Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 80 of 133
Found at i:15819925 original size:30 final size:30
Alignment explanation
Indices: 15819889--15819950 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
15819879 CCAACTTCAT
* *
15819889 CAAATCTAAACAAGTAGTTATGGATTACTC
1 CAAATCTAAACAAGCAGTTATAGATTACTC
*
15819919 CAAATCTAGACAAGCAGTTATAGATTACTC
1 CAAATCTAAACAAGCAGTTATAGATTACTC
15819949 CA
1 CA
15819951 CTAGGAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.27
Consensus pattern (30 bp):
CAAATCTAAACAAGCAGTTATAGATTACTC
Found at i:15821241 original size:19 final size:19
Alignment explanation
Indices: 15821217--15821257 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
15821207 TTGCTTTTTA
*
15821217 ATTCTAGTTGTGTATTATG
1 ATTCTAGTTATGTATTATG
15821236 ATTCTAGTTATGTATTATG
1 ATTCTAGTTATGTATTATG
15821255 ATT
1 ATT
15821258 GTTGATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.24, C:0.05, G:0.17, T:0.54
Consensus pattern (19 bp):
ATTCTAGTTATGTATTATG
Found at i:15821491 original size:278 final size:277
Alignment explanation
Indices: 15820969--15821491 Score: 776
Period size: 278 Copynumber: 1.9 Consensus size: 277
15820959 ATTTTGGTTG
* *
15820969 TGTATTGTGATTGTTGATGAACTATCTTTATAGTATATTGCGATGAGATCACATTTATGAAAGGT
1 TGTATTATGATTGTTGATGAACTATCTTTATAGTATATTGCGATGAGATCACATTTATGAAAAGT
* * * *
15821034 GAAAATATTGCTTATTTTGCTTTGTAATTCTAGTTATGTATTGTGATTATTGATAAGTAGATAGT
66 GAAAATATTGCTTATTTTGCTTTGTAATTCTAGTTATATATTGTGATTATTAATAAATAGATAAT
* * * * *
15821099 GTAGTAATTAAAAGACTAAACATTACAGGACGAATGGTACTGAATTATATAGTGTTTTATTCCTA
131 GTAGCAATTAAAAGACTAAACAATACAAGACGAATGGTACTGAACTATATAGTGTTTTATGCCTA
* *
15821164 TTGAGAAGTAATGACTTTGTGAAGGTGAAAATTATTACTTACCTTGCTTTTTAATTCTAGTTGTG
196 TTGAGAAGTAATGACTTTGTGAAGGTGAAAACTATTACATACCTTGCTTTTTAATTCTAGTTGTG
15821229 TATTATGATTCTAGTTA
261 TATTATGATTCTAGTTA
* * * *
15821246 TGTATTATGATTGTTGATGTATTATCTTTATAGTATATTGTGATGAGATTACATTTATGAAAAGT
1 TGTATTATGATTGTTGATGAACTATCTTTATAGTATATTGCGATGAGATCACATTTATGAAAAGT
* * * * * * *
15821311 GAAAATATTGTTTATTTTGTTTTGTGATTTTGGTTGTATATTGTGATTGTTAATGAAATAGATAA
66 GAAAATATTGCTTATTTTGCTTTGTAATTCTAGTTATATATTGTGATTATTAAT-AAATAGATAA
* *
15821376 TGTAGCAATTAAAAGACTAAACAATACAAGACGAATGGTATTGAACTATATAGTGTTTTGTGCCT
130 TGTAGCAATTAAAAGACTAAACAATACAAGACGAATGGTACTGAACTATATAGTGTTTTATGCCT
* **
15821441 ATTGAGATGTAATGACTTTGTGAAGGTGAAAACTATTACATATTTTGCTTT
195 ATTGAGAAGTAATGACTTTGTGAAGGTGAAAACTATTACATACCTTGCTTT
15821492 GTGATTTTGG
Statistics
Matches: 216, Mismatches: 29, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
277 104 0.48
278 112 0.52
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (277 bp):
TGTATTATGATTGTTGATGAACTATCTTTATAGTATATTGCGATGAGATCACATTTATGAAAAGT
GAAAATATTGCTTATTTTGCTTTGTAATTCTAGTTATATATTGTGATTATTAATAAATAGATAAT
GTAGCAATTAAAAGACTAAACAATACAAGACGAATGGTACTGAACTATATAGTGTTTTATGCCTA
TTGAGAAGTAATGACTTTGTGAAGGTGAAAACTATTACATACCTTGCTTTTTAATTCTAGTTGTG
TATTATGATTCTAGTTA
Found at i:15821679 original size:156 final size:158
Alignment explanation
Indices: 15821323--15821684 Score: 451
Period size: 158 Copynumber: 2.3 Consensus size: 158
15821313 AAATATTGTT
* * * *
15821323 TATTTTGTTTTGTGATTTTGGTTGTATATTGTGATTGTTAATGAAATAGATAATGTAGCAATTAA
1 TATTTTGCTTTGTGATTTTGGTTGTATATTGTGATTGTTGATGAAATAAATAATATAGCAATTAA
* ** *
15821388 AAGACTAAACAATACAAGACGAATGGTATTGAACTATATAGTGTTTTGTGCCTATTGAGATGTAA
66 AAGACTAAACAATACAAGACCAATAATATTGAACTATATAGTGTTTTGTGCCTATTGAGATGCAA
15821453 TGACTTTGTGAAGGTGAAAACTATTACA
131 TGACTTTGTGAAGGTGAAAACTATTACA
* * * * *
15821481 TATTTTGCTTTGTGATTTTGGTTGTCTATTGTGATTGTTGATGAAGTAAATAGTATAGTAATTGA
1 TATTTTGCTTTGTGATTTTGGTTGTATATTGTGATTGTTGATGAAATAAATAATATAGCAATTAA
* * * * **
15821546 AAGACTAAATATTGCAAGACCAATAATATTGAACTATATAGT-TTTTTTGTTTATTGAGATGCAA
66 AAGACTAAACAATACAAGACCAATAATATTGAACTATATAGTGTTTTGTGCCTATTGAGATGCAA
* *
15821610 TGAC-TTGT-ATATGTGAAAATTATTACA
131 TGACTTTGTGA-AGGTGAAAACTATTACA
* * * * * *
15821637 TATTTTGCTTTGTGATTCTAGTTGTGTATTATAATTGCTGATGAAATA
1 TATTTTGCTTTGTGATTTTGGTTGTATATTGTGATTGTTGATGAAATA
15821685 TCTTTATAGT
Statistics
Matches: 175, Mismatches: 28, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
155 1 0.01
156 60 0.34
157 22 0.13
158 92 0.53
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (158 bp):
TATTTTGCTTTGTGATTTTGGTTGTATATTGTGATTGTTGATGAAATAAATAATATAGCAATTAA
AAGACTAAACAATACAAGACCAATAATATTGAACTATATAGTGTTTTGTGCCTATTGAGATGCAA
TGACTTTGTGAAGGTGAAAACTATTACA
Found at i:15821936 original size:157 final size:159
Alignment explanation
Indices: 15821714--15822000 Score: 364
Period size: 157 Copynumber: 1.8 Consensus size: 159
15821704 TAAGATCACA
* * * * * * *
15821714 TTTGTGAAAGGTGAAAATATTGCTTATTTTACTTTGTGATTTTAGTTGTCTATTTTGATTGTTGA
1 TTTGTGAAAGGTGAAAATATTGCGTATTTCACTTTATAATTCTAGTTGTCTATTGTGATTATTGA
* * *
15821779 TGAA-A-TAAATAATGCAATAATTGAAAGACTAAATATTATAGGACAAATGATATTGAACTATAT
66 TGAACACTAAACAATGCAATAATTAAAAGACTAAACATTATAGGACAAATGATATTGAACTATAT
15821842 GGTGTTTTGTTCTTATTAGATACAATAAC
131 GGTGTTTTGTTCTTATTAGATACAATAAC
* *
15821871 TTTGTG-AAGGTGAAAACTATTGCGTATTTCACTTTATAATTCTGGTTGTGTATTGTGATTATTG
1 TTTGTGAAAGGTGAAAA-TATTGCGTATTTCACTTTATAATTCTAGTTGTCTATTGTGATTATTG
** * * * *
15821935 ATGAACTATCTTTACAATGTAATAATTAAAAGTCTAAACATTATAGGATAAATGGTATTGAACTA
65 ATGAAC-A-CTAAACAATGCAATAATTAAAAGACTAAACATTATAGGACAAATGATATTGAACTA
15822000 T
128 T
15822001 GTTGTCGGTA
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
156 10 0.09
157 49 0.46
159 1 0.01
161 47 0.44
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (159 bp):
TTTGTGAAAGGTGAAAATATTGCGTATTTCACTTTATAATTCTAGTTGTCTATTGTGATTATTGA
TGAACACTAAACAATGCAATAATTAAAAGACTAAACATTATAGGACAAATGATATTGAACTATAT
GGTGTTTTGTTCTTATTAGATACAATAAC
Found at i:15822356 original size:24 final size:24
Alignment explanation
Indices: 15822324--15822382 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
15822314 AAAAACTAAA
* *
15822324 TGAGTTGAGGACCAAGTTGATGAT
1 TGAGTTGAGGACCAAGTTGAGGAC
* *
15822348 TGAGTTGAGGATCGAGTTGAGGAC
1 TGAGTTGAGGACCAAGTTGAGGAC
*
15822372 TAAGTTGAGGA
1 TGAGTTGAGGA
15822383 ATGAGTTTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.29, C:0.07, G:0.37, T:0.27
Consensus pattern (24 bp):
TGAGTTGAGGACCAAGTTGAGGAC
Found at i:15822389 original size:12 final size:12
Alignment explanation
Indices: 15822322--15822389 Score: 57
Period size: 12 Copynumber: 5.7 Consensus size: 12
15822312 ACAAAAACTA
15822322 AATGAGTTGAGG
1 AATGAGTTGAGG
*** *
15822334 ACCAAGTTGATG
1 AATGAGTTGAGG
*
15822346 ATTGAGTTGAGG
1 AATGAGTTGAGG
15822358 -ATCGAGTTGAGG
1 AAT-GAGTTGAGG
* *
15822370 ACTAAGTTGAGG
1 AATGAGTTGAGG
15822382 AATGAGTT
1 AATGAGTT
15822390 TAGGTCTTTC
Statistics
Matches: 41, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
11 1 0.02
12 39 0.95
13 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.35, T:0.28
Consensus pattern (12 bp):
AATGAGTTGAGG
Found at i:15822910 original size:28 final size:29
Alignment explanation
Indices: 15822846--15822935 Score: 98
Period size: 29 Copynumber: 3.2 Consensus size: 29
15822836 ATAGATAACA
* *
15822846 ACAGATTTTACCAATG--GATTTTT-TCG
1 ACAGATTTTACCAACGAAAATTTTTATCG
*
15822872 ACGAAATTTTTACCAAC-AAAATTTTTATCG
1 AC-AGA-TTTTACCAACGAAAATTTTTATCG
*
15822902 ACAGATTTTACCAACGAATATTTTTATCG
1 ACAGATTTTACCAACGAAAATTTTTATCG
15822931 ACAGA
1 ACAGA
15822936 ATTTCAATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
26 2 0.04
27 2 0.04
28 19 0.36
29 25 0.47
30 5 0.09
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.37
Consensus pattern (29 bp):
ACAGATTTTACCAACGAAAATTTTTATCG
Found at i:15824069 original size:2 final size:2
Alignment explanation
Indices: 15824062--15824091 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15824052 ACCATTGTTT
15824062 TA TA TA 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
15824092 AACGATAATT
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):
TA
Found at i:15826096 original size:12 final size:12
Alignment explanation
Indices: 15826079--15826104 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15826069 GACATAATTT
15826079 ATTAATATTTAA
1 ATTAATATTTAA
15826091 ATTAATATTTAA
1 ATTAATATTTAA
15826103 AT
1 AT
15826105 GAATTGCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTAATATTTAA
Found at i:15826649 original size:19 final size:18
Alignment explanation
Indices: 15826606--15826649 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
15826596 TATTTATCTC
*
15826606 AAAATTTAATAAAAATAT
1 AAAAATTAATAAAAATAT
15826624 AATAAATTAATAAATAATAT
1 AA-AAATTAATAAA-AATAT
*
15826644 GAAAAT
1 AAAAAT
15826650 AAAACATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 14 0.64
20 6 0.27
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAAATTAATAAAAATAT
Found at i:15832231 original size:17 final size:18
Alignment explanation
Indices: 15832191--15832231 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
15832181 TAGATAGGAT
*
15832191 AATTTATTTATTCATTAA
1 AATTTATCTATTCATTAA
*
15832209 AA-TTATCT-TTCTTTAA
1 AATTTATCTATTCATTAA
15832225 AATTTAT
1 AATTTAT
15832232 AAAATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 9 0.45
17 9 0.45
18 2 0.10
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTTATCTATTCATTAA
Found at i:15832257 original size:205 final size:207
Alignment explanation
Indices: 15831897--15832269 Score: 545
Period size: 207 Copynumber: 1.8 Consensus size: 207
15831887 ATTATGGTAG
* *
15831897 GATAATATAAAATGATATTAGAAATAAAATTAGATCAAATAAAATCATCGTATTTTATGTTTGAT
1 GATAAGATAAAATAATATTAGAAATAAAATTAGATCAAATAAAATCATCGTATTTTATGTTTGAT
* * *
15831962 ACGTGCAAAGATTATAATAGAATAATTTTATTTATTAGTCATAATTATCATTCTTCAAAGTTTAT
66 ACATGCAAAGATTATAATAGAATAATTTTATTTATTAGTCAAAATTATCATTCTTCAAAATTTAT
*
15832027 ATAATTTAAATTATTGATATAATTTTTAAAGATATAATAAAATATATAAGTCATATTTGATACAC
131 AAAATTTAAATTATTGATATAATTTTTAAAGATATAATAAAATATATAAGTCATATTTGATACAC
15832092 AAGATATGATAA
196 AAGATATGATAA
* * * *
15832104 GATAAGATAAAATAATATTATAAATAAAATTAGATTAAATAATATCATCTTATTTTATGTTTGAT
1 GATAAGATAAAATAATATTAGAAATAAAATTAGATCAAATAAAATCATCGTATTTTATGTTTGAT
* * * * * * *
15832169 ATATGCAAGGATTA-GATAGGATAA-TTTATTTATTCA-TTAAAATTATCTTTCTTTAAAATTTA
66 ACATGCAAAGATTATAATAGAATAATTTTATTTATT-AGTCAAAATTATCATTCTTCAAAATTTA
* *
15832231 TAAAATTTAAATTATTGATATAATTTTTAAGGGTATAAT
130 TAAAATTTAAATTATTGATATAATTTTTAAAGATATAAT
15832270 TAGATATGTA
Statistics
Matches: 146, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
205 67 0.46
206 9 0.06
207 70 0.48
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.42
Consensus pattern (207 bp):
GATAAGATAAAATAATATTAGAAATAAAATTAGATCAAATAAAATCATCGTATTTTATGTTTGAT
ACATGCAAAGATTATAATAGAATAATTTTATTTATTAGTCAAAATTATCATTCTTCAAAATTTAT
AAAATTTAAATTATTGATATAATTTTTAAAGATATAATAAAATATATAAGTCATATTTGATACAC
AAGATATGATAA
Found at i:15832788 original size:16 final size:17
Alignment explanation
Indices: 15832753--15832790 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
15832743 AATTTTAATT
*
15832753 ATTTTTAAAAAATCTTAA
1 ATTTTTAAAAAA-CTAAA
15832771 ATTTTTAAAAAA-TAAA
1 ATTTTTAAAAAACTAAA
15832787 ATTT
1 ATTT
15832791 GCAAAATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
18 12 0.63
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTTTAAAAAACTAAA
Found at i:15833557 original size:100 final size:103
Alignment explanation
Indices: 15833429--15833627 Score: 323
Period size: 100 Copynumber: 2.0 Consensus size: 103
15833419 CTTCTAATTT
*
15833429 TGCATAAAATGTCATGATTTGGAATTATATATATTAAAAAGAACCATGAGAGAAT-AAAAAA-AA
1 TGCATAAAATGTCATGATTTGGAATTATATATATTAAAAAGAACAATGAGAGAATAAAAAAATAA
* *
15833492 AAT-TTGAATTTTAGCTTATTTGTTATTTTTCTTTGTC
66 AATATTGAATTTTAGCTTATTGGCTATTTTTCTTTGTC
* *
15833529 TGCATAAAATGTCATGATTTGGAATTATATTTATTAAAAAGAACAATGAGGGAATAAAAAAATAA
1 TGCATAAAATGTCATGATTTGGAATTATATATATTAAAAAGAACAATGAGAGAATAAAAAAATAA
15833594 AATAATTGAATTTTAGCTTATTGGCTATTTTTCT
66 AAT-ATTGAATTTTAGCTTATTGGCTATTTTTCT
15833628 ATGCCATTTA
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
100 52 0.58
101 6 0.07
102 5 0.06
104 27 0.30
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.39
Consensus pattern (103 bp):
TGCATAAAATGTCATGATTTGGAATTATATATATTAAAAAGAACAATGAGAGAATAAAAAAATAA
AATATTGAATTTTAGCTTATTGGCTATTTTTCTTTGTC
Found at i:15834421 original size:35 final size:34
Alignment explanation
Indices: 15834347--15834421 Score: 82
Period size: 35 Copynumber: 2.1 Consensus size: 34
15834337 TGTAAAATGT
* *
15834347 TTTTAATAGAAAAATTATTTCTAAAATTTTTCCAT
1 TTTTAATAGAAAAATTATTTATAAAATTTTT-CAC
15834382 TTTTAA-AGTAAAAATTATTTTAATAAAATTTTT-AC
1 TTTTAATAG-AAAAATTA-TTT-ATAAAATTTTTCAC
15834417 TTTTA
1 TTTTA
15834422 TTTTTCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
34 2 0.06
35 20 0.57
36 3 0.09
37 10 0.29
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (34 bp):
TTTTAATAGAAAAATTATTTATAAAATTTTTCAC
Found at i:15843132 original size:21 final size:20
Alignment explanation
Indices: 15843087--15843137 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
15843077 TTTTGGACAG
*
15843087 AAGGGATCGATCCCCTAAGGG
1 AAGGGATCGATCCCCT-AGGA
15843108 AAGGGATCGATCCCCT-GGTTA
1 AAGGGATCGATCCCCTAGG--A
15843129 AAGGGATCG
1 AAGGGATCG
15843138 CTCCATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
21 25 0.93
ACGTcount: A:0.27, C:0.22, G:0.33, T:0.18
Consensus pattern (20 bp):
AAGGGATCGATCCCCTAGGA
Found at i:15844736 original size:13 final size:13
Alignment explanation
Indices: 15844718--15844744 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15844708 AATTTATTTG
15844718 TATTTTAATTTTT
1 TATTTTAATTTTT
15844731 TATTTTAATTTTT
1 TATTTTAATTTTT
15844744 T
1 T
15844745 TAGTCAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TATTTTAATTTTT
Found at i:15845362 original size:16 final size:16
Alignment explanation
Indices: 15845343--15845379 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
15845333 TTTTTGCATG
15845343 TATTTGCATAATAATT
1 TATTTGCATAATAATT
* *
15845359 TATTTGCCTAATATTT
1 TATTTGCATAATAATT
15845375 TATTT
1 TATTT
15845380 ACATGATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.30, C:0.08, G:0.05, T:0.57
Consensus pattern (16 bp):
TATTTGCATAATAATT
Found at i:15845455 original size:20 final size:20
Alignment explanation
Indices: 15845402--15845456 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
15845392 TATGTGTGAT
15845402 TTATTAA-TATATTTACATGA
1 TTATTAATTA-ATTTACATGA
* ** *
15845422 CTATTAATGCATTTGCATGA
1 TTATTAATTAATTTACATGA
15845442 TTATTAATTAATTTA
1 TTATTAATTAATTTA
15845457 TTTTTGTGAT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.49
Consensus pattern (20 bp):
TTATTAATTAATTTACATGA
Found at i:15845539 original size:53 final size:55
Alignment explanation
Indices: 15845475--15845640 Score: 185
Period size: 56 Copynumber: 3.0 Consensus size: 55
15845465 ATTGTATGAT
* * *
15845475 TATTATTATATATTTAATTGCATGTTTATTTGCTTGATT-T-ATATTATTATTTG
1 TATTATTATATATTTAATTGCATGTTTATTTACATAATTATAATATTATTATTTG
* *
15845528 TATTATTATATATTTAATTGCATATTTATTTACATAATTATCAATTTTATTATTTG
1 TATTATTATATATTTAATTGCATGTTTATTTACATAATTAT-AATATTATTATTTG
* * * * * *
15845584 CATGATTATATATTTAATTGCATGTCTAATTACATGATTTTTAAT-TTATTTATTTG
1 TATTATTATATATTTAATTGCATGTTTATTTACAT-AATTATAATATTA-TTATTTG
15845640 T
1 T
15845641 GTGATTGTAT
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
53 35 0.37
54 1 0.01
55 3 0.03
56 52 0.55
57 4 0.04
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (55 bp):
TATTATTATATATTTAATTGCATGTTTATTTACATAATTATAATATTATTATTTG
Found at i:15845582 original size:56 final size:53
Alignment explanation
Indices: 15845475--15845606 Score: 174
Period size: 53 Copynumber: 2.4 Consensus size: 53
15845465 ATTGTATGAT
* * * *
15845475 TATTATTATATATTTAATTGCATGTTTATTTGCTTGATTTATATTATTATTTG
1 TATTATTATATATTTAATTGCATATTTATTTACATAATTTATATTATTATTTG
*
15845528 TATTATTATATATTTAATTGCATATTTATTTACATAATTATCAATTTTATTATTTG
1 TATTATTATATATTTAATTGCATATTTATTTACATAATT-T--ATATTATTATTTG
* *
15845584 CATGATTATATATTTAATTGCAT
1 TATTATTATATATTTAATTGCAT
15845607 GTCTAATTAC
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
53 35 0.51
54 1 0.01
56 33 0.48
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.57
Consensus pattern (53 bp):
TATTATTATATATTTAATTGCATATTTATTTACATAATTTATATTATTATTTG
Found at i:15845617 original size:56 final size:53
Alignment explanation
Indices: 15845479--15845715 Score: 178
Period size: 56 Copynumber: 4.4 Consensus size: 53
15845469 TATGATTATT
* * * * *
15845479 ATTATATATTTAATTGCATGTTTATTTGCTTGATTTATATTATTATTTGTATT
1 ATTATATATTTAATTGCATGTTTATTTACATAATTTATATTATTATTTGCATG
* *
15845532 ATTATATATTTAATTGCATATTTATTTACATAATTATCAATTTTATTATTTGCATG
1 ATTATATATTTAATTGCATGTTTATTTACATAATT-T--ATATTATTATTTGCATG
* * * * **
15845588 ATTATATATTTAATTGCATGTCTAATTACATGATTTTTAATTTATTTATTTGTGTG
1 ATTATATATTTAATTGCATGTTTATTTACATAATTTAT-A-TTA-TTATTTGCATG
* * * * * *
15845644 ATTGTATGA-TT-A-T--ATATTTATTTGCATGATTTATATTGTTAATTGCATG
1 ATTATAT-ATTTAATTGCATGTTTATTTACATAATTTATATTATTATTTGCATG
* * *
15845693 ATTATTTATTTATTTGCGTGTTT
1 ATTATATATTTAATTGCATGTTT
15845716 TACATTGTTA
Statistics
Matches: 142, Mismatches: 30, Indels: 24
0.72 0.15 0.12
Matches are distributed among these distances:
48 1 0.01
49 15 0.11
50 2 0.01
51 2 0.01
52 16 0.11
53 36 0.25
54 2 0.01
55 5 0.04
56 62 0.44
57 1 0.01
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.57
Consensus pattern (53 bp):
ATTATATATTTAATTGCATGTTTATTTACATAATTTATATTATTATTTGCATG
Found at i:15845672 original size:20 final size:20
Alignment explanation
Indices: 15845644--15845800 Score: 120
Period size: 20 Copynumber: 7.7 Consensus size: 20
15845634 TATTTGTGTG
*
15845644 ATTGTATGATTATATATTTA
1 ATTGCATGATTATATATTTA
*
15845664 TTTGCATGATT-TATATTGTTA
1 ATTGCATGATTATATA-T-TTA
*
15845685 ATTGCATGATTATTTATTTA
1 ATTGCATGATTATATATTTA
* * * *
15845705 TTTGCGTG-TTTTACATTGTTA
1 ATTGCATGATTATATA-T-TTA
* *
15845726 ATTGCATAATTAGATATTTA
1 ATTGCATGATTATATATTTA
* * * *
15845746 ATTGTATGTTTTACATTGTTTA
1 ATTGCATG-ATTATA-TATTTA
15845768 ATTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
*
15845788 ATTACATGATTAT
1 ATTGCATGATTAT
15845801 TAATTTATTT
Statistics
Matches: 104, Mismatches: 25, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
19 8 0.08
20 46 0.44
21 31 0.30
22 19 0.18
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (20 bp):
ATTGCATGATTATATATTTA
Found at i:15845676 original size:41 final size:41
Alignment explanation
Indices: 15845644--15845798 Score: 193
Period size: 41 Copynumber: 3.8 Consensus size: 41
15845634 TATTTGTGTG
* * *
15845644 ATTGTATGATTATATATTTATTTGCATGATTTATATTGTTA
1 ATTGCATGATTATATATTTAATTGCATGATTTACATTGTTA
* * * *
15845685 ATTGCATGATTATTTATTTATTTGCGTGTTTTACATTGTTA
1 ATTGCATGATTATATATTTAATTGCATGATTTACATTGTTA
* * * *
15845726 ATTGCATAATTAGATATTTAATTGTATGTTTTACATTGTTTA
1 ATTGCATGATTATATATTTAATTGCATGATTTACATTG-TTA
*
15845768 ATTGCATGATTATATATTTAATTACATGATT
1 ATTGCATGATTATATATTTAATTGCATGATT
15845799 ATTAATTTAT
Statistics
Matches: 97, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
41 68 0.70
42 29 0.30
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (41 bp):
ATTGCATGATTATATATTTAATTGCATGATTTACATTGTTA
Found at i:15845906 original size:24 final size:24
Alignment explanation
Indices: 15845873--15845934 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
15845863 TTATTATTGC
*
15845873 ATGATTTTATATTTATTATATAAT
1 ATGATATTATATTTATTATATAAT
* *
15845897 ATGATATTATATGTTATTGTATGAT
1 ATGATATTATAT-TTATTATATAAT
*
15845922 -TAATATTATATTT
1 ATGATATTATATTT
15845935 GAATGATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 2 0.06
24 21 0.64
25 10 0.30
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.56
Consensus pattern (24 bp):
ATGATATTATATTTATTATATAAT
Found at i:15846038 original size:20 final size:20
Alignment explanation
Indices: 15846023--15846063 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
15846013 GATTATATAT
*
15846023 TTGCATGATATTTTATATTA
1 TTGCATGACATTTTATATTA
*
15846043 TTGCATGGCATTTTATATTA
1 TTGCATGACATTTTATATTA
15846063 T
1 T
15846064 AATATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.07, G:0.12, T:0.54
Consensus pattern (20 bp):
TTGCATGACATTTTATATTA
Found at i:15846039 original size:18 final size:18
Alignment explanation
Indices: 15846018--15846061 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
15846008 TTCATGATTA
*
15846018 TATATTTGCATGATATTT
1 TATATTTGCATGACATTT
*
15846036 TATATTATTGCATGGCATTT
1 TATA-T-TTGCATGACATTT
15846056 TATATT
1 TATATT
15846062 ATAATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.23
19 2 0.09
20 15 0.68
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.55
Consensus pattern (18 bp):
TATATTTGCATGACATTT
Found at i:15847195 original size:21 final size:20
Alignment explanation
Indices: 15847171--15847210 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
15847161 TTTATATTGT
15847171 TCCTTGTATATATTATGCTAC
1 TCCTTGTATATATTA-GCTAC
*
15847192 TCCTTGTATATGTTAGCTA
1 TCCTTGTATATATTAGCTA
15847211 ACCTTTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.47
Consensus pattern (20 bp):
TCCTTGTATATATTAGCTAC
Found at i:15847215 original size:19 final size:21
Alignment explanation
Indices: 15847172--15847215 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
15847162 TTATATTGTT
*
15847172 CCTTGTATATATTATGCTACT
1 CCTTGTATATATTATGCTACA
*
15847193 CCTTGTATATGTTA-GCTA-A
1 CCTTGTATATATTATGCTACA
15847212 CCTT
1 CCTT
15847216 TTTCTCTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 4 0.19
21 13 0.62
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.45
Consensus pattern (21 bp):
CCTTGTATATATTATGCTACA
Found at i:15852827 original size:116 final size:116
Alignment explanation
Indices: 15852623--15852833 Score: 262
Period size: 116 Copynumber: 1.8 Consensus size: 116
15852613 TCCCAATCTA
* *
15852623 AGGTGATCGATCCCTTATGTGGAAAGATCGATCCCTTTTGTGCATTTTCAAACCAAGATTACATT
1 AGGTGATCGATCCCCTATGTGGAAAGATCGATCCCTTTTGGGCATTTTCAAACCAAGATTACATT
* * *
15852688 TTGTATAAAAAACGGATCAATCCCTTTAAGGGAAAGATCAATCCCATGCTT
66 CTATATAAAAAACAGATCAATCCCTTTAAGGGAAAGATCAATCCCATGCTT
*** * * * * *
15852739 AGGTGATCGATCCCCTATGTGGGGGGGATCGATCCCTTTTGGGGATTTT-TAATCGAGTTTACAT
1 AGGTGATCGATCCCCTATGT-GGAAAGATCGATCCCTTTTGGGCATTTTCAAACCAAGATTACAT
* **
15852803 TCTATATAAAAAATAGATTGATCCCTTTAAG
65 TCTATATAAAAAACAGATCAATCCCTTTAAG
15852834 AGAGGGATCA
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
116 55 0.71
117 23 0.29
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (116 bp):
AGGTGATCGATCCCCTATGTGGAAAGATCGATCCCTTTTGGGCATTTTCAAACCAAGATTACATT
CTATATAAAAAACAGATCAATCCCTTTAAGGGAAAGATCAATCCCATGCTT
Found at i:15853402 original size:36 final size:35
Alignment explanation
Indices: 15853362--15853477 Score: 144
Period size: 36 Copynumber: 3.2 Consensus size: 35
15853352 AGGAATATTG
* *
15853362 CATACCATCAAGACCATCAATCAAATAAAAATGTTT
1 CATACCATCAAAATCATCAATCAAATAAAAAT-TTT
* *
15853398 CATACCACCAAAATCATCAATCAAATATAAATTTT
1 CATACCATCAAAATCATCAATCAAATAAAAATTTT
*
15853433 GCATACCA-CTAAAATCATCAATCAAATAAAGATTTTT
1 -CATACCATC-AAAATCATCAATCAAATAAA-AATTTT
15853470 CATACCAT
1 CATACCAT
15853478 TGTCTCTCCT
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
35 4 0.06
36 61 0.87
37 5 0.07
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.28
Consensus pattern (35 bp):
CATACCATCAAAATCATCAATCAAATAAAAATTTT
Found at i:15862888 original size:15 final size:15
Alignment explanation
Indices: 15862865--15862932 Score: 70
Period size: 15 Copynumber: 4.6 Consensus size: 15
15862855 GTGCAAAGCA
15862865 AAAAAAAAACAAAAC
1 AAAAAAAAACAAAAC
*
15862880 AAAACAAAACAAAAC
1 AAAAAAAAACAAAAC
* *
15862895 AAAAAATAA-AAAAT
1 AAAAAAAAACAAAAC
15862909 AAAAAACAAA-AAAA-
1 AAAAAA-AAACAAAAC
15862923 AAATAAAAAA
1 AAA-AAAAAA
15862933 GGAAAAAGGA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
14 16 0.35
15 30 0.65
ACGTcount: A:0.87, C:0.09, G:0.00, T:0.04
Consensus pattern (15 bp):
AAAAAAAAACAAAAC
Found at i:15862915 original size:31 final size:31
Alignment explanation
Indices: 15862858--15862932 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
15862848 AAGAGATGTG
*
15862858 CAAAGCAAAAAAAAAACAAAACAAAACAAAA
1 CAAAACAAAAAAAAAACAAAACAAAACAAAA
15862889 CAAAACAAAAAATAAAA-AATAA-AAAACAAAA
1 CAAAACAAAAAA-AAAACAA-AACAAAACAAAA
*
15862920 -AAAA-AATAAAAAA
1 CAAAACAAAAAAAAA
15862933 GGAAAAAGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 3 0.08
29 5 0.12
30 4 0.10
31 22 0.55
32 6 0.15
ACGTcount: A:0.84, C:0.11, G:0.01, T:0.04
Consensus pattern (31 bp):
CAAAACAAAAAAAAAACAAAACAAAACAAAA
Found at i:15862932 original size:10 final size:10
Alignment explanation
Indices: 15862865--15862924 Score: 77
Period size: 10 Copynumber: 5.9 Consensus size: 10
15862855 GTGCAAAGCA
15862865 AAAAAAAAAC
1 AAAAAAAAAC
*
15862875 AAAACAAAAC
1 AAAAAAAAAC
*
15862885 AAAACAAAAC
1 AAAAAAAAAC
15862895 AAAAAATAAA-
1 AAAAAA-AAAC
15862905 AAATAAAAAAC
1 AAA-AAAAAAC
15862916 AAAAAAAAA
1 AAAAAAAAA
15862925 ATAAAAAAGG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
10 36 0.80
11 9 0.20
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:15862939 original size:1 final size:1
Alignment explanation
Indices: 15862864--15862932 Score: 57
Period size: 1 Copynumber: 69.0 Consensus size: 1
15862854 TGTGCAAAGC
* * * * * * * * *
15862864 AAAAAAAAAACAAAACAAAACAAAACAAAACAAAAAATAAAAAATAAAAAACAAAAAAAAAATAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
15862929 AAAA
1 AAAA
15862933 GGAAAAAGGA
Statistics
Matches: 50, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.87, C:0.09, G:0.00, T:0.04
Consensus pattern (1 bp):
A
Found at i:15862939 original size:18 final size:18
Alignment explanation
Indices: 15862864--15862932 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
15862854 TGTGCAAAGC
*
15862864 AAAAAAAAA-ACAAAACA
1 AAAAAAAAATAAAAAACA
*
15862881 AAACAAAACAA-AACAAA-A
1 AAA-AAAA-AATAAAAAACA
*
15862899 AATAAAAAATAAAAAACA
1 AAAAAAAAATAAAAAACA
15862917 AAAAAAAAATAAAAAA
1 AAAAAAAAATAAAAAA
15862933 GGAAAAAGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
16 2 0.05
17 12 0.28
18 23 0.53
19 6 0.14
ACGTcount: A:0.87, C:0.09, G:0.00, T:0.04
Consensus pattern (18 bp):
AAAAAAAAATAAAAAACA
Found at i:15864221 original size:13 final size:13
Alignment explanation
Indices: 15864203--15864227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15864193 AGAATCTTTT
15864203 CATTAATTGCATG
1 CATTAATTGCATG
15864216 CATTAATTGCAT
1 CATTAATTGCAT
15864228 ATATTGGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (13 bp):
CATTAATTGCATG
Found at i:15864832 original size:43 final size:43
Alignment explanation
Indices: 15864400--15864832 Score: 448
Period size: 43 Copynumber: 10.1 Consensus size: 43
15864390 TGAATGATTT
* *
15864400 CATTTTATTTTTCAAAAGTTTCAAAGTCTCAGTTGT-TGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* * * * *
15864442 TATTTTATTTTTTTCAAAA-TTCCAAAGCCTTAGTTGTGGAGGAA
1 CATTTTA--TTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* * * *
15864486 CATTTTATTTTTTC-AAAGTTCCAAAGCCTCAGTGGTAGGGGAC
1 CATTTTA-TTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
** * *
15864529 CATTTTATTTTAAAAAAGTTT-AAATGCCTCAGTTGTAGGAGAG
1 CATTTTATTTTTCAAAAGTTTCAAA-GCCTCAGTTGTGGGGGAG
* *
15864572 CATTTTATTTTTCCAAAGTTTCAAAGCCTCAGTTGTGGGGAAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* **
15864615 CATTTTATTTTTCAAAAGTTCCAAAGTTTCAGTTGTGGGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* * * *
15864658 CATTTTATTTTTC-AAAGTTTTAAAACCTCAGTTGTGAGAGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* * *
15864700 TATTTTA-TTTTCAAAAGTTTCAAAGCCTCAGTTGTAGGGAAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* * * * *
15864742 CATTTTATTTTT-AAAAGTTTCAAAGCGTCAATTGAGGGGAAA
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
* * * *
15864784 CATTTTATTTTTCGAAAGTTTCAAAGCTTTAGTTATGGGGGAG
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
*
15864827 TATTTT
1 CATTTT
15864833 TCAAAAAAAA
Statistics
Matches: 322, Mismatches: 59, Indels: 19
0.81 0.15 0.05
Matches are distributed among these distances:
41 5 0.02
42 110 0.34
43 185 0.57
44 22 0.07
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (43 bp):
CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGGGAG
Found at i:15865784 original size:16 final size:16
Alignment explanation
Indices: 15865765--15865805 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
15865755 ATTAATATTA
*
15865765 TATTTGCATAATAATT
1 TATTTACATAATAATT
* *
15865781 TATTTACCTAATATTT
1 TATTTACATAATAATT
15865797 TATTTACAT
1 TATTTACAT
15865806 GATTAATATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.54
Consensus pattern (16 bp):
TATTTACATAATAATT
Found at i:15865852 original size:20 final size:20
Alignment explanation
Indices: 15865807--15865899 Score: 96
Period size: 20 Copynumber: 4.6 Consensus size: 20
15865797 TATTTACATG
**
15865807 ATTAATATATTTGTGTGATTT
1 ATTAATATATTTGCATGA-TT
*
15865828 ATTAATATATTTGCATGACT
1 ATTAATATATTTGCATGATT
* *
15865848 ATTAATATGTTTGCATTATT
1 ATTAATATATTTGCATGATT
* *
15865868 ATTAATTTATTTGCCTGATT
1 ATTAATATATTTGCATGATT
* *
15865888 ATCAATTTATTT
1 ATTAATATATTT
15865900 ATTTGTGTGA
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
20 45 0.74
21 16 0.26
ACGTcount: A:0.30, C:0.06, G:0.10, T:0.54
Consensus pattern (20 bp):
ATTAATATATTTGCATGATT
Found at i:15865933 original size:20 final size:20
Alignment explanation
Indices: 15865909--15866106 Score: 143
Period size: 20 Copynumber: 9.7 Consensus size: 20
15865899 TATTTGTGTG
15865909 ATTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
* *
15865929 TTTGCACGATT-TATATTGTTA
1 ATTGCATGATTATATA-T-TTA
**
15865950 ATTGTGTGATTATATATTTA
1 ATTGCATGATTATATATTTA
* *
15865970 TTTGCATAATT-TATATTGCTA
1 ATTGCATGATTATATATT--TA
15865991 ATTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
* * *
15866011 TTTGCATG-TTTTACATTGTTA
1 ATTGCATGATTATATA-T-TTA
*
15866032 ATTGCAT-AGTTAAATATTTA
1 ATTGCATGA-TTATATATTTA
* * * *
15866052 TTTGCATGTTTTACACTGTTTA
1 ATTGCATG-ATTATA-TATTTA
*
15866074 ATTACATGATTATATATTTA
1 ATTGCATGATTATATATTTA
*
15866094 ATTACATGATTAT
1 ATTGCATGATTAT
15866107 TAATTTATTT
Statistics
Matches: 137, Mismatches: 28, Indels: 26
0.72 0.15 0.14
Matches are distributed among these distances:
19 15 0.11
20 57 0.42
21 40 0.29
22 25 0.18
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (20 bp):
ATTGCATGATTATATATTTA
Found at i:15865960 original size:41 final size:41
Alignment explanation
Indices: 15865909--15866104 Score: 241
Period size: 41 Copynumber: 4.8 Consensus size: 41
15865899 TATTTGTGTG
* *
15865909 ATTGCATGATTATATATTTATTTGCACGATTTATATTGTTA
1 ATTGCATGATTATATATTTATTTGCATGATTTACATTGTTA
** * * *
15865950 ATTGTGTGATTATATATTTATTTGCATAATTTATATTGCTA
1 ATTGCATGATTATATATTTATTTGCATGATTTACATTGTTA
*
15865991 ATTGCATGATTATATATTTATTTGCATGTTTTACATTGTTA
1 ATTGCATGATTATATATTTATTTGCATGATTTACATTGTTA
* * *
15866032 ATTGCAT-AGTTAAATATTTATTTGCATGTTTTACACTGTTTA
1 ATTGCATGA-TTATATATTTATTTGCATGATTTACATTG-TTA
* * *
15866074 ATTACATGATTATATATTTAATTACATGATT
1 ATTGCATGATTATATATTTATTTGCATGATT
15866105 ATTAATTTAT
Statistics
Matches: 134, Mismatches: 18, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
40 1 0.01
41 105 0.78
42 27 0.20
43 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (41 bp):
ATTGCATGATTATATATTTATTTGCATGATTTACATTGTTA
Found at i:15866325 original size:16 final size:16
Alignment explanation
Indices: 15866281--15866337 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
15866271 GTGTGCATAA
15866281 TTGCATGA-T-TATAT
1 TTGCATGATTATATAT
* *
15866295 TTGTATGCTTATATAT
1 TTGCATGATTATATAT
*
15866311 GATTTCATGATTATATAT
1 --TTGCATGATTATATAT
15866329 TTGCATGAT
1 TTGCATGAT
15866338 ATTTTATATT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
14 6 0.18
15 1 0.03
16 13 0.39
18 13 0.39
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.51
Consensus pattern (16 bp):
TTGCATGATTATATAT
Found at i:15867130 original size:14 final size:15
Alignment explanation
Indices: 15867111--15867143 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
15867101 TTTAATTTTA
*
15867111 TATTAATATAAAT-T
1 TATTAATAAAAATAT
15867125 TATTAATAAAAATAT
1 TATTAATAAAAATAT
15867140 TATT
1 TATT
15867144 TCATACCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TATTAATAAAAATAT
Found at i:15867292 original size:10 final size:10
Alignment explanation
Indices: 15867277--15867303 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
15867267 GAGGTCGAAT
15867277 GCGAGTTGGA
1 GCGAGTTGGA
15867287 GCGAGTTGGA
1 GCGAGTTGGA
15867297 GCGAGTT
1 GCGAGTT
15867304 AGACATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.48, T:0.22
Consensus pattern (10 bp):
GCGAGTTGGA
Found at i:15867393 original size:21 final size:19
Alignment explanation
Indices: 15867369--15867415 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
15867359 TTATCATTTA
*
15867369 CTTAATTGATTAATTTTATAG
1 CTTAATTGATTAAATTT-T-G
*
15867390 CTTATTTGATTAAATTTTG
1 CTTAATTGATTAAATTTTG
15867409 CTTAATT
1 CTTAATT
15867416 AATCACAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.30
20 1 0.04
21 15 0.65
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (19 bp):
CTTAATTGATTAAATTTTG
Found at i:15877698 original size:23 final size:25
Alignment explanation
Indices: 15877666--15877715 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
15877656 TGTAGTTTAT
*
15877666 TAGTTGATTAT-TCAATTATAT-AA
1 TAGTTAATTATATCAATTATATGAA
*
15877689 TAGTTAATTATATGAATTATATGAA
1 TAGTTAATTATATCAATTATATGAA
15877714 TA
1 TA
15877716 TAATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 10 0.43
24 9 0.39
25 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (25 bp):
TAGTTAATTATATCAATTATATGAA
Found at i:15886692 original size:36 final size:39
Alignment explanation
Indices: 15886652--15886726 Score: 102
Period size: 36 Copynumber: 2.0 Consensus size: 39
15886642 TGGGGATGTC
* *
15886652 AATAATGAATAAAGTG-AAA-AAAAAT-AAAAGAAAAAG
1 AATAATGAAAAAAATGAAAACAAAAATGAAAAGAAAAAG
15886688 AATAATGAAAAAAATGAAAAACAAAAATGAAAAGAAAAA
1 AATAATGAAAAAAATG-AAAACAAAAATGAAAAGAAAAA
15886727 AGAGAAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 14 0.42
38 3 0.09
39 6 0.18
40 10 0.30
ACGTcount: A:0.75, C:0.01, G:0.12, T:0.12
Consensus pattern (39 bp):
AATAATGAAAAAAATGAAAACAAAAATGAAAAGAAAAAG
Found at i:15886697 original size:13 final size:14
Alignment explanation
Indices: 15886659--15886701 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
15886649 GTCAATAATG
15886659 AATAAAGTGAAAAAA
1 AATAAA-TGAAAAAA
* *
15886674 AATAAAAGAAAAAG
1 AATAAATGAAAAAA
15886688 AAT-AATGAAAAAA
1 AATAAATGAAAAAA
15886701 A
1 A
15886702 TGAAAAACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 9 0.38
14 9 0.38
15 6 0.25
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (14 bp):
AATAAATGAAAAAA
Found at i:15886706 original size:22 final size:21
Alignment explanation
Indices: 15886677--15886720 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
15886667 GAAAAAAAAT
* *
15886677 AAAAGAAAAAGAATAATGAAA
1 AAAAGAAAAACAAAAATGAAA
15886698 AAAATGAAAAACAAAAATGAAA
1 AAAA-GAAAAACAAAAATGAAA
15886720 A
1 A
15886721 GAAAAAAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.77, C:0.02, G:0.11, T:0.09
Consensus pattern (21 bp):
AAAAGAAAAACAAAAATGAAA
Found at i:15886724 original size:27 final size:26
Alignment explanation
Indices: 15886669--15886727 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
15886659 AATAAAGTGA
*
15886669 AAAAAAATAAAAGAAAAAGAATAATG
1 AAAAAAATAAAACAAAAAGAATAATG
15886695 AAAAAAATGAAAAACAAAAATGAA-AA-G
1 AAAAAAAT--AAAACAAAAA-GAATAATG
15886722 AAAAAA
1 AAAAAA
15886728 GAGAAATGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 8 0.28
27 7 0.24
28 11 0.38
29 3 0.10
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.08
Consensus pattern (26 bp):
AAAAAAATAAAACAAAAAGAATAATG
Found at i:15886726 original size:13 final size:13
Alignment explanation
Indices: 15886670--15886727 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
15886660 ATAAAGTGAA
15886670 AAAAAAT-AAAAG
1 AAAAAATGAAAAG
15886682 -AAAAA-GAATAATG
1 AAAAAATGAA-AA-G
15886695 AAAAAAATGAAAA-
1 -AAAAAATGAAAAG
15886708 ACAAAAATGAAAAG
1 A-AAAAATGAAAAG
15886722 AAAAAA
1 AAAAAA
15886728 GAGAAATGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 15
0.72 0.00 0.28
Matches are distributed among these distances:
11 7 0.18
12 3 0.08
13 17 0.45
14 1 0.03
15 7 0.18
16 3 0.08
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.09
Consensus pattern (13 bp):
AAAAAATGAAAAG
Found at i:15886726 original size:19 final size:20
Alignment explanation
Indices: 15886704--15886742 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
15886694 GAAAAAAATG
15886704 AAAAACAAAAATGA-AAAGA
1 AAAAACAAAAATGAGAAAGA
* *
15886723 AAAAAGAGAAATGAGAAAGA
1 AAAAACAAAAATGAGAAAGA
15886743 TATGGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.05
Consensus pattern (20 bp):
AAAAACAAAAATGAGAAAGA
Found at i:15886778 original size:25 final size:25
Alignment explanation
Indices: 15886669--15886784 Score: 67
Period size: 26 Copynumber: 4.5 Consensus size: 25
15886659 AATAAAGTGA
* * * *
15886669 AAAAAAATAAAAGAAAAAGAATAATG
1 AAAAAAAGAAAAGAGAAA-CATAAAG
* *
15886695 AAAAAAATGAAAA-ACAAAAATGAAA-
1 AAAAAAA-GAAAAGAGAAACAT-AAAG
* **
15886720 AGAAAAAAGAGAAATGAGAAAGATATGG
1 A-AAAAAAGA-AAA-GAGAAACATAAAG
15886748 ATAAAAAA-AAAAGAGAAACATAAAG
1 A-AAAAAAGAAAAGAGAAACATAAAG
15886773 AAAAAAAGAAAA
1 AAAAAAAGAAAA
15886785 CTTAAATTGA
Statistics
Matches: 71, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
24 6 0.08
25 21 0.30
26 25 0.35
27 6 0.08
28 13 0.18
ACGTcount: A:0.75, C:0.02, G:0.15, T:0.09
Consensus pattern (25 bp):
AAAAAAAGAAAAGAGAAACATAAAG
Found at i:15886782 original size:18 final size:19
Alignment explanation
Indices: 15886748--15886790 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
15886738 AAAGATATGG
15886748 ATAAAAAAAAAAGAGAAAC
1 ATAAAAAAAAAAGAGAAAC
15886767 ATAAAGAAAAAAAGA-AAAC
1 ATAAA-AAAAAAAGAGAAAC
*
15886786 TTAAA
1 ATAAA
15886791 TTGAAAACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.77, C:0.05, G:0.09, T:0.09
Consensus pattern (19 bp):
ATAAAAAAAAAAGAGAAAC
Found at i:15887620 original size:28 final size:28
Alignment explanation
Indices: 15887578--15887686 Score: 130
Period size: 28 Copynumber: 3.9 Consensus size: 28
15887568 CCACAATTAG
*
15887578 TTGCATTCATTAACATTACATTCATGCA
1 TTGCATTCATAAACATTACATTCATGCA
*
15887606 TTGCATTAATAAACATTGA-ATTCATGCA
1 TTGCATTCATAAACATT-ACATTCATGCA
* * *
15887634 TTGCATTCATAAACATTGCTTTTATGCA
1 TTGCATTCATAAACATTACATTCATGCA
** *
15887662 TCACATTCATAAACATTACACTCAT
1 TTGCATTCATAAACATTACATTCAT
15887687 TTAATTTGTT
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
28 66 0.99
29 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (28 bp):
TTGCATTCATAAACATTACATTCATGCA
Found at i:15887652 original size:15 final size:14
Alignment explanation
Indices: 15887578--15887652 Score: 64
Period size: 15 Copynumber: 5.3 Consensus size: 14
15887568 CCACAATTAG
15887578 TTGCATTCATTAACA
1 TTGCATTCA-TAACA
* *
15887593 TTACATTCAT-GCA
1 TTGCATTCATAACA
*
15887606 TTGCATTAATAAACA
1 TTGCATTCAT-AACA
* *
15887621 TTGAATTCAT-GCA
1 TTGCATTCATAACA
15887634 TTGCATTCATAAACA
1 TTGCATTCAT-AACA
15887649 TTGC
1 TTGC
15887653 TTTTATGCAT
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
13 21 0.46
14 1 0.02
15 24 0.52
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (14 bp):
TTGCATTCATAACA
Found at i:15888621 original size:18 final size:17
Alignment explanation
Indices: 15888583--15888666 Score: 78
Period size: 18 Copynumber: 4.8 Consensus size: 17
15888573 TGAATGTTTG
* * *
15888583 AATCTTAAATGTTTGCG
1 AATCTTGAATCTTTGCA
15888600 AATCTTGAATCATTTGCA
1 AATCTTGAATC-TTTGCA
*
15888618 AATCTTGAATCTCTTACA
1 AATCTTGAATCT-TTGCA
**
15888636 AATCTTTGAATCTTTGTG
1 AATC-TTGAATCTTTGCA
*
15888654 AATTTTGAATCTT
1 AATCTTGAATCTT
15888667 ATATGAATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
17 19 0.34
18 29 0.52
19 8 0.14
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (17 bp):
AATCTTGAATCTTTGCA
Found at i:15888660 original size:17 final size:18
Alignment explanation
Indices: 15888640--15888677 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
15888630 CTTACAAATC
*
15888640 TTTGAATCTT-TGTGAAT
1 TTTGAATCTTATATGAAT
15888657 TTTGAATCTTATATGAAT
1 TTTGAATCTTATATGAAT
15888675 TTT
1 TTT
15888678 TAAAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.55
Consensus pattern (18 bp):
TTTGAATCTTATATGAAT
Found at i:15888741 original size:17 final size:18
Alignment explanation
Indices: 15888708--15888741 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15888698 AATGACTTGC
15888708 AAATCTGAAATCTTTTGA
1 AAATCTGAAATCTTTTGA
*
15888726 AAATCTTAAA-CTTTTG
1 AAATCTGAAATCTTTTG
15888742 CTTATCCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (18 bp):
AAATCTGAAATCTTTTGA
Found at i:15888929 original size:22 final size:20
Alignment explanation
Indices: 15888865--15888931 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
15888855 CAAGCTTTTA
15888865 AATTCAAATTGAGAA-TCTTTG
1 AATTC-AATTGAGAATTC-TTG
* *
15888886 AATTTAATTGTGAACTTC-TG
1 AATTCAATTGAGAA-TTCTTG
15888906 AACTTCAAGTTGAGAATTCTTG
1 AA-TTCAA-TTGAGAATTCTTG
15888928 AATT
1 AATT
15888932 TCAAATTACG
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
20 12 0.32
21 13 0.35
22 12 0.32
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.40
Consensus pattern (20 bp):
AATTCAATTGAGAATTCTTG
Found at i:15888934 original size:22 final size:21
Alignment explanation
Indices: 15888871--15888935 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
15888861 TTTAAATTCA
15888871 AATTGAGAA-TCTTTGAATTT-
1 AATTGAGAATTC-TTGAATTTC
* *
15888891 AATTGTGAACTTC-TGAACTTC
1 AATTGAGAA-TTCTTGAATTTC
15888912 AAGTTGAGAATTCTTGAATTTC
1 AA-TTGAGAATTCTTGAATTTC
15888934 AA
1 AA
15888936 ATTACGAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
20 14 0.39
21 5 0.14
22 17 0.47
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (21 bp):
AATTGAGAATTCTTGAATTTC
Found at i:15889478 original size:12 final size:12
Alignment explanation
Indices: 15889461--15889498 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
15889451 ATGAAGAATC
15889461 AATCAAAAAAAA
1 AATCAAAAAAAA
15889473 AATCAAGAAAAAA
1 AATCAA-AAAAAA
15889486 AAGT-AAAAAAAA
1 AA-TCAAAAAAAA
15889498 A
1 A
15889499 GAAAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 13 0.54
13 10 0.42
14 1 0.04
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.08
Consensus pattern (12 bp):
AATCAAAAAAAA
Found at i:15890159 original size:51 final size:48
Alignment explanation
Indices: 15890068--15890190 Score: 122
Period size: 51 Copynumber: 2.5 Consensus size: 48
15890058 AATTCATGAT
* * ** *
15890068 TCCTACCAAACTATTGGAGAATCTTCATGAGTTTAAAAATTTTAATTTAA
1 TCCTACCAAACAATTGGAGAAT-TTCATGAATAAAAAAATTAT-ATTTAA
* * *
15890118 GTTCTACCAAACGATTGGAGAATTTCAT-AATAAAAATAAATTATCTTTAA
1 -TCCTACCAAACAATTGGAGAATTTCATGAAT-AAAA-AAATTATATTTAA
15890168 TCCTACCAAACAATTGGAGAATT
1 TCCTACCAAACAATTGGAGAATT
15890191 CAAATCTCGA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
49 23 0.38
50 12 0.20
51 26 0.43
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.34
Consensus pattern (48 bp):
TCCTACCAAACAATTGGAGAATTTCATGAATAAAAAAATTATATTTAA
Found at i:15891109 original size:21 final size:20
Alignment explanation
Indices: 15891083--15891121 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15891073 ATTTTAAAAA
15891083 TTAATTGACTAAAATTTATTT
1 TTAATT-ACTAAAATTTATTT
*
15891104 TTAATTTCTAAAATTTAT
1 TTAATTACTAAAATTTAT
15891122 AATATTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (20 bp):
TTAATTACTAAAATTTATTT
Found at i:15892261 original size:39 final size:40
Alignment explanation
Indices: 15892191--15892295 Score: 99
Period size: 39 Copynumber: 2.6 Consensus size: 40
15892181 TAATATTTTT
* * *
15892191 AAATCAATATTTCAAAAATTTTATAATTTTTTTATAGTTTT-A
1 AAATC-ATATTT-TAAATTTTTTTAATTTTTTTA-AGTTTTAA
** *
15892233 AAATGTTAATTTT-AATTTTTTTAA-TTTTTTAATTTTTAA
1 AAATCAT-ATTTTAAATTTTTTTAATTTTTTTAAGTTTTAA
15892272 AAATCATATTTTAAATTTTTTTAA
1 AAATCATATTTTAAATTTTTTTAA
15892296 AAATTGAATT
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
38 10 0.19
39 24 0.46
40 9 0.17
41 1 0.02
42 8 0.15
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (40 bp):
AAATCATATTTTAAATTTTTTTAATTTTTTTAAGTTTTAA
Found at i:15893078 original size:24 final size:24
Alignment explanation
Indices: 15893006--15893083 Score: 68
Period size: 24 Copynumber: 3.1 Consensus size: 24
15892996 TCTAAAAATT
*
15893006 AAAATATCGATTTTTTAAAAAATATA
1 AAAATAT-GATTTTTTAAAAAACA-A
* *
15893032 TAAAATATGA-TTTTCATATAAACAA
1 -AAAATATGATTTTTTA-AAAAACAA
* *
15893057 AAAATTTGATTTTTTAAAAAACTA
1 AAAATATGATTTTTTAAAAAACAA
15893081 AAA
1 AAA
15893084 TATTAAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
24 17 0.40
25 11 0.26
26 7 0.17
27 7 0.17
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (24 bp):
AAAATATGATTTTTTAAAAAACAA
Found at i:15893134 original size:41 final size:40
Alignment explanation
Indices: 15893058--15893158 Score: 107
Period size: 41 Copynumber: 2.5 Consensus size: 40
15893048 TATAAACAAA
15893058 AAATTTGATTTTTTAAAAAACTAAAATATTAAAAAAATATC
1 AAATTTGA-TTTTTAAAAAACTAAAATATTAAAAAAATATC
* * *
15893099 AAATTTGATATTTTAAAAAA-TGAAAA-ATTGTAAAAAATTTG
1 AAATTTGAT-TTTTAAAAAACT-AAAATATT-AAAAAAATATC
*
15893140 AAATATTAATTTTTAAAAA
1 AAAT-TTGATTTTTAAAAA
15893159 TAATTAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
40 5 0.10
41 43 0.83
42 4 0.08
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (40 bp):
AAATTTGATTTTTAAAAAACTAAAATATTAAAAAAATATC
Found at i:15893156 original size:24 final size:23
Alignment explanation
Indices: 15893129--15893184 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 23
15893119 TGAAAAATTG
15893129 TAAAAAATTTGAAATAT-TAATTTT
1 TAAAAAATTT-AAA-ATCTAATTTT
*
15893153 TAAAAATAATTAAAATCTAATTTT
1 TAAAAA-ATTTAAAATCTAATTTT
15893177 TAAAAAAT
1 TAAAAAAT
15893185 ATATATGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 3 0.11
24 22 0.79
25 3 0.11
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
TAAAAAATTTAAAATCTAATTTT
Found at i:15894940 original size:30 final size:27
Alignment explanation
Indices: 15894906--15895061 Score: 123
Period size: 30 Copynumber: 5.3 Consensus size: 27
15894896 TTTTTTATAT
*
15894906 TTCTAAAAAATTTGAAGAATTTTTGAAAAA
1 TTCTAAAAAATTT-AA-AAATTTT-AAAAA
15894936 TTCTAAAAAAAAATTTAAAAATTTTAAAAA
1 TTCT---AAAAAATTTAAAAATTTTAAAAA
* * *
15894966 TTATAAAAAATTAATAAAATTAATAAAAAA
1 TTCTAAAAAATTTA-AAAATT--TTAAAAA
* * *
15894996 TTCTAACAAATTTTAAGAATTATAAAAA
1 TTCTAA-AAAATTTAAAAATTTTAAAAA
*
15895024 TTTCAAAAAATATTTAAAAAATTTTAAAAA
1 -TTCTAAAAA-ATTT-AAAAATTTTAAAAA
15895054 TTCTAAAA
1 TTCTAAAA
15895062 GCAATTTGGC
Statistics
Matches: 101, Mismatches: 15, Indels: 21
0.74 0.11 0.15
Matches are distributed among these distances:
27 9 0.09
28 14 0.14
29 15 0.15
30 40 0.40
31 12 0.12
32 2 0.02
33 9 0.09
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.35
Consensus pattern (27 bp):
TTCTAAAAAATTTAAAAATTTTAAAAA
Found at i:15894943 original size:9 final size:9
Alignment explanation
Indices: 15894943--15895061 Score: 85
Period size: 9 Copynumber: 12.4 Consensus size: 9
15894933 AAATTCTAAA
*
15894943 AAAAAATTT
1 AAAAATTTT
15894952 AAAAATTTT
1 AAAAATTTT
*
15894961 AAAAATTAT
1 AAAAATTTT
* *
15894970 AAAAAATTA
1 AAAAATTTT
*
15894979 ATAAAATTAATA
1 A-AAAATT--TT
*
15894991 AAAAATTCT
1 AAAAATTTT
15895000 AACAAATTTT
1 AA-AAATTTT
* *
15895010 AAGAATTAT
1 AAAAATTTT
*
15895019 AAAAATTTCA
1 AAAAATTT-T
15895029 AAAAATATTT
1 AAAAAT-TTT
15895039 AAAAAATTTT
1 -AAAAATTTT
*
15895049 AAAAATTCT
1 AAAAATTTT
15895058 AAAA
1 AAAA
15895062 GCAATTTGGC
Statistics
Matches: 87, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
9 48 0.55
10 22 0.25
11 14 0.16
12 3 0.03
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (9 bp):
AAAAATTTT
Found at i:15894985 original size:49 final size:48
Alignment explanation
Indices: 15894931--15895061 Score: 142
Period size: 49 Copynumber: 2.7 Consensus size: 48
15894921 AGAATTTTTG
15894931 AAAAATTCTAAAAAAAAATTTAAAAATTTTAAAAATTATAAAAAATT-A
1 AAAAATT-TAAAAAAAAATTTAAAAATTTTAAAAATTATAAAAAATTCA
* * *
15894979 ATAAAA-TTAATAAAAAATTCTAACAAATTTTAAGAATTATAAAAATTTCA
1 A-AAAATTTAAAAAAAAATT-TAA-AAATTTTAAAAATTATAAAAAATTCA
* * *
15895029 AAAAATATT-TAAAAAATTTTAAAAATTCTAAAA
1 AAAAAT-TTAAAAAAAAATTTAAAAATTTTAAAA
15895062 GCAATTTGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
47 11 0.16
48 14 0.20
49 33 0.48
50 9 0.13
51 2 0.03
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.33
Consensus pattern (48 bp):
AAAAATTTAAAAAAAAATTTAAAAATTTTAAAAATTATAAAAAATTCA
Found at i:15895042 original size:11 final size:10
Alignment explanation
Indices: 15894904--15895053 Score: 87
Period size: 10 Copynumber: 15.0 Consensus size: 10
15894894 ATTTTTTTAT
15894904 ATTTCTAAAAA
1 ATTT-TAAAAA
* *
15894915 ATTTGAAGAA
1 ATTTTAAAAA
* *
15894925 TTTTTGAAAA
1 ATTTTAAAAA
*
15894935 ATTCTAAAAAAA
1 ATT-T-TAAAAA
*
15894947 AATTT-AAAA
1 ATTTTAAAAA
15894956 ATTTT-AAAA
1 ATTTTAAAAA
*
15894965 ATTATAAAAA
1 ATTTTAAAAA
15894975 A--TTAATAAA
1 ATTTTAA-AAA
*
15894984 ATTAATAAAAA
1 ATT-TTAAAAA
* *
15894995 ATTCTAACAA
1 ATTTTAAAAA
*
15895005 ATTTT-AAGA
1 ATTTTAAAAA
*
15895014 ATTAT-AAAA
1 ATTTTAAAAA
*
15895023 ATTTCAAAAA
1 ATTTTAAAAA
15895033 ATATTTAAAAA
1 AT-TTTAAAAA
15895044 ATTTTAAAAA
1 ATTTTAAAAA
15895054 TTCTAAAAGC
Statistics
Matches: 105, Mismatches: 25, Indels: 19
0.70 0.17 0.13
Matches are distributed among these distances:
8 3 0.03
9 32 0.30
10 40 0.38
11 21 0.20
12 9 0.09
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:15895061 original size:39 final size:37
Alignment explanation
Indices: 15894944--15895061 Score: 107
Period size: 40 Copynumber: 3.1 Consensus size: 37
15894934 AATTCTAAAA
* *
15894944 AAAAATTT-AAAAAT-TTT-AAAAATTATAAAAAATT
1 AAAAATTTAAAAAATATTTAAAAAATTTTAAAAATTT
* * * *
15894978 AATAAAATTAATAAAAAATTCTAACAAATTTTAAGAATTAT
1 AA-AAATTTAA-AAAATATT-TAAAAAATTTTAAAAATT-T
15895019 AAAAATTTCAAAAAATATTTAAAAAATTTTAAAAATTCT
1 AAAAATTT-AAAAAATATTTAAAAAATTTTAAAAATT-T
15895058 AAAA
1 AAAA
15895062 GCAATTTGGC
Statistics
Matches: 65, Mismatches: 11, Indels: 11
0.75 0.13 0.13
Matches are distributed among these distances:
34 2 0.03
35 5 0.08
36 1 0.02
37 4 0.06
38 2 0.03
39 22 0.34
40 24 0.37
41 5 0.08
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (37 bp):
AAAAATTTAAAAAATATTTAAAAAATTTTAAAAATTT
Found at i:15898285 original size:3 final size:3
Alignment explanation
Indices: 15898277--15898308 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
15898267 AATTAATAAA
15898277 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
15898309 TATTATTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:15900562 original size:15 final size:16
Alignment explanation
Indices: 15900529--15900565 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
15900519 ATAAAAAGAC
15900529 AAATAATTATATAATA
1 AAATAATTATATAATA
15900545 AAATATATT-TAT-ATA
1 AAATA-ATTATATAATA
15900560 AAATAA
1 AAATAA
15900566 GGTTATATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 1 0.05
15 8 0.40
16 8 0.40
17 3 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATAATTATATAATA
Found at i:15901164 original size:56 final size:57
Alignment explanation
Indices: 15901047--15901169 Score: 169
Period size: 56 Copynumber: 2.2 Consensus size: 57
15901037 AATAATTGAT
* * *
15901047 TATATAAATATAATATTTGAATAAATGTAATATTTAATTCTAAACGTAACTTTGAAA
1 TATATAAATATAATATTTGAATAAATGTAATATTTAATTATAAACATAACTTTAAAA
* * *
15901104 -ATATAAATATAATATTTGAGTAAATGTAATATTTAATTATGAATATAA-TTTAAAA
1 TATATAAATATAATATTTGAATAAATGTAATATTTAATTATAAACATAACTTTAAAA
*
15901159 TATATATATAT
1 TATATAAATAT
15901170 GTGTGTGTTG
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
55 6 0.10
56 52 0.90
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (57 bp):
TATATAAATATAATATTTGAATAAATGTAATATTTAATTATAAACATAACTTTAAAA
Found at i:15906227 original size:15 final size:16
Alignment explanation
Indices: 15906200--15906229 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15906190 AAAATAATGA
15906200 TAATATAATTTTATAC
1 TAATATAATTTTATAC
15906216 TAATAT-ATTTTATA
1 TAATATAATTTTATA
15906230 TATCATGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TAATATAATTTTATAC
Found at i:15906267 original size:12 final size:10
Alignment explanation
Indices: 15906238--15906264 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
15906228 TATATCATGG
15906238 TAAAAAATTA
1 TAAAAAATTA
15906248 TAAAAAATTA
1 TAAAAAATTA
15906258 TAAAAAA
1 TAAAAAA
15906265 AATGCAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:15908358 original size:17 final size:19
Alignment explanation
Indices: 15908311--15908358 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 19
15908301 TTAAAATACG
15908311 AATATGATATAAATTATAA
1 AATATGATATAAATTATAA
* *
15908330 AATAT-ATTTAAATTCT-A
1 AATATGATATAAATTATAA
15908347 AATATGA-ATAAA
1 AATATGATATAAA
15908359 AGACATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 10 0.40
18 10 0.40
19 5 0.20
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (19 bp):
AATATGATATAAATTATAA
Found at i:15909321 original size:2 final size:2
Alignment explanation
Indices: 15909314--15909340 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15909304 CTTTATTGAT
15909314 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 T
15909341 TATTTTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15911127 original size:2 final size:2
Alignment explanation
Indices: 15911114--15911148 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
15911104 TGATAAAACT
*
15911114 TA TA TA TT 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 TA TA T
15911149 GTAACAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:15919034 original size:65 final size:66
Alignment explanation
Indices: 15918893--15919051 Score: 166
Period size: 65 Copynumber: 2.5 Consensus size: 66
15918883 TTCGATAAAT
* * * * *
15918893 TTTCATAAATTT-ATCTCCAAATTTT-TTTCCTTTAACTTATGAAATTCTTCAATAATTTAATAG
1 TTTCATAAATTTAATCTCAAAATTTTATTT-CGTCAACCTATGAAATCCTTCAATAATTTAATAG
*
15918956 TC
65 TA
* * *
15918958 TTTTATGAATTTAATCTCAAAATTTTATTT-GTCAACCTATGAAATCCTTTAATAATTTAATAAG
1 TTTCATAAATTTAATCTCAAAATTTTATTTCGTCAACCTATGAAATCCTTCAATAATTTAAT-AG
15919022 -A
65 TA
* *
15919023 TTTCATAAATTTAATTTTAAAA-TTTATTT
1 TTTCATAAATTTAATCTCAAAATTTTATTT
15919052 ATTTTTTAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
64 7 0.09
65 54 0.69
66 14 0.18
67 3 0.04
ACGTcount: A:0.36, C:0.11, G:0.04, T:0.49
Consensus pattern (66 bp):
TTTCATAAATTTAATCTCAAAATTTTATTTCGTCAACCTATGAAATCCTTCAATAATTTAATAGT
A
Found at i:15920053 original size:3 final size:3
Alignment explanation
Indices: 15920039--15920072 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
15920029 ATATATAATT
*
15920039 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
15920073 AAATAAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:15920102 original size:11 final size:11
Alignment explanation
Indices: 15920071--15920102 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
15920061 TATTATTATT
*
15920071 ATAAATAAACA
1 ATAAATAAATA
15920082 ATAAATAAATA
1 ATAAATAAATA
15920093 ATAAATAAAT
1 ATAAATAAAT
15920103 GTGTGCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (11 bp):
ATAAATAAATA
Found at i:15933168 original size:21 final size:21
Alignment explanation
Indices: 15933144--15933183 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15933134 AAATGAATGG
* *
15933144 GAAAATAAAAAGAAGAAAACT
1 GAAAAGAAAAAGAAAAAAACT
15933165 GAAAAGAAAAAGAAAAAAA
1 GAAAAGAAAAAGAAAAAAA
15933184 ATAAAAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.05
Consensus pattern (21 bp):
GAAAAGAAAAAGAAAAAAACT
Found at i:15933879 original size:38 final size:38
Alignment explanation
Indices: 15933828--15933904 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
15933818 AAAACTTAAG
*
15933828 TTTGAAGGTTTGATTGTACTAAAATTTGAGCTTTTTCT
1 TTTGAAGGTTTGATTGTACTAAAATTTGAGCATTTTCT
* *
15933866 TTTGAAGGTTTGATTGTATTAAAGTTTGAGCATTTTCT
1 TTTGAAGGTTTGATTGTACTAAAATTTGAGCATTTTCT
15933904 T
1 T
15933905 ATCCATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.23, C:0.06, G:0.19, T:0.51
Consensus pattern (38 bp):
TTTGAAGGTTTGATTGTACTAAAATTTGAGCATTTTCT
Found at i:15940949 original size:58 final size:59
Alignment explanation
Indices: 15940887--15941015 Score: 167
Period size: 59 Copynumber: 2.2 Consensus size: 59
15940877 TCCAATATAG
*
15940887 TGGTAAAGTTTTTTCATTTTTAG-AATTGTTTTT-AAAATTTTAAAA-CCTCTTAATATGT
1 TGGTAAAGTTTTTT-ATTTTTAGAAATTATTTTTCAAAATTTTAAAACCCT-TTAATATGT
** *
15940945 TGGT-AAGACCTTTTATTTTTTGAAATTATTTTTCAAAATTTTAAAACCCTTTAATATGT
1 TGGTAAAG-TTTTTTATTTTTAGAAATTATTTTTCAAAATTTTAAAACCCTTTAATATGT
15941004 TGGTAAAGTTTT
1 TGGTAAAGTTTT
15941016 AGTTTTTCCA
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
57 10 0.17
58 17 0.28
59 27 0.45
60 6 0.10
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.50
Consensus pattern (59 bp):
TGGTAAAGTTTTTTATTTTTAGAAATTATTTTTCAAAATTTTAAAACCCTTTAATATGT
Found at i:15941165 original size:20 final size:17
Alignment explanation
Indices: 15941126--15941161 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
15941116 TATCAACTTG
15941126 TAATAATGTAAGATTTT
1 TAATAATGTAAGATTTT
*
15941143 TAATAATGTAGGATTTT
1 TAATAATGTAAGATTTT
15941160 TA
1 TA
15941162 TTAACAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (17 bp):
TAATAATGTAAGATTTT
Found at i:15942636 original size:56 final size:57
Alignment explanation
Indices: 15942478--15942651 Score: 201
Period size: 61 Copynumber: 3.0 Consensus size: 57
15942468 TTGCCTTTTA
* * * *
15942478 AAAATTATTTTTTAAAGATTTTAAAACCTTTAAATATATTGATAAGGTTTTTTTGTTC
1 AAAATTATTTTTTAAA-ATTTTAAAATCTTTCAATATGTTGGTAAGGTTTTTTTGTTC
** *
15942536 AAGATTATTATTATTTTTTAATTTTAAAATC-CTCTAATATGTTGGTAAGGTTTTTTAT-TTC
1 AA-A--ATTATT-TTTTAAAATTTTAAAATCTTTC-AATATGTTGGTAAGGTTTTTT-TGTTC
15942597 AAAATTA-TTTTTAAAATTTTAAAATCTTTCAATATGTTGGTAAGGTTTTTTTGTT
1 AAAATTATTTTTTAAAATTTTAAAATCTTTCAATATGTTGGTAAGGTTTTTTTGTT
15942652 TTTCTAAATT
Statistics
Matches: 98, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
55 1 0.01
56 39 0.40
57 3 0.03
58 6 0.06
59 1 0.01
60 2 0.02
61 40 0.41
62 6 0.06
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (57 bp):
AAAATTATTTTTTAAAATTTTAAAATCTTTCAATATGTTGGTAAGGTTTTTTTGTTC
Found at i:15943782 original size:32 final size:32
Alignment explanation
Indices: 15943746--15943811 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
15943736 TTAAACAAAG
15943746 ATAAGAGAACAAAGATAAAA-CAAAAT-AAAATA
1 ATAAGA-AACAAA-ATAAAATCAAAATAAAAATA
* *
15943778 ATAAGAAATAAAATAAAATCAAGATAAAAATA
1 ATAAGAAACAAAATAAAATCAAAATAAAAATA
15943810 AT
1 AT
15943812 GATAAAGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 6 0.20
31 10 0.33
32 14 0.47
ACGTcount: A:0.71, C:0.05, G:0.08, T:0.17
Consensus pattern (32 bp):
ATAAGAAACAAAATAAAATCAAAATAAAAATA
Found at i:15943880 original size:12 final size:12
Alignment explanation
Indices: 15943767--15943882 Score: 53
Period size: 12 Copynumber: 9.5 Consensus size: 12
15943757 AAGATAAAAC
15943767 AAAATAAAATAATA
1 AAAAT-AAAT-ATA
15943781 AGAAATAAA-AT-
1 A-AAATAAATATA
* *
15943792 AAAATCAAGATA
1 AAAATAAATATA
15943804 AAAAT-AATGATA
1 AAAATAAAT-ATA
*
15943816 AAGATAAATATA
1 AAAATAAATATA
*
15943828 ACAAA-AAGT-TA
1 A-AAATAAATATA
*
15943839 TAAAATAAAGAATA
1 -AAAATAAA-TATA
* ***
15943853 AATATAAATGCC
1 AAAATAAATATA
15943865 AAAATAAATATA
1 AAAATAAATATA
15943877 AAAATA
1 AAAATA
15943883 CAAAATAACT
Statistics
Matches: 76, Mismatches: 16, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
10 6 0.08
11 10 0.13
12 38 0.50
13 12 0.16
14 6 0.08
15 4 0.05
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (12 bp):
AAAATAAATATA
Found at i:15943888 original size:19 final size:19
Alignment explanation
Indices: 15943864--15943910 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
15943854 ATATAAATGC
15943864 CAAAATAAATATA-AAAAT
1 CAAAATAAATATACAAAAT
*
15943882 ACAAAATAACTATACAAAAT
1 -CAAAATAAATATACAAAAT
*
15943902 GAAAATAAA
1 CAAAATAAA
15943911 ACAATATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (19 bp):
CAAAATAAATATACAAAAT
Found at i:15953261 original size:25 final size:25
Alignment explanation
Indices: 15953233--15953280 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
15953223 ACTCAATTGA
*
15953233 AACAATACTTTACCCTATAAGTGAT
1 AACAATACTTCACCCTATAAGTGAT
15953258 AACAATACTTCACCCTATAAGTG
1 AACAATACTTCACCCTATAAGTG
15953281 CTAGACAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (25 bp):
AACAATACTTCACCCTATAAGTGAT
Found at i:15960891 original size:1 final size:1
Alignment explanation
Indices: 15960885--15960909 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
15960875 AATCATGCCC
15960885 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
15960910 CCTCTGGCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:15961339 original size:19 final size:18
Alignment explanation
Indices: 15961317--15961362 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
15961307 AAATTCACAA
**
15961317 AAAAATTTAAAAGTTTCTT
1 AAAAATTTAAAAAATT-TT
15961336 AAAAATTCTAAAAAATTTT
1 AAAAATT-TAAAAAATTTT
15961355 AAAAATTT
1 AAAAATTT
15961363 TTTTTAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 16 0.67
20 7 0.29
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (18 bp):
AAAAATTTAAAAAATTTT
Found at i:15961399 original size:19 final size:19
Alignment explanation
Indices: 15961377--15961418 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
15961367 TAACATTCTC
*
15961377 AAAATTTT-AACAACTTCAA
1 AAAATTTTAAAAAACTT-AA
15961396 AAAATTTTAAAAAACTTAA
1 AAAATTTTAAAAAACTTAA
15961415 AAAA
1 AAAA
15961419 AAAAATCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATTTTAAAAAACTTAA
Found at i:15961417 original size:20 final size:19
Alignment explanation
Indices: 15961377--15961419 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
15961367 TAACATTCTC
* *
15961377 AAAATTTTAACAACTTCAA
1 AAAATTTTAAAAACTTAAA
15961396 AAAATTTTAAAAAACTTAAA
1 AAAATTTT-AAAAACTTAAA
15961416 AAAA
1 AAAA
15961420 AAAATCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAATTTTAAAAACTTAAA
Found at i:15961452 original size:23 final size:23
Alignment explanation
Indices: 15961426--15961469 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
15961416 AAAAAAAATC
*
15961426 AAAACAATTCTATAAA-ATTTTGA
1 AAAAAAATTCTA-AAATATTTTGA
15961449 AAAAAAATTCTAAAATATTTT
1 AAAAAAATTCTAAAATATTTT
15961470 AATTTCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (23 bp):
AAAAAAATTCTAAAATATTTTGA
Found at i:15961519 original size:11 final size:11
Alignment explanation
Indices: 15961505--15961546 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
15961495 AAACAAATAA
15961505 TAAAAATTTTT
1 TAAAAATTTTT
15961516 TAAAAA--TTT
1 TAAAAATTTTT
15961525 TAAAAACTTTTT
1 TAAAAA-TTTTT
15961537 T-AAAATTTTT
1 TAAAAATTTTT
15961547 AATTCAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
9 9 0.32
10 5 0.18
11 10 0.36
12 4 0.14
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
TAAAAATTTTT
Found at i:15961522 original size:20 final size:21
Alignment explanation
Indices: 15961499--15961541 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
15961489 AATTCTAAAC
15961499 AAATAATAAAAA-TTTTTTAA
1 AAATAATAAAAACTTTTTTAA
**
15961519 AAATTTTAAAAACTTTTTTAA
1 AAATAATAAAAACTTTTTTAA
15961540 AA
1 AA
15961542 TTTTTAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATAATAAAAACTTTTTTAA
Found at i:15961542 original size:20 final size:20
Alignment explanation
Indices: 15961505--15961548 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
15961495 AAACAAATAA
15961505 TAAAAATTTTTTAAAAATTT
1 TAAAAATTTTTTAAAAATTT
*
15961525 TAAAAACTTTTTTAAAATTTT
1 TAAAAA-TTTTTTAAAAATTT
15961546 TAA
1 TAA
15961549 TTCAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAAAATTTTTTAAAAATTT
Found at i:15961548 original size:9 final size:10
Alignment explanation
Indices: 15961507--15961546 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
15961497 ACAAATAATA
15961507 AAAATTTTTT
1 AAAATTTTTT
* *
15961517 AAAAATTTTA
1 AAAATTTTTT
15961527 AAAACTTTTTT
1 AAAA-TTTTTT
15961538 AAAATTTTT
1 AAAATTTTT
15961547 AATTCAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (10 bp):
AAAATTTTTT
Found at i:15961732 original size:18 final size:17
Alignment explanation
Indices: 15961709--15961742 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
15961699 ATTTTTTATT
15961709 AAAATTTTTTAATATTTG
1 AAAATTTTTTAA-ATTTG
15961727 AAAATTTTTTAAATTT
1 AAAATTTTTTAAATTT
15961743 CTCAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
AAAATTTTTTAAATTTG
Found at i:15961735 original size:30 final size:30
Alignment explanation
Indices: 15961679--15961735 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
15961669 AATACTAAAA
*
15961679 AAAATTTTTAAAAATTATAAATTTTTTATT
1 AAAATTTTTAAAAATTATAAAATTTTTATT
* *
15961709 AAAATTTTTTAATATT-TGAAAATTTTT
1 AAAATTTTTAAAAATTAT-AAAATTTTT
15961736 TAAATTTCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 1 0.04
30 22 0.96
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (30 bp):
AAAATTTTTAAAAATTATAAAATTTTTATT
Found at i:15961750 original size:20 final size:20
Alignment explanation
Indices: 15961727--15961772 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
15961717 TTAATATTTG
*
15961727 AAAATTTTTTAAATTTCTCAA
1 AAAATTTTTTAAATTTAT-AA
*
15961748 AAAA-ATTTTAAATTTATAA
1 AAAATTTTTTAAATTTATAA
15961767 AAAATT
1 AAAATT
15961773 AAAAATATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 6 0.29
20 11 0.52
21 4 0.19
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAATTTTTTAAATTTATAA
Found at i:15961768 original size:19 final size:20
Alignment explanation
Indices: 15961733--15961770 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15961723 TTTGAAAATT
*
15961733 TTTTAAATTTCTCAAAAAAA
1 TTTTAAATTTATCAAAAAAA
15961753 TTTTAAATTTAT-AAAAAA
1 TTTTAAATTTATCAAAAAA
15961771 TTAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTTAAATTTATCAAAAAAA
Found at i:15961888 original size:13 final size:13
Alignment explanation
Indices: 15961850--15961897 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 13
15961840 TAAAAAAAAT
15961850 TAAAAAAATTTTGA
1 TAAAAAAATTTT-A
15961864 TAAAAATTAAATTTTA
1 T-AAAA--AAATTTTA
*
15961880 TAAAAAAATTCTA
1 TAAAAAAATTTTA
15961893 TAAAA
1 TAAAA
15961898 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 12 0.40
14 1 0.03
15 8 0.27
16 2 0.07
17 7 0.23
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (13 bp):
TAAAAAAATTTTA
Found at i:15961931 original size:20 final size:20
Alignment explanation
Indices: 15961843--15961929 Score: 63
Period size: 21 Copynumber: 4.2 Consensus size: 20
15961833 ATAAAAATAA
* * *
15961843 AAAAAATTAAAAAAATTTTG
1 AAAAAATTATAAAATTTTTT
*
15961863 ATAAAAA-T-T-AAATTTTATA
1 A-AAAAATTATAAAATTTT-TT
15961882 AAAAAATTCTATAAAATTTTTT
1 AAAAAA-T-TATAAAATTTTTT
15961904 AAAAAATTATAAAACTTTTTT
1 AAAAAATTATAAAA-TTTTTT
15961925 GAAAA
1 -AAAA
15961930 TTTTCAAGTT
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
18 11 0.20
19 2 0.04
20 9 0.17
21 13 0.24
22 12 0.22
23 7 0.13
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAAAATTATAAAATTTTTT
Found at i:15961962 original size:9 final size:9
Alignment explanation
Indices: 15961945--15962115 Score: 55
Period size: 9 Copynumber: 18.0 Consensus size: 9
15961935 AAGTTTCCTT
15961945 AATTATTTTA
1 AATT-TTTTA
15961955 AATTTTTTAA
1 AATTTTTT-A
*
15961965 AATTTTCTA
1 AATTTTTTA
* *
15961974 GAATTGTCTA
1 -AATTTTTTA
**
15961984 AAAATTTTA
1 AATTTTTTA
*
15961993 GAA-ATTTTA
1 -AATTTTTTA
15962002 GAATTTTTTAAAA
1 -AATTTTTT---A
15962015 AAATTATTTTAA
1 A-ATT-TTTT-A
*
15962027 AAGTTTTTA
1 AATTTTTTA
*
15962036 GAATTTTTAA
1 -AATTTTTTA
* *
15962046 AACTTTTAA
1 AATTTTTTA
15962055 AATTTTTTA
1 AATTTTTTA
*
15962064 GATTTTTT-
1 AATTTTTTA
15962072 AA-TTTTT-
1 AATTTTTTA
15962079 AATTTTTT-
1 AATTTTTTA
**
15962087 AATTTCTAAAA
1 AATTT-T-TTA
*
15962098 AATTTTTAA
1 AATTTTTTA
15962107 AATTTTTTA
1 AATTTTTTA
15962116 GTTGATTTTT
Statistics
Matches: 128, Mismatches: 19, Indels: 29
0.73 0.11 0.16
Matches are distributed among these distances:
7 7 0.05
8 11 0.09
9 53 0.41
10 38 0.30
11 7 0.05
12 4 0.03
13 4 0.03
14 4 0.03
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (9 bp):
AATTTTTTA
Found at i:15961967 original size:10 final size:10
Alignment explanation
Indices: 15961945--15962115 Score: 73
Period size: 10 Copynumber: 17.9 Consensus size: 10
15961935 AAGTTTCCTT
15961945 AATTATTTT-A
1 AATT-TTTTAA
15961955 AATTTTTTAA
1 AATTTTTTAA
* *
15961965 AATTTTCTAG
1 AATTTTTTAA
* *
15961975 AATTGTCTAA
1 AATTTTTTAA
*
15961985 AA-ATTTTAGA
1 AATTTTTTA-A
*
15961995 AA--TTTTAG
1 AATTTTTTAA
15962003 AATTTTTTAAAAA
1 AATTTTTT---AA
15962016 AATTATTTTAA
1 AATT-TTTTAA
* *
15962027 AAGTTTTTAG
1 AATTTTTTAA
15962037 AA-TTTTTAA
1 AATTTTTTAA
*
15962046 AA-CTTTTAA
1 AATTTTTTAA
15962055 AATTTTTT-A
1 AATTTTTTAA
*
15962064 GATTTTTT--
1 AATTTTTTAA
15962072 AA-TTTTT--
1 AATTTTTTAA
15962079 AATTTTTT--
1 AATTTTTTAA
* *
15962087 AATTTCTAAA
1 AATTTTTTAA
*
15962097 AAATTTTTAA
1 AATTTTTTAA
15962107 AATTTTTTA
1 AATTTTTTA
15962116 GTTGATTTTT
Statistics
Matches: 127, Mismatches: 22, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
7 7 0.06
8 14 0.11
9 36 0.28
10 56 0.44
11 5 0.04
13 5 0.04
14 4 0.03
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:15962083 original size:15 final size:16
Alignment explanation
Indices: 15962058--15962091 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
15962048 CTTTTAAAAT
15962058 TTTTTAGATTTTTTAA
1 TTTTTAGATTTTTTAA
15962074 TTTTTA-ATTTTTTAA
1 TTTTTAGATTTTTTAA
15962089 TTT
1 TTT
15962092 CTAAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTTAGATTTTTTAA
Found at i:15962189 original size:10 final size:10
Alignment explanation
Indices: 15962176--15962220 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
15962166 AGTTTTTAAC
15962176 TTTTAAAATT
1 TTTTAAAATT
**
15962186 TTTTTGAATT
1 TTTTAAAATT
*
15962196 ATTTTATAATT
1 -TTTTAAAATT
15962207 TTTTAAAATT
1 TTTTAAAATT
15962217 TTTT
1 TTTT
15962221 TTGAATTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
10 21 0.72
11 8 0.28
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:15962216 original size:21 final size:20
Alignment explanation
Indices: 15962176--15962230 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
15962166 AGTTTTTAAC
* **
15962176 TTTTAAAATTTTTTTGAATT
1 TTTTATAATTTTTTAAAATT
15962196 ATTTTATAATTTTTTAAAATT
1 -TTTTATAATTTTTTAAAATT
*
15962217 TTTTTTGAATTTTT
1 TTTTAT-AATTTTT
15962231 CTTTTTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 5 0.17
21 24 0.83
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTATAATTTTTTAAAATT
Found at i:15962699 original size:70 final size:69
Alignment explanation
Indices: 15962616--15962748 Score: 160
Period size: 70 Copynumber: 1.9 Consensus size: 69
15962606 AAGTGTTATT
* * * *
15962616 ATTTGATTTACTTTATTAATGA-AGTGACATAATTTGATTAACTAACAGTATATAAAATATATAC
1 ATTTGACTCACTTTATTAAT-ATAATGACATAATTTAATTAACTAACAGTATAT-AAATATATAC
15962680 ACTATC
64 ACTATC
* * * * *
15962686 ATTTGACTCACTTTATTAATATAATGATATCATTTAATTTATTGACAGTATATAAATATATAC
1 ATTTGACTCACTTTATTAATATAATGACATAATTTAATTAACTAACAGTATATAAATATATAC
15962749 CTTAAGAGTG
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
69 11 0.21
70 42 0.79
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.42
Consensus pattern (69 bp):
ATTTGACTCACTTTATTAATATAATGACATAATTTAATTAACTAACAGTATATAAATATATACAC
TATC
Found at i:15963664 original size:494 final size:499
Alignment explanation
Indices: 15962845--15964303 Score: 1790
Period size: 521 Copynumber: 2.9 Consensus size: 499
15962835 AATCAAATGG
* *
15962845 TAACACTTTATTAATAAGCAAATATCAGCTCTTAAAATAAATATACAAAAATTAATATTTTTTAA
1 TAACATTTTATTAATGAGCAAATATCAGCTCTTAAAATAAATATACAAAAATTAATATTTTTTAA
* * * * *
15962910 ATAATTTATTCATCAATGAAATGTCAGCATC-GATTTATCGTAGTAATAAAATGGTATCATCTAA
66 ATAATTTACTCATCAATGAAATGTCAGCATCTGATTCACCTTATTAATAAAATGGTATCATCTAA
* * * * *
15962974 TTCAATGAAAGTGTATAAAATATATGCACTAATAGTGCATTAAATATAAACCCTTTTCATTAGAA
131 TTCAATGATAGTGTATAAAATATATACACTGATAATGCATTAAATATAAACCCTTTTGATTAGAA
* * * * * *
15963039 TTTATATTTAATACACTATCAGTGTATAAATTTTATACACTATTAGTGAATTAGAAGATGACACT
196 TTTATATTTAATACTC-ATCAGTGTATAAATTTTATATACTGTTAGTAAATTAGATGATAACACT
*
15963104 TTATTAATGAGCAAATATCAGCCTTTAAAATAAATATATAAAAATTAATATTTTTTAAAAAATTT
260 TTATTAATGAGCAAATATCAGCCTTTAAAATAAATATACAAAAATTAATATTTTTTAAAAAATTT
* *
15963169 ACTCATCAATGAAATGTCAGCATTTGATTCACTTTATTTAA-AAAATGATATCATCTGATTCAAT
325 ACTCATCAATGAAATGTTAGCATCTGATTCACTTTA-TTAATAAAATG-TATCATCTGATTCAAT
* * * *
15963233 GATAGTATATAAAATATATATACTGATAGTATATTAAATATAAACCCTTTTAATTAGAGTTTATA
388 GATAGTATATAAAATATATACACTGACAATATAATAAATATAAACCCTTTTAATTAGAGTTTATA
* * *
15963298 TTTAATATACTGTCAATGTATAAA-TTT-T-A-T-GT-AT-AGATGA
453 TTTAATATACTATCAATATATAAATTTTATAATTAGTAATCAGATAA
* * * *
15963338 TAACATTTTATTAATGAGTAAATATCAGCTCTTAAAGTAAATATACAAAATTTAATATCTTTTAA
1 TAACATTTTATTAATGAGCAAATATCAGCTCTTAAAATAAATATACAAAAATTAATATTTTTTAA
* * ** *
15963403 AGAATTTACTCATCAATGAGATGTCAGCATCTGATTCACCTTATTAATAAAATAATATCATGTAA
66 ATAATTTACTCATCAATGAAATGTCAGCATCTGATTCACCTTATTAATAAAATGGTATCATCTAA
* *
15963468 TTTAATGATAGTATATAAAATATATACACTGATAATGCATTAAATAT-AACCCTTTTGATTAGAA
131 TTCAATGATAGTGTATAAAATATATACACTGATAATGCATTAAATATAAACCCTTTTGATTAGAA
* * * * *
15963532 TTTATATTTGATACGTCGTCAAGTGTATAAATTCTATATACTGTTAGTAAATTATATTATAACAC
196 TTTATATTTAATAC-TCATC-AGTGTATAAATTTTATATACTGTTAGTAAATTAGATGATAACAC
* * * *
15963597 TTTATTAATGAGTAAATATTAGCCCTTAAAATAAATATACAAAAATTAATATTTTTTAAAGAATT
259 TTTATTAATGAGCAAATATCAGCCTTTAAAATAAATATACAAAAATTAATATTTTTTAAAAAATT
* * *
15963662 TACTCATCAATGAAATGTTAGCATCTGATTC-TTCTTATTAATAAAATTGTATCATTTGATTTAA
324 TACTCATCAATGAAATGTTAGCATCTGATTCACT-TTATTAATAAAA-TGTATCATCTGATTCAA
* * *
15963726 TGATAGTATCTAAAATATATACACTGACAATGTAATAAATATAAACCCTTTTGATTAGAGTTTAT
387 TGATAGTATATAAAATATATACACTGACAATATAATAAATATAAACCCTTTTAATTAGAGTTTAT
* * *
15963791 ATTTGATATACTATTAGTATATAAATTTTATACACTGTTAGTGAATCAGATAA
452 ATTTAATATACTATCAATATATAAATTTTATA-A---TTAGT-AATCAGATAA
* *
15963844 TGACACTTTATTAATTAACTTTATTAATGAGCAAATATCAGCCCTTAAAATAACTATACAAAAAT
1 T-A-AC-------A-T---TTTATTAATGAGCAAATATCAGCTCTTAAAATAAATATACAAAAAT
* * *
15963909 TAATATTTTTTTTAAATACTTTACTCATTAATGAAATGTCAGCATATGATTCACCTTATTAATAA
53 TAATA--TTTTTTAAATAATTTACTCATCAATGAAATGTCAGCATCTGATTCACCTTATTAATAA
* * * *
15963974 AATGGTATCATCTTATTCAATGATAGTGTATAAAATATATAAACTGACAATACATTAAATATAAA
116 AATGGTATCATCTAATTCAATGATAGTGTATAAAATATATACACTGATAATGCATTAAATATAAA
* * * * *
15964039 CCCTTTTGATTAGAGTTTATATTTTATACATTATTAGTGTATAAATTTTATATACTGTCAGTAAA
181 CCCTTTTGATTAGAATTTATATTTAATAC-TCATCAGTGTATAAATTTTATATACTGTTAGTAAA
* * *
15964104 TTAGATGA-AGACACTTTATTAATGAGCAAATATCAACATTTACAATAAATATACAAAAATTAAT
245 TTAGATGATA-ACACTTTATTAATGAGCAAATATCAGCCTTTAAAATAAATATACAAAAATTAAT
* * *
15964168 ATTTTTTAAAAAATTTACTCATCAATGAAATGTTAGCATCTAATTTACCTTATTAATAAAATGGT
309 ATTTTTTAAAAAATTTACTCATCAATGAAATGTTAGCATCTGATTCACTTTATTAATAAAAT-GT
* * * * ** * *
15964233 GTCATCTAATTCAATGATAGTATATAAAATATATACATTAACAATGCATTAAATATAAACCTTTT
373 ATCATCTGATTCAATGATAGTATATAAAATATATACACTGACAATATAATAAATATAAACCCTTT
*
15964298 TTATTA
438 TAATTA
15964304 ACCCAATATC
Statistics
Matches: 820, Mismatches: 109, Indels: 46
0.84 0.11 0.05
Matches are distributed among these distances:
493 123 0.15
494 291 0.35
495 5 0.01
496 1 0.00
498 1 0.00
502 1 0.00
503 2 0.00
505 2 0.00
506 6 0.01
507 1 0.00
508 2 0.00
515 1 0.00
516 1 0.00
519 46 0.06
520 2 0.00
521 304 0.37
522 31 0.04
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.39
Consensus pattern (499 bp):
TAACATTTTATTAATGAGCAAATATCAGCTCTTAAAATAAATATACAAAAATTAATATTTTTTAA
ATAATTTACTCATCAATGAAATGTCAGCATCTGATTCACCTTATTAATAAAATGGTATCATCTAA
TTCAATGATAGTGTATAAAATATATACACTGATAATGCATTAAATATAAACCCTTTTGATTAGAA
TTTATATTTAATACTCATCAGTGTATAAATTTTATATACTGTTAGTAAATTAGATGATAACACTT
TATTAATGAGCAAATATCAGCCTTTAAAATAAATATACAAAAATTAATATTTTTTAAAAAATTTA
CTCATCAATGAAATGTTAGCATCTGATTCACTTTATTAATAAAATGTATCATCTGATTCAATGAT
AGTATATAAAATATATACACTGACAATATAATAAATATAAACCCTTTTAATTAGAGTTTATATTT
AATATACTATCAATATATAAATTTTATAATTAGTAATCAGATAA
Found at i:15963816 original size:253 final size:253
Alignment explanation
Indices: 15962698--15964303 Score: 1748
Period size: 253 Copynumber: 6.3 Consensus size: 253
15962688 TTGACTCACT
* * * * * * *
15962698 TTATTAATATAATGATATCATTTAATTTATTGACAGTATAT-AAATATATAC-CTTA-AGAGTGC
1 TTATTAATAAAATGGTATCATCTAATTCAATGATAGTATATAAAATATATACACTGACA-A-TGC
*** * * * *
15962760 ATTAAATATAAATTTTTTTTATTATAGTTTATATTTGATACACTGTTAATGTATAAATTTTATAC
64 ATTAAATATAAACCCTTTTGATTAGAGTTTATATTTGATACACTATTAGTGTATAAATTTTATAC
* * * * * *
15962825 ACTATTAG-AGAATCAAATGGTAACACTTTATTAATAAGCAAATATCAGCTCTTAAAATAAATAT
129 ACTGTTAGTA-AATTAGATGATAACACTTTATTAATGAGCAAATATCAGCCCTTAAAATAAATAT
* * *
15962889 ACAAAAATTAATATTTTTTAAATAATTTATTCATCAATGAAATGTCAGCATC-GATT-TATC
193 ACAAAAATTAATATTTTTTAAAAAATTTACTCATCAATGAAATGTCAGCATCTGATTCT-CC
* * * * * * * *
15962949 GTAGTAATAAAATGGTATCATCTAATTCAATGAAAGTGTATAAAATATATGCACTAATAGTGCAT
1 TTATTAATAAAATGGTATCATCTAATTCAATGATAGTATATAAAATATATACACTGACAATGCAT
* * * *
15963014 TAAATATAAACCCTTTTCATTAGAATTTATATTTAATACACTATCAGTGTATAAATTTTATACAC
66 TAAATATAAACCCTTTTGATTAGAGTTTATATTTGATACACTATTAGTGTATAAATTTTATACAC
* * * * * *
15963079 TATTAGTGAATTAGAAGATGACACTTTATTAATGAGCAAATATCAGCCTTTAAAATAAATATATA
131 TGTTAGTAAATTAGATGATAACACTTTATTAATGAGCAAATATCAGCCCTTAAAATAAATATACA
* * *
15963144 AAAATTAATATTTTTTAAAAAATTTACTCATCAATGAAATGTCAGCATTTGATTCACT
196 AAAATTAATATTTTTTAAAAAATTTACTCATCAATGAAATGTCAGCATCTGATTCTCC
* * * * * **
15963202 TTATTTAA-AAAATGATATCATCTGATTCAATGATAGTATATAAAATATATATACTGATAGTATA
1 TTA-TTAATAAAATGGTATCATCTAATTCAATGATAGTATATAAAATATATACACTGACAATGCA
* * * * * *
15963266 TTAAATATAAACCCTTTTAATTAGAGTTTATATTTAATATACTGTCAATGTATAAA-TTT-T--A
65 TTAAATATAAACCCTTTTGATTAGAGTTTATATTTGATACACTATTAGTGTATAAATTTTATACA
* * * *
15963327 ----T-GT--A-TAGATGATAACATTTTATTAATGAGTAAATATCAGCTCTTAAAGTAAATATAC
130 CTGTTAGTAAATTAGATGATAACACTTTATTAATGAGCAAATATCAGCCCTTAAAATAAATATAC
* * * * *
15963384 AAAATTTAATATCTTTTAAAGAATTTACTCATCAATGAGATGTCAGCATCTGATTCACC
195 AAAAATTAATATTTTTTAAAAAATTTACTCATCAATGAAATGTCAGCATCTGATTCTCC
** * * *
15963443 TTATTAATAAAATAATATCATGTAATTTAATGATAGTATATAAAATATATACACTGATAATGCAT
1 TTATTAATAAAATGGTATCATCTAATTCAATGATAGTATATAAAATATATACACTGACAATGCAT
* * *
15963508 TAAATAT-AACCCTTTTGATTAGAATTTATATTTGATACGTCGTCA--AGTGTATAAATTCTATA
66 TAAATATAAACCCTTTTGATTAGAGTTTATATTTGATAC-AC-T-ATTAGTGTATAAATTTTATA
* * * * *
15963570 TACTGTTAGTAAATTATATTATAACACTTTATTAATGAGTAAATATTAGCCCTTAAAATAAATAT
128 CACTGTTAGTAAATTAGATGATAACACTTTATTAATGAGCAAATATCAGCCCTTAAAATAAATAT
* * *
15963635 ACAAAAATTAATATTTTTTAAAGAATTTACTCATCAATGAAATGTTAGCATCTGATTCTTC
193 ACAAAAATTAATATTTTTTAAAAAATTTACTCATCAATGAAATGTCAGCATCTGATTCTCC
* * * * * * *
15963696 TTATTAATAAAATTGTATCATTTGATTTAATGATAGTATCTAAAATATATACACTGACAATGTAA
1 TTATTAATAAAATGGTATCATCTAATTCAATGATAGTATATAAAATATATACACTGACAATGCAT
* *
15963761 TAAATATAAACCCTTTTGATTAGAGTTTATATTTGATATACTATTAGTATATAAATTTTATACAC
66 TAAATATAAACCCTTTTGATTAGAGTTTATATTTGATACACTATTAGTGTATAAATTTTATACAC
* * *
15963826 TGTTAGTGAATCAGATAATGACACTTTATTAATTAACTTTATTAATGAGCAAATATCAGCCCTTA
131 TGTTAGT--A--A-AT--T-AGA--TGA-TAA--CACTTTATTAATGAGCAAATATCAGCCCTTA
* * * * *
15963891 AAATAACTATACAAAAATTAATATTTTTTTTAAATACTTTACTCATTAATGAAATGTCAGCATAT
183 AAATAAATATACAAAAATTAATA--TTTTTTAAAAAATTTACTCATCAATGAAATGTCAGCATCT
*
15963956 GATTCACC
246 GATTCTCC
* * * *
15963964 TTATTAATAAAATGGTATCATCTTATTCAATGATAGTGTATAAAATATATAAACTGACAATACAT
1 TTATTAATAAAATGGTATCATCTAATTCAATGATAGTATATAAAATATATACACTGACAATGCAT
* * *
15964029 TAAATATAAACCCTTTTGATTAGAGTTTATATTTTATACATTATTAGTGTATAAATTTTATATAC
66 TAAATATAAACCCTTTTGATTAGAGTTTATATTTGATACACTATTAGTGTATAAATTTTATACAC
* * ** *
15964094 TGTCAGTAAATTAGATGA-AGACACTTTATTAATGAGCAAATATCAACATTTACAATAAATATAC
131 TGTTAGTAAATTAGATGATA-ACACTTTATTAATGAGCAAATATCAGCCCTTAAAATAAATATAC
* *
15964158 AAAAATTAATATTTTTTAAAAAATTTACTCATCAATGAAATGTTAGCATCTAATT-TACC
195 AAAAATTAATATTTTTTAAAAAATTTACTCATCAATGAAATGTCAGCATCTGATTCT-CC
* * *
15964217 TTATTAATAAAATGGTGTCATCTAATTCAATGATAGTATATAAAATATATACATTAACAATGCAT
1 TTATTAATAAAATGGTATCATCTAATTCAATGATAGTATATAAAATATATACACTGACAATGCAT
* *
15964282 TAAATATAAACCTTTTTTATTA
66 TAAATATAAACCCTTTTGATTA
15964304 ACCCAATATC
Statistics
Matches: 1150, Mismatches: 162, Indels: 84
0.82 0.12 0.06
Matches are distributed among these distances:
240 31 0.03
241 167 0.15
242 4 0.00
243 1 0.00
244 2 0.00
245 2 0.00
249 2 0.00
250 2 0.00
251 34 0.03
252 174 0.15
253 414 0.36
254 33 0.03
255 49 0.04
256 1 0.00
257 2 0.00
258 4 0.00
260 3 0.00
261 3 0.00
263 5 0.00
264 4 0.00
266 51 0.04
268 162 0.14
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (253 bp):
TTATTAATAAAATGGTATCATCTAATTCAATGATAGTATATAAAATATATACACTGACAATGCAT
TAAATATAAACCCTTTTGATTAGAGTTTATATTTGATACACTATTAGTGTATAAATTTTATACAC
TGTTAGTAAATTAGATGATAACACTTTATTAATGAGCAAATATCAGCCCTTAAAATAAATATACA
AAAATTAATATTTTTTAAAAAATTTACTCATCAATGAAATGTCAGCATCTGATTCTCC
Found at i:15972251 original size:30 final size:30
Alignment explanation
Indices: 15972217--15972291 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
15972207 AAATTTGTTG
* *
15972217 TTGATTTGGTTTTTTAGTTTGTTGTTGAAT
1 TTGATTTGGTTTTTTAGTTTCTTGTTCAAT
*
15972247 TTGATTTGGGTTTTTAGTTTCTTGTTCAAT
1 TTGATTTGGTTTTTTAGTTTCTTGTTCAAT
*
15972277 TTTATTTGAGTTTTT
1 TTGATTTG-GTTTTT
15972292 AATTGGATTG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 34 0.87
31 5 0.13
ACGTcount: A:0.13, C:0.03, G:0.20, T:0.64
Consensus pattern (30 bp):
TTGATTTGGTTTTTTAGTTTCTTGTTCAAT
Found at i:15975652 original size:18 final size:18
Alignment explanation
Indices: 15975629--15975663 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15975619 TTGAATTATC
* *
15975629 CATGACCAAATGGTTGAT
1 CATGACAAAATCGTTGAT
15975647 CATGACAAAATCGTTGA
1 CATGACAAAATCGTTGA
15975664 CAAAAAGCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (18 bp):
CATGACAAAATCGTTGAT
Done.