGTGGGCCAGGAGGGCCACCGGGG
1 CCAGGTGGACCAGGAGGGCCACCAGGG
* *
60037013 CCAGGTGGACCAGGGGGGCCTCCAGGG
1 CCAGGTGGACCAGGAGGGCCACCAGGG
* *
60037040 CCAGGAGGACCAGGAGGGCCTCCAGG
1 CCAGGTGGACCAGGAGGGCCACCAGG
60037066 ATGGGGCGGT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.17, C:0.30, G:0.47, T:0.05
Consensus pattern (27 bp):
CCAGGTGGACCAGGAGGGCCACCAGGG
Found at i:60037210 original size:39 final size:39
Alignment explanation
Indices: 60037046--60037197 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
60037036 AGGGCCAGGA
* * * *
60037046 GGACCAGGAGGGCCTCCAGGATGGGGCGGTCCTGCACCC
1 GGACCAGGAGGGCCACCGGGGTGGGGCGGTCCTCCACCC
*
60037085 GGACCAGGAGGGCCACCGGGATGGGGCGGTCCTCCACCC
1 GGACCAGGAGGGCCACCGGGGTGGGGCGGTCCTCCACCC
60037124 GGACCAGGAGGGCCACCGGGGTGGGGCGGTCCTCCACCC
1 GGACCAGGAGGGCCACCGGGGTGGGGCGGTCCTCCACCC
*
60037163 GGACCAGG-GGGACCACCGGGGTGGGGCGGCCCTCC
1 GGACCAGGAGGG-CCACCGGGGTGGGGCGGTCCTCC
60037198 GGTCGGACCA
Statistics
Matches: 107, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 3 0.03
39 104 0.97
ACGTcount: A:0.14, C:0.35, G:0.43, T:0.08
Consensus pattern (39 bp):
GGACCAGGAGGGCCACCGGGGTGGGGCGGTCCTCCACCC
Found at i:60046509 original size:22 final size:22
Alignment explanation
Indices: 60046484--60046526 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
60046474 TTAATTAATC
60046484 TTTAT-ATTGTATATATTATTTT
1 TTTATAATTGTA-ATATTATTTT
*
60046506 TTTATAATTTTAATATTATTT
1 TTTATAATTGTAATATTATTT
60046527 GAACAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTATAATTGTAATATTATTTT
Found at i:60048533 original size:23 final size:23
Alignment explanation
Indices: 60048501--60048549 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
60048491 AGTGAGTGAC
*
60048501 GTCGCGACGTATATATACATGTT
1 GTCGCAACGTATATATACATGTT
*
60048524 GTCGCAACGTATGTATACATGTT
1 GTCGCAACGTATATATACATGTT
60048547 GTC
1 GTC
60048550 ACGACGTGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (23 bp):
GTCGCAACGTATATATACATGTT
Found at i:60048556 original size:23 final size:23
Alignment explanation
Indices: 60048505--60048556 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
60048495 AGTGACGTCG
*
60048505 CGACGTATATATACATGTTGTCG
1 CGACGTATATATACATGTTGTCA
* *
60048528 CAACGTATGTATACATGTTGTCA
1 CGACGTATATATACATGTTGTCA
60048551 CGACGT
1 CGACGT
60048557 GAGTCACTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (23 bp):
CGACGTATATATACATGTTGTCA
Found at i:60051308 original size:19 final size:19
Alignment explanation
Indices: 60051275--60051314 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
60051265 TGTAAATGGT
*
60051275 CTTATCATATTAGTGTATG
1 CTTATCATATGAGTGTATG
* *
60051294 CTTATCATGTGAGTGTGTG
1 CTTATCATATGAGTGTATG
60051313 CT
1 CT
60051315 AGTTGTGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.20, C:0.12, G:0.23, T:0.45
Consensus pattern (19 bp):
CTTATCATATGAGTGTATG
Found at i:60058129 original size:4 final size:4
Alignment explanation
Indices: 60058115--60058157 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
60058105 GTAGGGACGA
* * *
60058115 ATAC GTAC ATAC ATAC ATAC ATAC ATTC ATAC ATAT ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
60058158 TACATATATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (4 bp):
ATAC
Found at i:60068767 original size:6 final size:6
Alignment explanation
Indices: 60068734--60068758 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
60068724 GGTTTAATAT
60068734 ATATAG ATATAG ATATAG ATATAG A
1 ATATAG ATATAG ATATAG ATATAG A
60068759 GATATAGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (6 bp):
ATATAG
Found at i:60073832 original size:11 final size:11
Alignment explanation
Indices: 60073818--60073854 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
60073808 AATTAAAAAA
60073818 AAAAGTATTTT
1 AAAAGTATTTT
60073829 AAAAGTATTTT
1 AAAAGTATTTT
*
60073840 AAAAATATTTT
1 AAAAGTATTTT
60073851 AAAA
1 AAAA
60073855 TTTAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:60073870 original size:27 final size:26
Alignment explanation
Indices: 60073840--60073902 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
60073830 AAAGTATTTT
*
60073840 AAAAATATTTTAAAATTTAAAAATAAA
1 AAAAATATTTTAAAA-ATAAAAATAAA
**
60073867 AAAAATATTTTAAAAATAAAAATATT
1 AAAAATATTTTAAAAATAAAAATAAA
60073893 AAAAATATTT
1 AAAAATATTT
60073903 ATTATATCGG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 18 0.55
27 15 0.45
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
AAAAATATTTTAAAAATAAAAATAAA
Found at i:60074473 original size:26 final size:25
Alignment explanation
Indices: 60074444--60074506 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
60074434 AGTTTTGGAT
* *
60074444 ATTAAAAATATTTTAAATTTTAATTA
1 ATTAAAAATATTTAAAATGTTAA-TA
*
60074470 ATTATAAAACA-TTAAAATGTTAATA
1 ATTA-AAAATATTTAAAATGTTAATA
*
60074495 TTTAAAAATATT
1 ATTAAAAATATT
60074507 AAATATTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
24 5 0.17
25 6 0.20
26 14 0.47
27 5 0.17
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
ATTAAAAATATTTAAAATGTTAATA
Found at i:60082897 original size:3 final size:3
Alignment explanation
Indices: 60082889--60082921 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
60082879 CATCTACTTC
60082889 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
60082922 ACTCCCTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:60104286 original size:31 final size:29
Alignment explanation
Indices: 60104251--60104327 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
60104241 TTAATAGCTC
*
60104251 AGTGACTAAAATGTTACAACACGATAACATA
1 AGTGACTAAAATGTAACAACAC-A-AACATA
* ***
60104282 AGTGACAAAAATGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAACACAAACATA
60104311 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
60104328 CTAAGGTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 1 0.03
31 17 0.43
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.23
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACACAAACATA
Found at i:60108980 original size:23 final size:21
Alignment explanation
Indices: 60108889--60108996 Score: 137
Period size: 21 Copynumber: 5.1 Consensus size: 21
60108879 CCTGATCAGT
* *
60108889 ATACGGCACAT-AAGTGCTTG
1 ATACGACACATAAAGTGCCTG
* **
60108909 AAACGACACACGAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
60108930 ATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
*
60108951 ATACGACACATAAAGTGCTTGAG
1 ATACGACACATAAAGTGCCT--G
60108974 ATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
60108995 AT
1 AT
60108997 CGGCAAAGCC
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
20 8 0.11
21 48 0.63
23 20 0.26
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.19
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:60110139 original size:5 final size:5
Alignment explanation
Indices: 60110119--60110151 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
60110109 TTAATTTATT
60110119 TAATA T-ATA TTAATA TAATA TAATA TAATA TAA
1 TAATA TAATA -TAATA TAATA TAATA TAATA TAA
60110152 ATCATAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 3 0.12
5 20 0.77
6 3 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAATA
Found at i:60112383 original size:18 final size:18
Alignment explanation
Indices: 60112360--60112395 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
60112350 CAATTAAACC
60112360 ATTTGATTGATATATTTA
1 ATTTGATTGATATATTTA
* *
60112378 ATTTGATTTATTTATTTA
1 ATTTGATTGATATATTTA
60112396 TAAATAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (18 bp):
ATTTGATTGATATATTTA
Found at i:60112452 original size:16 final size:16
Alignment explanation
Indices: 60112419--60112474 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 16
60112409 GCAATATATG
*
60112419 TATAAACAATTTA-AAA
1 TATAAA-AATTTATTAA
60112435 TATAAAAATTTATTAA
1 TATAAAAATTTATTAA
60112451 TATGTATATAAATTTATTAA
1 TA--TA-A-AAATTTATTAA
60112471 TATA
1 TATA
60112475 TGTAAAAACA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 6 0.18
16 10 0.29
18 4 0.12
19 1 0.03
20 13 0.38
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (16 bp):
TATAAAAATTTATTAA
Found at i:60112478 original size:22 final size:20
Alignment explanation
Indices: 60112435--60112473 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
60112425 CAATTTAAAA
60112435 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
60112455 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
60112474 ATGTAAAAAC
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:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:60112609 original size:20 final size:20
Alignment explanation
Indices: 60112569--60112608 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
60112559 AAATATTTTC
60112569 AGTAAATCATTTTTCAGAAA
1 AGTAAATCATTTTTCAGAAA
60112589 AGTAAATCA-TTTTCAGAAA
1 AGTAAATCATTTTTCAGAAA
60112608 A
1 A
60112609 ACATTTTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (20 bp):
AGTAAATCATTTTTCAGAAA
Found at i:60112735 original size:20 final size:20
Alignment explanation
Indices: 60112710--60112748 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
60112700 TTTTACATAA
60112710 TATAA-TAATATAATATATTT
1 TATAATTAA-ATAATATATTT
60112730 TATAATTAAATAATATATT
1 TATAATTAAATAATATATT
60112749 AATATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TATAATTAAATAATATATTT
Found at i:60112767 original size:28 final size:29
Alignment explanation
Indices: 60112704--60112767 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 29
60112694 GGTTTATTTT
*
60112704 ACATAATATAATAATATAATATATTTTATA
1 ACATAA-ATAATAATATAATATATTTTAAA
*
60112734 A-TTAAATAAT-ATATTAATATA-TTTAAA
1 ACATAAATAATAATA-TAATATATTTTAAA
60112761 ACATAAA
1 ACATAAA
60112768 AATCTAAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
27 9 0.31
28 16 0.55
29 3 0.10
30 1 0.03
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (29 bp):
ACATAAATAATAATATAATATATTTTAAA
Found at i:60117578 original size:28 final size:29
Alignment explanation
Indices: 60117546--60117602 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
60117536 CTGTCCTCAA
*
60117546 ATTTATTATTT-TAGATTTTTTA-AATTTT
1 ATTTATT-TTTATAGATTCTTTAGAATTTT
*
60117574 ATTTATTTTTATATATTCTTTAGAATTTT
1 ATTTATTTTTATAGATTCTTTAGAATTTT
60117603 TTAGATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 3 0.12
28 16 0.64
29 6 0.24
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (29 bp):
ATTTATTTTTATAGATTCTTTAGAATTTT
Found at i:60117627 original size:38 final size:37
Alignment explanation
Indices: 60117555--60117628 Score: 87
Period size: 38 Copynumber: 2.0 Consensus size: 37
60117545 AATTTATTAT
* * *
60117555 TTTAGATTTTTTAAATTTTATTTATTTTTATATATTC
1 TTTAGATTTTTTAAATTTTATTGAATATTATATATTC
*
60117592 TTTAGAATTTTTTAGATTTTTATTGAATATT-TATATT
1 TTTAG-ATTTTTTA-AATTTTATTGAATATTATATATT
60117629 TATTAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
37 5 0.16
38 14 0.45
39 12 0.39
ACGTcount: A:0.28, C:0.01, G:0.05, T:0.65
Consensus pattern (37 bp):
TTTAGATTTTTTAAATTTTATTGAATATTATATATTC
Found at i:60146147 original size:31 final size:31
Alignment explanation
Indices: 60146099--60146181 Score: 75
Period size: 30 Copynumber: 2.7 Consensus size: 31
60146089 TACCTAAAAT
* *
60146099 TTTTTTCCAA-TTCGGTACTTAAACTTGA-CAA
1 TTTTTTCTAAGTT-GGTACTTAAA-TTCAGCAA
*
60146130 TTTTTAT-TAAGTTGGTAC-TAAATTCAGCAC
1 TTTTT-TCTAAGTTGGTACTTAAATTCAGCAA
*
60146160 TTTTTTCTAATTTGGTACTTAA
1 TTTTTTCTAAGTTGGTACTTAA
60146182 GCTTTTTTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
29 4 0.09
30 21 0.49
31 15 0.35
32 3 0.07
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47
Consensus pattern (31 bp):
TTTTTTCTAAGTTGGTACTTAAATTCAGCAA
Found at i:60152755 original size:16 final size:16
Alignment explanation
Indices: 60152712--60152764 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
60152702 TTGGTTCGCT
* *
60152712 GTAATGGAATAAAGGT
1 GTAATGGAATAGAGGC
* *
60152728 GTAATAGAATAGATGC
1 GTAATGGAATAGAGGC
60152744 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
60152760 ATAAT
1 GTAAT
60152765 AGATAATTCT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.43, C:0.04, G:0.28, T:0.25
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:60152828 original size:44 final size:46
Alignment explanation
Indices: 60152746--60152838 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 46
60152736 ATAGATGCGT
* *
60152746 AATGGAATAGAGGCATAATAGATAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCATAATAGATAATTCTTGTGTTTGGTTAAATGG
*
60152792 AATGGAATAGAGGCGTAAT-GAT-ATTCTTGTGTTTGGTTAAATGG
1 AATGGAATAGAGGCATAATAGATAATTCTTGTGTTTGGTTAAATGG
60152836 AAT
1 AAT
60152839 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 23 0.52
45 3 0.07
46 18 0.41
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAGGCATAATAGATAATTCTTGTGTTTGGTTAAATGG
Found at i:60152836 original size:39 final size:43
Alignment explanation
Indices: 60152746--60152856 Score: 131
Period size: 39 Copynumber: 2.6 Consensus size: 43
60152736 ATAGATGCGT
* *
60152746 AATGGAATAGAGGCATAATAGATAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTT-AA--G
60152792 AATGGAATAGAGGCGTAAT-GAT-ATTCTTGTGTTTGGTT-A-
1 AATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTTAAG
*
60152831 AATGGAATAGAGGTGTAATAGTATAA
1 AATGGAATAGAGGCGTAATAG-ATAA
60152857 GGAAAAAAAC
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
39 18 0.31
40 1 0.02
41 2 0.03
42 2 0.03
44 15 0.25
45 3 0.05
46 18 0.31
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (43 bp):
AATGGAATAGAGGCGTAATAGATAATTCTTGTGTTTGGTTAAG
Found at i:60153049 original size:18 final size:19
Alignment explanation
Indices: 60153000--60153049 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
60152990 TTATTAAATA
60153000 TAATTTAATAAAA-ATATG
1 TAATTTAATAAAATATATG
*
60153018 TAATTTAATAAAATATTTG
1 TAATTTAATAAAATATATG
*
60153037 -AATTTACTAAAAT
1 TAATTTAATAAAAT
60153050 CATAATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 25 0.86
19 4 0.14
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (19 bp):
TAATTTAATAAAATATATG
Found at i:60153190 original size:61 final size:59
Alignment explanation
Indices: 60153034--60153213 Score: 188
Period size: 59 Copynumber: 3.0 Consensus size: 59
60153024 AATAAAATAT
60153034 TTGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTA
1 TTGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTA
* * * ** * * * * * *
60153093 TTAAATATAATTTAATAAAAATATATAAT-TTGATAAAATTCTTAGTATT-AAAT-ATTCTTA
1 TTGAATTTACTAAAATCATAATATATAATACT-ATAAAA-T-ATAAT-TTAAAATAATTATTA
60153153 TATGAATTTACTAAAATCATAATATATAATACTAT-AAATATAATTTAAAATAATTATTA
1 T-TGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTA
60153212 TT
1 TT
60153214 AAATATAATT
Statistics
Matches: 91, Mismatches: 22, Indels: 17
0.70 0.17 0.13
Matches are distributed among these distances:
57 2 0.02
58 9 0.10
59 36 0.40
60 11 0.12
61 30 0.33
62 3 0.03
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (59 bp):
TTGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTA
Found at i:60153204 original size:21 final size:21
Alignment explanation
Indices: 60153161--60153204 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
60153151 TATATGAATT
*
60153161 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATAAAA
*
60153182 TACTATAAAT-ATAATTTAAAA
1 TACTA-AAATCATAATATAAAA
60153203 TA
1 TA
60153205 ATTATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (21 bp):
TACTAAAATCATAATATAAAA
Found at i:60153205 original size:16 final size:17
Alignment explanation
Indices: 60153185--60153232 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
60153175 TATATAATAC
*
60153185 TATAAATATAATTTAAA
1 TATAATTATAATTTAAA
*
60153202 -ATAATTATTA-TTAAA
1 TATAATTATAATTTAAA
60153217 TATAATTTATAATTTA
1 TATAA-TTATAATTTA
60153233 CTTTATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 5 0.20
16 12 0.48
17 5 0.20
18 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TATAATTATAATTTAAA
Found at i:60153318 original size:31 final size:31
Alignment explanation
Indices: 60153280--60153343 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
60153270 GCTAAAATAT
60153280 CATTAGTGGAACAAATAATTTAATTATTCTA
1 CATTAGTGGAACAAATAATTTAATTATTCTA
60153311 CATTAGTGGAACAAATAATTTAATTATTCTA
1 CATTAGTGGAACAAATAATTTAATTATTCTA
60153342 CA
1 CA
60153344 ATAAAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (31 bp):
CATTAGTGGAACAAATAATTTAATTATTCTA
Found at i:60160897 original size:22 final size:20
Alignment explanation
Indices: 60160857--60160905 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
60160847 CAATTTAAAA
60160857 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
* *
60160877 TATATAAATTTATTAATATA
1 TATAAAAATTTATTAATATG
*
60160897 TGTAAAAAT
1 TATAAAAAT
60160906 AACGTTTTCG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Done.