Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 37 of 208
Found at i:14355567 original size:17 final size:16
Alignment explanation
Indices: 14355521--14355569 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
14355511 GAATTTATAA
*
14355521 GAATTTTTGAATTAAT
1 GAATTTTTGATTTAAT
* *
14355537 GAATTTTTTTATTTATT
1 GAA-TTTTTGATTTAAT
14355554 GAATTTTGTGATTTAA
1 GAATTTT-TGATTTAA
14355570 AAAGAATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 7 0.27
17 19 0.73
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.57
Consensus pattern (16 bp):
GAATTTTTGATTTAAT
Found at i:14357927 original size:43 final size:42
Alignment explanation
Indices: 14357878--14358002 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 42
14357868 GGACTCTGAT
*
14357878 ATGTGTTTTCGTGTAAGACCACGTCTGGGATGTCGGCATCGAC
1 ATGTGTTTTCGTGTAAGACCACGTCTGGGAAGT-GGCATCGAC
* *** * *
14357921 TTGTGTTTTCGTGTAAGACCTTATCTGGGACAGTGGCATTGGC
1 ATGTGTTTTCGTGTAAGACCACGTCTGGGA-AGTGGCATCGAC
* * * *
14357964 ATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATGTGTTTTCGTGTAAGACCACGTCTGGGAAG-TGGCAT
14358003 TGTACTAGCT
Statistics
Matches: 65, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
42 1 0.02
43 62 0.95
44 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (42 bp):
ATGTGTTTTCGTGTAAGACCACGTCTGGGAAGTGGCATCGAC
Found at i:14358681 original size:15 final size:15
Alignment explanation
Indices: 14358649--14358697 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
14358639 TACTTTAATC
14358649 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
14358664 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
* *
14358679 ATGGTAATGTATATAT
1 ATGGTTA-GTATTTAT
14358695 ATG
1 ATG
14358698 TGTGCATGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 9 0.30
15 11 0.37
16 10 0.33
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:14358947 original size:23 final size:23
Alignment explanation
Indices: 14358921--14359086 Score: 94
Period size: 23 Copynumber: 7.1 Consensus size: 23
14358911 ATAGAGTAAA
14358921 TGATTGTATATGCTGTCAAATTT
1 TGATTGTATATGCTGTCAAATTT
* * * *
14358944 TGA-TGTACAAATGCAGTCCAATTA
1 TGATTGT--ATATGCTGTCAAATTT
14358968 T-ATATGTATATGCTGTCAAATTT
1 TGAT-TGTATATGCTGTCAAATTT
* *
14358991 TGA-TGTATAAATG-TAGTCCAATTA
1 TGATTGTAT--ATGCT-GTCAAATTT
14359015 T-ATATGTATATGCTGTCAAATTT
1 TGAT-TGTATATGCTGTCAAATTT
* * * *
14359038 TGA-TGTACAAATGCAGTCCAATTA
1 TGATTGT--ATATGCTGTCAAATTT
*
14359062 T-ATATGTAAATGCTGTCAAATTT
1 TGAT-TGTATATGCTGTCAAATTT
14359085 TG
1 TG
14359087 GTGTGAAAAA
Statistics
Matches: 107, Mismatches: 19, Indels: 33
0.67 0.12 0.21
Matches are distributed among these distances:
22 11 0.10
23 45 0.42
24 40 0.37
25 11 0.10
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (23 bp):
TGATTGTATATGCTGTCAAATTT
Found at i:14358994 original size:47 final size:47
Alignment explanation
Indices: 14358925--14359086 Score: 297
Period size: 47 Copynumber: 3.4 Consensus size: 47
14358915 AGTAAATGAT
14358925 TGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATA
1 TGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATA
* *
14358972 TGTATATGCTGTCAAATTTTGATGTATAAATGTAGTCCAATTATATA
1 TGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATA
14359019 TGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATA
1 TGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATA
*
14359066 TGTAAATGCTGTCAAATTTTG
1 TGTATATGCTGTCAAATTTTG
14359087 GTGTGAAAAA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 110 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.40
Consensus pattern (47 bp):
TGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATA
Found at i:14359135 original size:94 final size:93
Alignment explanation
Indices: 14358930--14359138 Score: 271
Period size: 94 Copynumber: 2.2 Consensus size: 93
14358920 ATGATTGTAT
*
14358930 ATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATATGTATATGCTGTCAAATTTTGAT
1 ATGCTGTCAAA-TTTGATGTACAAATGCAGTCCAATTATATATGTAAATGCTGTCAAATTTTGAT
* * *
14358995 GTATAAATGTAGTCCAATTATATATGTAT
65 GTAAAAATGTAGTCCAATTATATATATAA
*
14359024 ATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATATGTAAATGCTGTCAAATTTTGGT
1 ATGCTGTCAAA-TTTGATGTACAAATGCAGTCCAATTATATATGTAAATGCTGTCAAATTTTGAT
* * *
14359089 GTGAAAAATGCTA-TCTAGTT-TGGTATATAA
65 GT-AAAAATG-TAGTCCAATTAT-ATATATAA
14359119 ATGCTGTTCAAA-TTGATGTA
1 ATGCTG-TCAAATTTGATGTA
14359139 TAATAATTGT
Statistics
Matches: 103, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
94 74 0.72
95 22 0.21
96 7 0.07
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (93 bp):
ATGCTGTCAAATTTGATGTACAAATGCAGTCCAATTATATATGTAAATGCTGTCAAATTTTGATG
TAAAAATGTAGTCCAATTATATATATAA
Found at i:14359837 original size:46 final size:46
Alignment explanation
Indices: 14359700--14359838 Score: 217
Period size: 46 Copynumber: 3.0 Consensus size: 46
14359690 CATGGCAAAG
* *
14359700 TGTGAAACGTAGGTATGGTA-TTCCAGTGAAGAAAACCATACTGAGC
1 TGTGAAAAGTAGGTATGGTATTTCC-GTGAAGAAAACCATACTGAGT
* * *
14359746 TGTGAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATATTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
14359792 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
14359838 T
1 T
14359839 ATAGCCTTGT
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
46 81 0.96
47 3 0.04
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
Found at i:14372625 original size:25 final size:24
Alignment explanation
Indices: 14372596--14372648 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
14372586 AATAATAAAA
*
14372596 TTTTAACAGTAGAAATAGTTTATAT
1 TTTTAACAGAAGAAATAGTTTAT-T
* * *
14372621 TTTTAATAGAAGAACTGGTTTATT
1 TTTTAACAGAAGAAATAGTTTATT
14372645 TTTT
1 TTTT
14372649 GATCTAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (24 bp):
TTTTAACAGAAGAAATAGTTTATT
Found at i:14378453 original size:51 final size:50
Alignment explanation
Indices: 14378326--14378510 Score: 176
Period size: 51 Copynumber: 3.7 Consensus size: 50
14378316 AAAGTAATGG
* *
14378326 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAATGATAGA
* * * * * *
14378376 TCGCATGTGTAGTACTATGTGCAGGCTATTATGCGTACTGG-ATAGTTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAAT-G-ATAGA
* * * * * *
14378427 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAG-ATGGTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAATGAT-A-GA
* *
14378478 TCACATGTGTAGTACTATATGCAGGCTACTATG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATG
14378511 TGAACTGAAC
Statistics
Matches: 109, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
49 3 0.03
50 38 0.35
51 68 0.62
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAATGATAGA
Found at i:14378454 original size:101 final size:102
Alignment explanation
Indices: 14378326--14378510 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
14378316 AAAGTAATGG
* * *
14378326 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAG-ATGATAATGGTCACATGTGTAGT
* *
14378389 ACTATGTGCAGGCTATTATGCGTACTGGATAGTTTCGA
65 ACTATATGCAGGCTACTATGCGTACTGGATAGTTTCGA
* *
14378427 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATGATAATGGTCACATGTGTAGTA
14378492 CTATATGCAGGCTACTATG
66 CTATATGCAGGCTACTATG
14378511 TGAACTGAAC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.52
102 32 0.43
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATGATAATGGTCACATGTGTAGTA
CTATATGCAGGCTACTATGCGTACTGGATAGTTTCGA
Found at i:14378570 original size:45 final size:45
Alignment explanation
Indices: 14378519--14378607 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
14378509 TGTGAACTGA
* * * *
14378519 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGGGGTTGCTATGTGCTAAATCCACCGG
14378564 ACATCATTGATTAATAAGGGGGTTGCTATGTGCTAAATCCACCG
1 ACATCATTGATTAATAAGGGGGTTGCTATGTGCTAAATCCACCG
14378608 AGTATCTGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGGGGTTGCTATGTGCTAAATCCACCGG
Found at i:14380571 original size:45 final size:45
Alignment explanation
Indices: 14380506--14380654 Score: 178
Period size: 45 Copynumber: 3.4 Consensus size: 45
14380496 GGGTGTTACA
* * *
14380506 GATTCCACCAGGTATCATTGATTATAAAGGTGGTTGTTGTATGCT
1 GATTCCACCGGGTATCATTGATTATAAAGGTGGTTGCTATATGCT
* *
14380551 GATTCCACCGGGTA-CTATTGATTATGAAGGTGGTTGCTATGTGCT
1 GATTCCACCGGGTATC-ATTGATTATAAAGGTGGTTGCTATATGCT
* * * *
14380596 GATTCCACCGAGTATCATTGACTATAAGGGTGG-TGCTATGTGCT
1 GATTCCACCGGGTATCATTGATTATAAAGGTGGTTGCTATATGCT
*
14380640 GA-TCCACCGTGTATC
1 GATTCCACCGGGTATC
14380655 TGTTATTATT
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
43 12 0.13
44 14 0.15
45 65 0.71
46 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (45 bp):
GATTCCACCGGGTATCATTGATTATAAAGGTGGTTGCTATATGCT
Found at i:14384166 original size:5 final size:5
Alignment explanation
Indices: 14384156--14384184 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
14384146 GTATTAAGTA
14384156 TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATA
14384185 ATAAAACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:14400278 original size:24 final size:25
Alignment explanation
Indices: 14400225--14400278 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
14400215 TTACTTGTTT
14400225 GAAA-TGAAAATTAAAAATTAAAAA
1 GAAATTGAAAATTAAAAATTAAAAA
* *
14400249 GCAATTGAAAA-TAAATATTAAAAA
1 GAAATTGAAAATTAAAAATTAAAAA
*
14400273 TAAATT
1 GAAATT
14400279 ATTCATTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (25 bp):
GAAATTGAAAATTAAAAATTAAAAA
Found at i:14401885 original size:75 final size:75
Alignment explanation
Indices: 14401762--14401911 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
14401752 CTACCCATTC
14401762 CCTCCTCTTAAACAAAAACAATAATTGTATTATATTCATAACTACATGATTAATATAACAGAACC
1 CCTCCTCTTAAACAAAAACAATAATTGTATTATATTCATAACTACATGATTAATATAACAGAACC
14401827 AGAATAAAAT
66 AGAATAAAAT
14401837 CCTCCTCTTAAACAAAAACAATAATTGTATTATATTCATAACTACATGATTAATATAACAGAACC
1 CCTCCTCTTAAACAAAAACAATAATTGTATTATATTCATAACTACATGATTAATATAACAGAACC
14401902 AGAATAAAAT
66 AGAATAAAAT
14401912 GCAAGTAAAA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.48, C:0.17, G:0.05, T:0.29
Consensus pattern (75 bp):
CCTCCTCTTAAACAAAAACAATAATTGTATTATATTCATAACTACATGATTAATATAACAGAACC
AGAATAAAAT
Found at i:14406179 original size:24 final size:24
Alignment explanation
Indices: 14406117--14406168 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
14406107 TTTCTAGAAG
* * *
14406117 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAATATAATAT
14406141 ATTTAGCATTTATTAATATAATAT
1 ATTTAGCATTTATTAATATAATAT
14406165 ATTT
1 ATTT
14406169 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAATATAATAT
Found at i:14407852 original size:17 final size:15
Alignment explanation
Indices: 14407819--14407853 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
14407809 TTAAAAGTAA
14407819 AATAATATAATATAC
1 AATAATATAATATAC
14407834 AATAACTATAATCATAC
1 AATAA-TATAAT-ATAC
14407851 AAT
1 AAT
14407854 TATTCAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 6 0.33
17 7 0.39
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAATATAATATAC
Found at i:14408937 original size:15 final size:15
Alignment explanation
Indices: 14408917--14408971 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
14408907 AACATCTAAA
14408917 AATTCAATATTTTAC
1 AATTCAATATTTTAC
* * * *
14408932 AATTCATAACATCTAAA
1 AATTC--AATATTTTAC
14408949 AATTCAATATTTTAC
1 AATTCAATATTTTAC
14408964 AATTCAAT
1 AATTCAAT
14408972 CACTTTTTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
15 19 0.63
17 11 0.37
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (15 bp):
AATTCAATATTTTAC
Found at i:14408948 original size:32 final size:32
Alignment explanation
Indices: 14408907--14408969 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
14408897 CAACATGAAC
14408907 AACATCTAAAAATTCAATATTTTACAATTCAT
1 AACATCTAAAAATTCAATATTTTACAATTCAT
14408939 AACATCTAAAAATTCAATATTTTACAATTCA
1 AACATCTAAAAATTCAATATTTTACAATTCA
14408970 ATCACTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.37
Consensus pattern (32 bp):
AACATCTAAAAATTCAATATTTTACAATTCAT
Found at i:14409058 original size:19 final size:19
Alignment explanation
Indices: 14409029--14409065 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
14409019 CTAATTTCTC
14409029 CTTTCTTTCTTTCTCTTTTT
1 CTTTCTTTCTTTC-CTTTTT
14409049 CTTT-TTTCTTTCCTTTT
1 CTTTCTTTCTTTCCTTTT
14409066 CTCCCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
CTTTCTTTCTTTCCTTTTT
Found at i:14409128 original size:7 final size:7
Alignment explanation
Indices: 14409116--14409168 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
14409106 ATTTACTTAT
14409116 TATAATA
1 TATAATA
14409123 TATAATA
1 TATAATA
14409130 TAT-ATA
1 TATAATA
*
14409136 TTTAATA
1 TATAATA
*
14409143 -ATTAAGA
1 TA-TAATA
14409150 TATAATA
1 TATAATA
14409157 TTATAATA
1 -TATAATA
14409165 TATA
1 TATA
14409169 TTTTAACTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 5 0.13
7 25 0.66
8 8 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (7 bp):
TATAATA
Found at i:14412145 original size:9 final size:9
Alignment explanation
Indices: 14412131--14412161 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
14412121 GTTAAACGAA
14412131 TCGAGTTAT
1 TCGAGTTAT
*
14412140 TCGAGTTAA
1 TCGAGTTAT
14412149 TCGAGTTAT
1 TCGAGTTAT
14412158 TCGA
1 TCGA
14412162 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:14412232 original size:9 final size:9
Alignment explanation
Indices: 14412215--14412251 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
14412205 TAAGTTTTCG
14412215 AATTCGAAT
1 AATTCGAAT
*
14412224 AACTCGAAT
1 AATTCGAAT
14412233 AATTCGAAT
1 AATTCGAAT
14412242 AATTCGAAT
1 AATTCGAAT
14412251 A
1 A
14412252 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:14412369 original size:30 final size:30
Alignment explanation
Indices: 14412309--14412371 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
14412299 ACTTTTCCCT
* ***
14412309 CAAAACTTTTACTCCTTCCCACTTTTCTCC
1 CAAAACTTTTACTCCCTCCCACTCCCCTCC
14412339 CAAAACTTTTACTCCCCTCCC-CTCCCCTCC
1 CAAAACTTTTACT-CCCTCCCACTCCCCTCC
14412369 CAA
1 CAA
14412372 CCCCCCAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 22 0.79
31 6 0.21
ACGTcount: A:0.21, C:0.48, G:0.00, T:0.32
Consensus pattern (30 bp):
CAAAACTTTTACTCCCTCCCACTCCCCTCC
Found at i:14416192 original size:20 final size:20
Alignment explanation
Indices: 14416164--14416201 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14416154 TATTTTTCAA
*
14416164 TAAATCATTTTACAGAAAAG
1 TAAAACATTTTACAGAAAAG
*
14416184 TAAAACATTTTCCAGAAA
1 TAAAACATTTTACAGAAA
14416202 TCATTTTACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (20 bp):
TAAAACATTTTACAGAAAAG
Found at i:14436338 original size:21 final size:19
Alignment explanation
Indices: 14436312--14436353 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
14436302 TAAAAAATCC
14436312 AAAAATATCATAAAATTATTT
1 AAAAATATCAT-AAATT-TTT
*
14436333 AAAAATTTCATAAATTTTT
1 AAAAATATCATAAATTTTT
14436352 AA
1 AA
14436354 GATTTTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 5 0.25
21 10 0.50
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATATCATAAATTTTT
Found at i:14442151 original size:18 final size:17
Alignment explanation
Indices: 14442093--14442155 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 17
14442083 TCATGCTATC
*
14442093 TTTTATTAATTTTTAACAT
1 TTTTTTTAA-TTTTAA-AT
14442112 TTTTTTATAAATTTT-AA-
1 TTTTTT-T-AATTTTAAAT
14442129 TTTTTTTAATTTTAAAT
1 TTTTTTTAATTTTAAAT
14442146 TATTTTTTAA
1 T-TTTTTTAA
14442156 CATAGCATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
15 6 0.16
16 3 0.08
17 7 0.18
18 9 0.24
19 6 0.16
20 5 0.13
21 2 0.05
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTTTAATTTTAAAT
Found at i:14442560 original size:20 final size:20
Alignment explanation
Indices: 14442535--14442572 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14442525 AATTTTCACC
14442535 ATTTATATGGTAAAATATTA
1 ATTTATATGGTAAAATATTA
14442555 ATTTATATGGTAAAATAT
1 ATTTATATGGTAAAATAT
14442573 ATATTTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (20 bp):
ATTTATATGGTAAAATATTA
Found at i:14442578 original size:20 final size:20
Alignment explanation
Indices: 14442535--14442611 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
14442525 AATTTTCACC
14442535 ATTTATATGGTAAAATAT-T
1 ATTTATATGGTAAAATATAT
14442554 AATTTATATGGTAAAATATAT
1 -ATTTATATGGTAAAATATAT
**
14442575 ATTT-TACAGTAAAA-A-AT
1 ATTTATATGGTAAAATATAT
*
14442592 ATTATATAT-ATAAAATATAT
1 ATT-TATATGGTAAAATATAT
14442612 GGTAACATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
17 5 0.10
18 7 0.15
19 11 0.23
20 24 0.50
21 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.43
Consensus pattern (20 bp):
ATTTATATGGTAAAATATAT
Found at i:14445056 original size:17 final size:17
Alignment explanation
Indices: 14445034--14445069 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14445024 AAAGATATTA
14445034 TTCTTTAATTTGCACTT
1 TTCTTTAATTTGCACTT
**
14445051 TTCTTTTGTTTGCACTT
1 TTCTTTAATTTGCACTT
14445068 TT
1 TT
14445070 ATAAATCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.17, G:0.08, T:0.64
Consensus pattern (17 bp):
TTCTTTAATTTGCACTT
Found at i:14451042 original size:37 final size:37
Alignment explanation
Indices: 14451000--14451075 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
14450990 AACCTCCTGC
14451000 AGTGACAAACACAGTTGGAAGCAGTTATACCAAAGTA
1 AGTGACAAACACAGTTGGAAGCAGTTATACCAAAGTA
14451037 AGTGACAAACACAGTTGGAAGCAGTTATACCAAAGTA
1 AGTGACAAACACAGTTGGAAGCAGTTATACCAAAGTA
14451074 AG
1 AG
14451076 CAACCTCTAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.18
Consensus pattern (37 bp):
AGTGACAAACACAGTTGGAAGCAGTTATACCAAAGTA
Found at i:14467169 original size:3 final size:3
Alignment explanation
Indices: 14467161--14467188 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
14467151 CTTTAGAGGC
14467161 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
14467189 TTAGGGTACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:14490641 original size:3 final size:3
Alignment explanation
Indices: 14490633--14490657 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14490623 CTTTAGAGGC
14490633 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
14490658 TTAGGGTACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:14501884 original size:6 final size:6
Alignment explanation
Indices: 14501873--14501897 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14501863 CCTTTCGGTG
14501873 GCCGGC GCCGGC GCCGGC GCCGGC G
1 GCCGGC GCCGGC GCCGGC GCCGGC G
14501898 AGCCTCCGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.48, G:0.52, T:0.00
Consensus pattern (6 bp):
GCCGGC
Found at i:14502447 original size:3 final size:3
Alignment explanation
Indices: 14502429--14502479 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
14502419 TTAAATATCC
* * * * *
14502429 TTA TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14502476 TTA T
1 TTA T
14502480 GTACTAGTGT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:14502612 original size:3 final size:3
Alignment explanation
Indices: 14502604--14502633 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
14502594 TATTCCAATG
14502604 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14502634 GTTTATGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14514746 original size:44 final size:44
Alignment explanation
Indices: 14514626--14515072 Score: 266
Period size: 44 Copynumber: 10.2 Consensus size: 44
14514616 AGGTCAAAGG
* * * *
14514626 AGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-A
1 AGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGAA
* * * * *
14514669 TGCAGATATTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGAA
* * *
14514714 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGAA
* * * ** * * *
14514758 AGCAGGTCCTATCTTCCTATATTGATAG-GAAGTGGATCCAAGAT
1 AGCAGATCTTGTCTTCCTATATTG-GCGTGAAGTAGATCGAAGAA
* * *
14514802 A-CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATA
1 AGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGA-A
* * * * ** * *
14514846 A-CAGGTCCTATCTTCCTATAAT-GATTGGAAGTGGATCGACG-A
1 AGCAGATCTTGTCTTCCTATATTGGCGT-GAAGTAGATCGAAGAA
* * * * *
14514888 CGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAA
1 AGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGAA
* * * *
14514933 AGCAGATCTTGTCTTCATGTATTGGCGTTAAGTAGATCAAAGATA
1 AGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGA-A
* * * * ** * *
14514978 A-CAGGTCCTATCTTCCTATAAT-GATTGGAAGTGGATCGACG-A
1 AGCAGATCTTGTCTTCCTATATTGGCGT-GAAGTAGATCGAAGAA
* * * * *
14515020 CGCAGATCCTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCGAAGAA
14515065 AGCAGATC
1 AGCAGATC
14515073 GACGATGGCG
Statistics
Matches: 300, Mismatches: 88, Indels: 30
0.72 0.21 0.07
Matches are distributed among these distances:
42 3 0.01
43 89 0.30
44 153 0.51
45 55 0.18
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCGAAGAA
Found at i:14514826 original size:87 final size:87
Alignment explanation
Indices: 14514654--14514903 Score: 313
Period size: 87 Copynumber: 2.9 Consensus size: 87
14514644 ATATTGGTAG
* * ** * * * * *
14514654 GAAGTGGATCGAAGAT-GCAGATATTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG-GAAGTGGATCGAAGAAA-CA
14514718 GATCTTGTCTTCATGTATTGGCGT
64 GATCTTGTCTTCATGTATTGGCGT
* *
14514742 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGAAACAGA
14514807 TCTTGTCTTCATGTATTGGCGT
66 TCTTGTCTTCATGTATTGGCGT
* * * * * **
14514829 GAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGAAACAGA
14514894 TCTTGTCTTC
66 TCTTGTCTTC
14514904 CCATATTGGT
Statistics
Matches: 142, Mismatches: 19, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
87 93 0.65
88 29 0.20
89 20 0.14
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (87 bp):
GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCGAAGAAACAGA
TCTTGTCTTCATGTATTGGCGT
Found at i:14514966 original size:132 final size:132
Alignment explanation
Indices: 14514786--14515072 Score: 495
Period size: 132 Copynumber: 2.2 Consensus size: 132
14514776 ATATTGATAG
* * *
14514786 GAAGTGGATCCAAGATA-CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAG
* *
14514850 GTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCTTGTCTTCCCATATTGGTG
66 GTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCCTGTCTTCCCATACTGGTG
14514915 GC
131 GC
* *
14514917 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTTAAGTAGATCAAAGATAACAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAG
14514982 GTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCCTGTCTTCCCATACTGGTG
66 GTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCCTGTCTTCCCATACTGGTG
*
14515047 GT
131 GC
14515049 GAAGTAGATCGAAGAAAGCAGATC
1 GAAGTAGATCGAAGAAAGCAGATC
14515073 GACGATGGCG
Statistics
Matches: 146, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
131 13 0.09
132 133 0.91
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (132 bp):
GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACAG
GTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCCTGTCTTCCCATACTGGTG
GC
Found at i:14515035 original size:219 final size:219
Alignment explanation
Indices: 14514632--14515035 Score: 655
Period size: 219 Copynumber: 1.8 Consensus size: 219
14514622 AAGGAGCAGA
* * *
14514632 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATATTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATAATGATAGGAAGTGGATCGAAGACGCAGATATTGTCTTCCCATATTGGTGG
* *
14514697 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACA
* * *
14514762 GGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCATGTATTGGC
131 GGTCCTATCTTCCTATAATGATAGGAAGTGGATCCAAGACACAGATCCTGTCTTCATGTATTGGC
14514827 GTGAAGTAGATCAAAGATAACAGG
196 GTGAAGTAGATCAAAGATAACAGG
* * *
14514851 TCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATAATGATAGGAAGTGGATCGAAGACGCAGATATTGTCTTCCCATATTGGTGG
* *
14514916 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTTAAGTAGATCAAAGATAACA
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACA
* * * *
14514981 GGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGATCCTGTCTTC
131 GGTCCTATCTTCCTATAATGATAGGAAGTGGATCCAAGACACAGATCCTGTCTTC
14515036 CCATACTGGT
Statistics
Matches: 168, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
219 168 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (219 bp):
TCCTATCTTCCTATAATGATAGGAAGTGGATCGAAGACGCAGATATTGTCTTCCCATATTGGTGG
CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAACA
GGTCCTATCTTCCTATAATGATAGGAAGTGGATCCAAGACACAGATCCTGTCTTCATGTATTGGC
GTGAAGTAGATCAAAGATAACAGG
Found at i:14516129 original size:6 final size:6
Alignment explanation
Indices: 14516118--14516142 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14516108 CCTTTCGGTG
14516118 GCCGGC GCCGGC GCCGGC GCCGGC G
1 GCCGGC GCCGGC GCCGGC GCCGGC G
14516143 AGCCTCCGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.48, G:0.52, T:0.00
Consensus pattern (6 bp):
GCCGGC
Found at i:14516678 original size:3 final size:3
Alignment explanation
Indices: 14516660--14516710 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
14516650 TTAAATATCC
* * * * *
14516660 TTA TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14516707 TTA T
1 TTA T
14516711 GTACTAGTGT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:14537717 original size:21 final size:21
Alignment explanation
Indices: 14537691--14537757 Score: 107
Period size: 21 Copynumber: 3.2 Consensus size: 21
14537681 TTTTACTTTT
*
14537691 TGTTCAGCTCTTATGAGTTTC
1 TGTTCAGCTCTTATGAGCTTC
14537712 TGTTCAGCTCTTATGAGCTTC
1 TGTTCAGCTCTTATGAGCTTC
**
14537733 TGTTCAGCTCTTACAAGCTTC
1 TGTTCAGCTCTTATGAGCTTC
14537754 TGTT
1 TGTT
14537758 GGTGTATTCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (21 bp):
TGTTCAGCTCTTATGAGCTTC
Found at i:14537977 original size:20 final size:21
Alignment explanation
Indices: 14537934--14537979 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
14537924 GAATTTATGG
*
14537934 ATGATAGGAAATTGTCAGTGA
1 ATGATAGGAAATTGACAGTGA
*
14537955 ATGATAGGGAATTGACA-TGA
1 ATGATAGGAAATTGACAGTGA
14537975 ATGAT
1 ATGAT
14537980 TTTATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.39, C:0.04, G:0.28, T:0.28
Consensus pattern (21 bp):
ATGATAGGAAATTGACAGTGA
Found at i:14539628 original size:34 final size:35
Alignment explanation
Indices: 14539570--14539636 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
14539560 CAAACACCAG
14539570 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
14539605 AAAATATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
14539637 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:14545243 original size:50 final size:51
Alignment explanation
Indices: 14545121--14545247 Score: 150
Period size: 50 Copynumber: 2.5 Consensus size: 51
14545111 GATAGTAACA
* * **
14545121 TGCTAAAGCCATGTCCC-GAACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCTAATGCCATGTCCCAG-ACATGGTCTTACAGGGGACCTTCTCATATCGG
** * * *
14545172 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTT-TCATCTCGG
1 TGCTAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTTCTCATATCGG
14545222 TGCTAATGCCATGTCCCAGACATGGT
1 TGCTAATGCCATGTCCCAGACATGGT
14545248 GTAACAGCCC
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
50 31 0.49
51 31 0.49
52 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.28
Consensus pattern (51 bp):
TGCTAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTTCTCATATCGG
Found at i:14545659 original size:5 final size:5
Alignment explanation
Indices: 14545649--14545719 Score: 62
Period size: 5 Copynumber: 14.6 Consensus size: 5
14545639 AAAAAAATAT
* *
14545649 TATTA TATTA TAGTAA TGATTA TGTT- T-TTA TATTA TATTA TCATTA
1 TATTA TATTA TA-TTA T-ATTA TATTA TATTA TATTA TATTA T-ATTA
14545695 -A-TA TATTA TATTA TATTA TA-TA TAT
1 TATTA TATTA TATTA TATTA TATTA TAT
14545720 ACATAAAACA
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
3 4 0.07
4 8 0.15
5 32 0.58
6 10 0.18
7 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:14545701 original size:19 final size:19
Alignment explanation
Indices: 14545677--14545719 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
14545667 ATTATGTTTT
14545677 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
14545696 TATATTATATTATATTATA
1 TATATTATATTATATTATA
14545715 TATAT
1 TATAT
14545720 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:14545824 original size:4 final size:4
Alignment explanation
Indices: 14545817--14545844 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
14545807 GAGAAGGAAG
14545817 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
14545845 AAGAAAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:14546388 original size:29 final size:30
Alignment explanation
Indices: 14546330--14546386 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
14546320 CCGAGCCTTT
*
14546330 GGGCAAAAATGTAATTATGTAAAAGTTTAG
1 GGGCAAAAATGTAATTATGAAAAAGTTTAG
* *
14546360 GGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGCAAAAATGTAATTATGAAAAAGTT
14546387 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.32
Consensus pattern (30 bp):
GGGCAAAAATGTAATTATGAAAAAGTTTAG
Found at i:14546776 original size:46 final size:44
Alignment explanation
Indices: 14546719--14546833 Score: 158
Period size: 44 Copynumber: 2.6 Consensus size: 44
14546709 ACAGGACAGA
*
14546719 ACAGGAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
14546765 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
14546809 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
14546834 GTCAAAGACA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 35 0.56
46 27 0.44
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:14546814 original size:44 final size:45
Alignment explanation
Indices: 14546719--14546852 Score: 162
Period size: 46 Copynumber: 3.0 Consensus size: 45
14546709 ACAGGACAGA
*
14546719 ACAGGAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
14546765 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
14546809 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
14546853 CAGGGTATTG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 36 0.48
45 1 0.01
46 38 0.51
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:14549261 original size:13 final size:13
Alignment explanation
Indices: 14549243--14549270 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14549233 TGATCTCTTC
14549243 TGGGTATTCTATA
1 TGGGTATTCTATA
14549256 TGGGTATTCTATA
1 TGGGTATTCTATA
14549269 TG
1 TG
14549271 CTCTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (13 bp):
TGGGTATTCTATA
Found at i:14551166 original size:5 final size:5
Alignment explanation
Indices: 14551156--14551226 Score: 62
Period size: 5 Copynumber: 14.6 Consensus size: 5
14551146 AAAAAAATAT
* *
14551156 TATTA TATTA TAGTAA TGATTA TGTT- T-TTA TATTA TATTA TCATTA
1 TATTA TATTA TA-TTA T-ATTA TATTA TATTA TATTA TATTA T-ATTA
14551202 -A-TA TATTA TATTA TATTA TA-TA TAT
1 TATTA TATTA TATTA TATTA TATTA TAT
14551227 ACATAAAACA
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
3 4 0.07
4 8 0.15
5 32 0.58
6 10 0.18
7 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
TATTA
Found at i:14551208 original size:19 final size:19
Alignment explanation
Indices: 14551184--14551226 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
14551174 ATTATGTTTT
14551184 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
14551203 TATATTATATTATATTATA
1 TATATTATATTATATTATA
14551222 TATAT
1 TATAT
14551227 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:14551331 original size:4 final size:4
Alignment explanation
Indices: 14551324--14551351 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
14551314 GAGAAGGAAG
14551324 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
14551352 AAGAAAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:14551895 original size:29 final size:30
Alignment explanation
Indices: 14551837--14551893 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
14551827 CCGAGCCTTT
*
14551837 GGGCAAAAATGTAATTATGTAAAAGTTTAG
1 GGGCAAAAATGTAATTATGAAAAAGTTTAG
* *
14551867 GGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGCAAAAATGTAATTATGAAAAAGTT
14551894 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.32
Consensus pattern (30 bp):
GGGCAAAAATGTAATTATGAAAAAGTTTAG
Found at i:14552283 original size:46 final size:44
Alignment explanation
Indices: 14552226--14552340 Score: 158
Period size: 44 Copynumber: 2.6 Consensus size: 44
14552216 ACAGGACAGA
*
14552226 ACAGGAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
14552272 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
14552316 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
14552341 GTCAAAGACA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 35 0.56
46 27 0.44
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:14552321 original size:44 final size:45
Alignment explanation
Indices: 14552226--14552359 Score: 162
Period size: 46 Copynumber: 3.0 Consensus size: 45
14552216 ACAGGACAGA
*
14552226 ACAGGAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
14552272 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
14552316 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
14552360 CAGGGTATTG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 36 0.48
45 1 0.01
46 38 0.51
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:14556556 original size:51 final size:50
Alignment explanation
Indices: 14556502--14556597 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
14556492 TATTTTTTAT
* **
14556502 TTTTTAAAATTA-GAATAAATTTGATATTATTCGTAAATTTTGAGAGTTAA
1 TTTTTAAAATTATGAATAAA-TTGATATAATTCGTAAAAATTGAGAGTTAA
* *
14556552 TTTTTAAAATTATGACTAAATTGATATAATTTGTAAAAATTGAGAG
1 TTTTTAAAATTATGAATAAATTGATATAATTCGTAAAAATTGAGAG
14556598 CTAAAATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 34 0.85
51 6 0.15
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (50 bp):
TTTTTAAAATTATGAATAAATTGATATAATTCGTAAAAATTGAGAGTTAA
Found at i:14556854 original size:23 final size:23
Alignment explanation
Indices: 14556827--14556874 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
14556817 ATAGAAGAAG
14556827 AAACACATAAACAAAATAGATGC
1 AAACACATAAACAAAATAGATGC
*
14556850 AAACACATAAATAAAATAGATGC
1 AAACACATAAACAAAATAGATGC
14556873 AA
1 AA
14556875 TTTTTGGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.62, C:0.15, G:0.08, T:0.15
Consensus pattern (23 bp):
AAACACATAAACAAAATAGATGC
Found at i:14561448 original size:24 final size:24
Alignment explanation
Indices: 14561411--14561457 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
14561401 TATATATACC
14561411 AATTCAATCAATA-TAAATTCAATA
1 AATTCAATCAATATTAAA-TCAATA
14561435 AATTC-ATCACATATTAAATCAAT
1 AATTCAATCA-ATATTAAATCAAT
14561458 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (24 bp):
AATTCAATCAATATTAAATCAATA
Found at i:14566600 original size:25 final size:25
Alignment explanation
Indices: 14566524--14566639 Score: 87
Period size: 25 Copynumber: 4.7 Consensus size: 25
14566514 CACACCACAA
* * **
14566524 CTCTTATGAGCATCCCGATATTTAG
1 CTCTCATGAGCTTCCCGATATACAG
*
14566549 CTCTCACGAGCTT-CCGAT-TA-ATGG
1 CTCTCATGAGCTTCCCGATATACA--G
*
14566573 CTCTTATGAGCTTCCCGATATACAG
1 CTCTCATGAGCTTCCCGATATACAG
* * *
14566598 CTC-GATTGAGCTTCCTGTTATACAG
1 CTCTCA-TGAGCTTCCCGATATACAG
*
14566623 CTCACATGAGCTTCCCG
1 CTCTCATGAGCTTCCCG
14566640 TTACATGGCT
Statistics
Matches: 73, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 18 0.25
25 49 0.67
26 3 0.04
27 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (25 bp):
CTCTCATGAGCTTCCCGATATACAG
Found at i:14566650 original size:25 final size:25
Alignment explanation
Indices: 14566556--14566672 Score: 71
Period size: 25 Copynumber: 4.7 Consensus size: 25
14566546 TAGCTCTCAC
**
14566556 GAGCTT-CCGATTA-ATGGCTCTTAT
1 GAGCTTCCCG-TTACATGGCTCAAAT
* *
14566580 GAGCTTCCCGATATACA--GCTCGATT
1 GAGCTTCCCG-T-TACATGGCTCAAAT
* * ** *
14566605 GAGCTTCCTGTTATACAGCTCACAT
1 GAGCTTCCCGTTACATGGCTCAAAT
*
14566630 GAGCTTCCCGTTACATGGCTCAAAA
1 GAGCTTCCCGTTACATGGCTCAAAT
*
14566655 GAGTTTCCCGTGTACATG
1 GAGCTTCCCGT-TACATG
14566673 CTCGTATAAG
Statistics
Matches: 72, Mismatches: 15, Indels: 10
0.74 0.15 0.10
Matches are distributed among these distances:
23 3 0.04
24 7 0.10
25 53 0.74
26 8 0.11
27 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCGTTACATGGCTCAAAT
Found at i:14569560 original size:25 final size:25
Alignment explanation
Indices: 14569509--14569564 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
14569499 ACTTTAGCGC
* * ***
14569509 GCTCTCTTATTATTAGCACGTTGGT
1 GCTCTCTGATTACTAGCACGACAGT
14569534 GCTCTCTGATTACTAGCACGACAGT
1 GCTCTCTGATTACTAGCACGACAGT
14569559 GCTCTC
1 GCTCTC
14569565 CGTTTAGCAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.36
Consensus pattern (25 bp):
GCTCTCTGATTACTAGCACGACAGT
Found at i:14578202 original size:5 final size:5
Alignment explanation
Indices: 14578192--14578218 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
14578182 GGTTGATGGA
14578192 ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT AT
14578219 CCAGGTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:14580137 original size:3 final size:3
Alignment explanation
Indices: 14580129--14580160 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
14580119 TTTCAGTTTT
*
14580129 TTC TTC TTC CTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
14580161 GTCACTCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:14580743 original size:40 final size:40
Alignment explanation
Indices: 14580688--14580763 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
14580678 CCAAAAATAC
14580688 ATAGCATATTGACATGTGATTTTGCAATTTCTAAATGTAT
1 ATAGCATATTGACATGTGATTTTGCAATTTCTAAATGTAT
*
14580728 ATAGCATATTGACATGTTATTTTGCAATTTCTAAAT
1 ATAGCATATTGACATGTGATTTTGCAATTTCTAAAT
14580764 TGTAGGATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (40 bp):
ATAGCATATTGACATGTGATTTTGCAATTTCTAAATGTAT
Found at i:14585192 original size:3 final size:3
Alignment explanation
Indices: 14585184--14585212 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14585174 TTTTATAGAA
14585184 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
14585213 AAAGGGGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:14587889 original size:16 final size:16
Alignment explanation
Indices: 14587853--14587889 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
14587843 TAAATAAATT
14587853 ATTATTTTATTTAAAA
1 ATTATTTTATTTAAAA
14587869 A-TATTTT-TTTAATAA
1 ATTATTTTATTTAA-AA
14587884 ATTATT
1 ATTATT
14587890 AATTTAGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.26
15 9 0.47
16 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATTTTATTTAAAA
Found at i:14589357 original size:6 final size:6
Alignment explanation
Indices: 14589346--14589372 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
14589336 CGGCCACGAG
14589346 TCAGGC TCAGGC TCAGGC TCAGGC TCA
1 TCAGGC TCAGGC TCAGGC TCAGGC TCA
14589373 AGCCGGCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.33, G:0.30, T:0.19
Consensus pattern (6 bp):
TCAGGC
Found at i:14605742 original size:7 final size:7
Alignment explanation
Indices: 14605730--14605754 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14605720 ACGAAAGGCG
14605730 CCTGTAA
1 CCTGTAA
14605737 CCTGTAA
1 CCTGTAA
14605744 CCTGTAA
1 CCTGTAA
14605751 CCTG
1 CCTG
14605755 AAAGGTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (7 bp):
CCTGTAA
Found at i:14607389 original size:15 final size:16
Alignment explanation
Indices: 14607371--14607408 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
14607361 ATTCCCAGCC
14607371 ATCATATTCCAT-CGA
1 ATCATATTCCATACGA
* *
14607386 ATCACATTCCATAGGA
1 ATCATATTCCATACGA
14607402 ATCATAT
1 ATCATAT
14607409 CATGGAAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.32
Consensus pattern (16 bp):
ATCATATTCCATACGA
Found at i:14608576 original size:6 final size:6
Alignment explanation
Indices: 14608567--14608596 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
14608557 ATGTAGATTA
*
14608567 GGTTTG GGTTTT GGTTTT GGTTTT GGTTTT
1 GGTTTT GGTTTT GGTTTT GGTTTT GGTTTT
14608597 ATCACAGAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.37, T:0.63
Consensus pattern (6 bp):
GGTTTT
Found at i:14624898 original size:31 final size:30
Alignment explanation
Indices: 14624863--14624924 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
14624853 ATTAGGGGGT
* *
14624863 TGGGAGAGGAGTAAAAGTTTTGTGGGGAAAG
1 TGGGA-AGGAGTAAAAGTTTTGAGGGAAAAG
*
14624894 TGGGAATGAGTAAAAGTTTTGAGGGAAAAG
1 TGGGAAGGAGTAAAAGTTTTGAGGGAAAAG
14624924 T
1 T
14624925 ACAAAAGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.35, C:0.00, G:0.40, T:0.24
Consensus pattern (30 bp):
TGGGAAGGAGTAAAAGTTTTGAGGGAAAAG
Found at i:14626245 original size:24 final size:24
Alignment explanation
Indices: 14626190--14626267 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
14626180 CCGGGCTTAA
* *
14626190 TAACGAGAAGCTCACAACGAGC-CTA
1 TAACAAGAAGCTC-CAA-GAGCACTT
* *
14626215 TATCAAGTAGCTCCAAAGAGCAC-T
1 TAACAAGAAGCTCC-AAGAGCACTT
* *
14626239 TAACAAGAAGCTTCGAGAGCACTT
1 TAACAAGAAGCTCCAAGAGCACTT
14626263 TAACA
1 TAACA
14626268 GACAGCACCG
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
23 7 0.17
24 22 0.52
25 13 0.31
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (24 bp):
TAACAAGAAGCTCCAAGAGCACTT
Found at i:14631346 original size:29 final size:30
Alignment explanation
Indices: 14631287--14631344 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
14631277 TCTGAGCCTT
*
14631287 GGGGCAAAAATGTAATTATGCAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
*
14631317 GGGGC-AAAATCGTAATTTTGAAAAAGTT
1 GGGGCAAAAAT-GTAATTATGAAAAAGTT
14631345 AGAGTCAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:14631758 original size:50 final size:50
Alignment explanation
Indices: 14631683--14631973 Score: 411
Period size: 50 Copynumber: 5.8 Consensus size: 50
14631673 TTGGGTAAAA
* *
14631683 AGGTCCCATGTAAGACCATGCCTGGGACATGGCATTGGCACCGAGATGAG
1 AGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG
* *
14631733 AGGTCCCATATAAGACCATGTCTGGGACATGACATTGGCACCGAGATGAT
1 AGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG
* *
14631783 AGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAG
1 AGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG
* *
14631833 AGGTCCCATATAAGACCATGTCTGGGACATAGCGTTGGCACCGAGATGAG
1 AGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG
*** * *
14631883 AGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGACATGAG
1 AGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG
** * * *
14631933 TACATCCCATGTAAGACCATGTCTGGGACATGACTTTGGCA
1 -AGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCA
14631974 AGTTATGATC
Statistics
Matches: 214, Mismatches: 26, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
50 181 0.85
51 33 0.15
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG
Found at i:14633678 original size:11 final size:11
Alignment explanation
Indices: 14633662--14633691 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
14633652 TTCAATTCAA
14633662 ATAATCAATAT
1 ATAATCAATAT
14633673 ATAATCAATAT
1 ATAATCAATAT
14633684 ATATATCA
1 ATA-ATCA
14633692 TTTCAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAATCAATAT
Found at i:14642182 original size:44 final size:44
Alignment explanation
Indices: 14642109--14642241 Score: 200
Period size: 44 Copynumber: 3.0 Consensus size: 44
14642099 ATCCCGTCTT
*
14642109 TGTAA-CTTAACCATGA-TTACGTAACAACTAACGGAGCCCATTAC
1 TGTAATCTTAACCGT-ATTTACGT-ACAACTAACGGAGCCCATTAC
14642153 TGTAATCTTAACCGTATTTACGTACAACTAACGGAGCCCATTAC
1 TGTAATCTTAACCGTATTTACGTACAACTAACGGAGCCCATTAC
* *
14642197 TGTAATCTCAACCGTATTTAC-TAAAACTAACGGAGCCCATTAC
1 TGTAATCTTAACCGTATTTACGTACAACTAACGGAGCCCATTAC
14642240 TG
1 TG
14642242 ATTTTAACAG
Statistics
Matches: 84, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
43 23 0.27
44 47 0.56
45 14 0.17
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.28
Consensus pattern (44 bp):
TGTAATCTTAACCGTATTTACGTACAACTAACGGAGCCCATTAC
Found at i:14654150 original size:31 final size:31
Alignment explanation
Indices: 14654115--14654190 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 31
14654105 AACAAAATTA
* ** *
14654115 AATAGTTGGATGATCAAAGTAGAAATTTACT
1 AATAGTTGGATGACCAAAAAAGAAACTTACT
* *
14654146 AATAGTTAGATAACCAAAAAAGAAACTTACT
1 AATAGTTGGATGACCAAAAAAGAAACTTACT
* *
14654177 AGTAATTGGATGAC
1 AATAGTTGGATGAC
14654191 TACTAATGCG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.28
Consensus pattern (31 bp):
AATAGTTGGATGACCAAAAAAGAAACTTACT
Found at i:14659106 original size:19 final size:21
Alignment explanation
Indices: 14659082--14659124 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
14659072 GCACCTAGGA
14659082 TGATTGT-TTTGA-CATGTTT
1 TGATTGTATTTGATCATGTTT
*
14659101 TGATTGTATTTGATCGTGTTT
1 TGATTGTATTTGATCATGTTT
14659122 TGA
1 TGA
14659125 ACTGGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 9 0.43
ACGTcount: A:0.16, C:0.05, G:0.23, T:0.56
Consensus pattern (21 bp):
TGATTGTATTTGATCATGTTT
Found at i:14660691 original size:21 final size:21
Alignment explanation
Indices: 14660661--14660700 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
14660651 AATAAATACC
*
14660661 AAAAATTTATTTTAAAAATTT
1 AAAAAATTATTTTAAAAATTT
14660682 AAAAAATTATTTTAAAAAT
1 AAAAAATTATTTTAAAAAT
14660701 ATTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAAAATTATTTTAAAAATTT
Found at i:14660703 original size:11 final size:11
Alignment explanation
Indices: 14660668--14660783 Score: 79
Period size: 11 Copynumber: 10.9 Consensus size: 11
14660658 ACCAAAAATT
14660668 TATTTT-AAAA
1 TATTTTAAAAA
*
14660678 -ATTTAAAAAA
1 TATTTTAAAAA
14660688 TTATTTTAAAAA
1 -TATTTTAAAAA
14660700 TATTTT--AAA
1 TATTTTAAAAA
14660709 -A--TTAAAAA
1 TATTTTAAAAA
* **
14660717 -AATAAAAAAA
1 TATTTTAAAAA
14660727 GTATTTTAAAAA
1 -TATTTTAAAAA
14660739 TATTTTAAAAA
1 TATTTTAAAAA
14660750 -ATTTTAAAAAAA
1 TATTTT--AAAAA
*
14660762 GTATTTTAAAAG
1 -TATTTTAAAAA
14660774 TATTTTAAAA
1 TATTTTAAAA
14660784 TTAAAAAAAT
Statistics
Matches: 85, Mismatches: 8, Indels: 25
0.72 0.07 0.21
Matches are distributed among these distances:
6 2 0.02
8 5 0.06
9 7 0.08
10 14 0.16
11 27 0.32
12 25 0.29
14 5 0.06
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:14660771 original size:74 final size:71
Alignment explanation
Indices: 14660668--14660805 Score: 222
Period size: 74 Copynumber: 1.9 Consensus size: 71
14660658 ACCAAAAATT
*
14660668 TATTTTAAAAATTTAAAAAATTATTTTAAAAATATTTTAAAATTAAAAAAATAAAAAAAGTATTT
1 TATTTTAAAAATTTAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATAAAAAAAGTATTT
14660733 TAAAAA
66 TAAAAA
* *
14660739 TATTTTAAAAAATTTTAAAAAAAGTATTTTAAAAGTATTTTAAAATTAAAAAAATAAAAAAATTA
1 TATTTT-AAAAA-TTT-AAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATAAAAAAAGTA
14660804 TT
63 TT
14660806 ATATTCGGGC
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
71 6 0.10
72 5 0.08
73 3 0.05
74 47 0.77
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.38
Consensus pattern (71 bp):
TATTTTAAAAATTTAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATAAAAAAAGTATTT
TAAAAA
Found at i:14665638 original size:29 final size:30
Alignment explanation
Indices: 14665585--14665643 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
14665575 TAGGTTGACA
*
14665585 TAATATAGAAACAAATAATTATA-TTATTT
1 TAATATAAAAACAAATAATTATATTTATTT
*
14665614 TAATATAAAAATAAATAAATT-TATTTATTT
1 TAATATAAAAACAAAT-AATTATATTTATTT
14665644 AAACATGTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (30 bp):
TAATATAAAAACAAATAATTATATTTATTT
Found at i:14676415 original size:26 final size:26
Alignment explanation
Indices: 14676379--14676453 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
14676369 GAAGCTTCTG
*
14676379 AGAGCCATTAATTAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* * *
14676405 AGAGCCTTTAATCGGGAAGCTCACGA
1 AGAGCCATTAATCAGGAAGCTCACAA
*
14676431 AGAGCCATATAA-CAGGATGCTCA
1 AGAGCCAT-TAATCAGGAAGCTCA
14676454 TAAGAGCTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 38 0.93
27 3 0.07
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:14684509 original size:14 final size:14
Alignment explanation
Indices: 14684490--14684517 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14684480 GGGTTTGCTG
14684490 TTTTCATTCTCATA
1 TTTTCATTCTCATA
14684504 TTTTCATTCTCATA
1 TTTTCATTCTCATA
14684518 GTTGACGCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTCATTCTCATA
Found at i:14686532 original size:13 final size:13
Alignment explanation
Indices: 14686499--14686525 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14686489 CCAGTCAATC
14686499 ATTCAAAGCATAA
1 ATTCAAAGCATAA
14686512 ATTCAAAGCATAA
1 ATTCAAAGCATAA
14686525 A
1 A
14686526 GTTAAAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.15, G:0.07, T:0.22
Consensus pattern (13 bp):
ATTCAAAGCATAA
Found at i:14687296 original size:22 final size:22
Alignment explanation
Indices: 14687265--14687313 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
14687255 TTCTTAGTAG
14687265 TTGAAACAGCTGGTTCGA-CTAA
1 TTGAAACAGCTGGTTCGATC-AA
*
14687287 TTGAATCAGCTGGTTCGATCAA
1 TTGAAACAGCTGGTTCGATCAA
14687309 TTGAA
1 TTGAA
14687314 CCGGTTGAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (22 bp):
TTGAAACAGCTGGTTCGATCAA
Found at i:14694555 original size:23 final size:23
Alignment explanation
Indices: 14694520--14694565 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
14694510 TTACTTTTTC
*
14694520 ATTTTTTAAATTGAGTTTTAATT
1 ATTTTTTAAATTGAGTTTCAATT
** *
14694543 ATTTTTTGGATTGCGTTTCAATT
1 ATTTTTTAAATTGAGTTTCAATT
14694566 CAGACACTCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.04, G:0.13, T:0.59
Consensus pattern (23 bp):
ATTTTTTAAATTGAGTTTCAATT
Found at i:14702869 original size:2 final size:2
Alignment explanation
Indices: 14702862--14702891 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14702852 CTCCCCACTT
14702862 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
14702892 GCTGCGTGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:14716846 original size:2 final size:2
Alignment explanation
Indices: 14716839--14716866 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14716829 ACTTTCTTTA
14716839 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
14716867 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:14734158 original size:51 final size:51
Alignment explanation
Indices: 14734086--14734191 Score: 126
Period size: 51 Copynumber: 2.1 Consensus size: 51
14734076 TTTCCTCTCA
* * *
14734086 ATTTCATCTGAATTTGTTCTCAAATT-CT-TTCCAAATTTCTCTCAAATCCAT
1 ATTTAATCTCAATTTGCTCTCAAATTCCTCTT--AAATTTCTCTCAAATCCAT
* * *
14734137 ATTTAATCTCAATTTGCTCTCAATTTCCTCTTAAATTTCTCTTAAATCCCT
1 ATTTAATCTCAATTTGCTCTCAAATTCCTCTTAAATTTCTCTCAAATCCAT
14734188 ATTT
1 ATTT
14734192 TTAAATAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
51 43 0.91
52 2 0.04
53 2 0.04
ACGTcount: A:0.26, C:0.24, G:0.03, T:0.47
Consensus pattern (51 bp):
ATTTAATCTCAATTTGCTCTCAAATTCCTCTTAAATTTCTCTCAAATCCAT
Found at i:14736492 original size:125 final size:125
Alignment explanation
Indices: 14736294--14736761 Score: 735
Period size: 125 Copynumber: 3.8 Consensus size: 125
14736284 TACTATTTGC
* * *
14736294 TCAACTCGAAATTATTTTTTCCAAGACCTACTGTAGCAAAACCGCGTCCACGAGGGCGCGATTTC
1 TCAACTCGAAATTATTTTTTCCAGGACCTACTGTAGCAAAAGCGCGTACACGAGGGCGCGATTTC
*
14736359 ACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTTATACTATTTGCTTAGAAACG
66 ACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCG-TTTTTATACTATTTGCTCAGAAACG
* * * * *
14736420 TCAACCCGAAATTA-TTTTTGCATGACCTACTGTAGCAAAAGTGCGTACACGTGGGCGCGATTTC
1 TCAACTCGAAATTATTTTTTCCAGGACCTACTGTAGCAAAAGCGCGTACACGAGGGCGCGATTTC
* * *
14736484 ACAAATTCTTCTGATAAAGCATCCTGCTTGAAGCATTTTTATACTATTTGCTCAAAAACG
66 ACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTATACTATTTGCTCAGAAACG
* *
14736544 TCAACTCGAAATTATTTTTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTC
1 TCAACTCGAAATTATTTTTTCCAGGACCTACTGTAGCAAAAGCGCGTACACGAGGGCGCGATTTC
14736609 ACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTATACTATTTGCTCAGAAACG
66 ACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTATACTATTTGCTCAGAAACG
* *
14736669 TCAACTCGAAATTA-TTTTTGCAGGACCTACTGTAGCAAAAGCGCGTACAC-ATGGGCGCGACTT
1 TCAACTCGAAATTATTTTTTCCAGGACCTACTGTAGCAAAAGCGCGTACACGA-GGGCGCGATTT
* *
14736732 CAGAAATTCTTCTGATAAAGCATCCTGCTT
65 CACAAATTCTTCTCATAAAGCATCCTGCTT
14736762 TGATTTTATT
Statistics
Matches: 313, Mismatches: 27, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
123 1 0.00
124 107 0.34
125 192 0.61
126 13 0.04
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (125 bp):
TCAACTCGAAATTATTTTTTCCAGGACCTACTGTAGCAAAAGCGCGTACACGAGGGCGCGATTTC
ACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTATACTATTTGCTCAGAAACG
Found at i:14736756 original size:249 final size:241
Alignment explanation
Indices: 14736205--14736761 Score: 909
Period size: 249 Copynumber: 2.3 Consensus size: 241
14736195 CCCAAACATG
* *
14736205 CTACTGTAGCAAAAGCGCATCCACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGC
*
14736270 TTGAAGCGTTTTTATACTATTTGCTCAACTCGAAATTATTTTTTCCAAGACCTACTGTAGCAAAA
66 TTGAAGCATTTTTATACTATTTGCTCAACTCGAAATTATTTTTTCCAAGACCTACTGTAGCAAAA
*
14736335 CCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTT
131 CCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTT
* *
14736400 ATACTATTTGCTTAGAAACGTCAACCCGAAATTATTTTTGCATGAC
196 ATACTATTTGCTCAGAAACGTCAACCCGAAATTATTTTTGCAGGAC
*
14736446 CTACTGTAGCAAAAGTGCGTACACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGC
*
14736511 TTGAAGCATTTTTATACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTTCCAGGACCTACT
66 TTGAAGCATTTTTATACTATTTG--------C-TCAACTCGAAATTATTTTTTCCAAGACCTACT
*
14736576 GTAGCAAAAGCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAA
122 GTAGCAAAACCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAA
*
14736641 GCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTGCAGGAC
187 GCGTTTTTTATACTATTTGCTCAGAAACGTCAACCCGAAATTATTTTTGCAGGAC
* * *
14736695 CTACTGTAGCAAAAGCGCGTACACATGGGCGCGACTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGC
14736760 TT
66 TT
14736762 TGATTTTATT
Statistics
Matches: 293, Mismatches: 14, Indels: 10
0.92 0.04 0.03
Matches are distributed among these distances:
241 84 0.29
249 112 0.38
250 97 0.33
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (241 bp):
CTACTGTAGCAAAAGCGCGTACACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCATTTTTATACTATTTGCTCAACTCGAAATTATTTTTTCCAAGACCTACTGTAGCAAAA
CCGCGTCCACGAGGGCGCAATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGAAGCGTTTTTT
ATACTATTTGCTCAGAAACGTCAACCCGAAATTATTTTTGCAGGAC
Found at i:14749554 original size:19 final size:19
Alignment explanation
Indices: 14749511--14749555 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
14749501 ATTTAAAAAT
*
14749511 AAAAAAAATATAAACTATT
1 AAAAAAAATATAAACTATA
** *
14749530 TTAAAAAATATAAATTATA
1 AAAAAAAATATAAACTATA
14749549 AAAAAAA
1 AAAAAAA
14749556 TATTTTAAAA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAAAAATATAAACTATA
Found at i:14752995 original size:21 final size:21
Alignment explanation
Indices: 14752969--14753138 Score: 94
Period size: 21 Copynumber: 8.2 Consensus size: 21
14752959 CGTGTTTACT
*
14752969 TTCTGTTTAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTATGAGC
* * *
14752990 TTCTGTTCAACTCATATGAGT
1 TTCTGTTCAGCTCTTATGAGC
* * *
14753011 TTCCGTTCAGCTATTTTGAGC
1 TTCTGTTCAGCTCTTATGAGC
* * * * *
14753032 TTCTGTTTAACCCTCATGAGT
1 TTCTGTTCAGCTCTTATGAGC
* *
14753053 TTCCGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTATGAGC
* * * *
14753074 TTCCGTTCAACCCTTATTG-GT
1 TTCTGTTCAGCTCTTA-TGAGC
* * **
14753095 TTCTGTTTAGCCCACATGAGC
1 TTCTGTTCAGCTCTTATGAGC
* *
14753116 TTTTGTTCAGC-CTT-TGGGC
1 TTCTGTTCAGCTCTTATGAGC
14753135 TTCT
1 TTCT
14753139 AAAAATGATG
Statistics
Matches: 106, Mismatches: 41, Indels: 6
0.69 0.27 0.04
Matches are distributed among these distances:
19 7 0.07
20 3 0.03
21 95 0.90
22 1 0.01
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.42
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTATGAGC
Found at i:14753097 original size:42 final size:42
Alignment explanation
Indices: 14752968--14753090 Score: 156
Period size: 42 Copynumber: 2.9 Consensus size: 42
14752958 TCGTGTTTAC
* * * *
14752968 TTTCTGTTTAGCTCTTATGAGCTTCTGTTCAACTCATATGAG
1 TTTCCGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGAG
* * * *
14753010 TTTCCGTTCAGCTATTTTGAGCTTCTGTTTAACCCTCATGAG
1 TTTCCGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGAG
* *
14753052 TTTCCGTTCAGCTCTTACGAGCTTCCGTTCAACCCTTAT
1 TTTCCGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTAT
14753091 TGGTTTCTGT
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.17, C:0.25, G:0.15, T:0.42
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGAG
Found at i:14753124 original size:63 final size:63
Alignment explanation
Indices: 14752968--14753126 Score: 160
Period size: 63 Copynumber: 2.5 Consensus size: 63
14752958 TCGTGTTTAC
* * * * * * * *
14752968 TTTCTGTTTAGCTCTTATGAGCTTCTGTTCAACTCATATGAGTTTCCGTTCAGCTATTTTGAG
1 TTTCTGTTTAGCCCTCATGAGCTTTTGTTCAGCTCATACGAGCTTCCGTTCAACCATTTTGAG
* * * * *
14753031 CTTCTGTTTAACCCTCATGAG-TTTCCGTTCAGCTCTTACGAGCTTCCGTTCAACCCTTATTG-G
1 TTTCTGTTTAGCCCTCATGAGCTTT-TGTTCAGCTCATACGAGCTTCCGTTCAACCATT-TTGAG
*
14753094 TTTCTGTTTAGCCCACATGAGCTTTTGTTCAGC
1 TTTCTGTTTAGCCCTCATGAGCTTTTGTTCAGC
14753127 CTTTGGGCTT
Statistics
Matches: 76, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
62 2 0.03
63 68 0.89
64 6 0.08
ACGTcount: A:0.16, C:0.25, G:0.17, T:0.42
Consensus pattern (63 bp):
TTTCTGTTTAGCCCTCATGAGCTTTTGTTCAGCTCATACGAGCTTCCGTTCAACCATTTTGAG
Found at i:14754887 original size:21 final size:21
Alignment explanation
Indices: 14754847--14754956 Score: 125
Period size: 21 Copynumber: 5.3 Consensus size: 21
14754837 TGAATACGCC
14754847 AACAGAAGCTC--AAAAGCTG
1 AACAGAAGCTCATAAAAGCTG
* *
14754866 AATAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCATAAAAGCTG
* * *
14754887 AATAGAAGCTCGTAAAAGCTA
1 AACAGAAGCTCATAAAAGCTG
* *
14754908 AACAGAAGCTCATAAGAGTTG
1 AACAGAAGCTCATAAAAGCTG
* *
14754929 AACAGAAGCTCGTAAAAGCTA
1 AACAGAAGCTCATAAAAGCTG
14754950 AACAGAA
1 AACAGAA
14754957 AGTAAAACAC
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
19 10 0.13
21 65 0.87
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCATAAAAGCTG
Found at i:14754915 original size:42 final size:42
Alignment explanation
Indices: 14754847--14754956 Score: 170
Period size: 42 Copynumber: 2.7 Consensus size: 42
14754837 TGAATACGCC
* *
14754847 AACAGAAGCTC--AAAAGCTGAATAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCGTAAAAGCTAAACAGAAGCTCATAAGAGCTG
* *
14754887 AATAGAAGCTCGTAAAAGCTAAACAGAAGCTCATAAGAGTTG
1 AACAGAAGCTCGTAAAAGCTAAACAGAAGCTCATAAGAGCTG
14754929 AACAGAAGCTCGTAAAAGCTAAACAGAA
1 AACAGAAGCTCGTAAAAGCTAAACAGAA
14754957 AGTAAAACAC
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 10 0.16
42 53 0.84
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.15
Consensus pattern (42 bp):
AACAGAAGCTCGTAAAAGCTAAACAGAAGCTCATAAGAGCTG
Found at i:14760022 original size:12 final size:12
Alignment explanation
Indices: 14759977--14760089 Score: 56
Period size: 12 Copynumber: 9.4 Consensus size: 12
14759967 TGGTGGGTGT
14759977 GTTGGTGGCTTG
1 GTTGGTGGCTTG
*
14759989 GTCGG-GGAC-TG
1 GTTGGTGG-CTTG
*
14760000 AGTTGGAGGCTTG
1 -GTTGGTGGCTTG
*
14760013 GTTGGTGGCTTA
1 GTTGGTGGCTTG
*
14760025 GTTGGGGGC-TG
1 GTTGGTGGCTTG
*
14760036 AGTTGGTGGTTTAG
1 -GTTGGTGGCTT-G
* *
14760050 G-CGG-GGGTTG
1 GTTGGTGGCTTG
* *
14760060 AGTTGGAGGTTTG
1 -GTTGGTGGCTTG
*
14760073 GTTGGTGGCTTA
1 GTTGGTGGCTTG
14760085 GTTGG
1 GTTGG
14760090 AGGTTGAACT
Statistics
Matches: 76, Mismatches: 15, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
10 1 0.01
11 10 0.13
12 53 0.70
13 11 0.14
14 1 0.01
ACGTcount: A:0.08, C:0.07, G:0.50, T:0.35
Consensus pattern (12 bp):
GTTGGTGGCTTG
Found at i:14760027 original size:24 final size:24
Alignment explanation
Indices: 14759977--14760049 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
14759967 TGGTGGGTGT
* * *
14759977 GTTGGTGGCTTGGTCGG-GGACTGA
1 GTTGGAGGCTTGGTTGGTGG-CTTA
14760001 GTTGGAGGCTTGGTTGGTGGCTTA
1 GTTGGAGGCTTGGTTGGTGGCTTA
* *
14760025 GTTGGGGGC-TGAGTTGGTGGTTTA
1 GTTGGAGGCTTG-GTTGGTGGCTTA
14760049 G
1 G
14760050 GCGGGGGTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 2 0.05
24 38 0.90
25 2 0.05
ACGTcount: A:0.08, C:0.08, G:0.49, T:0.34
Consensus pattern (24 bp):
GTTGGAGGCTTGGTTGGTGGCTTA
Found at i:14760055 original size:24 final size:24
Alignment explanation
Indices: 14760013--14760071 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
14760003 TGGAGGCTTG
* **
14760013 GTTGGTGGCTTAGTTGGGGGCTGA
1 GTTGGTGGTTTAGGCGGGGGCTGA
*
14760037 GTTGGTGGTTTAGGCGGGGGTTGA
1 GTTGGTGGTTTAGGCGGGGGCTGA
*
14760061 GTTGGAGGTTT
1 GTTGGTGGTTT
14760072 GGTTGGTGGC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.08, C:0.05, G:0.51, T:0.36
Consensus pattern (24 bp):
GTTGGTGGTTTAGGCGGGGGCTGA
Found at i:14760055 original size:60 final size:60
Alignment explanation
Indices: 14759977--14760139 Score: 181
Period size: 60 Copynumber: 2.7 Consensus size: 60
14759967 TGGTGGGTGT
14759977 GTTGGTGGCTTGGTCGGGGACTGAGTTGGAGGCTTGGTTGGTGGCTTAGTTGGGGGCTGA
1 GTTGGTGGCTTGGTCGGGGACTGAGTTGGAGGCTTGGTTGGTGGCTTAGTTGGGGGCTGA
* ** * * *
14760037 GTTGGTGGTTTAGG-CGGGGGTTGAGTTGGAGGTTTGGTTGGTGGCTTAGTTGGAGGTTGA
1 GTTGGTGGCTT-GGTCGGGGACTGAGTTGGAGGCTTGGTTGGTGGCTTAGTTGGGGGCTGA
** * *
14760097 ACTGGTGGCTTGG--GTGGAGCAGAAGTTGG-GGCTTGGTTGGTGG
1 GTTGGTGGCTTGGTCGGGGA-CTG-AGTTGGAGGCTTGGTTGGTGG
14760140 TTGCACTGGC
Statistics
Matches: 86, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
58 3 0.03
59 16 0.19
60 65 0.76
61 2 0.02
ACGTcount: A:0.10, C:0.07, G:0.50, T:0.33
Consensus pattern (60 bp):
GTTGGTGGCTTGGTCGGGGACTGAGTTGGAGGCTTGGTTGGTGGCTTAGTTGGGGGCTGA
Found at i:14760114 original size:24 final size:24
Alignment explanation
Indices: 14760075--14760172 Score: 65
Period size: 24 Copynumber: 4.1 Consensus size: 24
14760065 GAGGTTTGGT
* *
14760075 TGGTGGCTTAGTTGGAGGTTGAAC
1 TGGTGGCTTGGGTGGAGGTTGAAC
** *
14760099 TGGTGGCTTGGGTGGA-GCAGAAGT
1 TGGTGGCTTGGGTGGAGGTTGAA-C
* * *
14760123 TGG-GGCTTGGTTGGTGGTTGCAC
1 TGGTGGCTTGGGTGGAGGTTGAAC
* * * *
14760146 TGGCGCCTTGGGTGGTGGATGAAC
1 TGGTGGCTTGGGTGGAGGTTGAAC
14760170 TGG
1 TGG
14760173 AGGAGGAGTG
Statistics
Matches: 56, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
23 17 0.30
24 39 0.70
ACGTcount: A:0.12, C:0.11, G:0.47, T:0.30
Consensus pattern (24 bp):
TGGTGGCTTGGGTGGAGGTTGAAC
Found at i:14760218 original size:6 final size:6
Alignment explanation
Indices: 14760207--14760232 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
14760197 AGTGGGTGGA
14760207 TGAGGG TGAGGG TGAGGG TGAGGG TG
1 TGAGGG TGAGGG TGAGGG TGAGGG TG
14760233 GTGGTGATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.65, T:0.19
Consensus pattern (6 bp):
TGAGGG
Found at i:14760238 original size:12 final size:12
Alignment explanation
Indices: 14760211--14760248 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
14760201 GGTGGATGAG
14760211 GGTGAGGGTGAG-
1 GGTGAGGGTG-GT
14760223 GGTGAGGGTGGT
1 GGTGAGGGTGGT
*
14760235 GGTGATGGTGGT
1 GGTGAGGGTGGT
14760247 GG
1 GG
14760249 GTTGGTGGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 1 0.04
12 23 0.96
ACGTcount: A:0.11, C:0.00, G:0.66, T:0.24
Consensus pattern (12 bp):
GGTGAGGGTGGT
Found at i:14766453 original size:18 final size:18
Alignment explanation
Indices: 14766430--14766471 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
14766420 AATAATTAAA
* *
14766430 TTTATTAGTATTTAAAAT
1 TTTATTACTATATAAAAT
14766448 TTTATT-CTATATAAAAT
1 TTTATTACTATATAAAAT
*
14766465 ATTATTA
1 TTTATTA
14766472 TGAGGTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
TTTATTACTATATAAAAT
Found at i:14767938 original size:22 final size:22
Alignment explanation
Indices: 14767887--14767938 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
14767877 TTTTATAGTT
*
14767887 ATAATTAAATATTTTTTATAACA
1 ATAA-TAAATATTATTTATAACA
* *
14767910 ATGATAAATATTATTT-TCACAA
1 ATAATAAATATTATTTATAAC-A
14767932 ATAATAA
1 ATAATAA
14767939 CATTATACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 3 0.12
22 18 0.75
23 3 0.12
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
ATAATAAATATTATTTATAACA
Found at i:14768593 original size:29 final size:30
Alignment explanation
Indices: 14768535--14768792 Score: 333
Period size: 29 Copynumber: 8.2 Consensus size: 30
14768525 GAATAAACCG
*
14768535 AATACAGTACATATATTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
14768565 AATACACTACATATA-TTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
14768594 AATACACTACATATATTTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
14768624 AATACACTACATATATACTACATATATATTTTTTATTTTTAA
1 AATACACTAC----ATA-T--AT-T-T-TTTT--ATTTTTAA
*
14768666 AAAACACTACATATA-TTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
14768695 AATACACTACATATATTTTTTTTTATTTTTAA
1 AATACACTACATATA--TTTTTTTATTTTTAA
*
14768727 AATACACTACATATATTTCTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
*
14768757 AATACATTACATATA-TTTTTTATTTTTAA
1 AATACACTACATATATTTTTTTATTTTTAA
14768786 AATACAC
1 AATACAC
14768793 AAATACAATG
Statistics
Matches: 205, Mismatches: 7, Indels: 33
0.84 0.03 0.13
Matches are distributed among these distances:
29 70 0.34
30 66 0.32
31 4 0.02
32 30 0.15
33 1 0.00
34 3 0.01
35 2 0.01
37 3 0.01
38 4 0.02
39 1 0.00
40 4 0.02
42 17 0.08
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.51
Consensus pattern (30 bp):
AATACACTACATATATTTTTTTATTTTTAA
Found at i:14768646 original size:41 final size:42
Alignment explanation
Indices: 14768599--14768681 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
14768589 TTTAAAATAC
*
14768599 ACTACATATAT-TTTTTTATTTTTAAAATACACTACATATAT
1 ACTACATATATATTTTTTATTTTTAAAAAACACTACATATAT
14768640 ACTACATATATATTTTTTATTTTTAAAAAACACTACATATAT
1 ACTACATATATATTTTTTATTTTTAAAAAACACTACATATAT
14768682 TTTTTATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 11 0.28
42 29 0.73
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (42 bp):
ACTACATATATATTTTTTATTTTTAAAAAACACTACATATAT
Found at i:14768666 original size:101 final size:101
Alignment explanation
Indices: 14768542--14768742 Score: 368
Period size: 101 Copynumber: 2.0 Consensus size: 101
14768532 CCGAATACAG
*
14768542 TACATATATTTTTTTATTTTTAAAATACACTACATATATTTTTTATTTTTAAAATACACTACATA
1 TACATATATTTTTTTATTTTTAAAAAACACTACATATATTTTTTATTTTTAAAATACACTACATA
14768607 TA-TTTTTTTATTTTTAAAATACACTACATATATAC
66 TATTTTTTTTATTTTTAAAATACACTACATATATAC
14768642 TACATATATATTTTTTATTTTTAAAAAACACTACATATATTTTTTATTTTTAAAATACACTACAT
1 TACATATAT-TTTTTTATTTTTAAAAAACACTACATATATTTTTTATTTTTAAAATACACTACAT
14768707 ATATTTTTTTTTATTTTTAAAATACACTACATATAT
65 ATA-TTTTTTTTATTTTTAAAATACACTACATATAT
14768743 TTCTTTATTT
Statistics
Matches: 97, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
100 9 0.09
101 57 0.59
103 31 0.32
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.51
Consensus pattern (101 bp):
TACATATATTTTTTTATTTTTAAAAAACACTACATATATTTTTTATTTTTAAAATACACTACATA
TATTTTTTTTATTTTTAAAATACACTACATATATAC
Found at i:14768885 original size:43 final size:46
Alignment explanation
Indices: 14768838--14768964 Score: 188
Period size: 43 Copynumber: 2.8 Consensus size: 46
14768828 TTTCCATTGA
*
14768838 TTCCCCTCTTCCACCGTGCCTTCCTCCCATTTCCCATT-C-T-CAT
1 TTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCATCCAT
14768881 TTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCCATTCCCAT
1 TTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATT-CCA-T-CCAT
*
14768930 TTCCCCTTTTCCACCGTGCCCTCCTCCCATTTCCC
1 TTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCC
14768965 CTCTTCCGTC
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
43 37 0.49
45 1 0.01
47 1 0.01
49 37 0.49
ACGTcount: A:0.09, C:0.52, G:0.05, T:0.35
Consensus pattern (46 bp):
TTCCCCTCTTCCACCGTGCCCTCCTCCCATTTCCCATTCCATCCAT
Found at i:14775423 original size:46 final size:46
Alignment explanation
Indices: 14775367--14775503 Score: 238
Period size: 46 Copynumber: 3.0 Consensus size: 46
14775357 ACATTGCTAT
*
14775367 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
* *
14775413 AACTCGGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
*
14775459 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCA
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCA
14775504 TACTTTTCCA
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
Found at i:14776777 original size:16 final size:17
Alignment explanation
Indices: 14776731--14776778 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
14776721 AAATTCTTTT
14776731 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
14776748 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
14776765 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
14776779 TTATAAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:14780152 original size:24 final size:25
Alignment explanation
Indices: 14780116--14780182 Score: 93
Period size: 24 Copynumber: 2.7 Consensus size: 25
14780106 ATAATAAAAA
14780116 AATATGTTGAATAATAATAATACTTAT
1 AATAT-TT-AATAATAATAATACTTAT
*
14780143 -ATCTTTAATAAT-ATAATACTTAT
1 AATATTTAATAATAATAATACTTAT
14780166 AATATTTAATAATAATA
1 AATATTTAATAATAATA
14780183 CAATAATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
23 11 0.31
24 17 0.47
25 5 0.14
26 3 0.08
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (25 bp):
AATATTTAATAATAATAATACTTAT
Found at i:14780188 original size:21 final size:20
Alignment explanation
Indices: 14780127--14780190 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 20
14780117 ATATGTTGAA
* *
14780127 TAATAATAATACTTATATCTT
1 TAATAATAATACATA-ATATT
14780148 TAATAATATAATACTTATAATATT
1 TAAT-A-ATAATAC--ATAATATT
14780172 TAATAATAATACAATAATA
1 TAATAATAATAC-ATAATA
14780191 AAAATATGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
21 10 0.28
22 8 0.22
23 8 0.22
24 8 0.22
25 2 0.06
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATAATAATACATAATATT
Found at i:14784010 original size:29 final size:29
Alignment explanation
Indices: 14783976--14784033 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
14783966 CGATATTCCC
*
14783976 TACTCACCATAGCTATATTATTATTCGAT
1 TACTCACCATAGCTATACTATTATTCGAT
*
14784005 TACTCACCATAGTTATACTATTATTCGAT
1 TACTCACCATAGCTATACTATTATTCGAT
14784034 AAGTGCGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (29 bp):
TACTCACCATAGCTATACTATTATTCGAT
Done.