Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 47 of 444
Found at i:11380227 original size:23 final size:25
Alignment explanation
Indices: 11380184--11380229 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
11380174 TATACCTAAT
11380184 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
11380209 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
11380230 ACAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:11380521 original size:16 final size:16
Alignment explanation
Indices: 11380483--11380521 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11380473 ATCTCCAAAA
*
11380483 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
11380499 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
11380515 AATAACT
1 AAAAACT
11380522 TTCCCCCCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:11380659 original size:18 final size:18
Alignment explanation
Indices: 11380636--11380689 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
11380626 ACAAGTGGTG
11380636 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
11380654 GT-G-G--AGT-AGG-TA
1 GTGGAGCAAGTGTGGCTA
11380666 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
11380684 GTGGAG
1 GTGGAG
11380690 TTGGTGGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 4 0.14
13 3 0.11
14 4 0.14
16 4 0.14
17 3 0.11
18 10 0.36
ACGTcount: A:0.22, C:0.07, G:0.48, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:11380672 original size:30 final size:30
Alignment explanation
Indices: 11380631--11380729 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
11380621 TAGGTACAAG
11380631 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
11380661 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
11380691 TGGTGGTAGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
11380721 TGGTGGTGG
1 TGGTGGTGG
11380730 CAAAGGCTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.18, C:0.06, G:0.49, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:11381281 original size:21 final size:21
Alignment explanation
Indices: 11381251--11381295 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
11381241 TCTGATATCC
11381251 TCAATCAGCTCCACTGTAACT
1 TCAATCAGCTCCACTGTAACT
* *
11381272 TCAATTAGCTTCACTGTAACT
1 TCAATCAGCTCCACTGTAACT
11381293 TCA
1 TCA
11381296 GGGATATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (21 bp):
TCAATCAGCTCCACTGTAACT
Found at i:11381606 original size:14 final size:14
Alignment explanation
Indices: 11381587--11381636 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
11381577 GAGTTGATTT
*
11381587 TTGAAAAGCATAAA
1 TTGAAAAGCAGAAA
11381601 TTGAAAAAGCAGAAA
1 TTG-AAAAGCAGAAA
11381616 TTGAAAA-C-GAAA
1 TTGAAAAGCAGAAA
11381628 TTTGAAAAG
1 -TTGAAAAG
11381637 ACCTCGGCGT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 4 0.12
13 8 0.25
14 7 0.22
15 13 0.41
ACGTcount: A:0.56, C:0.06, G:0.18, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:11381650 original size:103 final size:103
Alignment explanation
Indices: 11381450--11381709 Score: 355
Period size: 103 Copynumber: 2.5 Consensus size: 103
11381440 TGAGTCAAGG
* *
11381450 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAAAGAAATT-AAAAAATAAAAAC
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAC--AGAAATTGAAAAAACAAAAAC
*
11381514 TAAAAACAGAATTTGAAAAGACTTCGGCATGTGGCCCGAGA
63 TAAAAACAGAATTTGAAAAGACCTCGGCATGTGGCCCGAGA
* * * * *
11381555 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGCATAAATTGAAAAAGCAGAAATTG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA-CAGAAATTGAAAAAACAAAAACTA
*
11381619 AAAAC-GAAATTTGAAAAGACCTCGGCGTGTGGCCCGAGA
65 AAAACAG-AATTTGAAAAGACCTCGGCATGTGGCCCGAGA
* *
11381658 CTCAACTCACCTCTCGCAATACGAGTTGATTTTTTGACAACAGAAATTGAAA
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAA
11381710 TTACCTCAGC
Statistics
Matches: 139, Mismatches: 12, Indels: 10
0.86 0.07 0.06
Matches are distributed among these distances:
102 7 0.05
103 93 0.67
104 10 0.07
105 29 0.21
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (103 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAAAACAAAAACTAA
AAACAGAATTTGAAAAGACCTCGGCATGTGGCCCGAGA
Found at i:11381747 original size:73 final size:73
Alignment explanation
Indices: 11381658--11381922 Score: 408
Period size: 73 Copynumber: 3.6 Consensus size: 73
11381648 TGGCCCGAGA
*
11381658 CTCAACTCACCTCTCGCAATACGAGTTGATTTTTTGAC-AACAGAAATTGAAATTACCTCAGCGT
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAGAAATTGAAATTACCTCAGCGT
11381722 GTCCTGAGG
65 GTCCTGAGG
*
11381731 CTCAACTCACCTCTCGCAATATGAGTTGAGTTTTGACAAACAGAAATTGAAATTACCTCAGCGTG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTG
*
11381796 CCCTGAGG
66 TCCTGAGG
* * *
11381804 CTCAACTCACCTCTTGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAACATG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTG
*
11381869 TCTTGAGG
66 TCCTGAGG
** * *
11381877 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAATAGAAAT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAAT
11381923 AAAAATATCA
Statistics
Matches: 177, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
72 16 0.09
73 161 0.91
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (73 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTG
TCCTGAGG
Found at i:11383327 original size:57 final size:57
Alignment explanation
Indices: 11383261--11383376 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
11383251 GTGCGATATG
11383261 CATACAAAGCAAATGGTAGCTTCTCGTGCCAGTCTTTATATGTCTCGATCATTTTCC
1 CATACAAAGCAAATGGTAGCTTCTCGTGCCAGTCTTTATATGTCTCGATCATTTTCC
11383318 CATACAAAGCAAATGGTAGCTTCTCGTGCCAGTCTTTATATGTCTCGATCATTTTCC
1 CATACAAAGCAAATGGTAGCTTCTCGTGCCAGTCTTTATATGTCTCGATCATTTTCC
11383375 CA
1 CA
11383377 ATAATCTTCT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (57 bp):
CATACAAAGCAAATGGTAGCTTCTCGTGCCAGTCTTTATATGTCTCGATCATTTTCC
Found at i:11388625 original size:16 final size:15
Alignment explanation
Indices: 11388604--11388651 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
11388594 GATGTGGATA
11388604 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
11388620 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
11388635 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
11388651 A
1 A
11388652 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:11388634 original size:8 final size:8
Alignment explanation
Indices: 11388605--11388651 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
11388595 ATGTGGATAA
11388605 TAAAATAT
1 TAAAATAT
11388613 ATAAAATA-
1 -TAAAATAT
11388621 TAAAATAT
1 TAAAATAT
11388629 TAAAATAT
1 TAAAATAT
*
11388637 CAAAATAT
1 TAAAATAT
*
11388645 TAGAATA
1 TAAAATA
11388652 ATAATAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
7 7 0.21
8 20 0.59
9 7 0.21
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (8 bp):
TAAAATAT
Found at i:11388824 original size:23 final size:23
Alignment explanation
Indices: 11388780--11388825 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
11388770 ACATGTACAT
*
11388780 ATATAAAAAATAAATACGTGATA
1 ATATAAAAAATAAATACATGATA
* **
11388803 ATATTAAAAATATGTACATGATA
1 ATATAAAAAATAAATACATGATA
11388826 TAGTGTTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (23 bp):
ATATAAAAAATAAATACATGATA
Found at i:11388866 original size:22 final size:23
Alignment explanation
Indices: 11388809--11388870 Score: 65
Period size: 25 Copynumber: 2.7 Consensus size: 23
11388799 GATAATATTA
* *
11388809 AAAATATGTACATGATATAGTGTT
1 AAAATATATACATAATATAG-GTT
11388833 AAAA-ATGCATACATAATATA-GTT
1 AAAATAT--ATACATAATATAGGTT
11388856 AAAATATATACATAA
1 AAAATATATACATAA
11388871 GATAACATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
22 8 0.24
23 9 0.27
24 6 0.18
25 10 0.30
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (23 bp):
AAAATATATACATAATATAGGTT
Found at i:11388923 original size:26 final size:25
Alignment explanation
Indices: 11388894--11389008 Score: 73
Period size: 25 Copynumber: 4.6 Consensus size: 25
11388884 AAAAATATAT
11388894 ATATATAATATAATATAGTATTAAA
1 ATATATAATATAATATAGTATTAAA
11388919 GATATATACATA-AA-ATAGTA-TAGAA
1 -ATATATA-ATATAATATAGTATTA-AA
* *
11388944 ATATAT-ATACGTAATATAGAATTTAA
1 ATATATAATA--TAATATAGTATTAAA
** * *
11388970 A-ATAT-ACCTAATATATTA-AAAGA
1 ATATATAATATAATATAGTATTAA-A
11388993 ATATATAATATAATAT
1 ATATATAATATAATAT
11389009 TAAGAAAAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
22 4 0.06
23 10 0.14
24 12 0.17
25 22 0.32
26 17 0.25
27 4 0.06
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (25 bp):
ATATATAATATAATATAGTATTAAA
Found at i:11389021 original size:17 final size:17
Alignment explanation
Indices: 11388999--11389034 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11388989 AAGAATATAT
* *
11388999 AATATAATATTAAGAAA
1 AATATAATAATAACAAA
11389016 AATATAATAATAACAAA
1 AATATAATAATAACAAA
11389033 AA
1 AA
11389035 AAAGGAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (17 bp):
AATATAATAATAACAAA
Found at i:11389023 original size:22 final size:23
Alignment explanation
Indices: 11388982--11389027 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
11388972 TATACCTAAT
11388982 ATATTAAAAGAATATATAATATA
1 ATATTAAAAGAATATATAATATA
*
11389005 ATATTAAGAAAAATATAATAATA
1 ATATTAA-AAGAATAT-ATAATA
11389028 ACAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 7 0.35
25 6 0.30
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
ATATTAAAAGAATATATAATATA
Found at i:11389353 original size:16 final size:16
Alignment explanation
Indices: 11389315--11389353 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11389305 TCTCCAAAAA
*
11389315 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
11389331 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
11389347 AATAACT
1 AAAAACT
11389354 TCCCCCCCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:11389506 original size:30 final size:30
Alignment explanation
Indices: 11389465--11389563 Score: 180
Period size: 30 Copynumber: 3.3 Consensus size: 30
11389455 TAGGTACAAG
11389465 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
11389495 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
11389525 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
11389555 TGGTGGTGG
1 TGGTGGTGG
11389564 CAAAGGCTAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.17, C:0.06, G:0.51, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:11391769 original size:18 final size:18
Alignment explanation
Indices: 11391741--11391786 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
11391731 CACATGAGTG
11391741 TTTTATATTTAAAAAATAT
1 TTTTATATTT-AAAAATAT
11391760 TTTTAT-TTTAAAAATAT
1 TTTTATATTTAAAAATAT
*
11391777 TTTTGTATTT
1 TTTTATATTT
11391787 TGTAACATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 13 0.52
18 6 0.24
19 6 0.24
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTTATATTTAAAAATAT
Found at i:11393229 original size:6 final size:6
Alignment explanation
Indices: 11393218--11393246 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
11393208 TTCATAACAA
11393218 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
11393247 ATGTTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:11394459 original size:38 final size:38
Alignment explanation
Indices: 11394327--11394476 Score: 183
Period size: 39 Copynumber: 3.9 Consensus size: 38
11394317 ATAAAGTATG
* * * * *
11394327 GTTTTAATTAATAATAAAACAAAATGGTATGAGGAAATA
1 GTTTTAATTAACAATAAAACAAAATAGCATG-GGGAGTA
*
11394366 GTTTTAATTAACAATAAAACAAAATAGTATGGGGAAGTA
1 GTTTTAATTAACAATAAAACAAAATAGCATGGGG-AGTA
* *
11394405 GTTTTAATTAACAATAAAATAAAATAGCATGGGGAGTG
1 GTTTTAATTAACAATAAAACAAAATAGCATGGGGAGTA
* * *
11394443 GTTTTGATTAATAATAAAACAAAGTAGCATGGGG
1 GTTTTAATTAACAATAAAACAAAATAGCATGGGG
11394477 GGAGTGGAAT
Statistics
Matches: 99, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
38 35 0.35
39 64 0.65
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.29
Consensus pattern (38 bp):
GTTTTAATTAACAATAAAACAAAATAGCATGGGGAGTA
Found at i:11394475 original size:77 final size:78
Alignment explanation
Indices: 11394327--11394476 Score: 194
Period size: 77 Copynumber: 1.9 Consensus size: 78
11394317 ATAAAGTATG
* * *
11394327 GTTTTAATTAATAATAAAACAAAATGGTATGAGGAAATAGTTTTAATTAACAATAAAACAAAATA
1 GTTTTAATTAACAATAAAACAAAATAGCATGAGGAAATAGTTTTAATTAACAATAAAACAAAATA
*
11394392 GTATGGGGAAGTA
66 GCATGGGGAAGTA
* * * * * * *
11394405 GTTTTAATTAACAATAAAATAAAATAGCATG-GGGAGTGGTTTTGATTAATAATAAAACAAAGTA
1 GTTTTAATTAACAATAAAACAAAATAGCATGAGGAAATAGTTTTAATTAACAATAAAACAAAATA
11394469 GCATGGGG
66 GCATGGGG
11394477 GGAGTGGAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
77 34 0.56
78 27 0.44
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.29
Consensus pattern (78 bp):
GTTTTAATTAACAATAAAACAAAATAGCATGAGGAAATAGTTTTAATTAACAATAAAACAAAATA
GCATGGGGAAGTA
Found at i:11396643 original size:17 final size:17
Alignment explanation
Indices: 11396621--11396664 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
11396611 AAAAATATAA
11396621 TAATAATATAATAGTAG
1 TAATAATATAATAGTAG
** *
11396638 TAATAACGTAATAGTAT
1 TAATAATATAATAGTAG
*
11396655 TAAAAATATA
1 TAATAATATA
11396665 CGATATATAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (17 bp):
TAATAATATAATAGTAG
Found at i:11397501 original size:38 final size:39
Alignment explanation
Indices: 11397441--11397599 Score: 176
Period size: 39 Copynumber: 4.1 Consensus size: 39
11397431 AAAGCTGATT
* * * *
11397441 CCACTCCCCCTATGCTACTTTGTTTTATTATTAATCAAAA
1 CCACTTCCCC-ATACTATTTTGTTTTATTATTAATTAAAA
* * * *
11397481 CCAC-TCCCCATGCTATTTTGTTTTGTTGTTAAATAAAA
1 CCACTTCCCCATACTATTTTGTTTTATTATTAATTAAAA
** *
11397519 TTACTTCCCCATACTATTTTGTTTTATTGTTAATTAAAA
1 CCACTTCCCCATACTATTTTGTTTTATTATTAATTAAAA
* * *
11397558 CTACTTCCTCATACCATTTTGTTTTATTATTAATTAAAA
1 CCACTTCCCCATACTATTTTGTTTTATTATTAATTAAAA
11397597 CCA
1 CCA
11397600 TACTTTATTT
Statistics
Matches: 102, Mismatches: 16, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
38 26 0.25
39 72 0.71
40 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.45
Consensus pattern (39 bp):
CCACTTCCCCATACTATTTTGTTTTATTATTAATTAAAA
Found at i:11397536 original size:39 final size:39
Alignment explanation
Indices: 11397459--11397597 Score: 181
Period size: 39 Copynumber: 3.6 Consensus size: 39
11397449 CCTATGCTAC
* * * *
11397459 TTTGTTTTATTATTAATCAAAACCAC-TCCCCATGCTAT
1 TTTGTTTTATTGTTAATTAAAACTACTTCCCCATACTAT
* * *
11397497 TTTGTTTTGTTGTTAAATAAAATTACTTCCCCATACTAT
1 TTTGTTTTATTGTTAATTAAAACTACTTCCCCATACTAT
* *
11397536 TTTGTTTTATTGTTAATTAAAACTACTTCCTCATACCAT
1 TTTGTTTTATTGTTAATTAAAACTACTTCCCCATACTAT
*
11397575 TTTGTTTTATTATTAATTAAAAC
1 TTTGTTTTATTGTTAATTAAAAC
11397598 CATACTTTAT
Statistics
Matches: 87, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
38 20 0.23
39 67 0.77
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (39 bp):
TTTGTTTTATTGTTAATTAAAACTACTTCCCCATACTAT
Found at i:11398917 original size:44 final size:45
Alignment explanation
Indices: 11398817--11398926 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 45
11398807 GAAAGGCGAT
* * * *
11398817 ATCTGCTATCTTTGATCTGC-CCCCCTCTACTATAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCCTCTAATACAGAGACGCCAA
** *
11398861 ATCTATTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCCTCTAATACAGAGACGCCAA
* *
11398906 ATTTGCT-TCTTCAATCTGCTC
1 ATCTGCTATCTTCGATCTGCTC
11398927 ACTGCAAACT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 30 0.56
45 24 0.44
ACGTcount: A:0.23, C:0.31, G:0.13, T:0.34
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCCCCCTCTAATACAGAGACGCCAA
Found at i:11399388 original size:210 final size:210
Alignment explanation
Indices: 11399001--11400179 Score: 1540
Period size: 210 Copynumber: 5.7 Consensus size: 210
11398991 AAATCTGCTT
* * * * * *
11399001 CTTCGATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * * ** * **
11399066 GTTAAAGCCAAATCAACTATGA--TTCGATTTGCTCCTTGTAAGCATA-AG-GATGCCAA-A---
66 GTGAAAGCCAAATCAGCTAT-ATCTTCGATCTGCTCCCTG-CCGAATACAGAGA-GATAAGATCT
* * **
11399123 -CCATCTTGGATCCGCTTCAG-GATAAACATCCGAAGGCGAGATCTGCTATGTGTCTG-CTCTCC
128 GCCATCTTGGATCTGCTTCAGCG-TAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCT-TCC
* *
11399185 ACCAAAGT-GAAGATGCCAAA
191 ATCAAAGTGGAA-ATGCCAGA
* * ** * *
11399205 ATTTGATTCATTCTCTGACAATACAGGGACGACAAATCATCTTAGATTTGCTTCATCGAAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
*
11399270 GTGAAAGCCAAATCAGCTATATCTTCGATCTGTTCCCTGCCGAATACAGAGAGATAAGATCTGCC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGCC
*
11399335 ATCTTGGATCTGCTTCAGCGTAAACATCTGAGGGTAAGATCTGCTATGTGTCTGCCTTCCATCAA
131 ATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCCATCAA
*
11399400 AGTGGAAATGCTAGA
196 AGTGGAAATGCCAGA
* *
11399415 CTTCGATTTGTTCTCTGACAATACAGAGAAGACAAATCATCTTAGATTTGCTTCATCGAAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
*
11399480 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGCC
*
11399545 ATCTTGGATCTGCTTCAGCGTAAACATCTGAGGGTAAGATCTGCTATGTGTCTGCCTTCCATCAA
131 ATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCCATCAA
11399610 AGTGGAAATGCCAGA
196 AGTGGAAATGCCAGA
*
11399625 CTTCGATTTGTTCTCTGACAATACAG-GACGACAAATCATCTTAGATTT--TTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
*
11399687 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGCC
*
11399752 ATCTTGGATCTGCTTCAGTGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCCATCAA
131 ATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCCATCAA
*
11399817 AGTGGAAATACCAGA
196 AGTGGAAATGCCAGA
* * * *
11399832 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATTATCTTAGATGTGTTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * * ** * * **
11399897 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTG-TAAACACA-AG-GAT--G-CCAAAC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATC-TGC
* * * *
11399956 CATCTTGGATCCGCTTCAGCATAAACATCTGAAGGTCAGATCTTCTATGTGTCTG-CTCTCCATC
130 CATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCT-TCCATC
*
11400020 AAAGT-GAAGATGCCAAA
194 AAAGTGGAA-ATGCCAGA
*
11400037 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
* * * * *
11400102 GTGAAAGCCAAATCAACTATATCTTCGATATGCTCCCCGCCGAATACTGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGCC
*
11400167 ATCTTAGATCTGC
131 ATCTTGGATCTGC
11400180 CCCGATGAAG
Statistics
Matches: 865, Mismatches: 86, Indels: 42
0.87 0.09 0.04
Matches are distributed among these distances:
203 1 0.00
204 81 0.09
205 179 0.21
206 7 0.01
207 185 0.21
208 25 0.03
209 26 0.03
210 354 0.41
211 7 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (210 bp):
CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGCC
ATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTTCCATCAA
AGTGGAAATGCCAGA
Found at i:11399777 original size:417 final size:412
Alignment explanation
Indices: 11399001--11400179 Score: 1651
Period size: 417 Copynumber: 2.8 Consensus size: 412
11398991 AAATCTGCTT
* * * * *
11399001 CTTCGATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGAAGACAAATCATCTTAGATTTGCTTCAACGTAAACAC
* * * **
11399066 GTTAAAGCCAAATCAACTATGA--TTCGATTTGCTCCTTGTAAGCATA-AG-GATGCCAAACCAT
66 GTGAAAGCCAAATCAGCTAT-ATCTTCGATTTGCTCCTTG--AGAATACAGAGA-GATAAACCAT
* ** *
11399127 CTTGGATCCGCTTCAG-GATAAACATCCGAAGGCGAGATCTGCTATGTGTCTGCTCTCCACCAAA
127 CTTGGATCCGCTTCAGCG-TAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCTCTCCATCAAA
* * *
11399191 GTGAAGATGCCAAAATTTGATTCATTCTCTGACAATACAGGGACGACAAATCATCTTAGATTTGC
191 GTGAAGATGCCAAACTTCGATTCGTTCTCTGACAATACA-GGACGACAAATCATCTTAGATTT-C
* *
11399256 TTCATCGAAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGTTCCCTGCCGAATACAGAG
254 TTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAG
* *
11399321 AGATAAGATCTGCCATCTTGGATCTGCTTCAGCGTAAACATCTGAGGGTAAGATCTGCTATGTGT
319 AGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGT
* *
11399386 CTGCCTTCCATCAAAGTGGAAATGCTAGA
384 CTGCCTTCCATCAAAGTGGAAATACCAGA
* *
11399415 CTTCGATTTGTTCTCTGACAATACAGAGAAGACAAATCATCTTAGATTTGCTTCATCGAAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGAAGACAAATCATCTTAGATTTGCTTCAACGTAAACAC
* * *
11399480 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAGATCTGTC
66 GTGAAAGCCAAATCAGCTATATCTTCGATTTGCTCCTTG-AGAATACAGAGAGATAA-A-C---C
* *
11399545 ATCTTGGATCTGCTTCAGCGTAAACATCTGAGGGTAAGATCTGCTATGTGTCTGC-CTTCCATCA
125 ATCTTGGATCCGCTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCTC-TCCATCA
* *
11399609 AAGTGGAA-ATGCCAGACTTCGATTTGTTCTCTGACAATACAGGACGACAAATCATCTTAGATTT
189 AAGT-GAAGATGCCAAACTTCGATTCGTTCTCTGACAATACAGGACGACAAATCATCTTAGATTT
*
11399673 -TTCAACGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGA
253 CTTCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGA
*
11399737 GAGATAAGATCTGTCATCTTGGATCTGCTTCAGTGTAAACATCTGAAGGTAAGATCTGCTATGTG
318 GAGATAAGATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTG
11399802 TCTGCCTTCCATCAAAGTGGAAATACCAGA
383 TCTGCCTTCCATCAAAGTGGAAATACCAGA
* * * *
11399832 CTTCGATTTGTTCTCTGACAATACAGAGACGACAAATTATCTTAGATGTGTTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGAAGACAAATCATCTTAGATTTGCTTCAACGTAAACAC
* * *
11399897 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTA-AACACA-AG-GATGCCAAACCAT
66 GTGAAAGCCAAATCAGCTATATCTTCGATTTGCTCCTTG-AGAATACAGAGAGAT---AAACCAT
* * *
11399959 CTTGGATCCGCTTCAGCATAAACATCTGAAGGTCAGATCTTCTATGTGTCTGCTCTCCATCAAAG
127 CTTGGATCCGCTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCTCTCCATCAAAG
11400024 TGAAGATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCT
192 TGAAGATGCCAAACTTCGATTCGTTCTCTGACAATACAG-GACGACAAATCATCTTAGATTT-CT
* * * *
11400089 TCATCGTAAACACGTGAAAGCCAAATCAACTATATCTTCGATATGCTCCCCGCCGAATACTGAGA
255 TCATCGTAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGA
*
11400154 GATAAGATCTGTCATCTTAGATCTGC
320 GATAAGATCTGTCATCTTGGATCTGC
11400180 CCCGATGAAG
Statistics
Matches: 684, Mismatches: 61, Indels: 39
0.87 0.08 0.05
Matches are distributed among these distances:
411 3 0.00
412 94 0.14
413 24 0.04
414 83 0.12
415 108 0.16
416 9 0.01
417 248 0.36
419 24 0.04
420 87 0.13
421 4 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (412 bp):
CTTCGATTTGTTCTCTGACAATACAGAGAAGACAAATCATCTTAGATTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATATCTTCGATTTGCTCCTTGAGAATACAGAGAGATAAACCATCTTG
GATCCGCTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
GATGCCAAACTTCGATTCGTTCTCTGACAATACAGGACGACAAATCATCTTAGATTTCTTCATCG
TAAACACGTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCCCTGCCGAATACAGAGAGATAAG
ATCTGTCATCTTGGATCTGCTTCAGCGTAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCCTT
CCATCAAAGTGGAAATACCAGA
Found at i:11408752 original size:15 final size:15
Alignment explanation
Indices: 11408732--11408762 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11408722 TTTACTTTCT
11408732 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
11408747 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
11408762 A
1 A
11408763 AAATTTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:11416946 original size:210 final size:210
Alignment explanation
Indices: 11416570--11417335 Score: 1065
Period size: 210 Copynumber: 3.7 Consensus size: 210
11416560 TTCATCGAGG
* * * * * *
11416570 CAGATCTAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCATATCAAAGATATAGTTGA
1 CAGATCCAAGATGACAGATCTTATCTCTCTGCATTCGGCAGGGAGCAGATCGAAGATATAGCTGA
*
11416635 TTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
66 TTTGGCTTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
*
11416700 AACAAATCGAAGTCTGGCATTTCCACTTTAATGGAAGGCAGACACATAGCAGATCTTACCTTCAG
131 AACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCAG
11416765 ATGTTTACGCTGAAA
196 ATGTTTACGCTGAAA
*
11416780 CAGATCCAAGATGACAGATCTTATCTCTCTGCATTCGGCAGGGAGTAGATCGAAGATATAGCTGA
1 CAGATCCAAGATGACAGATCTTATCTCTCTGCATTCGGCAGGGAGCAGATCGAAGATATAGCTGA
11416845 TTTGGCTTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
66 TTTGGCTTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
*
11416910 AACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAACAGATCTTACCTTCAG
131 AACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCAG
11416975 ATGTTTACGCTGAAA
196 ATGTTTACGCTGAAA
*
11416990 CAGATCCAAGATGACAGATCTTATCTCTCTGCATTCGGCAGGGAACAGATCGAAGATATAGCTGA
1 CAGATCCAAGATGACAGATCTTATCTCTCTGCATTCGGCAGGGAGCAGATCGAAGATATAGCTGA
*
11417055 TTTGGCTTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGAG
66 TTTGGCTTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
* * * * *
11417120 AACGAATCAAAGTTTGGCATCTT-CACTTTGGTGG-AGAGCAGACACATAGCAGATCTTGCCTTC
131 AACAAATCGAAGTCTGGCAT-TTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTTACCTTC
* * *
11417183 GGATGTTTATGCTGAAG
194 AGATGTTTACGCTGAAA
* * * * *
11417200 CGGATCCAAGATG---G-T-TTGGCATC-CTTATGC-TT--ACAAGGAGCAAATCG-A-ATCATA
1 CAGATCCAAGATGACAGATCTT---ATCTC-TCTGCATTCGGCAGGGAGCAGATCGAAGAT-ATA
** * * * * *
11417254 ATTGATTTGGCTTTCACGTGCTTAT-GTTAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTG
61 GCTGATTTGGCTTTCACGTG-TTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTG
*
11417318 TCAGGGAACAAATCGAAG
125 TCAGAGAACAAATCGAAG
11417336 AAGCAGATTT
Statistics
Matches: 511, Mismatches: 37, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
203 2 0.00
204 73 0.14
205 16 0.03
206 1 0.00
207 4 0.01
208 7 0.01
209 2 0.00
210 404 0.79
211 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (210 bp):
CAGATCCAAGATGACAGATCTTATCTCTCTGCATTCGGCAGGGAGCAGATCGAAGATATAGCTGA
TTTGGCTTTCACGTGTTTTCGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
AACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTTACCTTCAG
ATGTTTACGCTGAAA
Found at i:11417486 original size:45 final size:45
Alignment explanation
Indices: 11417429--11417514 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
11417419 GAAGAAGCAA
* * *
11417429 ATTTGGCGTCTCTGTATTAGACG-GGGAGCAAATCGAAGATAATAG
1 ATTTGGCATCTCTGTAGTAGACGAGGG-GCAAATCAAAGATAATAG
*
11417474 ATTTGGCATCTCTGTAGTAGACGAGGGGCAGATCAAAGATA
1 ATTTGGCATCTCTGTAGTAGACGAGGGGCAAATCAAAGATA
11417515 GCAGATATCG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
45 33 0.92
46 3 0.08
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (45 bp):
ATTTGGCATCTCTGTAGTAGACGAGGGGCAAATCAAAGATAATAG
Found at i:11418771 original size:38 final size:37
Alignment explanation
Indices: 11418728--11418875 Score: 188
Period size: 38 Copynumber: 3.9 Consensus size: 37
11418718 ATAAAGTATG
* * *
11418728 GTTTTAATTAATAATAAAACAAAATGGTATGAGGAAT
1 GTTTTAATTAACAATAAAACAAAATAGTATGGGGAAT
11418765 AGTTTTAATTAACAATAAAACAAAATAGTATGGGGAAGT
1 -GTTTTAATTAACAATAAAACAAAATAGTATGGGGAA-T
* *
11418804 GTTTTAATTAACAATAAAACAAAATAGCATGGGGAGT
1 GTTTTAATTAACAATAAAACAAAATAGTATGGGGAAT
* * * *
11418841 GGTTTTGATTAATAATAAAACAAAGTAGCATGGGG
1 -GTTTTAATTAACAATAAAACAAAATAGTATGGGG
11418876 GAGTGGAATC
Statistics
Matches: 100, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
37 1 0.01
38 98 0.98
39 1 0.01
ACGTcount: A:0.46, C:0.05, G:0.20, T:0.29
Consensus pattern (37 bp):
GTTTTAATTAACAATAAAACAAAATAGTATGGGGAAT
Found at i:11418810 original size:76 final size:76
Alignment explanation
Indices: 11418728--11418880 Score: 207
Period size: 76 Copynumber: 2.0 Consensus size: 76
11418718 ATAAAGTATG
* * *
11418728 GTTTTAATTAATAATAAAACAAAATGGTATGAGGAATAGTTTTAATTAACAATAAAACAAAATAG
1 GTTTTAATTAACAATAAAACAAAATAGCATGAGGAATAGTTTTAATTAACAATAAAACAAAATAG
*
11418793 TATGGGGAAGT
66 CATGGGGAAGT
* * * * * *
11418804 GTTTTAATTAACAATAAAACAAAATAGCATGGGGAGTGGTTTTGATTAATAATAAAACAAAGTAG
1 GTTTTAATTAACAATAAAACAAAATAGCATGAGGAATAGTTTTAATTAACAATAAAACAAAATAG
*
11418869 CATGGGGGAGT
66 CATGGGGAAGT
11418880 G
1 G
11418881 GAATCAGCTT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
76 66 1.00
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (76 bp):
GTTTTAATTAACAATAAAACAAAATAGCATGAGGAATAGTTTTAATTAACAATAAAACAAAATAG
CATGGGGAAGT
Found at i:11419422 original size:2 final size:2
Alignment explanation
Indices: 11419415--11419445 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11419405 TGTATACATT
11419415 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
11419446 CTTTTAATAT
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:11419665 original size:29 final size:26
Alignment explanation
Indices: 11419610--11419666 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
11419600 GTTGTTTCTA
*
11419610 ATATTATGATTATTTCTAATATGTAT
1 ATATTATGATTATTTCTAATATATAT
11419636 ATATTATGTATTTACTTTC-AATAT-TAT
1 ATATTATG-A-TTA-TTTCTAATATATAT
11419663 ATAT
1 ATAT
11419667 CGTATATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
26 8 0.29
27 8 0.29
28 8 0.29
29 4 0.14
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (26 bp):
ATATTATGATTATTTCTAATATATAT
Found at i:11422697 original size:18 final size:19
Alignment explanation
Indices: 11422648--11422697 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
11422638 AAATCAGTTA
*
11422648 CAGATGC-AGATACAAAAT
1 CAGATGCAATATACAAAAT
11422666 CAGATGCAAT-TACAAATAT
1 CAGATGCAATATACAAA-AT
11422685 -AGATG-AATATACA
1 CAGATGCAATATACA
11422698 TAATTAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 3 0.11
18 22 0.79
19 3 0.11
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.22
Consensus pattern (19 bp):
CAGATGCAATATACAAAAT
Found at i:11423875 original size:6 final size:6
Alignment explanation
Indices: 11423864--11424099 Score: 454
Period size: 6 Copynumber: 39.3 Consensus size: 6
11423854 TGAAGCTCTT
* *
11423864 TACAGA TACAGA TACAGA AACAGA TATAGA TACAGA TACAGA TACAGA
1 TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA
11423912 TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA
1 TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA
11423960 TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA
1 TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA
11424008 TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA
1 TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA
11424056 TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TA
1 TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TA
11424100 TGCATATCAG
Statistics
Matches: 226, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 226 1.00
ACGTcount: A:0.50, C:0.16, G:0.17, T:0.17
Consensus pattern (6 bp):
TACAGA
Found at i:11427824 original size:24 final size:23
Alignment explanation
Indices: 11427785--11427988 Score: 214
Period size: 23 Copynumber: 8.7 Consensus size: 23
11427775 GTGTGATAAC
11427785 TGCGAACCCTATCACCAGACATG
1 TGCGAACCCTATCACCAGACATG
* *
11427808 CGTGAACCCTTATCACCAGACATG
1 TGCGAACCC-TATCACCAGACATG
*
11427832 TGCGAACACCTATCACTAGACATG
1 TGCGAAC-CCTATCACCAGACATG
** *
11427856 T-ATAACCCCTATCA-TAGACATG
1 TGCGAA-CCCTATCACCAGACATG
* *
11427878 TGCAAATCCCTGTCACCAGACATG
1 TGCGAA-CCCTATCACCAGACATG
* *
11427902 TGCGAACCCTGTCACTAGACATG
1 TGCGAACCCTATCACCAGACATG
* *
11427925 TGCGAACCCTGTCACTAGACATG
1 TGCGAACCCTATCACCAGACATG
11427948 TGCGAACCCCTATCACCAGACATG
1 TGCGAA-CCCTATCACCAGACATG
**
11427972 TATGAACCCTTATCACC
1 TGCGAACCC-TATCACC
11427989 TGGTACATAC
Statistics
Matches: 156, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
22 9 0.06
23 73 0.47
24 72 0.46
25 2 0.01
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (23 bp):
TGCGAACCCTATCACCAGACATG
Found at i:11427875 original size:70 final size:69
Alignment explanation
Indices: 11427788--11427987 Score: 233
Period size: 70 Copynumber: 2.8 Consensus size: 69
11427778 TGATAACTGC
* * *
11427788 GAACCCTATCACCAGACATGCGTGAACCCTTATCACCAGACATGTGCGAACACCTATCACTAGAC
1 GAACCCTATCACTAGACATGTGCGAACCC-TATCACCAGACATGTGCGAAC-CCTATCACTAGAC
11427853 ATGT-A
64 ATGTGA
* * * *
11427858 TAACCCCTATCA-TAGACATGTGCAAATCCCTGTCACCAGACATGTGCGAACCCTGTCACTAGAC
1 GAA-CCCTATCACTAGACATGTGCGAA-CCCTATCACCAGACATGTGCGAACCCTATCACTAGAC
*
11427922 ATGTGC
64 ATGTGA
* **
11427928 GAACCCTGTCACTAGACATGTGCGAACCCCTATCACCAGACATGTATGAACCCTTATCAC
1 GAACCCTATCACTAGACATGTGCGAA-CCCTATCACCAGACATGTGCGAACCC-TATCAC
11427988 CTGGTACATA
Statistics
Matches: 109, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
69 23 0.21
70 70 0.64
71 16 0.15
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.21
Consensus pattern (69 bp):
GAACCCTATCACTAGACATGTGCGAACCCTATCACCAGACATGTGCGAACCCTATCACTAGACAT
GTGA
Found at i:11428101 original size:45 final size:44
Alignment explanation
Indices: 11428008--11428109 Score: 105
Period size: 45 Copynumber: 2.3 Consensus size: 44
11427998 CGAACCCTGT
* * * * * *
11428008 TAGGATGTTATGAGAGCCCCCTATATGTTGTGAGCGGACCCTAT
1 TAGGATGTTATGTGAGCCCCCTATATATTCTGAGCGAACCCAAC
* * *
11428052 TAGGATGTTATGTGATCCGTCCTATATATTCTGTGCGAACCCAAC
1 TAGGATGTTATGTGAGCC-CCCTATATATTCTGAGCGAACCCAAC
*
11428097 TAGGATGATATGT
1 TAGGATGTTATGT
11428110 TAACCTTGTA
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 16 0.34
45 31 0.66
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (44 bp):
TAGGATGTTATGTGAGCCCCCTATATATTCTGAGCGAACCCAAC
Found at i:11431307 original size:22 final size:22
Alignment explanation
Indices: 11431264--11431305 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11431254 TGGCGTACAT
11431264 ATAAAAACATATACGTGATATA
1 ATAAAAACATATACGTGATATA
*
11431286 ATAAAAATATATA-GT-ATATA
1 ATAAAAACATATACGTGATATA
11431306 TATATACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 12 0.63
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (22 bp):
ATAAAAACATATACGTGATATA
Found at i:11433673 original size:44 final size:45
Alignment explanation
Indices: 11433623--11433769 Score: 135
Period size: 44 Copynumber: 3.4 Consensus size: 45
11433613 ACCTGTTACC
*
11433623 CTACTGCTT-GGGGGTTTAAGGTTCTTCATCTTCGGTCTGCTCCA
1 CTACTGCTTAGGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCA
* * * * * * * * *
11433667 CTACTGCTTAGGGAG-ATCA-GATCTGCA-ATTCAACCTGTTACC-
1 CTACTGCTTAGGGGGTTTAAGGTTCTTCATCTTCGATCTGCT-CCA
* *
11433709 CTACTGCTTA-GGGGTTTAAGGTTCTTCGTCTTCGATCTGGTCCA
1 CTACTGCTTAGGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCA
11433753 CTACTGCTTAGGGGGTT
1 CTACTGCTTAGGGGGTT
11433770 AAGATCTGTA
Statistics
Matches: 76, Mismatches: 20, Indels: 13
0.70 0.18 0.12
Matches are distributed among these distances:
41 3 0.04
42 19 0.25
43 15 0.20
44 29 0.38
45 10 0.13
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.35
Consensus pattern (45 bp):
CTACTGCTTAGGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCA
Found at i:11433700 original size:86 final size:88
Alignment explanation
Indices: 11433581--11433818 Score: 331
Period size: 86 Copynumber: 2.7 Consensus size: 88
11433571 ATCTATTTCC
** * *
11433581 CTACTGCTTAGGG-TTTTAGATCTGTAAAC-TCAACCTGTTACCCTACTGCTTGGGGGTTTAAGG
1 CTACTGCTTAGGGAGATAAGATCTGTAAACTTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
*
11433644 TTCTTCATCTTCGGTCTGCTCCA
66 TTCTTCATCTTCGATCTGCTCCA
* *
11433667 CTACTGCTTAGGGAGATCAGATCTG-CAA-TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
1 CTACTGCTTAGGGAGATAAGATCTGTAAACTTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
* *
11433730 TTCTTCGTCTTCGATCTGGTCCA
66 TTCTTCATCTTCGATCTGCTCCA
* * *
11433753 CTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG
1 CTACTGCTTAGGGAGATAAGATCTGTAAA-CTTCAACCTGTTACCCTACTGCTTAGGGGTTTAAG
11433818 G
65 G
11433819 CTTGTAAATT
Statistics
Matches: 134, Mismatches: 13, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
86 90 0.67
87 10 0.07
89 34 0.25
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (88 bp):
CTACTGCTTAGGGAGATAAGATCTGTAAACTTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
TTCTTCATCTTCGATCTGCTCCA
Found at i:11433852 original size:43 final size:45
Alignment explanation
Indices: 11433579--11433859 Score: 182
Period size: 43 Copynumber: 6.5 Consensus size: 45
11433569 TGATCTATTT
* * *
11433579 CCCTACTGCTTA-GGGTTTTAGATCTGTAAA-C-TCAACCTGTTA
1 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
* * * * *
11433621 CCCTACTGCTT-GGGGGTTTAAGGTTCT-T-CATCTTCGGTCTGCT-
1 CCCTACTGCTTAGGGGG-TTAA-GATCTGTAAATCTTCAGCCTGTTA
* * * * *
11433664 CCACTACTGCTTAGGGAGATCAGATCTG-CAA--TTCAACCTGTTA
1 CC-CTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
* * ** * *
11433707 CCCTACTGCTTAGGGGTTTAAGGTTCT-T-CGTCTTC-GATCTGGT-
1 CCCTACTGCTTAGGGGGTTAA-GATCTGTAAATCTTCAG-CCTGTTA
11433750 CCACTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
1 CC-CTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
* * *
11433796 CCCTACTGCTTAGGGGTTTAAG-GCTTGTAAAT-TT-AGCTTGTTA
1 CCCTACTGCTTAGGGGGTTAAGATC-TGTAAATCTTCAGCCTGTTA
11433839 CCCTACTGCTTAGGGGGTTAA
1 CCCTACTGCTTAGGGGGTTAA
11433860 AGCCCATCAT
Statistics
Matches: 181, Mismatches: 37, Indels: 41
0.70 0.14 0.16
Matches are distributed among these distances:
42 37 0.20
43 51 0.28
44 51 0.28
45 39 0.22
46 3 0.02
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (45 bp):
CCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTA
Found at i:11446059 original size:22 final size:22
Alignment explanation
Indices: 11446016--11446057 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11446006 TGGCGTACAT
11446016 ATAAAAACATATACGTGATATA
1 ATAAAAACATATACGTGATATA
*
11446038 ATAAAAATATATA-GT-ATATA
1 ATAAAAACATATACGTGATATA
11446058 TATATACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 12 0.63
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (22 bp):
ATAAAAACATATACGTGATATA
Found at i:11450909 original size:18 final size:18
Alignment explanation
Indices: 11450886--11450921 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
11450876 GATATGATAC
11450886 TAAAAT-TATCAAAAAAAT
1 TAAAATATAT-AAAAAAAT
11450904 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
11450922 CAGGGAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:11451226 original size:22 final size:23
Alignment explanation
Indices: 11451187--11451231 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
11451177 AAATTAAATC
*
11451187 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTACAAAATCACATCT
* *
11451210 TCTAAGATTGC-ATATCACATCT
1 TCTAAGATTACAAAATCACATCT
11451232 AAGTTTGCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (23 bp):
TCTAAGATTACAAAATCACATCT
Found at i:11451234 original size:19 final size:19
Alignment explanation
Indices: 11451210--11451280 Score: 96
Period size: 19 Copynumber: 3.9 Consensus size: 19
11451200 AATCATATCT
*
11451210 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
*
11451229 TCTAAGTTTGCA-ATCATA
1 TCTAAGATTGCATATCATA
11451247 TCT-AGATTG--TATCATA
1 TCTAAGATTGCATATCATA
11451263 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
11451281 TAAGATTATA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
16 9 0.20
17 11 0.24
18 8 0.18
19 17 0.38
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11451284 original size:16 final size:17
Alignment explanation
Indices: 11451203--11451287 Score: 70
Period size: 17 Copynumber: 4.9 Consensus size: 17
11451193 ATTACAAAAT
*
11451203 CATATCTTCTAAGATTG
1 CATATCATCTAAGATTG
*
11451220 CATATCACATCTAAGTTTG
1 CATAT--CATCTAAGATTG
11451239 CA-ATCATATCT-AGATTG
1 CATATC--ATCTAAGATTG
*
11451256 TATCAT-ATCTAAGATTG
1 CAT-ATCATCTAAGATTG
11451273 CATATCAT-TAAGATT
1 CATATCATCTAAGATT
11451288 ATATTTCCAT
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
16 14 0.25
17 21 0.38
18 6 0.11
19 14 0.25
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (17 bp):
CATATCATCTAAGATTG
Found at i:11451435 original size:21 final size:19
Alignment explanation
Indices: 11451398--11451436 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
11451388 TTGGACTTCG
*
11451398 TTTTTTTTTTGGGTTATTA
1 TTTTTTTTTTGGCTTATTA
11451417 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGG-CTTATT
11451437 TCTGGCCCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 7 0.41
21 5 0.29
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (19 bp):
TTTTTTTTTTGGCTTATTA
Found at i:11451674 original size:44 final size:44
Alignment explanation
Indices: 11451595--11451723 Score: 152
Period size: 45 Copynumber: 2.9 Consensus size: 44
11451585 CTCTTGACGG
* **
11451595 CTTCAATCTGCTCCCATCTAATACAGAGACACCAAATCTGCT-T
1 CTTCAATCTGCTCCCGTCTAATACAGAGATGCCAAATCTGCTAT
* *
11451638 CTTCAATCTGCTCTCCGTTTAATACAGAGATGCCAAATCTGTTAT
1 CTTCAATCTGCTC-CCGTCTAATACAGAGATGCCAAATCTGCTAT
* * * *
11451683 CTCCGATTTGCTCCCCGTCTAATATAGAGATGCCAAATCTG
1 CTTCAATCTGCT-CCCGTCTAATACAGAGATGCCAAATCTG
11451724 TCATTTTGCA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 13 0.18
44 24 0.33
45 35 0.48
46 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (44 bp):
CTTCAATCTGCTCCCGTCTAATACAGAGATGCCAAATCTGCTAT
Found at i:11451941 original size:78 final size:77
Alignment explanation
Indices: 11451753--11452045 Score: 430
Period size: 78 Copynumber: 3.8 Consensus size: 77
11451743 ATGTAAACAC
*
11451753 ATGAAGGTCAGAT-TGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCT
11451817 TGATCTGCTTCA
66 TGATCTGCTTCA
* * * *
11451829 ATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCTCCGTCTAATATAGAGATGCCAAATAATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATC
11451893 TTGAATCTGCTTCA
65 TTG-ATCTGCTTCA
* * *
11451907 ATGAAGGTCAGATCTACTATGTCTTCAATTTGCTC-CTCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTC-CGTCTAATACAGAGATGCCAAATCATC
11451971 TTGGATCTGCTTCA
65 TT-GATCTGCTTCA
* **
11451985 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATC
11452046 TGTTTCTTCG
Statistics
Matches: 192, Mismatches: 18, Indels: 12
0.86 0.08 0.05
Matches are distributed among these distances:
76 10 0.05
77 53 0.28
78 127 0.66
79 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (77 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCT
TGATCTGCTTCA
Found at i:11457224 original size:12 final size:12
Alignment explanation
Indices: 11457207--11457231 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11457197 CCCTCTTCTC
11457207 TCTTTCTCTTTT
1 TCTTTCTCTTTT
11457219 TCTTTCTCTTTT
1 TCTTTCTCTTTT
11457231 T
1 T
11457232 AACCTTAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTTCTCTTTT
Found at i:11460336 original size:18 final size:18
Alignment explanation
Indices: 11460313--11460348 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
11460303 GATATGATAC
11460313 TAAAAT-TATTAAAAAAAT
1 TAAAATATA-TAAAAAAAT
11460331 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
11460349 CAGGGAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:11460674 original size:18 final size:18
Alignment explanation
Indices: 11460638--11460701 Score: 85
Period size: 17 Copynumber: 3.6 Consensus size: 18
11460628 AATCATATAT
11460638 TCTAAGATTGCATATCATA
1 TCTAAGATTGCA-ATCATA
*
11460657 TCTAATATTGCAATCATA
1 TCTAAGATTGCAATCATA
* *
11460675 TCTAACATTG-TATCATA
1 TCTAAGATTGCAATCATA
11460692 TCTAAGATTG
1 TCTAAGATTG
11460702 TATATCATTG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.37
18 15 0.37
19 11 0.27
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:11460870 original size:22 final size:20
Alignment explanation
Indices: 11460828--11460867 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
11460818 TTGGACTTCG
**
11460828 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
11460848 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
11460868 TATGGGCCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:11462772 original size:3 final size:3
Alignment explanation
Indices: 11462764--11463009 Score: 134
Period size: 3 Copynumber: 83.3 Consensus size: 3
11462754 CATTTTTGCT
* * *
11462764 TTA TTA TTA TTA TTA TTCA -AA TTA TTA CTA TTA TTA TTA TTA TTC
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
11462809 CTA TGT- GTA TTA TTA TTA CTTA -TA TGA TTG TTA TT- TCTA ATA TTA
1 TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * *
11462854 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TCA GTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * * *
11462901 -TA TTG TTA TTA TTA GTA TTA TTG TCA GTG TCA GTA TTA TT- TTCG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
* * * *
11462945 TTA TCT- TT- TTA TTT TTA TTA TTT TTA TTA TTG TTA TTA TTT TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
11462989 TTA CTA TTA TTG TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
11463010 CGTTCTTATT
Statistics
Matches: 178, Mismatches: 50, Indels: 30
0.69 0.19 0.12
Matches are distributed among these distances:
2 16 0.09
3 154 0.87
4 8 0.04
ACGTcount: A:0.28, C:0.05, G:0.06, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:11463350 original size:17 final size:18
Alignment explanation
Indices: 11463320--11463356 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11463310 GTATTTCTAG
11463320 TACTATATTACA-TTTAT
1 TACTATATTACATTTTAT
11463337 TACT-TATTAGCATTTTAT
1 TACTATATTA-CATTTTAT
11463355 TA
1 TA
11463357 TTACTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
17 6 0.33
18 7 0.39
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.54
Consensus pattern (18 bp):
TACTATATTACATTTTAT
Found at i:11463529 original size:27 final size:30
Alignment explanation
Indices: 11463498--11463558 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
11463488 TCAAGTATGC
* *
11463498 ACGTTTT-AATAT-TATATCTTTTCATA-T
1 ACGTTTTGAATATATATATATTTTAATACT
*
11463525 ACGTTTTGTATATATATATATTTTAATACT
1 ACGTTTTGAATATATATATATTTTAATACT
11463555 ACGT
1 ACGT
11463559 ATATACTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.25
28 4 0.14
29 12 0.43
30 5 0.18
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (30 bp):
ACGTTTTGAATATATATATATTTTAATACT
Found at i:11474036 original size:41 final size:41
Alignment explanation
Indices: 11473906--11474139 Score: 321
Period size: 41 Copynumber: 5.8 Consensus size: 41
11473896 CATAGAACAA
* *
11473906 TAGCGGCGTTTTTGGTAAAACGCCGCTAAAAA-CAGAGCAA
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCAT
** * * * *
11473946 TAGCGGCTTTTTTGTTAAAACGCCTCTAAAAA-TAGAGCAA
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCAT
*
11473986 TAGCTGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCAT
* *
11474027 TAGCGGCGCTTTTGGTAAAACGCCTCAAAAAACCAGAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCAT
11474068 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC-GAAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAG-AGCAT
**
11474109 TAGCGGCGCTTTCCGTAAAACGCCGCTAAAA
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
11474140 GTCATATAAC
Statistics
Matches: 174, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
40 64 0.37
41 110 0.63
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCAT
Found at i:11474170 original size:18 final size:19
Alignment explanation
Indices: 11474149--11474184 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11474139 AGTCATATAA
*
11474149 CCCCTAAAAACC-TAAACC
1 CCCCAAAAAACCATAAACC
11474167 CCCCAAAAAACCATAAAC
1 CCCCAAAAAACCATAAAC
11474185 ACTAATCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.50, C:0.42, G:0.00, T:0.08
Consensus pattern (19 bp):
CCCCAAAAAACCATAAACC
Found at i:11475320 original size:17 final size:18
Alignment explanation
Indices: 11475298--11475331 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11475288 TATTTGTTTT
11475298 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
11475315 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
11475332 TTAAGAGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:11479889 original size:19 final size:19
Alignment explanation
Indices: 11479866--11479912 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
11479856 ATTTAATCTA
*
11479866 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
11479884 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
11479904 ATTTTTATT
1 ATTTTTATT
11479913 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:11479932 original size:30 final size:32
Alignment explanation
Indices: 11479865--11479932 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 32
11479855 TATTTAATCT
* **
11479865 AATTTTTATTATTTATTTTAGTTTTGATTCTA
1 AATTTTTATTATTTATTTTAGATTTGATAATA
*
11479897 TATTTTTATT-TTTATTTTA-ATTTGATAATA
1 AATTTTTATTATTTATTTTAGATTTGATAATA
11479927 AATTTT
1 AATTTT
11479933 AATAGAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 13 0.42
31 9 0.29
32 9 0.29
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.66
Consensus pattern (32 bp):
AATTTTTATTATTTATTTTAGATTTGATAATA
Found at i:11480017 original size:23 final size:23
Alignment explanation
Indices: 11479991--11480035 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
11479981 TTTGATAATG
*
11479991 AATTTTAATTTTTTTTATATTTT
1 AATTTTAATTTTTTTTAAATTTT
*
11480014 AATTTTATTTTTTTTTAAATTT
1 AATTTTAATTTTTTTTAAATTT
11480036 CATGACCTTT
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (23 bp):
AATTTTAATTTTTTTTAAATTTT
Found at i:11480546 original size:21 final size:21
Alignment explanation
Indices: 11480522--11480561 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11480512 TCATATTTTT
*
11480522 TAATCAACAATATTAATATCA
1 TAATCAACAATATAAATATCA
* *
11480543 TAATTAATAATATAAATAT
1 TAATCAACAATATAAATAT
11480562 ATCATTTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATCAACAATATAAATATCA
Found at i:11481875 original size:25 final size:25
Alignment explanation
Indices: 11481844--11481907 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
11481834 CATAGCATGG
11481844 AAAATTTGAGATTATAT-GACAAAAA
1 AAAATTTGAG-TTATATAGACAAAAA
* * *
11481869 AAAATTTAAGCTT-TATAGACAATAT
1 AAAATTTGAG-TTATATAGACAAAAA
11481894 AAAATTTGAGTTAT
1 AAAATTTGAGTTAT
11481908 TTGAGTTGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
24 5 0.16
25 27 0.84
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (25 bp):
AAAATTTGAGTTATATAGACAAAAA
Found at i:11483231 original size:26 final size:29
Alignment explanation
Indices: 11483197--11483255 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
11483187 TGTTGCATTA
11483197 TCTTCG-TAT-AAGATAGTTGACATCTTT
1 TCTTCGATATCAAGATAGTTGACATCTTT
11483224 TCTT-GTATATGCAAGATAGTTGACATCTTT
1 TCTTCG-ATAT-CAAGATAGTTGACATCTTT
11483254 TC
1 TC
11483256 CTATATATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
26 1 0.04
27 4 0.14
28 3 0.11
30 20 0.71
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.44
Consensus pattern (29 bp):
TCTTCGATATCAAGATAGTTGACATCTTT
Found at i:11483240 original size:30 final size:30
Alignment explanation
Indices: 11483206--11483267 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
11483196 ATCTTCGTAT
* *
11483206 AAGATAGTTGACATCTTTTCTTGTATATGC
1 AAGATAGTTGACATCTTTTCCTATATATGC
11483236 AAGATAGTTGACATCTTTTCCTATATATGC
1 AAGATAGTTGACATCTTTTCCTATATATGC
11483266 AA
1 AA
11483268 ATTATATATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (30 bp):
AAGATAGTTGACATCTTTTCCTATATATGC
Found at i:11485789 original size:25 final size:25
Alignment explanation
Indices: 11485761--11485809 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
11485751 CTTGTTTGCT
11485761 TATTTAACTAGGTAAGTTCATATGA
1 TATTTAACTAGGTAAGTTCATATGA
*
11485786 TATTTTACTAGGTAAGTTCATATG
1 TATTTAACTAGGTAAGTTCATATG
11485810 GTATGATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (25 bp):
TATTTAACTAGGTAAGTTCATATGA
Found at i:11491089 original size:94 final size:94
Alignment explanation
Indices: 11490923--11491099 Score: 237
Period size: 94 Copynumber: 1.9 Consensus size: 94
11490913 ATCAATACTA
* * * * * *
11490923 TATCGATACTTTGTAGGTTTTGTGAAAATAGAATGCTATTTTGGTATTAATTTTAAGAGGGGGTA
1 TATCGAGACTTAGTAGGGTTTGTGAAAATAGAATGCCATTTTGGTATCAATTTTAAGAGAGGGTA
*
11490988 TCAATAATTCAGAAAATACTTGACCAAGG
66 TCAATAATTCAAAAAATACTTGACCAAGG
* **
11491017 TATCGAGACTTAGTAGGGTTTGTGAAAATATAATGCCATTTTGGTATCGCTTTTAAGAGAGGGTA
1 TATCGAGACTTAGTAGGGTTTGTGAAAATAGAATGCCATTTTGGTATCAATTTTAAGAGAGGGTA
** *
11491082 TTGATAATTTAAAAAATA
66 TCAATAATTCAAAAAATA
11491100 TCAATACTTG
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
94 70 1.00
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.36
Consensus pattern (94 bp):
TATCGAGACTTAGTAGGGTTTGTGAAAATAGAATGCCATTTTGGTATCAATTTTAAGAGAGGGTA
TCAATAATTCAAAAAATACTTGACCAAGG
Found at i:11492448 original size:38 final size:38
Alignment explanation
Indices: 11492397--11492472 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
11492387 TTGAAAATGC
*
11492397 CCTGACCTTGAACCGTTCCTGTTATTATCTTTTACTAA
1 CCTGACCTTGAACCGTTCCAGTTATTATCTTTTACTAA
11492435 CCTGACCTTGAACCGTTCCAGTTATTATCTTTTACTAA
1 CCTGACCTTGAACCGTTCCAGTTATTATCTTTTACTAA
11492473 GTTCGGGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.41
Consensus pattern (38 bp):
CCTGACCTTGAACCGTTCCAGTTATTATCTTTTACTAA
Found at i:11495639 original size:24 final size:23
Alignment explanation
Indices: 11495612--11495657 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
11495602 TTTATAGAAT
11495612 TTTGTGTTTACGTTTTGAGGGTTC
1 TTTGTGTTTACGTTTTG-GGGTTC
* *
11495636 TTTGTTTTTAGGTTTTGGGGTT
1 TTTGTGTTTACGTTTTGGGGTT
11495658 TAGCTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.07, C:0.04, G:0.30, T:0.59
Consensus pattern (23 bp):
TTTGTGTTTACGTTTTGGGGTTC
Found at i:11500102 original size:25 final size:24
Alignment explanation
Indices: 11500074--11500120 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11500064 TTTCCATAAA
11500074 TAATCGAAATTTTATATAATTTTCG
1 TAAT-GAAATTTTATATAATTTTCG
* * *
11500099 TAATTAATTTTTATATTATTTT
1 TAATGAAATTTTATATAATTTT
11500121 GATAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.57
Consensus pattern (24 bp):
TAATGAAATTTTATATAATTTTCG
Found at i:11505008 original size:51 final size:51
Alignment explanation
Indices: 11504917--11505016 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
11504907 CCAAACGTCT
* *
11504917 GTTCATATGAAATAACAGTTCTTACCAAATGACAGCTCATGCAAAATAATA
1 GTTCATATGAAATAACAGTTCATACCAAATAACAGCTCATGCAAAATAATA
* ** *
11504968 GTTCATATGAAATATCAGTTCATACTGAATAACA-CTTCATGCGAAATAA
1 GTTCATATGAAATAACAGTTCATACCAAATAACAGC-TCATGCAAAATAA
11505017 CAGCTCATGC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 1 0.02
51 41 0.98
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (51 bp):
GTTCATATGAAATAACAGTTCATACCAAATAACAGCTCATGCAAAATAATA
Found at i:11505024 original size:17 final size:17
Alignment explanation
Indices: 11504943--11505026 Score: 55
Period size: 17 Copynumber: 4.9 Consensus size: 17
11504933 AGTTCTTACC
* *
11504943 AAATGACAGCTCATGCA
1 AAATAACAGCTCATGCG
* * **
11504960 AAATAATAGTTCATATG
1 AAATAACAGCTCATGCG
* * *
11504977 AAATATCAGTTCATACTG
1 AAATAACAGCTCATGC-G
11504995 -AATAACA-CTTCATGCG
1 AAATAACAGC-TCATGCG
11505011 AAATAACAGCTCATGC
1 AAATAACAGCTCATGC
11505027 TTCATCATAA
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
16 1 0.02
17 48 0.94
18 2 0.04
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (17 bp):
AAATAACAGCTCATGCG
Found at i:11509208 original size:25 final size:26
Alignment explanation
Indices: 11509114--11509222 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
11509104 TGATACAAAT
11509114 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11509140 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11509166 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11509192 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11509217 TGATAA
1 TGATAA
11509223 GAATTTCATG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 24 0.31
26 54 0.69
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11510743 original size:25 final size:26
Alignment explanation
Indices: 11510701--11510752 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
11510691 TTTACAGTTT
11510701 TACCCCTAGGAGATAATT-ACCGAAA
1 TACCCCTAGGAGATAATTGACCGAAA
* *
11510726 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGAT-AATTGACCGAAA
11510752 T
1 T
11510753 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 2 0.09
25 14 0.61
26 7 0.30
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGAGATAATTGACCGAAA
Found at i:11511322 original size:136 final size:136
Alignment explanation
Indices: 11511000--11511283 Score: 446
Period size: 136 Copynumber: 2.1 Consensus size: 136
11510990 GAGTAGTCTC
* * * * *
11511000 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TGATTGATGCTGCATGGACTTTGAAATGGGCCTATGGGCCATAC
11511065 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
11511130 ACTGTTA
130 ACTGTTA
* * * *
11511137 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTGATTGATGCTGCATGGACTTTGAAATGGGCCTATGGGCCATACT
11511202 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAAT-TGAAAAGGGCTCTGG-CCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
11511265 CTGTTA
131 CTGTTA
**
11511271 CCTGAATGGGCTT
1 CCCAAATGGGCTT
11511284 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
134 26 0.18
135 15 0.10
136 83 0.58
137 20 0.14
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTGATTGATGCTGCATGGACTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:11515453 original size:25 final size:26
Alignment explanation
Indices: 11515359--11515467 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
11515349 TGATACAAAT
11515359 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11515385 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11515411 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11515437 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11515462 TGATAA
1 TGATAA
11515468 GAATTTCATG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 24 0.31
26 54 0.69
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11516984 original size:25 final size:26
Alignment explanation
Indices: 11516942--11516993 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
11516932 TTTACAGTTT
11516942 TACCCCTAGGAGATAATT-ACCGAAA
1 TACCCCTAGGAGATAATTGACCGAAA
* *
11516967 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGAT-AATTGACCGAAA
11516993 T
1 T
11516994 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 2 0.09
25 14 0.61
26 7 0.30
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGAGATAATTGACCGAAA
Found at i:11517486 original size:136 final size:137
Alignment explanation
Indices: 11517240--11517525 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
11517230 GAGTAGTCTC
11517240 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
11517305 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
11517370 ACTGTTA
131 ACTGTTA
*
11517377 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
11517441 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCTAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
11517506 ACTGTTA
131 ACTGTTA
**
11517513 CCTGAATGGGCTT
1 CCCAAATGGGCTT
11517526 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 124 0.86
137 20 0.14
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:11520308 original size:15 final size:15
Alignment explanation
Indices: 11520285--11520334 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
11520275 TTAAAATATA
*
11520285 ATATATATAAAAAAT
1 ATATTTATAAAAAAT
11520300 ATATTTATAAGAATAAT
1 ATATTTATAA-AA-AAT
11520317 A-ATTATATAAAAAAT
1 ATATT-TATAAAAAAT
11520332 ATA
1 ATA
11520335 AAATATATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 13 0.43
16 8 0.27
17 9 0.30
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
ATATTTATAAAAAAT
Found at i:11520858 original size:18 final size:18
Alignment explanation
Indices: 11520822--11520956 Score: 211
Period size: 18 Copynumber: 7.5 Consensus size: 18
11520812 AATCATATCT
*
11520822 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
11520841 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
11520859 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
11520876 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
11520894 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
11520912 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
11520929 TCTAAGATTGCATATCATA
1 TCTAAGATTGCA-ATCATA
11520948 TCTAAGATT
1 TCTAAGATT
11520957 ATATTTCCAT
Statistics
Matches: 108, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
17 32 0.30
18 50 0.46
19 26 0.24
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:11520880 original size:35 final size:36
Alignment explanation
Indices: 11520822--11520956 Score: 213
Period size: 35 Copynumber: 3.8 Consensus size: 36
11520812 AATCATATCT
11520822 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
11520859 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
*
11520894 TCTAAGATTGCA-ATCATATCTAAGATTG-TATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
11520929 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTG-ATATCATATCTAAGATT
11520957 ATATTTCCAT
Statistics
Matches: 94, Mismatches: 1, Indels: 7
0.92 0.01 0.07
Matches are distributed among these distances:
35 53 0.56
36 31 0.33
37 10 0.11
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATA
Found at i:11520901 original size:53 final size:54
Alignment explanation
Indices: 11520822--11520956 Score: 254
Period size: 53 Copynumber: 2.5 Consensus size: 54
11520812 AATCATATCT
*
11520822 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
11520876 TCTAAGATTGCA-ATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
11520929 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
11520957 ATATTTCCAT
Statistics
Matches: 79, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
53 53 0.67
54 26 0.33
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:11521829 original size:83 final size:83
Alignment explanation
Indices: 11521722--11522016 Score: 493
Period size: 83 Copynumber: 3.6 Consensus size: 83
11521712 AGCCAAATTA
* * *
11521722 GCTATGT-CTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGAGTCTGTTTAAGAA
1 GCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGAGTCTGTTTGAGAA
11521786 CATCTGAGAGTCAAATCT
66 CATCTGAGAGTCAAATCT
* *
11521804 GCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTTGAGTCTGTTTGAGAA
1 GCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGAGTCTGTTTGAGAA
11521869 CATCTGAGAGTCAAATCT
66 CATCTGAGAGTCAAATCT
* * *
11521887 GCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTATTTGAGAA
1 GCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGAGTCTGTTTGAGAA
*
11521952 CATCTGAGAGTCTAATCT
66 CATCTGAGAGTCAAATCT
*
11521970 GCTATGTCCTCGATTTATTCCTTGTAAGCACAAGAATGCCAAATCAT
1 GCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCAT
11522017 ATCTAAGATT
Statistics
Matches: 198, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
82 7 0.04
83 191 0.96
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (83 bp):
GCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGAGTCTGTTTGAGAA
CATCTGAGAGTCAAATCT
Found at i:11522052 original size:17 final size:18
Alignment explanation
Indices: 11522012--11522080 Score: 113
Period size: 17 Copynumber: 3.8 Consensus size: 18
11522002 AGAATGCCAA
*
11522012 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATTGCT
11522030 ATCATATCTAAGATTG-T
1 ATCATATCTAAGATTGCT
11522047 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGC-T
11522066 ATCATATCTAAGATT
1 ATCATATCTAAGATT
11522081 ATATTTCCTT
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
17 16 0.33
18 16 0.33
19 16 0.33
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (18 bp):
ATCATATCTAAGATTGCT
Found at i:11522058 original size:35 final size:36
Alignment explanation
Indices: 11522012--11522080 Score: 131
Period size: 35 Copynumber: 1.9 Consensus size: 36
11522002 AGAATGCCAA
11522012 ATCATATCTAAGATTGCA-ATCATATCTAAGATTGT
1 ATCATATCTAAGATTGCATATCATATCTAAGATTGT
11522047 ATCATATCTAAGATTGCATATCATATCTAAGATT
1 ATCATATCTAAGATTGCATATCATATCTAAGATT
11522081 ATATTTCCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 18 0.55
36 15 0.45
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (36 bp):
ATCATATCTAAGATTGCATATCATATCTAAGATTGT
Found at i:11523707 original size:12 final size:12
Alignment explanation
Indices: 11523692--11523718 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11523682 TCTTTCATTA
11523692 TTTCTTTGTTTC
1 TTTCTTTGTTTC
11523704 TTTCTTTGTTTC
1 TTTCTTTGTTTC
11523716 TTT
1 TTT
11523719 TTCTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.15, G:0.07, T:0.78
Consensus pattern (12 bp):
TTTCTTTGTTTC
Found at i:11524716 original size:8 final size:8
Alignment explanation
Indices: 11524695--11524742 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
11524685 GCGAATAATA
11524695 AAAATATAT
1 AAAATAT-T
11524704 AAAATATT
1 AAAATATT
*
11524712 AAAATATC
1 AAAATATT
11524720 AAAATATT
1 AAAATATT
* *
11524728 AGAAAAATA
1 A-AAATATT
11524737 AAAATA
1 AAAATA
11524743 ATATTGACAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
8 20 0.61
9 13 0.39
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (8 bp):
AAAATATT
Found at i:11524717 original size:17 final size:16
Alignment explanation
Indices: 11524695--11524742 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
11524685 GCGAATAATA
11524695 AAAATATATAAAATATT
1 AAAATATA-AAAATATT
*
11524712 AAAATATCAAAATATT
1 AAAATATAAAAATATT
*
11524728 AGAAAAATAAAAATA
1 A-AAATATAAAAATA
11524743 ATATTGACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 9 0.33
17 18 0.67
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (16 bp):
AAAATATAAAAATATT
Found at i:11524740 original size:25 final size:25
Alignment explanation
Indices: 11524695--11524742 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
11524685 GCGAATAATA
* *
11524695 AAAATATATAAAATATTAAAATATC
1 AAAATATATAAAAAATAAAAATATC
11524720 AAAATAT-TAGAAAAATAAAAATA
1 AAAATATATA-AAAAATAAAAATA
11524743 ATATTGACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (25 bp):
AAAATATATAAAAAATAAAAATATC
Found at i:11524754 original size:19 final size:20
Alignment explanation
Indices: 11524722--11524762 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
11524712 AAAATATCAA
11524722 AATATTAGAAAAATAAAAAT
1 AATATTAGAAAAATAAAAAT
*
11524742 AATATT-GACAAATAAAAAT
1 AATATTAGAAAAATAAAAAT
11524761 AA
1 AA
11524763 AAAAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.24
Consensus pattern (20 bp):
AATATTAGAAAAATAAAAAT
Found at i:11524789 original size:2 final size:2
Alignment explanation
Indices: 11524784--11524809 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11524774 AGTGTACATA
11524784 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
11524810 TAGAAATAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11535807 original size:26 final size:26
Alignment explanation
Indices: 11535771--11535878 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
11535761 TGAAATTCCA
11535771 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11535797 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
11535823 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
11535849 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
11535875 ATCA
1 ATCA
11535879 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11536259 original size:9 final size:9
Alignment explanation
Indices: 11536245--11536270 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
11536235 TATGTACATA
11536245 TATTAAAAG
1 TATTAAAAG
11536254 TATTAAAAG
1 TATTAAAAG
11536263 TATTAAAA
1 TATTAAAA
11536271 ATAAATACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (9 bp):
TATTAAAAG
Found at i:11536309 original size:16 final size:15
Alignment explanation
Indices: 11536280--11536315 Score: 63
Period size: 15 Copynumber: 2.3 Consensus size: 15
11536270 AATAAATACA
11536280 AAATAATATTAAAAAT
1 AAAT-ATATTAAAAAT
11536296 AAATATATTAAAAAT
1 AAATATATTAAAAAT
11536311 AAATA
1 AAATA
11536316 CATAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATATTAAAAAT
Found at i:11536510 original size:22 final size:22
Alignment explanation
Indices: 11536483--11536534 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 22
11536473 AAATAATTAT
11536483 TAATAATATCACATAAATATATACA
1 TAAT-ATATCA-A-AAATATATACA
*
11536508 TAATATATTAAAAATATATACA
1 TAATATATCAAAAATATATACA
11536530 TAATA
1 TAATA
11536535 ATGATATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 16 0.62
23 1 0.04
24 5 0.19
25 4 0.15
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (22 bp):
TAATATATCAAAAATATATACA
Found at i:11536512 original size:11 final size:11
Alignment explanation
Indices: 11536483--11536534 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
11536473 AAATAATTAT
11536483 TAATAATATCACA
1 TAAT-ATAT-ACA
11536496 TAAATATATACA
1 T-AATATATACA
11536508 TAATATATTA-A
1 TAATATA-TACA
*
11536519 AAATATATACA
1 TAATATATACA
11536530 TAATA
1 TAATA
11536535 ATGATATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
10 2 0.06
11 18 0.53
12 6 0.18
13 5 0.15
14 3 0.09
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATATATACA
Found at i:11536542 original size:26 final size:25
Alignment explanation
Indices: 11536507--11536615 Score: 89
Period size: 26 Copynumber: 4.3 Consensus size: 25
11536497 AAATATATAC
11536507 ATAATATATTAAAAATATATACATA
1 ATAATATATTAAAAATATATACATA
* * *
11536532 ATAATGATATTAAAAGTATGTACGTA
1 ATAAT-ATATTAAAAATATATACATA
* * * *
11536558 GT-ATAGTGTTAAAAATACATATATA
1 ATAATA-TATTAAAAATATATACATA
*
11536583 AT-ATAGTTCTTAAAAATATATACATA
1 ATAATA--TATTAAAAATATATACATA
11536609 AT-ATATA
1 ATAATATA
11536616 AAAACATAAT
Statistics
Matches: 65, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
24 2 0.03
25 24 0.37
26 39 0.60
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (25 bp):
ATAATATATTAAAAATATATACATA
Found at i:11536638 original size:14 final size:15
Alignment explanation
Indices: 11536604--11536642 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
11536594 AAAAATATAT
11536604 ACATAATATATAAAA
1 ACATAATATATAAAA
*
11536619 ACATAATATTTAAAA
1 ACATAATATATAAAA
11536634 A-ATAATATA
1 ACATAATATA
11536643 CATAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (15 bp):
ACATAATATATAAAA
Found at i:11538118 original size:25 final size:25
Alignment explanation
Indices: 11538080--11538127 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
11538070 TCTTTACTCA
* *
11538080 TTGTCGTGTCACGAGAATAGAGTTG
1 TTGTCATGTAACGAGAATAGAGTTG
11538105 TTGTCATGTAACGAGAATAGAGT
1 TTGTCATGTAACGAGAATAGAGT
11538128 AAAGACTTTT
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:0.29, C:0.10, G:0.29, T:0.31
Consensus pattern (25 bp):
TTGTCATGTAACGAGAATAGAGTTG
Found at i:11538766 original size:89 final size:87
Alignment explanation
Indices: 11538655--11539266 Score: 425
Period size: 90 Copynumber: 7.0 Consensus size: 87
11538645 TGATTTTTTT
*
11538655 TTGAAAACAGAAATTGGAAATACCTCGGAGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAACAGAAATTGAAAATACCTCGGA-TGTGA-CCGAGGCTCAACTCACCTCTCGCAATATG
*
11538720 AGTTGA-GTTTT-GAAACACATAAA
64 AGTTGATTTTTTGGAAA-ACATAAA
* * *
11538743 TTGAAAAGCAGAAATTGAAAATACCTCAGCG-TGTGAGCCAAGGCTCAACTCACCTTTCGTAATA
1 TTGAAAA-CAGAAATTGAAAATACCTC-G-GATGTGA-CCGAGGCTCAACTCACCTCTCGCAATA
**
11538807 TGAGTTGATTTTTTTGGAAAACATAGT
62 TGAGTTGA-TTTTTTGGAAAACATAAA
* * **
11538834 TTGAAAACAGAATTTGGAAATACCTCGGCATGTGAACCGAGGCTCAACTCACCTCTTACAATATG
1 TTGAAAACAGAAATTGAAAATACCTCGG-ATGTG-ACCGAGGCTCAACTCACCTCTCGCAATATG
11538899 AGTTGATTTTTTGGAAAACATAAA
64 AGTTGATTTTTTGGAAAACATAAA
* * * * * *
11538923 TTGAAAAACAGAATTTGAAAATACCTCAGCATGT--CTGAGGTTCAACTCACCTCTTGCAATGTG
1 TTG-AAAACAGAAATTGAAAATACCTC-GGATGTGACCGAGGCTCAACTCACCTCTCGCAATATG
**
11538986 AGTTGATTTTTT-TTAAACATAAA
64 AGTTGATTTTTTGGAAAACATAAA
*** * * * * *
11539009 TTGAGAATAC-CTCAGTG----TGACCT--GA-G-G-CTC-A-ACTCACCTCTCGCAATAT-G-A
1 TTGA-AA-ACAGAAATTGAAAAT-ACCTCGGATGTGAC-CGAGGCTCAACTCAC-C--TCTCGCA
* **
11539060 GT-TGA--T--TTTTTTGGAAAACATAGT
59 ATATGAGTTGATTTTTTGGAAAACATAAA
* * * *
11539084 TTGAAAACAGAATTTGGAAATACTTCGGCATGTGAACTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAACAGAAATTGAAAATACCTCGG-ATGTG-ACCGAGGCTCAACTCACCTCTCGCAATATG
11539149 AGTTGATTTTTTTTTGGAAAACATAAA
64 AGTTGA---TTTTTTGGAAAACATAAA
* * * * *
11539176 TTGAAAAATAGAATTTTAAAATACCTCGGCATGT--CCGAGGTTCAACTCACCTTTCGCAATATG
1 TTG-AAAACAGAAATTGAAAATACCTCGG-ATGTGACCGAGGCTCAACTCACCTCTCGCAATATG
*
11539239 AGTTGATTTTTTTTG-AAACATAAA
64 AGTTGA-TTTTTTGGAAAACATAAA
11539263 TTGA
1 TTGA
11539267 GAATACCTCA
Statistics
Matches: 415, Mismatches: 64, Indels: 92
0.73 0.11 0.16
Matches are distributed among these distances:
73 2 0.00
74 10 0.02
75 11 0.03
76 1 0.00
77 3 0.01
78 11 0.03
79 7 0.02
80 3 0.01
81 3 0.01
82 4 0.01
83 5 0.01
84 5 0.01
85 12 0.03
86 17 0.04
87 52 0.13
88 16 0.04
89 75 0.18
90 110 0.27
91 19 0.05
92 23 0.06
93 26 0.06
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (87 bp):
TTGAAAACAGAAATTGAAAATACCTCGGATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGGAAAACATAAA
Found at i:11539058 original size:160 final size:161
Alignment explanation
Indices: 11538864--11539162 Score: 451
Period size: 160 Copynumber: 1.9 Consensus size: 161
11538854 TACCTCGGCA
*
11538864 TGTGAACCGAGGCTCAACTCACCTCTTACAATATGAGTTGA-TTTTTTGGAAAACATAAATTGAA
1 TGTGAACCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGGAAAACATAAATTG-A
* * *
11538928 AAACAGAATTTGAAAATACCTCAGCATGT-CTGAGGTTCAACTCACCTCTTGCAATGTGAGTTGA
65 AAACAGAATTTGAAAATACCTCAGCATGTACTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
11538992 TTTTTTTTAAACATAAATTGAGAATACCTCAG
130 TTTTTTTTAAACATAAATTGAGAATACCTCAG
* **
11539024 TGTG-ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAACATAGTTTGA
1 TGTGAACC-GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGGAAAACATAAATTGA
* * *
11539088 AAACAGAATTTGGAAATACTTCGGCATGTGAACTGAGGCTCAACTCACCTCTCGCAATATGAGTT
65 AAACAGAATTTGAAAATACCTCAGCATGT--ACTGAGGCTCAACTCACCTCTCGCAATATGAGTT
11539153 GATTTTTTTT
128 GATTTTTTTT
11539163 TGGAAAACAT
Statistics
Matches: 124, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
159 3 0.02
160 62 0.50
161 19 0.15
163 40 0.32
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (161 bp):
TGTGAACCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGGAAAACATAAATTGAA
AACAGAATTTGAAAATACCTCAGCATGTACTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTTAAACATAAATTGAGAATACCTCAG
Found at i:11539244 original size:340 final size:340
Alignment explanation
Indices: 11538620--11539266 Score: 889
Period size: 340 Copynumber: 1.9 Consensus size: 340
11538610 GACCTAGGAC
11538620 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAAATTGGAAATACCTCGGAG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT-AAAACAGAAATTGGAAATACCTC-GAG
11538685 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTGAAACACATAAATTGAAAA
64 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTGAAACACATAAATTGAAAA
* * * *
11538750 GCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTTTCGTAATATGAGTTGA
129 GCAGAAATTGAAAATACCTCAGCATGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
** *
11538815 TTTTTTTGGAAAACATAGTTTGAAAACAGAATTTGGAAATACCTCGGCATGTGAACCGAGGCTCA
194 TTTTTTTGGAAAACATAAATTGAAAACAGAATTTGAAAATACCTCGGCATGT--ACCGAGGCTCA
11538880 ACTCACCTCTTACAATATGAGTTGA-TTTTTTGGAAAACATAAATTGAAAAACAGAATTTGAAAA
257 ACTCACCTCTTACAATATGAGTTGATTTTTTTGG-AAACATAAATTGAAAAACAGAATTTGAAAA
11538944 TACCTCAGCATGTCTGAGGT
321 TACCTCAGCATGTCTGAGGT
* * *
11538964 TCAACTCACCTCTTGCAATGTGAGTTGA-TTTTTTTT-AAACATAAATT-GAGAATACCTC-AGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAACAGAAATTGGA-AATACCTCGAGT
* * **
11539025 GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAA-ACATAGTTTGAA
65 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--GTTTT-GAAACACATAAATTGAA
* * * * **
11539089 AA-CAGAATTTGGAAATACTTCGGCATGTGAACTGAGGCTCAACTCACCTCTCGCAATATGAGTT
127 AAGCAGAAATTGAAAATACCTCAGCATGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
11539153 GATTTTTTTTTGGAAAACATAAATTGAAAAATAGAATTTTAAAATACCTCGGCATGT-CCGAGGT
192 GA--TTTTTTTGGAAAACATAAATTG-AAAACAGAATTTGAAAATACCTCGGCATGTACCGAGGC
* *
11539217 TCAACTCACCT-TTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTGA
254 TCAACTCACCTCTT-ACAATATGAGTTGATTTTTTTGGAAACATAAATTGA
11539267 GAATACCTCA
Statistics
Matches: 269, Mismatches: 25, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
339 44 0.16
340 99 0.37
341 41 0.15
342 24 0.09
343 35 0.13
344 26 0.10
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (340 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAACAGAAATTGGAAATACCTCGAGTG
TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTGAAACACATAAATTGAAAAGC
AGAAATTGAAAATACCTCAGCATGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTTGGAAAACATAAATTGAAAACAGAATTTGAAAATACCTCGGCATGTACCGAGGCTCAACTC
ACCTCTTACAATATGAGTTGATTTTTTTGGAAACATAAATTGAAAAACAGAATTTGAAAATACCT
CAGCATGTCTGAGGT
Found at i:11539309 original size:164 final size:162
Alignment explanation
Indices: 11539114--11539508 Score: 505
Period size: 164 Copynumber: 2.4 Consensus size: 162
11539104 TACTTCGGCA
* * *
11539114 TGTGAACTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGGAAAACATAAATTG
1 TGTGACCTGAGGCTCAACTCACCTATCGCAATATGAGTTGA--TATTTTTGGAAAACATAAATTG
* * *
11539179 AAAAATAGAATTTTAAAATACCTCGGCATGT-CCGAGGTTCAACTCACCTTTCGCAATATGAGTT
64 -AAAATAGAATTTGAAAATACCTCGGCATGTACCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
11539243 GATTTTTT-TTGAAACATAAATTGAGAA-TACCTCAG
128 GATTTTTTGATG-AACAGAAATT-AAAATTACCTCAG
* **
11539278 TGTGACCTGAGGCTCAACTCATCTATCGCAATATGAGTTGATATTTTTGGAAAACATAGTTTGAA
1 TGTGACCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATATTTTTGGAAAACATAAATTGAA
* *
11539343 AATAGAATTTGGAAATACTTCGGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
66 AATAGAATTTGAAAATACCTCGGCATGT--ACCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
11539408 ATTTTTTGATGAACAGAAATTAAAATTACCTCAG
129 ATTTTTTGATGAACAGAAATTAAAATTACCTCAG
* * * **
11539442 CGTGTCCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGAGCTTTTT-GAAAGAC--AAATTGA
1 TGTGACCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATATTTTTGGAAA-ACATAAATTGA
11539504 AAATA
65 AAATA
11539509 CCTCAACGTG
Statistics
Matches: 203, Mismatches: 22, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
161 27 0.13
162 29 0.14
163 7 0.03
164 138 0.68
165 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (162 bp):
TGTGACCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATATTTTTGGAAAACATAAATTGAA
AATAGAATTTGAAAATACCTCGGCATGTACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTGATGAACAGAAATTAAAATTACCTCAG
Found at i:11539356 original size:254 final size:253
Alignment explanation
Indices: 11538754--11539414 Score: 1089
Period size: 254 Copynumber: 2.6 Consensus size: 253
11538744 TGAAAAGCAG
* * * *
11538754 AAATTGAAAATACCTCAGCGTGTGAGCC-AAGGCTCAACTCACCTTTCGTAATATGAGTTGATTT
1 AAATTGAGAATACCTCA--GTGTGA-CCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTT
*
11538818 TTTTGGAAAACATAGTTTGAAAACAGAATTTGGAAATACCTCGGCATGTGAACCGAGGCTCAACT
63 TTTTGGAAAACATAGTTTGAAAACAGAATTTGGAAATACTTCGGCATGTGAACCGAGGCTCAACT
**
11538883 CACCTCTTACAATATGAGTTGA---TTTTTTGGAAAACATAAATTGAAAAACAGAATTTGAAAAT
128 CACCTCTCGCAATATGAGTTGATTTTTTTTTGGAAAACATAAATTGAAAAACAGAATTTGAAAAT
* *
11538945 ACCTCAGCATGTCTGAGGTTCAACTCACCTCTTGCAATGTGAGTTGATTTTTTTTAAACAT
193 ACCTCAGCATGTCCGAGGTTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTAAACAT
*
11539006 AAATTGAGAATACCTCAGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAGAATACCTCAGTGTGACCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTT
*
11539071 TGGAAAACATAGTTTGAAAACAGAATTTGGAAATACTTCGGCATGTGAACTGAGGCTCAACTCAC
66 TGGAAAACATAGTTTGAAAACAGAATTTGGAAATACTTCGGCATGTGAACCGAGGCTCAACTCAC
* *
11539136 CTCTCGCAATATGAGTTGATTTTTTTTTGGAAAACATAAATTGAAAAATAGAATTTTAAAATACC
131 CTCTCGCAATATGAGTTGATTTTTTTTTGGAAAACATAAATTGAAAAACAGAATTTGAAAATACC
*
11539201 TCGGCATGTCCGAGGTTCAACTCACCT-TTCGCAATATGAGTTGATTTTTTTTGAAACAT
196 TCAGCATGTCCGAGGTTCAACTCACCTCTT-GCAATATGAGTTGATTTTTTTT-AAACAT
* *
11539260 AAATTGAGAATACCTCAGTGTGACCTGAGGCTCAACTCATCTATCGCAATATGAGTTGATATTTT
1 AAATTGAGAATACCTCAGTGTGACCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTT
*
11539325 TGGAAAACATAGTTTGAAAATAGAATTTGGAAATACTTCGGCATGTGAACCGAGGCTCAACTCAC
66 TGGAAAACATAGTTTGAAAACAGAATTTGGAAATACTTCGGCATGTGAACCGAGGCTCAACTCAC
11539390 CTCTCGCAATATGAGTTGATTTTTT
131 CTCTCGCAATATGAGTTGATTTTTT
11539415 GATGAACAGA
Statistics
Matches: 385, Mismatches: 18, Indels: 10
0.93 0.04 0.02
Matches are distributed among these distances:
249 2 0.01
250 122 0.32
252 18 0.05
253 87 0.23
254 156 0.41
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (253 bp):
AAATTGAGAATACCTCAGTGTGACCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTT
TGGAAAACATAGTTTGAAAACAGAATTTGGAAATACTTCGGCATGTGAACCGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTTTTTGGAAAACATAAATTGAAAAACAGAATTTGAAAATACC
TCAGCATGTCCGAGGTTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTAAACAT
Found at i:11539465 original size:74 final size:70
Alignment explanation
Indices: 11539376--11539577 Score: 260
Period size: 73 Copynumber: 2.8 Consensus size: 70
11539366 CATGTGAACC
11539376 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGAACAGAAATTAAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGA--AACAGAAATTAAAA-TACCTCA
*
11539441 GCGTGTCCT
62 ACGTGTCCT
* * *
11539450 GAGGCTCAACTCACCTTTCGCAATATGAGTTGAGCTTTTTGAAAGACAAATTGAAAATACCTCAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAACAGAAATT-AAAATACCTCAA
*
11539515 CGTGTCTT
63 CGTGTCCT
* * *
11539523 GAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTTGAAAACAGAAATAAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAACAGAAATTAAAA
11539578 CATTAGAATA
Statistics
Matches: 113, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
71 9 0.08
72 8 0.07
73 53 0.47
74 36 0.32
75 7 0.06
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (70 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAGAAATTAAAATACCTCAACGT
GTCCT
Found at i:11551448 original size:8 final size:7
Alignment explanation
Indices: 11551424--11551516 Score: 52
Period size: 7 Copynumber: 13.1 Consensus size: 7
11551414 TAATAAAAAT
11551424 ATATAAA
1 ATATAAA
11551431 ATATAAA
1 ATATAAA
11551438 ATATCAAA
1 ATAT-AAA
11551446 ATATTAGAA
1 ATA-TA-AA
*
11551455 AAATAATA
1 ATATAA-A
*
11551463 A-ATAAT
1 ATATAAA
11551469 AT-TGACAA
1 ATAT-A-AA
*
11551477 ATAAAAA
1 ATATAAA
*
11551484 ATAAAAA
1 ATATAAA
11551491 ATA-AAA
1 ATATAAA
*
11551497 AAATAAA
1 ATATAAA
11551504 ATA-AAA
1 ATATAAA
11551510 ATA-AAA
1 ATATAAA
11551516 A
1 A
11551517 AGTGTACATA
Statistics
Matches: 71, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
6 17 0.24
7 34 0.48
8 15 0.21
9 5 0.07
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (7 bp):
ATATAAA
Found at i:11551480 original size:20 final size:21
Alignment explanation
Indices: 11551445--11551487 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
11551435 AAAATATCAA
*
11551445 AATATTAGAAAAATAATAAAT
1 AATATTAGAAAAATAAAAAAT
*
11551466 AATATT-GACAAATAAAAAAT
1 AATATTAGAAAAATAAAAAAT
11551486 AA
1 AA
11551488 AAAATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (21 bp):
AATATTAGAAAAATAAAAAAT
Found at i:11551517 original size:8 final size:7
Alignment explanation
Indices: 11551475--11551517 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
11551465 TAATATTGAC
11551475 AAATAAA
1 AAATAAA
11551482 AAATAAA
1 AAATAAA
11551489 AAATAAA
1 AAATAAA
*
11551496 AAA-ATA
1 AAATAAA
11551502 AAAT-AA
1 AAATAAA
11551508 AAATAAA
1 AAATAAA
11551515 AAA
1 AAA
11551518 GTGTACATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 10 0.31
7 22 0.69
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAATAAA
Found at i:11551823 original size:11 final size:11
Alignment explanation
Indices: 11551796--11551849 Score: 67
Period size: 11 Copynumber: 4.9 Consensus size: 11
11551786 ACAATTATTA
11551796 ATAATAT-TAC
1 ATAATATATAC
11551806 ATAAATATATAC
1 AT-AATATATAC
11551818 ATAATATATTA-
1 ATAATATA-TAC
*
11551829 AAAATATATAC
1 ATAATATATAC
11551840 ATAATATATA
1 ATAATATATA
11551850 AAAAATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
10 4 0.11
11 27 0.71
12 7 0.18
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAATATATAC
Found at i:11551835 original size:33 final size:34
Alignment explanation
Indices: 11551782--11551881 Score: 105
Period size: 33 Copynumber: 2.9 Consensus size: 34
11551772 TAATAATGTT
* *
11551782 AAAAACAATTATTAATAATAT-TACATAAATATATA
1 AAAAATAA-TATTAAAAATATATACAT-AATATATA
* *
11551817 CATAAT-ATATTAAAAATATATACATAATATATA
1 AAAAATAATATTAAAAATATATACATAATATATA
11551850 AAAAATAATATTTAAAAAATAATATACATAAT
1 AAAAATAATA-TT-AAAAAT-ATATACATAAT
11551882 TTAATATTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
33 23 0.43
34 9 0.17
35 5 0.09
36 6 0.11
37 11 0.20
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (34 bp):
AAAAATAATATTAAAAATATATACATAATATATA
Found at i:11551854 original size:22 final size:22
Alignment explanation
Indices: 11551808--11551856 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
11551798 AATATTACAT
*
11551808 AAATATATACATAATATATTAA
1 AAATATATACATAATATATAAA
11551830 AAATATATACATAATATATAAA
1 AAATATATACATAATATATAAA
11551852 AAATA
1 AAATA
11551857 ATATTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATATATACATAATATATAAA
Found at i:11551856 original size:11 final size:11
Alignment explanation
Indices: 11551808--11551875 Score: 55
Period size: 11 Copynumber: 5.8 Consensus size: 11
11551798 AATATTACAT
*
11551808 AAATATATACA
1 AAATATATAAA
* *
11551819 TAATATATTAA
1 AAATATATAAA
*
11551830 AAATATATACA
1 AAATATATAAA
*
11551841 TAATATATAAA
1 AAATATATAAA
11551852 AAATAATATTTAAA
1 AAAT-ATA--TAAA
11551866 AAATAATATA
1 AAAT-ATATA
11551876 CATAATTTAA
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
11 28 0.62
12 5 0.11
14 12 0.27
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
AAATATATAAA
Found at i:11551859 original size:14 final size:14
Alignment explanation
Indices: 11551840--11551875 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
11551830 AAATATATAC
11551840 ATAATATATAAAAA
1 ATAATATATAAAAA
*
11551854 ATAATATTTAAAAA
1 ATAATATATAAAAA
11551868 ATAATATA
1 ATAATATA
11551876 CATAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATATATAAAAA
Found at i:11551991 original size:2 final size:2
Alignment explanation
Indices: 11551939--11551976 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
11551929 TATTAAAAGA
11551939 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
11551977 GACATACGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11552007 original size:3 final size:3
Alignment explanation
Indices: 11551999--11552160 Score: 63
Period size: 3 Copynumber: 54.0 Consensus size: 3
11551989 TATTAACAAA
* * * *
11551999 AAT AAT AAT ATT AAA AACT ATT AAT AAT ACT ATAT AAT ATAT ATAT ATAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT A-AT AAT A-AT A-AT A-AT
* * * **
11552049 AAGT ATT AAGT AAA AAT AAT AAT AAT GA- AAT GCT AAT AAAT AA- AA-
1 AA-T AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
* *
11552094 AAT -AT AAT AAT AAT AAC AAT AAT AA- AAT -AT AAT AGT -AT GAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* *
11552136 AAT ATT AAA AAT AA- AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
11552161 GAGAAAAAAT
Statistics
Matches: 118, Mismatches: 26, Indels: 30
0.68 0.15 0.17
Matches are distributed among these distances:
2 16 0.14
3 78 0.66
4 24 0.20
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11552807 original size:21 final size:22
Alignment explanation
Indices: 11552777--11552820 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
11552767 AAAAAACACC
11552777 TTTGTTTCTGATT-T-TGATTT
1 TTTGTTTCTGATTCTCTGATTT
11552797 TTTGTTTTCTGATTCTCTGATTT
1 TTTG-TTTCTGATTCTCTGATTT
11552820 T
1 T
11552821 GGGTTCGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.19
21 9 0.43
22 1 0.05
23 7 0.33
ACGTcount: A:0.09, C:0.09, G:0.14, T:0.68
Consensus pattern (22 bp):
TTTGTTTCTGATTCTCTGATTT
Done.