Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 202 of 345
Found at i:57918893 original size:19 final size:19
Alignment explanation
Indices: 57918851--57918893 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
57918841 AGCGCAGCAT
*
57918851 GAAAAATTTGAAATAAAAT
1 GAAAAATTTGAAATAAAAG
*
57918870 TAAAATATTTGAAA-AAAAG
1 GAAAA-ATTTGAAATAAAAG
57918889 GAAAA
1 GAAAA
57918894 GGAATGCATG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.23
Consensus pattern (19 bp):
GAAAAATTTGAAATAAAAG
Found at i:57920155 original size:4 final size:4
Alignment explanation
Indices: 57920146--57920186 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
57920136 ACCAACTCAA
57920146 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
57920187 TATAAATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:57923132 original size:21 final size:21
Alignment explanation
Indices: 57923107--57923149 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
57923097 GATTCCTTTT
* *
57923107 ATAAAATATTTATATTTTTAA
1 ATAAAATAATTATATTTATAA
57923128 ATAAAATAATTATATTTATAA
1 ATAAAATAATTATATTTATAA
57923149 A
1 A
57923150 ATTTTAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAAAATAATTATATTTATAA
Found at i:57923150 original size:17 final size:18
Alignment explanation
Indices: 57923103--57923151 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 18
57923093 GCTTGATTCC
*
57923103 TTTTATAAAATATTTATA
1 TTTTATAAAATAATTATA
57923121 TTTTTAAATAAAATAATTATA
1 -TTTT--ATAAAATAATTATA
57923142 -TTTATAAAAT
1 TTTTATAAAAT
57923152 TTTAATCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 7 0.26
19 7 0.26
21 13 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTATAAAATAATTATA
Found at i:57924093 original size:5 final size:5
Alignment explanation
Indices: 57924083--57924112 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
57924073 CTAGTCTGTG
57924083 AAAAT AAAAT AAAAT AAAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAA
57924113 AACACAGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:57924104 original size:11 final size:11
Alignment explanation
Indices: 57924083--57924113 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
57924073 CTAGTCTGTG
57924083 AAAAT-AAAAT
1 AAAATAAAAAT
57924093 AAAATAAAAAT
1 AAAATAAAAAT
57924104 AAAATAAAAA
1 AAAATAAAAA
57924114 ACACAGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:57931824 original size:12 final size:12
Alignment explanation
Indices: 57931807--57931832 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57931797 TATGTATATC
57931807 ATCAGCCATTCT
1 ATCAGCCATTCT
57931819 ATCAGCCATTCT
1 ATCAGCCATTCT
57931831 AT
1 AT
57931833 TAAACATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.35
Consensus pattern (12 bp):
ATCAGCCATTCT
Found at i:57932432 original size:46 final size:47
Alignment explanation
Indices: 57932326--57932447 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
57932316 TGTCATCGAC
** * *
57932326 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
57932376 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
57932422 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
57932448 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:57952655 original size:11 final size:11
Alignment explanation
Indices: 57952639--57952672 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
57952629 GTAAATTCAG
57952639 GTACTCGGGAA
1 GTACTCGGGAA
57952650 GTACTCGGGAA
1 GTACTCGGGAA
57952661 GTACTCGGGAA
1 GTACTCGGGAA
57952672 G
1 G
57952673 CCTTGCACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.26, C:0.18, G:0.38, T:0.18
Consensus pattern (11 bp):
GTACTCGGGAA
Found at i:57956762 original size:42 final size:42
Alignment explanation
Indices: 57956642--57956796 Score: 141
Period size: 42 Copynumber: 3.7 Consensus size: 42
57956632 TGAGTTATCA
* * ** * *
57956642 TGTAAGACCATATCTGGGATATGGTGTTGATATGGGATTTCG
1 TGTAAGACCATATCTGAGACATGGCATTGATATGAGAATTCG
* * * * *
57956684 TGTAAGATCATATCTGGGACATGGCGTCGAAATGAGAATTCG
1 TGTAAGACCATATCTGAGACATGGCATTGATATGAGAATTCG
* * * *
57956726 TATAAGACCATATCTGAGATATGGCATTGATGTGAG-ATCTCA
1 TGTAAGACCATATCTGAGACATGGCATTGATATGAGAAT-TCG
* *
57956768 TGTAAGACCATGTCTGAGACATGGAATTG
1 TGTAAGACCATATCTGAGACATGGCATTG
57956797 GCATCATATT
Statistics
Matches: 92, Mismatches: 20, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
41 2 0.02
42 90 0.98
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGAGACATGGCATTGATATGAGAATTCG
Found at i:57966085 original size:42 final size:43
Alignment explanation
Indices: 57966028--57966118 Score: 157
Period size: 42 Copynumber: 2.1 Consensus size: 43
57966018 CTAAGTAAGC
* *
57966028 AAAAGAAATAATAAAGCAACAGGGAGGG-AAAAAGAAAGAACA
1 AAAAGAAATAATAAAGAAACAGGGAGGGAAAAAAGAAAGAAAA
57966070 AAAAGAAATAATAAAGAAACAGGGAGGGAAAAAAGAAAGAAAA
1 AAAAGAAATAATAAAGAAACAGGGAGGGAAAAAAGAAAGAAAA
57966113 AAAAGA
1 AAAAGA
57966119 GTGGGAGGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 27 0.59
43 19 0.41
ACGTcount: A:0.68, C:0.04, G:0.23, T:0.04
Consensus pattern (43 bp):
AAAAGAAATAATAAAGAAACAGGGAGGGAAAAAAGAAAGAAAA
Found at i:57967899 original size:28 final size:28
Alignment explanation
Indices: 57967844--57967940 Score: 97
Period size: 28 Copynumber: 3.5 Consensus size: 28
57967834 TGGCCCCTTT
* *
57967844 AGGCCCAATCTCATTCATATGACCCATC
1 AGGCCCAATCACAGTCATATGACCCATC
* *
57967872 -GTGCCCAATCACAGTCATATGGCTCATC
1 AG-GCCCAATCACAGTCATATGACCCATC
* ** * *
57967900 AGGCCCAATAACTTTCATATAACCCTTC
1 AGGCCCAATCACAGTCATATGACCCATC
57967928 AGGCCCAATCACA
1 AGGCCCAATCACA
57967941 CTTATAGTCA
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
27 1 0.02
28 52 0.96
29 1 0.02
ACGTcount: A:0.30, C:0.34, G:0.12, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACAGTCATATGACCCATC
Found at i:57968678 original size:110 final size:111
Alignment explanation
Indices: 57968546--57968767 Score: 419
Period size: 111 Copynumber: 2.0 Consensus size: 111
57968536 GGCTTCATTC
57968546 TTTGTTCTTCTTGAC-AAAAAAAATGAAAGAAAGAAGAAATATGTTTTGAGGATTTCGGCAAGAT
1 TTTGTTCTTCTTGACAAAAAAAAATGAAAGAAAGAAGAAATATGTTTTGAGGATTTCGGCAAGAT
*
57968610 AGCAAGCTAAAAATTTGAGGTATGTGCATTCGGTCTTAGAGAAAAT
66 AGCAAGCTAAAAATTTGAGGTATGTGCATTCGGTCATAGAGAAAAT
*
57968656 TTTGTTCTTCTTGATAAAAAAAAATGAAAGAAAGAAGAAATATGTTTTGAGGATTTCGGCAAGAT
1 TTTGTTCTTCTTGACAAAAAAAAATGAAAGAAAGAAGAAATATGTTTTGAGGATTTCGGCAAGAT
57968721 AGCAAGCTAAAAATTTGAGGTATGTGCATTCGGTCATAGAGAAAAT
66 AGCAAGCTAAAAATTTGAGGTATGTGCATTCGGTCATAGAGAAAAT
57968767 T
1 T
57968768 GAATCAAAAG
Statistics
Matches: 109, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
110 14 0.13
111 95 0.87
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.30
Consensus pattern (111 bp):
TTTGTTCTTCTTGACAAAAAAAAATGAAAGAAAGAAGAAATATGTTTTGAGGATTTCGGCAAGAT
AGCAAGCTAAAAATTTGAGGTATGTGCATTCGGTCATAGAGAAAAT
Found at i:57969292 original size:2 final size:2
Alignment explanation
Indices: 57969285--57969310 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
57969275 AAGTGTTTAG
57969285 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
57969311 TAATAATGAA
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:57970844 original size:49 final size:49
Alignment explanation
Indices: 57970668--57970913 Score: 429
Period size: 51 Copynumber: 4.9 Consensus size: 49
57970658 ATGTATGAGA
57970668 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
57970717 TATGTATATATGTGATAAGGCCTAATGGCCTATGTCATGAATGTGAAAGTG
1 TA--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
57970768 TATGTATATATGTGATATGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TA--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
57970819 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
57970868 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
57970914 TATATGTGTG
Statistics
Matches: 189, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
49 94 0.50
51 95 0.50
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.32
Consensus pattern (49 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:57970852 original size:40 final size:42
Alignment explanation
Indices: 57970806--57970896 Score: 119
Period size: 49 Copynumber: 2.0 Consensus size: 42
57970796 CCGATGTGAT
57970806 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC-----G
57970853 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 --GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
57970897 ATGTGATGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
44 1 0.02
49 41 0.98
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (42 bp):
GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
Found at i:57971054 original size:37 final size:37
Alignment explanation
Indices: 57971000--57971090 Score: 146
Period size: 37 Copynumber: 2.4 Consensus size: 37
57970990 AACTTGGAAA
* *
57971000 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACATGTGGAGAT
57971038 TATGTCCGGGTAAGACCCGATGACTACATGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACATGTGGAGAT
*
57971075 TATGTTCGGGTAAGAC
1 TATGTCCGGGTAAGAC
57971091 TTCGTAATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACATGTGGAGAT
Found at i:57972584 original size:16 final size:16
Alignment explanation
Indices: 57972537--57972584 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
57972527 GCCAAACTTC
*
57972537 CGGCTTTTCGGCAATT
1 CGGCTTTTCGGCATTT
* ** *
57972553 CAGCAATTCAGCATTT
1 CGGCTTTTCGGCATTT
57972569 CGGCTTTTCGGCATTT
1 CGGCTTTTCGGCATTT
57972585 TGGGATTTAC
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.38
Consensus pattern (16 bp):
CGGCTTTTCGGCATTT
Found at i:57977594 original size:40 final size:40
Alignment explanation
Indices: 57977365--57977590 Score: 348
Period size: 40 Copynumber: 5.7 Consensus size: 40
57977355 GCCACTCACT
** *
57977365 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGTTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* *
57977405 CAAATGTCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
*
57977445 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
*
57977485 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
*
57977525 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
57977565 CAAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57977591 ATTATCATTC
Statistics
Matches: 177, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 1 0.01
40 176 0.99
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:57980854 original size:28 final size:27
Alignment explanation
Indices: 57980811--57980904 Score: 93
Period size: 27 Copynumber: 3.4 Consensus size: 27
57980801 CTGCCAGAAT
**
57980811 AGATAATGTAACAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGTCACCAGATAC
*
57980838 AAATAATCGTGGCAGAGTCACCAGA-AC
1 AGATAAT-GTGGCAGAGTCACCAGATAC
* * *
57980865 AGATATATATGGCAGAGCCACTAGAT-C
1 AGATA-ATGTGGCAGAGTCACCAGATAC
57980892 AGATAATTGTGGC
1 AGATAA-TGTGGC
57980905 GTAGCCACCA
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 37 0.67
28 17 0.31
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.20
Consensus pattern (27 bp):
AGATAATGTGGCAGAGTCACCAGATAC
Found at i:57980904 original size:27 final size:27
Alignment explanation
Indices: 57980822--57980915 Score: 84
Period size: 27 Copynumber: 3.4 Consensus size: 27
57980812 GATAATGTAA
* * *
57980822 CAGAGTCACCAGATACAAATAATCGTGG
1 CAGAGCCACCAGAT-CAGATAATTGTGG
* * *
57980850 CAGAGTCACCAGAACAGAT-ATATATGG
1 CAGAGCCACCAGATCAGATAAT-TGTGG
*
57980877 CAGAGCCACTAGATCAGATAATTGTGG
1 CAGAGCCACCAGATCAGATAATTGTGG
57980904 C-GTAGCCACCAG
1 CAG-AGCCACCAG
57980916 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
26 3 0.06
27 36 0.67
28 15 0.28
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGAGCCACCAGATCAGATAATTGTGG
Found at i:57984165 original size:2 final size:2
Alignment explanation
Indices: 57984158--57984198 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
57984148 GAGACTAGTC
57984158 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
57984199 CATGTCATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:57986227 original size:30 final size:30
Alignment explanation
Indices: 57986193--57986253 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
57986183 TCCTTAACTC
57986193 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
57986223 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
57986253 A
1 A
57986254 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:57992677 original size:68 final size:66
Alignment explanation
Indices: 57992605--57992776 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
57992595 CATCATGTGT
* * * *
57992605 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
57992668 TGTAG
62 TGTAG
** * *
57992673 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
57992738 AG
65 AG
* * * *
57992740 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
57992777 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:57992710 original size:64 final size:64
Alignment explanation
Indices: 57992629--57992812 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
57992619 AGACATTATG
* * *
57992629 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
57992693 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
57992758 AA
63 AA
* * *
57992760 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
57992813 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:57993081 original size:15 final size:16
Alignment explanation
Indices: 57993051--57993086 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 16
57993041 GCCTATACTT
57993051 GTGATGTATGAAATGTG
1 GTGATGTA-GAAATGTG
57993068 GTGATGTA-AAATGTG
1 GTGATGTAGAAATGTG
57993083 GTGA
1 GTGA
57993087 AAATGATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.58
17 8 0.42
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (16 bp):
GTGATGTAGAAATGTG
Found at i:57997115 original size:68 final size:66
Alignment explanation
Indices: 57997043--57997214 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
57997033 CATCATGTGT
* * * *
57997043 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
57997106 TGTAG
62 TGTAG
** * *
57997111 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
57997176 AG
65 AG
* * * *
57997178 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
57997215 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:57997148 original size:64 final size:64
Alignment explanation
Indices: 57997067--57997250 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
57997057 AGACATTATG
* * *
57997067 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
57997131 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
57997196 AA
63 AA
* * *
57997198 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
57997251 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:58001001 original size:46 final size:46
Alignment explanation
Indices: 58000948--58001076 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
58000938 TATTTGGGCA
* *
58000948 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
58000994 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
58001040 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58001077 GCGGGTTACA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:58005066 original size:27 final size:26
Alignment explanation
Indices: 58005031--58005142 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
58005021 AGCATGGCTG
* *
58005031 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
58005057 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
58005085 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
58005112 CCAGATCATATAATTGTGGC-GTAGCCA
1 CCAGAACAGATAA-TGTGGCAG-AGCCA
58005139 CCAG
1 CCAG
58005143 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
26 7 0.09
27 53 0.69
28 17 0.22
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:58005125 original size:54 final size:54
Alignment explanation
Indices: 58005031--58005142 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
58005021 AGCATGGCTG
*
58005031 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAG-AGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGC-GTAGCCA
* * *
58005085 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CATATAATTGTGGCGTAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCGTAGCCA
58005139 CCAG
1 CCAG
58005143 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
53 1 0.02
54 33 0.63
55 18 0.35
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCGTAGCCA
Found at i:58009673 original size:13 final size:13
Alignment explanation
Indices: 58009655--58009679 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58009645 TGTGTGATAT
58009655 GTGTGAAAATTTC
1 GTGTGAAAATTTC
58009668 GTGTGAAAATTT
1 GTGTGAAAATTT
58009680 TATCATTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:58014025 original size:46 final size:46
Alignment explanation
Indices: 58013867--58014034 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 46
58013857 AACCCGCCCC
* * * *
58013867 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
58013913 TAAATGAACTCGGACT--ACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * * *
58013959 TCA-CGAACTCGGACTGAACTCAACGAGTTTGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
58014004 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
58014035 AGATGCTCAA
Statistics
Matches: 97, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
43 6 0.06
44 16 0.16
45 13 0.13
46 41 0.42
47 17 0.18
48 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:58021447 original size:46 final size:45
Alignment explanation
Indices: 58021380--58021544 Score: 183
Period size: 46 Copynumber: 3.6 Consensus size: 45
58021370 TGCCCCTAAG
* *
58021380 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGTT-GCATCCATAAA
* *
58021426 TGAACTCGGACTCAACTCAACGAGTTCGGATCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA--C--GTTGCATCCATAAA
* * * *
58021472 CGAACTCGGACTCATCTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGAC-GTTGCATCCATAAA
58021518 TGAACTCGGACTCAACTCAACGAGTTC
1 TGAACTCGGACTCAACTCAACGAGTTC
58021545 AGATGCTCAA
Statistics
Matches: 100, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 82 0.82
47 1 0.01
48 2 0.02
49 3 0.03
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACGTTGCATCCATAAA
Found at i:58036100 original size:28 final size:27
Alignment explanation
Indices: 58036037--58036106 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
58036027 ATAGTGAGTC
58036037 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
58036064 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
58036092 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58036107 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:58039501 original size:28 final size:27
Alignment explanation
Indices: 58039438--58039507 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
58039428 ATAGTGAGTC
58039438 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
58039465 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
58039493 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58039508 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:58046565 original size:28 final size:27
Alignment explanation
Indices: 58046502--58046571 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
58046492 ATAGTGAGTC
58046502 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
58046529 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
58046557 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58046572 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:58058560 original size:40 final size:39
Alignment explanation
Indices: 58058516--58058623 Score: 132
Period size: 39 Copynumber: 2.7 Consensus size: 39
58058506 GAAATTATAA
*
58058516 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC-AT
1 CCGGGCTAAGACCCGAAGGCAATTGTGC-AGT--CATACTAT
*
58058556 CCGGGCTAAGACCCGAAGGC-ATTCGTGCAGTCATTCTAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCAGTCATACTAT
*
58058595 CCGGGCTAAGACCCGAAGGCATTTGTGCA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCA
58058624 AATCGTGATA
Statistics
Matches: 61, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
37 1 0.02
38 2 0.03
39 33 0.54
40 25 0.41
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.21
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAGTCATACTAT
Found at i:58060476 original size:40 final size:40
Alignment explanation
Indices: 58060417--58060624 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 40
58060407 CAATTGAATG
* * *
58060417 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
58060457 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
58060497 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
58060537 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
58060577 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
58060617 ATATCCGG
1 ATATCCGG
58060625 TTGTAATCCG
Statistics
Matches: 145, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 145 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:58060555 original size:80 final size:80
Alignment explanation
Indices: 58060419--58060624 Score: 261
Period size: 80 Copynumber: 2.6 Consensus size: 80
58060409 ATTGAATGAT
* * * * * *
58060419 ATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
58060484 TGTGCTAGT-GACTAC
66 TGTGCAAGTCG-CTAC
* * * *
58060499 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
* *
58060564 TGTGCAAGTCGTTAT
66 TGTGCAAGTCGCTAC
* *
58060579 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
58060625 TTGTAATCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
80 108 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCAAGTCGCTAC
Found at i:58061484 original size:41 final size:41
Alignment explanation
Indices: 58061427--58061509 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
58061417 TTATTTAAAT
58061427 GAACCTTGATGAGTCTACTTTCATATGGAAGAAACGAAACG
1 GAACCTTGATGAGTCTACTTTCATATGGAAGAAACGAAACG
58061468 GAACCTTGATGAGTCTACTTTCATATGGAAGAAACGAAACG
1 GAACCTTGATGAGTCTACTTTCATATGGAAGAAACGAAACG
58061509 G
1 G
58061510 TCATAGGAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (41 bp):
GAACCTTGATGAGTCTACTTTCATATGGAAGAAACGAAACG
Found at i:58067226 original size:39 final size:39
Alignment explanation
Indices: 58067142--58067294 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
58067132 TATGGTAACC
** * *
58067142 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
58067182 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
58067221 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
58067260 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
58067295 TCGAACATTC
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 86 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:58067268 original size:78 final size:79
Alignment explanation
Indices: 58067123--58067293 Score: 263
Period size: 78 Copynumber: 2.2 Consensus size: 79
58067113 CTTCGAGACA
* **
58067123 TAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
1 TAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
58067188 ATTGCCTTCGGGCT
66 ATTGCCTTCGGGCT
* ** * *
58067202 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCACAATTTGCACA
1 TAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
58067266 ATTGCCTTCGGGCT
66 ATTGCCTTCGGGCT
58067280 TAGCCCGGATATCA
1 TAGCCCGGATATCA
58067294 CTCGAACATT
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
78 53 0.63
79 31 0.37
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (79 bp):
TAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATTTGCACA
ATTGCCTTCGGGCT
Found at i:58075957 original size:30 final size:30
Alignment explanation
Indices: 58075923--58075983 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
58075913 TCCTTAACTC
*
58075923 AAACTTTGGAAAAATTACAGTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * * *
58075953 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
58075983 A
1 A
58075984 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:58077270 original size:34 final size:34
Alignment explanation
Indices: 58077224--58077314 Score: 103
Period size: 34 Copynumber: 2.6 Consensus size: 34
58077214 TTGCATACTA
*
58077224 TACTGAAATGGGCTAAGGCCC-AGACTGCCACTGT
1 TACTGAAATGGGCTAAGGCCCAAG-CTGCCACTGC
* * *
58077258 TATTGAAATGGGCTCAGGCCCAAGCTGCTACTGC
1 TACTGAAATGGGCTAAGGCCCAAGCTGCCACTGC
*
58077292 TACTGAAAGAAGGGCTAAGGCCC
1 TACTG-AA-ATGGGCTAAGGCCC
58077315 TAACTGAAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
34 31 0.66
35 4 0.09
36 12 0.26
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.20
Consensus pattern (34 bp):
TACTGAAATGGGCTAAGGCCCAAGCTGCCACTGC
Found at i:58080676 original size:20 final size:20
Alignment explanation
Indices: 58080634--58080676 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
58080624 CATGGATGTA
*
58080634 TATGCTAGAAATTAGAAATT
1 TATGCTAGAAAATAGAAATT
*
58080654 TATGGTAGAAAAT-GAAATAT
1 TATGCTAGAAAATAGAAAT-T
58080674 TAT
1 TAT
58080677 TGATAGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.47, C:0.02, G:0.16, T:0.35
Consensus pattern (20 bp):
TATGCTAGAAAATAGAAATT
Found at i:58082676 original size:21 final size:22
Alignment explanation
Indices: 58082652--58082703 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
58082642 GCCTCCAACG
*
58082652 CGGGCGTGTCCC-TCGATCACA
1 CGGGCGTGTCCCTTCGACCACA
* *
58082673 CGGGCATGTCCCTTGGACCACA
1 CGGGCGTGTCCCTTCGACCACA
58082695 CGGGCGTGT
1 CGGGCGTGT
58082704 GAGCCCTGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.13, C:0.35, G:0.33, T:0.19
Consensus pattern (22 bp):
CGGGCGTGTCCCTTCGACCACA
Found at i:58084487 original size:26 final size:27
Alignment explanation
Indices: 58084395--58084574 Score: 174
Period size: 27 Copynumber: 6.7 Consensus size: 27
58084385 TTTAGTTTAC
* *
58084395 TAAAATTACTAAAATATCCC-C-AGTTG
1 TAAAATTACTGAAATA-CCCTCGATTTG
* * *
58084421 TAAAATTAC-CAAAGTACCC-CTGGTTTA
1 TAAAATTACTGAAA-TACCCTC-GATTTG
* *
58084448 TAAAATTACAGAAATACCGTCGA-TTG
1 TAAAATTACTGAAATACCCTCGATTTG
**
58084474 TAAAACAACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
*
58084501 TAAAATTACCGAAATACCCTC-AGTTTG
1 TAAAATTACTGAAATACCCTCGA-TTTG
* *
58084528 AAAAATTATTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
58084555 TAAAATTACTGAAATACCCT
1 TAAAATTACTGAAATACCCT
58084575 TGTAGGGTAG
Statistics
Matches: 126, Mismatches: 20, Indels: 15
0.78 0.12 0.09
Matches are distributed among these distances:
25 7 0.06
26 33 0.26
27 81 0.64
28 5 0.04
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGATTTG
Found at i:58084533 original size:80 final size:81
Alignment explanation
Indices: 58084418--58084574 Score: 205
Period size: 80 Copynumber: 2.0 Consensus size: 81
58084408 ATATCCCCAG
* *
58084418 TTGTAAAATTACCAAAGTACCCCTGGTTTATAAAATTACAGAAATACCGTCGA-TTGTAAAACAA
1 TTGTAAAATTACCAAAGTACCCCTAGTTTATAAAATTACAGAAATACCCTCGATTTGTAAAACAA
58084482 CTGAAATACCCTCGAT
66 CTGAAATACCCTCGAT
**
58084498 TTGTAAAATTACCGAAA-TA-CCCTCAGTTTGA-AAAATTATTGAAATACCCTCGATTTGTAAAA
1 TTGTAAAATTACC-AAAGTACCCCT-AGTTT-ATAAAATTACAGAAATACCCTCGATTTGTAAAA
**
58084560 TTACTGAAATACCCT
63 CAACTGAAATACCCT
58084575 TGTAGGGTAG
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
79 4 0.06
80 38 0.57
81 25 0.37
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.30
Consensus pattern (81 bp):
TTGTAAAATTACCAAAGTACCCCTAGTTTATAAAATTACAGAAATACCCTCGATTTGTAAAACAA
CTGAAATACCCTCGAT
Found at i:58084588 original size:27 final size:27
Alignment explanation
Indices: 58084558--58084914 Score: 457
Period size: 27 Copynumber: 13.2 Consensus size: 27
58084548 CGATTTGTAA
58084558 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
58084585 AATTACTAAAATACCAC-TATAGGGTAG
1 AATTACTGAAATACC-CTTGTAGGGTAG
58084612 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
58084639 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
58084666 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * *
58084693 AATTACTAAAATACCCCTATAGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAG
*
58084720 AATTACTGAAATACCCTTCTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
58084747 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
58084774 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
58084801 AATTATTGAAATACTCTTGTAAGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
** *
58084828 AATTACCAAAATATCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
58084855 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
58084882 AATTA-TCGAGATACCCTTGTAGGGTAA
1 AATTACT-GAAATACCCTTGTAGGGTAG
58084909 AATTAC
1 AATTAC
58084915 CATTTTACCC
Statistics
Matches: 286, Mismatches: 40, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 283 0.99
28 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:58084590 original size:81 final size:83
Alignment explanation
Indices: 58084448--58084915 Score: 394
Period size: 81 Copynumber: 5.8 Consensus size: 83
58084438 CCCTGGTTTA
* * * ** * ** *
58084448 TAAAATTACAGAAATACCGTCGAT--TGTAAAACAACTGAAATACCCTCG-ATTTGTAAAATTAC
1 TAAAATTACTGAAATACCCTCGATAGGGTAAAATTACTGAAATACCCTTGTA-GGGTAGAATTAC
**
58084510 CGAAATACCCTCAGT-TTG
65 CGAAATACCCTCAGTAGGG
* * ** *
58084528 AAAAATTATTGAAATACCCTCGAT-TTGTAAAATTACTGAAATACCCTTGTAGGGTAGAATTACT
1 TAAAATTACTGAAATACCCTCGATAGGGTAAAATTACTGAAATACCCTTGTAGGGTAGAATTACC
*
58084592 AAAATACCACT-A-TAGGG
66 GAAATACC-CTCAGTAGGG
* * * *
58084609 TAGAATTACTGAAATACCCTTG-TAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACC
1 TAAAATTACTGAAATACCCTCGATAGGGTAAAATTACTGAAATACCCTTGTAGGGTAGAATTACC
*
58084673 GAAATACCC-CTGTAGGG
66 GAAATACCCTCAGTAGGG
* * * * *
58084690 TAGAATTACTAAAATACCC-CTATAGGGTAAAATTACTGAAATACCCTTCTAGGGTAGAAATACC
1 TAAAATTACTGAAATACCCTCGATAGGGTAAAATTACTGAAATACCCTTGTAGGGTAGAATTACC
*
58084754 GAAATACCC-CTGTAGGG
66 GAAATACCCTCAGTAGGG
* * * * * *
58084771 TAGAATTACTAAAATACCC-CTG-TAGGGTAGAATTATTGAAATACTCTTGTAAGGTAGAATTAC
1 TAAAATTACTGAAATACCCTC-GATAGGGTAAAATTACTGAAATACCCTTGTAGGGTAGAATTAC
* * *
58084834 CAAAATATCCT-TGTAGGG
65 CGAAATACCCTCAGTAGGG
* * * * *
58084852 TAGAATTATTGAAATACCC-CTG-TAGGGTAGAATTA-TCGAGATACCCTTGTAGGGTAAAATTA
1 TAAAATTACTGAAATACCCTC-GATAGGGTAAAATTACT-GAAATACCCTTGTAGGGTAGAATTA
58084914 CC
64 CC
58084916 ATTTTACCCC
Statistics
Matches: 330, Mismatches: 47, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
80 24 0.07
81 303 0.92
82 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (83 bp):
TAAAATTACTGAAATACCCTCGATAGGGTAAAATTACTGAAATACCCTTGTAGGGTAGAATTACC
GAAATACCCTCAGTAGGG
Found at i:58085325 original size:20 final size:20
Alignment explanation
Indices: 58085286--58085326 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
58085276 TGTGTGCCAT
* *
58085286 TATTGTGGGCTTCGTATCGA
1 TATTGTAGGCTTCATATCGA
*
58085306 TATTGTAGGCTTCATGTCGA
1 TATTGTAGGCTTCATATCGA
58085326 T
1 T
58085327 TATAGACCCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.15, G:0.27, T:0.41
Consensus pattern (20 bp):
TATTGTAGGCTTCATATCGA
Found at i:58085378 original size:98 final size:98
Alignment explanation
Indices: 58085208--58085404 Score: 324
Period size: 98 Copynumber: 2.0 Consensus size: 98
58085198 TGTGTGCCAT
* * *
58085208 TATTGTAGGCTTCGTGCTGATTATAGACCCGCTATCAATGGCTGAGTGCCGATCATGTTACCGAA
1 TATTGTAGGCTTCATGCTGATTATAGACCCGCTATCAATGGCTGAGTCCCGATCATGTTACCAAA
* *
58085273 GGTTGTGTGCCATTATTGTGGGCTTCGTATCGA
66 GGCTGTGTGCCATTATTGTGGGCTTCGTACCGA
*
58085306 TATTGTAGGCTTCATG-TCGATTATAGACCCGTTATCAATGGCTGAGTCCCGATCATGTTACCAA
1 TATTGTAGGCTTCATGCT-GATTATAGACCCGCTATCAATGGCTGAGTCCCGATCATGTTACCAA
58085370 AGGCTGTGTGCCATTATTGTGGGCTTCGTACCGA
65 AGGCTGTGTGCCATTATTGTGGGCTTCGTACCGA
58085404 T
1 T
58085405 TATAGACCCG
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
97 1 0.01
98 91 0.99
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (98 bp):
TATTGTAGGCTTCATGCTGATTATAGACCCGCTATCAATGGCTGAGTCCCGATCATGTTACCAAA
GGCTGTGTGCCATTATTGTGGGCTTCGTACCGA
Found at i:58085478 original size:27 final size:27
Alignment explanation
Indices: 58085448--58085519 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
58085438 ATTCTATTAA
* *
58085448 GTGGCTTTGCCACATTATCTG-ATTCTG
1 GTGGCTCTGCCACAATATCTGTATT-TG
58085475 GTGGCTCTGCCACAATATCTGTATTTG
1 GTGGCTCTGCCACAATATCTGTATTTG
* *
58085502 GTGACTCTGTCACAATAT
1 GTGGCTCTGCCACAATAT
58085520 TAGTTCTGGC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 37 0.93
28 3 0.08
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATTTG
Found at i:58087845 original size:80 final size:80
Alignment explanation
Indices: 58087727--58087986 Score: 337
Period size: 80 Copynumber: 3.2 Consensus size: 80
58087717 TTTAGTTTAC
* * *
58087727 TAAAATTAGTAAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCCGGTTTAAAAAATTATCG
1 TAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGGTTTAAAAAATTATCG
*
58087791 AAATACCATCGATTA
66 AAATACCATCGATTG
* * *
58087806 TAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTATTG
1 TAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGGTTTAAAAAATTATCG
58087871 AAATACCATCGATTG
66 AAATACCATCGATTG
* * * * *
58087886 TAAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAA-TACCCTCAGTTTGAAAAATTA-C
1 TAAAATTACTAAAATACCCTCGACTTGTAAAATTACC-AAAGTACCCCCGGTTTAAAAAATTATC
*
58087949 TGAAATACCCTCGATTTG
65 -GAAATACCATCGA-TTG
* *
58087967 TAAAATTATTCAAATACCCT
1 TAAAATTACTAAAATACCCT
58087987 TGTAAGGTAG
Statistics
Matches: 159, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
79 18 0.11
80 117 0.74
81 24 0.15
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (80 bp):
TAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGGTTTAAAAAATTATCG
AAATACCATCGATTG
Found at i:58087876 original size:54 final size:53
Alignment explanation
Indices: 58087781--58087986 Score: 238
Period size: 54 Copynumber: 3.9 Consensus size: 53
58087771 CCCGGTTTAA
* *
58087781 AAAATTA-TCGAAATACCATCGA-TTATAAAATTACTAAAATACCCTCGACTTGT
1 AAAATTACT-GAAATACCCTCGATTTATAAAATTACTGAAATACCCTCGA-TTGT
* * * *
58087834 AAAATTAC-CAAAGTACCCCCGATTTATAAAATTATTGAAATACCATCGATTGT
1 AAAATTACTGAAA-TACCCTCGATTTATAAAATTACTGAAATACCCTCGATTGT
* * * *
58087887 AAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAGTTTGA
1 AAAATTACTGAAATACCCTCGATTTATAAAATTACTGAAATACCCTC-GATTGT
* * *
58087941 AAAATTACTGAAATACCCTCGATTTGTAAAATTATTCAAATACCCT
1 AAAATTACTGAAATACCCTCGATTTATAAAATTACTGAAATACCCT
58087987 TGTAAGGTAG
Statistics
Matches: 131, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
52 3 0.02
53 55 0.42
54 73 0.56
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (53 bp):
AAAATTACTGAAATACCCTCGATTTATAAAATTACTGAAATACCCTCGATTGT
Found at i:58087981 original size:27 final size:26
Alignment explanation
Indices: 58087727--58087986 Score: 204
Period size: 27 Copynumber: 9.7 Consensus size: 26
58087717 TTTAGTTTAC
* * *
58087727 TAAAATTAGTAAAATACCC-CCAGTTG
1 TAAAATTA-TCAAATACCCTCGATTTG
* * * *
58087753 TAAAATTACCAAAGTACCCCCGGTTTA
1 TAAAATTATCAAA-TACCCTCGATTTG
* * *
58087780 AAAAATTATCGAAATACCATCGA-TTA
1 TAAAATTATC-AAATACCCTCGATTTG
* *
58087806 TAAAATTACTAAAATACCCTCGACTTG
1 TAAAATTA-TCAAATACCCTCGATTTG
* * *
58087833 TAAAATTACCAAAGTACCCCCGATTTA
1 TAAAATTATCAAA-TACCCTCGATTTG
* *
58087860 TAAAATTATTGAAATACCATCGA-TTG
1 TAAAATTA-TCAAATACCCTCGATTTG
*
58087886 TAAAATTACTGAAATACCCTCGATTTG
1 TAAAATTA-TCAAATACCCTCGATTTG
*
58087913 TAAAATTACCGAAATACCCTC-AGTTTG
1 TAAAATTATC-AAATACCCTCGA-TTTG
* *
58087940 AAAAATTACTGAAATACCCTCGATTTG
1 TAAAATTA-TCAAATACCCTCGATTTG
58087967 TAAAATTATTCAAATACCCT
1 TAAAATTA-TCAAATACCCT
58087987 TGTAAGGTAG
Statistics
Matches: 187, Mismatches: 35, Indels: 23
0.76 0.14 0.09
Matches are distributed among these distances:
25 3 0.02
26 61 0.33
27 116 0.62
28 7 0.04
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (26 bp):
TAAAATTATCAAATACCCTCGATTTG
Found at i:58088000 original size:27 final size:27
Alignment explanation
Indices: 58087970--58088296 Score: 351
Period size: 27 Copynumber: 12.1 Consensus size: 27
58087960 CGATTTGTAA
* * *
58087970 AATTATTCAAATACCCTTGTAAGGTAG
1 AATTACTCAAATACCCCTGTAGGGTAG
* * * *
58087997 AATTACTAAAATAACACTATAGGGTAG
1 AATTACTCAAATACCCCTGTAGGGTAG
* *
58088024 AATTAC-CAAAATACCCTTGTAAGGTAG
1 AATTACTC-AAATACCCCTGTAGGGTAG
*
58088051 AATTAC-CGAAATACCCTTGTAGGGTAG
1 AATTACTC-AAATACCCCTGTAGGGTAG
* *
58088078 AAATAC-CAAAATACTCCTGTAGGGTAG
1 AATTACTC-AAATACCCCTGTAGGGTAG
* *
58088105 AATTACTAAAATACCCCTATAGGGTAG
1 AATTACTCAAATACCCCTGTAGGGTAG
* *
58088132 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTCAAATACCCCTGTAGGGTAG
*
58088159 AAATAC-CGAAATACCCCTGTAGGGTAG
1 AATTACTC-AAATACCCCTGTAGGGTAG
*
58088186 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTCAAATACCCCTGTAGGGTAG
* *
58088213 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTCAAATACCCCTGTAGGGTAG
*
58088240 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTCAAATACCCCTGTAGGGTAG
* * *
58088267 AATTA-TCGAGATACCCTTGTGGGGTA-
1 AATTACTC-AAATACCCCTGTAGGGTAG
58088293 AATT
1 AATT
58088297 TACCATTTTA
Statistics
Matches: 258, Mismatches: 37, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.02
27 253 0.98
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACTCAAATACCCCTGTAGGGTAG
Found at i:58088001 original size:54 final size:54
Alignment explanation
Indices: 58087889--58088271 Score: 270
Period size: 54 Copynumber: 7.1 Consensus size: 54
58087879 TCGATTGTAA
** * * ** * *
58087889 AATTACTGAAATACCCTCGAT-TTGTAAAATTACCGAAATACCCTCAGT-TTGAAA
1 AATTACTGAAATACCCTCGATAGGGTAAAATTATC-AAATACCCT-TGTAGGGTAG
** *
58087943 AATTACTGAAATACCCTCGAT-TTGTAAAATTATTCAAATACCCTTGTAAGGTAG
1 AATTACTGAAATACCCTCGATAGGGTAAAATTA-TCAAATACCCTTGTAGGGTAG
* * * * *
58087997 AATTACTAAAATAACACT--ATAGGGTAGAATTACCAAAATACCCTTGTAAGGTAG
1 AATTACTGAAAT-ACCCTCGATAGGGTAAAATTATC-AAATACCCTTGTAGGGTAG
* * *
58088051 AATTACCGAAATACCCTTG-TAGGGTAGAAA-TACCAAAATACTCC-TGTAGGGTAG
1 AATTACTGAAATACCCTCGATAGGGTA-AAATTATC-AAATAC-CCTTGTAGGGTAG
* * * *
58088105 AATTACTAAAATACCC-CTATAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTCGATAGGGTAAAATTA-TCAAATACCCTTGTAGGGTAG
* * * * *
58088159 AAATACCGAAATACCC-CTG-TAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTC-GATAGGGTAAAATTA-TCAAATACCCTTGTAGGGTAG
* * * *
58088213 AATTACTGAAATACCC-CTG-TAAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTC-GATAGGGTAAAATTA-TCAAATACCCTTGTAGGGTAG
58088267 AATTA
1 AATTA
58088272 TCGAGATACC
Statistics
Matches: 283, Mismatches: 32, Indels: 28
0.83 0.09 0.08
Matches are distributed among these distances:
53 13 0.05
54 261 0.92
55 9 0.03
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCTCGATAGGGTAAAATTATCAAATACCCTTGTAGGGTAG
Found at i:58088292 original size:81 final size:81
Alignment explanation
Indices: 58087978--58088271 Score: 417
Period size: 81 Copynumber: 3.6 Consensus size: 81
58087968 AAAATTATTC
* * * * * * *
58087978 AAATACCCTTGTAAGGTAGAATTACTAAAATAACACTATAGGGTAGAATTACCAAAATACCCTTG
1 AAATACCCTTGTAAGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTG
* *
58088043 TAAGGTAGAATTACCG
66 TAGGGTAGAATTACTG
* * *
58088059 AAATACCCTTGTAGGGTAGAAATACCAAAATACTCCTGTAGGGTAGAATTACTAAAATACCCCTA
1 AAATACCCTTGTAAGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTG
58088124 TAGGGTAGAATTACTG
66 TAGGGTAGAATTACTG
* * *
58088140 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTG
1 AAATACCCTTGTAAGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTG
58088205 TAGGGTAGAATTACTG
66 TAGGGTAGAATTACTG
* * **
58088221 AAATACCCCTGTAAGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTA
1 AAATACCCTTGTAAGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTA
58088272 TCGAGATACC
Statistics
Matches: 193, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 193 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (81 bp):
AAATACCCTTGTAAGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTG
TAGGGTAGAATTACTG
Found at i:58088506 original size:27 final size:26
Alignment explanation
Indices: 58088468--58088551 Score: 96
Period size: 27 Copynumber: 3.2 Consensus size: 26
58088458 ATGGAGGAAG
* *
58088468 TGTTTTGGTGGCTATGCCACAAATATC
1 TGTTCTGGTGGCTATGTCAC-AATATC
*
58088495 TGTTCTGGTGGCTCTGTCACAATATC
1 TGTTCTGGTGGCTATGTCACAATATC
* * *
58088521 TGTATCTAGTGACTTTGTCACAATATC
1 TGT-TCTGGTGGCTATGTCACAATATC
58088548 TGTT
1 TGTT
58088552 GACCGGTCGA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.80
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.40
Consensus pattern (26 bp):
TGTTCTGGTGGCTATGTCACAATATC
Found at i:58088740 original size:20 final size:20
Alignment explanation
Indices: 58088693--58088740 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
58088683 CAAACGCTGT
* * *
58088693 GTGCCGTTATTGTGGGCTTT
1 GTGCCGATATTATGGGCTTC
**
58088713 GTATCGATATTATGGGCTTC
1 GTGCCGATATTATGGGCTTC
58088733 GTGCCGAT
1 GTGCCGAT
58088741 TATAGACCCG
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.12, C:0.17, G:0.31, T:0.40
Consensus pattern (20 bp):
GTGCCGATATTATGGGCTTC
Found at i:58088769 original size:98 final size:98
Alignment explanation
Indices: 58088558--58088762 Score: 311
Period size: 98 Copynumber: 2.1 Consensus size: 98
58088548 TGTTGACCGG
* * * * *
58088558 TCGATGGCTGAGTGTCGGTCATGTTACCGAAGGCTGTGTGCCGTTATTATGGGCTTCGTATCGAT
1 TCGATGGCTCAGTGCCGATCATGTTACCAAACGCTGTGTGCCGTTATTATGGGCTTCGTATCGAT
* *
58088623 ATTGTAGGCTTCGTGCTGATTATAGACCCGTTA
66 ATTATAGGCTTCGTGCCGATTATAGACCCGTTA
* * *
58088656 TCAATGGCTCAGTGCCGATCATGTTACCAAACGCTGTGTGCCGTTATTGTGGGCTTTGTATCGAT
1 TCGATGGCTCAGTGCCGATCATGTTACCAAACGCTGTGTGCCGTTATTATGGGCTTCGTATCGAT
*
58088721 ATTATGGGCTTCGTGCCGATTATAGACCCGTTA
66 ATTATAGGCTTCGTGCCGATTATAGACCCGTTA
58088754 TCGATGGCT
1 TCGATGGCT
58088763 TTGTGCCACG
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (98 bp):
TCGATGGCTCAGTGCCGATCATGTTACCAAACGCTGTGTGCCGTTATTATGGGCTTCGTATCGAT
ATTATAGGCTTCGTGCCGATTATAGACCCGTTA
Found at i:58092691 original size:40 final size:40
Alignment explanation
Indices: 58092564--58092693 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
58092554 ATGCTGGAAA
* *
58092564 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
58092604 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
58092644 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
58092684 TTATATCCGG
1 TTATATCCGG
58092694 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:58092692 original size:80 final size:78
Alignment explanation
Indices: 58092528--58092693 Score: 194
Period size: 80 Copynumber: 2.1 Consensus size: 78
58092518 AAATTGAATG
*
58092528 ATATCCGGGCTAAGCCCGAAGACATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAAT
1 ATATCCGGGCTAAGCCCGAAGACATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
58092593 TGTGCTAGTGGCT
66 TGTGCTAGTGGCT
* * * ** *
58092606 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAG-CCCGAAGACATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
58092670 -ATTCGTGC-ACGTGGTT
63 AATT-GTGCTA-GTGGCT
58092686 ATATCCGG
1 ATATCCGG
58092694 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
78 13 0.18
79 16 0.22
80 45 0.61
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (78 bp):
ATATCCGGGCTAAGCCCGAAGACATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCTAGTGGCT
Found at i:58099856 original size:41 final size:41
Alignment explanation
Indices: 58099811--58099928 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
58099801 TGAAAGATAA
58099811 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
58099852 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58099882 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
58099923 ATGTAG
1 ATGTAG
58099929 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:58099867 original size:71 final size:71
Alignment explanation
Indices: 58099779--58099942 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
58099769 GAGATGTATC
58099779 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58099844 AGGACA
66 AGGACA
58099850 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
58099915 AGGACA
66 AGGACA
58099921 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
58099943 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:58104854 original size:46 final size:47
Alignment explanation
Indices: 58104748--58104863 Score: 144
Period size: 50 Copynumber: 2.4 Consensus size: 47
58104738 TGTCTTCGAC
** * *
58104748 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
58104798 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
58104844 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
58104864 TTGTCCTGTC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 29 0.49
50 30 0.51
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:58116559 original size:23 final size:23
Alignment explanation
Indices: 58116533--58116579 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
58116523 ATCATAGAAA
58116533 GTGTACAT-TGGCACTATGTGTGC
1 GTGTA-ATATGGCACTATGTGTGC
* *
58116556 GTGTAGTATGGGACTATGTGTGC
1 GTGTAATATGGCACTATGTGTGC
58116579 G
1 G
58116580 GAGTTGAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.17, C:0.13, G:0.36, T:0.34
Consensus pattern (23 bp):
GTGTAATATGGCACTATGTGTGC
Found at i:58120117 original size:40 final size:40
Alignment explanation
Indices: 58120062--58120280 Score: 366
Period size: 40 Copynumber: 5.5 Consensus size: 40
58120052 GAAAACTCCA
*
58120062 GGCTAAGTTTCGAAGAGCATTCGTGCTAGTGATGTATCCG
1 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCG
*
58120102 GGCTATGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCG
1 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCG
* *
58120142 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCTG
1 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCG
58120182 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCG
1 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCG
*
58120222 GGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATGTATCCG
1 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCG
* * *
58120262 GGCTAGGTCCCAAAGAGCA
1 GGCTAAGTTCCGAAGAGCA
58120281 ATCATGCTGG
Statistics
Matches: 169, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 169 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCG
Found at i:58123597 original size:48 final size:48
Alignment explanation
Indices: 58123522--58123955 Score: 631
Period size: 48 Copynumber: 9.0 Consensus size: 48
58123512 CAAGATAAAT
* * *
58123522 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCCAATGTG
1 AAATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * * *
58123570 AAATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGCTAATATG
1 AAATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
58123618 AAAAATATGTGTA-ATATGTATATGTGGTAAAGCCGAATGGCTAATATG
1 AAATATATGTG-AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
58123666 AAAAATATGTGTA-ATATGTATATGTGGTAAAGCCGAATGGCTAATATG
1 AAATATATGTG-AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
58123714 AAATATATGTGTA-ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTG-AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
58123762 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATATG
1 AAATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
58123810 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * *
58123858 AAATATATGTGTGATATGTATATGTGGTAAAGCCGAATAGCGAATGTG
1 AAATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * * *
58123906 AAATATGTATGAGATATGAAGATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
58123954 AA
1 AA
58123956 TGTTGTAACA
Statistics
Matches: 359, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
48 358 1.00
49 1 0.00
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
AAATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
Found at i:58124050 original size:37 final size:37
Alignment explanation
Indices: 58124000--58124107 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
58123990 GGAAATATAT
58124000 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
58124037 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * * *
58124074 TCTGGGTGAGACCCAATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
58124108 TCGTCTGAGC
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:58131809 original size:24 final size:24
Alignment explanation
Indices: 58131782--58131829 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
58131772 ATCATAGAAA
58131782 GTGTACAT-TGGCACTATGTGTGCG
1 GTGTA-ATATGGCACTATGTGTGCG
*
58131806 GTGTAGTATGGCACTATGTGTGCG
1 GTGTAATATGGCACTATGTGTGCG
58131830 AAGTTGAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.17, C:0.15, G:0.35, T:0.33
Consensus pattern (24 bp):
GTGTAATATGGCACTATGTGTGCG
Found at i:58131862 original size:24 final size:24
Alignment explanation
Indices: 58131792--58131852 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
58131782 GTGTACATTG
** * * *
58131792 GCACTATGTGTGCGGTGTAGTATG
1 GCACTATGTGTGCGAAGTTGAATA
58131816 GCACTATGTGTGCGAAGTTGAATA
1 GCACTATGTGTGCGAAGTTGAATA
58131840 GCACTATGTGTGC
1 GCACTATGTGTGC
58131853 TGATTTGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (24 bp):
GCACTATGTGTGCGAAGTTGAATA
Found at i:58133560 original size:129 final size:129
Alignment explanation
Indices: 58133325--58133591 Score: 462
Period size: 129 Copynumber: 2.1 Consensus size: 129
58133315 TGTGATTACC
* *
58133325 AGGCCGTGTTCGATCCGTTGAATTGCACACGGCCGTGTGGGCTCAATGGCCAGGCCGTGTGAATC
1 AGGCCGTGTTCGATACGTTGAATTGCACACGGCCATGTGGGCTCAATGGCCAGGCCGTGTGAATC
* * *
58133390 GTGAAAACCTTGGTCGACACCCTCGAATGCCACGGGCGTGTGAGATGCTCGTGTGGCAAGGCTT
66 GTGAAAACCTTGGTCGACACCCCCGAAGGCCACGGGCGTGTGAGATGCTCGTGTGGCAAGACTT
*
58133454 AGGCCGTGTTCGATATGTTGAATTGCACACGGCCATGTGGGCTCAATGGCCAGGCCGTGTGAATC
1 AGGCCGTGTTCGATACGTTGAATTGCACACGGCCATGTGGGCTCAATGGCCAGGCCGTGTGAATC
*
58133519 GTGAAAACCTTGGTCGACACCCCCGAAGGCCACGGGTGTGTGAGATGCTCGTGTGGCAAGACTT
66 GTGAAAACCTTGGTCGACACCCCCGAAGGCCACGGGCGTGTGAGATGCTCGTGTGGCAAGACTT
*
58133583 AGGTCGTGT
1 AGGCCGTGT
58133592 CATCTTCTCG
Statistics
Matches: 130, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 130 1.00
ACGTcount: A:0.19, C:0.24, G:0.33, T:0.23
Consensus pattern (129 bp):
AGGCCGTGTTCGATACGTTGAATTGCACACGGCCATGTGGGCTCAATGGCCAGGCCGTGTGAATC
GTGAAAACCTTGGTCGACACCCCCGAAGGCCACGGGCGTGTGAGATGCTCGTGTGGCAAGACTT
Found at i:58135524 original size:6 final size:6
Alignment explanation
Indices: 58135513--58135575 Score: 67
Period size: 6 Copynumber: 10.7 Consensus size: 6
58135503 AAATATAATG
* *
58135513 AAAATA AAAATA AATAGA AAAATA AAAAT- AAAAT- AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
58135559 AGAGTA AATAATA AAAA
1 AAAATA AA-AATA AAAA
58135576 AATAAAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
5 10 0.21
6 32 0.68
7 5 0.11
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:58135567 original size:16 final size:16
Alignment explanation
Indices: 58135497--58135582 Score: 79
Period size: 16 Copynumber: 5.2 Consensus size: 16
58135487 TATGTCTTTC
*
58135497 AAAAT-AAAATATAAT
1 AAAATAAAAATAAAAT
*
58135512 GAAAATAAAAATAAATAGA
1 -AAAATAAAAATAAA-A-T
58135531 AAAATAAAAATAAAAT
1 AAAATAAAAATAAAAT
*
58135547 AAAATAAAAATAAGAGT
1 AAAATAAAAATAA-AAT
58135564 -AAATAATAAA-AAAAT
1 AAAATAA-AAATAAAAT
58135579 AAAA
1 AAAA
58135583 AAAGGAGGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
15 2 0.03
16 29 0.49
17 13 0.22
18 15 0.25
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (16 bp):
AAAATAAAAATAAAAT
Found at i:58135578 original size:11 final size:10
Alignment explanation
Indices: 58135497--58135585 Score: 70
Period size: 11 Copynumber: 8.2 Consensus size: 10
58135487 TATGTCTTTC
*
58135497 AAAATAAAAT
1 AAAATAAAAA
*
58135507 ATAATGAAAATA
1 AAAAT-AAAA-A
58135519 AAAATAAATAGA
1 AAAATAAA-A-A
58135531 AAAATAAAAA
1 AAAATAAAAA
58135541 TAAAATAAAATA
1 -AAAATAAAA-A
* *
58135553 AAAATAAGAG
1 AAAATAAAAA
*
58135563 TAAATAATAAA
1 AAAATAA-AAA
58135574 AAAATAAAAA
1 AAAATAAAAA
58135584 AA
1 AA
58135586 GGAGGATTCG
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
10 16 0.25
11 32 0.51
12 15 0.24
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:58145834 original size:55 final size:55
Alignment explanation
Indices: 58145715--58145836 Score: 131
Period size: 55 Copynumber: 2.2 Consensus size: 55
58145705 GATATGGCCA
* * * *
58145715 TGGTC-AAGCCTGCCAAAACAACACAAGAGTGCGACACACCCGTGTGGAAGAACTG
1 TGGTCGAA-CCTGCCAAAACAACACAAGAGTGCAACACACCCGTGTGAAACAACCG
* * * * *
58145770 TGGGT-GAACCTGCCAAAACAACACGAGCGTTCAACACGCCCGTGTGAAACACCCG
1 T-GGTCGAACCTGCCAAAACAACACAAGAGTGCAACACACCCGTGTGAAACAACCG
58145825 TGGTCGAACCTG
1 TGGTCGAACCTG
58145837 TTAAATTAAC
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
54 3 0.05
55 47 0.85
56 5 0.09
ACGTcount: A:0.31, C:0.30, G:0.25, T:0.14
Consensus pattern (55 bp):
TGGTCGAACCTGCCAAAACAACACAAGAGTGCAACACACCCGTGTGAAACAACCG
Found at i:58162549 original size:20 final size:20
Alignment explanation
Indices: 58162524--58162568 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
58162514 AGGGACTAAA
*
58162524 ATGAAAAGTTGT-AAATTTT
1 ATGAAAAATTGTGAAATTTT
*
58162543 GATGAAAAATTTTGAAATTTT
1 -ATGAAAAATTGTGAAATTTT
58162564 ATGAA
1 ATGAA
58162569 TACATGTGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (20 bp):
ATGAAAAATTGTGAAATTTT
Found at i:58163891 original size:46 final size:47
Alignment explanation
Indices: 58163800--58163892 Score: 154
Period size: 46 Copynumber: 2.0 Consensus size: 47
58163790 TCTTTTTGTA
*
58163800 AATAAAAGAATAAAAAGGGAAAATAAAGCCAAAATCTCGTCATCTTT
1 AATAAAAGAATAAAAAGGGAAAATAAAGCCAAAATCTCCTCATCTTT
58163847 AATAAAAGAAT-AAAAGGGAAAATAAAGCCAAAATCTCACT-ATCTTT
1 AATAAAAGAATAAAAAGGGAAAATAAAGCCAAAATCTC-CTCATCTTT
58163893 CTCATGCTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
46 32 0.73
47 12 0.27
ACGTcount: A:0.54, C:0.13, G:0.12, T:0.22
Consensus pattern (47 bp):
AATAAAAGAATAAAAAGGGAAAATAAAGCCAAAATCTCCTCATCTTT
Found at i:58164778 original size:48 final size:48
Alignment explanation
Indices: 58164707--58164973 Score: 183
Period size: 48 Copynumber: 5.6 Consensus size: 48
58164697 AACTCCCGTA
* *
58164707 TAAGACCATATCTGGGATATGGCTTTGGC-TGTGA-CATGTGATACCATG
1 TAAGACCATGTCTGGGACATGGCTTTGGCAT-T-ATCATGTGATACCATG
* *
58164755 TAAGACCATGTCTGGGACATGGCTTTGGCATTATTATGTGATCCCATG
1 TAAGACCATGTCTGGGACATGGCTTTGGCATTATCATGTGATACCATG
* * * * * * * ***
58164803 TACGATCGTGTCTGGGACATGGCATTGGCATCATAATGAGACGTCATG
1 TAAGACCATGTCTGGGACATGGCTTTGGCATTATCATGTGATACCATG
* *
58164851 TAAGGA-CATAGT-TGGG-CTATCGGC-TTCG-A-TATC-TGTGATCCCATG
1 TAA-GACCAT-GTCTGGGAC-AT-GGCTTTGGCATTATCATGTGATACCATG
* * * * * * *
58164896 TAAGACCATGACTGGGACAAGGCATTGGCCTCATCATGTGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCTTTGGCATTATCATGTGATACCATG
* * *
58164944 TAAGACCATATCTGGGATATGGCATTGGCA
1 TAAGACCATGTCTGGGACATGGCTTTGGCA
58164974 CCCTATCTTG
Statistics
Matches: 172, Mismatches: 34, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
44 6 0.03
45 22 0.13
46 3 0.02
47 6 0.03
48 127 0.74
49 8 0.05
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCTTTGGCATTATCATGTGATACCATG
Found at i:58168386 original size:40 final size:40
Alignment explanation
Indices: 58168278--58168527 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
58168268 CGGGATTTAA
* * * * *
58168278 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
58168318 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58168358 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58168398 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58168438 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58168478 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58168518 CCGGATATAT
1 CCGGATATAT
58168528 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:58175664 original size:40 final size:40
Alignment explanation
Indices: 58175556--58175805 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
58175546 CGGGATTTAA
* * * * *
58175556 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
58175596 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58175636 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58175676 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58175716 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58175756 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
58175796 CCGGATATAT
1 CCGGATATAT
58175806 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:58182327 original size:48 final size:48
Alignment explanation
Indices: 58182256--58182408 Score: 157
Period size: 48 Copynumber: 3.2 Consensus size: 48
58182246 AACTCCAGTA
* * *
58182256 TAAGACCATATCTAGGATATGGCTTCGGCAGT-GACATGTGATCTCATG
1 TAAGACCATGTCTGGGATATGGCTTCGGCA-TCGACATGTGATCCCATG
* **
58182304 TAAGACCATGTCTGGGATATGGCTTTGGCATCGTTATGTGATCCCATG
1 TAAGACCATGTCTGGGATATGGCTTCGGCATCGACATGTGATCCCATG
* * ** *
58182352 TAAGACAATGTCTGGGACATGGCATT-GGCATCGTTATGTGGTCCCATG
1 TAAGACCATGTCTGGGATATGGC-TTCGGCATCGACATGTGATCCCATG
* *
58182400 GAATACCAT
1 TAAGACCAT
58182409 ATATGGGTAT
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
47 1 0.01
48 88 0.97
49 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (48 bp):
TAAGACCATGTCTGGGATATGGCTTCGGCATCGACATGTGATCCCATG
Found at i:58183757 original size:31 final size:31
Alignment explanation
Indices: 58183714--58183789 Score: 143
Period size: 31 Copynumber: 2.5 Consensus size: 31
58183704 TGTCCCAAGC
*
58183714 CACATGGGCGTGTGGGATTACACGACCCATA
1 CACAGGGGCGTGTGGGATTACACGACCCATA
58183745 CACAGGGGCGTGTGGGATTACACGACCCATA
1 CACAGGGGCGTGTGGGATTACACGACCCATA
58183776 CACAGGGGCGTGTG
1 CACAGGGGCGTGTG
58183790 ACTCTAGTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.24, C:0.25, G:0.34, T:0.17
Consensus pattern (31 bp):
CACAGGGGCGTGTGGGATTACACGACCCATA
Found at i:58188415 original size:27 final size:27
Alignment explanation
Indices: 58188384--58188441 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
58188374 ACAATCATAC
*
58188384 ATCACATAGGGGCA-AATCAGTCATTTT
1 ATCACATAGGGGCATAA-CAATCATTTT
58188411 ATCACATAGGGGCATAACAATCATTTT
1 ATCACATAGGGGCATAACAATCATTTT
58188438 ATCA
1 ATCA
58188442 ATTAGAGGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (27 bp):
ATCACATAGGGGCATAACAATCATTTT
Found at i:58191521 original size:28 final size:28
Alignment explanation
Indices: 58191481--58191538 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
58191471 TTTGCAAGGC
*
58191481 ACTATGTGTTTGTGCCCTAAACGATCAT
1 ACTACGTGTTTGTGCCCTAAACGATCAT
*
58191509 ACTACGTGTTTGTGTCCTAAACGATCAT
1 ACTACGTGTTTGTGCCCTAAACGATCAT
58191537 AC
1 AC
58191539 CTGTCTTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.34
Consensus pattern (28 bp):
ACTACGTGTTTGTGCCCTAAACGATCAT
Found at i:58194979 original size:38 final size:37
Alignment explanation
Indices: 58194900--58195002 Score: 98
Period size: 38 Copynumber: 2.7 Consensus size: 37
58194890 TAAAGACCCG
* ** * * * *
58194900 CAGGCTTGTGCTGGTAAAATATCTGGGTTAAATCTCG
1 CAGGCTTATGCTGGTATTATATCCGGGATAAATCCCC
58194937 CAGGCTTCATGCTGGTATTATATCCGGGATAAATCCCC
1 CAGGCTT-ATGCTGGTATTATATCCGGGATAAATCCCC
* * *
58194975 CAGGCCTAGTGCAGGTATTATATTCGGG
1 CAGGCTTA-TGCTGGTATTATATCCGGG
58195003 CCTTCATGCC
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
37 8 0.15
38 46 0.85
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.30
Consensus pattern (37 bp):
CAGGCTTATGCTGGTATTATATCCGGGATAAATCCCC
Found at i:58195074 original size:43 final size:43
Alignment explanation
Indices: 58194995--58195076 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
58194985 GCAGGTATTA
* **
58194995 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTACCGGTGATGTG
1 TATTCGGGCCTTCATGCCTAGCAGGCGTAATACCGGTGATGTG
*
58195038 TATTCGGGCCTTCATGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCATGCCTAGCAGGCGTAATACCGGTGA
58195077 AATGATATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.28
Consensus pattern (43 bp):
TATTCGGGCCTTCATGCCTAGCAGGCGTAATACCGGTGATGTG
Found at i:58196682 original size:48 final size:48
Alignment explanation
Indices: 58196588--58196691 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
58196578 TGTGCTAAGC
* * *
58196588 ATAAGACCTATCTGGGATAGGCATCGGCACAGCCCAGTGAGTGCTAGT
1 ATAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAGCTAGT
* **
58196636 GTAAGACCTATC-GGGAATAGGCATCAGCAC-GGGCAGAGCAGAGCTAGT
1 ATAAGACCTATCTGGG-ATAGGCATCAGCACAGCCCAGAG-AGAGCTAGT
58196684 ATAAGACC
1 ATAAGACC
58196692 ATAGTTGGAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
47 8 0.17
48 39 0.83
ACGTcount: A:0.31, C:0.22, G:0.30, T:0.17
Consensus pattern (48 bp):
ATAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAGCTAGT
Found at i:58200345 original size:38 final size:38
Alignment explanation
Indices: 58200295--58200391 Score: 131
Period size: 38 Copynumber: 2.6 Consensus size: 38
58200285 GGCTTAAAGA
* *
58200295 CCCGCAGGCTTCGTGCTGGTAAAATATCCGAGTTAAAT
1 CCCGCAGCCTTCGTGCTGGTAAAATATCCGAGATAAAT
** *
58200333 CCCGCAGCCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGCCTTCGTGCTGGTAAAATATCCGAGATAAAT
* *
58200371 CCCGCAGCCCTAGTGCTGGTA
1 CCCGCAGCCTTCGTGCTGGTA
58200392 TTATATTTGG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.26
Consensus pattern (38 bp):
CCCGCAGCCTTCGTGCTGGTAAAATATCCGAGATAAAT
Found at i:58202888 original size:17 final size:17
Alignment explanation
Indices: 58202859--58202894 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
58202849 CACAAGCTTC
58202859 GATATGACAAAAAGTAA
1 GATATGACAAAAAGTAA
58202876 GATATCGACAAAAAGTAA
1 GATAT-GACAAAAAGTAA
58202894 G
1 G
58202895 TATAGAAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.56, C:0.08, G:0.19, T:0.17
Consensus pattern (17 bp):
GATATGACAAAAAGTAA
Found at i:58205055 original size:53 final size:55
Alignment explanation
Indices: 58204998--58205148 Score: 191
Period size: 55 Copynumber: 2.8 Consensus size: 55
58204988 AACTTACCAT
* *
58204998 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCTTTAT-G-AACTCATCAA
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGTAACTCATCAA
* * * *
58205051 TGCCATGCCTTGGCATGGCCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAGTAACTCATCAA
* * *
58205106 TGCCATGTCTTGTCATGGTCTTACATGATTTCCTTGCCTTATA
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
58205149 ATGTGACAGC
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
52 2 0.02
53 33 0.40
54 1 0.01
55 44 0.54
56 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.37
Consensus pattern (55 bp):
TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGTAACTCATCAA
Found at i:58206808 original size:39 final size:39
Alignment explanation
Indices: 58206765--58206858 Score: 152
Period size: 39 Copynumber: 2.4 Consensus size: 39
58206755 GTGCGAATTG
58206765 TGATATCCGGGCTAAGCCCAAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCAAAGGCAATTGTGCGAGCTA
* * *
58206804 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCAAAGGCAATTGTGCGAGCTA
*
58206843 TGATATCCGGGTTAAG
1 TGATATCCGGGCTAAG
58206859 TCTTGGAGAC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCAAAGGCAATTGTGCGAGCTA
Found at i:58208450 original size:47 final size:47
Alignment explanation
Indices: 58208334--58208453 Score: 213
Period size: 47 Copynumber: 2.6 Consensus size: 47
58208324 CATGCCTTGG
* *
58208334 CATGGTCTTACATGATATCCTTATCTTACAAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCAAA
*
58208381 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCAAA
58208428 CATGGTCTTACATGGTATCCTTGTCT
1 CATGGTCTTACATGGTATCCTTGTCT
58208454 CAGTGCCAAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACAAAATGCCATGTTCCAAA
Found at i:58208506 original size:18 final size:18
Alignment explanation
Indices: 58208463--58208499 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
58208453 TCAGTGCCAA
58208463 TGCCACATCTTGATGTGG
1 TGCCACATCTTGATGTGG
58208481 TGCCACATCTTGATGTGG
1 TGCCACATCTTGATGTGG
58208499 T
1 T
58208500 CTTACATGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.35
Consensus pattern (18 bp):
TGCCACATCTTGATGTGG
Found at i:58216943 original size:19 final size:20
Alignment explanation
Indices: 58216919--58216957 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
58216909 TGAAAATGTG
*
58216919 TAAGTTATGTCTA-GAAATT
1 TAAGTTATGCCTATGAAATT
58216938 TAAGTTATGCCTATGAAATT
1 TAAGTTATGCCTATGAAATT
58216958 ATGATAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (20 bp):
TAAGTTATGCCTATGAAATT
Found at i:58220438 original size:18 final size:18
Alignment explanation
Indices: 58220415--58220456 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
58220405 GAAGTCGCAT
58220415 AATCTTACGCTTTACTTG
1 AATCTTACGCTTTACTTG
*
58220433 AATCTTACGCTTTACTTT
1 AATCTTACGCTTTACTTG
58220451 AATCTT
1 AATCTT
58220457 CAGCAAAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.21, G:0.07, T:0.48
Consensus pattern (18 bp):
AATCTTACGCTTTACTTG
Found at i:58220709 original size:47 final size:47
Alignment explanation
Indices: 58220637--58220948 Score: 464
Period size: 47 Copynumber: 6.5 Consensus size: 47
58220627 CCCTTCGGGA
* * * * * * *
58220637 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58220684 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58220731 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGG-
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58220779 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58220826 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58220875 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58220922 CTTATCACGTATATATACACTTTCACA
1 CTTATCAC--ATATATACACTTTCACA
58220949 AATTTTAATA
Statistics
Matches: 247, Mismatches: 11, Indels: 12
0.91 0.04 0.04
Matches are distributed among these distances:
46 37 0.15
47 104 0.42
48 8 0.03
49 98 0.40
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58224747 original size:40 final size:40
Alignment explanation
Indices: 58224678--58224949 Score: 456
Period size: 40 Copynumber: 6.8 Consensus size: 40
58224668 CCAGCATGAT
* *
58224678 TGCTCTTC-GAGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGA-ACTTAGTCCGGATACATCACTAGCACGAA
* * *
58224718 TGCTCTTCGGGACTTAGTCCGGTTGCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
58224758 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
58224798 TGCTCTTCAGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
58224838 TACTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
58224878 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
58224918 TGCTCTTCGGAACTTAGTCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
58224950 CTCAATTCTC
Statistics
Matches: 218, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
40 217 1.00
41 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:58227143 original size:47 final size:47
Alignment explanation
Indices: 58227071--58227379 Score: 458
Period size: 47 Copynumber: 6.4 Consensus size: 47
58227061 CCCTTCGGGA
* * * * * * *
58227071 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58227118 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58227165 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58227214 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58227261 CTTATCACATATATATACACCTTT-ATATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACA-CTTTCACATTCATCACATCGGCCATTAGGC
58227310 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58227357 CTTATCACGTATATATACACTTT
1 CTTATCAC--ATATATACACTTT
58227380 TACAAATTTT
Statistics
Matches: 243, Mismatches: 11, Indels: 14
0.91 0.04 0.05
Matches are distributed among these distances:
46 4 0.02
47 136 0.56
49 99 0.41
50 4 0.02
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58227233 original size:96 final size:96
Alignment explanation
Indices: 58227071--58227376 Score: 501
Period size: 96 Copynumber: 3.2 Consensus size: 96
58227061 CCCTTCGGGA
* * * * *
58227071 CTTATCACAT-T-TATACA-CTTCCACATCCATCACGTTGGCCACTCGGCCTTATCACATATATA
1 CTTATCACATATATATACACCTT-CACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
58227133 CACTTTCACATTCATCACATTGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
58227165 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
58227230 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
58227261 CTTATCACATATATATACACCTTTATATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
58227326 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
58227357 CTTATCACGTATATATACAC
1 CTTATCACATATATATACAC
58227377 TTTTACAAAT
Statistics
Matches: 200, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
94 10 0.05
95 1 0.00
96 186 0.93
97 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58230091 original size:13 final size:13
Alignment explanation
Indices: 58230073--58230097 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58230063 CACAAACGAT
58230073 AAAATTTTCACAC
1 AAAATTTTCACAC
58230086 AAAATTTTCACA
1 AAAATTTTCACA
58230098 GATATCAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:58234047 original size:29 final size:29
Alignment explanation
Indices: 58234005--58234077 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
58233995 GTGACAAGAT
58234005 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
58234034 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
58234063 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
58234078 GAATTTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAAAGTA
Found at i:58234096 original size:29 final size:29
Alignment explanation
Indices: 58234064--58234136 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
58234054 TGAAAAGTAT
* * *
58234064 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
58234093 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
58234122 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
58234137 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:58244516 original size:46 final size:45
Alignment explanation
Indices: 58244352--58244566 Score: 169
Period size: 46 Copynumber: 4.6 Consensus size: 45
58244342 TAATATGTGT
* * * * * *
58244352 GCTAGTGTAAGACATGTCTGGAACATGCTTCGACCACAATATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA-GAGA
** * **
58244398 GCTAGTGTAAGACATGTCTGGGACATGCATTAGCCTCGAGATATTTTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAGA---GA
* * * *
58244446 TCTAGTGTAAGACATGTCTAGGACATGCATCGGCGTTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA-GAGA
* * * *
58244492 GCTAGTGTAAGACATGTCTGGGACATGTATCAGCCTCGCGATGGACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA--GA-GA
* *
58244540 GCTAGTATAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
58244567 GCGTCAGCTT
Statistics
Matches: 132, Mismatches: 31, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
45 1 0.01
46 67 0.51
47 2 0.02
48 61 0.46
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAGAGA
Found at i:58244545 original size:94 final size:94
Alignment explanation
Indices: 58244394--58244566 Score: 229
Period size: 94 Copynumber: 1.8 Consensus size: 94
58244384 ACCACAATAT
* ****** *
58244394 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATTAGCCTCGAGATATTTTTTCTAGTGTAAGAC
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGACAAGCTAGTATAAGAC
58244459 ATGTCTAGGACATGCATCGGCGTTGAGAC
66 ATGTCTAGGACATGCATCGGCGTTGAGAC
* * *
58244488 GAGAGCTAGTGTAAGACATGTCTGGGACATGTATCAGCCTCGCGATGGACAAGCTAGTATAAGAC
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGACAAGCTAGTATAAGAC
* *
58244553 CTGTCTGGGACATG
66 ATGTCTAGGACATG
58244567 GCGTCAGCTT
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
94 66 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (94 bp):
GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGACAAGCTAGTATAAGAC
ATGTCTAGGACATGCATCGGCGTTGAGAC
Found at i:58245890 original size:21 final size:21
Alignment explanation
Indices: 58245841--58245896 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 21
58245831 TAGTGATCAG
* *
58245841 ACGGGTGTGTTGGCCTTCCAC
1 ACGGGCGTGTTGCCCTTCCAC
58245862 AC-GGCGTGTTGCCCTTCCAC
1 ACGGGCGTGTTGCCCTTCCAC
58245882 ACGGGCGTG-TGCCCT
1 ACGGGCGTGTTGCCCT
58245897 GTTTCAAGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 24 0.75
21 8 0.25
ACGTcount: A:0.09, C:0.34, G:0.32, T:0.25
Consensus pattern (21 bp):
ACGGGCGTGTTGCCCTTCCAC
Found at i:58250454 original size:13 final size:13
Alignment explanation
Indices: 58250438--58250470 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
58250428 TTTAATTAAA
*
58250438 TTAGTTAATTAGT
1 TTAGATAATTAGT
58250451 TTAGATAATTAGT
1 TTAGATAATTAGT
58250464 TTA-ATAA
1 TTAGATAA
58250471 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:58254016 original size:46 final size:46
Alignment explanation
Indices: 58253966--58254138 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
58253956 TGGTTGAGCA
*
58253966 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
58254012 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
58254057 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
58254105 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58254139 GGGGCGGTTA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.58
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:58254122 original size:93 final size:93
Alignment explanation
Indices: 58253963--58254133 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
58253953 GGATGGTTGA
* * *
58253963 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
58254028 TGAGTCTGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
58254056 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
58254121 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
58254134 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:58257129 original size:30 final size:30
Alignment explanation
Indices: 58257095--58257154 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
58257085 TATCGTATCT
*
58257095 TGGGTTTCTTTAT-TATGGATTCCTTTATTC
1 TGGGTTTCTCTATCT-TGGATTCCTTTATTC
*
58257125 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTCTATCTTGGATTCCTTTATTC
58257155 GGTTTCCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.12, C:0.15, G:0.17, T:0.57
Consensus pattern (30 bp):
TGGGTTTCTCTATCTTGGATTCCTTTATTC
Found at i:58259133 original size:46 final size:46
Alignment explanation
Indices: 58259083--58259255 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
58259073 TGGTTGAGCA
58259083 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
58259129 TCCGAACTCGTTGAGTTGAGTCCGAGTT-AGTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
58259174 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
58259222 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58259256 GGGGCGGTTA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 58 0.56
47 27 0.26
48 4 0.04
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:58259239 original size:93 final size:93
Alignment explanation
Indices: 58259080--58259249 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
58259070 GGATGGTTGA
* *
58259080 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
58259145 TGAGTCCGAGTTAGTGAAATGTAACTAG
66 TGAGTCCAAGTTAGTGAAATGTAACTAG
* *
58259173 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
58259238 TGAGTCCAAGTT
66 TGAGTCCAAGTT
58259250 CACTTAGGGG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTAGTGAAATGTAACTAG
Found at i:58262834 original size:29 final size:28
Alignment explanation
Indices: 58262802--58262904 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
58262792 GTGACGAGAT
* *
58262802 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
58262831 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
58262860 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
58262889 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58262905 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:58271403 original size:124 final size:124
Alignment explanation
Indices: 58271181--58271405 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
58271171 GAATTATGTG
* * ** * * *
58271181 AAATGAAATATGGATGTATATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
* * **
58271246 GCTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
* *
58271305 AAATGAAATATGAATGTCTAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
58271370 GCTAAGTCCCGAAGAC-ATTTATGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGA-TTATGCTGGAAATTATAT
58271406 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 86 0.99
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (124 bp):
AAATGAAATATGAATGTATAATGATTATTGATGCATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:58271527 original size:40 final size:40
Alignment explanation
Indices: 58271400--58271529 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
58271390 ATGCTGGAAA
* *
58271400 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
58271440 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
58271480 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
58271520 TTATATCCGG
1 TTATATCCGG
58271530 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:58271528 original size:80 final size:80
Alignment explanation
Indices: 58271362--58271529 Score: 198
Period size: 80 Copynumber: 2.1 Consensus size: 80
58271352 CAATTGAATG
* * *
58271362 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
58271427 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * ** *
58271442 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
58271506 -ATTCGTGC-ACGTGGTT
65 AATT-GTGCTA-GTGGCT
58271522 ATATCCGG
1 ATATCCGG
58271530 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 5 0.07
80 69 0.93
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:58274021 original size:29 final size:28
Alignment explanation
Indices: 58273989--58274091 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
58273979 GTGACGAGAT
* *
58273989 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
58274018 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
58274047 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
58274076 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58274092 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Done.