Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 48 of 207
Found at i:14077017 original size:16 final size:16
Alignment explanation
Indices: 14076996--14077064 Score: 84
Period size: 16 Copynumber: 4.3 Consensus size: 16
14076986 TTAATTACTG
*
14076996 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
*
14077012 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
** *
14077028 ATTACATTTCTATTTC
1 ATTACAGCTCTATTCC
*
14077044 ATTATAGCTCTATTCC
1 ATTACAGCTCTATTCC
14077060 ATTAC
1 ATTAC
14077065 CTTAGACACA
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.28, C:0.23, G:0.04, T:0.45
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:14086709 original size:34 final size:34
Alignment explanation
Indices: 14086646--14086733 Score: 160
Period size: 34 Copynumber: 2.6 Consensus size: 34
14086636 TGAAAAATCG
14086646 TTGTATATTGGTGTTTATAA-CGACTGTTCTGCC
1 TTGTATATTGGTGTTTATAACCGACTGTTCTGCC
14086679 TTGTATATTGGTGTTTATAACCGACTGTTCTGCC
1 TTGTATATTGGTGTTTATAACCGACTGTTCTGCC
*
14086713 TTGTATATTGGTGTTTGTAAC
1 TTGTATATTGGTGTTTATAAC
14086734 GTGTAAATTG
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 20 0.38
34 33 0.62
ACGTcount: A:0.18, C:0.14, G:0.22, T:0.47
Consensus pattern (34 bp):
TTGTATATTGGTGTTTATAACCGACTGTTCTGCC
Found at i:14098658 original size:11 final size:11
Alignment explanation
Indices: 14098638--14098667 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
14098628 ATTTTTTTAA
14098638 AAAAAGTATTTT
1 AAAAA-TATTTT
14098650 AAAAATATTTT
1 AAAAATATTTT
14098661 AAAAATA
1 AAAAATA
14098668 AAAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:14100636 original size:16 final size:17
Alignment explanation
Indices: 14100602--14100656 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
14100592 TTCCTAATTA
* *
14100602 GTTTAATTAATTTAGTT
1 GTTTATTTATTTTAGTT
*
14100619 GTTTGTTTATTTTA-TT
1 GTTTATTTATTTTAGTT
14100635 GTTTATTTATTTTAGTT
1 GTTTATTTATTTTAGTT
*
14100652 ATTTA
1 GTTTA
14100657 ATTTCTAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 15 0.47
17 17 0.53
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (17 bp):
GTTTATTTATTTTAGTT
Found at i:14101041 original size:7 final size:6
Alignment explanation
Indices: 14101019--14101068 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
14101009 GATACAATAT
* *
14101019 TTTTAA TTTTAA TTTTAA TTTT-- TTTAAAA TTTTAA -TTTCA TTTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTT-TAA TTTTAA TTTTAA TTTTAA
14101065 TTTT
1 TTTT
14101069 TTAGGTTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
4 3 0.08
5 4 0.11
6 26 0.72
7 3 0.08
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:14101066 original size:17 final size:16
Alignment explanation
Indices: 14101024--14101068 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
14101014 AATATTTTTA
14101024 ATTTTAATTTTAATTT
1 ATTTTAATTTTAATTT
14101040 -TTTTAAAATTTTAATTT
1 ATTTT--AATTTTAATTT
14101057 CATTTTAATTTT
1 -ATTTTAATTTT
14101069 TTAGGTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 4 0.16
17 17 0.68
19 4 0.16
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTAATTTTAATTT
Found at i:14109127 original size:260 final size:259
Alignment explanation
Indices: 14108658--14109371 Score: 1153
Period size: 260 Copynumber: 2.7 Consensus size: 259
14108648 TCCATTTTTC
* * * *
14108658 TTTGTATGAAAAAACATTTAAGACAATATACAAAGGATATAAATGTAATTTATGGATATTTTTAT
1 TTTGCATGAAAAAACATTGAGGACAATATACAAAGGATATAAATGTAATTAATGGATATTTTTAT
* * *
14108723 TAAACCAATTTGTTCGAAAAAA-ATAAGTATACAAAACAAATATACTATACTTAGGGCACTAGAT
66 TAAACCATTTTGTTCAAAAAAATATAAGTATACAAAACAAATATACTACACTTA-GGCACTAGAT
* *
14108787 CCAACATTATAATCCATAATTGATTACTCATTTTAGACTTATTGCTCTATGTAATGTTTCTTATA
130 CCAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGCTCTATGTAATGTTTCTTATA
14108852 CAAAACAAATATACTACACGTAGGACACTAGATCCAACATGATAATCCATAATTGATTACTCATT
195 CAAAACAAATATACTACACGTAGGACACTAGATCCAACATGATAATCCATAATTGATTACTCATT
* * * *
14108917 TTTGCATGCAAAAACATTGAGGACAATATACAAATGATATAAATGTAATTGATGGGTATTTTTAT
1 TTTGCATGAAAAAACATTGAGGACAATATACAAAGGATATAAATGTAATTAATGGATATTTTTAT
* *
14108982 TAAACCATTTTGTTCAAAAAAATATAAGTATAAAAAATAAATATACTACACTTAGGACACTAGAT
66 TAAACCATTTTGTTCAAAAAAATATAAGTATACAAAACAAATATACTACACTTAGG-CACTAGAT
*
14109047 CCAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGTTCTATGTAATGTTTCTTATA
130 CCAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGCTCTATGTAATGTTTCTTATA
*
14109112 CAAAACAAATATACTACACTTAGGACACTAGATCCAACATGATAATCCATAATTGATTACTCATT
195 CAAAACAAATATACTACACGTAGGACACTAGATCCAACATGATAATCCATAATTGATTACTCATT
* * *
14109177 TTTGCATGTAAAAACATTGAGTACAATATACAAAGGATATAAATGTCATTAATGGATATTTTTAT
1 TTTGCATGAAAAAACATTGAGGACAATATACAAAGGATATAAATGTAATTAATGGATATTTTTAT
* ***
14109242 TAAACTAATTTT-TTTTGAAAAATATAAGTATACAAAACAAATATACTACACTTAAGGCACTAGA
66 TAAAC-CATTTTGTTCAAAAAAATATAAGTATACAAAACAAATATACTACACTT-AGGCACTAGA
*
14109306 TCCAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGCTCTATGTAATATTTCTTAT
129 TCCAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGCTCTATGTAATGTTTCTTAT
14109371 A
194 A
14109372 AGATTGTTTT
Statistics
Matches: 421, Mismatches: 30, Indels: 7
0.92 0.07 0.02
Matches are distributed among these distances:
259 80 0.19
260 333 0.79
261 8 0.02
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (259 bp):
TTTGCATGAAAAAACATTGAGGACAATATACAAAGGATATAAATGTAATTAATGGATATTTTTAT
TAAACCATTTTGTTCAAAAAAATATAAGTATACAAAACAAATATACTACACTTAGGCACTAGATC
CAACATGATAATCCATAATTGATTACTCATTTTAGACTCATTGCTCTATGTAATGTTTCTTATAC
AAAACAAATATACTACACGTAGGACACTAGATCCAACATGATAATCCATAATTGATTACTCATT
Found at i:14112086 original size:17 final size:17
Alignment explanation
Indices: 14112064--14112122 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
14112054 TTGGGAAATG
*
14112064 GAAGAACAAGAAAAAAA
1 GAAGAAAAAGAAAAAAA
* * *
14112081 GAAGAATAAGAGAAGAA
1 GAAGAAAAAGAAAAAAA
*
14112098 GTAGAGAAAAAGAAGAAAA
1 G-A-AGAAAAAGAAAAAAA
14112117 GAAGAA
1 GAAGAA
14112123 GGGGAAGAGG
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 19 0.58
18 2 0.06
19 12 0.36
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.03
Consensus pattern (17 bp):
GAAGAAAAAGAAAAAAA
Found at i:14112135 original size:3 final size:3
Alignment explanation
Indices: 14112129--14112170 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
14112119 AGAAGGGGAA
14112129 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
14112171 AAGAAGAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:14112175 original size:3 final size:3
Alignment explanation
Indices: 14112169--14112229 Score: 104
Period size: 3 Copynumber: 20.3 Consensus size: 3
14112159 GAGGAGGAGG
*
14112169 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA ACA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
14112217 AAA AGA AGA AGA A
1 AGA AGA AGA AGA A
14112230 AAAATAGAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.69, C:0.02, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:14114087 original size:20 final size:20
Alignment explanation
Indices: 14114039--14114146 Score: 67
Period size: 20 Copynumber: 5.4 Consensus size: 20
14114029 AGATGCAAAA
* * *
14114039 CAGGGGCACCAAAGTGCAAC
1 CAGGGGCACGAGAGTGCAAT
* * *
14114059 CAAGAGCACGAGTGTGCAAT
1 CAGGGGCACGAGAGTGCAAT
*
14114079 CAGGGGCACCG-GAGTGCATT
1 CAGGGGCA-CGAGAGTGCAAT
* *
14114099 CAGGGGCAC-AAATGTGCTAT
1 CAGGGGCACGAGA-GTGCAAT
* * *
14114119 CAGGAGCACCAGAGTGCATT
1 CAGGGGCACGAGAGTGCAAT
*
14114139 TAGGGGCA
1 CAGGGGCA
14114147 TAGTTGTGCA
Statistics
Matches: 65, Mismatches: 19, Indels: 8
0.71 0.21 0.09
Matches are distributed among these distances:
19 2 0.03
20 59 0.91
21 4 0.06
ACGTcount: A:0.30, C:0.23, G:0.33, T:0.14
Consensus pattern (20 bp):
CAGGGGCACGAGAGTGCAAT
Found at i:14114155 original size:40 final size:40
Alignment explanation
Indices: 14114071--14114146 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
14114061 AGAGCACGAG
* *
14114071 TGTGCAATCAGGGGCACCGGAGTGCATTCAGGGGCACAAA
1 TGTGCAATCAGGAGCACCAGAGTGCATTCAGGGGCACAAA
* *
14114111 TGTGCTATCAGGAGCACCAGAGTGCATTTAGGGGCA
1 TGTGCAATCAGGAGCACCAGAGTGCATTCAGGGGCA
14114147 TAGTTGTGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.26, C:0.21, G:0.34, T:0.18
Consensus pattern (40 bp):
TGTGCAATCAGGAGCACCAGAGTGCATTCAGGGGCACAAA
Found at i:14114184 original size:40 final size:40
Alignment explanation
Indices: 14114140--14114254 Score: 151
Period size: 40 Copynumber: 2.9 Consensus size: 40
14114130 GAGTGCATTT
*
14114140 AGGGGCATAGTTGTGCAAACAAGG-ACACCGAATTGTTTAC
1 AGGGGCATAGTTGTGCAAAC-AGGAACACCGAAGTGTTTAC
** *
14114180 AGGGGCATAAATGTGCAAACAGGAACACCAAAGTGTTTAC
1 AGGGGCATAGTTGTGCAAACAGGAACACCGAAGTGTTTAC
* * *
14114220 AGAGGCACAGTTGTGCAAATAGGAACACCGAAGTG
1 AGGGGCATAGTTGTGCAAACAGGAACACCGAAGTG
14114255 CAATCAAGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 3 0.05
40 61 0.95
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.18
Consensus pattern (40 bp):
AGGGGCATAGTTGTGCAAACAGGAACACCGAAGTGTTTAC
Found at i:14114232 original size:80 final size:79
Alignment explanation
Indices: 14114099--14114251 Score: 184
Period size: 80 Copynumber: 1.9 Consensus size: 79
14114089 GGAGTGCATT
* * * * * *
14114099 CAGGGGCACAAATGTGCTATCAGGAGCACCAGAGTGCATTTAGGGGCATAGTTGTGCAAACAAGG
1 CAGGGGCACAAATGTGCAAACAGGAACACCAAAGTG-ATTTAGAGGCACAGTTGTGCAAA-AAGG
14114164 -ACACCGAATTGTTTA
64 AACACCGAATTGTTTA
* *
14114179 CAGGGGCATAAATGTGCAAACAGGAACACCAAAGTG-TTTACAGAGGCACAGTTGTGCAAATAGG
1 CAGGGGCACAAATGTGCAAACAGGAACACCAAAGTGATTT--AGAGGCACAGTTGTGCAAAAAGG
14114243 AACACCGAA
64 AACACCGAA
14114252 GTGCAATCAA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
78 3 0.05
79 3 0.05
80 56 0.90
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.18
Consensus pattern (79 bp):
CAGGGGCACAAATGTGCAAACAGGAACACCAAAGTGATTTAGAGGCACAGTTGTGCAAAAAGGAA
CACCGAATTGTTTA
Found at i:14115987 original size:18 final size:18
Alignment explanation
Indices: 14115954--14116006 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
14115944 ATTCACCTAA
*
14115954 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
14115973 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
14115991 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
14116007 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:14116063 original size:25 final size:24
Alignment explanation
Indices: 14116031--14116078 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
14116021 AATAATTTAA
*
14116031 TAAATAAAAATAAAATTCTAAAAC
1 TAAATAAAAATAAAAGTCTAAAAC
*
14116055 TAAACTAAAACTAAAAGTCTAAAA
1 TAAA-TAAAAATAAAAGTCTAAAA
14116079 ATAATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.65, C:0.10, G:0.02, T:0.23
Consensus pattern (24 bp):
TAAATAAAAATAAAAGTCTAAAAC
Found at i:14116116 original size:9 final size:9
Alignment explanation
Indices: 14116102--14116139 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
14116092 GTAGTGATTC
*
14116102 AATTCGATT
1 AATTCGGTT
*
14116111 AATTCGGGT
1 AATTCGGTT
14116120 AATTCGGTT
1 AATTCGGTT
14116129 AATTCGGTT
1 AATTCGGTT
14116138 AA
1 AA
14116140 ATTTTAACCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:14116810 original size:16 final size:16
Alignment explanation
Indices: 14116791--14116845 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
14116781 ATATTACGTT
14116791 ATTTTATTATTTTAAA
1 ATTTTATTATTTTAAA
**
14116807 ATTTT-TTATTTTAGG
1 ATTTTATTATTTTAAA
* *
14116822 ACTTTATCATTTTAAA
1 ATTTTATTATTTTAAA
14116838 ATTTTATT
1 ATTTTATT
14116846 TTTGTCTCTA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
15 12 0.40
16 18 0.60
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (16 bp):
ATTTTATTATTTTAAA
Found at i:14120411 original size:20 final size:20
Alignment explanation
Indices: 14120383--14120427 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
14120373 AACTTTTATT
*
14120383 CCCCAAAACTTTTTA-TTCTC
1 CCCCTAAAC-TTTTACTTCTC
14120403 CCCCTAAACTTTTACTTCTC
1 CCCCTAAACTTTTACTTCTC
14120423 CCCCT
1 CCCCT
14120428 TTACTCTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.20, C:0.42, G:0.00, T:0.38
Consensus pattern (20 bp):
CCCCTAAACTTTTACTTCTC
Found at i:14120415 original size:19 final size:19
Alignment explanation
Indices: 14120372--14120427 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
14120362 ACTTTCCTTC
*
14120372 AAACTTTTA-T-T-CCCCA
1 AAACTTTTATTCTCCCCCT
14120388 AAACTTTTTATTCTCCCCCT
1 AAAC-TTTTATTCTCCCCCT
14120408 AAACTTTTACTTCTCCCCCT
1 AAACTTTTA-TTCTCCCCCT
14120428 TTACTCTCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
16 4 0.12
17 5 0.15
18 1 0.03
19 6 0.18
20 18 0.53
ACGTcount: A:0.23, C:0.36, G:0.00, T:0.41
Consensus pattern (19 bp):
AAACTTTTATTCTCCCCCT
Found at i:14129055 original size:40 final size:40
Alignment explanation
Indices: 14128998--14129075 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
14128988 AAGTTATATA
* * * *
14128998 TGAATGCACATATGTGCCTCGATTTGGACTTTGGTACCTC
1 TGAATACACATAAGTGCCCCGATTTGGACTTTAGTACCTC
* *
14129038 TGAATACACATAAGTGCCCCTATTTGTACTTTAGTACC
1 TGAATACACATAAGTGCCCCGATTTGGACTTTAGTACC
14129076 CCTAAATGCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (40 bp):
TGAATACACATAAGTGCCCCGATTTGGACTTTAGTACCTC
Found at i:14137315 original size:17 final size:18
Alignment explanation
Indices: 14137293--14137333 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
14137283 TAATAAATGA
14137293 AAATATATAAAATT-ATT
1 AAATATATAAAATTAATT
*
14137310 AAATAT-TAAATTTAATT
1 AAATATATAAAATTAATT
*
14137327 TAATATA
1 AAATATA
14137334 AATATTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATATATAAAATTAATT
Found at i:14147384 original size:14 final size:14
Alignment explanation
Indices: 14147367--14147394 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14147357 AAGAAAGTGA
14147367 ATCTTGATTTTCTC
1 ATCTTGATTTTCTC
14147381 ATCTTGATTTTCTC
1 ATCTTGATTTTCTC
14147395 TTTCTTTCGT
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:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
ATCTTGATTTTCTC
Found at i:14147435 original size:24 final size:24
Alignment explanation
Indices: 14147403--14147450 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
14147393 TCTTTCTTTC
14147403 GTGTACGCATCTAAGGCCTTGCTA
1 GTGTACGCATCTAAGGCCTTGCTA
14147427 GTGTACGCATCTAAGGCCTTGCTA
1 GTGTACGCATCTAAGGCCTTGCTA
14147451 ACAAATTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (24 bp):
GTGTACGCATCTAAGGCCTTGCTA
Found at i:14148635 original size:21 final size:22
Alignment explanation
Indices: 14148606--14148656 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
14148596 TCTCTCTCGC
*
14148606 TTTCCTTTTCACCTTTTTCA-T
1 TTTCATTTTCACCTTTTTCACT
**
14148627 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTCACCTTTTTCACT
14148649 TTT-ATTTT
1 TTTCATTTT
14148657 TCTCTTCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.10, C:0.22, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTCATTTTCACCTTTTTCACT
Found at i:14151938 original size:14 final size:15
Alignment explanation
Indices: 14151910--14151955 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
14151900 AAAATCCTAG
*
14151910 ATCACTAAACACTAA
1 ATCACTAAACTCTAA
14151925 ATCA-TAAACTCTAA
1 ATCACTAAACTCTAA
* *
14151939 AT-ATTAAATTCTAA
1 ATCACTAAACTCTAA
14151953 ATC
1 ATC
14151956 TTATTCATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 22 0.81
15 4 0.15
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (15 bp):
ATCACTAAACTCTAA
Found at i:14157440 original size:2 final size:2
Alignment explanation
Indices: 14157433--14157461 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14157423 GTTGCTGCTT
14157433 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
14157462 TTCTACTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:14159312 original size:30 final size:30
Alignment explanation
Indices: 14159267--14159325 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
14159257 GTTTCCGTAA
*
14159267 GAAAACCTTTATGGCGAACTCTGTTAAAAT
1 GAAAACCTTTATGGCGAACTCTGATAAAAT
* * *
14159297 GAAAGCCTTTGTGGCGATCTCTGATAAAA
1 GAAAACCTTTATGGCGAACTCTGATAAAA
14159326 AAGATGCCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (30 bp):
GAAAACCTTTATGGCGAACTCTGATAAAAT
Found at i:14160914 original size:13 final size:13
Alignment explanation
Indices: 14160896--14160925 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14160886 GAAATGGGAA
14160896 AAAAACTAAAGAC
1 AAAAACTAAAGAC
*
14160909 AAAAACTAAAGAG
1 AAAAACTAAAGAC
14160922 AAAA
1 AAAA
14160926 TTATACAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.10, G:0.10, T:0.07
Consensus pattern (13 bp):
AAAAACTAAAGAC
Found at i:14171930 original size:16 final size:17
Alignment explanation
Indices: 14171909--14171941 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
14171899 TATAATCAAA
14171909 TTTCACTC-ATTCAATT
1 TTTCACTCTATTCAATT
14171925 TTTCACTCTATTCAATT
1 TTTCACTCTATTCAATT
14171942 AAATCCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTCACTCTATTCAATT
Found at i:14173998 original size:9 final size:8
Alignment explanation
Indices: 14173970--14174004 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
14173960 TCTTCTTGAA
14173970 TTCCTCTT
1 TTCCTCTT
14173978 TTCCTCTT
1 TTCCTCTT
14173986 TTCCTCATT
1 TTCCTC-TT
14173995 TTCCT-TT
1 TTCCTCTT
14174002 TTC
1 TTC
14174005 ACAATATGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 5 0.19
8 14 0.54
9 7 0.27
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (8 bp):
TTCCTCTT
Found at i:14179231 original size:34 final size:34
Alignment explanation
Indices: 14179155--14179231 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 34
14179145 ACCACAATGC
* **
14179155 CAGTAATCAGTAGGGCCTTTGCCCAATTTCAGTAA
1 CAGT-ATCAGTAGGGCCTTGGCCCAATAACAGTAA
* *
14179190 TAGTATCAGTGGGGCCTTGGCCC-ATAACAGTAA
1 CAGTATCAGTAGGGCCTTGGCCCAATAACAGTAA
14179223 CAGATATCA
1 CAG-TATCA
14179232 ATCTTGTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
33 10 0.29
34 22 0.63
35 3 0.09
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (34 bp):
CAGTATCAGTAGGGCCTTGGCCCAATAACAGTAA
Found at i:14179292 original size:29 final size:31
Alignment explanation
Indices: 14179236--14179294 Score: 86
Period size: 29 Copynumber: 1.9 Consensus size: 31
14179226 ATATCAATCT
*
14179236 TGTAGTGAACAGTATGTAATATCATTAATCGA
1 TGTAGTGAACAGTA-GTAAAATCATTAATCGA
14179268 TGTAGT-AACAGTA-TAAAATCATTAATC
1 TGTAGTGAACAGTAGTAAAATCATTAATC
14179295 AGTGCAGATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 13 0.50
31 7 0.27
32 6 0.23
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (31 bp):
TGTAGTGAACAGTAGTAAAATCATTAATCGA
Found at i:14179724 original size:27 final size:26
Alignment explanation
Indices: 14179694--14180032 Score: 338
Period size: 27 Copynumber: 12.6 Consensus size: 26
14179684 GGGTATAACA
14179694 GTCATTTTACCCTATGGGGATATTTCG
1 GTCATTTTACCCTATGGGG-TATTTCG
*
14179721 GTCATTTTACCCTATGGAGGTATTTTG
1 GTCATTTTACCCTATGG-GGTATTTCG
* **
14179748 GTAATTTTACCCTATAGGGGTATTTAA
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
14179775 GTCATTTTACCCTATGGAGGTATTTTG
1 GTCATTTTACCCTATGG-GGTATTTCG
14179802 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
* * *
14179829 GTTATTTTACCTTATGAGGGTATTTCA
1 GTCATTTTACCCTATG-GGGTATTTCG
* *
14179856 TTTATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * * **
14179883 ATTATTTTACCCTATAAGGGTATTTTT
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * * *
14179910 GTTATTTTACCTTATAAGGGTATTTCA
1 GTCATTTTACCCTAT-GGGGTATTTCG
* *
14179937 GTCTTTTTATCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
*
14179964 GTCATTTTACCCTATAGGGGTATTTCA
1 GTCATTTTACCCTAT-GGGGTATTTCG
* *
14179991 ATCATTTTACCCTCTGAGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
*
14180018 ATCATTTTA-CCTATG
1 GTCATTTTACCCTATG
14180033 TCTAAAGTCT
Statistics
Matches: 268, Mismatches: 36, Indels: 17
0.83 0.11 0.05
Matches are distributed among these distances:
26 8 0.03
27 253 0.94
28 7 0.03
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.45
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:14179743 original size:54 final size:54
Alignment explanation
Indices: 14179694--14180028 Score: 374
Period size: 54 Copynumber: 6.2 Consensus size: 54
14179684 GGGTATAACA
* *
14179694 GTCATTTTACCCTAT-GGGGATATTTCGGTCATTTTACCCTATG-GAGGTATTTTG
1 GTCATTTTACCCTATAGGGG-TATTTCAGTCATTTTACCCTATGAG-GGTATTTCG
* * *
14179748 GTAATTTTACCCTATAGGGGTATTTAAGTCATTTTACCCTATG-GAGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATGAG-GGTATTTCG
* * * *
14179802 GTCATTTTACCCTAT-GAGGGTATTTCGGTTATTTTACCTTATGAGGGTATTTCA
1 GTCATTTTACCCTATAG-GGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCG
* * * * * **
14179856 TTTATTTTACCCTATGGGGGTATTTC-GATTATTTTACCCTATAAGGGTATTTTT
1 GTCATTTTACCCTATAGGGGTATTTCAG-TCATTTTACCCTATGAGGGTATTTCG
* * * * *
14179910 GTTATTTTACCTTATAAGGGTATTTCAGTCTTTTTATCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCG
* *
14179964 GTCATTTTACCCTATAGGGGTATTTCAATCATTTTACCCTCTGAGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCG
*
14180018 ATCATTTTACC
1 GTCATTTTACC
14180029 TATGTCTAAA
Statistics
Matches: 241, Mismatches: 34, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
53 2 0.01
54 232 0.96
55 7 0.03
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.45
Consensus pattern (54 bp):
GTCATTTTACCCTATAGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCG
Found at i:14179998 original size:81 final size:79
Alignment explanation
Indices: 14179692--14180032 Score: 389
Period size: 81 Copynumber: 4.2 Consensus size: 79
14179682 AGGGGTATAA
* *
14179692 CAGTCATTTTACCCTATGGGGATATTTCGGTCATTTTACCCTATGGAGGTATTTTGGTAATTTTA
1 CAGTCATTTTACCCTATGGGG-TATTTCGGTCATTTTACCCTATGG-GGTATTTCGGTTATTTTA
*
14179757 CCCTATAGGGGTATTT
64 CCCTATAAGGGTATTT
* *
14179773 AAGTCATTTTACCCTATGGAGGTATTTTGGTCATTTTACCCTATGAGGGTATTTCGGTTATTTTA
1 CAGTCATTTTACCCTATGG-GGTATTTCGGTCATTTTACCCTATG-GGGTATTTCGGTTATTTTA
* *
14179838 CCTTATGAGGGTATTT
64 CCCTATAAGGGTATTT
* * * * * **
14179854 CATTTATTTTACCCTATGGGGGTATTTCGATTATTTTACCCTATAAGGGTATTTTTGTTATTTTA
1 CAGTCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTCGGTTATTTTA
*
14179919 CCTTATAAGGGTATTT
64 CCCTATAAGGGTATTT
* * ** *
14179935 CAGTCTTTTTATCCTATGAGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCAATCATTTTA
1 CAGTCATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTCGGTTATTTTA
* *
14180000 CCCTCTGAGGGTATTT
64 CCCTATAAGGGTATTT
14180016 C-GATCATTTTA-CCTATG
1 CAG-TCATTTTACCCTATG
14180033 TCTAAAGTCT
Statistics
Matches: 222, Mismatches: 32, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
80 8 0.04
81 209 0.94
82 5 0.02
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.45
Consensus pattern (79 bp):
CAGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATGGGGTATTTCGGTTATTTTACC
CTATAAGGGTATTT
Found at i:14186337 original size:6 final size:6
Alignment explanation
Indices: 14186326--14186364 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
14186316 ACAATTACAG
14186326 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAA
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAA
14186365 TACGGACTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (6 bp):
TAAGTT
Found at i:14190771 original size:2 final size:2
Alignment explanation
Indices: 14190766--14190790 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14190756 AATCTAATTT
14190766 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 T
14190791 TTACTGACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14193773 original size:31 final size:31
Alignment explanation
Indices: 14193701--14193773 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
14193691 CAAACTGGTA
*
14193701 ATTGAACTATTCGAAAGTTTTCATTTAAGTT
1 ATTGAACTATTCGAAAGTTTTCATTTAAGTC
* * *
14193732 ACTGAACTATTTGAAAGTTTTTATTTAAGTC
1 ATTGAACTATTCGAAAGTTTTCATTTAAGTC
*
14193763 ATTGAGCTATT
1 ATTGAACTATT
14193774 AAGGGTGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.45
Consensus pattern (31 bp):
ATTGAACTATTCGAAAGTTTTCATTTAAGTC
Found at i:14199672 original size:26 final size:27
Alignment explanation
Indices: 14199649--14199724 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 27
14199639 AAATTCAATG
*
14199649 TATATAATTA-TAAAAATTTATCAAAT
1 TATAAAATTATTAAAAATTTATCAAAT
*
14199675 TATAAAATTATTAACAATTTAT-AAATT
1 TATAAAATTATTAAAAATTTATCAAA-T
14199702 TATCAAAAATTATTAAAATATTT
1 TAT--AAAATTATTAAAA-ATTT
14199725 TTTTTTATAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 12 0.29
27 14 0.33
29 12 0.29
30 4 0.10
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (27 bp):
TATAAAATTATTAAAAATTTATCAAAT
Found at i:14199677 original size:18 final size:18
Alignment explanation
Indices: 14199654--14199708 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
14199644 CAATGTATAT
14199654 AATTATAAAAATTTATCA
1 AATTATAAAAATTTATCA
* *
14199672 AATTATAAAATTATTAAC-
1 AATTATAAAAAT-TTATCA
*
14199690 AATT-TATAAATTTATCA
1 AATTATAAAAATTTATCA
14199707 AA
1 AA
14199709 AATTATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
16 4 0.13
17 7 0.23
18 15 0.50
19 4 0.13
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (18 bp):
AATTATAAAAATTTATCA
Found at i:14199698 original size:19 final size:19
Alignment explanation
Indices: 14199654--14199720 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
14199644 CAATGTATAT
* *
14199654 AATTATAAAAAT-TTATCA
1 AATTATAAAATTATTAACA
14199672 AATTATAAAATTATTAACA
1 AATTATAAAATTATTAACA
* * *
14199691 ATTTATAAATTTATCAA-A
1 AATTATAAAATTATTAACA
14199709 AATTATTAAAAT
1 AATTA-TAAAAT
14199721 ATTTTTTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
18 16 0.40
19 24 0.60
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTATAAAATTATTAACA
Found at i:14208832 original size:16 final size:16
Alignment explanation
Indices: 14208811--14208841 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14208801 TTCAGTATAA
*
14208811 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
14208827 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
14208842 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:14209909 original size:40 final size:41
Alignment explanation
Indices: 14209861--14209940 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 41
14209851 AATTTGGGAA
14209861 TAATTTAATTGAGTCAATTTATTCG-ATGGAATTAAATTGT
1 TAATTTAATTGAGTCAATTTATTCGAATGGAATTAAATTGT
*
14209901 TAATTTAATTGAGTCAATTTATTTGATATGGAATTAAATT
1 TAATTTAATTGAGTCAATTTATTCGA-ATGGAATTAAATT
14209941 AGGTGGTCGT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
40 24 0.65
42 13 0.35
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (41 bp):
TAATTTAATTGAGTCAATTTATTCGAATGGAATTAAATTGT
Found at i:14210567 original size:11 final size:11
Alignment explanation
Indices: 14210493--14210567 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
14210483 ATTCAAAAAA
*
14210493 TAATATTATTT
1 TAATATTAATT
14210504 TAATAGTTTAATT
1 TAATA--TTAATT
14210517 TAA-ATTTAATT
1 TAATA-TTAATT
14210528 TAATAATT-ATCT
1 TAAT-ATTAAT-T
*
14210540 TAATAGT-ATT
1 TAATATTAATT
14210550 T--TATTAATT
1 TAATATTAATT
14210559 TAATATTAA
1 TAATATTAA
14210568 AGTGATTATC
Statistics
Matches: 53, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 27 0.51
12 8 0.15
13 9 0.17
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:14217235 original size:37 final size:39
Alignment explanation
Indices: 14217179--14217290 Score: 129
Period size: 40 Copynumber: 2.9 Consensus size: 39
14217169 TGTATATATC
**
14217179 ACTTCGAATTTATTCGATGAGGCACTAGGTGCCAA-TT-T
1 ACTTCGAA-TTAACCGATGAGGCACTAGGTGCCAATTTAT
** * *
14217217 ACTTCGGTTTAACCGATGAGACACTAGGTGTCAATTTACT
1 ACTTCGAATTAACCGATGAGGCACTAGGTGCCAATTTA-T
*
14217257 ACTTCGAATTATCCGATGAGGCACTAGGTGCCAA
1 ACTTCGAATTAACCGATGAGGCACTAGGTGCCAA
14217291 ACTGGTGTGT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
37 22 0.37
38 8 0.13
40 30 0.50
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (39 bp):
ACTTCGAATTAACCGATGAGGCACTAGGTGCCAATTTAT
Found at i:14217273 original size:40 final size:39
Alignment explanation
Indices: 14217155--14217286 Score: 128
Period size: 40 Copynumber: 3.4 Consensus size: 39
14217145 ACTTCGAGTT
* * *
14217155 GATGAGACACTGGGTGT--ATATATCACTTCGAATTTATTC
1 GATGAGACACTAGGTGTCAATTTAT-ACTTCGAA-TTATCC
* * ** *
14217194 GATGAGGCACTAGGTGCCAA-TT-TACTTCGGTTTAACC
1 GATGAGACACTAGGTGTCAATTTATACTTCGAATTATCC
14217231 GATGAGACACTAGGTGTCAATTTACTACTTCGAATTATCC
1 GATGAGACACTAGGTGTCAATTTA-TACTTCGAATTATCC
*
14217271 GATGAGGCACTAGGTG
1 GATGAGACACTAGGTG
14217287 CCAAACTGGT
Statistics
Matches: 74, Mismatches: 14, Indels: 9
0.76 0.14 0.09
Matches are distributed among these distances:
37 22 0.30
38 8 0.11
39 15 0.20
40 28 0.38
41 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (39 bp):
GATGAGACACTAGGTGTCAATTTATACTTCGAATTATCC
Found at i:14220864 original size:29 final size:29
Alignment explanation
Indices: 14220831--14220889 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
14220821 ATTTAATAGT
*
14220831 TTAATATTAGATTTTATTTAATACTTATC
1 TTAATATTAGATTTAATTTAATACTTATC
* *
14220860 TTAATATTATATTTAATTTAATATTTATC
1 TTAATATTAGATTTAATTTAATACTTATC
14220889 T
1 T
14220890 ACAAGATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (29 bp):
TTAATATTAGATTTAATTTAATACTTATC
Found at i:14227648 original size:41 final size:41
Alignment explanation
Indices: 14227603--14227701 Score: 162
Period size: 41 Copynumber: 2.4 Consensus size: 41
14227593 TCAGAACACT
* *
14227603 GGCATTAAGCTTGCTAGACATGAAGTCTGAAATATTTCACC
1 GGCATTAAGCCTGCTAGACATAAAGTCTGAAATATTTCACC
**
14227644 GGCATTAAGCCTGCTAGATGTAAAGTCTGAAATATTTCACC
1 GGCATTAAGCCTGCTAGACATAAAGTCTGAAATATTTCACC
14227685 GGCATTAAGCCTGCTAG
1 GGCATTAAGCCTGCTAG
14227702 GCACAGAGCC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (41 bp):
GGCATTAAGCCTGCTAGACATAAAGTCTGAAATATTTCACC
Found at i:14227715 original size:41 final size:40
Alignment explanation
Indices: 14227603--14227715 Score: 133
Period size: 41 Copynumber: 2.8 Consensus size: 40
14227593 TCAGAACACT
*
14227603 GGCATTAAGCTTGCTA-GACATGAAGTCTGAAATATTTCACC
1 GGCATTAAGCCTGCTAGGACA-G-AGTCTGAAATATTTCACC
14227644 GGCATTAAGCCTGCTAGATGTA-A-AGTCTGAAATATTTCACC
1 GGCATTAAGCCTGCTAG--G-ACAGAGTCTGAAATATTTCACC
*
14227685 GGCATTAAGCCTGCTAGGCACAGAGCCTGAA
1 GGCATTAAGCCTGCTAGG-ACAGAGTCTGAA
14227716 TAACTCAAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
39 2 0.03
40 1 0.02
41 57 0.90
44 2 0.03
45 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (40 bp):
GGCATTAAGCCTGCTAGGACAGAGTCTGAAATATTTCACC
Found at i:14230687 original size:37 final size:37
Alignment explanation
Indices: 14230643--14230717 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
14230633 ACGTGTCCTG
14230643 AAAGTAGAGGCTTAAAAATAAAATTTGTAGAAAACTT
1 AAAGTAGAGGCTTAAAAATAAAATTTGTAGAAAACTT
*
14230680 AAAGTAGAGGCTTAAAAATAGAATTTGTAGAAAACTT
1 AAAGTAGAGGCTTAAAAATAAAATTTGTAGAAAACTT
14230717 A
1 A
14230718 CTCTTAGAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.51, C:0.05, G:0.17, T:0.27
Consensus pattern (37 bp):
AAAGTAGAGGCTTAAAAATAAAATTTGTAGAAAACTT
Found at i:14233179 original size:42 final size:43
Alignment explanation
Indices: 14233119--14233226 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 43
14233109 GAAATAAAGG
* * *
14233119 CCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTCCCACAAACA
1 CCGCTAAA-AACATGACCTTTAACGACGCTTTTTCCCACAAACA
** *
14233162 CCGCTAAAAACATGACCTTTAACGACGCTTTTTGTCACAAACG
1 CCGCTAAAAACATGACCTTTAACGACGCTTTTTCCCACAAACA
*
14233205 CCGCTAAAAACATAACCTTTAA
1 CCGCTAAAAACATGACCTTTAA
14233227 TTTAATCAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 17 0.30
43 40 0.70
ACGTcount: A:0.33, C:0.31, G:0.13, T:0.23
Consensus pattern (43 bp):
CCGCTAAAAACATGACCTTTAACGACGCTTTTTCCCACAAACA
Found at i:14236982 original size:41 final size:41
Alignment explanation
Indices: 14236925--14237011 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 41
14236915 TTATATGGAT
* *
14236925 AAAAATTTTATATGGATAAGCTCGTATAACAAAGTCGGCCC
1 AAAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCC
*
14236966 AAAATTTTTATATGGATATGCCCGTATAACAAAGTCGGCCC
1 AAAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCC
14237007 AAAAT
1 AAAAT
14237012 CGTAGAACTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (41 bp):
AAAATTTTTATATGGATAAGCCCGTATAACAAAGTCGGCCC
Found at i:14237276 original size:24 final size:25
Alignment explanation
Indices: 14237230--14237277 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
14237220 GTCTTTTCTT
14237230 TAAAAGTATATAAATATTATAAAAA
1 TAAAAGTATATAAATATTATAAAAA
*
14237255 TAAAAGT-T-TAACATATTTTAAAA
1 TAAAAGTATATAA-ATATTATAAAA
14237278 TTCATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 11 0.52
25 7 0.33
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
TAAAAGTATATAAATATTATAAAAA
Found at i:14238864 original size:41 final size:41
Alignment explanation
Indices: 14238819--14239014 Score: 293
Period size: 41 Copynumber: 4.8 Consensus size: 41
14238809 AGATTTTATT
* *
14238819 ATTAGCGGCGCTTTTTCAAAAACGCTGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCACGAGC
* * * *
14238860 ATTAGCGGCGCTTTTCCAAAAATGCCGCAAAAGGTACGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCACGAGC
* *
14238901 ATTAGCGGTGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCACGAGC
* *
14238942 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCACGAGC
*
14238983 ATTAGCAGCGCTTTTTCAAAAACGCCGCTAAA
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAA
14239015 TGCCCTAAAA
Statistics
Matches: 141, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 141 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCACGAGC
Found at i:14239206 original size:42 final size:40
Alignment explanation
Indices: 14239094--14239188 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
14239084 AATGCTTATT
* *
14239094 TTTAGCGGTGTTTTT-CAAAATGCGCCGCTAATGCTCGATC
1 TTTAGCGGCGTTTTTGTAAAA-GCGCCGCTAATGCTCGATC
* *
14239134 TTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGCTTGATT
1 TTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGCTCGATC
*
14239174 TTTAGTGGCGTTTTT
1 TTTAGCGGCGTTTTT
14239189 TTATCCAAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
40 45 0.92
41 4 0.08
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.40
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGCTCGATC
Found at i:14248821 original size:18 final size:18
Alignment explanation
Indices: 14248800--14248834 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14248790 TAAATGCATT
*
14248800 TATTTATTAAATTAAATA
1 TATTAATTAAATTAAATA
14248818 TATTAATTAAATTAAAT
1 TATTAATTAAATTAAAT
14248835 GTATATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTAATTAAATTAAATA
Found at i:14249231 original size:94 final size:95
Alignment explanation
Indices: 14249060--14249390 Score: 355
Period size: 95 Copynumber: 3.5 Consensus size: 95
14249050 GTGTTTTTAA
* * ** * *
14249060 GTTTAGGG-TTTTAGAGAAAAAATTAAATAAA-TAGGGTTTAGGGTTTGTCAATTAAATTAATTA
1 GTTTAGGGTTTTTA-AGAAAAAATCAAATAAATTAGGATTTAGGGTTAATTAAGTAAATTAATTA
* *
14249123 TAAATTTTTTAAAATTAGATTA-GGTTTCGT
65 TAAATTTTTAAAAATTAGATTAGGGTTTAGT
** * * * *
14249153 GTTTATTGTTTTTAAGAAAAAATCAATTAAATTAGGATTTAGGGTTACTTAAGTAATTTAATTAA
1 GTTTAGGGTTTTTAAGAAAAAATCAAATAAATTAGGATTTAGGGTTAATTAAGTAAATTAATTAT
** * **
14249218 AAAAATTTAAAAATCAGATTAGGGTTTAAA
66 AAATTTTTAAAAATTAGATTAGGGTTTAGT
* * * *
14249248 GTTAAGGGTTTTTAAGAAAAAATCAAATAAATTA-GAGTTCAAGGTTAATTGAGTAAATTAATTA
1 GTTTAGGGTTTTTAAGAAAAAATCAAATAAATTAGGA-TTTAGGGTTAATTAAGTAAATTAATTA
14249312 TAAATTTTTAAAAAATTAGATTAGGGTTTAGT
65 TAAATTTTT-AAAAATTAGATTAGGGTTTAGT
* * * *
14249344 GTTTAGGGTTTTTCAGTAAAAACTCAAATAAATTAGGGTTTGGGGTT
1 GTTTAGGGTTTTTAAG-AAAAAATCAAATAAATTAGGATTTAGGGTT
14249391 TAGGGTTACT
Statistics
Matches: 191, Mismatches: 40, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
93 21 0.11
94 50 0.26
95 63 0.33
96 33 0.17
97 23 0.12
98 1 0.01
ACGTcount: A:0.40, C:0.03, G:0.18, T:0.39
Consensus pattern (95 bp):
GTTTAGGGTTTTTAAGAAAAAATCAAATAAATTAGGATTTAGGGTTAATTAAGTAAATTAATTAT
AAATTTTTAAAAATTAGATTAGGGTTTAGT
Found at i:14255059 original size:61 final size:61
Alignment explanation
Indices: 14254984--14255105 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
14254974 TGTTTGTTAT
*
14254984 TCAAAAGCAGAGTATGTGTTCCAAAAAATTCAGAGCTAATACAGAAGATTTTACATAAAGC
1 TCAAAAGCAGAGTATGTGTTCCAAAAAATTCAGAGCTAATACAAAAGATTTTACATAAAGC
* *
14255045 TCAAAGGCAGAGTATGTGTTCCAAAGAATTCAGAGCTAATACAAAAGATTTTACATAAAGC
1 TCAAAAGCAGAGTATGTGTTCCAAAAAATTCAGAGCTAATACAAAAGATTTTACATAAAGC
14255106 ACATAGTGGT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (61 bp):
TCAAAAGCAGAGTATGTGTTCCAAAAAATTCAGAGCTAATACAAAAGATTTTACATAAAGC
Found at i:14257232 original size:6 final size:6
Alignment explanation
Indices: 14257211--14257243 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
14257201 ATATGTAAAT
14257211 TGAAT- TGAAT- TGAATG TGAATG TGAATG TGAAT
1 TGAATG TGAATG TGAATG TGAATG TGAATG TGAAT
14257244 TTTATTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (6 bp):
TGAATG
Found at i:14257238 original size:12 final size:11
Alignment explanation
Indices: 14257203--14257244 Score: 59
Period size: 12 Copynumber: 3.8 Consensus size: 11
14257193 TTTGCCTAAT
*
14257203 ATGTAAATTGA
1 ATGTGAATTGA
14257214 AT-TGAATTGA
1 ATGTGAATTGA
14257224 ATGTGAATGTGA
1 ATGTGAAT-TGA
14257236 ATGTGAATT
1 ATGTGAATT
14257245 TTATTAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 9 0.32
11 8 0.29
12 11 0.39
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (11 bp):
ATGTGAATTGA
Found at i:14257768 original size:25 final size:25
Alignment explanation
Indices: 14257731--14257788 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
14257721 GCTCTTTGTA
* *
14257731 AGCTTCCCGATACGTGGCTATCTGG
1 AGCTTCCCAATACATGGCTATCTGG
* **
14257756 AGCTTCTCAATACATGGCTATCTAT
1 AGCTTCCCAATACATGGCTATCTGG
14257781 AGCTTCCC
1 AGCTTCCC
14257789 GATTAATGAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (25 bp):
AGCTTCCCAATACATGGCTATCTGG
Found at i:14257856 original size:23 final size:24
Alignment explanation
Indices: 14257814--14257864 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
14257804 GGAGCTACTC
* *
14257814 GTTATAGGCTCGTATGAGCTTCCT
1 GTTATAGGCTCGGATAAGCTTCCT
14257838 GTTATA-GCTCGGATAAGCTTCCT
1 GTTATAGGCTCGGATAAGCTTCCT
14257861 GTTA
1 GTTA
14257865 CATGGCTCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.37
Consensus pattern (24 bp):
GTTATAGGCTCGGATAAGCTTCCT
Found at i:14257881 original size:25 final size:23
Alignment explanation
Indices: 14257827--14257884 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
14257817 ATAGGCTCGT
**
14257827 ATGAGCTTCCTGTTATAGCTCGG
1 ATGAGCTTCCTGTTATAGCTCAC
* *
14257850 ATAAGCTTCCTGTTACATGGCTCAC
1 ATGAGCTTCCTGTT--ATAGCTCAC
14257875 ATGAGCTTCC
1 ATGAGCTTCC
14257885 CGTTTATGTG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 13 0.46
25 15 0.54
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.33
Consensus pattern (23 bp):
ATGAGCTTCCTGTTATAGCTCAC
Found at i:14260199 original size:29 final size:30
Alignment explanation
Indices: 14260147--14260210 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
14260137 TTAAATTTTT
*
14260147 TTAAAAATATAAAAAAAA-CTAAAAAATCA
1 TTAAAAATATAAAAAAAACCAAAAAAATCA
* *
14260176 TTAAAAAT-TAAAAAAAGTCCAAAAAAATCT
1 TTAAAAATATAAAAAAA-ACCAAAAAAATCA
14260206 TTAAA
1 TTAAA
14260211 CTCTGAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 8 0.27
29 8 0.27
30 14 0.47
ACGTcount: A:0.67, C:0.08, G:0.02, T:0.23
Consensus pattern (30 bp):
TTAAAAATATAAAAAAAACCAAAAAAATCA
Found at i:14261059 original size:42 final size:43
Alignment explanation
Indices: 14260985--14261066 Score: 105
Period size: 42 Copynumber: 1.9 Consensus size: 43
14260975 TTTTGCAATG
* * *
14260985 GTGAGGAGTGAGAGGGAACGGAGAGGTGGTGAA-ATTGGAAGA
1 GTGAGGAGTGAGAGGGAAAGGAGAGATAGTGAAGATTGGAAGA
*
14261027 GTGAGGAGTGAGA-GGAAAGGTGATGATAGTGAAGATTGGA
1 GTGAGGAGTGAGAGGGAAAGGAGA-GATAGTGAAGATTGGA
14261067 CACAATGGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 8 0.24
42 20 0.59
43 6 0.18
ACGTcount: A:0.34, C:0.01, G:0.48, T:0.17
Consensus pattern (43 bp):
GTGAGGAGTGAGAGGGAAAGGAGAGATAGTGAAGATTGGAAGA
Found at i:14263927 original size:19 final size:19
Alignment explanation
Indices: 14263888--14263923 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14263878 CATTCTAAAC
*
14263888 ATAATTTTTAATAATTTTA
1 ATAATTTCTAATAATTTTA
14263907 ATAATTTCT-ATAATTTT
1 ATAATTTCTAATAATTTT
14263924 TAATGCTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
ATAATTTCTAATAATTTTA
Found at i:14264392 original size:11 final size:11
Alignment explanation
Indices: 14264370--14264419 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
14264360 AATTATTTTA
*
14264370 TCAATTTCCTC
1 TCAAATTCCTC
*
14264381 TCAAATTGCTC
1 TCAAATTCCTC
14264392 TCAAATTCCT-
1 TCAAATTCCTC
*
14264402 TCCAAATTTCTC
1 T-CAAATTCCTC
14264414 TCAAAT
1 TCAAAT
14264420 CCATATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 1 0.03
11 31 0.94
12 1 0.03
ACGTcount: A:0.28, C:0.30, G:0.02, T:0.40
Consensus pattern (11 bp):
TCAAATTCCTC
Found at i:14264441 original size:51 final size:51
Alignment explanation
Indices: 14264379--14264478 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
14264369 ATCAATTTCC
14264379 TCTCAAATTGCTCTCAAATTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAAATTGCTCTCAAATTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * * * *
14264430 TCTCAATTTGCTCTCAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAAATTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTT
14264479 TTAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.02, T:0.44
Consensus pattern (51 bp):
TCTCAAATTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:14264826 original size:125 final size:124
Alignment explanation
Indices: 14264575--14264878 Score: 432
Period size: 125 Copynumber: 2.4 Consensus size: 124
14264565 TCGTCTTGAT
* * * **
14264575 AAGCGCATCCACGTGGGCGCGATTTCACAAATTCTTCTGATAAAGCATATTGCTTGAAGCGTTTT
1 AAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTGATAAAGCATCCTGCTTGAAGCGTTTT
* *
14264640 TATACTATTTGCTCAGAAACATCAACTCGAAATTTTTTTTCCAGGACCTACTGTAGCAA
66 TATACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCACGACCTACTGTAGCAA
* *
14264699 AAGCGTGTCCACGAGGGCGTGATTTCACAAATTCTTCTGATAAAGCATCCTGCTTGAAGCATTTT
1 AAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTGATAAAGCATCCTGCTTGAAGC-GTTT
* * *
14264764 TTATACTATTTTCTCAGAAACGTCAACTCGAAATTATTTTTGCACGACCTACTGTAGCAA
65 TTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCACGACCTACTGTAGCAA
* * *
14264824 AAGCGCGTACACGTA-GGCGTAACTTT-AGAAATTCTTCTGATAAAGCATCCTGCTT
1 AAGCGCGTCCACG-AGGGCGTGA-TTTCACAAATTCTTCTGATAAAGCATCCTGCTT
14264879 TGATTTTATC
Statistics
Matches: 161, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
124 54 0.34
125 103 0.64
126 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (124 bp):
AAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTGATAAAGCATCCTGCTTGAAGCGTTTT
TATACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCACGACCTACTGTAGCAA
Found at i:14265041 original size:21 final size:22
Alignment explanation
Indices: 14265000--14265042 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14264990 TCTCCAAAAT
**
14265000 CCTAAAAACCCTAAACACTAAC
1 CCTAAAAACCAAAAACACTAAC
14265022 CCTAAAAACCAAAAAC-CTAAC
1 CCTAAAAACCAAAAACACTAAC
14265043 GTGGGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.53, C:0.35, G:0.00, T:0.12
Consensus pattern (22 bp):
CCTAAAAACCAAAAACACTAAC
Found at i:14266227 original size:96 final size:95
Alignment explanation
Indices: 14266104--14266420 Score: 401
Period size: 96 Copynumber: 3.3 Consensus size: 95
14266094 GTTTTTAGAT
* * * * * * * *
14266104 TTTAGGG-TTTTAAAGAAAAGATTAAATAAATAAGGGTTTAGGTTTTCTTAATTAAATTAATTAT
1 TTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
14266168 AAATTTTAAAAATTAGATTAGGGTTTAGCG
66 AAATTTTAAAAATTAGATTAGGGTTTAGCG
* *
14266198 TTTATGATTTTTAAGGAAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTA
1 TTTAGGGTTTTTAAGG-AAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTA
* * *
14266263 TAAATTTAAAAAAAATT-GATTAGTGTTTAGGG
65 TAAATTT--TAAAAATTAGATTAGGGTTTAGCG
*
14266295 TTTAGGGGTTTTAAGGAAAAAATCAAATAAATTA-GGTTTAGGGTTACTTGAGTAAATTAATTAT
1 TTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
**
14266359 AAATTTTGAAAAAATTAGATT-GGAGTTTAGTA
66 AAATTTT--AAAAATTAGATTAGG-GTTTAGCG
14266391 TTTAGGGTTTTTAAGG-AAAAATCAAATAAA
1 TTTAGGGTTTTTAAGGAAAAAATCAAATAAA
14266421 AGTAGTTGTT
Statistics
Matches: 194, Mismatches: 21, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
94 5 0.03
95 65 0.34
96 91 0.47
97 26 0.13
98 7 0.04
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (95 bp):
TTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT
AAATTTTAAAAATTAGATTAGGGTTTAGCG
Found at i:14273104 original size:37 final size:37
Alignment explanation
Indices: 14273062--14273149 Score: 140
Period size: 37 Copynumber: 2.4 Consensus size: 37
14273052 TGGAGAGTTG
* *
14273062 TTTTCTTGATATTATTTGAGATTGATTCAAAAGTTTA
1 TTTTCTTGATATTATTTAAGATTGATTCAAAAGGTTA
* *
14273099 TTTTCTTAATATTATTTAAGATTGATTCAAAGGGTTA
1 TTTTCTTGATATTATTTAAGATTGATTCAAAAGGTTA
14273136 TTTTCTTGATATTA
1 TTTTCTTGATATTA
14273150 ATGTTGTTTG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (37 bp):
TTTTCTTGATATTATTTAAGATTGATTCAAAAGGTTA
Found at i:14273602 original size:5 final size:5
Alignment explanation
Indices: 14273592--14273617 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14273582 TTATCTTTTA
14273592 TTAAT TTAAT TTAAT TTAAT TTAAT T
1 TTAAT TTAAT TTAAT TTAAT TTAAT T
14273618 AGAGATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTAAT
Found at i:14275889 original size:2 final size:2
Alignment explanation
Indices: 14275882--14275911 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14275872 TTTTTACCCA
14275882 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14275912 CAAGAAAATT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14293372 original size:35 final size:35
Alignment explanation
Indices: 14293333--14293501 Score: 205
Period size: 35 Copynumber: 4.8 Consensus size: 35
14293323 GTTTCAGTTA
14293333 GATTAGCTCTTATGAGCATTGGCGTGTTACGATTG
1 GATTAGCTCTTATGAGCATTGGCGTGTTACGATTG
* * *
14293368 GATTAGCTCTTATGAGCATT-GCTCTGCTACGGTTG
1 GATTAGCTCTTATGAGCATTGGC-GTGTTACGATTG
* * * *
14293403 GACTAGCTCTTATGAGCACTGGCGTGTTTCGGTTG
1 GATTAGCTCTTATGAGCATTGGCGTGTTACGATTG
* * * *
14293438 GACTAGCTCTTATGAGCACTAGCGTGTTTCGATTG
1 GATTAGCTCTTATGAGCATTGGCGTGTTACGATTG
* *
14293473 AATTAGCTCTTATGAGCATTGGTGTGTTA
1 GATTAGCTCTTATGAGCATTGGCGTGTTA
14293502 TGGTTGGGTT
Statistics
Matches: 116, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
34 2 0.02
35 112 0.97
36 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.37
Consensus pattern (35 bp):
GATTAGCTCTTATGAGCATTGGCGTGTTACGATTG
Found at i:14296967 original size:21 final size:21
Alignment explanation
Indices: 14296926--14296968 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
14296916 AGGTAAGTTG
14296926 ATTTGTTATGATTGTGATTAA
1 ATTTGTTATGATTGTGATTAA
14296947 ATTT-TTATGTATT-TGAGTTAA
1 ATTTGTTATG-ATTGTGA-TTAA
14296968 A
1 A
14296969 AATATTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.53
Consensus pattern (21 bp):
ATTTGTTATGATTGTGATTAA
Found at i:14304215 original size:45 final size:45
Alignment explanation
Indices: 14304153--14304278 Score: 189
Period size: 45 Copynumber: 2.8 Consensus size: 45
14304143 CAAAAGATGG
* * *
14304153 CATAACATTTTTTAGCTATGGTCTTATTCATTTTTATCATGACGC
1 CATAACATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACGC
* *
14304198 CATAATATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACGT
1 CATAACATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACGC
**
14304243 CATAACATCTTTCAGCTATAATCTTACTCATTTTTA
1 CATAACATCTTTCAGCTATGGTCTTACTCATTTTTA
14304279 GGCGTATAAC
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 73 1.00
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.45
Consensus pattern (45 bp):
CATAACATCTTTCAGCTATGGTCTTACTCATTTTTATCATGACGC
Found at i:14309069 original size:4 final size:4
Alignment explanation
Indices: 14309060--14309085 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
14309050 CCTAGGGATG
14309060 TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TT
14309086 ACGGCCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:14312733 original size:19 final size:19
Alignment explanation
Indices: 14312695--14312739 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
14312685 ATCAGGTATT
* *
14312695 GATACTAGGCAAGGGTATC
1 GATACCAGGCAAGGGCATC
*
14312714 GATACCAGGCAGGGGCATC
1 GATACCAGGCAAGGGCATC
14312733 GATACCA
1 GATACCA
14312740 TATAGAACGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.31, T:0.16
Consensus pattern (19 bp):
GATACCAGGCAAGGGCATC
Found at i:14316062 original size:17 final size:19
Alignment explanation
Indices: 14316025--14316063 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
14316015 ATACAATTTA
*
14316025 TTATTTTAATATTTCAATT
1 TTATTTTAATATATCAATT
14316044 TTATTTTAATA-AT-AATT
1 TTATTTTAATATATCAATT
14316061 TTA
1 TTA
14316064 AATGATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATTTTAATATATCAATT
Found at i:14317366 original size:9 final size:9
Alignment explanation
Indices: 14317329--14317413 Score: 53
Period size: 9 Copynumber: 9.0 Consensus size: 9
14317319 ATTTAAAATT
*
14317329 TTATTAAAA
1 TTATAAAAA
*
14317338 TTCTATAAAA
1 TTATA-AAAA
14317348 TTCATAAAAA
1 TT-ATAAAAA
14317358 TTATAAAAA
1 TTATAAAAA
** * *
14317367 AAATTAGAA
1 TTATAAAAA
* *
14317376 GTATTAAAA
1 TTATAAAAA
*
14317385 TTGATATAAAC
1 TT-ATA-AAAA
14317396 TTATAAAAA
1 TTATAAAAA
14317405 TTATAAAAA
1 TTATAAAAA
14317414 AATCATAAAA
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
9 34 0.59
10 17 0.29
11 7 0.12
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (9 bp):
TTATAAAAA
Found at i:14317430 original size:47 final size:47
Alignment explanation
Indices: 14317331--14317430 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 47
14317321 TTAAAATTTT
* * **
14317331 ATTAAAATTCTATAAAATTCATAAAAATTATAAAAAAAATTAGAAGT
1 ATTAAAATTATATAAAATTCATAAAAATTATAAAAAAAATCAGAAAA
* *
14317378 ATTAAAATTGATATAAACTT-ATAAAAATTAT-AAAAAAATCATAAAA
1 ATTAAAATT-ATATAAAATTCATAAAAATTATAAAAAAAATCAGAAAA
14317424 ACTTAAA
1 A-TTAAA
14317431 CTAGACCATA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
46 12 0.27
47 25 0.56
48 8 0.18
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (47 bp):
ATTAAAATTATATAAAATTCATAAAAATTATAAAAAAAATCAGAAAA
Found at i:14318229 original size:4 final size:4
Alignment explanation
Indices: 14318222--14318255 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
14318212 GTATTTATTA
* *
14318222 TTTG TTTG TTTG TTTG CTTG TTTG CTTG TTTG TT
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TT
14318256 ATTCATTAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.00, C:0.06, G:0.24, T:0.71
Consensus pattern (4 bp):
TTTG
Found at i:14318364 original size:26 final size:27
Alignment explanation
Indices: 14318323--14318380 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
14318313 GAACACATAT
*
14318323 AATTTTAAATAAACGAACATGATCAAA
1 AATTTTAAATAAACGAACATGAACAAA
*
14318350 AATTTTGAA-AAACGAACATGAACAAA
1 AATTTTAAATAAACGAACATGAACAAA
*
14318376 GATTT
1 AATTT
14318381 GTTCGTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.26
Consensus pattern (27 bp):
AATTTTAAATAAACGAACATGAACAAA
Found at i:14318419 original size:15 final size:15
Alignment explanation
Indices: 14318381--14318419 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
14318371 ACAAAGATTT
*
14318381 GTTCGTTTAAGCTCG
1 GTTCGTTTAAACTCG
*
14318396 GTTTGTTTAAACTCG
1 GTTCGTTTAAACTCG
*
14318411 GTTCATTTA
1 GTTCGTTTA
14318420 CAACCCTAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.18, C:0.15, G:0.21, T:0.46
Consensus pattern (15 bp):
GTTCGTTTAAACTCG
Found at i:14318819 original size:10 final size:10
Alignment explanation
Indices: 14318804--14318888 Score: 54
Period size: 10 Copynumber: 8.9 Consensus size: 10
14318794 ATTTATAAAA
14318804 TTTTTATAAT
1 TTTTTATAAT
14318814 TTTTTAT-A-
1 TTTTTATAAT
*
14318822 TTTCTAT-AT
1 TTTTTATAAT
*
14318831 ATTTTAT-AT
1 TTTTTATAAT
**
14318840 TTTTT-TACG
1 TTTTTATAAT
*
14318849 TTTTTATAAA
1 TTTTTATAAT
* *
14318859 ATTTTACAATT
1 TTTTTATAA-T
14318870 TTTTTATAAT
1 TTTTTATAAT
*
14318880 TTTTAATAA
1 TTTTTATAA
14318889 AATTTTAATA
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
8 8 0.14
9 17 0.30
10 25 0.44
11 7 0.12
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:14318835 original size:27 final size:28
Alignment explanation
Indices: 14318797--14318873 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 28
14318787 CTTAAGAATT
*
14318797 TATAAAATTTTTATAATTTTTTATATTTC
1 TATAAAA-TTTTATAATTTTTTACATTTC
* * * *
14318826 TAT-ATATTTTATATTTTTTTACGTTTT
1 TATAAAATTTTATAATTTTTTACATTTC
*
14318853 TATAAAATTTTACAATTTTTT
1 TATAAAATTTTATAATTTTTT
14318874 TATAATTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
27 20 0.51
28 16 0.41
29 3 0.08
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (28 bp):
TATAAAATTTTATAATTTTTTACATTTC
Found at i:14318909 original size:27 final size:28
Alignment explanation
Indices: 14318877--14318930 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
14318867 ATTTTTTTAT
14318877 AATTTTTAATAAAATTT-TAATATTTGA
1 AATTTTTAATAAAATTTATAATATTTGA
*
14318904 AATTTTTATTAAAATTTAATAATATTT
1 AATTTTTAATAAAATTT-ATAATATTT
14318931 ATAGCTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 16 0.67
29 8 0.33
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (28 bp):
AATTTTTAATAAAATTTATAATATTTGA
Found at i:14318966 original size:27 final size:27
Alignment explanation
Indices: 14318813--14318967 Score: 77
Period size: 27 Copynumber: 5.6 Consensus size: 27
14318803 ATTTTTATAA
*
14318813 TTTTTTAT-ATTTCTA-TATATTTTATAT
1 TTTTTTATAATTTTTATTA-ATTTTA-AT
** *
14318840 TTTTTTA-CGTTTTTATAAAATTTTACAAT
1 TTTTTTATAATTTTTAT-TAATTTT--AAT
*
14318869 TTTTTTATAATTTTTAATAAAATTTTAA-
1 TTTTTTATAATTTTT-AT-TAATTTTAAT
* * *
14318897 TATTTGA-AATTTTTATTAAAATTTAAT
1 TTTTTTATAATTTTTATT-AATTTTAAT
* * ** *
14318924 AATATTTATAGCTTTTATTGATTTTAAT
1 -TTTTTTATAATTTTTATTAATTTTAAT
14318952 TTTTTTATAATTTTTA
1 TTTTTTATAATTTTTA
14318968 ATAAAAGGAG
Statistics
Matches: 96, Mismatches: 21, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
26 9 0.09
27 31 0.32
28 20 0.21
29 20 0.21
30 6 0.06
31 10 0.10
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (27 bp):
TTTTTTATAATTTTTATTAATTTTAAT
Found at i:14320498 original size:125 final size:125
Alignment explanation
Indices: 14320106--14320516 Score: 709
Period size: 124 Copynumber: 3.3 Consensus size: 125
14320096 ATTTATTAAG
* * *
14320106 GAAATCGCTCCCACGTGGACGCGTTTTTGATACAGTAGGTCCAG-AAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* * *
14320170 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGTTTTATAAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
14320230 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
14320295 GTTTCTGAGCAAATAGTAT-AAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
* * *
14320354 GAAATCGCTCCCACTTGGACACGCTTTTGCTACAGTAGGTTCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
*
14320419 GTTTCTGAGCAAATAGTATAAAAAATGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
*
14320479 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
14320517 CATGTTTGGG
Statistics
Matches: 273, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
124 159 0.58
125 114 0.42
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
Found at i:14323057 original size:49 final size:49
Alignment explanation
Indices: 14323002--14323111 Score: 202
Period size: 49 Copynumber: 2.2 Consensus size: 49
14322992 TAAGAATATT
14323002 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
* *
14323051 AACTATTTTGCATTTTATTACATCAAATAATATCAAAATATTCAAATTA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
14323100 AACTATTTTGTA
1 AACTATTTTGTA
14323112 CAAATATTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 58 1.00
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.42
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
Found at i:14325252 original size:10 final size:10
Alignment explanation
Indices: 14325233--14325280 Score: 62
Period size: 10 Copynumber: 4.7 Consensus size: 10
14325223 TTACGATTTA
*
14325233 AAAAAAAATT
1 AAAAATAATT
14325243 AAAAATAATT
1 AAAAATAATT
14325253 AAAAA-AATTTT
1 AAAAATAA--TT
14325264 AAAAATAATT
1 AAAAATAATT
14325274 AAAAATA
1 AAAAATA
14325281 GGGATTTAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
9 2 0.06
10 23 0.68
11 7 0.21
12 2 0.06
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATAATT
Found at i:14325254 original size:21 final size:21
Alignment explanation
Indices: 14325230--14325278 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
14325220 TTTTTACGAT
14325230 TTAAAAAAAAATTAAAAATAA
1 TTAAAAAAAAATTAAAAATAA
**
14325251 TTAAAAAAATTTTAAAAATAA
1 TTAAAAAAAAATTAAAAATAA
14325272 TTAAAAA
1 TTAAAAA
14325279 TAGGGATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
TTAAAAAAAAATTAAAAATAA
Found at i:14325337 original size:51 final size:51
Alignment explanation
Indices: 14325276--14325375 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
14325266 AAATAATTAA
14325276 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAGATT
* * * * *
14325327 AAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGTAATTTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGA
14325376 GGAAATTAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:14325362 original size:22 final size:22
Alignment explanation
Indices: 14325337--14325389 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
14325327 AAATATGGAT
14325337 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
*
14325359 TTGAGAGTAATTTGAGAGGAAA
1 TTGAGAGAAATTTGAGAGGAAA
14325381 TT-A-AGAAAT
1 TTGAGAGAAAT
14325390 GATTAATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 5 0.18
21 1 0.04
22 21 0.75
23 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.26
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:14326180 original size:27 final size:27
Alignment explanation
Indices: 14326150--14326204 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
14326140 TTACTAAATG
14326150 AGTATTCTTCTTTAATTTTAAAATCTT
1 AGTATTCTTCTTTAATTTTAAAATCTT
*
14326177 AGTATTCTTTTTTAATTTTAAAATCTT
1 AGTATTCTTCTTTAATTTTAAAATCTT
14326204 A
1 A
14326205 CATCAACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.09, G:0.04, T:0.56
Consensus pattern (27 bp):
AGTATTCTTCTTTAATTTTAAAATCTT
Found at i:14329021 original size:19 final size:20
Alignment explanation
Indices: 14328986--14329027 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
14328976 TTCTTTTTTC
**
14328986 TTTTTTTTTTACCTTT-AAT
1 TTTTTTTTTTAAATTTAAAT
14329005 TTTTTTTTTTAAATTTAAAT
1 TTTTTTTTTTAAATTTAAAT
14329025 TTT
1 TTT
14329028 GCAGATAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTTTTTTAAATTTAAAT
Found at i:14335152 original size:59 final size:60
Alignment explanation
Indices: 14334983--14335165 Score: 196
Period size: 59 Copynumber: 3.1 Consensus size: 60
14334973 ATTTGACAAA
* * * *
14334983 TACCAAATCGAA-C-AAAAAAA-A-TAGGTACCAAATTAGGAAAAAGAGTCATGTTTAGG
1 TACCAAATCAAACCTAAAAAAAGATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAGG
* * * *
14335039 TACCAAATCAAACCTTAAAAAAGATTAAGTACCAACTTAATAAAAAGTGTCAAGTTTAGG
1 TACCAAATCAAACCTAAAAAAAGATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAGG
*** * * * *
14335099 TACCAAATTGGACC-AAAAAAAGTTTAGGTATCAAATTAAGAGAAAGTGTCAAGTTTAGA
1 TACCAAATCAAACCTAAAAAAAGATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAGG
14335158 TACCAAAT
1 TACCAAAT
14335166 ATTATATTAA
Statistics
Matches: 104, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
56 11 0.11
57 1 0.01
58 6 0.06
59 46 0.44
60 40 0.38
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.23
Consensus pattern (60 bp):
TACCAAATCAAACCTAAAAAAAGATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTTAGG
Found at i:14335261 original size:19 final size:19
Alignment explanation
Indices: 14335239--14335276 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14335229 TTAAGTACAT
*
14335239 TTGTTTTATTTATTTAATG
1 TTGTTTCATTTATTTAATG
*
14335258 TTGTTTCATTTTTTTAATG
1 TTGTTTCATTTATTTAATG
14335277 AATTTATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.03, G:0.11, T:0.68
Consensus pattern (19 bp):
TTGTTTCATTTATTTAATG
Found at i:14335428 original size:97 final size:92
Alignment explanation
Indices: 14335327--14335521 Score: 268
Period size: 96 Copynumber: 2.1 Consensus size: 92
14335317 TTTTTTATTT
* * *
14335327 TATTTTTAATTAATAAGTA-TTTTATTTATATAAATAAAATAATAAATATGTAATTATATAATAA
1 TATTTTTAATTAATAA-CACTTTTATTTATAT-AAGAAAATAATAAATATGCAATTATATAATAA
*
14335391 AAATAGATT-TGATATAATTCATTATGTTAAAAA
64 AAAT--ATTAT-ATATAATT-ATCATGTT-AAAA
*
14335424 TATTTTTAATTAATAACACTTTTATTTATATAAGAAAATAATAAATATGCAATTATATAATGAAA
1 TATTTTTAATTAATAACACTTTTATTTATATAAGAAAATAATAAATATGCAATTATATAATAAAA
14335489 ATATTATATATAATTATCATGTTAAAA
66 ATATTATATATAATTATCATGTTAAAA
14335516 TATTTT
1 TATTTT
14335522 ATTTTTTAAA
Statistics
Matches: 91, Mismatches: 5, Indels: 9
0.87 0.05 0.09
Matches are distributed among these distances:
92 10 0.11
93 7 0.08
94 11 0.12
95 1 0.01
96 34 0.37
97 28 0.31
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.45
Consensus pattern (92 bp):
TATTTTTAATTAATAACACTTTTATTTATATAAGAAAATAATAAATATGCAATTATATAATAAAA
ATATTATATATAATTATCATGTTAAAA
Found at i:14335525 original size:97 final size:100
Alignment explanation
Indices: 14335322--14335527 Score: 277
Period size: 97 Copynumber: 2.1 Consensus size: 100
14335312 TTCACTTTTT
* * *
14335322 TATTTTATTTTTAATTAATAAGTATTTTATTTATATAAATAAAATAATAAATATGTAATTATATA
1 TATTTTATTTTTAATTAATAAGCATTTTATTTATATAAAGAAAATAATAAATATGCAATTATATA
*
14335387 ATAAAAATAGATTTGATATAATTCATTATGTTAAAA
66 ATAAAAATA-ATTTGATATAATTCATCATGTTAAAA
14335423 -A---TATTTTTAATTAATAA-CACTTTTATTTATAT-AAGAAAATAATAAATATGCAATTATAT
1 TATTTTATTTTTAATTAATAAGCA-TTTTATTTATATAAAGAAAATAATAAATATGCAATTATAT
*
14335482 AATGAAAAT-ATTAT-ATATAATT-ATCATGTTAAAA
65 AATAAAAATAATT-TGATATAATTCATCATGTTAAAA
14335516 TATTTTATTTTT
1 TATTTTATTTTT
14335528 TAAAAGTATC
Statistics
Matches: 94, Mismatches: 5, Indels: 16
0.82 0.04 0.14
Matches are distributed among these distances:
93 11 0.12
94 12 0.13
95 1 0.01
96 34 0.36
97 35 0.37
100 1 0.01
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (100 bp):
TATTTTATTTTTAATTAATAAGCATTTTATTTATATAAAGAAAATAATAAATATGCAATTATATA
ATAAAAATAATTTGATATAATTCATCATGTTAAAA
Found at i:14336265 original size:41 final size:41
Alignment explanation
Indices: 14336198--14336356 Score: 221
Period size: 41 Copynumber: 3.9 Consensus size: 41
14336188 CTGACCTTTT
* *
14336198 GGGGCTTTAGCAGCGTTTTTGGAAAAGCACCGCTAATGCTC
1 GGGGTTTTAGCGGCGTTTTTGGAAAAGCACCGCTAATGCTC
* * * *
14336239 GGGGTTTTAGTGGCTTTTTTGCAAAAGCGCCGCTAATGCT-
1 GGGGTTTTAGCGGCGTTTTTGGAAAAGCACCGCTAATGCTC
* *
14336279 TGGGTCTTTAGCGGCGTTTTTGGAAAAGCACTGCTAATGCTC
1 GGGGT-TTTAGCGGCGTTTTTGGAAAAGCACCGCTAATGCTC
*
14336321 GGGGTTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
1 GGGGTTTTAGCGGCGTTTTTGGAAAAGCACCGCTAA
14336357 AAACATTTTA
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
40 4 0.04
41 93 0.92
42 4 0.04
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (41 bp):
GGGGTTTTAGCGGCGTTTTTGGAAAAGCACCGCTAATGCTC
Found at i:14336340 original size:82 final size:82
Alignment explanation
Indices: 14336196--14336356 Score: 268
Period size: 82 Copynumber: 2.0 Consensus size: 82
14336186 TTCTGACCTT
* *
14336196 TTGGGGCTTTAGCAGCGTTTTTGGAAAAGCACCGCTAATGCTCGGGGTTTTAGTGGCTTTTTTGC
1 TTGGGGCTTTAGCAGCGTTTTTGGAAAAGCACCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTGC
14336261 AAAAGCGCCGCTAATGC
66 AAAAGCGCCGCTAATGC
* * * *
14336278 TTGGGTCTTTAGCGGCGTTTTTGGAAAAGCACTGCTAATGCTCGGGGTTTTAGCGGCGTTTTTGG
1 TTGGGGCTTTAGCAGCGTTTTTGGAAAAGCACCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTGC
14336343 AAAAGCGCCGCTAA
66 AAAAGCGCCGCTAA
14336357 AAACATTTTA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 73 1.00
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.32
Consensus pattern (82 bp):
TTGGGGCTTTAGCAGCGTTTTTGGAAAAGCACCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTGC
AAAAGCGCCGCTAATGC
Found at i:14336754 original size:15 final size:14
Alignment explanation
Indices: 14336702--14336750 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
14336692 ACTATTTTAA
*
14336702 GGTTTAGGGAGTAT
1 GGTTTAGGGATTAT
*
14336716 GGATTTAAGGATTAT
1 GG-TTTAGGGATTAT
*
14336731 GGATTAGGGATTAT
1 GGTTTAGGGATTAT
14336745 GGTTTA
1 GGTTTA
14336751 AGGGTTGGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.39
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:14342628 original size:43 final size:43
Alignment explanation
Indices: 14342568--14342658 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
14342558 CTTTGAGTTC
* * *
14342568 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
14342610 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATTTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
14342653 ATTACC
1 ATTACC
14342659 TTGCAATGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:14342835 original size:13 final size:13
Alignment explanation
Indices: 14342819--14342851 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
14342809 TTTATTATTT
14342819 TAAATTCTAAAAC
1 TAAATTCTAAAAC
14342832 TAAATTCTAAAAC
1 TAAATTCTAAAAC
14342845 TAAATTC
1 TAAATTC
14342852 ATTAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAATTCTAAAAC
Found at i:14343135 original size:43 final size:43
Alignment explanation
Indices: 14343034--14343385 Score: 305
Period size: 43 Copynumber: 8.2 Consensus size: 43
14343024 ATGTTATGTT
* * * *
14343034 TTTAGCGGCGTTTTTG-CGAGAAGCGCCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGAC-AAAAGCGCCGCTAAAGGTCATGGTC
** * * *
14343076 AATAACGGCGTTTGTGACAAAAGCGTCGTTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
14343119 TTTAGCGGCGTTTGTGATAAAAACGCCACTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGGTC
* * *
14343162 TTTAGCGGCGTTTGTGCCAAAAGCGCCGCTAAAGGTTATGTTC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGGTC
* * *
14343205 TTTAGCGGCGTTTGTGCCAAAAGTGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGGTC
* *** * * ** *
14343248 TTTAGCGGCATTTGTGACAAAAGCATTGTTATAGACCAT-GAC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGGTC
* ** *
14343290 TTTTAGCAGCGTTTGTGTTAAAAGCGCCACTAAAGGTCATGGTC
1 -TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGGTC
* * * * ** *
14343334 TGTAGCGACGTTTTTGATAAAAGCGTTGCTAAAGGTCATAGTC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGGTC
*
14343377 TTTGGCGGC
1 TTTAGCGGC
14343386 ATTTTTTCAC
Statistics
Matches: 244, Mismatches: 62, Indels: 7
0.78 0.20 0.02
Matches are distributed among these distances:
42 28 0.11
43 214 0.88
44 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:14343183 original size:86 final size:86
Alignment explanation
Indices: 14343034--14343385 Score: 348
Period size: 86 Copynumber: 4.1 Consensus size: 86
14343024 ATGTTATGTT
* ** * * * ** *
14343034 TTTAGCGGCGTTTTTGCGAGAAGCGCCGCTAAAGGT-TTGTTCAATAACGGCGTTTGTGACAAAA
1 TTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAAA
*
14343098 GCGTCGTTAAAGGTCATGGTC
66 GCGTCGCTAAAGGTCATGGTC
* *
14343119 TTTAGCGGCGTTTGTGATAAAAACGCCACTAAAGGTCATGTTCTTTAGCGGCGTTTGTGCCAAAA
1 TTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAAA
* * *
14343184 GCGCCGCTAAAGGTTATGTTC
66 GCGTCGCTAAAGGTCATGGTC
** * * *
14343205 TTTAGCGGCGTTTGTGCCAAAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGACAAAA
1 TTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAAA
* * * * ** *
14343270 GCATTGTTATAGACCAT-GAC
66 GCGTCGCTAAAGGTCATGGTC
* * * * * * *
14343290 TTTTAGCAGCGTTTGTGTTAAAAGCGCCACTAAAGGTCATGGTCTGTAGCGACGTTTTTGATAAA
1 -TTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAA
* *
14343355 AGCGTTGCTAAAGGTCATAGTC
65 AGCGTCGCTAAAGGTCATGGTC
*
14343377 TTTGGCGGC
1 TTTAGCGGC
14343386 ATTTTTTCAC
Statistics
Matches: 213, Mismatches: 51, Indels: 5
0.79 0.19 0.02
Matches are distributed among these distances:
85 31 0.15
86 180 0.85
87 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (86 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAGGTCATGTTCTTTAGCGGCGTTTGTGACAAAA
GCGTCGCTAAAGGTCATGGTC
Found at i:14343295 original size:129 final size:127
Alignment explanation
Indices: 14343033--14343389 Score: 356
Period size: 129 Copynumber: 2.8 Consensus size: 127
14343023 AATGTTATGT
* * * * *
14343033 TTTTAGCGGCGTTTTTGCGAGAAGCGCCGCTAAAGGTT-TGTTCAATAACGGCGTTTGTGACAAA
1 TTTTAGCGGCGTTTGTGCCAAAAGCGCCGCTAAAGGTTATGTTCTATAGCGGCGTTTGTGACAAA
* * * * ** *
14343097 AGCGTCGTTAAAGGTCATGGTCTTTAGCGGCGTTTGTGATAAAAACGCCACTAAAGGTCATGT
66 AGCGTCGCTAAAGGTCAT-GTCTTTAGCGGCATTTGTGACAAAAACACCACTAAAGACCATGC
* *
14343160 TCTTTAGCGGCGTTTGTGCCAAAAGCGCCGCTAAAGGTTATGTTCTTTAGCGGCGTTTGTGCCAA
1 T-TTTAGCGGCGTTTGTGCCAAAAGCGCCGCTAAAGGTTATGTTCTATAGCGGCGTTTGTGACAA
* * * **** *
14343225 AAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGACAAAAGCATTGTTATAGACCATGAC
65 AAGCGTCGCTAAAGGTCATG-TCTTTAGCGGCATTTGTGACAAAAACACCACTAAAGACCATG-C
* ** * * * * * * *
14343290 TTTTAGCAGCGTTTGTGTTAAAAGCGCCACTAAAGGTCATGGTCTGTAGCGACGTTTTTGATAAA
1 TTTTAGCGGCGTTTGTGCCAAAAGCGCCGCTAAAGGTTATGTTCTATAGCGGCGTTTGTGACAAA
* *
14343355 AGCGTTGCTAAAGGTCATAGTCTTTGGCGGCATTT
66 AGCGTCGCTAAAGGTCAT-GTCTTTAGCGGCATTT
14343390 TTTCACATAA
Statistics
Matches: 188, Mismatches: 37, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
127 1 0.01
128 35 0.19
129 150 0.80
130 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (127 bp):
TTTTAGCGGCGTTTGTGCCAAAAGCGCCGCTAAAGGTTATGTTCTATAGCGGCGTTTGTGACAAA
AGCGTCGCTAAAGGTCATGTCTTTAGCGGCATTTGTGACAAAAACACCACTAAAGACCATGC
Found at i:14348046 original size:24 final size:25
Alignment explanation
Indices: 14347984--14348052 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
14347974 TTAATCACTT
*
14347984 TAATATTAAATTTAATCTTATTAAAA
1 TAATATTAAATTTAAT-TTATCAAAA
*
14348010 TAATA-TAATATTT-ATTTA-CAAGA
1 TAATATTAA-ATTTAATTTATCAAAA
14348033 TAAATATTAAATTTAATTTA
1 T-AATATTAAATTTAATTTA
14348053 ATATTAAGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
23 4 0.11
24 11 0.30
25 13 0.35
26 9 0.24
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (25 bp):
TAATATTAAATTTAATTTATCAAAA
Found at i:14348131 original size:36 final size:37
Alignment explanation
Indices: 14348035--14348144 Score: 108
Period size: 36 Copynumber: 3.0 Consensus size: 37
14348025 TTACAAGATA
14348035 AATATTAAATTTAAT-TT-AA-TATTAAGATAATCATTTT
1 AATATTAAATTTAATATTAAATTATTAAGATAAT-A--TT
*
14348072 AATATTAAA-TTAATA-AAATATTA-TAAGATAAGTATT
1 AATATTAAATTTAATATTAA-ATTATTAAGATAA-TATT
*
14348108 AA-ATTAAATTTAATATTAAATTATTAAAATAATATT
1 AATATTAAATTTAATATTAAATTATTAAGATAATATT
14348144 A
1 A
14348145 TTTTTGAAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 17
0.76 0.04 0.21
Matches are distributed among these distances:
35 6 0.10
36 24 0.39
37 19 0.31
38 10 0.16
39 3 0.05
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.44
Consensus pattern (37 bp):
AATATTAAATTTAATATTAAATTATTAAGATAATATT
Found at i:14349220 original size:43 final size:43
Alignment explanation
Indices: 14349188--14349356 Score: 168
Period size: 43 Copynumber: 4.0 Consensus size: 43
14349178 AGACCATGGT
*
14349188 CTTTAGCGGCGCTTTT-CACACAAACGCCGCTAAAAATCATAAC
1 CTTTAGCGGCGCTTTTAC-CACAAACGCCGCTAAAAATCATGAC
* **
14349231 CTTTAGCCGCGCTTTTACCACAAACGCCAATAAAAATCATGAC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAATCATGAC
* ** * *
14349274 CTTTAGCGGCGCTTCTATTACAAACACCGCTATAAAA--ATAAC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTA-AAAATCATGAC
* * * *
14349316 TTTTAGCGGCACTTTT-TCACAAACGCCACTAAAAA-CATGAC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAATCATGAC
14349357 TGTTAAAAAA
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
40 4 0.04
41 16 0.15
42 17 0.16
43 62 0.60
44 5 0.05
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.25
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAAATCATGAC
Found at i:14349286 original size:86 final size:83
Alignment explanation
Indices: 14349188--14349356 Score: 207
Period size: 86 Copynumber: 2.0 Consensus size: 83
14349178 AGACCATGGT
* * *
14349188 CTTTAGCGGCGCTTTTCA-CACAAACGCCGCTA-AAAATCATAACCTTTAGCCGCGCTTTTACCA
1 CTTTAGCGGCGCTTCT-ATCACAAACACCGCTATAAAA--ATAACCTTTAGCCGCACTTTT-CCA
14349251 CAAACGCCAATAAAAATCATGAC
62 CAAACGCCAATAAAAA-CATGAC
* * * *
14349274 CTTTAGCGGCGCTTCTATTACAAACACCGCTATAAAAATAACTTTTAGCGGCACTTTTTCACAAA
1 CTTTAGCGGCGCTTCTATCACAAACACCGCTATAAAAATAACCTTTAGCCGCACTTTTCCACAAA
*
14349339 CGCCACTAAAAACATGAC
66 CGCCAATAAAAACATGAC
14349357 TGTTAAAAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
83 6 0.08
84 17 0.23
85 19 0.26
86 27 0.37
87 4 0.05
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.25
Consensus pattern (83 bp):
CTTTAGCGGCGCTTCTATCACAAACACCGCTATAAAAATAACCTTTAGCCGCACTTTTCCACAAA
CGCCAATAAAAACATGAC
Found at i:14353566 original size:23 final size:25
Alignment explanation
Indices: 14353536--14353726 Score: 186
Period size: 23 Copynumber: 7.7 Consensus size: 25
14353526 TTTAAATTAA
14353536 TATTTAAA-T-ATATTTATTAATTC
1 TATTTAAACTAATATTTATTAATTC
*
14353559 TATTTAAACTAATATTTAAATGT-ATTT
1 TATTTAAACTAATATTT--AT-TAATTC
14353586 TATTTAAACTTAATA---ATTAATTC
1 TATTTAAAC-TAATATTTATTAATTC
* *
14353609 TATTTAAACTAATATTTAAATATATTT
1 TATTTAAACTAATATTT-ATTA-ATTC
14353636 TATTTAAACT--TATTTATTAATTC
1 TATTTAAACTAATATTTATTAATTC
* *
14353659 TATTTAAACTAATATTTAAATATATTT
1 TATTTAAACTAATATTT-ATTA-ATTC
14353686 TATTTAAACT--TATTTATTAATTC
1 TATTTAAACTAATATTTATTAATTC
*
14353709 TATTTAAATTAATATTTA
1 TATTTAAACTAATATTTA
14353727 AATATATCAA
Statistics
Matches: 139, Mismatches: 11, Indels: 34
0.76 0.06 0.18
Matches are distributed among these distances:
22 6 0.04
23 47 0.34
24 7 0.05
25 27 0.19
26 6 0.04
27 40 0.29
28 6 0.04
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.53
Consensus pattern (25 bp):
TATTTAAACTAATATTTATTAATTC
Found at i:14353572 original size:27 final size:27
Alignment explanation
Indices: 14353542--14353727 Score: 154
Period size: 27 Copynumber: 7.4 Consensus size: 27
14353532 TTAATATTTA
*
14353542 AATATATTTATTAATTCTATTTAAACT
1 AATATATTAATTAATTCTATTTAAACT
*
14353569 AATAT-TTAAATGT-ATTTTATTTAAACT
1 AATATATT-AAT-TAATTCTATTTAAACT
14353596 --TA-A-TAATTAATTCTATTTAAACT
1 AATATATTAATTAATTCTATTTAAACT
* *
14353619 AATAT-TTAAATATATTTTATTTAAACT
1 AATATATTAATTA-ATTCTATTTAAACT
14353646 --TAT-TT-ATTAATTCTATTTAAACT
1 AATATATTAATTAATTCTATTTAAACT
* *
14353669 AATAT-TTAAATATATTTTATTTAAACT
1 AATATATTAATTA-ATTCTATTTAAACT
*
14353696 --TAT-TT-ATTAATTCTATTTAAATT
1 AATATATTAATTAATTCTATTTAAACT
14353719 AATAT-TTAA
1 AATATATTAA
14353728 ATATATCAAA
Statistics
Matches: 131, Mismatches: 12, Indels: 33
0.74 0.07 0.19
Matches are distributed among these distances:
22 1 0.01
23 41 0.31
24 7 0.05
25 24 0.18
26 11 0.08
27 46 0.35
28 1 0.01
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.53
Consensus pattern (27 bp):
AATATATTAATTAATTCTATTTAAACT
Found at i:14353605 original size:50 final size:50
Alignment explanation
Indices: 14353536--14353733 Score: 344
Period size: 50 Copynumber: 4.0 Consensus size: 50
14353526 TTTAAATTAA
*
14353536 TATTTAAA-TATATTTATTAATTCTATTTAAACTAATATTTAAATGTATTT
1 TATTTAAACT-TATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
* *
14353586 TATTTAAACTTAATAATTAATTCTATTTAAACTAATATTTAAATATATTT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
14353636 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
*
14353686 TATTTAAACTTATTTATTAATTCTATTTAAATTAATATTTAAATATAT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATAT
14353734 CAAATGGTTT
Statistics
Matches: 141, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
50 140 0.99
51 1 0.01
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.53
Consensus pattern (50 bp):
TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATATTT
Found at i:14354097 original size:21 final size:22
Alignment explanation
Indices: 14354072--14354113 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
14354062 CCCCTGAACA
*
14354072 CCCAACCTTTAAACC-TTAAAT
1 CCCAACCCTTAAACCATTAAAT
14354093 CCCAACCCTTAAACCATTAAA
1 CCCAACCCTTAAACCATTAAA
14354114 CCATTAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (22 bp):
CCCAACCCTTAAACCATTAAAT
Found at i:14354107 original size:8 final size:8
Alignment explanation
Indices: 14354096--14354135 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
14354086 CTTAAATCCC
*
14354096 AACCCTTA
1 AACCATTA
14354104 AACCATTA
1 AACCATTA
14354112 AACCATTA
1 AACCATTA
14354120 AACCATTA
1 AACCATTA
14354128 AACC-TTA
1 AACCATTA
14354135 A
1 A
14354136 CCCGAATCCC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
7 4 0.13
8 27 0.87
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (8 bp):
AACCATTA
Found at i:14354392 original size:14 final size:15
Alignment explanation
Indices: 14354373--14354405 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
14354363 CTTAAACCAA
14354373 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
14354387 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
14354402 AATC
1 AATC
14354406 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Done.