Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 55 of 113
Found at i:13915190 original size:31 final size:29
Alignment explanation
Indices: 13915113--13915198 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 29
13915103 TAACGAAATT
* *
13915113 AAAATTTAGATTAACATGATATATAATTTA
1 AAAATTTAGATTAA-ATTATATATTATTTA
*
13915143 AAATTTTAGATTTAAATTATATATTATTTA
1 AAAATTTAGA-TTAAATTATATATTATTTA
13915173 AAAATTTAGAATATAAATTATATATT
1 AAAATTTAG-AT-TAAATTATATATT
13915199 TTATTTATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
30 31 0.63
31 18 0.37
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.45
Consensus pattern (29 bp):
AAAATTTAGATTAAATTATATATTATTTA
Found at i:13915477 original size:23 final size:22
Alignment explanation
Indices: 13915451--13915494 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
13915441 AAATGATATA
13915451 TTTTACTTATTTTAAATATTAAT
1 TTTTACTTATTTTAAAT-TTAAT
* *
13915474 TTTTATTTTTTTTAAATTTAA
1 TTTTACTTATTTTAAATTTAA
13915495 GATATCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTTACTTATTTTAAATTTAAT
Found at i:13926129 original size:21 final size:20
Alignment explanation
Indices: 13926105--13926143 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
13926095 GAAAACCAAC
*
13926105 TTCAAGAAACAAACTAAGCTG
1 TTCAAAAAACAAA-TAAGCTG
*
13926126 TTCAAAAAACTAATAAGC
1 TTCAAAAAACAAATAAGC
13926144 AAAAGAAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.51, C:0.18, G:0.10, T:0.21
Consensus pattern (20 bp):
TTCAAAAAACAAATAAGCTG
Found at i:13930062 original size:15 final size:17
Alignment explanation
Indices: 13930042--13930075 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
13930032 TTTCTTTTTG
13930042 TTTTTAATT-C-CATAT
1 TTTTTAATTACACATAT
13930057 TTTTTAATTACACATAT
1 TTTTTAATTACACATAT
13930074 TT
1 TT
13930076 AAGTTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 1 0.06
17 7 0.41
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTTAATTACACATAT
Found at i:13930379 original size:10 final size:10
Alignment explanation
Indices: 13930366--13930407 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
13930356 TTTTTATTTC
13930366 TTTATTGTTT
1 TTTATTGTTT
13930376 TTTATTGTTT
1 TTTATTGTTT
* *
13930386 TTTCTTATTT
1 TTTATTGTTT
13930396 ATTTATT-TTT
1 -TTTATTGTTT
13930406 TT
1 TT
13930408 ATCAATGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 2 0.07
10 21 0.75
11 5 0.18
ACGTcount: A:0.12, C:0.02, G:0.05, T:0.81
Consensus pattern (10 bp):
TTTATTGTTT
Found at i:13946445 original size:160 final size:159
Alignment explanation
Indices: 13945915--13946834 Score: 611
Period size: 160 Copynumber: 5.8 Consensus size: 159
13945905 CATGGCAATC
* * * * * * *
13945915 AAGTTCAAACATTTAGATAAGTTTAATATCATGTATTTAAACTATCTAAACTATTAAAATAG-AA
1 AAGTTCAATCATTCATATAAGTTTAATATCATGTAATTAAGCTATCTAAACTGTTAAAACAGAAA
* * * * * * **
13945979 TAATAACTGTAAATTTGTATTTTTACCTTTTAACAACACAAAAAGTCTTAAATAGACATAAATGG
66 T-ATAACTGTAAATTTATATTTTTACCTTTTAACGACATAAAAAGTCCTAAACAAACATAAACAG
* * *
13946044 TAACTTTTCACACATATTAAT-T-ATAGAAACT
130 TAATTTTTCACACATATCAATCTGA-A-AAA-G
* * * * * * * * *
13946075 AAGTTCAATGATTCAGACAAGTTTAATAACATGT-ATTTAGCTATCCAAACTATTAAAA-TGGAA
1 AAGTTCAATCATTCATATAAGTTTAATATCATGTAATTAAGCTATCTAAACTGTTAAAACAGAAA
* ** * * * * * * * *
13946138 TAATAACTGCAAATTT-TCATTTTGGCCTTTTAATGGCACAAAAACTCTTAAATAGACATAAATA
66 T-ATAACTGTAAATTTAT-ATTTTTACCTTTTAACGACATAAAAAGTCCTAAACAAACATAAACA
** * * * * **
13946202 G-AA-ACTTCGCACATATAAATTGTGGAAATC
129 GTAATTTTTCACACATATCAA-TCTGAAAAAG
* * * * *
13946232 ATGTTTAATCATTCAGATAAGTTTAAGATCATGTATTTAAGCTATCTAAACTGTTAAAACAGAAA
1 AAGTTCAATCATTCATATAAGTTTAATATCATGTAATTAAGCTATCTAAACTGTTAAAACAGAAA
* *
13946297 TATAACTGTAAAATTATATTTTTATCC-TTTAACGACATAAAATGTCCTAAACAAACATAAACAG
66 TATAACTGTAAATTTATATTTTTA-CCTTTTAACGACATAAAAAGTCCTAAACAAACATAAACAG
13946361 TAATTTTTCACACATATCAACTCTGAAAAAG
130 TAATTTTTCACACATATCAA-TCTGAAAAAG
* * * * *
13946392 AA-TATCAATCATTCATATAAGTTTAATATCACGTAATTTAGTTATCCAAACTGTTAAAACA-TA
1 AAGT-TCAATCATTCATATAAGTTTAATATCATGTAATTAAGCTATCTAAACTGTTAAAACAGAA
* * * * * * *
13946455 ATAATAACTACT-AATTTGTATTTTTACCTTTTAACGTCACAAAAAGTACTAAATAGACATAAAC
65 AT-ATAACT-GTAAATTTATATTTTTACCTTTTAACGACATAAAAAGTCCTAAACAAACATAAAC
* * * * **
13946519 AGTAACTTTTCAAACATATCAATTGTGGAAACT
128 AGTAATTTTTCACACATATCAA-TCTGAAAAAG
* * * ** *
13946552 AAGTTCAATCATTCAAATAAATTTAATATCATGTAATGAAGCTATCTAAACTAATAAAATAGAAC
1 AAGTTCAATCATTCATATAAGTTTAATATCATGTAATTAAGCTATCTAAACTGTTAAAACAGAA-
* * * * ** * * * *
13946617 A-ATAACTGCAAACTCACATTTTTACCTTTTAACGGTATAAAAAGTCTTAAACAGATATATA-A-
65 ATATAACTGTAAATTTATATTTTTACCTTTTAACGACATAAAAAGTCCTAAACAAACATAAACAG
**
13946679 T--TTTGTTCACACATATCAATCGTGAAATTG
130 TAATTT-TTCACACATATCAATC-TGAAAAAG
* ** * * * * *
13946709 AAGTTCAATTATTTGGT-TGAGTTTAATATAATAT-ATTGAAGCTATATAAATTGTTAAAACAGA
1 AAGTTCAATCA-TTCATATAAGTTTAATATCATGTAATT-AAGCTATCTAAACTGTTAAAACAGA
* * * * * *
13946772 AAAATAATTATAAATTTATATTTTTACCCTTTAATGACAT-AAAAGTTCTAAACAAACATAAAC
64 AATATAACTGTAAATTTATATTTTTACCTTTTAACGACATAAAAAGTCCTAAACAAACATAAAC
13946835 TTTAAGTTTC
Statistics
Matches: 589, Mismatches: 146, Indels: 53
0.75 0.19 0.07
Matches are distributed among these distances:
156 23 0.04
157 128 0.22
158 75 0.13
159 95 0.16
160 264 0.45
161 3 0.01
162 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.34
Consensus pattern (159 bp):
AAGTTCAATCATTCATATAAGTTTAATATCATGTAATTAAGCTATCTAAACTGTTAAAACAGAAA
TATAACTGTAAATTTATATTTTTACCTTTTAACGACATAAAAAGTCCTAAACAAACATAAACAGT
AATTTTTCACACATATCAATCTGAAAAAG
Found at i:13946793 original size:477 final size:475
Alignment explanation
Indices: 13945931--13946834 Score: 1107
Period size: 477 Copynumber: 1.9 Consensus size: 475
13945921 AAACATTTAG
* * * *
13945931 ATAAGTTTAATATCATGTATTTAAACTATCTAAACTATTAAAATAGAATAATAACTGTAAATTTG
1 ATAAGTTTAATATCACGTATTTAAACTATCCAAACTATTAAAACAGAATAATAACTCTAAATTTG
** *
13945996 TATTTTTACCTTTTAACAACACAAAAAGTCTTAAATAGACATAAATGGTAACTTTTCACACATAT
66 TATTTTTACCTTTTAACAACACAAAAAGTCTTAAATAGACATAAACAGTAACTTTTCAAACATAT
* * * * **
13946061 TAATTATAGAAACTAAGTTCAATGATTCAGACAAGTTTAATAACATGTATTTAGCTATCCAAACT
131 CAATTATAGAAACTAAGTTCAATCATTCAAACAAATTTAATAACATGTATGAAGCTATCCAAACT
* * * * ** * * *
13946126 ATTAAAATGGAATAATAACTGCAAATTTTCATTTTGGCCTTTTAATGGCACAAAAACTCTTAAAT
196 AATAAAATAGAACAATAACTGCAAACTCACATTTTGACCTTTTAACGGCACAAAAACTCTTAAAC
* * * *
13946191 AGACATAAATAGAAACTTCGCACATATAAATTGTGGAAATCATGTTTAATCATTCAGATAAGTTT
261 AGACATAAATA-AAACTTCACACATATAAATCGTGGAAATCAAGTTCAATCATTCAGATAAGTTT
* * * * * *
13946256 AAGATCATGTATTTAAGCTATCTAAACTGTTAAAACAGAAATATAACTGTAAAATTATATTTTTA
325 AAGATAATATATTGAAGCTATATAAACTGTTAAAACAGAAAAATAACTATAAAATTATATTTTTA
*
13946321 TCCTTTAACGACATAAAATGTCCTAAACAAACATAAACAGTAATTTTTCACACATATCAACTCTG
390 CCCTTTAACGACATAAAA-GTCCTAAACAAACATAAACAGTAATTTTTCACACATATCAACTCTG
13946386 AAAAAGAATATCAATCATTCAT
454 AAAAAGAATATCAATCATTCAT
** * *
13946408 ATAAGTTTAATATCACGTAATTT-AGTTATCCAAACTGTTAAAACATAATAATAACTACT-AATT
1 ATAAGTTTAATATCACGT-ATTTAAACTATCCAAACTATTAAAACAGAATAATAACT-CTAAATT
**
13946471 TGTATTTTTACCTTTTAACGTCACAAAAAGTAC-TAAATAGACATAAACAGTAACTTTTCAAACA
64 TGTATTTTTACCTTTTAACAACACAAAAAGT-CTTAAATAGACATAAACAGTAACTTTTCAAACA
* * * * *
13946535 TATCAATTGTGGAAACTAAGTTCAATCATTCAAATAAATTTAATATCATGTAATGAAGCTATCTA
128 TATCAATTATAGAAACTAAGTTCAATCATTCAAACAAATTTAATAACATGT-ATGAAGCTATCCA
* * * *
13946600 AACTAATAAAATAGAACAATAACTGCAAACTCACATTTTTACCTTTTAACGGTATAAAAAGTCTT
192 AACTAATAAAATAGAACAATAACTGCAAACTCACATTTTGACCTTTTAACGGCACAAAAACTCTT
* **** * * * ** * *
13946665 AAACAGATATATAAT-TTTGTTCACACATATCAATCGT-GAAATTGAAGTTCAATTATTTGGTTG
257 AAACAGACATA-AATAAAACTTCACACATATAAATCGTGGAAA-TCAAGTTCAATCATTCAGATA
* * * *
13946728 AGTTTAATATAATATATTGAAGCTATATAAATTGTTAAAACAGAAAAATAATTATAAATTTATAT
320 AGTTTAAGATAATATATTGAAGCTATATAAACTGTTAAAACAGAAAAATAACTATAAAATTATAT
* *
13946793 TTTTACCCTTTAATGACATAAAAGTTCTAAACAAACATAAAC
385 TTTTACCCTTTAACGACATAAAAGTCCTAAACAAACATAAAC
13946835 TTTAAGTTTC
Statistics
Matches: 355, Mismatches: 66, Indels: 13
0.82 0.15 0.03
Matches are distributed among these distances:
476 22 0.06
477 252 0.71
478 78 0.22
479 3 0.01
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (475 bp):
ATAAGTTTAATATCACGTATTTAAACTATCCAAACTATTAAAACAGAATAATAACTCTAAATTTG
TATTTTTACCTTTTAACAACACAAAAAGTCTTAAATAGACATAAACAGTAACTTTTCAAACATAT
CAATTATAGAAACTAAGTTCAATCATTCAAACAAATTTAATAACATGTATGAAGCTATCCAAACT
AATAAAATAGAACAATAACTGCAAACTCACATTTTGACCTTTTAACGGCACAAAAACTCTTAAAC
AGACATAAATAAAACTTCACACATATAAATCGTGGAAATCAAGTTCAATCATTCAGATAAGTTTA
AGATAATATATTGAAGCTATATAAACTGTTAAAACAGAAAAATAACTATAAAATTATATTTTTAC
CCTTTAACGACATAAAAGTCCTAAACAAACATAAACAGTAATTTTTCACACATATCAACTCTGAA
AAAGAATATCAATCATTCAT
Found at i:13947418 original size:30 final size:30
Alignment explanation
Indices: 13947360--13947418 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
13947350 CCTCAATGAA
* * * **
13947360 ATTTATTTTTATTTAATTAAGCTTTTAAAC
1 ATTTATTTTCATATAATTAAACCCTTAAAC
13947390 ATTTATTTTCATATAATTAAACCCTTAAA
1 ATTTATTTTCATATAATTAAACCCTTAAA
13947419 TATCTATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (30 bp):
ATTTATTTTCATATAATTAAACCCTTAAAC
Found at i:13959360 original size:21 final size:21
Alignment explanation
Indices: 13959322--13959362 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13959312 AATCAAATAA
*
13959322 TATAAAAATTAAAGATAAATT
1 TATAAAAATTAAAAATAAATT
13959343 TATAAAAA-TAACAAATAAAT
1 TATAAAAATTAA-AAATAAAT
13959363 AAAAATAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (21 bp):
TATAAAAATTAAAAATAAATT
Found at i:13959783 original size:38 final size:40
Alignment explanation
Indices: 13959731--13959830 Score: 132
Period size: 40 Copynumber: 2.5 Consensus size: 40
13959721 GTTTTTTAAA
*
13959731 AATAGAGGCGCACAACTTTAAAAAT-AA-GGCTCCTCATC
1 AATAGAGGCACACAACTTTAAAAATAAAGGGCTCCTCATC
* * *
13959769 AATAGATGCACACAACTTTAAACATAAAGGGCTCTTCATC
1 AATAGAGGCACACAACTTTAAAAATAAAGGGCTCCTCATC
* *
13959809 AATAAAGGAACACAACTTTAAA
1 AATAGAGGCACACAACTTTAAA
13959831 TATTTAGAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
38 22 0.42
39 2 0.04
40 29 0.55
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.22
Consensus pattern (40 bp):
AATAGAGGCACACAACTTTAAAAATAAAGGGCTCCTCATC
Found at i:13960817 original size:17 final size:18
Alignment explanation
Indices: 13960795--13960831 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
13960785 TTCTCATTTT
13960795 TTTC-TTCTTTTTTTCCC
1 TTTCTTTCTTTTTTTCCC
*
13960812 TTTCTTTCTTTTTTTTCC
1 TTTCTTTCTTTTTTTCCC
13960830 TT
1 TT
13960832 ACACATCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCTTTCTTTTTTTCCC
Found at i:13960823 original size:28 final size:27
Alignment explanation
Indices: 13960761--13960827 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 27
13960751 AGCTTTTCTT
13960761 TTTCTTTTTTTTATTTTTATTCCTTTC
1 TTTCTTTTTTTTATTTTTATTCCTTTC
* *
13960788 TCATT-TTTTTCTTCTTTTT-TTCCCTTTC
1 T--TTCTTTTTTTTATTTTTATT-CCTTTC
13960816 TTTCTTTTTTTT
1 TTTCTTTTTTTT
13960828 CCTTACACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
26 2 0.06
27 10 0.30
28 19 0.58
29 2 0.06
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (27 bp):
TTTCTTTTTTTTATTTTTATTCCTTTC
Found at i:13961142 original size:16 final size:16
Alignment explanation
Indices: 13961123--13961194 Score: 65
Period size: 16 Copynumber: 4.3 Consensus size: 16
13961113 ACCCCATTAA
13961123 TTTTTTTCTTTTTCTT
1 TTTTTTTCTTTTTCTT
*
13961139 TTTTTTTCTTCTTCTT
1 TTTTTTTCTTTTTCTT
* *
13961155 CCTTTTATTTC-ATTCCTT
1 --TTTT-TTTCTTTTTCTT
*
13961173 TTTTTTTATTTTTCATT
1 TTTTTTTCTTTTTC-TT
13961190 TTTTT
1 TTTTT
13961195 AATTTTTTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
15 3 0.07
16 22 0.50
17 7 0.16
18 8 0.18
19 4 0.09
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTCTTTTTCTT
Found at i:13961150 original size:19 final size:20
Alignment explanation
Indices: 13961128--13961204 Score: 70
Period size: 19 Copynumber: 3.9 Consensus size: 20
13961118 ATTAATTTTT
13961128 TTCTTTTTCTTTTTTTTTC-
1 TTCTTTTTCTTTTTTTTTCA
* * *
13961147 TTCTTCTTCCTTTTATTTCA
1 TTCTTTTTCTTTTTTTTTCA
13961167 TTCCTTTTT-TTTTATTTTTCA
1 TT-CTTTTTCTTTT-TTTTTCA
*
13961188 TT-TTTTTAATTTTTTTT
1 TTCTTTTT-CTTTTTTTT
13961205 AATTTGCACT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
19 21 0.45
20 9 0.19
21 17 0.36
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (20 bp):
TTCTTTTTCTTTTTTTTTCA
Found at i:13961200 original size:25 final size:25
Alignment explanation
Indices: 13961172--13961219 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
13961162 TTTCATTCCT
* * *
13961172 TTTTTTTTATTTTTCATTTTTTTAA
1 TTTTTTTTAATTTGCACTTTTTTAA
13961197 TTTTTTTTAATTTGCACTTTTTT
1 TTTTTTTTAATTTGCACTTTTTT
13961220 CAAAAAAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTTTTTAATTTGCACTTTTTTAA
Found at i:13961521 original size:16 final size:16
Alignment explanation
Indices: 13961500--13961538 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
13961490 GATAATTTTT
13961500 CTTTCAAATATGAATA
1 CTTTCAAATATGAATA
13961516 CTTTCAAATATGAATA
1 CTTTCAAATATGAATA
13961532 CTTTCAA
1 CTTTCAA
13961539 TGAAGAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (16 bp):
CTTTCAAATATGAATA
Found at i:13964262 original size:22 final size:23
Alignment explanation
Indices: 13964218--13964263 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
13964208 TCTAAAGTCT
* *
13964218 TAAACATCAGTTGTAATGTCTCC
1 TAAACATCAGTTCTAATGCCTCC
13964241 TAAACATCA-TTCTAATGCCTCC
1 TAAACATCAGTTCTAATGCCTCC
13964263 T
1 T
13964264 TATGAACTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (23 bp):
TAAACATCAGTTCTAATGCCTCC
Found at i:13966827 original size:53 final size:53
Alignment explanation
Indices: 13966761--13966862 Score: 159
Period size: 53 Copynumber: 1.9 Consensus size: 53
13966751 ATTTTACAAG
* * *
13966761 TTTTATTTCTAAATTTTTCACCATTTGAGTCGAATTTAGAAATATCTTTCAAA
1 TTTTATTTCTAAATTTTTCACCATTTGAGCCAAATTTAAAAATATCTTTCAAA
* *
13966814 TTTTATTTTTAAATTTTTCACCATTTGGGCCAAATTTAAAAATATCTTT
1 TTTTATTTCTAAATTTTTCACCATTTGAGCCAAATTTAAAAATATCTTT
13966863 TCTAGAATTC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.31, C:0.13, G:0.07, T:0.49
Consensus pattern (53 bp):
TTTTATTTCTAAATTTTTCACCATTTGAGCCAAATTTAAAAATATCTTTCAAA
Found at i:13967578 original size:21 final size:19
Alignment explanation
Indices: 13967544--13967587 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
13967534 GCAATAAAGT
* *
13967544 AAATAAATAAATACCATAAA
1 AAATAAACAAATA-CAAAAA
13967564 AAATAAAACAAATACAAAAA
1 AAAT-AAACAAATACAAAAA
13967584 AAAT
1 AAAT
13967588 CGGCTTAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.75, C:0.09, G:0.00, T:0.16
Consensus pattern (19 bp):
AAATAAACAAATACAAAAA
Found at i:13968496 original size:21 final size:21
Alignment explanation
Indices: 13968463--13968536 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
13968453 ATACCTAATC
*
13968463 AAATAATATAAAAATTAAAGAT
1 AAATAA-ATAAAAATCAAAGAT
*
13968485 AAATTAATAAAAATCAAAGAT
1 AAATAAATAAAAATCAAAGAT
*
13968506 AAATAAATAAATAT--AAGAT
1 AAATAAATAAAAATCAAAGAT
*
13968525 AAAGAAA-AAAAA
1 AAATAAATAAAAA
13968537 CTAATAATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
18 4 0.09
19 11 0.24
21 26 0.57
22 5 0.11
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.22
Consensus pattern (21 bp):
AAATAAATAAAAATCAAAGAT
Found at i:13968512 original size:25 final size:23
Alignment explanation
Indices: 13968483--13968543 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 23
13968473 AAAATTAAAG
13968483 ATAAATTAATAAAAATCAAAGATAA
1 ATAAATTAATAAAAAT-AAAGA-AA
* *
13968508 ATAAATAAATATAAGATAAAGAAA
1 ATAAATTAATA-AAAATAAAGAAA
* *
13968532 AAAAACTAATAA
1 ATAAATTAATAA
13968544 TAAAATAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
23 1 0.03
24 10 0.33
25 15 0.50
26 4 0.13
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.21
Consensus pattern (23 bp):
ATAAATTAATAAAAATAAAGAAA
Found at i:13971750 original size:12 final size:12
Alignment explanation
Indices: 13971726--13971765 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
13971716 TTTTGTTAAT
*
13971726 TAAAAAAATAAA
1 TAAAAAAAAAAA
*
13971738 TAACAAAAAAAA
1 TAAAAAAAAAAA
13971750 TAAAAAAAGAAAA
1 TAAAAAAA-AAAA
13971763 TAA
1 TAA
13971766 GTGGTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 17 0.71
13 7 0.29
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (12 bp):
TAAAAAAAAAAA
Found at i:13972065 original size:18 final size:20
Alignment explanation
Indices: 13972044--13972081 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13972034 ATTGAGAAAA
13972044 TTTTT-AGATTACGGTGAAT
1 TTTTTCAGATTACGGTGAAT
*
13972063 TTTTTCAGATTTCGGTGAA
1 TTTTTCAGATTACGGTGAA
13972082 AATTCTAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.24, C:0.08, G:0.21, T:0.47
Consensus pattern (20 bp):
TTTTTCAGATTACGGTGAAT
Found at i:13973219 original size:44 final size:46
Alignment explanation
Indices: 13973158--13973251 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 46
13973148 TCTTTTTTAA
*
13973158 AAAAAAGAATTTCTAAA-TAGACCAAATTGATGAAAAATTTAAAAAT
1 AAAAAAGAATTTCTAAATTAGACCAAA-TGATAAAAAATTTAAAAAT
* * *
13973204 AAAAAA-AATTT-TAAATTGGCCCAAATGATAAAAAATTTAGAAAT
1 AAAAAAGAATTTCTAAATTAGACCAAATGATAAAAAATTTAAAAAT
13973248 AAAA
1 AAAA
13973252 CTTGTAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
44 25 0.58
45 12 0.28
46 6 0.14
ACGTcount: A:0.60, C:0.06, G:0.09, T:0.26
Consensus pattern (46 bp):
AAAAAAGAATTTCTAAATTAGACCAAATGATAAAAAATTTAAAAAT
Found at i:13981554 original size:2 final size:2
Alignment explanation
Indices: 13981549--13981579 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13981539 GTGTTATAGT
13981549 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13981580 CCCTCTAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13983509 original size:19 final size:20
Alignment explanation
Indices: 13983485--13983522 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13983475 ATTTATTCAA
13983485 TAAAAAT-ATAAAAAAAAGT
1 TAAAAATAATAAAAAAAAGT
*
13983504 TAAAAATAATAGAAAAAAG
1 TAAAAATAATAAAAAAAAG
13983523 CTCACGGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (20 bp):
TAAAAATAATAAAAAAAAGT
Found at i:13984354 original size:20 final size:18
Alignment explanation
Indices: 13984321--13984361 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
13984311 TCGATGAGAC
*
13984321 AAAAAAAATTTTAAATCT
1 AAAAAAAATTTTAAATAT
13984339 AAAAAAAATTTATTAAATAT
1 AAAAAAAA-TT-TTAAATAT
13984359 AAA
1 AAA
13984362 TAATAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 2 0.10
20 10 0.50
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAAAAATTTTAAATAT
Found at i:13984467 original size:20 final size:21
Alignment explanation
Indices: 13984425--13984467 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
13984415 TGGATCACAT
13984425 AAAAAATAAAATTAAAATCTTG
1 AAAAAATAAAA-TAAAATCTTG
13984447 AAAAAATAATAA-AAAAT-TTG
1 AAAAAATAA-AATAAAATCTTG
13984467 A
1 A
13984468 CATAAATGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.20
21 5 0.25
22 9 0.45
23 2 0.10
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (21 bp):
AAAAAATAAAATAAAATCTTG
Found at i:13985084 original size:21 final size:21
Alignment explanation
Indices: 13985060--13985160 Score: 67
Period size: 21 Copynumber: 4.5 Consensus size: 21
13985050 AATATAAGTA
13985060 AATTTTGATAATTTTTTATAT
1 AATTTTGATAATTTTTTATAT
* *
13985081 AATTTTGATTTTGATAATTTTTTGTAA
1 -A-----ATTTTGATAATTTTTTATAT
* ** *
13985108 AATTTTGATAACTTTCAATAC
1 AATTTTGATAATTTTTTATAT
* * *
13985129 AATTTTGTTAATTTATGATAT
1 AATTTTGATAATTTTTTATAT
13985150 AATTTTGATAA
1 AATTTTGATAA
13985161 CCATTAATAC
Statistics
Matches: 60, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
21 40 0.67
22 1 0.02
26 1 0.02
27 18 0.30
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (21 bp):
AATTTTGATAATTTTTTATAT
Found at i:13985091 original size:27 final size:27
Alignment explanation
Indices: 13985061--13985116 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
13985051 ATATAAGTAA
*
13985061 ATTTTGATAATTTTTTATATAATTTTG
1 ATTTTGATAATTTTTTATAAAATTTTG
*
13985088 ATTTTGATAATTTTTTGTAAAATTTTG
1 ATTTTGATAATTTTTTATAAAATTTTG
13985115 AT
1 AT
13985117 AACTTTCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (27 bp):
ATTTTGATAATTTTTTATAAAATTTTG
Found at i:13985099 original size:15 final size:14
Alignment explanation
Indices: 13985061--13985101 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 14
13985051 ATATAAGTAA
13985061 ATTTTGATAATTTT
1 ATTTTGATAATTTT
*
13985075 -TTAT-ATAATTTT
1 ATTTTGATAATTTT
13985087 GATTTTGATAATTTT
1 -ATTTTGATAATTTT
13985102 TTGTAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
12 8 0.36
13 3 0.14
14 3 0.14
15 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (14 bp):
ATTTTGATAATTTT
Found at i:13985135 original size:42 final size:42
Alignment explanation
Indices: 13985088--13985177 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 42
13985078 TATAATTTTG
* *
13985088 ATTTTGATAATTTTTTG-TAAAATTTTGATAA-CTTTCAATACA
1 ATTTTGATAA-TTTATGATAAAATTTTGATAACCATT-AATACA
* *
13985130 ATTTTGTTAATTTATGATATAATTTTGATAACCATTAATACA
1 ATTTTGATAATTTATGATAAAATTTTGATAACCATTAATACA
13985172 ATTTTG
1 ATTTTG
13985178 GGAATCTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 5 0.12
42 34 0.81
43 3 0.07
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.50
Consensus pattern (42 bp):
ATTTTGATAATTTATGATAAAATTTTGATAACCATTAATACA
Found at i:13985174 original size:21 final size:20
Alignment explanation
Indices: 13985108--13985197 Score: 74
Period size: 21 Copynumber: 4.3 Consensus size: 20
13985098 TTTTTTGTAA
13985108 AATTTTGATAACTTTCAATAC
1 AATTTTGATAACTTT-AATAC
* *
13985129 AATTTTGTTAA-TTTATGATAT
1 AATTTTGATAACTTTA--ATAC
*
13985150 AATTTTGATAACCATTAATAC
1 AATTTTGATAA-CTTTAATAC
** *
13985171 AATTTTGGGAATCTTTAATAA
1 AATTTTGATAA-CTTTAATAC
13985192 AATTTT
1 AATTTT
13985198 AGTAAACTCT
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
19 1 0.02
20 3 0.05
21 48 0.87
23 3 0.05
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.47
Consensus pattern (20 bp):
AATTTTGATAACTTTAATAC
Found at i:13985196 original size:42 final size:42
Alignment explanation
Indices: 13985105--13985197 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
13985095 TAATTTTTTG
* ** *
13985105 TAAAATTTTGATAACTTTCAATACAATTTTGTTAATTTATGA
1 TAAAATTTTGATAACATTCAATACAATTTTGGGAATTTATAA
*
13985147 TATAATTTTGATAACCATT-AATACAATTTTGGGAATCTT-TAA
1 TAAAATTTTGATAA-CATTCAATACAATTTTGGGAAT-TTATAA
13985189 TAAAATTTT
1 TAAAATTTT
13985198 AGTAAACTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
42 38 0.88
43 5 0.12
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.46
Consensus pattern (42 bp):
TAAAATTTTGATAACATTCAATACAATTTTGGGAATTTATAA
Found at i:13985545 original size:22 final size:22
Alignment explanation
Indices: 13985513--13985789 Score: 137
Period size: 22 Copynumber: 12.6 Consensus size: 22
13985503 ATAAAAAAAA
* * *
13985513 TTATTAATGATTGACAATTAAG
1 TTATCAATGATTTACTATTAAG
* *
13985535 TTATCATTGATTTACTATTATG
1 TTATCAATGATTTACTATTAAG
*
13985557 TTATCAATGATTTACTACTAAG
1 TTATCAATGATTTACTATTAAG
* * * ** *
13985579 TTATTAATGATATATTACAAAA
1 TTATCAATGATTTACTATTAAG
* *
13985601 TTA-CTAATGATTTACTACTAAA
1 TTATC-AATGATTTACTATTAAG
* * * * *
13985623 TTAACATTGATTTATTACTAAT
1 TTATCAATGATTTACTATTAAG
* *
13985645 TTATGAATTATTTACTATTAAG
1 TTATCAATGATTTACTATTAAG
* * *
13985667 TTAT-AACTGATTTACCACTAAA
1 TTATCAA-TGATTTACTATTAAG
* * * *
13985689 TTGTTAATGATCTACTACTAAG
1 TTATCAATGATTTACTATTAAG
** * ** *
13985711 TTATTGATTATTTGTTATAAAG
1 TTATCAATGATTTACTATTAAG
* *
13985733 TTAT-AATTGATTTATTATTAAT
1 TTATCAA-TGATTTACTATTAAG
* ** *
13985755 TTATCGATGATTTACTACAAAA
1 TTATCAATGATTTACTATTAAG
*
13985777 TTATTAATGATTT
1 TTATCAATGATTT
13985790 TTTTTTAGGT
Statistics
Matches: 194, Mismatches: 55, Indels: 12
0.74 0.21 0.05
Matches are distributed among these distances:
21 3 0.02
22 187 0.96
23 4 0.02
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.46
Consensus pattern (22 bp):
TTATCAATGATTTACTATTAAG
Found at i:13985581 original size:44 final size:44
Alignment explanation
Indices: 13985509--13985789 Score: 174
Period size: 44 Copynumber: 6.4 Consensus size: 44
13985499 AAGTATAAAA
* * * * *
13985509 AAAATTATTAATGATTGACAATTAAGTTATCATTGATTTACTAT
1 AAAATTATCAATGATTTACTACTAAGTTATCATTGATTTACTAC
* ** * * * *
13985553 TATGTTATCAATGATTTACTACTAAGTTATTAATGATATATTAC
1 AAAATTATCAATGATTTACTACTAAGTTATCATTGATTTACTAC
* * *
13985597 AAAATTA-CTAATGATTTACTACTAAATTAACATTGATTTATTAC
1 AAAATTATC-AATGATTTACTACTAAGTTATCATTGATTTACTAC
* * * * * * * *
13985641 TAATTTATGAATTATTTACTATTAAGTTATAACTGATTTACCAC
1 AAAATTATCAATGATTTACTACTAAGTTATCATTGATTTACTAC
* * * * * ** *
13985685 TAAATTGTTAATGATCTACTACTAAGTTATTGATT-ATTTGTTAT
1 AAAATTATCAATGATTTACTACTAAGTTA-TCATTGATTTACTAC
* * * *
13985729 AAAGTTAT-AATTGATTTATTATTAATTTATCGA-TGATTTACTAC
1 AAAATTATCAA-TGATTTACTACTAAGTTATC-ATTGATTTACTAC
*
13985773 AAAATTATTAATGATTT
1 AAAATTATCAATGATTT
13985790 TTTTTTAGGT
Statistics
Matches: 175, Mismatches: 55, Indels: 14
0.72 0.23 0.06
Matches are distributed among these distances:
43 5 0.03
44 165 0.94
45 5 0.03
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (44 bp):
AAAATTATCAATGATTTACTACTAAGTTATCATTGATTTACTAC
Found at i:13985612 original size:66 final size:66
Alignment explanation
Indices: 13985513--13985789 Score: 232
Period size: 66 Copynumber: 4.2 Consensus size: 66
13985503 ATAAAAAAAA
* ** * * * * **
13985513 TTATTAATGATTGACAATTAAGTTATCATTGATTTACTATTATGTTATCAATGATTTACTACTAA
1 TTATTAATGATTTATTATAAAGTTATAACTGATTTACTACTAAATTATCAATGATTTACTACTAA
13985578 G
66 G
* * * * * *
13985579 TTATTAATGATATATTACAAAATTACTAA-TGATTTACTACTAAATTAACATTGATTTATTACTA
1 TTATTAATGATTTATTATAAAGTTA-TAACTGATTTACTACTAAATTATCAATGATTTACTACTA
*
13985643 AT
65 AG
* * * * * * * *
13985645 TTATGAATTATTTACTATTAAGTTATAACTGATTTACCACTAAATTGTTAATGATCTACTACTAA
1 TTATTAATGATTTATTATAAAGTTATAACTGATTTACTACTAAATTATCAATGATTTACTACTAA
13985710 G
66 G
* * * * * * * * *
13985711 TTATTGATTATTTGTTATAAAGTTATAATTGATTTATTATTAATTTATCGATGATTTACTACAAA
1 TTATTAATGATTTATTATAAAGTTATAACTGATTTACTACTAAATTATCAATGATTTACTACTAA
*
13985776 A
66 G
13985777 TTATTAATGATTT
1 TTATTAATGATTT
13985790 TTTTTTAGGT
Statistics
Matches: 161, Mismatches: 48, Indels: 4
0.76 0.23 0.02
Matches are distributed among these distances:
65 3 0.02
66 156 0.97
67 2 0.01
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.46
Consensus pattern (66 bp):
TTATTAATGATTTATTATAAAGTTATAACTGATTTACTACTAAATTATCAATGATTTACTACTAA
G
Found at i:13985690 original size:88 final size:88
Alignment explanation
Indices: 13985509--13985789 Score: 228
Period size: 88 Copynumber: 3.2 Consensus size: 88
13985499 AAGTATAAAA
* * * * * *
13985509 AAAATTATTAATGATTGACAATTAAGTTATCATTGATTTACTATTATGTTATCAATGATTTACTA
1 AAAATTATTAATGATTTACTACTAAATTAACATTGATTTACTATAATGTTATCAATGATTTACTA
**
13985574 CTAAGTTATTAATGATATATTAC
66 CTAAGTTATTAATGATATACCAC
* * * *
13985597 AAAATTACTAATGATTTACTACTAAATTAACATTGATTTATTACTAAT-TTATGAATTATTTACT
1 AAAATTATTAATGATTTACTACTAAATTAACATTGATTTACTA-TAATGTTATCAATGATTTACT
* *
13985661 ATTAAGTTA-TAACTGATTTACCAC
65 ACTAAGTTATTAA-TGATATACCAC
* * * * ** ** * *
13985685 TAAATTGTTAATGATCTACTACTAAGTTATTGATT-ATTTGTTATAAAGTTAT-AATTGATTTAT
1 AAAATTATTAATGATTTACTACTAAATTA-ACATTGATTTACTATAATGTTATCAA-TGATTTAC
* * ** * *
13985748 TATTAATTTATCGATGATTTACTAC
64 TACTAAGTTATTAATGATATACCAC
13985773 AAAATTATTAATGATTT
1 AAAATTATTAATGATTT
13985790 TTTTTTAGGT
Statistics
Matches: 155, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
87 8 0.05
88 140 0.90
89 7 0.05
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (88 bp):
AAAATTATTAATGATTTACTACTAAATTAACATTGATTTACTATAATGTTATCAATGATTTACTA
CTAAGTTATTAATGATATACCAC
Found at i:13986115 original size:24 final size:25
Alignment explanation
Indices: 13986067--13986121 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
13986057 ATCTCTTTTT
*
13986067 TTTTTTTAAAAGCAAATCATTTTTA
1 TTTTTTTAAAAGCAAATCATATTTA
13986092 TTTTTTTAAAAGCAAA--ATAATTTA
1 TTTTTTTAAAAGCAAATCAT-ATTTA
13986116 TTTTTT
1 TTTTTT
13986122 ATCAAGATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 2 0.07
24 10 0.36
25 16 0.57
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (25 bp):
TTTTTTTAAAAGCAAATCATATTTA
Found at i:13989764 original size:23 final size:23
Alignment explanation
Indices: 13989738--13989784 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
13989728 AACCTTAGTA
*
13989738 TGTTTAAAGTTAATAATGTATAT
1 TGTTTAAAATTAATAATGTATAT
13989761 TGTTTAAAATTAATAATGTATAT
1 TGTTTAAAATTAATAATGTATAT
13989784 T
1 T
13989785 ATTTTGTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (23 bp):
TGTTTAAAATTAATAATGTATAT
Found at i:13990490 original size:14 final size:15
Alignment explanation
Indices: 13990450--13990492 Score: 63
Period size: 14 Copynumber: 3.0 Consensus size: 15
13990440 ATAATCTGAG
*
13990450 AATATGATTT-TAAA
1 AATATGATTTGTGAA
13990464 AATATGATTTGTGAA
1 AATATGATTTGTGAA
13990479 AATATG-TTTGTGAA
1 AATATGATTTGTGAA
13990493 TACAAGATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 18 0.67
15 9 0.33
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (15 bp):
AATATGATTTGTGAA
Found at i:13991751 original size:22 final size:22
Alignment explanation
Indices: 13991725--13991841 Score: 71
Period size: 22 Copynumber: 5.4 Consensus size: 22
13991715 AGGTGTCTAC
*
13991725 ACTAAGTTATTAGTGATTTACT
1 ACTAAGTTATTAATGATTTACT
* *
13991747 ACTAAATTATTAATAATTTA-T
1 ACTAAGTTATTAATGATTTACT
* * *
13991768 ATCTAAATTATCAATGATTTGCT
1 A-CTAAGTTATTAATGATTTACT
*
13991791 ATTATA-TTATT-ATGCATTTACT
1 ACTA-AGTTATTAATG-ATTTACT
* * * *
13991813 AGTATG-TAATATTGATTTACT
1 ACTAAGTTATTAATGATTTACT
*
13991834 ACTTAGTT
1 ACTAAGTT
13991842 TTCGATTATT
Statistics
Matches: 72, Mismatches: 16, Indels: 14
0.71 0.16 0.14
Matches are distributed among these distances:
21 18 0.25
22 51 0.71
23 3 0.04
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.48
Consensus pattern (22 bp):
ACTAAGTTATTAATGATTTACT
Found at i:13992063 original size:22 final size:23
Alignment explanation
Indices: 13992038--13992095 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 23
13992028 AACTTCTAAA
13992038 TTATCATTAATTTACTACCAA-C
1 TTATCATTAATTTACTACCAAGC
** * * *
13992060 TTATTTTTTATTTACTACTAAGT
1 TTATCATTAATTTACTACCAAGC
13992083 TTATCAATTAATT
1 TTATC-ATTAATT
13992096 ACGAGTAAAC
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
22 17 0.65
23 4 0.15
24 5 0.19
ACGTcount: A:0.33, C:0.14, G:0.02, T:0.52
Consensus pattern (23 bp):
TTATCATTAATTTACTACCAAGC
Found at i:13992174 original size:21 final size:22
Alignment explanation
Indices: 13992125--13992175 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
13992115 TTTACTTCTG
13992125 AATTATCACTAATTTACTATTA
1 AATTATCACTAATTTACTATTA
* * *
13992147 AACTATCATTGATTTA-TATTA
1 AATTATCACTAATTTACTATTA
*
13992168 AGTTATCA
1 AATTATCA
13992176 ATTATTAATC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.45
Consensus pattern (22 bp):
AATTATCACTAATTTACTATTA
Found at i:13992520 original size:22 final size:22
Alignment explanation
Indices: 13992492--13992662 Score: 114
Period size: 22 Copynumber: 7.7 Consensus size: 22
13992482 ATTAGTTATT
*
13992492 TTTACTACTAAATTATCAATGA
1 TTTACTATTAAATTATCAATGA
* *
13992514 TTTACTATT-AATTCATGAATAA
1 TTTACTATTAAATT-ATCAATGA
* ** *
13992536 TCTGTTATTAAATTATAAATGA
1 TTTACTATTAAATTATCAATGA
* * **
13992558 TTTACTATTAAACTGTTGATGA
1 TTTACTATTAAATTATCAATGA
** *
13992580 TTTA-TCATTAGGTTATTAATGA
1 TTTACT-ATTAAATTATCAATGA
*
13992602 TTTATTATTAAATTAT-AATTGA
1 TTTACTATTAAATTATCAA-TGA
* *
13992624 TTTACTAATTAATTTATCGATGA
1 TTTACT-ATTAAATTATCAATGA
**
13992647 TTTACTAAAAAATTAT
1 TTTACTATTAAATTAT
13992663 TAATAATTAA
Statistics
Matches: 114, Mismatches: 28, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
21 7 0.06
22 83 0.73
23 23 0.20
24 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.47
Consensus pattern (22 bp):
TTTACTATTAAATTATCAATGA
Found at i:13992580 original size:66 final size:67
Alignment explanation
Indices: 13992492--13992653 Score: 161
Period size: 66 Copynumber: 2.4 Consensus size: 67
13992482 ATTAGTTATT
* * * *
13992492 TTTACT-ACTAAATTATCAATGATTTACTATTA-ATTCATGAATAATCTGTTATTAAATTATAAA
1 TTTACTAATTAAACTATCGATGATTTACTATTAGATT-ATGAATAATCTATTATTAAATTATAAA
13992555 TGA
65 TGA
* * * * * * *
13992558 TTTACT-ATTAAACTGTTGATGATTTA-TCATTAGGTTATTAATGATTTATTATTAAATTATAAT
1 TTTACTAATTAAACTATCGATGATTTACT-ATTAGATTATGAATAATCTATTATTAAATTATAAA
13992621 TGA
65 TGA
**
13992624 TTTACTAATTAATTTATCGATGATTTACTA
1 TTTACTAATTAAACTATCGATGATTTACTA
13992654 AAAAATTATT
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
65 1 0.01
66 56 0.73
67 19 0.25
68 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (67 bp):
TTTACTAATTAAACTATCGATGATTTACTATTAGATTATGAATAATCTATTATTAAATTATAAAT
GA
Found at i:13992700 original size:22 final size:22
Alignment explanation
Indices: 13992674--13992779 Score: 110
Period size: 22 Copynumber: 5.0 Consensus size: 22
13992664 AATAATTAAA
13992674 TAATTTACTACTAAATTATCAT
1 TAATTTACTACTAAATTATCAT
* * * *
13992696 TAATTTACAACTAAGTTATTAG
1 TAATTTACTACTAAATTATCAT
* * *
13992718 TAATTTACTACTACATTATTAA
1 TAATTTACTACTAAATTATCAT
*
13992740 TGATTTACTACTAAA-T-T-AT
1 TAATTTACTACTAAATTATCAT
*
13992759 TAATTTACTAATAAATTATCA
1 TAATTTACTACTAAATTATCA
13992780 ATGATTTATT
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
19 14 0.21
20 2 0.03
21 2 0.03
22 50 0.74
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (22 bp):
TAATTTACTACTAAATTATCAT
Found at i:13992763 original size:41 final size:42
Alignment explanation
Indices: 13992674--13992787 Score: 140
Period size: 44 Copynumber: 2.7 Consensus size: 42
13992664 AATAATTAAA
* *
13992674 TAATTTACTACTAAATTATCATTAATTTACAACTAAGTTATTAG
1 TAATTTACTACTAAATTATCAATGATTTACAACTAA--TATTAG
* * * *
13992718 TAATTTACTACTACATTATTAATGATTTACTACTAA-ATTAT
1 TAATTTACTACTAAATTATCAATGATTTACAACTAATATTAG
*
13992759 TAATTTACTAATAAATTATCAATGATTTA
1 TAATTTACTACTAAATTATCAATGATTTA
13992788 TTATTATATT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 30 0.49
44 31 0.51
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.45
Consensus pattern (42 bp):
TAATTTACTACTAAATTATCAATGATTTACAACTAATATTAG
Found at i:13993978 original size:22 final size:21
Alignment explanation
Indices: 13993924--13993987 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
13993914 TAAATTATGC
*
13993924 ATGATTTACTATTGAGGTATCA
1 ATGATTTACTATT-AGTTATCA
* * *
13993946 TTAATTAACTATTATGTTATCA
1 ATGATTTACTATTA-GTTATCA
*
13993968 ATGATTTACTACTAAGTTAT
1 ATGATTTACTA-TTAGTTAT
13993988 TCTAATATAC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 1 0.03
22 29 0.91
23 2 0.06
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (21 bp):
ATGATTTACTATTAGTTATCA
Found at i:13994025 original size:22 final size:22
Alignment explanation
Indices: 13993947--13994075 Score: 77
Period size: 22 Copynumber: 5.9 Consensus size: 22
13993937 GAGGTATCAT
* *
13993947 TAATTAACTATTATGTTATCAA
1 TAATTAACTATTAAGTTATTAA
* * * *
13993969 TGATTTACTACTAAGTTATT-C
1 TAATTAACTATTAAGTTATTAA
* *
13993990 TAA-TATACTTTTAAGTTTTTAA
1 TAATTA-ACTATTAAGTTATTAA
*
13994012 TAATTAACTATTAAATTATTAA
1 TAATTAACTATTAAGTTATTAA
* *
13994034 TTAATT-ATTATTAATTTA-TAA
1 -TAATTAACTATTAAGTTATTAA
* * *
13994055 TTGATTTACTACTAAGTTATT
1 -TAATTAACTATTAAGTTATT
13994076 CATTATTTAC
Statistics
Matches: 80, Mismatches: 21, Indels: 11
0.71 0.19 0.10
Matches are distributed among these distances:
20 1 0.01
21 21 0.26
22 50 0.62
23 8 0.10
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (22 bp):
TAATTAACTATTAAGTTATTAA
Found at i:13994083 original size:22 final size:22
Alignment explanation
Indices: 13993961--13994090 Score: 84
Period size: 22 Copynumber: 6.0 Consensus size: 22
13993951 TAACTATTAT
* *
13993961 GTTATCAATGATTTACTACTAA
1 GTTATTAATTATTTACTACTAA
* * * **
13993983 GTTATT-CTAATATACTTTTAA
1 GTTATTAATTATTTACTACTAA
* * * *
13994004 GTTTTTAATAATTAACTATTAA
1 GTTATTAATTATTTACTACTAA
* * * *
13994026 ATTATTAATTAATTATTATTAA
1 GTTATTAATTATTTACTACTAA
*
13994048 TTTA-TAATTGATTTACTACTAA
1 GTTATTAATT-ATTTACTACTAA
*
13994070 GTTATTCATTATTTACTACTA
1 GTTATTAATTATTTACTACTA
13994091 TCAATTAATT
Statistics
Matches: 82, Mismatches: 23, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
21 20 0.24
22 58 0.71
23 4 0.05
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (22 bp):
GTTATTAATTATTTACTACTAA
Found at i:13994164 original size:22 final size:22
Alignment explanation
Indices: 13994157--13994198 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
13994147 TATTGATTTG
13994157 TTACTAAGTTATCAATTATTAA
1 TTACTAAGTTATCAATTATTAA
*
13994179 TTACTAAGTTATCACTTATT
1 TTACTAAGTTATCAATTATT
13994199 TTTTAAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.48
Consensus pattern (22 bp):
TTACTAAGTTATCAATTATTAA
Found at i:13994263 original size:22 final size:22
Alignment explanation
Indices: 13994238--13994308 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
13994228 GTTGTTATGC
*
13994238 ATTTATAATTATATTATAATTG
1 ATTTATAATTATATTATTATTG
** * *
13994260 ATTTACCATTAAAGTATTA-TG
1 ATTTATAATTATATTATTATTG
*
13994281 CATTTATTATTATATTATTATTG
1 -ATTTATAATTATATTATTATTG
13994304 ATTTA
1 ATTTA
13994309 CTAAAAGTTA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
21 2 0.05
22 34 0.89
23 2 0.05
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.54
Consensus pattern (22 bp):
ATTTATAATTATATTATTATTG
Found at i:13994359 original size:22 final size:22
Alignment explanation
Indices: 13994331--13994386 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
13994321 AATTATTAAT
*
13994331 TACTAAATTATCAT-TCATTTAC
1 TACTAAATTATC-TCTAATTTAC
*
13994353 TACTAAATTATCTCTAATTTAG
1 TACTAAATTATCTCTAATTTAC
*
13994375 TACTAAGTTATC
1 TACTAAATTATC
13994387 GATGATTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 1 0.03
22 29 0.97
ACGTcount: A:0.36, C:0.16, G:0.04, T:0.45
Consensus pattern (22 bp):
TACTAAATTATCTCTAATTTAC
Found at i:13994401 original size:21 final size:20
Alignment explanation
Indices: 13994375--13994414 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
13994365 TCTAATTTAG
*
13994375 TACTAAGTTATCGATGATTAT
1 TACTAAGTTAT-AATGATTAT
13994396 TACTAAGTTATAATGATTA
1 TACTAAGTTATAATGATTA
13994415 CATTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.42
Consensus pattern (20 bp):
TACTAAGTTATAATGATTAT
Found at i:13994451 original size:22 final size:22
Alignment explanation
Indices: 13994375--13994470 Score: 83
Period size: 22 Copynumber: 4.5 Consensus size: 22
13994365 TCTAATTTAG
**
13994375 TACTAAGTTATCGATGATT-AT
1 TACTAAGTTATTAATGATTAAT
13994396 TACTAAGTTA-TAATGATTACAT
1 TACTAAGTTATTAATGATTA-AT
* *
13994418 T--TAAATTTTTAATGATTAAT
1 TACTAAGTTATTAATGATTAAT
* * *
13994438 TATTAAGTTATTAATTATTTAT
1 TACTAAGTTATTAATGATTAAT
*
13994460 TACTATGTTAT
1 TACTAAGTTAT
13994471 CATTTATTTA
Statistics
Matches: 60, Mismatches: 10, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
20 14 0.23
21 19 0.32
22 27 0.45
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.50
Consensus pattern (22 bp):
TACTAAGTTATTAATGATTAAT
Found at i:13995605 original size:2 final size:2
Alignment explanation
Indices: 13995593--13995635 Score: 59
Period size: 2 Copynumber: 21.0 Consensus size: 2
13995583 ATTCATATTT
* *
13995593 TA TA TA CTA TA TA TA TA TA CA TA TA TA TA TA TA AA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13995636 AAGTTAAGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:13995617 original size:14 final size:14
Alignment explanation
Indices: 13995593--13995635 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
13995583 ATTCATATTT
13995593 TATATAC-TATATA
1 TATATACATATATA
13995606 TATATACATATATA
1 TATATACATATATA
*
13995620 TATATAAATATATA
1 TATATACATATATA
13995634 TA
1 TA
13995636 AAGTTAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 7 0.25
14 21 0.75
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (14 bp):
TATATACATATATA
Found at i:13999397 original size:14 final size:13
Alignment explanation
Indices: 13999365--13999404 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
13999355 TATATTTTTT
**
13999365 AATATTTTTAATC
1 AATATTTTTAAAA
13999378 AATATTTTATAAAA
1 AATATTTT-TAAAA
13999392 AATATTTTTAAAA
1 AATATTTTTAAAA
13999405 TATTAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
AATATTTTTAAAA
Found at i:14003755 original size:20 final size:19
Alignment explanation
Indices: 14003715--14003760 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
14003705 TATTTTTTTA
*
14003715 ATTTTATATTTAATTATAT
1 ATTTTATATTTAAATATAT
14003734 ATATTTATATTTAAA-ATAAT
1 AT-TTTATATTTAAATAT-AT
14003754 ATTTTAT
1 ATTTTAT
14003761 TAATTTCGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTATATTTAAATATAT
Found at i:14005602 original size:12 final size:11
Alignment explanation
Indices: 14005572--14005601 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
14005562 GGTCGAGAAC
14005572 AATTTTTTAGG
1 AATTTTTTAGG
*
14005583 TATTTTTTAGG
1 AATTTTTTAGG
14005594 AATTTTTT
1 AATTTTTT
14005602 TGACACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.63
Consensus pattern (11 bp):
AATTTTTTAGG
Found at i:14005737 original size:20 final size:22
Alignment explanation
Indices: 14005712--14005756 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
14005702 TTGAAAGACA
*
14005712 GAGAAAAAA-GAAAAGA-GAAG
1 GAGAAAAAAGGAAAAAATGAAG
14005732 GAGAAAAAAGGAAAAAATGAAG
1 GAGAAAAAAGGAAAAAATGAAG
14005754 GAG
1 GAG
14005757 TGGGGTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 6 0.27
22 7 0.32
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (22 bp):
GAGAAAAAAGGAAAAAATGAAG
Found at i:14005747 original size:22 final size:20
Alignment explanation
Indices: 14005712--14005756 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 20
14005702 TTGAAAGACA
14005712 GAGAAAAAAGAAAAGA-GAAG
1 GAGAAAAAAGAAAA-ATGAAG
14005732 GAGAAAAAAGGAAAAAATGAAG
1 GAGAAAAAA-G-AAAAATGAAG
14005754 GAG
1 GAG
14005757 TGGGGTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.41
21 2 0.09
22 11 0.50
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (20 bp):
GAGAAAAAAGAAAAATGAAG
Found at i:14006871 original size:10 final size:10
Alignment explanation
Indices: 14006856--14006881 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
14006846 AAAATTATCC
14006856 TTTTAATAAA
1 TTTTAATAAA
14006866 TTTTAATAAA
1 TTTTAATAAA
14006876 TTTTAA
1 TTTTAA
14006882 GATTTCATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:14010795 original size:11 final size:11
Alignment explanation
Indices: 14010774--14010819 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
14010764 TGAAATCGTC
14010774 AAAAAAA-AAA
1 AAAAAAAGAAA
*
14010784 AAGAAAAGAAA
1 AAAAAAAGAAA
14010795 AAAAAAAGAAA
1 AAAAAAAGAAA
*
14010806 AAATAAGAGAAA
1 AAA-AAAAGAAA
14010818 AA
1 AA
14010820 TGAAAGAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
10 6 0.19
11 16 0.52
12 9 0.29
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.02
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:14010795 original size:12 final size:12
Alignment explanation
Indices: 14010775--14010824 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
14010765 GAAATCGTCA
*
14010775 AAAAAAAAAAAG
1 AAAAGAAAAAAG
14010787 AAAAGAAAAAA-
1 AAAAGAAAAAAG
*
14010798 AAAAGAAAAAAT
1 AAAAGAAAAAAG
* *
14010810 AAGAGAAAAATG
1 AAAAGAAAAAAG
14010822 AAA
1 AAA
14010825 GAATAAAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 11 0.34
12 21 0.66
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:14010797 original size:16 final size:16
Alignment explanation
Indices: 14010776--14010806 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
14010766 AAATCGTCAA
14010776 AAAAAAAAAAGAAAAG
1 AAAAAAAAAAGAAAAG
14010792 AAAAAAAAAAGAAAA
1 AAAAAAAAAAGAAAA
14010807 AATAAGAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAGAAAAG
Found at i:14010827 original size:23 final size:23
Alignment explanation
Indices: 14010774--14010819 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
14010764 TGAAATCGTC
14010774 AAAAAA-AAAAAAGAAAAGAAAA
1 AAAAAAGAAAAAAGAAAAGAAAA
* *
14010796 AAAAAAGAAAAAATAAGAGAAAA
1 AAAAAAGAAAAAAGAAAAGAAAA
14010819 A
1 A
14010820 TGAAAGAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.02
Consensus pattern (23 bp):
AAAAAAGAAAAAAGAAAAGAAAA
Found at i:14012087 original size:48 final size:48
Alignment explanation
Indices: 14011972--14012131 Score: 154
Period size: 48 Copynumber: 3.5 Consensus size: 48
14011962 TTCAAAATCA
* * *
14011972 CTCGGTGGTGATATTCGAATTTAAAGTTTGCATTTGCATTTGCATTCT
1 CTCGATGGTGATATTCGAGTTTAAAGTTTGAATTTGCATTTGCATTCT
* * * *
14012020 CTCGGTGGTGATATCCGAGTTTAAAGTTTGAATTTGTATTTGTATTCT
1 CTCGATGGTGATATTCGAGTTTAAAGTTTGAATTTGCATTTGCATTCT
** * *
14012068 CTTTATGGTAATATTCGAGTGTTAAAGCTTGAA-TTGCA----C-TT-T
1 CTCGATGGTGATATTCGAGT-TTAAAGTTTGAATTTGCATTTGCATTCT
*
14012110 CTCGATGGTGATATTCAAGTTT
1 CTCGATGGTGATATTCGAGTTT
14012132 CCTTCAGTGG
Statistics
Matches: 94, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
41 2 0.02
42 17 0.18
43 2 0.02
48 62 0.66
49 11 0.12
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.44
Consensus pattern (48 bp):
CTCGATGGTGATATTCGAGTTTAAAGTTTGAATTTGCATTTGCATTCT
Found at i:14012373 original size:42 final size:42
Alignment explanation
Indices: 14012283--14012374 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
14012273 AAAAAAGGTT
* * * *
14012283 ATTTGCATCTTTTCAATGGTGATATCCGAGTGTTAAGGTTTG
1 ATTTGCATCTTCTCAATAGTGATATCCAAGTGTTAAAGTTTG
* * *
14012325 AATTGCATCTTCTCGATAGTGATATTCAAGT-TTAAAGTTTG
1 ATTTGCATCTTCTCAATAGTGATATCCAAGTGTTAAAGTTTG
14012366 AGTTTGCAT
1 A-TTTGCAT
14012375 TTGCATTCTC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 10 0.24
42 31 0.76
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (42 bp):
ATTTGCATCTTCTCAATAGTGATATCCAAGTGTTAAAGTTTG
Found at i:14012693 original size:42 final size:42
Alignment explanation
Indices: 14012630--14012779 Score: 160
Period size: 42 Copynumber: 3.5 Consensus size: 42
14012620 GGTAATATCC
* * *
14012630 GAGTGTTAAGGTTTGGATTGCATTTTCTCGGTGGTGATATAT
1 GAGTATTAAAGTTTGAATTGCATTTTCTCGGTGGTGATATAT
*
14012672 GAGT-TTAAAGTTTGAATTTGCATTTGCATTCTCTCGGTGGTAATATAT
1 GAGTATTAAAGTTTGAA-TTGCA--T---TT-TCTCGGTGGTGATATAT
* * *
14012720 GAGTATTAAAGTTTGAATTGCATCTTCTCAGTGGTGATATCT
1 GAGTATTAAAGTTTGAATTGCATTTTCTCGGTGGTGATATAT
14012762 GAGT-TTAAAGTTTGAATT
1 GAGTATTAAAGTTTGAATT
14012780 TACATTTGCA
Statistics
Matches: 93, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
41 24 0.26
42 27 0.29
43 1 0.01
44 1 0.01
46 1 0.01
47 2 0.02
48 25 0.27
49 12 0.13
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.43
Consensus pattern (42 bp):
GAGTATTAAAGTTTGAATTGCATTTTCTCGGTGGTGATATAT
Found at i:14012718 original size:48 final size:48
Alignment explanation
Indices: 14012647--14012834 Score: 212
Period size: 48 Copynumber: 4.0 Consensus size: 48
14012637 AAGGTTTGGA
*
14012647 TTGCATTTTCTCGGTGGTGATATATGAGT-TTAAAGTTTGAATTTGCAT
1 TTGCATTCTCTCGGTGGTGATATATGAGTATTAAAGTTTGAA-TTGCAT
*
14012695 TTGCATTCTCTCGGTGGTAATATATGAGTATTAAAGTTTGAATTGCA-
1 TTGCATTCTCTCGGTGGTGATATATGAGTATTAAAGTTTGAATTGCAT
* * *
14012742 -T-C--T-TCTCAGTGGTGATATCTGAGT-TTAAAGTTTGAATTTACAT
1 TTGCATTCTCTCGGTGGTGATATATGAGTATTAAAGTTTGAA-TTGCAT
* *** *
14012785 TTGCATTCTCTCGATGGTGATATCCAAGTATTAAAGCTTGAATTGCAT
1 TTGCATTCTCTCGGTGGTGATATATGAGTATTAAAGTTTGAATTGCAT
14012833 TT
1 TT
14012835 TCTTGATGAT
Statistics
Matches: 119, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
41 12 0.10
42 22 0.18
43 1 0.01
44 1 0.01
45 2 0.02
46 1 0.01
47 1 0.01
48 56 0.47
49 23 0.19
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.43
Consensus pattern (48 bp):
TTGCATTCTCTCGGTGGTGATATATGAGTATTAAAGTTTGAATTGCAT
Found at i:14012734 original size:90 final size:90
Alignment explanation
Indices: 14012615--14012837 Score: 329
Period size: 90 Copynumber: 2.5 Consensus size: 90
14012605 TTACATCTTT
* * * *
14012615 TCGATGGTAATATCCGAGTGTTAAGGTTTGGATTGCATTTTCTCGGTGGTGATATATGAGTTTAA
1 TCGATGGTAATATCCGAGTATTAAAGTTTGAATTGCATTTTCTCAGTGGTGATATATGAGTTTAA
*
14012680 AGTTTGAATTTGCATTTGCATTCTC
66 AGTTTGAATTTACATTTGCATTCTC
* ** * *
14012705 TCGGTGGTAATATATGAGTATTAAAGTTTGAATTGCATCTTCTCAGTGGTGATATCTGAGTTTAA
1 TCGATGGTAATATCCGAGTATTAAAGTTTGAATTGCATTTTCTCAGTGGTGATATATGAGTTTAA
14012770 AGTTTGAATTTACATTTGCATTCTC
66 AGTTTGAATTTACATTTGCATTCTC
* * *
14012795 TCGATGGTGATATCCAAGTATTAAAGCTTGAATTGCATTTTCT
1 TCGATGGTAATATCCGAGTATTAAAGTTTGAATTGCATTTTCT
14012838 TGATGATGAT
Statistics
Matches: 116, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
90 116 1.00
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.42
Consensus pattern (90 bp):
TCGATGGTAATATCCGAGTATTAAAGTTTGAATTGCATTTTCTCAGTGGTGATATATGAGTTTAA
AGTTTGAATTTACATTTGCATTCTC
Found at i:14012767 original size:320 final size:313
Alignment explanation
Indices: 14012011--14012767 Score: 1014
Period size: 316 Copynumber: 2.4 Consensus size: 313
14012001 GCATTTGCAT
* * * * ***
14012011 TTGCATTCTCTCGGTGGTGATATCCGAGTTTAAAGTTTGAATTTGTATTTGTATTCTCTTTATGG
1 TTGCATTTTCTCGGTGGTGATAT-TGAGTTTAAAGTTTGAATTTGCATTTGCATTCTCTCGGTGG
* *
14012076 TAATATTCGAGTGTTAAAGCTTGAATTGCA-CTTTCTCGATGGTGATATTCAAGTTTCCTTCAGT
65 TAATATT-GAGTATTAAAGCTTGAATTGCATC-TTCTCGATGGTGATATT-GAGTTTCCTTCAGT
14012140 GGTGACATCCGAAGTCATTTGCATATTATCAGTGGTGATATCCGAATTTAAAGTTTAAATTTTTA
127 GGTGACATCCGAAGTCATTTGCATATTATCAGTGGTGATATCCGAATTTAAAGTTTAAATTTTTA
* * *
14012205 TTTGCATTTTCGTGGTGGTGAAATCCAAGACATTTTTAAAATCACTTGGTGGTGATATCTGAGTA
192 TTTGCATTTTCGTGGGGGTGAAATCCAAGACATTTTTAAAATCACTCGGTGGTGATATCCGAGTA
* * *
14012270 TTAAAAAAAGGTTATTTGCATCTTTTCAATGGTGATATCCGAGTGTTAAGGTTTGAA
257 TTAAAAAAAGGTCATTTACATCTTTTCAATGGTAATATCCGAGTGTTAAGGTTTGAA
* * * * *
14012327 TTGCATCTTCTCGATAGTGATATTCAAGTTTAAAGTTTGAGTTTGCATTTGCATTCTCTCGGTGG
1 TTGCATTTTCTCGGTGGTGATATT-GAGTTTAAAGTTTGAATTTGCATTTGCATTCTCTCGGTGG
* * * * * * **
14012392 TGATATCCGAGTATTAAAGCTTGAATTACATTTTCTCGATGATGATATTTGAGTTTCTTTTGGTG
65 TAATAT-TGAGTATTAAAGCTTGAATTGCATCTTCTCGATGGTGATA-TTGAGTTTCCTTCAGTG
* * * * *
14012457 GTGATATCCGAAGTCTTTTGCATATTATCGGTGGTGATATTCGAGTTTAAAGTTTAAATTTTTAT
128 GTGACATCCGAAGTCATTTGCATATTATCAGTGGTGATATCCGAATTTAAAGTTTAAATTTTTAT
* * *
14012522 TTGTATTTTCTTGGGGGTGAAATCCAAGATATTTTTAAAATCACTCGGTGGTGATATCCGAGTAT
193 TTGCATTTTCGTGGGGGTGAAATCCAAGACATTTTTAAAATCACTCGGTGGTGATATCCGAGTAT
* *
14012587 TAAAAAGAAAAAGGTCATTTACATCTTTTCGATGGTAATATCCGAGTGTTAAGGTTTGGA
258 T---AA-AAAAAGGTCATTTACATCTTTTCAATGGTAATATCCGAGTGTTAAGGTTTGAA
14012647 TTGCATTTTCTCGGTGGTGATATATGAGTTTAAAGTTTGAATTTGCATTTGCATTCTCTCGGTGG
1 TTGCATTTTCTCGGTGGTGATAT-TGAGTTTAAAGTTTGAATTTGCATTTGCATTCTCTCGGTGG
*
14012712 TAATATATGAGTATTAAAGTTTGAATTGCATCTTCTC-AGTGGTGATATCTGAGTTT
65 TAATAT-TGAGTATTAAAGCTTGAATTGCATCTTCTCGA-TGGTGATAT-TGAGTTT
14012768 AAAGTTTGAA
Statistics
Matches: 380, Mismatches: 50, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
316 222 0.58
317 2 0.01
319 4 0.01
320 151 0.40
321 1 0.00
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (313 bp):
TTGCATTTTCTCGGTGGTGATATTGAGTTTAAAGTTTGAATTTGCATTTGCATTCTCTCGGTGGT
AATATTGAGTATTAAAGCTTGAATTGCATCTTCTCGATGGTGATATTGAGTTTCCTTCAGTGGTG
ACATCCGAAGTCATTTGCATATTATCAGTGGTGATATCCGAATTTAAAGTTTAAATTTTTATTTG
CATTTTCGTGGGGGTGAAATCCAAGACATTTTTAAAATCACTCGGTGGTGATATCCGAGTATTAA
AAAAAGGTCATTTACATCTTTTCAATGGTAATATCCGAGTGTTAAGGTTTGAA
Found at i:14013189 original size:49 final size:49
Alignment explanation
Indices: 14013131--14013312 Score: 228
Period size: 49 Copynumber: 3.7 Consensus size: 49
14013121 TCAATAGTTT
*
14013131 AATTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTCTAAGATGAA
1 AATTTTAAAGTTATTGAGCCTCTACTTAGAGGAGCTTTTCTAAGATGAA
* * *
14013180 AATTTTAAAGTTACTGAGCCTCTACTTAGAAGAGCTTTTCCAAGATGACA
1 AATTTTAAAGTTATTGAGCCTCTACTTAGAGGAGCTTTTCTAAGATGA-A
* *
14013230 AA-TTTAAAGTTATTGAGCCTCTGCTTAGAGGAG-TTTTTTCAAGAT-AA
1 AATTTTAAAGTTATTGAGCCTCTACTTAGAGGAGCTTTTCT-AAGATGAA
* * *
14013277 AATTTTAAAGTTGTTAAG-CTCTTGCTTAGAGGAGCT
1 AATTTTAAAGTTATTGAGCCTC-TACTTAGAGGAGCT
14013313 ACTTAAAGGA
Statistics
Matches: 117, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
47 6 0.05
48 30 0.26
49 78 0.67
50 3 0.03
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.36
Consensus pattern (49 bp):
AATTTTAAAGTTATTGAGCCTCTACTTAGAGGAGCTTTTCTAAGATGAA
Found at i:14013366 original size:61 final size:61
Alignment explanation
Indices: 14013253--14013368 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
14013243 TGAGCCTCTG
* * *
14013253 CTTAGAGGAGTTTTTTCAAGATAAAATTTTAAAGTTGTTAAGCTCTTGCTTAGAGGAGCTA
1 CTTAAAGGAGCTTTTTCAAGATAAAATTTTAAAGTTGTTAAGCTCTTACTTAGAGGAGCTA
* * * *
14013314 CTTAAAGGAGCTTTTTCAAGATGAATTTTTAAAGTTTTTGAG-TCTCTACTTAGAG
1 CTTAAAGGAGCTTTTTCAAGATAAAATTTTAAAGTTGTTAAGCTCT-TACTTAGAG
14013369 TAGCCTTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
60 3 0.06
61 44 0.94
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (61 bp):
CTTAAAGGAGCTTTTTCAAGATAAAATTTTAAAGTTGTTAAGCTCTTACTTAGAGGAGCTA
Found at i:14013491 original size:44 final size:44
Alignment explanation
Indices: 14013389--14013563 Score: 133
Period size: 44 Copynumber: 3.9 Consensus size: 44
14013379 CAAGATAAAA
* * * * *
14013389 TTTTAAA-TTGTCGAGCTTTTGCTTAGATGAG--TCATTTATATT
1 TTTTAAAGTTGTTGAGCTTCTGCTTAGAGGAGCCTC-TTCAAATT
* * *
14013431 TTTAAAAGTCGTTGAGCTTCTGCTTAGATGAGCCTCTTCAAATT
1 TTTTAAAGTTGTTGAGCTTCTGCTTAGAGGAGCCTCTTCAAATT
* * *
14013475 TTTTAAAGTTGTTGAGCCTCTGCTTATAGGAGCCTTTTCCAAGATAAAAT
1 TTTTAAAGTTGTTGAGCTTCTGCTTAGAGGAGCCTCTT-CAA-AT----T
*
14013525 TTTTAAAATTGTTGAGCCTT-TGCTTAGAGGAGCCCTCTT
1 TTTTAAAGTTGTTGAG-CTTCTGCTTAGAGGAG-CCTCTT
14013564 AAAGTTTCAA
Statistics
Matches: 106, Mismatches: 16, Indels: 13
0.79 0.12 0.10
Matches are distributed among these distances:
42 6 0.06
43 21 0.20
44 38 0.36
45 5 0.05
46 2 0.02
50 27 0.25
51 7 0.07
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (44 bp):
TTTTAAAGTTGTTGAGCTTCTGCTTAGAGGAGCCTCTTCAAATT
Found at i:14013602 original size:44 final size:43
Alignment explanation
Indices: 14013535--14013618 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 43
14013525 TTTTAAAATT
* * * *
14013535 GTTGAGCCTTTGCTTAGAGGAGCCCTCTTAAAGTTTCAAAAGTA
1 GTTGAACCTTTGCTAAAAAGAGCCCTCTTAAA-TTTCAAAAGTA
* *
14013579 GTTGAACCTTTGCTAAAAAGAGCCCTTTTAAATTTGAAAA
1 GTTGAACCTTTGCTAAAAAGAGCCCTCTTAAATTTCAAAA
14013619 AAAATTGAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 7 0.21
44 27 0.79
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (43 bp):
GTTGAACCTTTGCTAAAAAGAGCCCTCTTAAATTTCAAAAGTA
Found at i:14013602 original size:94 final size:96
Alignment explanation
Indices: 14013428--14013607 Score: 215
Period size: 94 Copynumber: 1.9 Consensus size: 96
14013418 AGTCATTTAT
* * ** * *
14013428 ATTTTTAAAAGTCGTTGAGCTTCTGCTTAGATGAGCCTCTTCAAATTTTTTAAAGTTGTTGAGCC
1 ATTTTTAAAAGTCGTTGAGCTTCTGCTTAGAGGAGCCTCTTCAAAGTTTCAAAAGTAGTTGAACC
* * *
14013493 TCTGCTTATAGGAG-CCTTTTCCAAGATAAA
66 TCTGCTAAAAAGAGCCCTTTTCCAAGATAAA
*
14013523 ATTTTTAAAA-TTGTTGAGCCTT-TGCTTAGAGGAGCCCTCTT-AAAGTTTCAAAAGTAGTTGAA
1 ATTTTTAAAAGTCGTTGAG-CTTCTGCTTAGAGGAG-CCTCTTCAAAGTTTCAAAAGTAGTTGAA
*
14013585 CCTTTGCTAAAAAGAGCCCTTTT
64 CCTCTGCTAAAAAGAGCCCTTTT
14013608 AAATTTGAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
94 46 0.65
95 25 0.35
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (96 bp):
ATTTTTAAAAGTCGTTGAGCTTCTGCTTAGAGGAGCCTCTTCAAAGTTTCAAAAGTAGTTGAACC
TCTGCTAAAAAGAGCCCTTTTCCAAGATAAA
Found at i:14013817 original size:6 final size:6
Alignment explanation
Indices: 14013808--14013833 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
14013798 TTTATTTTTC
14013808 TTCTTT TTCTTT TTCTTT TTCTTT TT
1 TTCTTT TTCTTT TTCTTT TTCTTT TT
14013834 TGGCAACTTT
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTCTTT
Found at i:14014726 original size:23 final size:22
Alignment explanation
Indices: 14014688--14014730 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
14014678 GCTCAATTTT
14014688 TTTATATATTTCTATTATTTAA
1 TTTATATATTTCTATTATTTAA
*
14014710 TTTATGATTTTTCTATTATTT
1 TTTAT-ATATTTCTATTATTT
14014731 TTATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTATATATTTCTATTATTTAA
Found at i:14014743 original size:23 final size:22
Alignment explanation
Indices: 14014683--14014743 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
14014673 TTTTTGCTCA
*
14014683 ATTT-TTTTATATATTTCTATT
1 ATTTATTTTATATTTTTCTATT
*
14014704 ATTTAATTTATGATTTTTCTATT
1 ATTTATTTTAT-ATTTTTCTATT
*
14014727 ATTT-TTATTTTATTTTT
1 ATTTATT-TTATATTTTT
14014744 GTATAAATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 4 0.12
22 12 0.36
23 17 0.52
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (22 bp):
ATTTATTTTATATTTTTCTATT
Found at i:14015998 original size:17 final size:17
Alignment explanation
Indices: 14015976--14016018 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
14015966 TAATACATAG
*
14015976 TAAAATACTCAATCCAA
1 TAAAATACACAATCCAA
*
14015993 TAAAATACACAATTCAA
1 TAAAATACACAATCCAA
14016010 TAAAATACA
1 TAAAATACA
14016019 ATTTAATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (17 bp):
TAAAATACACAATCCAA
Found at i:14018482 original size:17 final size:17
Alignment explanation
Indices: 14018462--14018504 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
14018452 TAATACATAG
14018462 TAAAATATACAA-TCTAA
1 TAAAATATACAATTC-AA
*
14018479 TAAAATACACAATTCAA
1 TAAAATATACAATTCAA
14018496 TAAAATATA
1 TAAAATATA
14018505 ATTTAATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAAATATACAATTCAA
Found at i:14020281 original size:8 final size:8
Alignment explanation
Indices: 14020268--14020297 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
14020258 CTTCCCAAAA
14020268 TTTTTTCT
1 TTTTTTCT
*
14020276 TTTTTTCG
1 TTTTTTCT
14020284 TTTTTTCT
1 TTTTTTCT
14020292 TTTTTT
1 TTTTTT
14020298 TTGAAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (8 bp):
TTTTTTCT
Found at i:14022129 original size:21 final size:21
Alignment explanation
Indices: 14022086--14022136 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
14022076 ATCATTTTTA
* *
14022086 TTATTTTTTACTATTATTCTT
1 TTATTTTTTACTATTAGTATT
* *
14022107 TTATTTTTTATTATTCGTATT
1 TTATTTTTTACTATTAGTATT
*
14022128 TTATATTTT
1 TTATTTTTT
14022137 CAAGGAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.73
Consensus pattern (21 bp):
TTATTTTTTACTATTAGTATT
Found at i:14022315 original size:2 final size:2
Alignment explanation
Indices: 14022303--14022347 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
14022293 ATTCTTATTT
* *
14022303 TA TA AA TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14022345 TA T
1 TA T
14022348 GCCCAAGAGC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:14023729 original size:20 final size:21
Alignment explanation
Indices: 14023704--14023742 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
14023694 GAATTAAAGA
*
14023704 GCAAGATTTTA-AAAGAAATT
1 GCAAGATTTAATAAAGAAATT
14023724 GCAAGATTTAATAAAGAAA
1 GCAAGATTTAATAAAGAAA
14023743 AGTGAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.54, C:0.05, G:0.15, T:0.26
Consensus pattern (21 bp):
GCAAGATTTAATAAAGAAATT
Found at i:14024242 original size:21 final size:23
Alignment explanation
Indices: 14024217--14024269 Score: 74
Period size: 21 Copynumber: 2.3 Consensus size: 23
14024207 AATATTTAAC
*
14024217 AAAACAAACAAAATAAA-AAAAT
1 AAAACAAACAAAAGAAACAAAAT
14024239 -AAACAAACAAAAGAAACGAAAAT
1 AAAACAAACAAAAGAAAC-AAAAT
14024262 AAAACAAA
1 AAAACAAA
14024270 AGTCAAATGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 15 0.56
23 5 0.19
24 7 0.26
ACGTcount: A:0.79, C:0.11, G:0.04, T:0.06
Consensus pattern (23 bp):
AAAACAAACAAAAGAAACAAAAT
Found at i:14025395 original size:12 final size:12
Alignment explanation
Indices: 14025378--14025418 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
14025368 AGGTAAAAAA
14025378 AATTTTTTTTTT
1 AATTTTTTTTTT
14025390 AATTTTTTTTTAT
1 AATTTTTTTTT-T
*
14025403 ATATTTTTTTATT
1 A-ATTTTTTTTTT
14025416 AAT
1 AAT
14025419 ATTTATGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 13 0.50
13 4 0.15
14 9 0.35
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
AATTTTTTTTTT
Found at i:14025408 original size:14 final size:14
Alignment explanation
Indices: 14025379--14025422 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
14025369 GGTAAAAAAA
14025379 ATTTTTTTTT-TA-
1 ATTTTTTTTTATAT
14025391 ATTTTTTTTTATAT
1 ATTTTTTTTTATAT
14025405 ATTTTTTTATTA-AT
1 ATTTTTTT-TTATAT
14025419 ATTT
1 ATTT
14025423 ATGCATGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 10 0.34
13 2 0.07
14 14 0.48
15 3 0.10
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
ATTTTTTTTTATAT
Found at i:14025922 original size:12 final size:12
Alignment explanation
Indices: 14025907--14025938 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
14025897 TTCAATTAAA
14025907 AATAAAATAATT
1 AATAAAATAATT
14025919 AATAAAATAATT
1 AATAAAATAATT
14025931 AATAAAAT
1 AATAAAAT
14025939 TTTTGAGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AATAAAATAATT
Found at i:14026311 original size:192 final size:191
Alignment explanation
Indices: 14025993--14026373 Score: 575
Period size: 192 Copynumber: 2.0 Consensus size: 191
14025983 GCATGGCATG
* * * * *
14025993 CATGACATAATTTCTTACGAAAAATAAATTTGAGCCTCCGAGGATGGGATTCTAAGGTATTCCGA
1 CATGACAT-ATTTCTTACGAAAAATAAATTCGAGCCTCCAAAGATGAGATTCTAAAGTATTCCGA
* * *
14026058 GAAGCGATGCCTAAGAAATCTTTAGGTGAAAAAAAGTTCTTCTAACGTTACCAACGTACTGAAAC
65 GAAGAGATGCCTAAGAAATCTCTAGGTGAAAAAAAGTTCTTCTAACATTACCAACGTACTGAAAC
*
14026123 ATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATATTTTTTTTAA
130 ATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTTTTAA
14026185 CATGACAT-TTTCTTACGAAAAATAAATTCGAGCCTCCAAAGATGAGATTCTAAAAGTATTCCGA
1 CATGACATATTTCTTACGAAAAATAAATTCGAGCCTCCAAAGATGAGATTCT-AAAGTATTCCGA
* * * * * * *
14026249 GTAGAGATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATATTACCAATGTACTGAAA
65 GAAGAGATGC-CTAAGAAATCTCTAGGTGAAAAAAAGTTCTTCTAACATTACCAACGTACTGAAA
*
14026314 CATTTTAAGAATTATTTCAATAAAAAGGTTTTGATTTATTTTTCTCGAGAATAATTTTTT
129 CATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTTT
14026374 AATAAATAAA
Statistics
Matches: 170, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
190 39 0.23
191 19 0.11
192 112 0.66
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (191 bp):
CATGACATATTTCTTACGAAAAATAAATTCGAGCCTCCAAAGATGAGATTCTAAAGTATTCCGAG
AAGAGATGCCTAAGAAATCTCTAGGTGAAAAAAAGTTCTTCTAACATTACCAACGTACTGAAACA
TTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTTTTAA
Found at i:14032763 original size:187 final size:186
Alignment explanation
Indices: 14032448--14032785 Score: 446
Period size: 187 Copynumber: 1.8 Consensus size: 186
14032438 TTACTGATCC
* * *
14032448 GAAGGTCTCACGGTTTTGTTCCATAAAAGGTGCCTTATAGATTTGGATTTAGATCTCTAAATATA
1 GAAGGTCTCACGGTTTTATTCCATAAAAGGTGCCTCACAGATTTGGATTTAGATCTCTAAATATA
* ** ** * * * *
14032513 TATTATATTATATCCACACTTTTTTTCATTGTGGGATTAAGGGCATCACAAGTATGTACCTCTAT
66 TATCATACCATATCCACAAATTCTTTCAATGTAGGATTAAGGGCATCACAAGTACGTACCTCTAT
14032578 TAAAAGCAACCCCATTTTTCTTGAGCCTAACCTACAAGGTATTATCTGTTTTAAGCT
131 T-AAAGCAACCCCATTTTTCTTGAGCCTAACCTACAAGGTATTATCTGTTTTAAGCT
* * *
14032635 GAAGGTCTCACGGTTTTA-TCTCATAAAATGTGTCTCACAGATTTGGATTTAGATCTCTACATAT
1 GAAGGTCTCACGGTTTTATTC-CATAAAAGGTGCCTCACAGATTTGGATTTAGATCTCTAAATAT
* * *
14032699 GTATCATACCATATCTATAAATTCTTTCAATGTAGGATTGAA-GGCATCACAAGTACGTACCTCT
65 ATATCATACCATATCCACAAATTCTTTCAATGTAGGATT-AAGGGCATCACAAGTACGTACCTCT
** *
14032763 ATTAGGGTAACCCCATTTTTCTT
129 ATTAAAGCAACCCCATTTTTCTT
14032786 AGTTTATGGG
Statistics
Matches: 128, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
186 19 0.15
187 107 0.84
188 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.37
Consensus pattern (186 bp):
GAAGGTCTCACGGTTTTATTCCATAAAAGGTGCCTCACAGATTTGGATTTAGATCTCTAAATATA
TATCATACCATATCCACAAATTCTTTCAATGTAGGATTAAGGGCATCACAAGTACGTACCTCTAT
TAAAGCAACCCCATTTTTCTTGAGCCTAACCTACAAGGTATTATCTGTTTTAAGCT
Found at i:14034296 original size:41 final size:39
Alignment explanation
Indices: 14034187--14034283 Score: 124
Period size: 39 Copynumber: 2.5 Consensus size: 39
14034177 AAAATCTTTG
* *
14034187 GGAGCCTTTATTTTTAAAGTAATATGTCTTTGTTATAGA
1 GGAGCCTTTATTTTTAAAGTAATATGCCTTTATTATAGA
* *
14034226 GGAGCCTTTATTTTTAAAGTCATGTGCCTTTATTAT-GTA
1 GGAGCCTTTATTTTTAAAGTAATATGCCTTTATTATAG-A
*
14034265 GGAGCTTTTATATTTTAAA
1 GGAGCCTTTAT-TTTTAAA
14034284 AGTTGTATGC
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
38 1 0.02
39 43 0.84
40 7 0.14
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.46
Consensus pattern (39 bp):
GGAGCCTTTATTTTTAAAGTAATATGCCTTTATTATAGA
Found at i:14034539 original size:30 final size:29
Alignment explanation
Indices: 14034505--14034562 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
14034495 GGACCTAAGT
*
14034505 CAATTAAGCCTAAACTGATCAAGCCTAAAC
1 CAATTAAGCCCAAACTGATCAA-CCTAAAC
** *
14034535 CAATTGGGCCCAAATTGATCAACCTAAA
1 CAATTAAGCCCAAACTGATCAACCTAAA
14034563 TTAGTCTAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.21
Consensus pattern (29 bp):
CAATTAAGCCCAAACTGATCAACCTAAAC
Found at i:14034614 original size:4 final size:4
Alignment explanation
Indices: 14034605--14034645 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
14034595 ATATTTTATA
14034605 ATTT ATTT ATTT ATTT ATTT ATTT A-TT -TTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
14034646 AGGTTTTATC
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 4 0.11
4 31 0.89
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
ATTT
Found at i:14034652 original size:18 final size:18
Alignment explanation
Indices: 14034605--14034654 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
14034595 ATATTTTATA
14034605 ATTTATTTA--TTTATTT
1 ATTTATTTAGTTTTATTT
*
14034621 ATTTATTTATTTTTATTT
1 ATTTATTTAGTTTTATTT
14034639 ATTTA-TTAGGTTTTAT
1 ATTTATTTA-GTTTTAT
14034655 CTTTATCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 9 0.30
17 3 0.10
18 18 0.60
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (18 bp):
ATTTATTTAGTTTTATTT
Found at i:14034726 original size:19 final size:20
Alignment explanation
Indices: 14034699--14034736 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
14034689 TCAGTCATTT
14034699 ATTTATTA-TTATTTTATCTA
1 ATTTATTATTTA-TTTATCTA
14034719 ATTT-TTATTTATTTATCT
1 ATTTATTATTTATTTATCT
14034737 TTGATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTTATTATTTATTTATCTA
Found at i:14034744 original size:20 final size:22
Alignment explanation
Indices: 14034719--14034771 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
14034709 ATTTTATCTA
*
14034719 ATTTTTATTTATTTATCTTT-G
1 ATTTTTATTTATTCATCTTTAG
*
14034740 ATTTTTATTAATTCATCTTTAG
1 ATTTTTATTTATTCATCTTTAG
*
14034762 CTTTTATATT
1 ATTTT-TATT
14034772 ATCTAATTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 18 0.67
22 5 0.19
23 4 0.15
ACGTcount: A:0.23, C:0.08, G:0.04, T:0.66
Consensus pattern (22 bp):
ATTTTTATTTATTCATCTTTAG
Found at i:14034745 original size:21 final size:21
Alignment explanation
Indices: 14034719--14034759 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14034709 ATTTTATCTA
* *
14034719 ATTTTTATTTATTTATCTTTG
1 ATTTTTATTAATTCATCTTTG
14034740 ATTTTTATTAATTCATCTTT
1 ATTTTTATTAATTCATCTTT
14034760 AGCTTTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.68
Consensus pattern (21 bp):
ATTTTTATTAATTCATCTTTG
Found at i:14034994 original size:12 final size:12
Alignment explanation
Indices: 14034977--14035007 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
14034967 CATGTTTCTG
14034977 AAAATTTTTTGA
1 AAAATTTTTTGA
14034989 AAAA-TTTTTGA
1 AAAATTTTTTGA
14035000 AAAATTTT
1 AAAATTTT
14035008 GAATTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (12 bp):
AAAATTTTTTGA
Found at i:14036005 original size:38 final size:39
Alignment explanation
Indices: 14035924--14036007 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 39
14035914 GATTTTTTAA
14035924 ATAAAAATTAAATATTGAAAAAAAAGAAAAAATAATTTCC
1 ATAAAAATTAAATATTG-AAAAAAAGAAAAAATAATTTCC
* * * *
14035964 ATAAAAATTAAATTTTG-AAGAAAGTAAAAATAATTTTC
1 ATAAAAATTAAATATTGAAAAAAAGAAAAAATAATTTCC
14036002 ATAAAA
1 ATAAAA
14036008 TCCTACCAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 24 0.60
40 16 0.40
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.29
Consensus pattern (39 bp):
ATAAAAATTAAATATTGAAAAAAAGAAAAAATAATTTCC
Found at i:14036784 original size:33 final size:34
Alignment explanation
Indices: 14036742--14036807 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
14036732 GTAAAATTGA
* *
14036742 GCTTATCG-AAATGGATATCCGATAAGCTTTAAG
1 GCTTATCGAAAATGAATATCCGAGAAGCTTTAAG
*
14036775 GCTTCTCGAAAATGAATATCCGAGAAGCTTTAA
1 GCTTATCGAAAATGAATATCCGAGAAGCTTTAA
14036808 AGATTCTTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 7 0.24
34 22 0.76
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (34 bp):
GCTTATCGAAAATGAATATCCGAGAAGCTTTAAG
Found at i:14037837 original size:3 final size:3
Alignment explanation
Indices: 14037829--14037863 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
14037819 CCGTACATCT
14037829 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14037864 TTTTATTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:14042918 original size:12 final size:13
Alignment explanation
Indices: 14042891--14042923 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
14042881 ACAAAAATTA
*
14042891 TCTTTTTTTTTCT
1 TCTTTTTCTTTCT
14042904 TCTTTTTCTTT-T
1 TCTTTTTCTTTCT
14042916 TCTTTTTC
1 TCTTTTTC
14042924 ATATTCAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TCTTTTTCTTTCT
Found at i:14043578 original size:2 final size:2
Alignment explanation
Indices: 14043573--14043622 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
14043563 ACACACACAC
14043573 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
14043615 AG AG AG AG
1 AG AG AG AG
14043623 GTGGAGATGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14046816 original size:59 final size:60
Alignment explanation
Indices: 14046632--14046912 Score: 395
Period size: 59 Copynumber: 4.7 Consensus size: 60
14046622 TTTCTTGTAG
14046632 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTGGAAAATTTCGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGG-AAATTT-GATTTTCAA
*
14046693 GGAAAATTGATACTTTTCAACTTTTTCCCCAAAAATATTTTTTTT-GAAATTTTGATTTTCAA
1 GGAAAATTGATAC-TTTCAAC-TTTTCCCTAAAAATATTTTTTTTGGAAA-TTTGATTTTCAA
14046755 GGAAAATTGATACTTTCAACTTTT-CCTAAAAATATTTTTTTGTGGAAATTT-A-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT-TGGAAATTTGATTTTC-AA
14046814 GGAAAATTGATACTTTCAACTTTT-CCT-AAAATA--TTTTTTGGAAATTT-ATTCTT-AA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTGATT-TTCAA
14046869 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTTTTT
14046913 AGAATTTTTT
Statistics
Matches: 204, Mismatches: 2, Indels: 29
0.87 0.01 0.12
Matches are distributed among these distances:
55 36 0.18
56 9 0.04
57 8 0.04
58 10 0.05
59 46 0.23
60 14 0.07
61 24 0.12
62 32 0.16
63 18 0.09
64 7 0.03
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (60 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTGATTTTCAA
Found at i:14046956 original size:14 final size:14
Alignment explanation
Indices: 14046934--14046971 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
14046924 TATTTTTATT
*
14046934 TAAAGAAAATAAAA
1 TAAAAAAAATAAAA
14046948 TAAAAAAAAT-AAA
1 TAAAAAAAATAAAA
*
14046961 TAAAAAGAATA
1 TAAAAAAAATA
14046972 TTACATAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (14 bp):
TAAAAAAAATAAAA
Found at i:14047067 original size:5 final size:5
Alignment explanation
Indices: 14047059--14047093 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
14047049 AAACCTGGAG
*
14047059 CGGCT CGGCT CGG-A CGGCT CGGCT CGGCT CGGCT C
1 CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT CGGCT C
14047094 AAGGAAGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 3 0.11
5 24 0.89
ACGTcount: A:0.03, C:0.40, G:0.40, T:0.17
Consensus pattern (5 bp):
CGGCT
Found at i:14047078 original size:14 final size:14
Alignment explanation
Indices: 14047059--14047085 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14047049 AAACCTGGAG
14047059 CGGCTCGGCTCGGA
1 CGGCTCGGCTCGGA
14047073 CGGCTCGGCTCGG
1 CGGCTCGGCTCGG
14047086 CTCGGCTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.04, C:0.37, G:0.44, T:0.15
Consensus pattern (14 bp):
CGGCTCGGCTCGGA
Found at i:14047397 original size:20 final size:20
Alignment explanation
Indices: 14047372--14047409 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
14047362 GAACACCGGT
*
14047372 GCCGGATTCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
14047392 GCCGGAATCTGGAAATTT
1 GCCGGAATCTGGAAATTT
14047410 CACCGGAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:14047415 original size:19 final size:20
Alignment explanation
Indices: 14047373--14047417 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
14047363 AACACCGGTG
* *
14047373 CCGGATTCTGGAAATTTTCG
1 CCGGAATCTGGAAATTTTCA
14047393 CCGGAATCTGGAAA-TTTCA
1 CCGGAATCTGGAAATTTTCA
14047412 CCGGAA
1 CCGGAA
14047418 GTTGGCCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCA
Found at i:14056512 original size:14 final size:14
Alignment explanation
Indices: 14056493--14056519 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14056483 AATTTTTAAT
14056493 ATATTTAAATTTTA
1 ATATTTAAATTTTA
14056507 ATATTTAAATTTT
1 ATATTTAAATTTT
14056520 GTTATATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATATTTAAATTTTA
Found at i:14056792 original size:25 final size:26
Alignment explanation
Indices: 14056763--14056820 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
14056753 AAATAATAAC
*
14056763 AAAAATTATTATAATTGCAA-TTAAA
1 AAAAATTATTATAATTACAATTTAAA
* *
14056788 AAAAATTATTATAGTTATAATTTAAA
1 AAAAATTATTATAATTACAATTTAAA
14056814 AAAAATT
1 AAAAATT
14056821 TTAATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 17 0.59
26 12 0.41
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (26 bp):
AAAAATTATTATAATTACAATTTAAA
Found at i:14057250 original size:29 final size:27
Alignment explanation
Indices: 14057194--14057276 Score: 85
Period size: 27 Copynumber: 2.9 Consensus size: 27
14057184 TTTAATTTTA
* *
14057194 ATTTATAAAATTAATTTTTAAAAAATTT
1 ATTT-TAAATTTAATATTTAAAAAATTT
14057222 ATTTTAAATTTAATATTTAAAAATTATTT
1 ATTTTAAATTTAATATTTAAAAA--ATTT
**
14057251 ATTTTAATATAAAATATTATAAAAAA
1 ATTTTAA-ATTTAATATT-TAAAAAA
14057277 ACAAATAATC
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
27 17 0.36
28 4 0.09
29 12 0.26
30 8 0.17
31 6 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTTTAAATTTAATATTTAAAAAATTT
Found at i:14057413 original size:43 final size:44
Alignment explanation
Indices: 14057329--14057414 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 44
14057319 TACATTTTTG
14057329 CCACATATAAAATATTCACATATTTTTTTGTGTTATCGAAACTCT
1 CCACATATAAAATATTCACA-ATTTTTTTGTGTTATCGAAACTCT
* * *
14057374 CCACATATGAAATATTCAC-ATTTTTTTGTTTTATTGAAACT
1 CCACATATAAAATATTCACAATTTTTTTGTGTTATCGAAACT
14057415 TTTTAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 20 0.53
45 18 0.47
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (44 bp):
CCACATATAAAATATTCACAATTTTTTTGTGTTATCGAAACTCT
Found at i:14064541 original size:25 final size:26
Alignment explanation
Indices: 14064513--14064564 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
14064503 AAGAAAAAAA
14064513 AAAAAAAACC-AATAGCTAATCAGGT
1 AAAAAAAACCTAATAGCTAATCAGGT
* *
14064538 -AAAAAGACCTAATAGCTAATTAGGT
1 AAAAAAAACCTAATAGCTAATCAGGT
14064563 AA
1 AA
14064565 GATGAACCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 8 0.35
25 14 0.61
26 1 0.04
ACGTcount: A:0.54, C:0.13, G:0.13, T:0.19
Consensus pattern (26 bp):
AAAAAAAACCTAATAGCTAATCAGGT
Found at i:14066591 original size:59 final size:59
Alignment explanation
Indices: 14066438--14066595 Score: 174
Period size: 59 Copynumber: 2.7 Consensus size: 59
14066428 GGTTTAATTT
* * * * *
14066438 TTTGTTATAAATTTATTGTAATTTGTTTGGGTTTTGGTTACCAATGTATTGAGTTTTTG
1 TTTGTTTTATATTTGTTGAAATTTGTTTGGGTTTTGGTTACCAATGTATTAAGTTTTTG
* * *** * * *
14066497 TTGGTTATT-TATTTGTTGAAATTTGTCTATATTTTGGTTACTAATTTGTTAAGTTTTTG
1 TTTGTT-TTATATTTGTTGAAATTTGTTTGGGTTTTGGTTACCAATGTATTAAGTTTTTG
*
14066556 TTTGTTTTATATTTGTTGAAATTTATTTGGGTTTTGGTTA
1 TTTGTTTTATATTTGTTGAAATTTGTTTGGGTTTTGGTTA
14066596 TATATTTTTT
Statistics
Matches: 78, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
58 2 0.03
59 75 0.96
60 1 0.01
ACGTcount: A:0.20, C:0.03, G:0.19, T:0.59
Consensus pattern (59 bp):
TTTGTTTTATATTTGTTGAAATTTGTTTGGGTTTTGGTTACCAATGTATTAAGTTTTTG
Found at i:14069216 original size:58 final size:59
Alignment explanation
Indices: 14069035--14069267 Score: 278
Period size: 60 Copynumber: 3.9 Consensus size: 59
14069025 AATTTTAAAA
* * *
14069035 AAAATTGATACTTTCAACTTTTTCTTAAAAAT-ACCTTTTTTGAAATTTTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCTAAAAAATGA--TTTTTTGAAATTTTTATTTTCAAGG
* * * * *
14069095 AAAAATGGTACTTTCAACTTTTCCTTGAAAATAT-TTTTTTTGAAATTTTTATTTTCAACG
1 AAAATTGATACTTTCAACTTTTCC-T-AAAAAATGATTTTTTGAAATTTTTATTTTCAAGG
14069155 AAAATTGATACTTTCAACTTTTCCTAAAAAATGA-TTTTTGAAATTTTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTAAAAAATGATTTTTTGAAATTTTTATTTTCAAGG
* *
14069213 AAAATTGATA-TTGTCAA-TGTTTCCTCAAAAATGATTTTTTTGAAATCTTTATTTT
1 AAAATTGATACTT-TCAACT-TTTCCTAAAAAATGA-TTTTTTGAAATTTTTATTTT
14069268 AAAGAGATCA
Statistics
Matches: 151, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
57 3 0.02
58 57 0.38
59 1 0.01
60 84 0.56
61 1 0.01
62 5 0.03
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.48
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTAAAAAATGATTTTTTGAAATTTTTATTTTCAAGG
Done.