Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 39 of 770
Found at i:11248678 original size:11 final size:11
Alignment explanation
Indices: 11248656--11248685 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
11248646 AAGAATGGTT
11248656 TTTGAGAAATGA
1 TTTGA-AAATGA
11248668 TTTGAAAATGA
1 TTTGAAAATGA
11248679 TTTGAAA
1 TTTGAAA
11248686 TAATTTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (11 bp):
TTTGAAAATGA
Found at i:11252847 original size:24 final size:25
Alignment explanation
Indices: 11252820--11252866 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
11252810 GGTGATTCAG
*
11252820 ATACTAAAGGACAT-TTGAGGGGCT
1 ATACTAAAGGACATGTGGAGGGGCT
*
11252844 ATACTAGAGGACATGTGGAGGGG
1 ATACTAAAGGACATGTGGAGGGG
11252867 TTGCATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.32, C:0.11, G:0.36, T:0.21
Consensus pattern (25 bp):
ATACTAAAGGACATGTGGAGGGGCT
Found at i:11262054 original size:23 final size:23
Alignment explanation
Indices: 11262028--11262074 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
11262018 TATTAGTTTA
* *
11262028 AAATGAAAT-AATATATAGTAAAT
1 AAAT-AAATAAATAAATAATAAAT
11262051 AAATAAATAAATAAATAATAAAT
1 AAATAAATAAATAAATAATAAAT
11262074 A
1 A
11262075 TATATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (23 bp):
AAATAAATAAATAAATAATAAAT
Found at i:11262055 original size:4 final size:4
Alignment explanation
Indices: 11262046--11262074 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
11262036 TAATATATAG
11262046 TAAA TAAA TAAA TAAA TAAA T-AA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
11262075 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:11262059 original size:19 final size:18
Alignment explanation
Indices: 11262028--11262080 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 18
11262018 TATTAGTTTA
11262028 AAATGAAAT-AATATATAGT
1 AAAT-AAATAAATATATA-T
11262047 AAATAAATAAATA-A-AT
1 AAATAAATAAATATATAT
11262063 AAAT-AATAAATATATAT
1 AAATAAATAAATATATAT
11262080 A
1 A
11262081 TATAGTGTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 8 0.26
16 6 0.19
17 4 0.13
18 5 0.16
19 8 0.26
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (18 bp):
AAATAAATAAATATATAT
Found at i:11262401 original size:10 final size:10
Alignment explanation
Indices: 11262313--11262402 Score: 57
Period size: 10 Copynumber: 9.2 Consensus size: 10
11262303 ATTAATAAAT
*
11262313 ATAATATATG
1 ATAATATATA
11262323 A-AA-ATATA
1 ATAATATATA
11262331 ATAATATATA
1 ATAATATATA
* *
11262341 AAAGATATGTA
1 ATA-ATATATA
11262352 A-AATA-ATA
1 ATAATATATA
* *
11262360 ATTTAAGA-AAA
1 A--TAATATATA
11262371 ATAATATATA
1 ATAATATATA
11262381 ATAAGTA-ATA
1 ATAA-TATATA
11262391 ATAATATATA
1 ATAATATATA
11262401 AT
1 AT
11262403 TAAAAATAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
8 8 0.13
9 13 0.21
10 27 0.43
11 15 0.24
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (10 bp):
ATAATATATA
Found at i:11262401 original size:17 final size:17
Alignment explanation
Indices: 11262292--11262413 Score: 60
Period size: 17 Copynumber: 7.2 Consensus size: 17
11262282 TATAAACAAT
11262292 ATATATAAGTAATTAATA
1 ATATATAAGTAA-TAATA
11262310 A-ATATAA-T-AT-ATGA
1 ATATATAAGTAATAAT-A
*
11262324 AAATATAA-TAATATATA
1 ATATATAAGTAATA-ATA
* * *
11262341 AAAGATATGTAA-AATA
1 ATATATAAGTAATAATA
* *
11262357 ATAATTTAAG-AAAAATAA
1 AT-ATATAAGTAATAAT-A
11262375 TATATAATAAGTAATAATA
1 -ATAT-ATAAGTAATAATA
* *
11262394 ATATATAATTAAAAATA
1 ATATATAAGTAATAATA
11262411 ATA
1 ATA
11262414 CTTATAACAA
Statistics
Matches: 82, Mismatches: 10, Indels: 25
0.70 0.09 0.21
Matches are distributed among these distances:
13 2 0.02
14 3 0.04
15 8 0.10
16 9 0.11
17 35 0.43
18 13 0.16
19 7 0.09
20 5 0.06
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (17 bp):
ATATATAAGTAATAATA
Found at i:11262402 original size:44 final size:44
Alignment explanation
Indices: 11262256--11262402 Score: 112
Period size: 44 Copynumber: 3.3 Consensus size: 44
11262246 TATAAGAAAA
* * * *
11262256 AATAATAGATATAATATGAAGTAACATATAAACAATATAT-ATAAGT
1 AATAATAAATATAATAT-ATG-AAAATAT-AATAATATATAATAAGT
11262302 AATTAATAAATATAATATATGAAAATATAATAATATATAA-AAG-
1 AA-TAATAAATATAATATATGAAAATATAATAATATATAATAAGT
* *
11262345 -ATATGTAAA-ATAATA-ATTTAAGAA-A-AATAATATATAATAAGT
1 AATA-ATAAATATAATATA-TGAA-AATATAATAATATATAATAAGT
11262387 AATAATAATATATAAT
1 AATAATAA-ATATAAT
11262403 TAAAAATAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 22
0.74 0.06 0.19
Matches are distributed among these distances:
40 13 0.15
41 15 0.18
42 10 0.12
43 4 0.05
44 17 0.20
45 7 0.08
46 4 0.05
47 14 0.17
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (44 bp):
AATAATAAATATAATATATGAAAATATAATAATATATAATAAGT
Found at i:11262410 original size:20 final size:21
Alignment explanation
Indices: 11262328--11262413 Score: 78
Period size: 20 Copynumber: 4.3 Consensus size: 21
11262318 ATATGAAAAT
11262328 ATAATAATATATAA--AAGATA
1 ATAATAATATATAATTAAGA-A
*
11262348 TGTAA-AATA-ATAATTTAAGAA
1 -ATAATAATATATAA-TTAAGAA
*
11262369 A-AATAATATATAA-TAAGTA
1 ATAATAATATATAATTAAGAA
11262388 ATAATAATATATAATTAA-AA
1 ATAATAATATATAATTAAGAA
11262408 ATAATA
1 ATAATA
11262414 CTTATAACAA
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
19 12 0.22
20 27 0.50
21 11 0.20
22 4 0.07
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
ATAATAATATATAATTAAGAA
Found at i:11262428 original size:37 final size:32
Alignment explanation
Indices: 11262351--11262429 Score: 77
Period size: 37 Copynumber: 2.2 Consensus size: 32
11262341 AAAGATATGT
*
11262351 AAAATAATAATTTAAGAAAAATAATATATAAT
1 AAAATAATAATTTAAGAAAAATAATATATAAC
*
11262383 AAGTAATAATAATATATAATTAAAAATAATACTTATAAC
1 AA--AATAATAAT-T-TAA-GAAAAATAATA--TATAAC
11262422 AAAATAAT
1 AAAATAAT
11262430 TTTATAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
32 2 0.05
34 9 0.24
35 1 0.03
36 3 0.08
37 16 0.42
39 7 0.18
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (32 bp):
AAAATAATAATTTAAGAAAAATAATATATAAC
Found at i:11264634 original size:119 final size:119
Alignment explanation
Indices: 11264160--11264630 Score: 757
Period size: 119 Copynumber: 4.0 Consensus size: 119
11264150 CTTGAGTCTG
* * * *
11264160 TTTGAGAACATTTGAGAGTCATATCTG-TAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATA
1 TTTGAGAACGTCTGAGAGTCAAATCTGCT-ATGTCCTCGATTTGTTTCTTGTAAACACAAGAATA
* *
11264224 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGTTTATATCTGCTATA
65 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* * *
11264279 TTTGAGAACGTCTAAGAGTCAAATCTGGC-ATGTCCTTGATTTGTTTCTTGTAAACATAAGAATA
1 TTTGAGAACGTCTGAGAGTCAAATCT-GCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATA
*
11264343 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATA
65 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
11264398 TTTGTGAATGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* *
11264463 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTGTA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
11264517 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACACAAGAACAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
*
11264582 CAAATCATCTTGGATCTGCTTCAGTAAAAACATCTGAAGGTTAGATCTG
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTG
11264631 TTGTCTTCAA
Statistics
Matches: 326, Mismatches: 23, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
118 2 0.01
119 323 0.99
120 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:11276468 original size:19 final size:19
Alignment explanation
Indices: 11276437--11276489 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 19
11276427 TATTAGTTTA
11276437 AAATGAAAT-AATATATAGT
1 AAAT-AAATAAATATATAGT
11276456 AAATAAATAAATA-AT--T
1 AAATAAATAAATATATAGT
*
11276472 -AATAAATATATATATAGT
1 AAATAAATAAATATATAGT
11276490 GTGGGTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
15 11 0.38
16 3 0.10
18 7 0.24
19 8 0.28
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (19 bp):
AAATAAATAAATATATAGT
Found at i:11276540 original size:20 final size:20
Alignment explanation
Indices: 11276497--11276550 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
11276487 AGTGTGGGTT
* *
11276497 AAAAATATGATTTAATAATA
1 AAAAATATAATATAATAATA
*
11276517 ATAATATATATAATATAATCATA
1 A-AA-A-ATATAATATAATAATA
11276540 AAAAATATAAT
1 AAAAATATAAT
11276551 TGGCGATACA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 8 0.29
21 3 0.11
22 3 0.11
23 14 0.50
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAAATATAATATAATAATA
Found at i:11276581 original size:2 final size:2
Alignment explanation
Indices: 11276574--11276610 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
11276564 TATACATAAC
11276574 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11276611 AAATAAATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11276817 original size:10 final size:10
Alignment explanation
Indices: 11276804--11276836 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
11276794 ATTTAAGAAA
11276804 AATAATATAT
1 AATAATATAT
11276814 AATAAGTA-AT
1 AATAA-TATAT
11276824 AATAATATAT
1 AATAATATAT
11276834 AAT
1 AAT
11276837 TAAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.10
10 17 0.81
11 2 0.10
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (10 bp):
AATAATATAT
Found at i:11276835 original size:17 final size:18
Alignment explanation
Indices: 11276804--11276847 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
11276794 ATTTAAGAAA
11276804 AATAAT-ATATAATAAGT
1 AATAATAATATAATAAGT
*
11276821 AATAATAATAT-ATAATT
1 AATAATAATATAATAAGT
*
11276838 AAAAATAATA
1 AATAATAATA
11276848 CTTATAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AATAATAATATAATAAGT
Found at i:11276844 original size:20 final size:20
Alignment explanation
Indices: 11276718--11276847 Score: 72
Period size: 20 Copynumber: 6.2 Consensus size: 20
11276708 ACATATAAAC
*
11276718 AATATATATATATATAAGTAATT
1 AATA-ATATATA-ATAAG-AAAT
11276741 AATAA-ATATAATATATGAAAATAT
1 AATAATATATAATA-A-G--AA-AT
*
11276765 AATAATATATAA-AAGAGAT
1 AATAATATATAATAAGAAAT
* * *
11276784 -GTAAAATAAAATTTAAGAAA-
1 AATAATATATAA--TAAGAAAT
*
11276804 AATAATATATAATAAGTAAT
1 AATAATATATAATAAGAAAT
11276824 AATAATATATAATTAA-AAAT
1 AATAATATATAA-TAAGAAAT
11276844 AATA
1 AATA
11276848 CTTATAACAA
Statistics
Matches: 84, Mismatches: 12, Indels: 25
0.69 0.10 0.21
Matches are distributed among these distances:
18 8 0.10
19 8 0.10
20 23 0.27
21 22 0.26
22 3 0.04
23 7 0.08
24 7 0.08
25 6 0.07
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
AATAATATATAATAAGAAAT
Found at i:11279385 original size:40 final size:40
Alignment explanation
Indices: 11279321--11279589 Score: 242
Period size: 39 Copynumber: 6.8 Consensus size: 40
11279311 GCTACTCGTT
* * * * ***
11279321 CAAACGCCTTCGAGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
11279361 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * *** *
11279401 CAATTGCCTTCGGG-CTTAGCCCGGATATTATGGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * *
11279440 CCATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *** *
11279479 CAATTGCCTTCGGG-CTTAGCCCGGATATCATGGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
11279518 CCATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
11279557 CAATTGCCTTTGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
11279590 TTCGCACATT
Statistics
Matches: 198, Mismatches: 31, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
39 154 0.78
40 44 0.22
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:11279438 original size:39 final size:39
Alignment explanation
Indices: 11279357--11279597 Score: 347
Period size: 39 Copynumber: 6.2 Consensus size: 39
11279347 TATGGTAACC
* *
11279357 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* ***
11279397 CGCACAATTGCCTTCGGGCTTAGCCCGGATATTATGGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
11279436 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
***
11279475 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATGGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
11279514 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* * *
11279553 CGGACAATTGCCTTTGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
11279592 CGCACA
1 CGCACA
11279598 TTCATACACA
Statistics
Matches: 177, Mismatches: 24, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
39 160 0.90
40 17 0.10
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:11279596 original size:78 final size:78
Alignment explanation
Indices: 11279365--11279586 Score: 399
Period size: 78 Copynumber: 2.8 Consensus size: 78
11279355 CCCGCACAAA
* *
11279365 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATT
1 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
11279430 ATGGCTCGCACCAT
65 ATGGCTCGCACCAT
11279444 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
11279509 TGGCTCGCACCAT
66 TGGCTCGCACCAT
* *
11279522 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGGACAATTGCCTTTGGGCTTAGCCCGGATATCA
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
11279587 CAATTCGCAC
Statistics
Matches: 139, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
78 129 0.93
79 10 0.07
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.25
Consensus pattern (78 bp):
TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
TGGCTCGCACCAT
Found at i:11287442 original size:39 final size:39
Alignment explanation
Indices: 11287353--11287593 Score: 356
Period size: 39 Copynumber: 6.2 Consensus size: 39
11287343 TATGGTAACC
* *
11287353 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * ***
11287393 CGTACAATTGCCTTCGGGCTTAGCCCGGATATTATGGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
11287432 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
***
11287471 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATGGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
11287510 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
11287549 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
11287588 CGCACA
1 CGCACA
11287594 TTCATACACA
Statistics
Matches: 178, Mismatches: 23, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
39 162 0.91
40 16 0.09
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:11287592 original size:78 final size:78
Alignment explanation
Indices: 11287361--11287582 Score: 408
Period size: 78 Copynumber: 2.8 Consensus size: 78
11287351 CCCGCACAAA
* * *
11287361 TGCCTTCGGGACTTAACCCGGATATCACAACTCGTACAATTGCCTTCGGGCTTAGCCCGGATATT
1 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATC
11287426 ATGGCTCGCACCAT
65 ATGGCTCGCACCAT
11287440 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
11287505 TGGCTCGCACCAT
66 TGGCTCGCACCAT
11287518 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
11287583 CAATTCGCAC
Statistics
Matches: 140, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
78 130 0.93
79 10 0.07
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.25
Consensus pattern (78 bp):
TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
TGGCTCGCACCAT
Found at i:11291450 original size:80 final size:80
Alignment explanation
Indices: 11291346--11291504 Score: 309
Period size: 80 Copynumber: 2.0 Consensus size: 80
11291336 TACACCATAA
11291346 TCCAATCATTAATTCAACCACAAGCAAAAATACAGTCGACCTTAATGCAAACAAAATGAACCCCT
1 TCCAATCATTAATTCAACCACAAGCAAAAATACAGTCGACCTTAATGCAAACAAAATGAACCCCT
*
11291411 ACCAGGCATTTGATT
66 ACAAGGCATTTGATT
11291426 TCCAATCATTAATTCAACCACAAGCAAAAATACAGTCGACCTTAATGCAAACAAAATGAACCCCT
1 TCCAATCATTAATTCAACCACAAGCAAAAATACAGTCGACCTTAATGCAAACAAAATGAACCCCT
11291491 ACAAGGCATTTGAT
66 ACAAGGCATTTGAT
11291505 CGCTTACCCC
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.42, C:0.26, G:0.10, T:0.22
Consensus pattern (80 bp):
TCCAATCATTAATTCAACCACAAGCAAAAATACAGTCGACCTTAATGCAAACAAAATGAACCCCT
ACAAGGCATTTGATT
Found at i:11294437 original size:16 final size:16
Alignment explanation
Indices: 11294418--11294450 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11294408 TAGTTTTTTT
11294418 TAAAAAAATGAATGAA
1 TAAAAAAATGAATGAA
*
11294434 TAAATAAATGAATGAA
1 TAAAAAAATGAATGAA
11294450 T
1 T
11294451 GAGCAAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (16 bp):
TAAAAAAATGAATGAA
Found at i:11295253 original size:13 final size:13
Alignment explanation
Indices: 11295235--11295284 Score: 64
Period size: 14 Copynumber: 3.7 Consensus size: 13
11295225 TAGTTAACAA
11295235 AAATGAAAAAAAG
1 AAATGAAAAAAAG
11295248 AAATGAAAAAAACG
1 AAATGAAAAAAA-G
*
11295262 AAATGAAAACCAAG
1 AAATGAAAA-AAAG
*
11295276 AAAAGAAAA
1 AAATGAAAA
11295285 TCGGAGATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
13 12 0.36
14 19 0.58
15 2 0.06
ACGTcount: A:0.74, C:0.06, G:0.14, T:0.06
Consensus pattern (13 bp):
AAATGAAAAAAAG
Found at i:11309382 original size:14 final size:14
Alignment explanation
Indices: 11309363--11309392 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11309353 TTATATCGAG
11309363 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
11309377 ACCAATCCAATTCA
1 ACCAATCCAAATCA
11309391 AC
1 AC
11309393 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:11318125 original size:16 final size:17
Alignment explanation
Indices: 11318104--11318136 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11318094 CACATTGAAG
11318104 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
11318120 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
11318137 CTTCTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:11318825 original size:27 final size:28
Alignment explanation
Indices: 11318786--11318840 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
11318776 CCCTATTCAG
* * *
11318786 ATATCAGTGTTAA-CTGGGCCTTAGCCC
1 ATATCAATATTAATCTGGGCCATAGCCC
11318813 ATATCAATATTAATCTGGGCCATAGCCC
1 ATATCAATATTAATCTGGGCCATAGCCC
11318841 CTTACAGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (28 bp):
ATATCAATATTAATCTGGGCCATAGCCC
Found at i:11318892 original size:60 final size:60
Alignment explanation
Indices: 11318800--11318936 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 60
11318790 CAGTGTTAAC
* *
11318800 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGTATC-AGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATAT
* * *
11318861 TGGGCCTAGCCCATATCAGTATCAATTTGGGCCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
*
11318921 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
11318937 TAACACAGTT
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
60 52 0.78
61 13 0.19
62 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
Found at i:11321350 original size:19 final size:18
Alignment explanation
Indices: 11321313--11321356 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
11321303 ATACATGCAG
11321313 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
11321330 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
11321349 TACTAATT
1 TAATAATT
11321357 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:11322038 original size:26 final size:26
Alignment explanation
Indices: 11322002--11322057 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
11321992 GGAGCAAGAA
*
11322002 CAAAACGTATCTTATAAATAGACATT
1 CAAAACATATCTTATAAATAGACATT
11322028 CAAAACATATCTTATAAATAGACATT
1 CAAAACATATCTTATAAATAGACATT
11322054 CAAA
1 CAAA
11322058 TCCAAAAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.50, C:0.16, G:0.05, T:0.29
Consensus pattern (26 bp):
CAAAACATATCTTATAAATAGACATT
Found at i:11322367 original size:15 final size:16
Alignment explanation
Indices: 11322347--11322376 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11322337 ACCGTTCGAT
11322347 ATTTTTAGA-AAAAAA
1 ATTTTTAGATAAAAAA
11322362 ATTTTTAGATAAAAA
1 ATTTTTAGATAAAAA
11322377 CTGTCATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (16 bp):
ATTTTTAGATAAAAAA
Found at i:11322731 original size:35 final size:35
Alignment explanation
Indices: 11322685--11322751 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
11322675 AAATAGAGAT
11322685 TCGGGCCTAAGCCCAT-T-ACAGATACAGATACAAAC
1 TCGGGCCTAAGCCCATCTCA-AG-TACAGATACAAAC
11322720 TCGGGCCTAAGCCCATCTCAAGTACAGATACA
1 TCGGGCCTAAGCCCATCTCAAGTACAGATACA
11322752 GATATACAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
35 26 0.87
36 3 0.10
37 1 0.03
ACGTcount: A:0.34, C:0.30, G:0.18, T:0.18
Consensus pattern (35 bp):
TCGGGCCTAAGCCCATCTCAAGTACAGATACAAAC
Found at i:11327691 original size:29 final size:29
Alignment explanation
Indices: 11327655--11327728 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
11327645 CGGTATATAA
*
11327655 TACCTGATAAATATAACACCG-TCACATAG
1 TACCTGATAAATATAACACCGAT-ACAAAG
* * *
11327684 TTCTTGATAAATATAACACTGATACAAAG
1 TACCTGATAAATATAACACCGATACAAAG
11327713 TACCTGATAAATATAA
1 TACCTGATAAATATAA
11327729 TCATTGGCAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 37 0.97
30 1 0.03
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (29 bp):
TACCTGATAAATATAACACCGATACAAAG
Found at i:11329836 original size:11 final size:11
Alignment explanation
Indices: 11329820--11329863 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
11329810 TTTAATAGCG
11329820 TGATACTTTTA
1 TGATACTTTTA
11329831 TGATACTTTTA
1 TGATACTTTTA
* *
11329842 TGAGA-TATT-
1 TGATACTTTTA
11329851 TGATACTTTTA
1 TGATACTTTTA
11329862 TG
1 TG
11329864 CTTGGTATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
9 4 0.15
10 6 0.22
11 17 0.63
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.52
Consensus pattern (11 bp):
TGATACTTTTA
Found at i:11333825 original size:26 final size:26
Alignment explanation
Indices: 11333789--11333924 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
11333779 CATGATATTC
11333789 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
11333815 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11333841 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11333867 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
11333893 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
11333919 TTATCA
1 TTATCA
11333925 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:11337462 original size:20 final size:20
Alignment explanation
Indices: 11337437--11337475 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11337427 CAAGAGAGAA
11337437 AAAAAAAACAAGATTTCATT
1 AAAAAAAACAAGATTTCATT
**
11337457 AAAAAAAATTAGATTTCAT
1 AAAAAAAACAAGATTTCAT
11337476 GTGCAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (20 bp):
AAAAAAAACAAGATTTCATT
Found at i:11341661 original size:84 final size:84
Alignment explanation
Indices: 11341503--11341662 Score: 191
Period size: 84 Copynumber: 1.9 Consensus size: 84
11341493 GATTTTCTTT
* * * * * *
11341503 AAAATGAAAAATTTTTCATTTATATTTATTTATAATTTATAAAATTTTAAATTAATAATGGTAAA
1 AAAATGAAAAATATTTAATTTATATTTATTTAAAATTTATAAAAATATAAATTAAAAATGGTAAA
* *
11341568 ATTATATTTTAGCTTCTCA
66 ACTACATTTTAGCTTCTCA
*
11341587 AAAATGATAAAA-ATTTAATTTA-ATTT-TTTAAAATTTATAAAAATATAAATTATTAAAATGTT
1 AAAATGA-AAAATATTTAATTTATATTTATTTAAAATTTATAAAAATATAAATTA--AAAATGGT
11341649 AAAACTACATTTTA
63 AAAACTACATTTTA
11341663 ATTATAATAA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
82 23 0.36
83 4 0.06
84 33 0.52
85 4 0.06
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (84 bp):
AAAATGAAAAATATTTAATTTATATTTATTTAAAATTTATAAAAATATAAATTAAAAATGGTAAA
ACTACATTTTAGCTTCTCA
Found at i:11341918 original size:11 final size:10
Alignment explanation
Indices: 11341902--11341941 Score: 62
Period size: 11 Copynumber: 3.8 Consensus size: 10
11341892 TTTTTAAATA
11341902 TATTATTTAT
1 TATTATTTAT
11341912 GTATTATTTAT
1 -TATTATTTAT
11341923 ATATTATTTAT
1 -TATTATTTAT
11341934 TATTATTT
1 TATTATTT
11341942 TTAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 8 0.29
11 20 0.71
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (10 bp):
TATTATTTAT
Found at i:11341926 original size:22 final size:21
Alignment explanation
Indices: 11341899--11341941 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 21
11341889 AAATTTTTAA
11341899 ATATATTATTTATGTATTATTT
1 ATATATTATTTAT-TATTATTT
11341921 ATATATTATTTATTATTATTT
1 ATATATTATTTATTATTATTT
11341942 TTAGATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
ATATATTATTTATTATTATTT
Found at i:11353532 original size:12 final size:12
Alignment explanation
Indices: 11353515--11353541 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11353505 GGCAGCATTC
11353515 ATTACTCACATG
1 ATTACTCACATG
11353527 ATTACTCACATG
1 ATTACTCACATG
11353539 ATT
1 ATT
11353542 GGAAGTCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.37
Consensus pattern (12 bp):
ATTACTCACATG
Found at i:11358638 original size:17 final size:17
Alignment explanation
Indices: 11358616--11358650 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
11358606 ATGGAAGGAG
11358616 ATTGTATCAGTTATGCT
1 ATTGTATCAGTTATGCT
11358633 ATTGTATCAGTTATGCT
1 ATTGTATCAGTTATGCT
11358650 A
1 A
11358651 AGAAATGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (17 bp):
ATTGTATCAGTTATGCT
Found at i:11360573 original size:44 final size:44
Alignment explanation
Indices: 11360518--11360713 Score: 270
Period size: 44 Copynumber: 4.5 Consensus size: 44
11360508 GTAGATCACT
**
11360518 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGATTAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
** * *
11360562 GATAATAGATTTGGCGTCTCTGTATTGCCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * *
11360606 GACAGCAGATTTGGCATCTCTGTA-TCTCAGAGAGCAAATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * *
11360649 GATAGTAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAC
1 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
11360693 GATAGCAGATTTGGC-TCTCTG
1 GATAGCAGATTTGGCATCTCTG
11360714 ATTTGGCGAC
Statistics
Matches: 131, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
43 43 0.33
44 88 0.67
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (44 bp):
GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
Found at i:11360663 original size:87 final size:88
Alignment explanation
Indices: 11360521--11360713 Score: 300
Period size: 87 Copynumber: 2.2 Consensus size: 88
11360511 GATCACTGAT
* ** *
11360521 AGCAGATTTGGCATCTCTGTATTGTCAGAGATTAGATCGAAGATAATAGATTTGGCGTCTCTGTA
1 AGCAGATTTGGCATCTCTGTATTCTCAGAGAGCAAATCGAAGATAATAGATTTGGCGTCTCTGTA
11360586 TTGCCAGAGAGCAGATCGAAGAC
66 TTGCCAGAGAGCAGATCGAAGAC
*
11360609 AGCAGATTTGGCATCTCTGTA-TCTCAGAGAGCAAATCGAAGATAGTAGATTTGGCGTCTCTGTA
1 AGCAGATTTGGCATCTCTGTATTCTCAGAGAGCAAATCGAAGATAATAGATTTGGCGTCTCTGTA
* * *
11360673 TTGTCAGAGAGCAGATCGACGAT
66 TTGCCAGAGAGCAGATCGAAGAC
11360696 AGCAGATTTGGC-TCTCTG
1 AGCAGATTTGGCATCTCTG
11360714 ATTTGGCGAC
Statistics
Matches: 97, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
86 6 0.06
87 70 0.72
88 21 0.22
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (88 bp):
AGCAGATTTGGCATCTCTGTATTCTCAGAGAGCAAATCGAAGATAATAGATTTGGCGTCTCTGTA
TTGCCAGAGAGCAGATCGAAGAC
Found at i:11360746 original size:57 final size:58
Alignment explanation
Indices: 11360656--11360771 Score: 171
Period size: 57 Copynumber: 2.0 Consensus size: 58
11360646 GAAGATAGTA
* * *
11360656 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGACGATAGCAGATTTGGC-TCTCT
1 GATTTGGCGACTCTGTATTGTCAGAGAACAGATCGACAATAGCAGATTTGGCGTCTCT
* **
11360713 GATTTGGCGACTCTGTATTGTCAGAGAATAGATCGGTAATAGCAGATTTGGCGTCTCT
1 GATTTGGCGACTCTGTATTGTCAGAGAACAGATCGACAATAGCAGATTTGGCGTCTCT
11360771 G
1 G
11360772 TATTGATGCG
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 46 0.88
58 6 0.12
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.32
Consensus pattern (58 bp):
GATTTGGCGACTCTGTATTGTCAGAGAACAGATCGACAATAGCAGATTTGGCGTCTCT
Found at i:11362485 original size:21 final size:22
Alignment explanation
Indices: 11362461--11362508 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
11362451 CTTATAAATT
11362461 TTTATTAT-TTATACATTTTAC
1 TTTATTATGTTATACATTTTAC
**
11362482 TTTA-TATGTTATTTATTTTAC
1 TTTATTATGTTATACATTTTAC
*
11362503 TATATT
1 TTTATT
11362509 CATATATGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 3 0.14
21 18 0.82
22 1 0.05
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTATTATGTTATACATTTTAC
Found at i:11362761 original size:22 final size:21
Alignment explanation
Indices: 11362723--11362766 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
11362713 TGACCTTGAA
*
11362723 TTATTATATTATGTAATGTATT
1 TTATTACATTATGTAAT-TATT
11362745 TTATTACATATAT-TAATTATT
1 TTATTACAT-TATGTAATTATT
11362766 T
1 T
11362767 CTAAAAACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 12 0.60
23 3 0.15
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (21 bp):
TTATTACATTATGTAATTATT
Found at i:11364103 original size:18 final size:18
Alignment explanation
Indices: 11364077--11364115 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11364067 TTAAATCCTA
11364077 TTTAATTAATATTT-AAAT
1 TTTAATTAA-ATTTAAAAT
*
11364095 TTTACTTAAATTTAAAAT
1 TTTAATTAAATTTAAAAT
11364113 TTT
1 TTT
11364116 CAAATTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATTAAATTTAAAAT
Found at i:11370144 original size:27 final size:27
Alignment explanation
Indices: 11370106--11370161 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
11370096 TTTTCTAGCA
11370106 TGTTGGACTCCAATTGGGACTAATCAC
1 TGTTGGACTCCAATTGGGACTAATCAC
11370133 TGTTGGACTCCAATTGGGACTAATCAC
1 TGTTGGACTCCAATTGGGACTAATCAC
11370160 TG
1 TG
11370162 GTCCTATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (27 bp):
TGTTGGACTCCAATTGGGACTAATCAC
Found at i:11372428 original size:31 final size:31
Alignment explanation
Indices: 11372384--11372449 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
11372374 TCTAATATAA
* *
11372384 TTATTGAATTATTCGAAA-GTTTTCATTTAAG
1 TTATTAAACTATTC-AAATGTTTTCATTTAAG
*
11372415 TTATTAAACTATTCAAATGTTTTTATTTAAG
1 TTATTAAACTATTCAAATGTTTTCATTTAAG
11372446 TTAT
1 TTAT
11372450 AGAACTGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 3 0.10
31 28 0.90
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (31 bp):
TTATTAAACTATTCAAATGTTTTCATTTAAG
Found at i:11376204 original size:6 final size:6
Alignment explanation
Indices: 11376187--11376227 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
11376177 CTAAATATAC
* *
11376187 ATAAAA AGAAAA ATAAAA ATAAAA ATAAAA ATAAAG ATAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAA
11376228 TGAACTCAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (6 bp):
ATAAAA
Found at i:11377963 original size:20 final size:20
Alignment explanation
Indices: 11377925--11377965 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
11377915 AAGCTAACAG
*
11377925 AATCAAAATCAAAAGAATAA
1 AATCAAAATCAAAAAAATAA
11377945 AATC-AAATCAAATAAAATAA
1 AATCAAAATCAAA-AAAATAA
11377965 A
1 A
11377966 GAATAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.71, C:0.10, G:0.02, T:0.17
Consensus pattern (20 bp):
AATCAAAATCAAAAAAATAA
Found at i:11378245 original size:2 final size:2
Alignment explanation
Indices: 11378238--11378316 Score: 149
Period size: 2 Copynumber: 39.0 Consensus size: 2
11378228 GGGTTGTGCA
11378238 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
11378280 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG ATG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG -TG TG
11378317 GGGTGGGCTT
Statistics
Matches: 76, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 74 0.97
3 2 0.03
ACGTcount: A:0.01, C:0.00, G:0.49, T:0.49
Consensus pattern (2 bp):
TG
Found at i:11381779 original size:19 final size:19
Alignment explanation
Indices: 11381747--11381784 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
11381737 GATTTTGTAC
*
11381747 TTTGGCCCATTTTCTCTGCT
1 TTTGGCCCAGTTTCT-TGCT
11381767 TTTGGCCC-GTTTCTTGCT
1 TTTGGCCCAGTTTCTTGCT
11381785 CCTTTCGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.03, C:0.29, G:0.18, T:0.50
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTTGCT
Found at i:11386202 original size:93 final size:93
Alignment explanation
Indices: 11386090--11386261 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
11386080 GCCCATAAGT
* *
11386090 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11386155 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
11386183 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11386248 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
11386262 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:11386257 original size:46 final size:46
Alignment explanation
Indices: 11386082--11386257 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
11386072 TGTAACCCGC
* * *
11386082 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
11386128 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
11386178 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
11386221 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
11386258 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:11388685 original size:30 final size:30
Alignment explanation
Indices: 11388641--11388729 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
11388631 CAAAGATAAC
11388641 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
11388670 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
11388700 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
11388730 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:11388689 original size:15 final size:15
Alignment explanation
Indices: 11388641--11388720 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
11388631 CAAAGATAAC
*
11388641 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
11388655 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
11388670 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
11388685 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
11388700 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
11388715 AAGAAA
1 AAGAAA
11388721 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:11388729 original size:15 final size:15
Alignment explanation
Indices: 11388652--11388729 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
11388642 AGAAAACCGA
11388652 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
11388667 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
11388681 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
11388696 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
11388712 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
11388727 ATA
1 ATA
11388730 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:11391789 original size:93 final size:93
Alignment explanation
Indices: 11391677--11391848 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
11391667 GCCCATAAGT
* *
11391677 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11391742 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
11391770 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11391835 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
11391849 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:11391844 original size:46 final size:46
Alignment explanation
Indices: 11391669--11391844 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
11391659 TGTAACCCGC
* * *
11391669 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
11391715 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
11391765 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
11391808 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
11391845 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:11401123 original size:33 final size:33
Alignment explanation
Indices: 11401069--11401157 Score: 146
Period size: 33 Copynumber: 2.8 Consensus size: 33
11401059 TTTTTTGCCC
*
11401069 TTAGCGGTG-TTT-TCAAGCGCCGCTAATACTT
1 TTAGCGGTGCTTTCCCAAGCGCCGCTAATACTT
11401100 TTAGCGGTGCTTTCCCAAGCGCCGCTAATACTT
1 TTAGCGGTGCTTTCCCAAGCGCCGCTAATACTT
*
11401133 TTAACGGTGCTTTCCCAAGCGCCGC
1 TTAGCGGTGCTTTCCCAAGCGCCGC
11401158 AAAAAACGTC
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
31 9 0.17
32 3 0.06
33 42 0.78
ACGTcount: A:0.18, C:0.29, G:0.22, T:0.30
Consensus pattern (33 bp):
TTAGCGGTGCTTTCCCAAGCGCCGCTAATACTT
Found at i:11401268 original size:42 final size:42
Alignment explanation
Indices: 11401209--11401436 Score: 278
Period size: 42 Copynumber: 5.3 Consensus size: 42
11401199 TTTTTTAGAA
* *
11401209 AAAAACGCTGCTAAAGACCAGGACCTTTAGCGGCGCTCTTAT
1 AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTAT
* *
11401251 AAAAACGCCGCCAAAGACCAGGACCTTTAGCGGCGTTTTTAT
1 AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTAT
* * *
11401293 AAAAACGCCGCTAAAGACCTA-TACTTTTAGCGGCGCTTTTTT
1 AAAAACGCCGCTAAAGACC-AGGACCTTTAGCGGCGCTTTTAT
* *
11401335 AAAAAACGCCGCTAGAGACCAGGACCTTTAGTGGCGCTTTTAT
1 -AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTAT
* * * * *
11401378 AAAAAACGCCGCTATAGACCTGTACTTTTAGAGGCGCTTTTAT
1 -AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTAT
11401421 AAAAAAACGCCGCTAA
1 --AAAAACGCCGCTAA
11401437 TTTTCCCAGT
Statistics
Matches: 162, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
42 74 0.46
43 74 0.46
44 14 0.09
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTAT
Found at i:11401347 original size:43 final size:43
Alignment explanation
Indices: 11401208--11401436 Score: 268
Period size: 43 Copynumber: 5.3 Consensus size: 43
11401198 GTTTTTTAGA
* * *
11401208 AAAAAACGCTGCTAAAGACCAGGACCTTTAGCGGCGCTCTTAT
1 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTT
*
11401251 -AAAAACGCCGCCAAAGACCAGGACCTTTAGCGGCG--TTTTT
1 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTT
* *
11401291 ATAAAAACGCCGCTAAAGACCTA-TACTTTTAGCGGCGCTTTTTT
1 A-AAAAACGCCGCTAAAGACC-AGGACCTTTAGCGGCGCTTTTTT
* * *
11401335 AAAAAACGCCGCTAGAGACCAGGACCTTTAGTGGCGCTTTTAT
1 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTT
* * * * * *
11401378 AAAAAACGCCGCTATAGACCTGTACTTTTAGAGGCGCTTTTATA
1 AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTT-TT
11401422 AAAAAACGCCGCTAA
1 AAAAAACGCCGCTAA
11401437 TTTTCCCAGT
Statistics
Matches: 159, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
40 3 0.02
42 64 0.40
43 72 0.45
44 20 0.13
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTT
Found at i:11401364 original size:85 final size:86
Alignment explanation
Indices: 11401208--11401436 Score: 302
Period size: 85 Copynumber: 2.7 Consensus size: 86
11401198 GTTTTTTAGA
* * * * * *
11401208 AAAAAACGCTGCTAAAGACC-AGGACCTTTAGCGGCGCTCTTAT-AAAAACGCCGCCAAAGACCA
1 AAAAAACGCCGCTAAAGACCTA-TACTTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCA
*
11401271 GGACCTTTAGCGGCGTTTTTAT
65 GGACCTTTAGCGGCGCTTTTAT
*
11401293 -AAAAACGCCGCTAAAGACCTATACTTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAGAGACCAG
1 AAAAAACGCCGCTAAAGACCTATACTTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAG
*
11401357 GACCTTTAGTGGCGCTTTTAT
66 GACCTTTAGCGGCGCTTTTAT
* * * *
11401378 AAAAAACGCCGCTATAGACCTGTACTTTTAGAGGCGCTTTTATAAAAAAACGCCGCTAA
1 AAAAAACGCCGCTAAAGACCTATACTTTTAGCGGCGCTTTT-TTAAAAAACGCCGCTAA
11401437 TTTTCCCAGT
Statistics
Matches: 126, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
84 35 0.28
85 39 0.31
86 37 0.29
87 15 0.12
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (86 bp):
AAAAAACGCCGCTAAAGACCTATACTTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAG
GACCTTTAGCGGCGCTTTTAT
Found at i:11401424 original size:86 final size:86
Alignment explanation
Indices: 11401190--11401436 Score: 327
Period size: 86 Copynumber: 2.9 Consensus size: 86
11401180 GCCACAAAAA
* * * * * *
11401190 TTAGTGGCGTTTTTTAGAAAAAAACGCTGCTAAAGACCAGGACCTTTAGCGGCGCTCTTAT-AAA
1 TTAGTGGCG-TTTTTA-TAAAAAACGCCGCTAAAGACCTGTACTTTTAGCGGCGCTTTTATAAAA
*
11401254 AACGCCGCCAAAGACCAGGACCT
64 AACGCCGCTAAAGACCAGGACCT
* * *
11401277 TTAGCGGCGTTTTTAT-AAAAACGCCGCTAAAGACCTATACTTTTAGCGGCGCTTTTTTAAAAAA
1 TTAGTGGCGTTTTTATAAAAAACGCCGCTAAAGACCTGTACTTTTAGCGGCGCTTTTATAAAAAA
*
11401341 CGCCGCTAGAGACCAGGACCT
66 CGCCGCTAAAGACCAGGACCT
* * *
11401362 TTAGTGGCGCTTTTATAAAAAACGCCGCTATAGACCTGTACTTTTAGAGGCGCTTTTATAAAAAA
1 TTAGTGGCGTTTTTATAAAAAACGCCGCTAAAGACCTGTACTTTTAGCGGCGCTTTTAT-AAAAA
11401427 ACGCCGCTAA
65 ACGCCGCTAA
11401437 TTTTCCCAGT
Statistics
Matches: 139, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
84 35 0.25
85 38 0.27
86 44 0.32
87 22 0.16
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (86 bp):
TTAGTGGCGTTTTTATAAAAAACGCCGCTAAAGACCTGTACTTTTAGCGGCGCTTTTATAAAAAA
CGCCGCTAAAGACCAGGACCT
Found at i:11402347 original size:18 final size:18
Alignment explanation
Indices: 11402315--11402352 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
11402305 TACAATATAG
11402315 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
11402334 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
11402351 TA
1 TA
11402353 CTTGATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:11407912 original size:21 final size:21
Alignment explanation
Indices: 11407888--11407927 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11407878 AAATTAATTC
*
11407888 ATACTTAAGTTGAATCAAATA
1 ATACTTAAGTTGAACCAAATA
11407909 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTGAACCAAA
11407928 ATATAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTGAACCAAATA
Found at i:11409072 original size:42 final size:42
Alignment explanation
Indices: 11409004--11409083 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
11408994 CCATAGGCCC
**
11409004 ATTTCAATATCACATATAATGTCAATGAAAGAATGCAAGCCT
1 ATTTCAATATCACATATAATACCAATGAAAGAATGCAAGCCT
* *
11409046 ATTTCAATATCACATGA-AATACCAATGAATGTATGCAA
1 ATTTCAATATCACAT-ATAATACCAATGAAAGAATGCAA
11409084 ACCCATTTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.97
43 1 0.03
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (42 bp):
ATTTCAATATCACATATAATACCAATGAAAGAATGCAAGCCT
Found at i:11409270 original size:24 final size:24
Alignment explanation
Indices: 11409231--11409471 Score: 330
Period size: 24 Copynumber: 10.2 Consensus size: 24
11409221 GGCCTTGCCT
*
11409231 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
**
11409255 C-TTTAATAACTGGGGGGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
11409278 CTTTTGATCACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
11409302 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
11409326 CTTTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* * *
11409350 CTTTTGATCACTGGGGCA-ATATCC
1 CTTTTAATAACTGGGGCATA-AGCC
*
11409374 C-TTTAATAATTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
11409397 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
11409421 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
11409444 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
11409467 CTTTT
1 CTTTT
11409472 GCATTTCCTC
Statistics
Matches: 191, Mismatches: 21, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
23 83 0.43
24 108 0.57
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:11409291 original size:47 final size:48
Alignment explanation
Indices: 11409231--11409471 Score: 339
Period size: 47 Copynumber: 5.1 Consensus size: 48
11409221 GGCCTTGCCT
* * **
11409231 CTTTTAATAACTGGGGCAAAAGCCC-TTTAATAACTGGGGGGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCC
* *
11409278 CTTTTGATCACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCC
* * *
11409326 CTTTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCA-ATATCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA-AGCC
*
11409374 C-TTTAATAATTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCC
*
11409421 C-TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCC
11409467 CTTTT
1 CTTTT
11409472 GCATTTCCTC
Statistics
Matches: 173, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
46 22 0.13
47 89 0.51
48 62 0.36
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (48 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCC
Found at i:11409543 original size:9 final size:9
Alignment explanation
Indices: 11409529--11409585 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
11409519 ATCTCATGTG
11409529 CATATCATA
1 CATATCATA
*
11409538 CATATCATGTG
1 CATATCA--TA
11409549 CATATCATA
1 CATATCATA
* *
11409558 CATGTCATGTG
1 CATATCA--TA
11409569 CATATCATA
1 CATATCATA
11409578 CATATCAT
1 CATATCAT
11409586 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:11409545 original size:20 final size:20
Alignment explanation
Indices: 11409517--11409587 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
11409507 GCATTTATGA
*
11409517 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
11409537 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
11409557 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
11409577 ACATATCATGT
1 ACATATCATGT
11409588 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:11409552 original size:11 final size:11
Alignment explanation
Indices: 11409522--11409576 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
11409512 TATGAACATC
11409522 TCATGTGCATA
1 TCATGTGCATA
*
11409533 TCA--TACATA
1 TCATGTGCATA
11409542 TCATGTGCATA
1 TCATGTGCATA
* *
11409553 TCA--TACATG
1 TCATGTGCATA
11409562 TCATGTGCATA
1 TCATGTGCATA
11409573 TCAT
1 TCAT
11409577 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:11409652 original size:25 final size:25
Alignment explanation
Indices: 11409624--11409671 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
11409614 ATATATAAAC
* *
11409624 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
11409649 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
11409672 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:11410861 original size:27 final size:27
Alignment explanation
Indices: 11410831--11410895 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
11410821 AGGCATATTC
*
11410831 GTCATTTTACCATAC-AGGGGTATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* *
11410858 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
11410885 GTCTTTTTACC
1 GTCATTTTACC
11410896 TTTTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 27 0.84
28 5 0.16
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:11410979 original size:27 final size:27
Alignment explanation
Indices: 11410949--11411151 Score: 138
Period size: 27 Copynumber: 7.4 Consensus size: 27
11410939 GTAAATCAAC
* *
11410949 AAACCAAAGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
11410976 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACCAAGGGTATTTC-AGTAA-TTTTAT
* * * *
11411004 AAAGTCAAGGGTATTTCTGTAACTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * ** *
11411032 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * *
11411059 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
** *
11411086 AAACCAAGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
11411113 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
11411140 AAATCGAGGGTA
1 AAACCAAGGGTA
11411152 AAATAGTAAT
Statistics
Matches: 142, Mismatches: 30, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
27 114 0.80
28 14 0.10
29 14 0.10
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:11411123 original size:54 final size:53
Alignment explanation
Indices: 11410926--11411151 Score: 193
Period size: 54 Copynumber: 4.2 Consensus size: 53
11410916 TTTCATCCTA
* * ** *
11410926 CAAGGGTGTTTTGGTAAATCAACAAACCAAAGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAA-TTTGTAAAC
* * * * * *
11410980 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-CCAAGGGTATTTCAGTAA-TTTGTAAAC
* *** * **
11411036 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTT-GTAAAC
* *
11411090 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAA-TTTGTAAAC
*
11411144 CGAGGGTA
1 CAAGGGTA
11411152 AAATAGTAAT
Statistics
Matches: 134, Mismatches: 32, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
53 3 0.02
54 78 0.58
55 18 0.13
56 35 0.26
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (53 bp):
CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTGTAAAC
Found at i:11411158 original size:27 final size:27
Alignment explanation
Indices: 11411130--11411448 Score: 351
Period size: 27 Copynumber: 11.8 Consensus size: 27
11411120 GGGTATTTTA
* **
11411130 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
11411157 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
11411184 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
11411211 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
11411238 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
11411265 ATAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* *
11411292 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* *
11411319 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* *
11411346 GTAATTCTGTAAGTCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
11411373 ATAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* *
11411400 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
*
11411427 GTAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
11411449 CTTTGGTAAT
Statistics
Matches: 258, Mismatches: 28, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
26 2 0.01
27 255 0.99
28 1 0.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:11411161 original size:54 final size:54
Alignment explanation
Indices: 11411103--11411262 Score: 158
Period size: 54 Copynumber: 3.0 Consensus size: 54
11411093 GGGTATTTTG
* **** * *
11411103 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATA
** * * *
11411157 GTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATA
* * * * * *
11411211 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
11411263 CGATAATTAT
Statistics
Matches: 88, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 88 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (54 bp):
GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATA
Found at i:11411470 original size:108 final size:108
Alignment explanation
Indices: 11411130--11411448 Score: 480
Period size: 108 Copynumber: 3.0 Consensus size: 108
11411120 GGGTATTTTA
* * * * * * *
11411130 GTAATTTTGTAAATCGAGGGTAAAAT-AGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTAT
1 GTAATTCTGTAAGTCGAGGGTAAAATGA-TAATTATGTAAATCAGGGGTAAAACGGTAATTATGT
* * *
11411194 AAATT-GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
65 AAATTAG-GGGTAAAACGGTAATTCTGTAAATCGGGGGTAAAACG
*
11411238 GTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACGGTAATTATGTA
1 GTAATTCTGTAAGTCGAGGGTAAAATGATAATTATGTAAATCAGGGGTAAAACGGTAATTATGTA
* **
11411303 AATTAGGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACG
66 AATTAGGGGTAAAACGGTAATTCTGTAAATCGGGGGTAAAACG
11411346 GTAATTCTGTAAGTCGAGGGTAAAATGATAATTATGTAAATCAGGGGTAAAACGGTAATTATGTA
1 GTAATTCTGTAAGTCGAGGGTAAAATGATAATTATGTAAATCAGGGGTAAAACGGTAATTATGTA
11411411 AATTAGGGGTAAAACGGTAATTCTGTAAATCGGGGGTA
66 AATTAGGGGTAAAACGGTAATTCTGTAAATCGGGGGTA
11411449 CTTTGGTAAT
Statistics
Matches: 191, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
108 189 0.99
109 2 0.01
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (108 bp):
GTAATTCTGTAAGTCGAGGGTAAAATGATAATTATGTAAATCAGGGGTAAAACGGTAATTATGTA
AATTAGGGGTAAAACGGTAATTCTGTAAATCGGGGGTAAAACG
Found at i:11411475 original size:27 final size:26
Alignment explanation
Indices: 11411445--11411543 Score: 92
Period size: 27 Copynumber: 3.7 Consensus size: 26
11411435 GTAAATCGGG
*
11411445 GGTACTTTGGTAATTTTACAAGTCGAA
1 GGTA-TTTGGTAATTTTACAAATCGAA
* *
11411472 GGTATTTTGGTAAATTTACAAATCGAG
1 GGTA-TTTGGTAATTTTACAAATCGAA
* * *
11411499 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTT-GGTAATTTTACAAATCGAA
11411525 GGGTATTTCGGTAATTTTA
1 -GGTATTT-GGTAATTTTA
11411544 GTAAACTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
26 5 0.08
27 54 0.92
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (26 bp):
GGTATTTGGTAATTTTACAAATCGAA
Found at i:11411557 original size:27 final size:27
Alignment explanation
Indices: 11411500--11411558 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
11411490 CAAATCGAGG
* *
11411500 GTATTTCAGTATTTTTACAAACTAAGG
1 GTATTTCAGTAATTTTACAAACTAAGA
* *
11411527 GTATTTCGGTAATTTTAGTAAACTAA-A
1 GTATTTCAGTAATTTTA-CAAACTAAGA
11411554 GTATT
1 GTATT
11411559 CTAAACAGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.42
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAACTAAGA
Found at i:11416780 original size:39 final size:38
Alignment explanation
Indices: 11416736--11416809 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
11416726 CGCCGTTTCA
* *
11416736 AATAAGGAAAATTTGTGGCGTTTTCAGCAACGCGCCGCT
1 AATAA-GAAAATTTGCGGCGTTTTCAGCAAAGCGCCGCT
***
11416775 AATAAGACCTTTTGCGGCGTTTTCAGCAAAGCGCC
1 AATAAGAAAATTTGCGGCGTTTTCAGCAAAGCGCC
11416810 AGTAACACCT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
38 25 0.83
39 5 0.17
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (38 bp):
AATAAGAAAATTTGCGGCGTTTTCAGCAAAGCGCCGCT
Found at i:11417299 original size:10 final size:10
Alignment explanation
Indices: 11417281--11417332 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
11417271 ACCACTTTTC
*
11417281 ATATATATAT
1 ATATTTATAT
11417291 ATATTTATAT
1 ATATTTATAT
*
11417301 ATATTTTAAAAT
1 ATA-TTT-ATAT
11417313 AATATTTTATAT
1 -ATA-TTTATAT
11417325 ATATTTAT
1 ATATTTAT
11417333 CTTATATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 17 0.47
11 6 0.17
12 6 0.17
13 7 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
ATATTTATAT
Found at i:11417339 original size:15 final size:15
Alignment explanation
Indices: 11417319--11417350 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11417309 AAATAATATT
*
11417319 TTATATATATTTATC
1 TTATATACATTTATC
11417334 TTATATACATTTATC
1 TTATATACATTTATC
11417349 TT
1 TT
11417351 TTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:11418444 original size:41 final size:41
Alignment explanation
Indices: 11418397--11418779 Score: 443
Period size: 41 Copynumber: 9.4 Consensus size: 41
11418387 GGTTATGGGA
*
11418397 TTTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* * * * *
11418438 CTTTTAGCGGTGATTTACCGAAAGCGCCACTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* *
11418479 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* *
11418520 TTTTTAGCAGCGTTTTACCAAAAGCGCCGC-AATGCTCTTG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
*
11418560 TTTTTAGCGGCGTTTTACCGAAAA-CGCTGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACC-AAAAGCGCCGCTAATGCTCTGG
* * * **
11418601 ATTTTAGCGGCGTTTTATCGAAAGCGTTGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* ** * *
11418642 ATTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGATCTAG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* *
11418683 TTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCT-A
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* * * **
11418723 TTTTTAGCGACATTTTTTACTAAAA-CGCCGCTGTTGCTCT-G
1 TTTTTAGCGGC--GTTTTACCAAAAGCGCCGCTAATGCTCTGG
*
11418764 TTTTTACCGGCGTTTT
1 TTTTTAGCGGCGTTTT
11418780 TTTTAGAACG
Statistics
Matches: 297, Mismatches: 40, Indels: 12
0.85 0.11 0.03
Matches are distributed among these distances:
39 4 0.01
40 46 0.15
41 238 0.80
42 9 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
Found at i:11418668 original size:163 final size:163
Alignment explanation
Indices: 11418396--11418731 Score: 487
Period size: 163 Copynumber: 2.1 Consensus size: 163
11418386 AGGTTATGGG
* * *
11418396 ATTTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGCTTTTAGCGGTGATTTACCGAAA
1 ATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGATTTTAGCGGCGATTTACCGAAA
* * *
11418461 GCGCCACTAATGCTCTGGCTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTGTTTTTA
66 GCGCCACTAATGCTCTGGATTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGATCTAGTTTTTA
11418526 GCAGCGTTTTACCAAAAGCGCCGC-AATGCTCTT
131 GCAGCGTTTTACCAAAAGCGCCGCTAATGCTC-T
* * * *
11418559 GTTTTTAGCGGCGTTTTACCGAAAA-CGCTGCTAATGCTCTGGATTTTAGCGGCGTTTTATCGAA
1 ATTTTTAGCGGCGTTTTACC-AAAAGCGCCGCTAATGCTCTGGATTTTAGCGGCGATTTACCGAA
*** **
11418623 AGCGTTGCTAATGCTCTGGATTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGATCTAGTTTTT
65 AGCGCCACTAATGCTCTGGATTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGATCTAGTTTTT
* *
11418688 AGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCT
130 AGCAGCGTTTTACCAAAAGCGCCGCTAATGCTCT
11418722 ATTTTTAGCG
1 ATTTTTAGCG
11418732 ACATTTTTTA
Statistics
Matches: 153, Mismatches: 18, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
163 142 0.93
164 11 0.07
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (163 bp):
ATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGATTTTAGCGGCGATTTACCGAAA
GCGCCACTAATGCTCTGGATTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGATCTAGTTTTTA
GCAGCGTTTTACCAAAAGCGCCGCTAATGCTCT
Found at i:11418803 original size:163 final size:163
Alignment explanation
Indices: 11418396--11418810 Score: 471
Period size: 163 Copynumber: 2.5 Consensus size: 163
11418386 AGGTTATGGG
* * * * * * *
11418396 ATTTTTAGTGGCGTTTTACC-AAAAGCGCCGCTAATGCTCTGGCTTTTAGCGGTGATTTACCGAA
1 ATTTTTAGCGACGTTTTACCGAAAA-CGCCGCTAATGCTCTGGATTTTACCGGCGTTTTATCGAA
* * * *
11418460 AGCGCCACTAATGCTCTGGCTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTGTTTTT
65 AGCGCCGCTAATGCTCTGGATTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGATCTAGTTTTT
11418525 AGCAGCGTTTTACCAAAAGCGCCGCAATGCTCTT
130 AGCAGCGTTTTACCAAAAGCGCCGCAATGCTCTT
* * * *
11418559 GTTTTTAGCGGCGTTTTACCGAAAACGCTGCTAATGCTCTGGATTTTAGCGGCGTTTTATCGAAA
1 ATTTTTAGCGACGTTTTACCGAAAACGCCGCTAATGCTCTGGATTTTACCGGCGTTTTATCGAAA
** **
11418624 GCGTTGCTAATGCTCTGGATTTTAGCGGCGTTTTACTGAAAGCGCCGCTAATGATCTAGTTTTTA
66 GCGCCGCTAATGCTCTGGATTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGATCTAGTTTTTA
* *
11418689 GCGGCGTTTTACCGAAAGCGCCGCTAATGCTC-T
131 GCAGCGTTTTACCAAAAGCGCCGC-AATGCTCTT
* * ** * * **
11418722 ATTTTTAGCGACATTTTTTA-CTAAAACGCCGCTGTTGCTCT-GTTTTTACCGGCGTTTTTTTTA
1 ATTTTTAGCGAC--GTTTTACCGAAAACGCCGCTAATGCTCTGGATTTTACCGGCGTTTTATCGA
* *
11418785 GAA-CGCCGCTATTGCTCTGAATTTTA
64 -AAGCGCCGCTAATGCTCTGGATTTTA
11418811 AAATTTTGGC
Statistics
Matches: 214, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
163 179 0.84
164 30 0.14
165 5 0.02
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (163 bp):
ATTTTTAGCGACGTTTTACCGAAAACGCCGCTAATGCTCTGGATTTTACCGGCGTTTTATCGAAA
GCGCCGCTAATGCTCTGGATTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGATCTAGTTTTTA
GCAGCGTTTTACCAAAAGCGCCGCAATGCTCTT
Found at i:11425591 original size:6 final size:6
Alignment explanation
Indices: 11425573--11425666 Score: 95
Period size: 6 Copynumber: 15.3 Consensus size: 6
11425563 AAGAAACATT
*
11425573 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
11425622 ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
11425667 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
5 4 0.05
6 61 0.82
7 7 0.09
8 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:11425624 original size:31 final size:31
Alignment explanation
Indices: 11425587--11425666 Score: 133
Period size: 31 Copynumber: 2.6 Consensus size: 31
11425577 GAACTAGAAT
*
11425587 CAGAATCAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
*
11425618 CAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
*
11425649 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
11425667 GTGAATGCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.17
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:11425654 original size:25 final size:24
Alignment explanation
Indices: 11425573--11425663 Score: 98
Period size: 25 Copynumber: 3.7 Consensus size: 24
11425563 AAGAAACATT
*
11425573 ATCAGAA-CTAGAATCAGAATCAGA
1 ATCAGAATC-AGAATCAGTATCAGA
11425597 ATCAGAATCAGAATCAGGTGA-CAGA
1 ATCAGAATCAGAATCA-GT-ATCAGA
11425622 ATCAGAATCAGAATCAGTATCAGGTA
1 ATCAGAATCAGAATCAGTATCA-G-A
*
11425648 A-CAGAATCAAAATCAG
1 ATCAGAATCAGAATCAG
11425664 AATGTGAATG
Statistics
Matches: 59, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.02
24 18 0.31
25 37 0.63
26 3 0.05
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (24 bp):
ATCAGAATCAGAATCAGTATCAGA
Found at i:11425836 original size:28 final size:26
Alignment explanation
Indices: 11425781--11425862 Score: 92
Period size: 28 Copynumber: 3.0 Consensus size: 26
11425771 AGCATTGCTG
* * *
11425781 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAAAGCCA
*
11425807 CCAGATACAGATATTTGTGGCATAGCCA
1 CCAGA-ACAGATA-TTGTGGCAAAGCCA
*
11425835 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGGCAAAGCCA
11425862 C
1 C
11425863 TTAACAGAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
26 5 0.10
27 21 0.44
28 22 0.46
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAAAGCCA
Found at i:11426068 original size:22 final size:22
Alignment explanation
Indices: 11426020--11426078 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
11426010 GTAAATACGT
*
11426020 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
11426042 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
11426064 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
11426079 CGATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:11426120 original size:20 final size:20
Alignment explanation
Indices: 11426095--11426135 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
11426085 CGGGTCTATA
11426095 ATCGATACGAAGCCCACAAT
1 ATCGATACGAAGCCCACAAT
*
11426115 ATCGATACGAAGCTCACAAT
1 ATCGATACGAAGCCCACAAT
11426135 A
1 A
11426136 ACGACACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.27, G:0.15, T:0.17
Consensus pattern (20 bp):
ATCGATACGAAGCCCACAAT
Found at i:11426456 original size:27 final size:27
Alignment explanation
Indices: 11426426--11426584 Score: 178
Period size: 27 Copynumber: 5.9 Consensus size: 27
11426416 GGGGCAAAAT
* * *
11426426 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
11426453 GGTAATTCTACCCTAC-AGGTGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
*
11426480 GGTAATTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
11426507 AGTAATTCTACCCTA-TAGGGCTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
* *
11426534 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
11426561 AGTATTTCTATCCTATAAGGGTAT
1 GGTAATTCTACCCTACAAGGGTAT
11426585 CTCAATAATT
Statistics
Matches: 113, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
26 7 0.06
27 99 0.88
28 7 0.06
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:11426663 original size:27 final size:27
Alignment explanation
Indices: 11426590--11426816 Score: 151
Period size: 27 Copynumber: 8.4 Consensus size: 27
11426580 GGTATCTCAA
** ***
11426590 TAATTTTGTAAATCGAGGGTAAAACGG
1 TAATTTTACAAATCGAGGGTATTTCGG
* ** *
11426617 TAATTCTGTAAATCGGGGGTACTTT-GG
1 TAATTTTACAAATCGAGGGTA-TTTCGG
* *
11426644 TAATTTTACAAGTCGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCGG
* *
11426671 TAATTTTACAAATCGAGAGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCGG
*
11426698 TAATTTTGCAAA-CTGAGGGTATTTCGG
1 TAATTTTACAAATC-GAGGGTATTTCGG
* **
11426725 TAATTTCACAAATTAAGGGTATCTT-GG
1 TAATTTTACAAATCGAGGGTAT-TTCGG
* *
11426752 TAATTTTACAAA-CCAGGGGTATTTTGG
1 TAATTTTACAAATCGA-GGGTATTTCGG
* * * * *
11426779 TACTTTGT--AAACCAATGGTATTTTGG
1 TAATTT-TACAAATCGAGGGTATTTCGG
11426805 TAATTTTACAAA
1 TAATTTTACAAA
11426817 CCAGGGGTAT
Statistics
Matches: 162, Mismatches: 27, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
25 1 0.01
26 25 0.15
27 133 0.82
28 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTCGG
Found at i:11426772 original size:54 final size:53
Alignment explanation
Indices: 11426633--11426837 Score: 175
Period size: 54 Copynumber: 3.8 Consensus size: 53
11426623 TGTAAATCGG
** * *
11426633 GGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAGTAATTTTACAAATCGA
1 GGGTA-TTTGGTAATTTTACAAACCAGAGGGTATTTCGGTAA-TTTACAAATCAA
* * * * *
11426687 GAGTATTTCAGTAATTTTGCAAA-CTGAGGGTATTTCGGTAATTTCACAAATTAA
1 GGGTATTT-GGTAATTTTACAAACCAGAGGGTATTTCGGTAATTT-ACAAATCAA
* * ** *
11426741 GGGTATCTTGGTAATTTTACAAACCAG-GGGTATTTTGGTACTTTGTAAACCAA
1 GGGTAT-TTGGTAATTTTACAAACCAGAGGGTATTTCGGTAATTTACAAATCAA
* * *
11426794 TGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTGGTGATTT
1 GGGTA-TTTGGTAATTTTACAAACCAGAGGGTATTTCGGTAATTT
11426838 GGTAAACTAA
Statistics
Matches: 125, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
53 51 0.41
54 70 0.56
55 4 0.03
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.39
Consensus pattern (53 bp):
GGGTATTTGGTAATTTTACAAACCAGAGGGTATTTCGGTAATTTACAAATCAA
Found at i:11426825 original size:27 final size:27
Alignment explanation
Indices: 11426632--11426837 Score: 152
Period size: 27 Copynumber: 7.7 Consensus size: 27
11426622 CTGTAAATCG
* **
11426632 GGGGTACTTTGGTAATTTTACAAGTC-
1 GGGGTATTTTGGTAATTTTACAAACCA
** *
11426658 GAGGGTATTTCAGTAATTTTACAAATC-
1 G-GGGTATTTTGGTAATTTTACAAACCA
* ** * *
11426685 GAGAGTATTTCAGTAATTTTGCAAA-CT
1 G-GGGTATTTTGGTAATTTTACAAACCA
* * **
11426712 GAGGGTATTTCGGTAATTTCACAAATTA
1 G-GGGTATTTTGGTAATTTTACAAACCA
* *
11426740 AGGGTATCTTGGTAATTTTACAAACCA
1 GGGGTATTTTGGTAATTTTACAAACCA
*
11426767 GGGGTATTTTGGTACTTTGT--AAACCA
1 GGGGTATTTTGGTAATTT-TACAAACCA
**
11426793 ATGGTATTTTGGTAATTTTACAAACCA
1 GGGGTATTTTGGTAATTTTACAAACCA
*
11426820 GGGGTATTTTGGTGATTT
1 GGGGTATTTTGGTAATTT
11426838 GGTAAACTAA
Statistics
Matches: 147, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
25 1 0.01
26 23 0.16
27 122 0.83
28 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (27 bp):
GGGGTATTTTGGTAATTTTACAAACCA
Found at i:11426853 original size:53 final size:53
Alignment explanation
Indices: 11426743--11426853 Score: 163
Period size: 53 Copynumber: 2.1 Consensus size: 53
11426733 CAAATTAAGG
* *
11426743 GTATCTTGGTAATTTTACAAACCAGGGGTATTTTGGTACTTTGTAAACCAATG
1 GTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTACTTTGTAAACCAATA
*
11426796 GTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGA-TTTGGTAAACTAA-A
1 GTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGT-ACTTT-GTAAACCAATA
11426849 GTATT
1 GTATT
11426854 CTAAACAGGG
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
53 44 0.83
54 9 0.17
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.40
Consensus pattern (53 bp):
GTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTACTTTGTAAACCAATA
Found at i:11435417 original size:16 final size:16
Alignment explanation
Indices: 11435396--11435433 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
11435386 CTGTAACACG
11435396 CCAAAAATCCCGAAAT
1 CCAAAAATCCCGAAAT
*
11435412 CCAAAAATCTCGAAAT
1 CCAAAAATCCCGAAAT
11435428 CTCAAA
1 C-CAAA
11435434 TTCTCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.50, C:0.29, G:0.05, T:0.16
Consensus pattern (16 bp):
CCAAAAATCCCGAAAT
Found at i:11437056 original size:28 final size:29
Alignment explanation
Indices: 11436946--11437060 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
11436936 GTGAGCATGA
* * *
11436946 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
* *
11436974 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
* *
11437003 ATAT-ACAGATGATTTGGGCTTAATGGGCC
1 ATATGA-ATATGATTTGGGCCTAATGGGCC
*
11437032 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
11437060 A
1 A
11437061 GATACAGGTA
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
28 29 0.38
29 47 0.61
30 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (29 bp):
ATATGAATATGATTTGGGCCTAATGGGCC
Found at i:11437066 original size:57 final size:58
Alignment explanation
Indices: 11436959--11437067 Score: 157
Period size: 58 Copynumber: 1.9 Consensus size: 58
11436949 TGAATGTGAC
* *
11436959 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGATGATT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGATGATT
* * * *
11437017 TGGGCTTAATGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATACAG
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAG
11437068 GTATGTGAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 22 0.49
58 23 0.51
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (58 bp):
TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGATGATT
Found at i:11439983 original size:16 final size:17
Alignment explanation
Indices: 11439962--11439999 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
11439952 TTGTAGCGCC
11439962 CCAAAAATCTCGAAAT-
1 CCAAAAATCTCGAAATA
11439978 CCAAAAATCTCGAAATA
1 CCAAAAATCTCGAAATA
11439995 CCAAA
1 CCAAA
11440000 TTCTCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.53, C:0.26, G:0.05, T:0.16
Consensus pattern (17 bp):
CCAAAAATCTCGAAATA
Found at i:11441281 original size:16 final size:16
Alignment explanation
Indices: 11441260--11441310 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
11441250 ATGTATCGGC
11441260 AAAAGCCGAAATGTCG
1 AAAAGCCGAAATGTCG
* *
11441276 AAAAGCTGAAATG-CC
1 AAAAGCCGAAATGTCG
*
11441291 AAAATGCCGAAAAGTCG
1 AAAA-GCCGAAATGTCG
11441308 AAA
1 AAA
11441311 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 5 0.18
16 19 0.68
17 4 0.14
ACGTcount: A:0.49, C:0.18, G:0.22, T:0.12
Consensus pattern (16 bp):
AAAAGCCGAAATGTCG
Found at i:11441575 original size:29 final size:29
Alignment explanation
Indices: 11441520--11441606 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
11441510 GTGAGCATGA
* * *
11441520 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
11441548 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * * *
11441577 ACATACAGGTGATTTGGGCTTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
11441606 A
1 A
11441607 GATACAGGTC
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 11 0.22
29 40 0.78
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:11441611 original size:29 final size:29
Alignment explanation
Indices: 11441533--11441615 Score: 112
Period size: 29 Copynumber: 2.9 Consensus size: 29
11441523 TGAATGTGAC
* * * *
11441533 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCACATACAGGTGATT
11441562 TGGGCCTAATGGGCCACATACAGGTGATT
1 TGGGCCTAATGGGCCACATACAGGTGATT
* *
11441591 TGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAATGGGCCACATACAGGT
11441616 CTGTGAAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (29 bp):
TGGGCCTAATGGGCCACATACAGGTGATT
Found at i:11443807 original size:16 final size:17
Alignment explanation
Indices: 11443786--11443819 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11443776 CCAACTGATT
11443786 ATATTAAA-AAAAATTA
1 ATATTAAATAAAAATTA
*
11443802 ATATTAAATAAATATTA
1 ATATTAAATAAAAATTA
11443819 A
1 A
11443820 ATATAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATATTAAATAAAAATTA
Found at i:11443831 original size:27 final size:27
Alignment explanation
Indices: 11443786--11443840 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
11443776 CCAACTGATT
*
11443786 ATATTAAAAAAAATTAATATTAAATAA
1 ATATTAAAAAAAATAAATATTAAATAA
* * *
11443813 ATATTAAATATAATAAATATTAGATAA
1 ATATTAAAAAAAATAAATATTAAATAA
11443840 A
1 A
11443841 ATATGTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (27 bp):
ATATTAAAAAAAATAAATATTAAATAA
Found at i:11443843 original size:16 final size:16
Alignment explanation
Indices: 11443790--11443843 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
11443780 CTGATTATAT
11443790 TAAAA-AAA-ATTAATA
1 TAAAATAAATATTAA-A
*
11443805 TTAAATAAATATTAAA
1 TAAAATAAATATTAAA
* *
11443821 TATAATAAATATTAGA
1 TAAAATAAATATTAAA
11443837 TAAAATA
1 TAAAATA
11443844 TGTATAATTG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
15 4 0.12
16 23 0.72
17 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
TAAAATAAATATTAAA
Found at i:11450394 original size:40 final size:39
Alignment explanation
Indices: 11450335--11450536 Score: 208
Period size: 40 Copynumber: 5.1 Consensus size: 39
11450325 CGGAATACAA
*
11450335 CCGGATATAACCACATGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
* *
11450375 CCGGATATAACGAGTTGCACAAATGCCTTCGGGTGTTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* *
11450415 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * * *
11450455 CCGGATGTAGTCACTAGCACAATTGCCTTCGGTTCTTAAC
1 CCGGATATA-ACACTTGCACAAATGCCTTCGGGTCTTAGC
* * * *
11450495 CCGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTT-GCACAAATGCCTTCGGGTCTTAGC
11450535 CC
1 CC
11450537 AGATGTCATT
Statistics
Matches: 133, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 2 0.02
40 130 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:11457139 original size:17 final size:17
Alignment explanation
Indices: 11457117--11457150 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11457107 TAAATTTCCC
11457117 ATATATTATTTATTTTA
1 ATATATTATTTATTTTA
*
11457134 ATATATTCTTTATTTTA
1 ATATATTATTTATTTTA
11457151 TTTTATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATATTATTTATTTTA
Found at i:11457168 original size:21 final size:22
Alignment explanation
Indices: 11457125--11457168 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
11457115 CCATATATTA
*
11457125 TTTATTTTAATATATTCTTTAT
1 TTTATTTTAATATATTCTCTAT
11457147 TTTATTTT-ATATATGT-TCTAT
1 TTTATTTTAATATAT-TCTCTAT
11457168 T
1 T
11457169 CTAAATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTATTTTAATATATTCTCTAT
Found at i:11459627 original size:29 final size:25
Alignment explanation
Indices: 11459538--11459623 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 25
11459528 TTAACACATG
* * *
11459538 TATAATATTTAATTTAAACTATTTTA
1 TATATTATTTACTTT-AACTTTTTTA
*
11459564 TATGTTATTTACTTTAACTTTTTTA
1 TATATTATTTACTTTAACTTTTTTA
* *
11459589 TATATTATTTATTTTAATTTTTTTGA
1 TATATTATTTACTTTAACTTTTTT-A
*
11459615 CATATTATT
1 TATATTATT
11459624 ATTTTGAGCC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
25 30 0.59
26 21 0.41
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (25 bp):
TATATTATTTACTTTAACTTTTTTA
Found at i:11459658 original size:21 final size:22
Alignment explanation
Indices: 11459634--11459674 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11459624 ATTTTGAGCC
11459634 TCTTAATAT-TTATTTTAAATT
1 TCTTAATATATTATTTTAAATT
*
11459655 TCTTTATATATTATTTTAAA
1 TCTTAATATATTATTTTAAA
11459675 CTTGTCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (22 bp):
TCTTAATATATTATTTTAAATT
Found at i:11459690 original size:26 final size:23
Alignment explanation
Indices: 11459634--11459761 Score: 85
Period size: 24 Copynumber: 5.7 Consensus size: 23
11459624 ATTTTGAGCC
*
11459634 TCTTAATAT-TTATTTTAAATT-
1 TCTTTATATATTATTTTAAATTG
11459655 TCTTTATATATTATTTTAAACTTG
1 TCTTTATATATTATTTTAAA-TTG
*
11459679 TCTTTACGTATATTTATTTAAAATTG
1 TCTTTA--TATA-TTATTTTAAATTG
* *
11459705 TC-TTATACAACTTATTTTAAA--C
1 TCTTTATA-TA-TTATTTTAAATTG
* *
11459727 TCTCT-TAT-TTGTTTTAAATTG
1 TCTTTATATATTATTTTAAATTG
11459748 T-TTTAT-TATTATTT
1 TCTTTATATATTATTT
11459762 ATTTTAGTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
19 9 0.11
20 3 0.04
21 15 0.18
22 14 0.17
23 5 0.06
24 16 0.19
25 3 0.04
26 9 0.11
27 9 0.11
ACGTcount: A:0.29, C:0.09, G:0.04, T:0.59
Consensus pattern (23 bp):
TCTTTATATATTATTTTAAATTG
Found at i:11468583 original size:55 final size:55
Alignment explanation
Indices: 11468513--11468638 Score: 146
Period size: 55 Copynumber: 2.3 Consensus size: 55
11468503 AAGCCTGCCA
* ** * *
11468513 AAAC-AACACGAGCGTGCGACACGCCCGTGTGGAAGACCCGTGGTTGAAACTGAG
1 AAACTAACACGGGCGTGCGACACGCCCGTGTCCAACACCCGTGGTTGAAACTGAC
* * * * *
11468567 AAACTAGCACGGGCGTGTGACATGCCCGTGTCCAACACCCGTGGTTGAACCTGTC
1 AAACTAACACGGGCGTGCGACACGCCCGTGTCCAACACCCGTGGTTGAAACTGAC
*
11468622 AAATTAACACGGGCGTG
1 AAACTAACACGGGCGTG
11468639 GGGCTTGCAC
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
54 4 0.07
55 55 0.93
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.17
Consensus pattern (55 bp):
AAACTAACACGGGCGTGCGACACGCCCGTGTCCAACACCCGTGGTTGAAACTGAC
Found at i:11468973 original size:21 final size:21
Alignment explanation
Indices: 11468949--11468990 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
11468939 AAAAACATCT
*
11468949 ATTTATT-ATTTTATGTTTTTA
1 ATTTATTAATTTT-TATTTTTA
*
11468970 ATTTTTTAATTTTTATTTTTA
1 ATTTATTAATTTTTATTTTTA
11468991 TTTTTAGTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (21 bp):
ATTTATTAATTTTTATTTTTA
Found at i:11483627 original size:44 final size:45
Alignment explanation
Indices: 11483534--11483667 Score: 144
Period size: 44 Copynumber: 3.0 Consensus size: 45
11483524 CAGGACAAGA
* * *
11483534 ACAGAAATGAGGCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
11483580 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
11483624 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
11483668 CAACATATTG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 36 0.49
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:11484959 original size:16 final size:16
Alignment explanation
Indices: 11484914--11484959 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
11484904 GCGGTGTTAC
11484914 ATAAAATAAGTATTAA
1 ATAAAATAAGTATTAA
* *
11484930 ATATAATAAATATTAA
1 ATAAAATAAGTATTAA
*
11484946 ATAAAATATGTATT
1 ATAAAATAAGTATT
11484960 TGATTAAGGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (16 bp):
ATAAAATAAGTATTAA
Done.