Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 21 of 54
Found at i:9224745 original size:23 final size:23
Alignment explanation
Indices: 9224696--9224745 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
9224686 TACACTTCAT
* * * *
9224696 GGCTTCAAGATGTTACACATCAT
1 GGCTCCAAGATGTTACAAACCAA
9224719 GGCTCCAAGATGTTACAAACCAA
1 GGCTCCAAGATGTTACAAACCAA
9224742 GGCT
1 GGCT
9224746 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (23 bp):
GGCTCCAAGATGTTACAAACCAA
Found at i:9250399 original size:21 final size:22
Alignment explanation
Indices: 9250369--9250412 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
9250359 TCTAAACAAT
**
9250369 TAAACTTAAAATTTAAAACTAA
1 TAAACTTAAAAACTAAAACTAA
9250391 TAAAC-TAAAAACTAAAACTAA
1 TAAACTTAAAAACTAAAACTAA
9250412 T
1 T
9250413 CTAAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAACTTAAAAACTAAAACTAA
Found at i:9258860 original size:2 final size:2
Alignment explanation
Indices: 9258853--9258883 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9258843 TTTGAATGGN
9258853 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9258884 GTATGCTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9274827 original size:20 final size:20
Alignment explanation
Indices: 9274798--9274838 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
9274788 ATGTAATACT
*
9274798 ATTCACAATTCTTAGCATCA
1 ATTCACAATTCTTAACATCA
*
9274818 ATTCATAATTCTTAACATCA
1 ATTCACAATTCTTAACATCA
9274838 A
1 A
9274839 ATATGGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (20 bp):
ATTCACAATTCTTAACATCA
Found at i:9274939 original size:18 final size:18
Alignment explanation
Indices: 9274913--9274947 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9274903 AATTGGGTAG
9274913 TTTAGTTAAATGAATCAC
1 TTTAGTTAAATGAATCAC
* *
9274931 TTTATTTAAATTAATCA
1 TTTAGTTAAATGAATCA
9274948 TAGGATTAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.46
Consensus pattern (18 bp):
TTTAGTTAAATGAATCAC
Found at i:9290083 original size:3 final size:3
Alignment explanation
Indices: 9290075--9290102 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9290065 CCTCGGTATA
9290075 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9290103 GTTTTCATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9291605 original size:31 final size:31
Alignment explanation
Indices: 9291567--9291640 Score: 148
Period size: 31 Copynumber: 2.4 Consensus size: 31
9291557 CCTCCCTGTT
9291567 TGCTGCCAATGGTAGCGTCTCAGGGCTTACG
1 TGCTGCCAATGGTAGCGTCTCAGGGCTTACG
9291598 TGCTGCCAATGGTAGCGTCTCAGGGCTTACG
1 TGCTGCCAATGGTAGCGTCTCAGGGCTTACG
9291629 TGCTGCCAATGG
1 TGCTGCCAATGG
9291641 CAGTGGCCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.16, C:0.26, G:0.32, T:0.26
Consensus pattern (31 bp):
TGCTGCCAATGGTAGCGTCTCAGGGCTTACG
Found at i:9301434 original size:23 final size:23
Alignment explanation
Indices: 9301404--9301449 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
9301394 TAGAATAACA
*
9301404 ATTCCTAATTCTATTAGGATAAG
1 ATTCCTAATTATATTAGGATAAG
9301427 ATTCCTAATTATATTAGGATAAG
1 ATTCCTAATTATATTAGGATAAG
9301450 GTTATTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (23 bp):
ATTCCTAATTATATTAGGATAAG
Found at i:9304831 original size:24 final size:23
Alignment explanation
Indices: 9304804--9304853 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
9304794 ATCTAGTTAG
*
9304804 ATTAGAATAACAATTCCTAATTCT
1 ATTAGAATAA-AATTCCTAATTAT
* *
9304828 ATTAGGATAAGATTCCTAATTAT
1 ATTAGAATAAAATTCCTAATTAT
9304851 ATT
1 ATT
9304854 CGGATAAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (23 bp):
ATTAGAATAAAATTCCTAATTAT
Found at i:9304846 original size:23 final size:23
Alignment explanation
Indices: 9304816--9304860 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
9304806 TAGAATAACA
*
9304816 ATTCCTAATTCTATTAGGATAAG
1 ATTCCTAATTATATTAGGATAAG
*
9304839 ATTCCTAATTATATTCGGATAA
1 ATTCCTAATTATATTAGGATAA
9304861 AGGTTATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (23 bp):
ATTCCTAATTATATTAGGATAAG
Found at i:9307352 original size:2 final size:2
Alignment explanation
Indices: 9307347--9307375 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9307337 CTAGTGTGTG
9307347 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9307376 GGTGCAATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9317633 original size:14 final size:14
Alignment explanation
Indices: 9317614--9317656 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
9317604 TGTGAATCTA
9317614 TTCATCATTTTTTT
1 TTCATCATTTTTTT
* *
9317628 TTCATCATTGTTCT
1 TTCATCATTTTTTT
9317642 TT-ATCTATTTTTTT
1 TTCATC-ATTTTTTT
9317656 T
1 T
9317657 CACCTTTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 3 0.12
14 21 0.88
ACGTcount: A:0.14, C:0.14, G:0.02, T:0.70
Consensus pattern (14 bp):
TTCATCATTTTTTT
Found at i:9317665 original size:27 final size:27
Alignment explanation
Indices: 9317622--9317675 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
9317612 TATTCATCAT
*
9317622 TTTTTTTTCATCATTGTTCTTTATCTA
1 TTTTTTTTCACCATTGTTCTTTATCTA
*
9317649 TTTTTTTTCACCTTTGTTCTTTATCTA
1 TTTTTTTTCACCATTGTTCTTTATCTA
9317676 AGGACATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.13, C:0.17, G:0.04, T:0.67
Consensus pattern (27 bp):
TTTTTTTTCACCATTGTTCTTTATCTA
Found at i:9321137 original size:7 final size:7
Alignment explanation
Indices: 9321120--9321150 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
9321110 ACGTAACTTT
9321120 TTTCAAAA
1 TTTC-AAA
9321128 TTTCAAA
1 TTTCAAA
9321135 TTTCAAA
1 TTTCAAA
9321142 TTTCAAA
1 TTTCAAA
9321149 TT
1 TT
9321151 GAACCTCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.83
8 4 0.17
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (7 bp):
TTTCAAA
Found at i:9324002 original size:28 final size:27
Alignment explanation
Indices: 9323950--9324008 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
9323940 AAGGAATGAA
9323950 CTTTGAGAAATTTTTGCTTCTTTTTCTT
1 CTTTGAGAAATTTTTGCTTCTTTTT-TT
*
9323978 CTTTGAGTAA-TTTT-CTTGCTCTTTTTT
1 CTTTGAGAAATTTTTGCTT-CT-TTTTTT
9324005 CTTT
1 CTTT
9324009 CTAGTTGTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 3 0.11
27 12 0.43
28 13 0.46
ACGTcount: A:0.12, C:0.15, G:0.10, T:0.63
Consensus pattern (27 bp):
CTTTGAGAAATTTTTGCTTCTTTTTTT
Found at i:9327252 original size:2 final size:2
Alignment explanation
Indices: 9327245--9327276 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9327235 TAGCCAGTAA
9327245 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9327277 ATATATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9327281 original size:2 final size:2
Alignment explanation
Indices: 9327276--9327302 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9327266 TCTCTCTCTC
9327276 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
9327303 TTCAATGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9342185 original size:31 final size:31
Alignment explanation
Indices: 9342147--9342389 Score: 267
Period size: 31 Copynumber: 7.8 Consensus size: 31
9342137 CACGACATTG
*
9342147 GTTATATGCATGGCGTGTTATAACATTTTAC
1 GTTATATGCATGGCGTGTTACAACATTTTAC
*
9342178 GTTATATGCATGGCGTGTTACCACATTTT-C
1 GTTATATGCATGGCGTGTTACAACATTTTAC
* *
9342208 TATTATATGCATGGCGTGTTACCACATTTTAC
1 -GTTATATGCATGGCGTGTTACAACATTTTAC
* * *
9342240 GTTATATGCATGGTGCGTTACAACATTTTAT
1 GTTATATGCATGGCGTGTTACAACATTTTAC
* * *
9342271 GTTATTTGCATGGTGTTTTA-ACACATTTTAC
1 GTTATATGCATGGCGTGTTACA-ACATTTTAC
* * *
9342302 GTTATATGCTTGACGTGTTACAACATTTTAT
1 GTTATATGCATGGCGTGTTACAACATTTTAC
* ** *
9342333 GTTATTTAAATGGCATGTTAGC-ACATTTTAC
1 GTTATATGCATGGCGTGTTA-CAACATTTTAC
* *
9342364 GTTATATGCATAGCGTGTAACAACAT
1 GTTATATGCATGGCGTGTTACAACAT
9342390 GACTGATAAA
Statistics
Matches: 175, Mismatches: 31, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
30 3 0.02
31 169 0.97
32 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (31 bp):
GTTATATGCATGGCGTGTTACAACATTTTAC
Found at i:9346672 original size:31 final size:31
Alignment explanation
Indices: 9346634--9346927 Score: 383
Period size: 31 Copynumber: 9.5 Consensus size: 31
9346624 AATAAGGAAT
* *
9346634 AAATGTTGTGACATGCCATGCATAACAAGCA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
9346665 AAATGTTGTGACACTCCATGCATAACAAGCA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
9346696 AAATGTTGTGACACGCCATGCATAACAAGT-
1 AAATGTTGTGACACGCCATGCATAACAAGTA
*
9346726 AAATCAGTTGTGACACGCCATGTATAACAAGTA
1 AAAT--GTTGTGACACGCCATGCATAACAAGTA
*** *
9346759 AAATGTTGTGACACGCTGCGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
*
9346790 AAATGTTGTGACACGCCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
9346821 AAATTTTGTGACACGCCGTGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
9346852 AAATGTTCTGACACGTCATGCATAACAAGTC
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
9346883 AAATGTTGTCACACGACATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
9346914 AAATATTGTCACAC
1 AAATGTTGTGACAC
9346928 TGGCACGCCA
Statistics
Matches: 233, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
30 4 0.02
31 200 0.86
32 25 0.11
33 4 0.02
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATAACAAGTA
Found at i:9347895 original size:23 final size:24
Alignment explanation
Indices: 9347866--9347921 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
9347856 GTGTCACAAT
* *
9347866 CGTGTCACATATTCT-AACCGTGG
1 CGTGTCACAAATTCTAAACCCTGG
* *
9347889 CGTGTCATAAATTCTAAACCCTGT
1 CGTGTCACAAATTCTAAACCCTGG
9347913 CGTGTCACA
1 CGTGTCACA
9347922 GTCGTGACAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (24 bp):
CGTGTCACAAATTCTAAACCCTGG
Found at i:9348360 original size:19 final size:20
Alignment explanation
Indices: 9348319--9348366 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 20
9348309 TTTTGGTATC
9348319 AAATTAATTGTGTATAGGCAAAA
1 AAATTAATTGTGTAT--G-AAAA
9348342 AAATTAATTGTGTAT-AAAA
1 AAATTAATTGTGTATGAAAA
9348361 ATAATT
1 A-AATT
9348367 GTATAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.21
20 4 0.17
23 15 0.62
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.35
Consensus pattern (20 bp):
AAATTAATTGTGTATGAAAA
Found at i:9348365 original size:16 final size:16
Alignment explanation
Indices: 9348340--9348465 Score: 59
Period size: 16 Copynumber: 7.6 Consensus size: 16
9348330 GTATAGGCAA
9348340 AAAAATTAATTGTGTAT
1 AAAAA-TAATTGTGTAT
9348357 AAAAATAA-T-TGTAT
1 AAAAATAATTGTGTAT
9348371 -AAAATATATTGTGTAT
1 AAAAATA-ATTGTGTAT
*
9348387 ACAAAAAGAATTAATTTTGTAT
1 ----AAA-AA-TAATTGTGTAT
*
9348409 -ACAATGAA-T-TGTAT
1 AAAAAT-AATTGTGTAT
*
9348423 -AAAATAAATTGAGTAT
1 AAAAAT-AATTGTGTAT
* *
9348439 ACAAAAAAATTGTATAT
1 A-AAAATAATTGTGTAT
9348456 AAAAATAATT
1 AAAAATAATT
9348466 CTCTATACAA
Statistics
Matches: 85, Mismatches: 9, Indels: 31
0.68 0.07 0.25
Matches are distributed among these distances:
13 6 0.07
14 17 0.20
15 5 0.06
16 24 0.28
17 15 0.18
18 4 0.05
21 2 0.02
22 10 0.12
23 2 0.02
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (16 bp):
AAAAATAATTGTGTAT
Found at i:9348419 original size:52 final size:51
Alignment explanation
Indices: 9348314--9348449 Score: 175
Period size: 52 Copynumber: 2.6 Consensus size: 51
9348304 AAAAATTTTG
* *
9348314 GTATCAAATTAATTGTGTATAGGCAAAAAAATTAATTGTGTATAAAAATAATT
1 GTATAAAATAAATTGTGTATA--CAAAAAAATTAATTGTGTATAAAAATAATT
* * *
9348367 GTATAAAATATATTGTGTATACAAAAAGAATTAATTTTGTAT-ACAATGAATT
1 GTATAAAATAAATTGTGTATACAAAAA-AATTAATTGTGTATAAAAAT-AATT
*
9348419 GTATAAAATAAATTGAGTATACAAAAAAATT
1 GTATAAAATAAATTGTGTATACAAAAAAATT
9348450 GTATATAAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
51 14 0.19
52 42 0.57
53 18 0.24
ACGTcount: A:0.49, C:0.04, G:0.12, T:0.35
Consensus pattern (51 bp):
GTATAAAATAAATTGTGTATACAAAAAAATTAATTGTGTATAAAAATAATT
Found at i:9348422 original size:14 final size:14
Alignment explanation
Indices: 9348403--9348454 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
9348393 AGAATTAATT
* *
9348403 TTGTATACAATGAA
1 TTGTATAAAATAAA
9348417 TTGTATAAAATAAA
1 TTGTATAAAATAAA
*
9348431 TTGAGTATACAAAAAAA
1 TT--GTATA-AAATAAA
9348448 TTGTATA
1 TTGTATA
9348455 TAAAAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
14 14 0.44
15 5 0.16
16 5 0.16
17 8 0.25
ACGTcount: A:0.50, C:0.04, G:0.12, T:0.35
Consensus pattern (14 bp):
TTGTATAAAATAAA
Found at i:9348453 original size:31 final size:33
Alignment explanation
Indices: 9348415--9348487 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
9348405 GTATACAATG
* * *
9348415 AATTGTATA-AAATA-AATTGAGTATACAAAAA
1 AATTGTATATAAAAATAATTCACTATACAAAAA
*
9348446 AATTGTATATAAAAATAATTCTCTATACAAAAA
1 AATTGTATATAAAAATAATTCACTATACAAAAA
*
9348479 AAATGTATA
1 AATTGTATA
9348488 GACAAGGGCC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 9 0.26
32 4 0.11
33 22 0.63
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTGTATATAAAAATAATTCACTATACAAAAA
Found at i:9350100 original size:31 final size:31
Alignment explanation
Indices: 9350029--9350272 Score: 220
Period size: 31 Copynumber: 7.9 Consensus size: 31
9350019 GACCATAAAC
* * * *
9350029 CATAACCAGTAAAATGTTATGACACGCCGTA
1 CATAACAAGTAAAATGTTGTGACACGCCATG
* *
9350060 C-TAATCAAGTAAAATGTTGCGACACACCATG
1 CATAA-CAAGTAAAATGTTGTGACACGCCATG
* * *
9350091 GATAACAAGTTAAACGTTGTGACACGCCATG
1 CATAACAAGTAAAATGTTGTGACACGCCATG
* * * *
9350122 CATAACAAGCAAAATGTTGTGACATGCTAAG
1 CATAACAAGTAAAATGTTGTGACACGCCATG
* * * * *
9350153 GATAAAAAGCAAAATGTTCTGACACACCATG
1 CATAACAAGTAAAATGTTGTGACACGCCATG
* **
9350184 CATAACAAGTTAAACATTGTGACACGCCATG
1 CATAACAAGTAAAATGTTGTGACACGCCATG
* * * *
9350215 CATAATAAGTAAAATGTTCTAACACGCTATG
1 CATAACAAGTAAAATGTTGTGACACGCCATG
* * *
9350246 CATATCAAGTCAAATGTTGTCACACGC
1 CATAACAAGTAAAATGTTGTGACACGC
9350273 TAACGCTGAC
Statistics
Matches: 166, Mismatches: 45, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
30 3 0.02
31 160 0.96
32 3 0.02
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.23
Consensus pattern (31 bp):
CATAACAAGTAAAATGTTGTGACACGCCATG
Found at i:9350261 original size:93 final size:93
Alignment explanation
Indices: 9350063--9350264 Score: 264
Period size: 93 Copynumber: 2.2 Consensus size: 93
9350053 CGCCGTACTA
* * *
9350063 ATCAAGTAAAATGTTGCGACACACCATGGATAACAAGTTAAACGTTGTGACACGCCATGCATAAC
1 ATCAAGTCAAATGTTGCGACACACCATGCATAACAAGTTAAACATTGTGACACGCCATGCATAAC
* * * *
9350128 AAGCAAAATGTTGTGACATGCTAAGGAT
66 AAGCAAAATGTTCTAACACGCTAAGCAT
**
9350156 AAAAAG-CAAAATGTT-CTGACACACCATGCATAACAAGTTAAACATTGTGACACGCCATGCATA
1 ATCAAGTC-AAATGTTGC-GACACACCATGCATAACAAGTTAAACATTGTGACACGCCATGCATA
* * *
9350219 ATAAGTAAAATGTTCTAACACGCTATGCAT
64 ACAAGCAAAATGTTCTAACACGCTAAGCAT
9350249 ATCAAGTCAAATGTTG
1 ATCAAGTCAAATGTTG
9350265 TCACACGCTA
Statistics
Matches: 91, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
92 1 0.01
93 89 0.98
94 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (93 bp):
ATCAAGTCAAATGTTGCGACACACCATGCATAACAAGTTAAACATTGTGACACGCCATGCATAAC
AAGCAAAATGTTCTAACACGCTAAGCAT
Found at i:9352764 original size:31 final size:31
Alignment explanation
Indices: 9352444--9352762 Score: 404
Period size: 31 Copynumber: 10.3 Consensus size: 31
9352434 AATAAGGAAT
* * * *
9352444 AAATGTTGTGAAATGCCATGCATAACAAGCA
1 AAATGTTGTGACACGCCATGCATATCAAGTA
* * *
9352475 AAATGTTGTGACACGCAATGCATAGCAAGCA
1 AAATGTTGTGACACGCCATGCATATCAAGTA
* * *
9352506 AAATGTTGTAACACGCCATCCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTA
** *
9352537 AAAAATTGTGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTA
*
9352568 AAATGTTGTGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTA
* * *
9352599 AAATCTTGTGACATGCCATGCATATCAAGCA
1 AAATGTTGTGACACGCCATGCATATCAAGTA
* * *
9352630 AAATGCTGTGACACGCCATGTATATCATGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTA
*
9352661 AAATGTTGTCACACGCCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATATCAAGTA
*
9352692 AAATGTTGTGACACGCCATGCATATCAAGTC
1 AAATGTTGTGACACGCCATGCATATCAAGTA
* * * *
9352723 AAATGTTGTCACATGCCATGCATATCGAGTC
1 AAATGTTGTGACACGCCATGCATATCAAGTA
9352754 AAATGTTGT
1 AAATGTTGT
9352763 CAAACGTTAA
Statistics
Matches: 254, Mismatches: 34, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 254 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATATCAAGTA
Found at i:9356015 original size:47 final size:47
Alignment explanation
Indices: 9355964--9356284 Score: 353
Period size: 47 Copynumber: 6.8 Consensus size: 47
9355954 ACACTCTAAA
* * *
9355964 CATGGCGTGTCACCAACTCTAAACTCTGGCTTGTCACAGCTTCCCTC
1 CATGGCGTGTCACCAACTCTGAACTCTGGCATGTCACAGATTCCCTC
* * *
9356011 CATGGCGTGTCACCAACTCTGAACTCTGGCGTGTTACAAATTCCCTC
1 CATGGCGTGTCACCAACTCTGAACTCTGGCATGTCACAGATTCCCTC
* * * *
9356058 TATGAG-GTCTCACAAACTCTGAACGCTGGCATGTCACAGATTCCCTC
1 CATG-GCGTGTCACCAACTCTGAACTCTGGCATGTCACAGATTCCCTC
* *
9356105 CATGCCGTGTCACCAACTCTGAACTCTGGCATGTCACAAATTCCCTC
1 CATGGCGTGTCACCAACTCTGAACTCTGGCATGTCACAGATTCCCTC
* * * *
9356152 AATGGCATCTCACCAACTCTGAACGCTGG-AGTGTCACAGATTCCCAT-
1 CATGGCGTGTCACCAACTCTGAACTCTGGCA-TGTCACAGATTCCC-TC
* * * *
9356199 CATGGCGTGTCACCAACTCTTAACTCTGGCATGACACAAATTCCCTT
1 CATGGCGTGTCACCAACTCTGAACTCTGGCATGTCACAGATTCCCTC
* ** * *
9356246 AATGGTTTCTCACCAACTCTGAA-TGCTGGCGTGTCACAG
1 CATGGCGTGTCACCAACTCTGAACT-CTGGCATGTCACAG
9356285 CCGTGTCACA
Statistics
Matches: 228, Mismatches: 39, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
46 3 0.01
47 222 0.97
48 3 0.01
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (47 bp):
CATGGCGTGTCACCAACTCTGAACTCTGGCATGTCACAGATTCCCTC
Found at i:9356042 original size:24 final size:23
Alignment explanation
Indices: 9355966--9356044 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 23
9355956 ACTCTAAACA
9355966 TGGCGTGTCACCAACTCTAAACTC
1 TGGCGTGTCACCAACTCT-AACTC
* * **
9355990 TGGCTTGTCA-CAGCT-TCCCTCC
1 TGGCGTGTCACCAACTCTAACT-C
9356012 ATGGCGTGTCACCAACTCTGAACTC
1 -TGGCGTGTCACCAACTCT-AACTC
9356037 TGGCGTGT
1 TGGCGTGT
9356045 TACAAATTCC
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
21 2 0.05
22 2 0.05
23 13 0.31
24 21 0.50
25 2 0.05
26 2 0.05
ACGTcount: A:0.18, C:0.33, G:0.22, T:0.28
Consensus pattern (23 bp):
TGGCGTGTCACCAACTCTAACTC
Found at i:9356144 original size:94 final size:94
Alignment explanation
Indices: 9355973--9356284 Score: 416
Period size: 94 Copynumber: 3.3 Consensus size: 94
9355963 ACATGGCGTG
* * * *
9355973 TCACCAACTCTAAACTCTGGCTTGTCACAGCTTCCCTCCATGGCGTGTCACCAACTCTGAACTCT
1 TCACCAACTCTGAACGCTGGCATGTCACAGATTCCCTCCATGGCGTGTCACCAACTCTGAACTCT
* * *
9356038 GGCGTGTTACAAATTCCCTCTATGAG-GTC
66 GGCATGTCACAAATTCCCTCTATG-GCATC
* *
9356067 TCACAAACTCTGAACGCTGGCATGTCACAGATTCCCTCCATGCCGTGTCACCAACTCTGAACTCT
1 TCACCAACTCTGAACGCTGGCATGTCACAGATTCCCTCCATGGCGTGTCACCAACTCTGAACTCT
*
9356132 GGCATGTCACAAATTCCCTCAATGGCATC
66 GGCATGTCACAAATTCCCTCTATGGCATC
*
9356161 TCACCAACTCTGAACGCTGG-AGTGTCACAGATTCCCAT-CATGGCGTGTCACCAACTCTTAACT
1 TCACCAACTCTGAACGCTGGCA-TGTCACAGATTCCC-TCCATGGCGTGTCACCAACTCTGAACT
* **
9356224 CTGGCATGACACAAATTCCCT-TAATGGTTTC
64 CTGGCATGTCACAAATTCCCTCT-ATGGCATC
* *
9356255 TCACCAACTCTGAATGCTGGCGTGTCACAG
1 TCACCAACTCTGAACGCTGGCATGTCACAG
9356285 CCGTGTCACA
Statistics
Matches: 194, Mismatches: 19, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
93 2 0.01
94 191 0.98
95 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (94 bp):
TCACCAACTCTGAACGCTGGCATGTCACAGATTCCCTCCATGGCGTGTCACCAACTCTGAACTCT
GGCATGTCACAAATTCCCTCTATGGCATC
Found at i:9356349 original size:58 final size:58
Alignment explanation
Indices: 9356287--9356400 Score: 210
Period size: 58 Copynumber: 2.0 Consensus size: 58
9356277 TGTCACAGCC
9356287 GTGTCACACATTCTCAACATGACGTTTCACAAACTCTAAACCCTGCCTTGCCACAACT
1 GTGTCACACATTCTCAACATGACGTTTCACAAACTCTAAACCCTGCCTTGCCACAACT
* *
9356345 GTGTCACACATTCTCAACATGACGTTTCACAAACTCTAAACCCTTCCTTGCTACAA
1 GTGTCACACATTCTCAACATGACGTTTCACAAACTCTAAACCCTGCCTTGCCACAA
9356401 TCGTCTCACA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.30, C:0.33, G:0.10, T:0.27
Consensus pattern (58 bp):
GTGTCACACATTCTCAACATGACGTTTCACAAACTCTAAACCCTGCCTTGCCACAACT
Found at i:9358901 original size:30 final size:29
Alignment explanation
Indices: 9358846--9358909 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
9358836 TTTTAATAAA
9358846 AAATT-AAATATTATTAAAAAGAAAAATT
1 AAATTAAAATATTATTAAAAAGAAAAATT
* **
9358874 AAATTAAAATAATTTTTAAAATTAAAAATT
1 AAATTAAAAT-ATTATTAAAAAGAAAAATT
9358904 AAATTA
1 AAATTA
9358910 CTTTAATCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 5 0.16
29 4 0.13
30 22 0.71
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (29 bp):
AAATTAAAATATTATTAAAAAGAAAAATT
Found at i:9359279 original size:26 final size:26
Alignment explanation
Indices: 9359243--9359294 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
9359233 AAACCATCAA
* *
9359243 TTCCCACGGACTGCATTGTAGAGCAG
1 TTCCCACGGACAGCATTGAAGAGCAG
9359269 TTCCCACGGACAGCATTGAAGAGCAG
1 TTCCCACGGACAGCATTGAAGAGCAG
9359295 ATTTTGATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (26 bp):
TTCCCACGGACAGCATTGAAGAGCAG
Found at i:9365111 original size:20 final size:20
Alignment explanation
Indices: 9365073--9365113 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9365063 ATGTAATACT
**
9365073 ATTCACAATTCTTGGCATCA
1 ATTCACAATTCTTAACATCA
*
9365093 ATTCATAATTCTTAACATCA
1 ATTCACAATTCTTAACATCA
9365113 A
1 A
9365114 ATGTAGCTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.37
Consensus pattern (20 bp):
ATTCACAATTCTTAACATCA
Found at i:9366179 original size:19 final size:18
Alignment explanation
Indices: 9366143--9366181 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
9366133 GGTTAAACTG
*
9366143 TTTAATTTCCACATTGAC
1 TTTAATTTCCACAGTGAC
*
9366161 TTTAAGTTTCGACAGTGAC
1 TTTAA-TTTCCACAGTGAC
9366180 TT
1 TT
9366182 GCTCTCATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.44
Consensus pattern (18 bp):
TTTAATTTCCACAGTGAC
Found at i:9371051 original size:14 final size:14
Alignment explanation
Indices: 9371032--9371060 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9371022 AGATTGACTG
9371032 ACCTAAAATAACTA
1 ACCTAAAATAACTA
9371046 ACCTAAAATAACTA
1 ACCTAAAATAACTA
9371060 A
1 A
9371061 TTAAAATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (14 bp):
ACCTAAAATAACTA
Found at i:9372755 original size:14 final size:13
Alignment explanation
Indices: 9372738--9372804 Score: 68
Period size: 14 Copynumber: 5.2 Consensus size: 13
9372728 TAATGTTATA
9372738 ATTAAAATAAAATT
1 ATTAAAATAAAA-T
9372752 ATTAAAATAAAAT
1 ATTAAAATAAAAT
*
9372765 ATATAATATAAAA-
1 AT-TAAAATAAAAT
*
9372778 ATTAGAAATTAAA-
1 ATTA-AAATAAAAT
9372791 A-TAAAATAAAAT
1 ATTAAAATAAAAT
9372803 AT
1 AT
9372805 AAGAAATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
11 7 0.16
12 5 0.11
13 12 0.27
14 21 0.47
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.31
Consensus pattern (13 bp):
ATTAAAATAAAAT
Found at i:9372789 original size:33 final size:31
Alignment explanation
Indices: 9372752--9372818 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 31
9372742 AAATAAAATT
9372752 ATTAAAATAAAATATATAATATAA-AAATTAGAA
1 ATTAAAATAAAATA-A-AATATAAGAAATTA-AA
9372785 ATTAAAATAAAATAAAATATAAGAAATTAAA
1 ATTAAAATAAAATAAAATATAAGAAATTAAA
9372816 ATT
1 ATT
9372819 TATATAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 12 0.36
32 7 0.21
33 14 0.42
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (31 bp):
ATTAAAATAAAATAAAATATAAGAAATTAAA
Found at i:9372817 original size:15 final size:14
Alignment explanation
Indices: 9372737--9372817 Score: 51
Period size: 15 Copynumber: 5.6 Consensus size: 14
9372727 GTAATGTTAT
9372737 AATTAAAATA-AAA
1 AATTAAAATATAAA
*
9372750 TTATTAAAATA-AAA
1 -AATTAAAATATAAA
* *
9372764 TA-TATAATATAAA
1 AATTAAAATATAAA
*
9372777 AATTAGAAATTAAAATA
1 AATTA-AAA-TATAA-A
*
9372794 AAATAAAATATAAGA
1 AATTAAAATATAA-A
9372809 AATTAAAAT
1 AATTAAAAT
9372818 TTATATAATA
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
12 6 0.11
13 6 0.11
14 14 0.26
15 15 0.28
16 7 0.13
17 5 0.09
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (14 bp):
AATTAAAATATAAA
Found at i:9372897 original size:36 final size:34
Alignment explanation
Indices: 9372857--9372930 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 34
9372847 AAAATATATA
* *
9372857 ATATAAGAAATTATATTAAAGAAATGAAAA-TAAAAT
1 ATATAAG--ATTATAAT-AAGAAATAAAAACTAAAAT
9372893 ATATAAGATTATAATAAGAAATAAAAACTAAAAT
1 ATATAAGATTATAATAAGAAATAAAAACTAAAAT
9372927 ATAT
1 ATAT
9372931 GACATTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 11 0.31
34 17 0.49
36 7 0.20
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (34 bp):
ATATAAGATTATAATAAGAAATAAAAACTAAAAT
Found at i:9373166 original size:15 final size:15
Alignment explanation
Indices: 9373146--9373202 Score: 78
Period size: 15 Copynumber: 3.8 Consensus size: 15
9373136 TTATTTTCCC
* *
9373146 TGCAATCATATTGCT
1 TGCAATCACATTACT
9373161 TGCAATCACATTACT
1 TGCAATCACATTACT
*
9373176 TGCAATTACATTACT
1 TGCAATCACATTACT
*
9373191 TGTAATCACATT
1 TGCAATCACATT
9373203 GCATTGTAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.39
Consensus pattern (15 bp):
TGCAATCACATTACT
Found at i:9386243 original size:33 final size:35
Alignment explanation
Indices: 9386203--9386279 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
9386193 GGAGTTCAGG
* * *
9386203 ATGATGATATTTGCCATGTGCGGTGTGGGAGTGCAC
1 ATGATGAT-GTTGACATGTGCGGTGTGGGAGTACAC
*
9386239 ATGATGATGTTGACATGTGTGGTGTGGGAGTACAC
1 ATGATGATGTTGACATGTGCGGTGTGGGAGTACAC
9386274 ATGATG
1 ATGATG
9386280 GTATCAGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 29 0.78
36 8 0.22
ACGTcount: A:0.22, C:0.10, G:0.36, T:0.31
Consensus pattern (35 bp):
ATGATGATGTTGACATGTGCGGTGTGGGAGTACAC
Found at i:9386243 original size:36 final size:36
Alignment explanation
Indices: 9386203--9386313 Score: 125
Period size: 36 Copynumber: 3.1 Consensus size: 36
9386193 GGAGTTCAGG
* *
9386203 ATGATGATATTTGCCATGTGCGGTGTGGGAGTGCAC
1 ATGATGATATTTGACATGTGTGGTGTGGGAGTGCAC
* *
9386239 ATGATGAT-GTTGACATGTGTGGTGTGGGAGTACAC
1 ATGATGATATTTGACATGTGTGGTGTGGGAGTGCAC
* ** ** *
9386274 ATGATGGTATCAGTTATGTGTTGTGTGGGAGTGCAC
1 ATGATGATATTTGACATGTGTGGTGTGGGAGTGCAC
9386310 ATGA
1 ATGA
9386314 GCTGAGTTGA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
35 30 0.48
36 32 0.52
ACGTcount: A:0.22, C:0.10, G:0.36, T:0.32
Consensus pattern (36 bp):
ATGATGATATTTGACATGTGTGGTGTGGGAGTGCAC
Found at i:9417811 original size:21 final size:20
Alignment explanation
Indices: 9417771--9417818 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 20
9417761 AAATTTATTT
9417771 AATTGAAATATAAAATATAAA
1 AATT-AAATATAAAATATAAA
9417792 AATTAAAT-TAAATATAATAAA
1 AATTAAATATAAA-AT-ATAAA
9417813 AATTAA
1 AATTAA
9417819 TGAAGAGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.16
20 6 0.24
21 15 0.60
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AATTAAATATAAAATATAAA
Found at i:9417840 original size:2 final size:2
Alignment explanation
Indices: 9417828--9417862 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
9417818 ATGAAGAGTG
*
9417828 TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC T- TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9417863 ACAATATGNT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:9417896 original size:147 final size:147
Alignment explanation
Indices: 9417725--9418018 Score: 556
Period size: 147 Copynumber: 2.0 Consensus size: 147
9417715 ACAAATAATA
9417725 TTTTTATTAATAATTATTCATTCATTAATTATTTTAAAATTTATTTAATTGAAATATAAAATATA
1 TTTTTATTAATAATTATTCATTCATTAATTATTTTAAAATTTATTTAATTGAAATATAAAATATA
9417790 AAAATTAAATTAAATATAATAAAAATTAATGAAGAGTGTCTCT-C-CCTCTCTCTCTCTCTCTCT
66 AAAATTAAATTAAATATAATAAAAATTAATGAAGAGTGTCTCTCCTCCTCTCTCTCTCTCTCTCT
9417853 CTCTCTTCTCACAATATG
131 CTCT-TTCTCACAATATG
9417871 NTTTTTATTAATAATTATTCATTCATTAATTATTTTAAAATTTATTTAATTGAAATATAAAATAT
1 -TTTTTATTAATAATTATTCATTCATTAATTATTTTAAAATTTATTTAATTGAAATATAAAATAT
9417936 AAAAATTAAATTAAATATAATAAAAATTAATGAAGAGTGTCTCTCCTCCTCTCTCTCTCTCTCTC
65 AAAAATTAAATTAAATATAATAAAAATTAATGAAGAGTGTCTCTCCTCCTCTCTCTCTCTCTCTC
9418001 TCTCTTTCTCACAATATG
130 TCTCTTTCTCACAATATG
9418019 CTCAAGTTTA
Statistics
Matches: 145, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
147 108 0.74
148 14 0.10
149 23 0.16
ACGTcount: A:0.37, C:0.14, G:0.04, T:0.44
Consensus pattern (147 bp):
TTTTTATTAATAATTATTCATTCATTAATTATTTTAAAATTTATTTAATTGAAATATAAAATATA
AAAATTAAATTAAATATAATAAAAATTAATGAAGAGTGTCTCTCCTCCTCTCTCTCTCTCTCTCT
CTCTTTCTCACAATATG
Found at i:9417958 original size:21 final size:20
Alignment explanation
Indices: 9417918--9417965 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 20
9417908 AAATTTATTT
9417918 AATTGAAATATAAAATATAAA
1 AATT-AAATATAAAATATAAA
9417939 AATTAAAT-TAAATATAATAAA
1 AATTAAATATAAA-AT-ATAAA
9417960 AATTAA
1 AATTAA
9417966 TGAAGAGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.16
20 6 0.24
21 15 0.60
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AATTAAATATAAAATATAAA
Found at i:9418058 original size:147 final size:146
Alignment explanation
Indices: 9417760--9418058 Score: 390
Period size: 147 Copynumber: 2.0 Consensus size: 146
9417750 TAATTATTTT
9417760 AAAATTTATTTAATTGAAATATAAAATATAAAAATTAAATTAAATATAATAAAAATTAATGAAGA
1 AAAATTTATTTAATTGAAATATAAAATATAAAAATTAAATTAAATATAATAAAAATTAATGAAGA
* *** ** **
9417825 GTGTCTCTCCCTCTCTCTCTCTCTCTCTCTCTCTTCTCACAATATGNTTTTTATTAATAATTATT
66 GTGTCTCTCCCTCTCTCTCTCTCTCTCTCTCTCTTCTCACAATATGCTAAGTATTAATAACCACA
* * **
9417890 CATTCATTAATTATTTT
131 AATTCACTAATTA-TAA
9417907 AAAATTTATTTAATTGAAATATAAAATATAAAAATTAAATTAAATATAATAAAAATTAATGAAGA
1 AAAATTTATTTAATTGAAATATAAAATATAAAAATTAAATTAAATATAATAAAAATTAATGAAGA
9417972 GTGTCTCT-CCTCCTCTCTCTCTCTCTCTCTCTCTTTCTCACAATATGCTCAAGT-TTAA-ACAC
66 GTGTCTCTCCCT-CTCTCTCTCTCTCTCTCTCTC-TTCTCACAATATGCT-AAGTATTAATA-AC
* *
9418034 CCCAAATCTCCCTAATTA-AA
127 CACAAAT-TCACTAATTATAA
9418054 AAAAT
1 AAAAT
9418059 CAATTACATA
Statistics
Matches: 133, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
146 3 0.02
147 100 0.75
148 21 0.16
149 9 0.07
ACGTcount: A:0.39, C:0.17, G:0.04, T:0.39
Consensus pattern (146 bp):
AAAATTTATTTAATTGAAATATAAAATATAAAAATTAAATTAAATATAATAAAAATTAATGAAGA
GTGTCTCTCCCTCTCTCTCTCTCTCTCTCTCTCTTCTCACAATATGCTAAGTATTAATAACCACA
AATTCACTAATTATAA
Found at i:9420662 original size:34 final size:34
Alignment explanation
Indices: 9420618--9420688 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
9420608 GCTAAAAAAC
*
9420618 AAAAAAAAAAAAGAA-ACGTTACAAGAATGAAATGG
1 AAAAAAAAAAAA-AAGACGTT-CAAGAATGAAAAGG
*
9420653 AAAAAAAAAAAAAAGATGTTCAAGAATGAAAAGG
1 AAAAAAAAAAAAAAGACGTTCAAGAATGAAAAGG
9420687 AA
1 AA
9420689 CTTTAAAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
34 17 0.52
35 16 0.48
ACGTcount: A:0.68, C:0.04, G:0.17, T:0.11
Consensus pattern (34 bp):
AAAAAAAAAAAAAAGACGTTCAAGAATGAAAAGG
Found at i:9421971 original size:389 final size:388
Alignment explanation
Indices: 9421024--9422165 Score: 1471
Period size: 389 Copynumber: 2.9 Consensus size: 388
9421014 TTCCTACCAA
*
9421024 CCAAGCATAAGTCCAAAGGACAGGAAACATTCTCATTGCATGAAAATGTTATTAGTCAGAGGCAA
1 CCAAGCATAAGTCCAAAGGACAGGAAACATTCACATTGCATGAAAATGTTATTAGTCAGAGGCAA
* * * * *
9421089 CATGAGAAAACATTTTAATGATTATTTAGTAAAAAGTCTGAGAGACTAAAAGTAAGCTTT-ATCT
66 CATGAGAAAAAATTTTCATAATTATTTAGT-AAAAGCCTGAGAGACTAATAGTAAGCTTTGATCT
* * * *
9421153 AACAACTCTGCTTCTCA-TTCACTAAAAGCAGGACTAAAAACCGCTACTTAA--TTCCTACTGGA
130 AACAACTCTGCTTCT-AGTTCACTAAAAGCAGTACTATAAACTGCTACCTAATCTTCCTACTGGA
* * * * * *
9421215 AGCATAAAGTAGAGGTTCAGAAACAATAAGTAATGTACAAGTTATTTTGATTATAAAAGTCCCAG
194 AGAATAAGGTAGAGCTTCAGAAAC-A-AA--CATGTGCAAGTTATTTTGATTATAAAAATCCCAG
* * * * * * *
9421280 AACCCTTCACCTTTAGAAACACCCTGAAATTTAGGTATGTTGTTAGTCAATAAAATTGAAAAACT
255 AACCCTTCACCTTAAAAAACACCCTGAAGTTCAGGTATATTGTCAGTCAGTAAAATTGAAAAACT
* ** * *
9421345 TTCTTCTTCAAGTGTTTTTAAGAAAT-AAGTAACAAAATGGTCTGCATTATAATAACATAAACCA
320 TTATTCTTCAAG-CATTTTAAGAAATCAA-TAACAAAATGGTC-GAACTATAATAACATAAACCA
9421409 TAAACTT
382 TAAACTT
*
9421416 CCAAGCATAAGTCCAAAGGACAGGAAACATTCAAATTGCATGAAAATGTTATTAGTCAGAGGCAA
1 CCAAGCATAAGTCCAAAGGACAGGAAACATTCACATTGCATGAAAATGTTATTAGTCAGAGGCAA
* * * *
9421481 CATGAGATAAAATTTTCATCATTATTTAGTGAAAAGCTTGAGATACTAATAGTAAGCTTTGATCT
66 CATGAGAAAAAATTTTCATAATTATTTAGT-AAAAGCCTGAGAGACTAATAGTAAGCTTTGATCT
* * *
9421546 AACAACTCTGCTTCTAGTTCACCAAAAAGCAGTACTATAAACTGCCACCTAATCTTCCTACTAGA
130 AACAACTCTGCTTCTAGTTCA-CTAAAAGCAGTACTATAAACTGCTACCTAATCTTCCTACTGGA
9421611 AGAATAAGGTAGAGCTTCAGAAAC-AACATGTGCAAGTTATTTTGATTATAAAAATCCCAGAACC
194 AGAATAAGGTAGAGCTTCAGAAACAAACATGTGCAAGTTATTTTGATTATAAAAATCCCAGAACC
* *
9421675 CTTCACCCTAAAAAACACCCTGAAGTTCAGGTATATTGTCAGTCAGTAAAATTGAAAAACTTTGT
259 CTTCACCTTAAAAAACACCCTGAAGTTCAGGTATATTGTCAGTCAGTAAAATTGAAAAACTTTAT
* **
9421740 TCTTCGAA-CATTTTAAAGAAATCAATAACAAAATGGTC-AACTATAATAACATAAGCCATGGAC
324 TCTTC-AAGCATTTT-AAGAAATCAATAACAAAATGGTCGAACTATAATAACATAAACCATAAAC
9421803 TT
387 TT
* * * *
9421805 CCAAGCATAAGCCCAAAGGACAGGTAACATTCACATTGCAAGAAAATGTTATTGGTCAGAGGCAA
1 CCAAGCATAAGTCCAAAGGACAGGAAACATTCACATTGCATGAAAATGTTATTAGTCAGAGGCAA
* * * *
9421870 CATGAGAAAAAACTTTCTTAATTATTTAGTAAAATGCCTGAGAGACTAATAGTGAGCTTTGATCC
66 CATGAGAAAAAATTTTCATAATTATTTAGTAAAA-GCCTGAGAGACTAATAGTAAGCTTTGATCT
* * *
9421935 AACAACTCTGCTTCTAGTTCGCTATAAGGCAGTACTATAAACTGCTA-CTAAATCTTCCTACCGG
130 AACAACTCTGCTTCTAGTTCACTA-AAAGCAGTACTATAAACTGCTACCT-AATCTTCCTACTGG
* * * *
9421999 AAGAACACGGTACAGCTTCAGAAACAACACATAGTGTGCAAGTTATTTTGATTATAGAAATCCCA
193 AAGAATAAGGTAGAGCTTCAGAAACAA-AC--A-TGTGCAAGTTATTTTGATTATAAAAATCCCA
* * * * *
9422064 GAACCCTTCACCTTATAACACACCCTGAAGTCCAGATATATTGTCAGTCAGTAAAATTGGAAAAC
254 GAACCCTTCACCTTAAAAAACACCCTGAAGTTCAGGTATATTGTCAGTCAGTAAAATTGAAAAAC
9422129 TTTATTCTTCAAGCA--TT-AGAAATCAATAACAAAATGG
319 TTTATTCTTCAAGCATTTTAAGAAATCAATAACAAAATGG
9422166 AAAACATTCA
Statistics
Matches: 663, Mismatches: 70, Indels: 36
0.86 0.09 0.05
Matches are distributed among these distances:
388 8 0.01
389 208 0.31
390 25 0.04
391 118 0.18
392 121 0.18
393 28 0.04
394 124 0.19
396 31 0.05
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (388 bp):
CCAAGCATAAGTCCAAAGGACAGGAAACATTCACATTGCATGAAAATGTTATTAGTCAGAGGCAA
CATGAGAAAAAATTTTCATAATTATTTAGTAAAAGCCTGAGAGACTAATAGTAAGCTTTGATCTA
ACAACTCTGCTTCTAGTTCACTAAAAGCAGTACTATAAACTGCTACCTAATCTTCCTACTGGAAG
AATAAGGTAGAGCTTCAGAAACAAACATGTGCAAGTTATTTTGATTATAAAAATCCCAGAACCCT
TCACCTTAAAAAACACCCTGAAGTTCAGGTATATTGTCAGTCAGTAAAATTGAAAAACTTTATTC
TTCAAGCATTTTAAGAAATCAATAACAAAATGGTCGAACTATAATAACATAAACCATAAACTT
Found at i:9427585 original size:16 final size:17
Alignment explanation
Indices: 9427556--9427591 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
9427546 TTTTAACCCA
9427556 TAAAAATAAGTTATTTT
1 TAAAAATAAGTTATTTT
9427573 TAAAAATAA-TTATTTT
1 TAAAAATAAGTTATTTT
9427589 TAA
1 TAA
9427592 TTTTAACTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TAAAAATAAGTTATTTT
Found at i:9428552 original size:34 final size:34
Alignment explanation
Indices: 9428490--9428595 Score: 95
Period size: 34 Copynumber: 3.1 Consensus size: 34
9428480 TGTTACACAC
* * * *
9428490 CAAAACTTCAACAGCAAATGTTACATGCCAAAGT
1 CAAAACTTCAGCACCAGATATTACATGCCAAAGT
* * * * *
9428524 CAAAGCTTCAGCACCATATATTATATGCCAAGGC
1 CAAAACTTCAGCACCAGATATTACATGCCAAAGT
* ** *
9428558 CAAAACTTCATCATTAGATATTACACGCCAAAGT
1 CAAAACTTCAGCACCAGATATTACATGCCAAAGT
9428592 CAAA
1 CAAA
9428596 TCAGAAGATG
Statistics
Matches: 55, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
34 55 1.00
ACGTcount: A:0.42, C:0.25, G:0.11, T:0.23
Consensus pattern (34 bp):
CAAAACTTCAGCACCAGATATTACATGCCAAAGT
Found at i:9428778 original size:20 final size:19
Alignment explanation
Indices: 9428712--9428779 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 19
9428702 TTTATTAAAT
*
9428712 AAAAAAATCATAAATAA-AA
1 AAAAAAATGATAAA-AATAA
9428731 AACAAAAATGATAAAAATCGAA
1 AA-AAAAATGATAAAAAT--AA
**
9428753 TTAAAAATGATAAAAATTAA
1 AAAAAAATGATAAAAA-TAA
9428773 AAAAAAA
1 AAAAAAA
9428780 AGGTAAGACT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
19 4 0.10
20 18 0.46
21 14 0.36
22 3 0.08
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.18
Consensus pattern (19 bp):
AAAAAAATGATAAAAATAA
Found at i:9428779 original size:21 final size:21
Alignment explanation
Indices: 9428705--9428780 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
9428695 ATAAAATTTT
*
9428705 ATTAAATAAAAAAATCATAAATA
1 ATTAAA-AAAAAAATGATAAA-A
*
9428728 A--AAAACAAAAATGATAAAA
1 ATTAAAAAAAAAATGATAAAA
** **
9428747 ATCGAATTAAAAATGATAAAA
1 ATTAAAAAAAAAATGATAAAA
9428768 ATTAAAAAAAAAA
1 ATTAAAAAAAAAA
9428781 GGTAAGACTG
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
19 2 0.05
20 12 0.29
21 27 0.64
23 1 0.02
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.20
Consensus pattern (21 bp):
ATTAAAAAAAAAATGATAAAA
Found at i:9431039 original size:23 final size:23
Alignment explanation
Indices: 9431013--9431056 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
9431003 AAAAGTGGTA
9431013 ATAACAAAAAATAAAAAAATATC
1 ATAACAAAAAATAAAAAAATATC
* *
9431036 ATAATAAAAAATAAAATAATA
1 ATAACAAAAAATAAAAAAATA
9431057 ATAATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (23 bp):
ATAACAAAAAATAAAAAAATATC
Found at i:9431046 original size:18 final size:18
Alignment explanation
Indices: 9431036--9431078 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
9431026 AAAAAATATC
9431036 ATAATAAAAAATAAAATA
1 ATAATAAAAAATAAAATA
* *
9431054 ATAAT-AATAATTAAATA
1 ATAATAAAAAATAAAATA
9431071 ATAATAAA
1 ATAATAAA
9431079 TGACCAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAATAAAAAATAAAATA
Found at i:9431062 original size:14 final size:14
Alignment explanation
Indices: 9431022--9431077 Score: 50
Period size: 13 Copynumber: 4.4 Consensus size: 14
9431012 AATAACAAAA
*
9431022 AATAAAAAAAT-AT
1 AATAATAAAATAAT
*
9431035 CATAATAAAA-AAT
1 AATAATAAAATAAT
9431048 AA-AAT--AATAAT
1 AATAATAAAATAAT
*
9431059 AATAATTAAATAAT
1 AATAATAAAATAAT
9431073 AATAA
1 AATAA
9431078 ATGACCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
10 2 0.06
11 5 0.14
12 6 0.17
13 11 0.31
14 11 0.31
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAATAAAATAAT
Found at i:9431071 original size:17 final size:16
Alignment explanation
Indices: 9431018--9431078 Score: 63
Period size: 15 Copynumber: 3.9 Consensus size: 16
9431008 TGGTAATAAC
*
9431018 AAAA-AATAAAAAAAT
1 AAAATAATAATAAAAT
**
9431033 ATCATAATAA-AAAAT
1 AAAATAATAATAAAAT
9431048 AAAATAATAATAATAAT
1 AAAATAATAATAA-AAT
*
9431065 TAAATAATAATAAA
1 AAAATAATAATAAA
9431079 TGACCAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
15 15 0.39
16 8 0.21
17 15 0.39
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATAATAATAAAAT
Found at i:9443124 original size:38 final size:38
Alignment explanation
Indices: 9443072--9443349 Score: 285
Period size: 37 Copynumber: 7.4 Consensus size: 38
9443062 CAAGAAAGAA
* * *
9443072 AAAAGGTTCCGTTGCCTTAGCTTTGAGAAGTTCATTTTT
1 AAAA-GTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* * *
9443111 AAAAGTTTGGTTGCCTCAGCTTTGAAGAGTTTA-TTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* *
9443148 AAAGGTTTTGTTGCCTCAGCTTTGAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* *
9443186 AAAAGTTTCGTTGCCTCAACTTTGAGGAGTTCATCTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* * ** *
9443224 AAAAGTGTCATTGCCTCATATTTGAGGAGTTCATTCTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* ** *
9443262 AAAA-TTTCATTGCCTCAATTTTGAGGAGTTTATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* ** * * *
9443299 -AAAGTTTCATTGCCTCAATTTTGAGGATTTTATTTAT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
*
9443336 -AAAGTTTCATTGCC
1 AAAAGTTTCGTTGCC
9443350 ACAATTTTGA
Statistics
Matches: 210, Mismatches: 27, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
36 3 0.01
37 106 0.50
38 97 0.46
39 4 0.02
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.43
Consensus pattern (38 bp):
AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
Found at i:9443199 original size:75 final size:75
Alignment explanation
Indices: 9443073--9443366 Score: 315
Period size: 75 Copynumber: 3.9 Consensus size: 75
9443063 AAGAAAGAAA
* * * * ** * *
9443073 AAAGGTTCCGTTGCCTTAGCTTTGAGAAGTTCATTTTTAAAAGTTTGGTTGCCTCAGCTTTGAAG
1 AAAGGTTTCATTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCATTGCCTCAACTTTGAGG
9443138 AGTTTATTTT
66 AGTTTATTTT
** *
9443148 AAAGGTTTTGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCGTTGCCTCAACTTTGAGG
1 AAAGGTTTCATTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCATTGCCTCAACTTTGAGG
*
9443213 AGTTCATCTTT
66 AGTTTAT-TTT
* * ** * *
9443224 AAAAGTGTCATTGCCTCATATTTGAGGAGTTCATTCTTAAAA-TTTCATTGCCTCAATTTTGAGG
1 AAAGGTTTCATTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCATTGCCTCAACTTTGAGG
9443288 AGTTTATTTTT
66 AGTTTA-TTTT
** * * * * * *
9443299 AAA-GTTTCATTGCCTCAATTTTGAGGATTTTATTTAT-AAAGTTTCATTGCCACAATTTTGAGA
1 AAAGGTTTCATTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCATTGCCTCAACTTTGAGG
9443362 AGTTT
66 AGTTT
9443367 GAAAAAAAAA
Statistics
Matches: 189, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
73 3 0.02
74 52 0.28
75 95 0.50
76 39 0.21
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (75 bp):
AAAGGTTTCATTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCATTGCCTCAACTTTGAGG
AGTTTATTTT
Found at i:9443554 original size:14 final size:14
Alignment explanation
Indices: 9443535--9443593 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 14
9443525 AAAATTTTAT
9443535 TAAATAAAAAATCA
1 TAAATAAAAAATCA
9443549 TAAATAAAAAA-CA
1 TAAATAAAAAATCA
* *
9443562 AAAATGAAAAAAAC-
1 TAAAT-AAAAAATCA
* *
9443576 TAAATTAAAAATGA
1 TAAATAAAAAATCA
9443590 TAAA
1 TAAA
9443594 AATTTTAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
13 11 0.30
14 25 0.68
15 1 0.03
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (14 bp):
TAAATAAAAAATCA
Found at i:9445494 original size:10 final size:10
Alignment explanation
Indices: 9445481--9445506 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
9445471 ATCATTCAAA
9445481 AAATAATAAT
1 AAATAATAAT
9445491 AAATAATAAT
1 AAATAATAAT
9445501 AAATAA
1 AAATAA
9445507 ACAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAATAATAAT
Found at i:9445872 original size:24 final size:24
Alignment explanation
Indices: 9445838--9445901 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
9445828 CAAAAAGTGG
* *
9445838 TAATAAGAAAAAATAAAA-AAATA
1 TAATAATAAAAAATAAAATAAAAA
*
9445861 TGATAATAAAAAATAAAATAAAAA
1 TAATAATAAAAAATAAAATAAAAA
*
9445885 TAATAATTAAATAATAA
1 TAATAA-TAAAAAATAA
9445902 TAAATGACCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 16 0.47
24 9 0.26
25 9 0.26
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (24 bp):
TAATAATAAAAAATAAAATAAAAA
Found at i:9447689 original size:14 final size:13
Alignment explanation
Indices: 9447643--9447685 Score: 61
Period size: 13 Copynumber: 3.2 Consensus size: 13
9447633 AAAAAAAAAA
9447643 AATAATAAAGATAT
1 AATAATAAA-ATAT
9447657 AA-AATAAAATAAT
1 AATAATAAAAT-AT
9447670 AATAATAAAATAT
1 AATAATAAAATAT
9447683 AAT
1 AAT
9447686 TAATTAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 2 0.07
13 15 0.56
14 10 0.37
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (13 bp):
AATAATAAAATAT
Found at i:9455630 original size:12 final size:12
Alignment explanation
Indices: 9455608--9455649 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
9455598 CTTTGTGTTC
9455608 TTTTCTCTTATAT
1 TTTTCT-TTATAT
9455621 TTTTCTTTATAT
1 TTTTCTTTATAT
*
9455633 TTTTTTTTCATAT
1 TTTTCTTT-ATAT
9455646 TTTT
1 TTTT
9455650 TATATAACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 13 0.48
13 14 0.52
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTTTATAT
Found at i:9455650 original size:13 final size:12
Alignment explanation
Indices: 9455615--9455650 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
9455605 TTCTTTTCTC
*
9455615 TTATATTTTTCT
1 TTATATTTTTTT
9455627 TTATATTTTTTT
1 TTATATTTTTTT
9455639 TTCATATTTTTT
1 TT-ATATTTTTT
9455651 ATATAACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 13 0.59
13 9 0.41
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (12 bp):
TTATATTTTTTT
Found at i:9455895 original size:16 final size:16
Alignment explanation
Indices: 9455874--9455946 Score: 67
Period size: 16 Copynumber: 4.6 Consensus size: 16
9455864 GTTCAAGTTT
*
9455874 GTTATTTTATGTTTGA
1 GTTATTTTAGGTTTGA
9455890 GTTA-TTTAGGGTTTGA
1 GTTATTTTA-GGTTTGA
* * * *
9455906 ATTTTTTTGGGTTAGA
1 GTTATTTTAGGTTTGA
* *
9455922 GTCATTTTAGATTTGA
1 GTTATTTTAGGTTTGA
9455938 GTTATTTTA
1 GTTATTTTA
9455947 CAATTGTATT
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
15 4 0.09
16 36 0.84
17 3 0.07
ACGTcount: A:0.21, C:0.01, G:0.22, T:0.56
Consensus pattern (16 bp):
GTTATTTTAGGTTTGA
Found at i:9456762 original size:42 final size:41
Alignment explanation
Indices: 9456701--9456845 Score: 112
Period size: 43 Copynumber: 3.4 Consensus size: 41
9456691 ACCTCTCTCT
* *
9456701 CTCTCTCTCCTGTATTTTGTCCATAATTTGAGTGATTTACCCAC
1 CTCTCTCTCATGTA-TTTGTCC-T-ATCTGAGTGATTTACCCAC
* * *
9456745 CTCTC-CTCATGTATTTGTTTGCTGTCTGAGTGGTTTACCCAC
1 CTCTCTCTCATGTATTTG--TCCTATCTGAGTGATTTACCCAC
* ** * * *
9456787 ATCTCTCTCATGTATTTGTTTGGTGTCTGACTGGTTTACCCAC
1 CTCTCTCTCATGTATTTG--TCCTATCTGAGTGATTTACCCAC
*
9456830 GTCTCTCTCATGTATT
1 CTCTCTCTCATGTATT
9456846 ATATAATATA
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
42 24 0.27
43 58 0.65
44 7 0.08
ACGTcount: A:0.14, C:0.26, G:0.16, T:0.44
Consensus pattern (41 bp):
CTCTCTCTCATGTATTTGTCCTATCTGAGTGATTTACCCAC
Found at i:9456797 original size:43 final size:43
Alignment explanation
Indices: 9456729--9456845 Score: 182
Period size: 43 Copynumber: 2.7 Consensus size: 43
9456719 GTCCATAATT
* *
9456729 TGAGTGATTTACCCACCTCTC-CTCATGTATTTGTTTGCTGTC
1 TGAGTGGTTTACCCACATCTCTCTCATGTATTTGTTTGCTGTC
*
9456771 TGAGTGGTTTACCCACATCTCTCTCATGTATTTGTTTGGTGTC
1 TGAGTGGTTTACCCACATCTCTCTCATGTATTTGTTTGCTGTC
* *
9456814 TGACTGGTTTACCCACGTCTCTCTCATGTATT
1 TGAGTGGTTTACCCACATCTCTCTCATGTATT
9456846 ATATAATATA
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 19 0.28
43 50 0.72
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.43
Consensus pattern (43 bp):
TGAGTGGTTTACCCACATCTCTCTCATGTATTTGTTTGCTGTC
Found at i:9465062 original size:2 final size:2
Alignment explanation
Indices: 9465055--9465079 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9465045 TAGCCCAAAG
9465055 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9465080 CTTGTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9480457 original size:5 final size:5
Alignment explanation
Indices: 9480447--9480488 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
9480437 AAAAATTTCG
9480447 TTCTT TTCTT TTCTT TT-TT TTCTTT TTCTTT TTCTT TT-TT TT
1 TTCTT TTCTT TTCTT TTCTT TTC-TT TTC-TT TTCTT TTCTT TT
9480489 GGTTTTTTCC
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
4 8 0.23
5 16 0.46
6 11 0.31
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (5 bp):
TTCTT
Found at i:9480467 original size:9 final size:9
Alignment explanation
Indices: 9480447--9480506 Score: 57
Period size: 9 Copynumber: 6.2 Consensus size: 9
9480437 AAAAATTTCG
9480447 TTCTTTTCTT
1 TTCTTTT-TT
9480457 TTCTTTTTT
1 TTCTTTTTT
9480466 TTCTTTTTCTTT
1 TTC--TTT-TTT
9480478 TTCTTTTTT
1 TTCTTTTTT
**
9480487 TTGGTTTTT
1 TTCTTTTTT
*
9480496 TCCTTTTTT
1 TTCTTTTTT
9480505 TT
1 TT
9480507 TAAATAATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
9 22 0.54
10 10 0.24
11 3 0.07
12 6 0.15
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.83
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:9480475 original size:20 final size:21
Alignment explanation
Indices: 9480450--9480488 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9480440 AATTTCGTTC
9480450 TTTTC-TTTTCTTTTTTTTCT
1 TTTTCTTTTTCTTTTTTTTCT
9480470 TTTTCTTTTTCTTTTTTTT
1 TTTTCTTTTTCTTTTTTTT
9480489 GGTTTTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (21 bp):
TTTTCTTTTTCTTTTTTTTCT
Found at i:9480494 original size:21 final size:20
Alignment explanation
Indices: 9480450--9480506 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
9480440 AATTTCGTTC
*
9480450 TTTTCTTTTCTTTTTTTTCT
1 TTTTCTTTTCTTTTTTTTCG
9480470 TTTTCTTTTTCTTTTTTTT-G
1 TTTTC-TTTTCTTTTTTTTCG
* *
9480490 GTTT-TTTCCTTTTTTTT
1 TTTTCTTTTCTTTTTTTT
9480507 TAAATAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 12 0.36
20 8 0.24
21 13 0.39
ACGTcount: A:0.00, C:0.12, G:0.04, T:0.84
Consensus pattern (20 bp):
TTTTCTTTTCTTTTTTTTCG
Found at i:9483276 original size:10 final size:10
Alignment explanation
Indices: 9483261--9483285 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9483251 AACACGTGAT
9483261 AAATCTTTCA
1 AAATCTTTCA
9483271 AAATCTTTCA
1 AAATCTTTCA
9483281 AAATC
1 AAATC
9483286 ATCTTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (10 bp):
AAATCTTTCA
Found at i:9503735 original size:17 final size:18
Alignment explanation
Indices: 9503707--9503743 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
9503697 GGCATTTTAA
9503707 AAAATAATTTTTAAAAAT
1 AAAATAATTTTTAAAAAT
9503725 AAAAT-ATTTTTAAAAAT
1 AAAATAATTTTTAAAAAT
9503742 AA
1 AA
9503744 TTTTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATAATTTTTAAAAAT
Found at i:9503740 original size:12 final size:13
Alignment explanation
Indices: 9503700--9503748 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
9503690 ATACGGAGGC
*
9503700 ATTTTAAAAAATA
1 ATTTTTAAAAATA
9503713 ATTTTTAAAAATAAAA
1 ATTTTTAAAAAT---A
9503729 TATTTTTAAAAATA
1 -ATTTTTAAAAATA
9503743 ATTTTT
1 ATTTTT
9503749 TTTATAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
13 17 0.55
14 1 0.03
16 1 0.03
17 12 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTTTTAAAAATA
Found at i:9503912 original size:69 final size:69
Alignment explanation
Indices: 9503831--9504032 Score: 237
Period size: 69 Copynumber: 2.9 Consensus size: 69
9503821 CATCATGTAA
** * *
9503831 AAAAAC-TCGTGACAAGTCATAATTAACGTGTTACACGTTATGTACAAAAATATATGACAAGCCA
1 AAAAACAT-GTGACAAGTCATGGTTAACATGTTACACGTTATGTACAAAAATATGTGACAAGCCA
*
9503895 AATAT
65 AATAC
** *
9503900 AAAAACATGTGACAAACCATGGTTAGCATGTTACACGTTATGTACAAAAATATGTGACAAGCCAA
1 AAAAACATGTGACAAGTCATGGTTAACATGTTACACGTTATGTACAAAAATATGTGACAAGCCAA
*
9503965 CTAC
66 ATAC
* * * * **
9503969 AAAAACATATGATAAGTTATGGTTAACTTGTTACACACTATGTACAAAAACT-TGTGACAAGCCA
1 AAAAACATGTGACAAGTCATGGTTAACATGTTACACGTTATGTACAAAAA-TATGTGACAAGCCA
9504033 TGATTAGATT
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
69 111 0.98
70 2 0.02
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (69 bp):
AAAAACATGTGACAAGTCATGGTTAACATGTTACACGTTATGTACAAAAATATGTGACAAGCCAA
ATAC
Found at i:9504100 original size:30 final size:31
Alignment explanation
Indices: 9504040--9504102 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
9504030 CCATGATTAG
9504040 ATTGTTACACGTCATATTGAAAAAAAATGTT
1 ATTGTTACACGTCATATTGAAAAAAAATGTT
9504071 ATTGTTACACGTCATA-T-AAAAAAACATGTT
1 ATTGTTACACGTCATATTGAAAAAAA-ATGTT
9504101 AT
1 AT
9504103 GTTGAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 7 0.23
30 8 0.26
31 16 0.52
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (31 bp):
ATTGTTACACGTCATATTGAAAAAAAATGTT
Found at i:9504742 original size:10 final size:10
Alignment explanation
Indices: 9504722--9504755 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
9504712 TATTTTTATC
9504722 AAATCATAATT
1 AAAT-ATAATT
9504733 AAATATAATT
1 AAATATAATT
*
9504743 AAAAATAATT
1 AAATATAATT
9504753 AAA
1 AAA
9504756 CTTATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATATAATT
Found at i:9511961 original size:22 final size:23
Alignment explanation
Indices: 9511933--9511976 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
9511923 AATTTTAAAA
*
9511933 ATAAAAAAATTT-TAAATTTTTG
1 ATAAAAAAATTTAAAAATTTTTG
9511955 ATAAAAAAATTTAAAAATTTTT
1 ATAAAAAAATTTAAAAATTTTT
9511977 AAAACATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
ATAAAAAAATTTAAAAATTTTTG
Found at i:9514044 original size:2 final size:2
Alignment explanation
Indices: 9514037--9514091 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
9514027 NNNNNNNNNN
*
9514037 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9514079 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
9514092 TAATTCACCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9516652 original size:30 final size:30
Alignment explanation
Indices: 9516617--9516675 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
9516607 AAATAAACTC
* * *
9516617 TTTTTTTATTGAATTCAAATAAATTTTTATA
1 TTTTTATATTG-ACTCAAATAAAATTTTATA
*
9516648 TTTTTATTTTGACTCAAATAAAATTTTA
1 TTTTTATATTGACTCAAATAAAATTTTA
9516676 CAATTAATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (30 bp):
TTTTTATATTGACTCAAATAAAATTTTATA
Found at i:9516874 original size:29 final size:29
Alignment explanation
Indices: 9516791--9516866 Score: 111
Period size: 28 Copynumber: 2.7 Consensus size: 29
9516781 ATTTTTAATT
*
9516791 ATAAAAATTTATTTAAATTAAAAT-AAAA
1 ATAAAAATTTATTTAAATTATAATAAAAA
*
9516819 ATATAAAATTTAGTTAAA-TATAATAAAAA
1 ATA-AAAATTTATTTAAATTATAATAAAAA
9516848 ATAAAAATTTATTTAAATT
1 ATAAAAATTTATTTAAATT
9516867 TTTTTAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 21 0.50
29 21 0.50
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (29 bp):
ATAAAAATTTATTTAAATTATAATAAAAA
Found at i:9526448 original size:26 final size:25
Alignment explanation
Indices: 9526396--9526490 Score: 73
Period size: 27 Copynumber: 3.6 Consensus size: 25
9526386 GTTACATTAG
* * **
9526396 GGGTGTTTCAAGGGTAGAAGGGTCCA
1 GGGTGTTTCAAGCGCAGAAACG-CCA
* *
9526422 GGGTGTTTCAAGCGCATAAGCTGCCA
1 GGGTGTTTCAAGCGCAGAAAC-GCCA
*
9526448 GGGGTGCTTCAAGCGCAGAAACGCTCA
1 -GGGTGTTTCAAGCGCAGAAACGC-CA
*
9526475 GGGTCGTTACAAGCGC
1 GGGT-GTTTCAAGCGC
9526491 GAAGCTTCAG
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
26 26 0.46
27 30 0.54
ACGTcount: A:0.23, C:0.21, G:0.36, T:0.20
Consensus pattern (25 bp):
GGGTGTTTCAAGCGCAGAAACGCCA
Found at i:9526512 original size:25 final size:25
Alignment explanation
Indices: 9526422--9526508 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 25
9526412 GAAGGGTCCA
* *
9526422 GGGTGTTTCAAGCGCATAAGCTGCCAG
1 GGGTG-TTCAAGCGCAGAAGCT-TCAG
9526449 GGGTGCTTCAAGCGCAGAAACGC-TCA-
1 GGGTG-TTCAAGCGCAG-AA-GCTTCAG
9526475 GGGTCGTTACAAGCGC-GAAGCTTCAG
1 GGGT-GTT-CAAGCGCAGAAGCTTCAG
9526501 GGGTGTTC
1 GGGTGTTC
9526509 CAAGTACTGA
Statistics
Matches: 51, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
24 3 0.06
25 8 0.16
26 11 0.22
27 25 0.49
28 2 0.04
29 2 0.04
ACGTcount: A:0.22, C:0.23, G:0.34, T:0.21
Consensus pattern (25 bp):
GGGTGTTCAAGCGCAGAAGCTTCAG
Found at i:9526646 original size:26 final size:26
Alignment explanation
Indices: 9526612--9526672 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
9526602 CTCCTAGGAT
* *
9526612 CGTTACAAGCACGAAAGC-GCCAGGGG
1 CGTTCCAAGCACGAAA-CAGCCAAGGG
*
9526638 CGTTCCAAGCACGGAACAGCCAAGGG
1 CGTTCCAAGCACGAAACAGCCAAGGG
*
9526664 TGTTCCAAG
1 CGTTCCAAG
9526673 TGCAGAAGCG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 1 0.03
26 29 0.97
ACGTcount: A:0.30, C:0.28, G:0.31, T:0.11
Consensus pattern (26 bp):
CGTTCCAAGCACGAAACAGCCAAGGG
Found at i:9526722 original size:133 final size:132
Alignment explanation
Indices: 9526424--9526723 Score: 300
Period size: 133 Copynumber: 2.2 Consensus size: 132
9526414 AGGGTCCAGG
* * * * *
9526424 GTGTTTCAAGCGCATAAGCTGCCAGGGGTGCTT-CAAGCGCAGAAACGCTCAGGGTCGTTACAAG
1 GTGTTCCAAGCGCAGAAGC-GCCAGGGGTG-TTCCAAGCGCAAAAACCCTCAGGATCGTTACAAG
* ** * * * * *
9526488 CGCGAAGCTTCAGGGGTGTTCCAAGTACTGAAGCACCCAAAGGTGTTCCAAGTGTAGAAGTGCCT
64 CACGAAGCGCCAGGGGCGTTCCAAGCACGGAAGCACCCAAAGGTGTTCCAAGTGCAGAAGCGCCT
*
9526553 AGGA
129 AAGA
* * * * ** *
9526557 GTGTTCCAAGTGCAGAAACACCAAAGAATGTTCCAAGCTCAAAAACTCCT-AGGATCGTTACAAG
1 GTGTTCCAAGCGCAGAAGCGCC-AGGGGTGTTCCAAGCGCAAAAAC-CCTCAGGATCGTTACAAG
* * *
9526621 CACGAAAGCGCCAGGGGCGTTCCAAGCACGGAA-CAGCCAAGGGTGTTCCAAGTGCAGAAGCGTC
64 CACG-AAGCGCCAGGGGCGTTCCAAGCACGGAAGCACCCAAAGGTGTTCCAAGTGCAGAAGCGCC
9526685 TAAGA
128 TAAGA
*
9526690 GTGTTCTAAGCGCAGAAGCGCCTAGGGGTGTTCC
1 GTGTTCCAAGCGCAGAAGCGCC-AGGGGTGTTCC
9526724 GAGTGCAGAA
Statistics
Matches: 131, Mismatches: 32, Indels: 8
0.77 0.19 0.05
Matches are distributed among these distances:
132 4 0.03
133 102 0.78
134 25 0.19
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.19
Consensus pattern (132 bp):
GTGTTCCAAGCGCAGAAGCGCCAGGGGTGTTCCAAGCGCAAAAACCCTCAGGATCGTTACAAGCA
CGAAGCGCCAGGGGCGTTCCAAGCACGGAAGCACCCAAAGGTGTTCCAAGTGCAGAAGCGCCTAA
GA
Found at i:9526749 original size:27 final size:28
Alignment explanation
Indices: 9526659--9526750 Score: 109
Period size: 27 Copynumber: 3.4 Consensus size: 28
9526649 CGGAACAGCC
9526659 AAGGGTGTTCCAAGTGCAGAAGCG-TCT
1 AAGGGTGTTCCAAGTGCAGAAGCGCTCT
* * *
9526686 AAGAGTGTTCTAAGCGCAGAAGCGC-CT
1 AAGGGTGTTCCAAGTGCAGAAGCGCTCT
* *
9526713 AGGGGTGTTCCGAGTGCAGAAGCGCTC-
1 AAGGGTGTTCCAAGTGCAGAAGCGCTCT
*
9526740 AAGGGCGTTCC
1 AAGGGTGTTCC
9526751 CAGCGTGAGA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.35, T:0.20
Consensus pattern (28 bp):
AAGGGTGTTCCAAGTGCAGAAGCGCTCT
Found at i:9526768 original size:54 final size:54
Alignment explanation
Indices: 9526661--9526780 Score: 136
Period size: 54 Copynumber: 2.2 Consensus size: 54
9526651 GAACAGCCAA
* * * *
9526661 GGGTGTTCCAAGTGCAGAAGCGTCTAAGAGTGTTCTAAGCGCAGAAGCGCCTAG
1 GGGTGTTCCGAGTGCAGAAGCGTCTAAGAGCGTTCCAAGCGCAGAAGCACCTAG
* * *
9526715 GGGTGTTCCGAGTGCAGAAGCG-CTCAAGGGCGTTCCCAGCG-TGAGAGCACCTAG
1 GGGTGTTCCGAGTGCAGAAGCGTCT-AAGAGCGTTCCAAGCGCAGA-AGCACCTAG
*
9526769 GAGTGTTCCGAG
1 GGGTGTTCCGAG
9526781 CGCGGAAACA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
53 4 0.07
54 52 0.93
ACGTcount: A:0.23, C:0.23, G:0.36, T:0.19
Consensus pattern (54 bp):
GGGTGTTCCGAGTGCAGAAGCGTCTAAGAGCGTTCCAAGCGCAGAAGCACCTAG
Found at i:9536176 original size:9 final size:9
Alignment explanation
Indices: 9536162--9536195 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
9536152 GGACTTGATG
9536162 ACTACTTGA
1 ACTACTTGA
9536171 ACTACTTGA
1 ACTACTTGA
9536180 ACTACTTGA
1 ACTACTTGA
9536189 ACTACTT
1 ACTACTT
9536196 TAATCCTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.35
Consensus pattern (9 bp):
ACTACTTGA
Found at i:9547915 original size:15 final size:15
Alignment explanation
Indices: 9547897--9547946 Score: 82
Period size: 15 Copynumber: 3.3 Consensus size: 15
9547887 ATTTTACAAT
*
9547897 GTAATATGATTATAA
1 GTAATATAATTATAA
*
9547912 GTAATATAATTACAA
1 GTAATATAATTATAA
9547927 GTAATATAATTATAA
1 GTAATATAATTATAA
9547942 GTAAT
1 GTAAT
9547947 GTGATTGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (15 bp):
GTAATATAATTATAA
Found at i:9548216 original size:32 final size:32
Alignment explanation
Indices: 9548170--9548253 Score: 107
Period size: 32 Copynumber: 2.6 Consensus size: 32
9548160 TTTTACTGTC
*
9548170 ATATATTTTATTTTTATTTTTTATTATAATATT
1 ATATATTTTATTTTTATTTTTTAATATAAT-TT
*
9548203 ATAT-TTTTATTTTTAGTTTTTAATATAATTT
1 ATATATTTTATTTTTATTTTTTAATATAATTT
* * *
9548234 TTATATTATATATTTATTTT
1 ATATATTTTATTTTTATTTT
9548254 AATTTCTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
31 5 0.11
32 35 0.80
33 4 0.09
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (32 bp):
ATATATTTTATTTTTATTTTTTAATATAATTT
Found at i:9548222 original size:7 final size:6
Alignment explanation
Indices: 9548175--9548258 Score: 51
Period size: 6 Copynumber: 13.3 Consensus size: 6
9548165 CTGTCATATA
* * * *
9548175 TTTTAT TTTTATT TTTTAT TATAAT ATTATAT TTTTAT TTTTAGT TTTTAA
1 TTTTAT TTTTA-T TTTTAT TTTTAT -TTTTAT TTTTAT TTTTA-T TTTTAT
* * * * *
9548226 TATAAT TTTTAT ATTATAT ATTTAT TTTAAT TT
1 TTTTAT TTTTAT -TTTTAT TTTTAT TTTTAT TT
9548259 CTTTTACCTA
Statistics
Matches: 57, Mismatches: 17, Indels: 8
0.70 0.21 0.10
Matches are distributed among these distances:
6 37 0.65
7 20 0.35
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.70
Consensus pattern (6 bp):
TTTTAT
Found at i:9548240 original size:27 final size:25
Alignment explanation
Indices: 9548179--9548240 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 25
9548169 CATATATTTT
*
9548179 ATTTTTAT-TTTTTATTATAATATT
1 ATTTTTATATTTTTATTATAATATA
*
9548203 ATATTTT-TATTTTTAGTTTTTAATATA
1 AT-TTTTATATTTTTA--TTATAATATA
9548230 ATTTTTATATT
1 ATTTTTATATT
9548241 ATATATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
24 3 0.10
25 10 0.32
26 4 0.13
27 14 0.45
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (25 bp):
ATTTTTATATTTTTATTATAATATA
Found at i:9556886 original size:19 final size:19
Alignment explanation
Indices: 9556851--9556903 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
9556841 TTCTACAAAA
*
9556851 ATAAAAAAATATTAATTTT
1 ATAAAAAAATATAAATTTT
9556870 ATAAAAAAAT-TAAAATTTT
1 ATAAAAAAATAT-AAATTTT
*
9556889 A-ACATAAAATATAAA
1 ATA-AAAAAATATAAA
9556904 AAAATTATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 2 0.07
19 26 0.90
20 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAAAAAAATATAAATTTT
Found at i:9557775 original size:39 final size:39
Alignment explanation
Indices: 9557721--9557802 Score: 164
Period size: 39 Copynumber: 2.1 Consensus size: 39
9557711 AATTACTCTA
9557721 TCAATTACATACCATAATGTATACTTTCATTTGTTTAGG
1 TCAATTACATACCATAATGTATACTTTCATTTGTTTAGG
9557760 TCAATTACATACCATAATGTATACTTTCATTTGTTTAGG
1 TCAATTACATACCATAATGTATACTTTCATTTGTTTAGG
9557799 TCAA
1 TCAA
9557803 GATTATTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.43
Consensus pattern (39 bp):
TCAATTACATACCATAATGTATACTTTCATTTGTTTAGG
Found at i:9558500 original size:20 final size:20
Alignment explanation
Indices: 9558475--9558520 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
9558465 TTTTGATCCC
9558475 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
9558495 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
9558515 ATTTGA
1 ATTTGA
9558521 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:9558596 original size:28 final size:27
Alignment explanation
Indices: 9558565--9558617 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
9558555 TTTGGAGTAA
*
9558565 AAGGGTAAAATGGTAATTTTGCCACCTC
1 AAGGGCAAAATGGTAATTTT-CCACCTC
*
9558593 AAGGGCAAAATTGTAATTTTCCACC
1 AAGGGCAAAATGGTAATTTTCCACC
9558618 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (27 bp):
AAGGGCAAAATGGTAATTTTCCACCTC
Found at i:9561518 original size:15 final size:15
Alignment explanation
Indices: 9561491--9561529 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
9561481 TATTTCCTAC
9561491 TTGTTTT-TTTATTA
1 TTGTTTTATTTATTA
9561505 TTGTTTTATTTATTA
1 TTGTTTTATTTATTA
9561520 -TGTTATTATT
1 TTGTT-TTATT
9561530 ATTTTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (15 bp):
TTGTTTTATTTATTA
Found at i:9561951 original size:22 final size:23
Alignment explanation
Indices: 9561926--9561975 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
9561916 TAAAATAATA
*
9561926 TTTTAATTTATAAACA-ATTTCT
1 TTTTAATTAATAAACATATTTCT
* *
9561948 TTTTACTTAATAAACATATTTTT
1 TTTTAATTAATAAACATATTTCT
9561971 TTTTA
1 TTTTA
9561976 TAAATTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTAATTAATAAACATATTTCT
Found at i:9563159 original size:2 final size:2
Alignment explanation
Indices: 9563152--9563195 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
9563142 TTGCATGGTG
9563152 AT AT AT AT AT AT AT AT AT AT AT AT AT AT 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
9563194 AT
1 AT
9563196 GGGATATTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9575945 original size:18 final size:17
Alignment explanation
Indices: 9575922--9575960 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
9575912 AAGGGATATT
9575922 TTAATTAATAATAATTAG
1 TTAATTAATAATAA-TAG
* *
9575940 TTAATTATTAATTATAG
1 TTAATTAATAATAATAG
9575957 TTAA
1 TTAA
9575961 GACTTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (17 bp):
TTAATTAATAATAATAG
Found at i:9576138 original size:2 final size:2
Alignment explanation
Indices: 9576131--9576159 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9576121 CAAACCTGAA
9576131 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
9576160 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9581702 original size:29 final size:28
Alignment explanation
Indices: 9581684--9581737 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
9581674 AAGTTTTAAG
9581684 TTTTAATAATAAATTATAAAAAATTAAAA
1 TTTTAA-AATAAATTATAAAAAATTAAAA
*
9581713 TTTTAACATAAATTAT-AAAAATTAA
1 TTTTAAAATAAATTATAAAAAATTAA
9581738 TTTTTTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 9 0.38
28 9 0.38
29 6 0.25
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (28 bp):
TTTTAAAATAAATTATAAAAAATTAAAA
Found at i:9582136 original size:44 final size:44
Alignment explanation
Indices: 9582088--9582172 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
9582078 ACCAAATTAC
*
9582088 ATAATAAATATTCCTACCTTATTCTGTTCTTATAAAATAATCAT
1 ATAATAAATATTCATACCTTATTCTGTTCTTATAAAATAATCAT
* *
9582132 ATAATAAATATTCATATCTTATTCTGTTTTTATAAAATAAT
1 ATAATAAATATTCATACCTTATTCTGTTCTTATAAAATAAT
9582173 TATTCTATTC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.46
Consensus pattern (44 bp):
ATAATAAATATTCATACCTTATTCTGTTCTTATAAAATAATCAT
Found at i:9589323 original size:31 final size:31
Alignment explanation
Indices: 9589288--9589380 Score: 186
Period size: 31 Copynumber: 3.0 Consensus size: 31
9589278 TAATTTTTAA
9589288 TTAAGAAATTAAAATGAAAAATATATATCGT
1 TTAAGAAATTAAAATGAAAAATATATATCGT
9589319 TTAAGAAATTAAAATGAAAAATATATATCGT
1 TTAAGAAATTAAAATGAAAAATATATATCGT
9589350 TTAAGAAATTAAAATGAAAAATATATATCGT
1 TTAAGAAATTAAAATGAAAAATATATATCGT
9589381 ATTTGAAAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.32
Consensus pattern (31 bp):
TTAAGAAATTAAAATGAAAAATATATATCGT
Found at i:9600883 original size:20 final size:20
Alignment explanation
Indices: 9600858--9600914 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
9600848 AGGTTTGATG
9600858 AATATTAATATTTAACTTAA
1 AATATTAATATTTAACTTAA
* *
9600878 AATATTAA-A--AAATTTAA
1 AATATTAATATTTAACTTAA
*
9600895 AATAATAATATTTAACTTAA
1 AATATTAATATTTAACTTAA
9600915 CAAAATTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 13 0.45
18 1 0.03
19 1 0.03
20 14 0.48
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
AATATTAATATTTAACTTAA
Found at i:9600988 original size:19 final size:19
Alignment explanation
Indices: 9600961--9601027 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 19
9600951 AAAATATAAA
*
9600961 TATTTAAATTATTCAATAC
1 TATTAAAATTATTCAATAC
*** **
9600980 TATTAAAATTAAAAAATTT
1 TATTAAAATTATTCAATAC
*
9600999 TAATAAAATTATTCAATAC
1 TATTAAAATTATTCAATAC
9601018 -AGTTAAAATT
1 TA-TTAAAATT
9601028 TTTTATTTAT
Statistics
Matches: 34, Mismatches: 13, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
18 1 0.03
19 33 0.97
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (19 bp):
TATTAAAATTATTCAATAC
Found at i:9614828 original size:14 final size:13
Alignment explanation
Indices: 9614809--9614841 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
9614799 ATTGAATGCT
9614809 CTTTTTTTTTCTTA
1 CTTTTTTTTT-TTA
9614823 C-TTTTTTTTTTA
1 CTTTTTTTTTTTA
9614835 CTTTTTT
1 CTTTTTT
9614842 ACTTTTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.22
13 13 0.72
14 1 0.06
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (13 bp):
CTTTTTTTTTTTA
Found at i:9614829 original size:13 final size:12
Alignment explanation
Indices: 9614811--9614841 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
9614801 TGAATGCTCT
9614811 TTTTTTTTCTTAC
1 TTTTTTTT-TTAC
9614824 TTTTTTTTTTAC
1 TTTTTTTTTTAC
9614836 TTTTTT
1 TTTTTT
9614842 ACTTTTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTTAC
Found at i:9616095 original size:29 final size:27
Alignment explanation
Indices: 9616021--9616172 Score: 69
Period size: 29 Copynumber: 5.3 Consensus size: 27
9616011 GGCATTAAAG
* * *
9616021 TGTAACAAAAATTTTTTGAACATGGCG
1 TGTAACAAAAATTTTTTCAACATAGCA
* *
9616048 TGTAACAAGAATATGTTTTCAACATAGTA
1 TGTAACAA-AA-ATTTTTTCAACATAGCA
*
9616077 TGTAACAACAACATTTTTTTTTTCAACATAGCT
1 TGTAACAA-AA-A----TTTTTTCAACATAGCA
** *
9616110 TGTAAC----ATGTTTTTGTACATGGCA
1 TGTAACAAAAAT-TTTTTCAACATAGCA
*
9616134 TGTAACAATAATATTTTTTTTCAACATGGCA
1 TGTAACAA-AA-A--TTTTTTCAACATAGCA
9616165 TGTAACAA
1 TGTAACAA
9616173 TTTTTTTAAT
Statistics
Matches: 94, Mismatches: 16, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
23 1 0.01
24 17 0.18
27 9 0.10
28 2 0.02
29 23 0.24
30 1 0.01
31 21 0.22
32 1 0.01
33 19 0.20
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (27 bp):
TGTAACAAAAATTTTTTCAACATAGCA
Found at i:9616411 original size:29 final size:30
Alignment explanation
Indices: 9616379--9616437 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
9616369 AAAATGTTTA
9616379 TTCTTTT-ATTAT-TATTTTTCTCTTTTTTT
1 TTCTTTTCATTATCT-TTTTTCTCTTTTTTT
*
9616408 TTCTTTTCCTTTATCTTTTTTCTCTTTTTT
1 TTCTTTT-CATTATCTTTTTTCTCTTTTTT
9616438 CTCAAATGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 7 0.27
31 18 0.69
32 1 0.04
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (30 bp):
TTCTTTTCATTATCTTTTTTCTCTTTTTTT
Found at i:9624813 original size:2 final size:2
Alignment explanation
Indices: 9624806--9624834 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9624796 TACATTTCAA
9624806 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
9624835 AACTTATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9626073 original size:51 final size:51
Alignment explanation
Indices: 9625930--9626073 Score: 130
Period size: 51 Copynumber: 2.8 Consensus size: 51
9625920 ATCATGATAG
* * * * *
9625930 ACATGCGCCCTT-TCACTCACACATGGCTACCTTCCATCATCAATACTGTGATAG
1 ACATGTGCCCTTCT-ACTCACACATGGCTA---TCCATAATCAATACTATGACAA
* * * ***
9625984 ACATGTGCCCTTTTACTCACACATGGTTGTCTGCAATCAATACTATGACAA
1 ACATGTGCCCTTCTACTCACACATGGCTATCCATAATCAATACTATGACAA
9626035 ACATGTGCCCTTCTAC-CTACACATGGCTATCCATAATCA
1 ACATGTGCCCTTCTACTC-ACACATGGCTATCCATAATCA
9626074 TCGTTATCAA
Statistics
Matches: 72, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
50 1 0.01
51 46 0.64
54 24 0.33
55 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.29
Consensus pattern (51 bp):
ACATGTGCCCTTCTACTCACACATGGCTATCCATAATCAATACTATGACAA
Found at i:9629045 original size:23 final size:21
Alignment explanation
Indices: 9629005--9629047 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9628995 AAAAAATTAA
9629005 AAAAAAAAGAGAAAAAGAAAG
1 AAAAAAAAGAGAAAAAGAAAG
*
9629026 AAAAAAATGAGGAAATAAGAAA
1 AAAAAAAAGA-GAAA-AAGAAA
9629048 AAGGAAAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 4 0.21
23 6 0.32
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.05
Consensus pattern (21 bp):
AAAAAAAAGAGAAAAAGAAAG
Found at i:9629418 original size:38 final size:38
Alignment explanation
Indices: 9629340--9629418 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 38
9629330 TCTTTATGGG
* * *
9629340 GGGTGGGGAGTGGAAACGGGGACTAAGTGTTTGATCAA
1 GGGTGGGGAGGGGAAACGGGGACTAAATGTATGATCAA
*
9629378 GGGTGGGGAGGGGATGAA-GGGG-CTAAATGTATGATTAA
1 GGGTGGGGAGGGGA--AACGGGGACTAAATGTATGATCAA
9629416 GGG
1 GGG
9629419 AGACAGATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
38 29 0.83
39 4 0.11
40 2 0.06
ACGTcount: A:0.27, C:0.05, G:0.48, T:0.20
Consensus pattern (38 bp):
GGGTGGGGAGGGGAAACGGGGACTAAATGTATGATCAA
Found at i:9639610 original size:11 final size:11
Alignment explanation
Indices: 9639579--9639604 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9639569 AAATCATTGT
9639579 ATTTGCAACGG
1 ATTTGCAACGG
9639590 ATTTGCAACGG
1 ATTTGCAACGG
9639601 ATTT
1 ATTT
9639605 CTAACGAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (11 bp):
ATTTGCAACGG
Found at i:9641938 original size:29 final size:29
Alignment explanation
Indices: 9641896--9641952 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
9641886 TCCCAGACCC
*
9641896 CAGCTGCCGGCCTACCACGCCAAGCTCGT
1 CAGCTGCCGACCTACCACGCCAAGCTCGT
*
9641925 CAGCTGTCGACCTACCACGCCAAGCTCG
1 CAGCTGCCGACCTACCACGCCAAGCTCG
9641953 GGTCCTTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.19, C:0.44, G:0.23, T:0.14
Consensus pattern (29 bp):
CAGCTGCCGACCTACCACGCCAAGCTCGT
Done.