Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 22 of 117
Found at i:6284232 original size:18 final size:19
Alignment explanation
Indices: 6284197--6284231 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
6284187 AGTTTATAAA
6284197 AAAATAAATAAAGAAAAAG
1 AAAATAAATAAAGAAAAAG
6284216 AAAA-AAAT-AAGAAAAA
1 AAAATAAATAAAGAAAAA
6284232 ATTATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 4 0.25
19 4 0.25
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (19 bp):
AAAATAAATAAAGAAAAAG
Found at i:6290666 original size:22 final size:22
Alignment explanation
Indices: 6290624--6290666 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6290614 AGTGTCTAGT
*
6290624 AAAAATTAAAAATCTTTTTTTA
1 AAAAATTAAAAATCTTATTTTA
*
6290646 AAAAATTTAAAAT-TTGATTTT
1 AAAAATTAAAAATCTT-ATTTT
6290667 GTTTAATCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
AAAAATTAAAAATCTTATTTTA
Found at i:6291207 original size:18 final size:19
Alignment explanation
Indices: 6291178--6291213 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
6291168 TCATTTATCA
6291178 ATAAAATAATATTTTTAAT
1 ATAAAATAATATTTTTAAT
6291197 ATAAAAT-ATATTTTTAA
1 ATAAAATAATATTTTTAA
6291214 AAAATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATAAAATAATATTTTTAAT
Found at i:6291297 original size:32 final size:30
Alignment explanation
Indices: 6291253--6291338 Score: 84
Period size: 32 Copynumber: 2.8 Consensus size: 30
6291243 ATAATTTGAT
* *
6291253 TAAAAT-TATATATCATTTTAAAAAATTAAG
1 TAAAATCTCTATATCA-TTTAAAAAATTAAA
* * * *
6291283 TAAAAATTTTTATATTCGTTTAAGAAATTAAA
1 T-AAAATCTCTATA-TCATTTAAAAAATTAAA
6291315 TAAAATCTCTATATCATTTAAAAA
1 TAAAATCTCTATATCATTTAAAAA
6291339 GAAAAAATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
30 10 0.22
31 15 0.33
32 18 0.40
33 2 0.04
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (30 bp):
TAAAATCTCTATATCATTTAAAAAATTAAA
Found at i:6291435 original size:11 final size:10
Alignment explanation
Indices: 6291404--6291437 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
6291394 GTTTTGACTA
6291404 TTTA-ATAAT
1 TTTATATAAT
6291413 TTTATATAAT
1 TTTATATAAT
6291423 TTTATATTAAT
1 TTTATA-TAAT
6291434 TTTA
1 TTTA
6291438 GAATAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 4 0.17
10 11 0.48
11 8 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTATATAAT
Found at i:6291682 original size:3 final size:3
Alignment explanation
Indices: 6291674--6291701 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6291664 TGTAAGCTTT
6291674 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
6291702 ACTATTCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:6299368 original size:26 final size:26
Alignment explanation
Indices: 6299334--6299393 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
6299324 ATAAAGTAAT
*
6299334 ATTTGATATAAATCTTTTGTTA-TAT-A
1 ATTTAATATAAAT-TTTT-TTATTATGA
**
6299360 ATTTAATATTTATTTTTTTATTATGA
1 ATTTAATATAAATTTTTTTATTATGA
6299386 ATTTAATA
1 ATTTAATA
6299394 AATTAGATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 3 0.10
25 7 0.24
26 19 0.66
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (26 bp):
ATTTAATATAAATTTTTTTATTATGA
Found at i:6299726 original size:217 final size:215
Alignment explanation
Indices: 6299454--6300068 Score: 873
Period size: 217 Copynumber: 2.8 Consensus size: 215
6299444 AAAAATAAAA
* *
6299454 AATAAGAATCTATGTACAATTACGTGTGGTTGGATTGACAATTTACGAATTGAAAATGCTTTTTT
1 AATAAGAATCTATGTACAATTAC-TGAGGTTGGATTGACAATTTACTAATTGAAAATGCTTTTTT
*
6299519 TTTTTTGAATAAGGGCTTATTACAAGACATGAAAGTAATCATAATATCTAGAAACAAGAGAAGCT
65 TTTTTTGAATAAGGGCTTATTACAAGACATGAAAGTAACCATAATATCTAGAAA-AAGAGAAGCT
6299584 GGCAAATAGTATATAAGTTAGGTCCCATAGAATGTAAAAAAGTGAAAGTGTATAAAAAAAATTAA
129 GGCAAATAGTATATAAGTTAGGTCCCATAGAATGTAAAAAAGTGAAAGTGTAT-AAAAAAATTAA
6299649 ATTATATAAAACAAACAAATGAAT
193 ATTATAT-AAACAAACAAATGAAT
* * *
6299673 AATAAGAATCTATGTACAATTA-TGAGGTTGTATTGACAATTTACTAATTGAAAATGCTTTATCT
1 AATAAGAATCTATGTACAATTACTGAGGTTGGATTGACAATTTACTAATTGAAAATGCTTTTTTT
* * * * *
6299737 TATAT-AATTAGGGCTT-TCTACAAGACTTGAAAGTAACCATACTAT-TCAGAAAAATGGAGAAG
66 TTTTTGAATAAGGGCTTAT-TACAAGACATGAAAGTAACCATAATATCT-AGAAAAA--GAGAAG
* *
6299799 CTGGCAAATAGTATATAAGTTAGGTCCCATAGAATGTAAAAAAATGAAAGTGTATAACAAAATTA
127 CTGGCAAATAGTATATAAGTTAGGTCCCATAGAATGTAAAAAAGTGAAAGTGTATAAAAAAATTA
6299864 AATTATATAAACAAACAAATGAAT
192 AATTATATAAACAAACAAATGAAT
* ** *
6299888 AATACGAATCTATGTACAATTACGTGCTGTTGGATT-ACAATTTACTAATTGAAAATGC-TTTAT
1 AATAAGAATCTATGTACAATTAC-TGAGGTTGGATTGACAATTTACTAATTGAAAATGCTTTTTT
* * * * * *
6299951 CTTTTTGAATAAGGGCTTACTACAAAACATGAAAGCAACCATAGTATCTAGAAAAAAGGGAAGCT
65 TTTTTTGAATAAGGGCTTATTACAAGACATGAAAGTAACCATAATATCTAG-AAAAAGAGAAGCT
* *
6300016 GGCAAATAGTATGTAAGTTAGGTCCCATAGAATGTAAAAAAGTGAAAGCGTAT
129 GGCAAATAGTATATAAGTTAGGTCCCATAGAATGTAAAAAAGTGAAAGTGTAT
6300069 TATGTCAGAC
Statistics
Matches: 353, Mismatches: 33, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
215 103 0.29
216 113 0.32
217 115 0.33
219 22 0.06
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (215 bp):
AATAAGAATCTATGTACAATTACTGAGGTTGGATTGACAATTTACTAATTGAAAATGCTTTTTTT
TTTTTGAATAAGGGCTTATTACAAGACATGAAAGTAACCATAATATCTAGAAAAAGAGAAGCTGG
CAAATAGTATATAAGTTAGGTCCCATAGAATGTAAAAAAGTGAAAGTGTATAAAAAAATTAAATT
ATATAAACAAACAAATGAAT
Found at i:6299945 original size:216 final size:217
Alignment explanation
Indices: 6299454--6300068 Score: 906
Period size: 216 Copynumber: 2.8 Consensus size: 217
6299444 AAAAATAAAA
* *
6299454 AATAAGAATCTATGTACAATTACGTGTGGTTGGATTGACAATTTACGAATTGAAAATGCTTTTTT
1 AATAAGAATCTATGTACAATTACGTGT-GTTGGATTGACAATTTACTAATTGAAAATGC-TTTAT
* *
6299519 TTTTTTGAATAAGGGCTTAT-TACAAGACATGAAAGTAATCATAATATCTAGAAACAA-GAGAAG
64 CTTTTTGAATAAGGGCTT-TCTACAAGACATGAAAGTAACCATAATATCTAGAAA-AAGGAGAAG
6299582 CTGGCAAATAGTATATAAGTTAGGTCCCATAGAATGTAAAAAAGTGAAAGTGTATAAAAAAAATT
127 CTGGCAAATAGTATATAAGTTAGGTCCCATAGAATGTAAAAAAGTGAAAGTGTATAAAAAAAATT
6299647 AAATTATATAAAACAAACAAATGAAT
192 AAATTATATAAAACAAACAAATGAAT
* * *
6299673 AATAAGAATCTATGTACAATTATGAG-GTTGTATTGACAATTTACTAATTGAAAATGCTTTATCT
1 AATAAGAATCTATGTACAATTACGTGTGTTGGATTGACAATTTACTAATTGAAAATGCTTTATCT
* * * *
6299737 TATAT-AATTAGGGCTTTCTACAAGACTTGAAAGTAACCATACTAT-TCAGAAAAATGGAGAAGC
66 T-TTTGAATAAGGGCTTTCTACAAGACATGAAAGTAACCATAATATCT-AGAAAAA-GGAGAAGC
* *
6299800 TGGCAAATAGTATATAAGTTAGGTCCCATAGAATGTAAAAAAATGAAAGTGTAT-AACAAAATTA
128 TGGCAAATAGTATATAAGTTAGGTCCCATAGAATGTAAAAAAGTGAAAGTGTATAAAAAAAATTA
6299864 AATTATAT-AAACAAACAAATGAAT
193 AATTATATAAAACAAACAAATGAAT
*
6299888 AATACGAATCTATGTACAATTACGTGCTGTTGGATT-ACAATTTACTAATTGAAAATGCTTTATC
1 AATAAGAATCTATGTACAATTACGTG-TGTTGGATTGACAATTTACTAATTGAAAATGCTTTATC
* * * *
6299952 TTTTTGAATAAGGGCTTACTACAAAACATGAAAGCAACCATAGTATCTAGAAAAAAGG-GAAGCT
65 TTTTTGAATAAGGGCTTTCTACAAGACATGAAAGTAACCATAATATCTAG-AAAAAGGAGAAGCT
* *
6300016 GGCAAATAGTATGTAAGTTAGGTCCCATAGAATGTAAAAAAGTGAAAGCGTAT
129 GGCAAATAGTATATAAGTTAGGTCCCATAGAATGTAAAAAAGTGAAAGTGTAT
6300069 TATGTCAGAC
Statistics
Matches: 359, Mismatches: 27, Indels: 24
0.88 0.07 0.06
Matches are distributed among these distances:
215 101 0.28
216 130 0.36
217 104 0.29
219 24 0.07
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (217 bp):
AATAAGAATCTATGTACAATTACGTGTGTTGGATTGACAATTTACTAATTGAAAATGCTTTATCT
TTTTGAATAAGGGCTTTCTACAAGACATGAAAGTAACCATAATATCTAGAAAAAGGAGAAGCTGG
CAAATAGTATATAAGTTAGGTCCCATAGAATGTAAAAAAGTGAAAGTGTATAAAAAAAATTAAAT
TATATAAAACAAACAAATGAAT
Found at i:6300516 original size:15 final size:17
Alignment explanation
Indices: 6300496--6300527 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6300486 CAATCTCATC
6300496 TACTTA-TA-CAATATT
1 TACTTATTATCAATATT
6300511 TACTTATTATCAATATT
1 TACTTATTATCAATATT
6300528 GATCGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (17 bp):
TACTTATTATCAATATT
Found at i:6301556 original size:24 final size:24
Alignment explanation
Indices: 6301532--6301574 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
6301522 ATTTTAGTAT
6301532 TATTTATTTTA---AAATTAAATA
1 TATTTATTTTATTTAAATTAAATA
6301553 TATTTATTTTATTTAAATTAAA
1 TATTTATTTTATTTAAATTAAA
6301575 ATTAAACGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
24 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TATTTATTTTATTTAAATTAAATA
Found at i:6304861 original size:215 final size:215
Alignment explanation
Indices: 6304375--6305011 Score: 820
Period size: 215 Copynumber: 2.9 Consensus size: 215
6304365 TAATGAGAAT
* * *
6304375 TTATAT-AAACAAACAAAATGAATAATAACAATCTATGTAAAATTA-TGCGAGGTAGGATTGACA
1 TTATATAAAACAAAC-AAATGAATAATAAGAATCTATGTACAATTACTGC-A-GTTGGATTGACA
**
6304438 ATTTACTAATTGAAAATG-TTTATCTTTTTGAATAAGGGCTTACTACAAGACATGAAAGTGTTCA
63 ATTTACTAATTG-AAATGCTTTATCTTTTTGAATAAGGGCTTACTACAAGACATGAAAGTAATCA
6304502 TAATATCTAGAAAAAAGAGAAGCTGCAGGCAAATGGTATATAAGTTAGGTCCCATAGAACGTAAA
127 TAATATCTAGAAAAAAGAGAAGCTG-A--CAAATGGTATATAAGTTAGGTCCCATAGAACGTAAA
***
6304567 AAAGTGAAAGTGTATAGAAGTTTAAAA
189 AAAGTGAAAGTGTATAGAAAAATAAAA
* * * * *
6304594 -TATATAAAACAAACAAATGAATAATAAGAATCCACGTACAATTACATGCAGTTGTATCGGCAAT
1 TTATATAAAACAAACAAATGAATAATAAGAATCTATGTACAATTAC-TGCAGTTGGATTGACAAT
* * * *
6304658 TTACTAATTGAAATTGCTTTATCTTTTTGAACAAGGGCTTACTACGAGATATGAAAGTAATCAGA
65 TTACTAATTGAAA-TGCTTTATCTTTTTGAATAAGGGCTTACTACAAGACATGAAAGTAATCATA
* * ** * *
6304723 CTATCTAGGAAAAAGAGAAGCTGACAAATAATATCTAAGTTAGGGCCCATAGAACGT-AAAAAGT
129 ATATCTAGAAAAAAGAGAAGCTGACAAATGGTATATAAGTTAGGTCCCATAGAACGTAAAAAAGT
* *
6304787 GACAGTGTGTA-AAAAATAAAA
194 GAAAGTGTATAGAAAAATAAAA
* *
6304808 TTATATAAAACTAACAAATGAACAATAAGAATCTATGTACAATTACGTGCAGTTGGATTGACAAT
1 TTATATAAAACAAACAAATGAATAATAAGAATCTATGTACAATTAC-TGCAGTTGGATTGACAAT
* *
6304873 TTACTAATTGAACATGCTTTATCTTTTTGAATAAGGACTTACCACAAGACATGAAAG-AATCATA
65 TTACTAATTGAA-ATGCTTTATCTTTTTGAATAAGGGCTTACTACAAGACATGAAAGTAATCATA
* * * * *
6304937 ATATATAGAAAAAAGAGAAGCTGGCAGATGGTATATAAGTTAGGTCCCATTGAATGTAAAAAAGT
129 ATATCTAGAAAAAAGAGAAGCTGACAAATGGTATATAAGTTAGGTCCCATAGAACGTAAAAAAGT
6305002 GAAAGTGTAT
194 GAAAGTGTAT
6305012 TGTGTCAGAC
Statistics
Matches: 358, Mismatches: 52, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
214 59 0.16
215 137 0.38
216 30 0.08
217 3 0.01
218 54 0.15
219 72 0.20
220 3 0.01
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (215 bp):
TTATATAAAACAAACAAATGAATAATAAGAATCTATGTACAATTACTGCAGTTGGATTGACAATT
TACTAATTGAAATGCTTTATCTTTTTGAATAAGGGCTTACTACAAGACATGAAAGTAATCATAAT
ATCTAGAAAAAAGAGAAGCTGACAAATGGTATATAAGTTAGGTCCCATAGAACGTAAAAAAGTGA
AAGTGTATAGAAAAATAAAA
Found at i:6306956 original size:21 final size:22
Alignment explanation
Indices: 6306932--6306974 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6306922 TACAAAAATT
6306932 ATAT-AAAA-AAACACCATGCAA
1 ATATCAAAATAAACA-CATGCAA
*
6306953 ATATCAAAATCAACACATGCAA
1 ATATCAAAATAAACACATGCAA
6306975 CAATATCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.58, C:0.21, G:0.05, T:0.16
Consensus pattern (22 bp):
ATATCAAAATAAACACATGCAA
Found at i:6308032 original size:201 final size:201
Alignment explanation
Indices: 6307737--6308474 Score: 794
Period size: 201 Copynumber: 3.7 Consensus size: 201
6307727 TTTTTTTTTT
* * * * *
6307737 TTTTTTGTGACATTAGTTTTCGTCAGCTATTTATGAAAAAAAA-GTCATTTAAGGCTATATTCAT
1 TTTTTTATGACATTAATTTTCGTCAGCTATTTAT-AAAAAAAATGTCATTAAAAGCTATAATCAT
* * * * * *
6307801 CACAAAA-AAATGAAAAAATTTAATATATTAGTAATGAAA-AGTAAATCGTCATATTATTAGTGA
65 CACAAAATAAATGATAAAATTTGATATATTAGTGATGAAAGA-TAAATCGTCACAGTATTGGTGA
* * * * * * **
6307864 CAAAATTATTGTCACCAATGATTGTAAGATAATGTCTACTATGACAATAAAATCAAGCGTCACCC
129 CAAAATTATTATCACAAATGATTGTAAGATAATGTCAAATGTGACAATAAAATCAAACGTCACAT
6307929 TATGCATTA
194 TATGC-TTA
* * * *
6307938 ATTTTT-T-ACATTAATTTTCATAAGCTATTTATAAACAAAAATGTCATTAAAAGCAATAATCAT
1 TTTTTTATGACATTAATTTTCGTCAGCTATTTATAAA-AAAAATGTCATTAAAAGCTATAATCAT
** *
6308001 CACAAAATAAATGATAAAATTTGATATATTAGTGACAATAAG-TAAATCGTCACAATATTGGTGA
65 CACAAAATAAATGATAAAATTTGATATATTAGTGATGA-AAGATAAATCGTCACAGTATTGGTGA
* * * * * *
6308065 CATAATTATCA-CTACAAATAATTATAAGATAATGTCAAATGTAACAATAAAATCAAACGTCACG
129 CAAAATTATTATC-ACAAATGATTGTAAGATAATGTCAAATGTGACAATAAAATCAAACGTCACA
6308129 TTATGCTT-
193 TTATGCTTA
* * * *
6308137 TTTTTATATGACGTTAATTTTCGTCAGCTCTTTATAAAAAAGAATGTCATTAAAAGTTATAATCG
1 TTTTT-TATGACATTAATTTTCGTCAGCTATTTATAAAAAA-AATGTCATTAAAAGCTATAATCA
* * * * * * *
6308202 TTA-TAAATAAATGATAAAATCTGATATATTAATGATGAAAGATAAATTGTCATAGTATTGGTAA
64 TCACAAAATAAATGATAAAATTTGATATATTAGTGATGAAAGATAAATCGTCACAGTATTGGTGA
* * * * *
6308266 CATAATTATCATCACAAATGGTTGTAAGATAATGTCAAATGTGACAATAAAATCAAACATTACAT
129 CAAAATTATTATCACAAATGATTGTAAGATAATGTCAAATGTGACAATAAAATCAAACGTCACAT
6308331 TATGCTTTA
194 TATGC-TTA
* * * * * *
6308340 TTTTTTTATGACGTTAGTTTTTGTTAGCTATTTAT-GAAAAAATGTCATTAAAGGCTATAATCAT
1 -TTTTTTATGACATTAATTTTCGTCAGCTATTTATAAAAAAAATGTCATTAAAAGCTATAATCAT
* * *
6308404 CACAAAGTAAATGATTAAATTTGATATATTAGTGATGAAAGATAAATCATCACAGTATTGGTGAC
65 CACAAAATAAATGATAAAATTTGATATATTAGTGATGAAAGATAAATCGTCACAGTATTGGTGAC
6308469 ATAAAT
130 A-AAAT
6308475 AGCATTATTA
Statistics
Matches: 447, Mismatches: 73, Indels: 32
0.81 0.13 0.06
Matches are distributed among these distances:
198 3 0.01
199 31 0.07
200 32 0.07
201 239 0.53
202 109 0.24
203 28 0.06
204 5 0.01
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (201 bp):
TTTTTTATGACATTAATTTTCGTCAGCTATTTATAAAAAAAATGTCATTAAAAGCTATAATCATC
ACAAAATAAATGATAAAATTTGATATATTAGTGATGAAAGATAAATCGTCACAGTATTGGTGACA
AAATTATTATCACAAATGATTGTAAGATAATGTCAAATGTGACAATAAAATCAAACGTCACATTA
TGCTTA
Found at i:6310817 original size:471 final size:467
Alignment explanation
Indices: 6309847--6310878 Score: 1077
Period size: 471 Copynumber: 2.2 Consensus size: 467
6309837 TAATTTATGA
* * *
6309847 TAAAAT-TATCAGAAAAAATTCATCATAGATAAAATTTTAAATTGGTGATAAAATTATAAAATCA
1 TAAAATCTATCAGAAAAAATTCATCATAGATAAAATTTTAAATTAGTAACAAAATTATAAAATCA
* ** ***
6309911 CCTAAAATAAAAAATGTCATTAAAAATTTTCACTGGATAAAATTGACAATAAAAATTTGTAACAT
66 CCTAAAATAAAAAACGTCAAAAAAAATTTTCACCAAATAAAATTGACAATAAAAATTTGTAACAT
* * **
6309976 TTATGTTATCATCATATAACATCAAACAGTAATGTGATGAAATTATAATGTCATTAATAGTTAAC
131 TTATGTTATCATCATATAACATCAAACAATAAGGTGACAAAATTATAATGTCATTAATAGTTAAC
* * ** * * *
6310041 TAAAATGTTCAATTTATGATAAAAATTAATAATGTTACTTAAAACCTATCCAAAAAAATTTATCA
196 TAAAATATTCAATTTATGACAAAAATTAATAACATCACCTAAAACCTATCCAAAAAAATTCATCA
* ** ** * *
6310106 TAAATAAAAACTTAAATTGTTGACAAAATTATAATGTCCCATAAGATAAAAAAATGTCAAAAATT
261 CAAATAAAAACTTAAATTAATGACAAAATTATAACATCCCATAAAATAAAAAAATGTCAAAAACT
* * * * * *
6310171 TTTCATAAAATAAATTTAGCGGTGAAAGTTTAGGACATTTATGTTATCATTATGTAACACCATAA
326 TTTCATAAAATAAATTTAGCGGTAAAAGTTTAGGAAAATTATATTATCATCATATAACACCATAA
*
6310236 ATTGACATGACAAAATTGTAATATCATTAATAGTTAACTAAAGTATTCAATCTATGACAAAAATT
391 ATTGACATGACAAAATTGCAATATCATTAATAGTTAACTAAAGTATTCAATCTATGACAAAAATT
6310301 AATAACATCACC
456 AATAACATCACC
* * * * **
6310313 TAAAATCTATCAGAAAACATTCATCACAGATAAAATTTTAAATTAGTAACATATTTATAATGTCA
1 TAAAATCTATCAGAAAAAATTCATCATAGATAAAATTTTAAATTAGTAACAAAATTATAAAATCA
* * * * *
6310378 CTTAAAATAAAAAAACGTCACAAAAAAATTTTTTACCAAATAAAATTGACAGTAAAAGTTTGTGA
66 CCTAAAAT-AAAAAACGTCA-AAAAAAA-TTTTCACCAAATAAAATTGACAATAAAAATTTGTAA
* * * * * * *
6310443 TATTTATGTTGTCGTCATATAGCATGATAA-AATAAAGGTGACAAAATTGTAATGTTATTAATAG
128 CATTTATGTTATCATCATATAACATCA-AACAAT-AAGGTGACAAAATTATAATGTCATTAATAG
* * * * *
6310507 TTAACTAAAGTATT-ATATTTATGACAAAAATTGATAACATCACCTAAAATCTAT-TACAAAAAT
191 TTAACTAAAATATTCA-ATTTATGACAAAAATTAATAACATCACCTAAAACCTATCCAAAAAAAT
* **
6310570 TCATCACAGATAAAATTTTAAATTAATGACAAAATT-TAAACATCACC-TAAAAT-AAAAAATGT
255 TCATCACAAATAAAAACTTAAATTAATGACAAAATTAT-AACATC-CCATAAAATAAAAAAATG-
*
6310632 CTCAAAAAAACTTTTCACT-AAATAAATTT-GATGGTAAAAGTTT-GTGAAAATTATATTATCAT
317 -TC--AAAAACTTTTCA-TAAAATAAATTTAG-CGGTAAAAGTTTAG-GAAAATTATATTATCAT
* ** ** * *
6310694 CATATAACACCATACATCT-ATGTGATGAAATTGCAATTTTATTAATAGTTAACTAAAGTATTCA
376 CATATAACACCATAAAT-TGACATGACAAAATTGCAATATCATTAATAGTTAACTAAAGTATTCA
* * * **
6310758 ATTTGTGA-TAAAATTAATAATGTCACC
440 ATCTATGACAAAAATTAATAACATCACC
* *
6310785 T-AAATCTATAAGAAAAAATTCATCATAGATAAAATTTTAAATT-GATGAA-AAAATTATAATAT
1 TAAAATCTATCAGAAAAAATTCATCATAGATAAAATTTTAAATTAG-T-AACAAAATTATAAAAT
** * *
6310847 CGTCTAAAATAAAAAATGTCACAAAAATATTT
64 CACCTAAAATAAAAAACGTCA-AAAAAAATTT
6310879 CCCACAAAAT
Statistics
Matches: 463, Mismatches: 84, Indels: 35
0.80 0.14 0.06
Matches are distributed among these distances:
466 6 0.01
467 56 0.12
468 10 0.02
469 17 0.04
470 117 0.25
471 131 0.28
472 21 0.05
473 103 0.22
474 2 0.00
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.33
Consensus pattern (467 bp):
TAAAATCTATCAGAAAAAATTCATCATAGATAAAATTTTAAATTAGTAACAAAATTATAAAATCA
CCTAAAATAAAAAACGTCAAAAAAAATTTTCACCAAATAAAATTGACAATAAAAATTTGTAACAT
TTATGTTATCATCATATAACATCAAACAATAAGGTGACAAAATTATAATGTCATTAATAGTTAAC
TAAAATATTCAATTTATGACAAAAATTAATAACATCACCTAAAACCTATCCAAAAAAATTCATCA
CAAATAAAAACTTAAATTAATGACAAAATTATAACATCCCATAAAATAAAAAAATGTCAAAAACT
TTTCATAAAATAAATTTAGCGGTAAAAGTTTAGGAAAATTATATTATCATCATATAACACCATAA
ATTGACATGACAAAATTGCAATATCATTAATAGTTAACTAAAGTATTCAATCTATGACAAAAATT
AATAACATCACC
Found at i:6310856 original size:234 final size:233
Alignment explanation
Indices: 6309847--6310908 Score: 949
Period size: 233 Copynumber: 4.5 Consensus size: 233
6309837 TAATTTATGA
* * *
6309847 TAAAAT-TATCAGAAAAAATTCATCATAGATAAAATTTTAAATTGGTGATAAAATTATAAAATCA
1 TAAAATCTATCAGAAAAAATTCATCATAGATAAAATTTTAAATTGATGAAAAAATTATAATATC-
* ** * ** *
6309911 CCTAAAATAAAAAATG--TCATTAAAAATTTTCACTGGATAAAATTGACAATAAAAATTTGT-AA
65 CCTAAAATAAAAAATGTCTCA-AAAAAATTTTCACTAAATAAATTTGACGGTAAAAGTTTGTGAA
* ** *
6309973 CATTTATGTTATCATCATATAACATCA-AACAGTAATGTGATGAAATTATAATGTCATTAATAGT
129 -ATTTATGTTATCATCATATAACACCATAA-A-TAATGTGACAAAATTGTAATGTCATTAATAGT
* * * ** * *
6310037 TAACTAAAATGTTCAATTTATGATAAAAATTAATAATGTTACT
191 TAACTAAAGTATTCAATTTATGACAAAAATTAATAACATCACC
* * * ** * * *
6310080 TAAAACCTATCCA-AAAAAATTTATCATAAATAAAAACTTAAATTGTTGACAAAATTATAATGTC
1 TAAAATCTAT-CAGAAAAAATTCATCATAGATAAAATTTTAAATTGATGAAAAAATTATAATATC
* * *
6310144 CCATAAGATAAAAAAATG--TC-AAAAATTTTTCA-TAAAATAAATTT-AGCGGTGAAAGTTTAG
65 CC-TAAAAT-AAAAAATGTCTCAAAAAAATTTTCACT-AAATAAATTTGA-CGGTAAAAGTTT-G
* * * * ** *
6310204 -GACATTTATGTTATCATTATGTAACACCATAAATTGACATGACAAAATTGTAATATCATTAATA
125 TGAAATTTATGTTATCATCATATAACACCATAAA-TAATGTGACAAAATTGTAATGTCATTAATA
*
6310268 GTTAACTAAAGTATTCAATCTATGACAAAAATTAATAACATCACC
189 GTTAACTAAAGTATTCAATTTATGACAAAAATTAATAACATCACC
* * * * *
6310313 TAAAATCTATCAGAAAACATTCATCACAGATAAAATTTTAAATT-A-GTAACATATTTATAATGT
1 TAAAATCTATCAGAAAAAATTCATCATAGATAAAATTTTAAATTGATG-AA-AAAATTATAATAT
* * * * * * *
6310376 CACTTAAAATAAAAAAACGTCACAAAAAAATTTTTTACCAAATAAAATTGACAGTAAAAGTTTGT
64 C-CCTAAAAT-AAAAAATGTCTCAAAAAAA-TTTTCACTAAATAAATTTGACGGTAAAAGTTTGT
* * * * ** * *
6310441 GATATTTATGTTGTCGTCATATAGCATGATAAAATAAAGGTGACAAAATTGTAATGTTATTAATA
126 GAAATTTATGTTATCATCATATAACACCAT-AAAT-AATGTGACAAAATTGTAATGTCATTAATA
*
6310506 GTTAACTAAAGTATT-ATATTTATGACAAAAATTGATAACATCACC
189 GTTAACTAAAGTATTCA-ATTTATGACAAAAATTAATAACATCACC
* * * * * *
6310551 TAAAATCTATTA-CAAAAATTCATCACAGATAAAATTTTAAATTAATGACAAAATT-TAAACATC
1 TAAAATCTATCAGAAAAAATTCATCATAGATAAAATTTTAAATTGATGAAAAAATTAT-AATATC
*
6310614 ACCTAAAATAAAAAATGTCTCAAAAAAACTTTTCACTAAATAAATTTGATGGTAAAAGTTTGTGA
65 -CCTAAAATAAAAAATGTCTCAAAAAAA-TTTTCACTAAATAAATTTGACGGTAAAAGTTTGTGA
* * * * ** * * *
6310679 AAATTATATTATCATCATATAACACCATACATCTATGTGATGAAATTGCAATTTTATTAATAGTT
128 AATTTATGTTATCATCATATAACACCATAAAT-AATGTGACAAAATTGTAATGTCATTAATAGTT
* * **
6310744 AACTAAAGTATTCAATTTGTGA-TAAAATTAATAATGTCACC
192 AACTAAAGTATTCAATTTATGACAAAAATTAATAACATCACC
*
6310785 T-AAATCTATAAGAAAAAATTCATCATAGATAAAATTTTAAATTGATGAAAAAATTATAATATCG
1 TAAAATCTATCAGAAAAAATTCATCATAGATAAAATTTTAAATTGATGAAAAAATTATAATATC-
* * * * * **
6310849 TCTAAAATAAAAAATGTCACAAAAATATTTCCCACAAAATAAATTTGGTGGTAAAA-TTTG
65 CCTAAAATAAAAAATGTCTCAAAAAAATTT-TCACTAAATAAATTTGACGGTAAAAGTTTG
6310909 ACGATAGGAT
Statistics
Matches: 673, Mismatches: 126, Indels: 60
0.78 0.15 0.07
Matches are distributed among these distances:
231 1 0.00
232 5 0.01
233 191 0.28
234 162 0.24
235 62 0.09
236 76 0.11
237 93 0.14
238 82 0.12
239 1 0.00
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (233 bp):
TAAAATCTATCAGAAAAAATTCATCATAGATAAAATTTTAAATTGATGAAAAAATTATAATATCC
CTAAAATAAAAAATGTCTCAAAAAAATTTTCACTAAATAAATTTGACGGTAAAAGTTTGTGAAAT
TTATGTTATCATCATATAACACCATAAATAATGTGACAAAATTGTAATGTCATTAATAGTTAACT
AAAGTATTCAATTTATGACAAAAATTAATAACATCACC
Found at i:6313722 original size:62 final size:63
Alignment explanation
Indices: 6313577--6313751 Score: 155
Period size: 62 Copynumber: 2.8 Consensus size: 63
6313567 AAAAAATTAG
* * ** *
6313577 AAGAGATTATTGAAGGTGTTTTTAACCAAAAATG-TTTGGAATAATCCCT-TACAATTTTTAATT
1 AAGAGATTATTCAAGATGTTTTTAGTCAAAAATGCATT-GAATAATCCCTATACAATTTTT-ATT
* * * * *
6313640 GA-AGATTATTCAATAAGTTTTTAGTCAAAAATGCCTTGAATAA-CCCTATTCAATTTTT-TGT
1 AAGAGATTATTCAAGATGTTTTTAGTCAAAAATGCATTGAATAATCCCTATACAATTTTTAT-T
* *
6313701 AAGAGATTATTCAAGCTGTTTTCTGGAT-AAAAATGCATTGAATAATCCCTA
1 AAGAGATTATTCAAGATGTTTT-TAG-TCAAAAATGCATTGAATAATCCCTA
6313752 AAAAATTGAG
Statistics
Matches: 90, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
60 1 0.01
61 6 0.07
62 56 0.62
63 21 0.23
64 6 0.07
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (63 bp):
AAGAGATTATTCAAGATGTTTTTAGTCAAAAATGCATTGAATAATCCCTATACAATTTTTATT
Found at i:6313814 original size:59 final size:60
Alignment explanation
Indices: 6313741--6313864 Score: 146
Period size: 60 Copynumber: 2.1 Consensus size: 60
6313731 AAATGCATTG
* * * * *
6313741 AATAAT-CCCTAAAAAATTGAGAGGAGATTATTGAATG-GTTTTTGGT-AGAAAAAACCTTA
1 AATAATCCCCAAAAAAATGGAAAGG-GATTATTCAAAGTGTTTTTGGTCAG-AAAAACCTTA
* *
6313800 AATAATCCCCAAAAAAATGGAAAGGGATTATTCAAAGTGTTTTTTGTCAGAAATACCTTA
1 AATAATCCCCAAAAAAATGGAAAGGGATTATTCAAAGTGTTTTTGGTCAGAAAAACCTTA
6313860 AATAA
1 AATAA
6313865 CCTCATTCCA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
59 16 0.29
60 37 0.67
61 2 0.04
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (60 bp):
AATAATCCCCAAAAAAATGGAAAGGGATTATTCAAAGTGTTTTTGGTCAGAAAAACCTTA
Found at i:6314722 original size:21 final size:21
Alignment explanation
Indices: 6314682--6314722 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6314672 AGAATAAGAA
* *
6314682 CATGCTAGAATTGAACAAAAG
1 CATGCTAAAATTAAACAAAAG
*
6314703 CATGCTAAAATTAAAGAAAA
1 CATGCTAAAATTAAACAAAA
6314723 ACACGTTAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.12, G:0.15, T:0.20
Consensus pattern (21 bp):
CATGCTAAAATTAAACAAAAG
Found at i:6323677 original size:21 final size:21
Alignment explanation
Indices: 6323653--6323712 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
6323643 TTTTAATTTA
6323653 ATTTTATATTTATAAAATATT
1 ATTTTATATTTATAAAATATT
* *
6323674 ATTTT-TA-ATATAAATTA-T
1 ATTTTATATTTATAAAATATT
6323692 ATTTTA-ATTATATATAAATAT
1 ATTTTATATT-TATA-AAATAT
6323713 AATATTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
18 7 0.23
19 8 0.27
20 6 0.20
21 9 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTATATTTATAAAATATT
Found at i:6323706 original size:45 final size:43
Alignment explanation
Indices: 6323649--6323768 Score: 117
Period size: 42 Copynumber: 2.8 Consensus size: 43
6323639 ATAATTTTAA
* *
6323649 TTTAATTTTATATTTATAAAATATTATTTTTAATATAAATT-ATAT
1 TTTAATTATATATTTA-AAAATAATATTTTT-AT-TAAATTAATAT
*
6323694 TTTAATTATATA--TAAATATAATATTTTTATTAAATTAATAT
1 TTTAATTATATATTTAAAAATAATATTTTTATTAAATTAATAT
*
6323735 TTTAAATTATGATA-TT--AAATAATAATTTTATTAA
1 TTT-AATTAT-ATATTTAAAAATAATATTTTTATTAA
6323769 TATATATTTA
Statistics
Matches: 66, Mismatches: 5, Indels: 11
0.80 0.06 0.13
Matches are distributed among these distances:
40 6 0.09
41 9 0.14
42 34 0.52
43 5 0.08
44 1 0.02
45 11 0.17
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (43 bp):
TTTAATTATATATTTAAAAATAATATTTTTATTAAATTAATAT
Found at i:6323719 original size:42 final size:45
Alignment explanation
Indices: 6323663--6323772 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 45
6323653 ATTTTATATT
*
6323663 TATAAA-ATATTATTTTTAATATAAATT-ATATTTT-AATTAT-A
1 TATAAATATAATATTTTTAATATAAATTAATATTTTAAATTATGA
6323704 TATAAATATAATATTTTT-AT-TAAATTAATATTTTAAATTATGA
1 TATAAATATAATATTTTTAATATAAATTAATATTTTAAATTATGA
6323747 TATTAAATAATAAT-TTTATTAATATA
1 TA-TAAAT-ATAATATTT-TTAATATA
6323773 TATTTAAAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 12
0.82 0.01 0.17
Matches are distributed among these distances:
40 6 0.10
41 15 0.25
42 16 0.27
43 3 0.05
44 8 0.14
45 7 0.12
46 2 0.03
47 2 0.03
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (45 bp):
TATAAATATAATATTTTTAATATAAATTAATATTTTAAATTATGA
Found at i:6323725 original size:24 final size:22
Alignment explanation
Indices: 6323668--6323726 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 22
6323658 ATATTTATAA
6323668 AATATTATTT-TTAATATAAATT
1 AATATT-TTTATTAATATAAATT
*
6323690 -ATATTTTAATTATATATAAATAT
1 AATATTTTTATTA-ATATAAAT-T
6323713 AATATTTTTATTAA
1 AATATTTTTATTAA
6323727 ATTAATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 2 0.06
21 8 0.26
22 8 0.26
23 2 0.06
24 11 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AATATTTTTATTAATATAAATT
Found at i:6323743 original size:18 final size:18
Alignment explanation
Indices: 6323706--6323739 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6323696 TAATTATATA
*
6323706 TAAATATAATATTTTTAT
1 TAAATATAATATTTTAAT
6323724 TAAAT-TAATATTTTAA
1 TAAATATAATATTTTAA
6323740 ATTATGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAAATATAATATTTTAAT
Found at i:6323776 original size:41 final size:40
Alignment explanation
Indices: 6323684--6323802 Score: 125
Period size: 41 Copynumber: 2.9 Consensus size: 40
6323674 ATTTTTAATA
* *
6323684 TAAATTATATTTT-AATTATATATAAATATAATATTTTTAT
1 TAAATTATATTTTAAATTATATATTAA-ATAATAATTTTAT
6323724 TAAATTAATATTTTAAATTATGATATTAAATAATAATTTTAT
1 TAAATT-ATATTTTAAATTAT-ATATTAAATAATAATTTTAT
* * *
6323766 T-AATATATATTTAAAAATATAAAATTAAATAAATAAT
1 TAAAT-TATATTTTAAATTAT-ATATTAAAT-AATAAT
6323803 AAATTTTTTA
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
40 6 0.09
41 30 0.44
42 26 0.38
43 6 0.09
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (40 bp):
TAAATTATATTTTAAATTATATATTAAATAATAATTTTAT
Found at i:6324586 original size:34 final size:35
Alignment explanation
Indices: 6324543--6324610 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 35
6324533 ATTATAAATG
*
6324543 ATATATTAATATTCATAAATTATTT-AATTTAATA
1 ATATATTAATACTCATAAATTATTTAAATTTAATA
*
6324577 ATATATTAATACTCATAAGTTATTTAAATTTAAT
1 ATATATTAATACTCATAAATTATTTAAATTTAAT
6324611 TCGAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 23 0.74
35 8 0.26
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (35 bp):
ATATATTAATACTCATAAATTATTTAAATTTAATA
Found at i:6324594 original size:17 final size:17
Alignment explanation
Indices: 6324543--6324594 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
6324533 ATTATAAATG
6324543 ATATATTAATATTCATA
1 ATATATTAATATTCATA
*
6324560 A-ATTATTTAAT-TTAATA
1 ATA-TA-TTAATATTCATA
*
6324577 ATATATTAATACTCATA
1 ATATATTAATATTCATA
6324594 A
1 A
6324595 GTTATTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 6 0.21
17 16 0.57
18 6 0.21
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATATTAATATTCATA
Found at i:6328624 original size:19 final size:19
Alignment explanation
Indices: 6328595--6328658 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
6328585 TTTTTATAAA
* *
6328595 AAAATTCTAAAAAATTTCC
1 AAAATTTTAAAAAATTTAC
* *
6328614 TAAATTTTAAAAAATTAAC
1 AAAATTTTAAAAAATTTAC
*
6328633 AAAATTTTCAAAAATTTA-
1 AAAATTTTAAAAAATTTAC
6328651 AAAATTTT
1 AAAATTTT
6328659 CTTAAAAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
18 8 0.21
19 30 0.79
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTTTAAAAAATTTAC
Found at i:6328698 original size:19 final size:17
Alignment explanation
Indices: 6328615--6328700 Score: 66
Period size: 19 Copynumber: 4.6 Consensus size: 17
6328605 AAAATTTCCT
6328615 AAATTTTAAAAAATTAACA
1 AAATTTTAAAAAATT-A-A
*
6328634 AAATTTTCAAAAATTTAA
1 AAATTTT-AAAAAATTAA
6328652 AAATTTTCTTAAAAAA-TAA
1 AAA--TT-TTAAAAAATTAA
**
6328671 AAAAATTAAGAAAACTTAA
1 AAATTTTAA-AAAA-TTAA
6328690 AAATTTTAAAA
1 AAATTTTAAAA
6328701 CAAACAATCA
Statistics
Matches: 54, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
16 4 0.07
17 4 0.07
18 6 0.11
19 24 0.44
20 14 0.26
21 2 0.04
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.33
Consensus pattern (17 bp):
AAATTTTAAAAAATTAA
Found at i:6328975 original size:19 final size:20
Alignment explanation
Indices: 6328937--6328975 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
6328927 CACTTTTCAA
6328937 ATAATTTTTCCAAATTTTTAT
1 ATAATTTTT-CAAATTTTTAT
*
6328958 ATAATTTTT-AATTTTTTA
1 ATAATTTTTCAAATTTTTA
6328976 ATTTTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
ATAATTTTTCAAATTTTTAT
Found at i:6328997 original size:27 final size:26
Alignment explanation
Indices: 6328967--6329029 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
6328957 TATAATTTTT
*
6328967 AATTTTTTAATTTTTATAATGTTTCAA
1 AATTTTTTAATTATT-TAATGTTTCAA
** *
6328994 AATTTTGAAATTATTTAATTTTTCAA
1 AATTTTTTAATTATTTAATGTTTCAA
*
6329020 AAATTTTTAA
1 AATTTTTTAA
6329030 AAATTTTAGA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 17 0.59
27 12 0.41
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (26 bp):
AATTTTTTAATTATTTAATGTTTCAA
Found at i:6329035 original size:26 final size:26
Alignment explanation
Indices: 6328983--6329035 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
6328973 TTAATTTTTA
*
6328983 TAATGTTTCAAAATTTTGAAATTATT
1 TAATGTTTCAAAATTTTGAAATAATT
* *
6329009 TAATTTTTCAAAAATTTTTAAA-AATT
1 TAATGTTTC-AAAATTTTGAAATAATT
6329035 T
1 T
6329036 TAGAATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (26 bp):
TAATGTTTCAAAATTTTGAAATAATT
Found at i:6329223 original size:25 final size:25
Alignment explanation
Indices: 6329187--6329278 Score: 96
Period size: 27 Copynumber: 3.6 Consensus size: 25
6329177 TAAAATGTTC
6329187 ATTTTTTT-AATTTTCATATTTTTT
1 ATTTTTTTAAATTTTCATATTTTTT
* *
6329211 ATTTTTTTAAATTATCATAATTTTATA
1 ATTTTTTTAAATTTTCAT-ATTTT-TT
** *
6329238 ATTTTTAAAAATATTTCAAATTTTTT
1 ATTTTTTTAAAT-TTTCATATTTTTT
6329264 ATTTTTTATAAATTT
1 ATTTTTT-TAAATTT
6329279 GAAAATTTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
24 8 0.15
25 8 0.15
26 14 0.26
27 20 0.37
28 4 0.07
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (25 bp):
ATTTTTTTAAATTTTCATATTTTTT
Found at i:6329290 original size:20 final size:20
Alignment explanation
Indices: 6329265--6329309 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
6329255 AAATTTTTTA
*
6329265 TTTTTTATAAA-TTTGAAAAT
1 TTTTTTA-AAACTTTCAAAAT
6329285 TTTTTTAAAACTTTTCAAAAT
1 TTTTTTAAAAC-TTTCAAAAT
6329306 TTTT
1 TTTT
6329310 AAATTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 7 0.32
21 12 0.55
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTTTTAAAACTTTCAAAAT
Found at i:6329389 original size:9 final size:9
Alignment explanation
Indices: 6329367--6329427 Score: 59
Period size: 9 Copynumber: 6.4 Consensus size: 9
6329357 GTTTCGATTC
6329367 TTTTAGAAATT
1 TTTTA-AAA-T
6329378 TTTTAAAAT
1 TTTTAAAAT
*
6329387 TTTTAGAAT
1 TTTTAAAAT
*
6329396 ATTTTAGAAT
1 -TTTTAAAAT
*
6329406 TTTTGAAAT
1 TTTTAAAAT
*
6329415 TTTTAGAAT
1 TTTTAAAAT
6329424 TTTT
1 TTTT
6329428 TTTCAAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
9 27 0.61
10 12 0.27
11 5 0.11
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.57
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:6329400 original size:19 final size:19
Alignment explanation
Indices: 6329367--6329427 Score: 72
Period size: 18 Copynumber: 3.2 Consensus size: 19
6329357 GTTTCGATTC
* *
6329367 TTTTAGAAATTTTTTAAAAT
1 TTTTAG-AATATTTTAGAAT
6329387 TTTTAGAATATTTTAGAAT
1 TTTTAGAATATTTTAGAAT
6329406 TTTT-GAA-ATTTTTAGAAT
1 TTTTAGAATA-TTTTAGAAT
6329424 TTTT
1 TTTT
6329428 TTTCAAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.03
18 16 0.42
19 15 0.39
20 6 0.16
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.57
Consensus pattern (19 bp):
TTTTAGAATATTTTAGAAT
Found at i:6329428 original size:10 final size:10
Alignment explanation
Indices: 6329305--6329428 Score: 69
Period size: 10 Copynumber: 12.5 Consensus size: 10
6329295 CTTTTCAAAA
6329305 TTTTTA-AATT
1 TTTTTAGAA-T
*
6329315 TTTTTTGAAT
1 TTTTTAGAAT
* * *
6329325 TTCTTAAAAA
1 TTTTTAGAAT
* *
6329335 ATTTTATAATT
1 TTTTTAGAA-T
*
6329346 TTTTTAGTAT
1 TTTTTAGAAT
* *
6329356 TGTTTCG-AT
1 TTTTTAGAAT
6329365 TCTTTTAGAAAT
1 T-TTTTAG-AAT
*
6329377 TTTTTA-AAA
1 TTTTTAGAAT
6329386 TTTTTAGAAT
1 TTTTTAGAAT
*
6329396 ATTTTAGAA-
1 TTTTTAGAAT
*
6329405 TTTTT-GAAA
1 TTTTTAGAAT
6329414 TTTTTAGAAT
1 TTTTTAGAAT
6329424 TTTTT
1 TTTTT
6329429 TTCAAAATTT
Statistics
Matches: 85, Mismatches: 21, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
8 3 0.04
9 20 0.24
10 46 0.54
11 13 0.15
12 3 0.04
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (10 bp):
TTTTTAGAAT
Found at i:6329428 original size:19 final size:19
Alignment explanation
Indices: 6329367--6329427 Score: 81
Period size: 19 Copynumber: 3.2 Consensus size: 19
6329357 GTTTCGATTC
*
6329367 TTTTAGAAATTTTTTAAAAT
1 TTTTAGAAA-TTTTTAGAAT
6329387 TTTTAG-AATATTTTAGAAT
1 TTTTAGAAAT-TTTTAGAAT
6329406 TTTT-GAAATTTTTAGAAT
1 TTTTAGAAATTTTTAGAAT
6329424 TTTT
1 TTTT
6329428 TTTCAAAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
18 15 0.39
19 17 0.45
20 6 0.16
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.57
Consensus pattern (19 bp):
TTTTAGAAATTTTTAGAAT
Found at i:6333035 original size:2 final size:2
Alignment explanation
Indices: 6333028--6333065 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6333018 CCGTTTAAGC
6333028 TA TA TA TA 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 TA TA TA TA
6333066 AAATATTGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6335572 original size:27 final size:27
Alignment explanation
Indices: 6335542--6335597 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
6335532 TTTAGAAAAC
*
6335542 AAAAATAAAAATGATTTCAAATATGAA
1 AAAAAAAAAAATGATTTCAAATATGAA
* *
6335569 AAAAAAAAAAATGTTTTCAATTATGAA
1 AAAAAAAAAAATGATTTCAAATATGAA
6335596 AA
1 AA
6335598 CAAGGGATGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (27 bp):
AAAAAAAAAAATGATTTCAAATATGAA
Found at i:6336234 original size:26 final size:27
Alignment explanation
Indices: 6336186--6336236 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
6336176 TAGAAAATAA
*
6336186 AAAATAGAAAACAAAAATGTTTTCTAG
1 AAAATAGAAAACAAAAATATTTTCTAG
6336213 AAAATA-AAAAC-AAAATCATTTTCT
1 AAAATAGAAAACAAAAAT-ATTTTCT
6336237 CAAACCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 11 0.50
27 6 0.27
ACGTcount: A:0.57, C:0.10, G:0.06, T:0.27
Consensus pattern (27 bp):
AAAATAGAAAACAAAAATATTTTCTAG
Found at i:6337485 original size:1 final size:1
Alignment explanation
Indices: 6337479--6337510 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
6337469 TATATATATA
*
6337479 TTTTTTTTTATTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6337511 CTTTCTATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.03, C:0.00, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:6337521 original size:8 final size:8
Alignment explanation
Indices: 6337510--6337536 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
6337500 TTTTTTTTTT
6337510 TCTTTCTA
1 TCTTTCTA
6337518 TCTTTCTA
1 TCTTTCTA
6337526 TCTTTCTA
1 TCTTTCTA
6337534 TCT
1 TCT
6337537 ATGGTCAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.00, T:0.63
Consensus pattern (8 bp):
TCTTTCTA
Found at i:6345222 original size:9 final size:9
Alignment explanation
Indices: 6345208--6345236 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
6345198 GGCGGATGTA
6345208 CAATGGGGG
1 CAATGGGGG
6345217 CAATGGGGG
1 CAATGGGGG
6345226 CAATGGGGG
1 CAATGGGGG
6345235 CA
1 CA
6345237 GCTGCCCCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.24, C:0.14, G:0.52, T:0.10
Consensus pattern (9 bp):
CAATGGGGG
Found at i:6346331 original size:31 final size:31
Alignment explanation
Indices: 6346293--6346353 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
6346283 TATAAACAAA
* *
6346293 ATATTTTTTTA-TGATTGATTATTTATATTAT
1 ATATTTTTATATTGAAT-ATTATTTATATTAT
*
6346324 ATATTTTTATATTTAATATTATTTATATTA
1 ATATTTTTATATTGAATATTATTTATATTA
6346354 ATTACTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 23 0.88
32 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (31 bp):
ATATTTTTATATTGAATATTATTTATATTAT
Found at i:6346354 original size:15 final size:15
Alignment explanation
Indices: 6346310--6346355 Score: 67
Period size: 15 Copynumber: 3.0 Consensus size: 15
6346300 TTTATGATTG
6346310 ATTATTTATATTATAT
1 ATTATTTATATTA-AT
6346326 ATT-TTTATATTTAAT
1 ATTATTTATA-TTAAT
6346341 ATTATTTATATTAAT
1 ATTATTTATATTAAT
6346356 TACTTTTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTTATATTAAT
Found at i:6346363 original size:15 final size:15
Alignment explanation
Indices: 6346314--6346363 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
6346304 TGATTGATTA
6346314 TTTATATT-ATATATT
1 TTTATATTAAT-TATT
6346329 TTTATATTTAA-TATT
1 TTTATA-TTAATTATT
*
6346344 ATTTATATTAATTACT
1 -TTTATATTAATTATT
6346360 TTTA
1 TTTA
6346364 CTAAATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
15 18 0.60
16 11 0.37
17 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTATATTAATTATT
Found at i:6347968 original size:14 final size:15
Alignment explanation
Indices: 6347949--6347982 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
6347939 TTCACTCCTT
*
6347949 TTATATATATTAT-A
1 TTATATATACTATAA
6347963 TTATATATACTATAA
1 TTATATATACTATAA
6347978 TTATA
1 TTATA
6347983 AATTAGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATATATACTATAA
Found at i:6348684 original size:70 final size:68
Alignment explanation
Indices: 6348566--6348704 Score: 215
Period size: 70 Copynumber: 2.0 Consensus size: 68
6348556 TGCTTACCTA
* * *
6348566 ACACAATGATCTAATCACTGTGTAAATCATTATGATTTTAAAACGATCATCGCATACCAAGCTCG
1 ACACAATGATATAATAACTGTGTAAATCATTATGATTTAAAAACGATCATCGCATACCAAGCTCG
6348631 TAG
66 TAG
*
6348634 ACACAATGATATAATAACTATGTGTAAATCATTATGATTTAAAAATGATCATCGCATACCAAGCT
1 ACACAATGATATAATAAC--TGTGTAAATCATTATGATTTAAAAACGATCATCGCATACCAAGCT
*
6348699 TGTAG
64 CGTAG
6348704 A
1 A
6348705 GAGAATTTAA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
68 16 0.25
70 48 0.75
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (68 bp):
ACACAATGATATAATAACTGTGTAAATCATTATGATTTAAAAACGATCATCGCATACCAAGCTCG
TAG
Found at i:6356880 original size:2 final size:2
Alignment explanation
Indices: 6356875--6356900 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6356865 TATATATATA
6356875 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
6356901 ATGTCAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:6359329 original size:2 final size:2
Alignment explanation
Indices: 6359324--6359362 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
6359314 AATTACTAAA
6359324 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6359363 ATTGCCATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6363186 original size:2 final size:2
Alignment explanation
Indices: 6363179--6363206 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6363169 AATTGTTTGA
6363179 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
6363207 CACATATGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:6366371 original size:2 final size:2
Alignment explanation
Indices: 6366364--6366390 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6366354 ACCACAAAAC
6366364 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6366391 AACCCATACT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6370205 original size:19 final size:20
Alignment explanation
Indices: 6370181--6370224 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
6370171 TATAAAAAAA
6370181 ATTATAATCATA-ATCAA-GT
1 ATTATAATCATATAT-AATGT
*
6370200 ATTATATTCATATATAATGT
1 ATTATAATCATATATAATGT
6370220 ATTAT
1 ATTAT
6370225 TAAATAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (20 bp):
ATTATAATCATATATAATGT
Found at i:6372210 original size:14 final size:15
Alignment explanation
Indices: 6372178--6372210 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6372168 TATATCAAAA
*
6372178 TTTTCATTTTCTTTC
1 TTTTCATTTTCTATC
6372193 TTTTCATTTT-TATC
1 TTTTCATTTTCTATC
6372207 TTTT
1 TTTT
6372211 TAAAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTCATTTTCTATC
Found at i:6372358 original size:18 final size:18
Alignment explanation
Indices: 6372308--6372358 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
6372298 TTCAAATCAA
*
6372308 TTTTTTTCACCTTTTTCT
1 TTTTTTTCTCCTTTTTCT
*
6372326 TTTTTTTTTCCTTTTTGC-
1 TTTTTTTCTCCTTTTT-CT
6372344 TTTTTTTCT-CTTTTT
1 TTTTTTTCTCCTTTTT
6372359 ATATATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 6 0.21
18 22 0.76
19 1 0.03
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTTTTCTCCTTTTTCT
Found at i:6373075 original size:25 final size:26
Alignment explanation
Indices: 6373046--6373102 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
6373036 TTAATGTAAC
6373046 TATTAAAATGT-TA-AAAATTATTTAT
1 TATTAAAA-GTATATAAAATTATTTAT
*
6373071 TATT-AAAGTATATTAAATTATTTAT
1 TATTAAAAGTATATAAAATTATTTAT
6373096 TATTAAA
1 TATTAAA
6373103 TTATTAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 2 0.07
24 5 0.18
25 19 0.68
26 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (26 bp):
TATTAAAAGTATATAAAATTATTTAT
Found at i:6373116 original size:15 final size:16
Alignment explanation
Indices: 6373069--6373116 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 16
6373059 AAAATTATTT
6373069 ATTATTAAAGTATATTAA
1 ATTATT-AA-TATATTAA
*
6373087 ATTATTTAT-TATTAA
1 ATTATTAATATATTAA
6373102 ATTATTAATAT-TTAA
1 ATTATTAATATATTAA
6373117 GAATAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 18 0.67
16 2 0.07
17 1 0.04
18 6 0.22
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATTATTAATATATTAA
Found at i:6373124 original size:20 final size:19
Alignment explanation
Indices: 6373101--6373168 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 19
6373091 TTTATTATTA
6373101 AATTATTAATATTTAAGAAT
1 AATTATTAATATTTAA-AAT
6373121 AATTA-T-AT-TTTAATAAT
1 AATTATTAATATTTAA-AAT
6373138 AA-TATTGAATA-TTAAAAT
1 AATTATT-AATATTTAAAAT
*
6373156 ATTATATTAATAT
1 AAT-TATTAATAT
6373169 AAAAAATTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
16 2 0.05
17 11 0.28
18 6 0.15
19 11 0.28
20 9 0.23
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
AATTATTAATATTTAAAAT
Found at i:6373296 original size:21 final size:20
Alignment explanation
Indices: 6373240--6373332 Score: 59
Period size: 21 Copynumber: 4.5 Consensus size: 20
6373230 ATAGTATTAC
* * *
6373240 TATTCTTAAAATATTATTTT
1 TATTATTAAAATAATATATT
6373260 TATTAATATGAAAATAATAATATT
1 TATT-AT-T-AAAATAAT-ATATT
6373284 TATTATTAAAAT-AT-T-TT
1 TATTATTAAAATAATATATT
* *
6373301 TACTATTAAAATATTTATATT
1 TATTATTAAAATA-ATATATT
6373322 T-TATATTAAAA
1 TAT-TATTAAAA
6373333 CTATCTATTA
Statistics
Matches: 58, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
17 13 0.22
18 1 0.02
19 1 0.02
20 7 0.12
21 17 0.29
22 2 0.03
23 9 0.16
24 8 0.14
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (20 bp):
TATTATTAAAATAATATATT
Found at i:6373298 original size:15 final size:15
Alignment explanation
Indices: 6373278--6373318 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
6373268 TGAAAATAAT
6373278 AATATTTATTATTAA
1 AATATTTATTATTAA
*
6373293 AATATTTTTACTATTAA
1 AATA--TTTATTATTAA
6373310 AATATTTAT
1 AATATTTAT
6373319 ATTTTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 8 0.36
17 14 0.64
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
AATATTTATTATTAA
Found at i:6373307 original size:17 final size:17
Alignment explanation
Indices: 6373282--6373316 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
6373272 AATAATAATA
*
6373282 TTTATTATTAAAATATT
1 TTTACTATTAAAATATT
6373299 TTTACTATTAAAATATT
1 TTTACTATTAAAATATT
6373316 T
1 T
6373317 ATATTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTACTATTAAAATATT
Found at i:6373524 original size:39 final size:39
Alignment explanation
Indices: 6373472--6373599 Score: 131
Period size: 42 Copynumber: 3.3 Consensus size: 39
6373462 AAAATATTCA
**
6373472 TATTAAGAA-AATAATATTATTATATTATTTAACATTAAT
1 TATTAA-AATAATAATATTATTATATTATTTATTATTAAT
*
6373511 TATTAAAATAATAAAAATATTATTATA-TATGTTATTATTTAT
1 TATTAAAATAAT---AATATTATTATATTAT-TTATTATTAAT
*
6373553 TATTAAAATAATAATA-TA--ATATTATTTATTATTGAAA
1 TATTAAAATAATAATATTATTATATTATTTATTATT-AAT
6373590 TATTAAAATA
1 TATTAAAATA
6373600 TTTTATGTTA
Statistics
Matches: 77, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
36 11 0.14
37 14 0.18
38 4 0.05
39 13 0.17
41 3 0.04
42 32 0.42
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (39 bp):
TATTAAAATAATAATATTATTATATTATTTATTATTAAT
Found at i:6373555 original size:42 final size:44
Alignment explanation
Indices: 6373482--6373585 Score: 144
Period size: 42 Copynumber: 2.4 Consensus size: 44
6373472 TATTAAGAAA
6373482 ATAATATTATTATATTATTTAACATTAATTATTAAAATAATAA-
1 ATAATATTATTATATTATTTAACATTAATTATTAAAATAATAAT
** *
6373525 A-AATATTATTATA-TATGTTATTATTTATTATTAAAATAATAAT
1 ATAATATTATTATATTAT-TTAACATTAATTATTAAAATAATAAT
6373568 ATAATATTATT-TATTATT
1 ATAATATTATTATATTATT
6373586 GAAATATTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
41 3 0.06
42 34 0.63
43 5 0.09
44 12 0.22
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (44 bp):
ATAATATTATTATATTATTTAACATTAATTATTAAAATAATAAT
Found at i:6373599 original size:26 final size:28
Alignment explanation
Indices: 6373543--6373601 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
6373533 TTATATATGT
*
6373543 TATTATTTATTATTAAAATAATAATATAA
1 TATTATTTATTATTAAAATAAT-ATAAAA
*
6373572 TATTATTTATTATTGAAAT-AT-TAAAA
1 TATTATTTATTATTAAAATAATATAAAA
6373598 TATT
1 TATT
6373602 TTATGTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 8 0.29
28 2 0.07
29 18 0.64
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (28 bp):
TATTATTTATTATTAAAATAATATAAAA
Found at i:6374775 original size:30 final size:30
Alignment explanation
Indices: 6374718--6374785 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
6374708 ATATTTATAT
*
6374718 ATATTATTATATTAATAAAATTATTATTTA
1 ATATTATTATATTAATAAAAGTATTATTTA
6374748 ATATT-TTA-ATTAATAAAAGTACTTTATTT-
1 ATATTATTATATTAATAAAAGTA--TTATTTA
*
6374777 ATATAATTA
1 ATATTATTA
6374786 AGATATAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 12 0.36
29 7 0.21
30 14 0.42
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (30 bp):
ATATTATTATATTAATAAAAGTATTATTTA
Found at i:6375726 original size:14 final size:15
Alignment explanation
Indices: 6375707--6375735 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6375697 TTTTTTCATT
6375707 TTTTTTAT-TTTTTA
1 TTTTTTATGTTTTTA
6375721 TTTTTTATGTTTTTA
1 TTTTTTATGTTTTTA
6375736 ATATTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTTATGTTTTTA
Found at i:6375758 original size:25 final size:23
Alignment explanation
Indices: 6375704--6375758 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
6375694 TCATTTTTTC
* **
6375704 ATTTTTTTTATTTTTTATTTTTT
1 ATTTTTTATATTTTTTATTAATT
6375727 ATGTTTTTAATATTTTTTATTAAATT
1 AT-TTTTT-ATATTTTTTATT-AATT
6375753 ATTTTT
1 ATTTTT
6375759 GTTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 2 0.08
24 5 0.19
25 15 0.58
26 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (23 bp):
ATTTTTTATATTTTTTATTAATT
Found at i:6376085 original size:17 final size:17
Alignment explanation
Indices: 6376063--6376095 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6376053 AATAAATATT
6376063 TTTAATTCTTA-ATTTAA
1 TTTAATT-TTATATTTAA
6376080 TTTAATTTTATATTTA
1 TTTAATTTTATATTTA
6376096 TATATATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTAATTTTATATTTAA
Found at i:6377947 original size:53 final size:53
Alignment explanation
Indices: 6377888--6377998 Score: 161
Period size: 53 Copynumber: 2.1 Consensus size: 53
6377878 TAAAAAAATT
* *
6377888 TTGAAATATAAATTTTTCTTAAACAAAAATAATTTTAA-AATTTGAGGAAAAAG
1 TTGAAATATAAATTTTT-TTAAACAAAAATAATTTCAATAATTTGAGAAAAAAG
* **
6377941 TTGAAATATTAATTTTTTTAAACAAAAATAATTTCAATTTTTTGAGAAAAAAG
1 TTGAAATATAAATTTTTTTAAACAAAAATAATTTCAATAATTTGAGAAAAAAG
6377994 TTGAA
1 TTGAA
6377999 TTTTCCTCGA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
52 19 0.37
53 33 0.63
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.39
Consensus pattern (53 bp):
TTGAAATATAAATTTTTTTAAACAAAAATAATTTCAATAATTTGAGAAAAAAG
Found at i:6377990 original size:52 final size:54
Alignment explanation
Indices: 6377861--6377998 Score: 156
Period size: 53 Copynumber: 2.6 Consensus size: 54
6377851 ATATATATAG
** ** *
6377861 ATAATTTCAAAAAATGATAAAAAAATTTTGAAATATAAATTTTTCTTAAACAAAA
1 ATAATTTCAAAATTTGAGGAAAAAA-GTTGAAATATAAATTTTTCTTAAACAAAA
* *
6377916 ATAATTTTAAAATTTGAGG-AAAAAGTTGAAATATTAATTTTT-TTAAACAAAA
1 ATAATTTCAAAATTTGAGGAAAAAAGTTGAAATATAAATTTTTCTTAAACAAAA
**
6377968 ATAATTTCAATTTTTTGA-GAAAAAAGTTGAA
1 ATAATTTCAA-AATTTGAGGAAAAAAGTTGAA
6377999 TTTTCCTCGA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
52 20 0.28
53 32 0.45
54 5 0.07
55 14 0.20
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (54 bp):
ATAATTTCAAAATTTGAGGAAAAAAGTTGAAATATAAATTTTTCTTAAACAAAA
Found at i:6379228 original size:21 final size:23
Alignment explanation
Indices: 6379187--6379243 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 23
6379177 TTAAAAAATG
6379187 TTAAAATTATAAATGATATTTGAA-
1 TTAAAATTATAAA-GATATTT-AAT
6379211 TTAAAATTA-AAA-ATATTTAAT
1 TTAAAATTATAAAGATATTTAAT
6379232 TTAAAATT-TAAA
1 TTAAAATTATAAA
6379244 TTATAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
20 2 0.06
21 17 0.55
23 3 0.10
24 9 0.29
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (23 bp):
TTAAAATTATAAAGATATTTAAT
Found at i:6379332 original size:18 final size:19
Alignment explanation
Indices: 6379309--6379368 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 19
6379299 ATTCAAAATT
6379309 TATTATATTAA-AAATAAA
1 TATTATATTAATAAATAAA
*
6379327 TATTATATTAATTAATAAA
1 TATTATATTAATAAATAAA
6379346 T-TTATAATT--TAAATATAA
1 TATTAT-ATTAATAAATA-AA
6379364 TATTA
1 TATTA
6379369 AAAATTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
17 5 0.14
18 18 0.50
19 13 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTATATTAATAAATAAA
Found at i:6381245 original size:16 final size:17
Alignment explanation
Indices: 6381210--6381252 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
6381200 GAAACGAACC
6381210 ATTGATTATAATGTACTCT
1 ATTGATTATAA--TACTCT
6381229 ATTGATTATAA-ACTCT
1 ATTGATTATAATACTCT
6381245 ATTGATTA
1 ATTGATTA
6381253 CAATTCAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.54
19 11 0.46
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (17 bp):
ATTGATTATAATACTCT
Found at i:6393349 original size:39 final size:39
Alignment explanation
Indices: 6393295--6393374 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
6393285 ACTTGACTCT
*
6393295 AGCACGAACATAAGTTTCACTTTGGTAGACTATTATGAA
1 AGCACAAACATAAGTTTCACTTTGGTAGACTATTATGAA
6393334 AGCACAAACATAAGTTTCACTTTGGTAGACTATTATGAA
1 AGCACAAACATAAGTTTCACTTTGGTAGACTATTATGAA
6393373 AG
1 AG
6393375 GAGGCTGCTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (39 bp):
AGCACAAACATAAGTTTCACTTTGGTAGACTATTATGAA
Found at i:6406288 original size:16 final size:16
Alignment explanation
Indices: 6406269--6406310 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6406259 TTTTATTTTT
6406269 ATTTACATTTAAAT-AA
1 ATTTA-ATTTAAATAAA
*
6406285 ATTTATTTTAAATAAA
1 ATTTAATTTAAATAAA
6406301 ATTT-ATTTAA
1 ATTTAATTTAA
6406311 GTATAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTAATTTAAATAAA
Found at i:6406296 original size:15 final size:16
Alignment explanation
Indices: 6406276--6406308 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
6406266 TTTATTTACA
6406276 TTTAAAT-AAATTTAT
1 TTTAAATAAAATTTAT
6406291 TTTAAATAAAATTTAT
1 TTTAAATAAAATTTAT
6406307 TT
1 TT
6406309 AAGTATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTAAATAAAATTTAT
Found at i:6406309 original size:15 final size:14
Alignment explanation
Indices: 6406275--6406310 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
6406265 TTTTATTTAC
6406275 ATTTAAATAAATTT
1 ATTTAAATAAATTT
6406289 ATTTTAAATAAAATTT
1 A-TTTAAAT-AAATTT
6406305 ATTTAA
1 ATTTAA
6406311 GTATAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 1 0.05
15 12 0.60
16 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTAAATAAATTT
Found at i:6409914 original size:6 final size:7
Alignment explanation
Indices: 6409867--6409926 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 7
6409857 TTTAATTTAA
*
6409867 AATAAAT
1 AATATAT
6409874 AA-ATAT
1 AATATAT
6409880 AA-ATAT
1 AATATAT
6409886 AA-ATA-
1 AATATAT
6409891 AAT-TAT
1 AATATAT
6409897 GAATATAT
1 -AATATAT
6409905 AATA-AT
1 AATATAT
6409911 AATATAT
1 AATATAT
*
6409918 TATATAT
1 AATATAT
6409925 AA
1 AA
6409927 CATAAAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
5 4 0.09
6 20 0.44
7 18 0.40
8 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (7 bp):
AATATAT
Found at i:6410523 original size:14 final size:14
Alignment explanation
Indices: 6410504--6410533 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
6410494 TAGGTCATCG
6410504 AGATATGTATTTAC
1 AGATATGTATTTAC
6410518 AGATATGTATTTAC
1 AGATATGTATTTAC
6410532 AG
1 AG
6410534 TAATAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (14 bp):
AGATATGTATTTAC
Found at i:6411254 original size:11 final size:12
Alignment explanation
Indices: 6411218--6411249 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
6411208 TATCGTACTA
6411218 ATATTATTATTT
1 ATATTATTATTT
6411230 ATATTA-TATTT
1 ATATTATTATTT
6411241 ATATTATTA
1 ATATTATTA
6411250 ATATAAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATATTATTATTT
Found at i:6413909 original size:6 final size:6
Alignment explanation
Indices: 6413898--6413930 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
6413888 ACCCAGGCAA
6413898 AGCAGG AGCAGG AGCAGG AGCAGG AGCAGG AGC
1 AGCAGG AGCAGG AGCAGG AGCAGG AGCAGG AGC
6413931 TATTCTTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.18, G:0.48, T:0.00
Consensus pattern (6 bp):
AGCAGG
Found at i:6439001 original size:26 final size:26
Alignment explanation
Indices: 6438963--6439016 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
6438953 TTAAGTTACA
6438963 TTTAGTTTACAATTCAAAGATAAACC
1 TTTAGTTTACAATTCAAAGATAAACC
*
6438989 TTTAGTTTGCAATTCAAAGATAAACC
1 TTTAGTTTACAATTCAAAGATAAACC
6439015 TT
1 TT
6439017 GACTTCAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (26 bp):
TTTAGTTTACAATTCAAAGATAAACC
Found at i:6439842 original size:22 final size:23
Alignment explanation
Indices: 6439812--6439854 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
6439802 AATGGTAATT
*
6439812 AAATCAAGGAATTAA-TCATTTG
1 AAATAAAGGAATTAATTCATTTG
6439834 AAATAAAGGAATTAATTCATT
1 AAATAAAGGAATTAATTCATT
6439855 ATTAAACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.33
Consensus pattern (23 bp):
AAATAAAGGAATTAATTCATTTG
Found at i:6443483 original size:112 final size:109
Alignment explanation
Indices: 6443319--6443530 Score: 309
Period size: 112 Copynumber: 1.9 Consensus size: 109
6443309 GAGAAGAATT
* * *
6443319 TAAATCTTAATAATCTTAAATATATAAAAAAAAATCAAAATAGATGATCAAATATTTTATTTGAA
1 TAAATCTTAATAACCTTAAATATAAAAAAAAAAATCAAAATAGATGATCAAATATTTTATTTAAA
* *
6443384 AATTTGCTTAAAATTTTAATACGAATGAATGA-TTTGTCAAGAGTG
66 AAATTGCTTAAAA--TTAACACGAATGAATGACTTTGTCAAGAGTG
* * *
6443429 TAAATCTTGATAACCTTAAATATGTAAAAAAAAAAATCCAAATAGATGATCAAATCTTTTATTTA
1 TAAATCTTAATAACCTTAAATA--TAAAAAAAAAAATCAAAATAGATGATCAAATATTTTATTTA
6443494 AAAAATTGCTTAAAATTAACACGAATGAATGACTTTG
64 AAAAATTGCTTAAAATTAACACGAATGAATGACTTTG
6443531 GCAAAGATTA
Statistics
Matches: 91, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
110 36 0.40
111 4 0.04
112 51 0.56
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.34
Consensus pattern (109 bp):
TAAATCTTAATAACCTTAAATATAAAAAAAAAAATCAAAATAGATGATCAAATATTTTATTTAAA
AAATTGCTTAAAATTAACACGAATGAATGACTTTGTCAAGAGTG
Found at i:6447158 original size:3 final size:3
Alignment explanation
Indices: 6447150--6447183 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
6447140 GCTTAGTTTA
6447150 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
6447184 AAGTATTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:6451090 original size:11 final size:12
Alignment explanation
Indices: 6451076--6451105 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6451066 ATTATTTTTT
6451076 AATTATTT-AAA
1 AATTATTTAAAA
6451087 AATTATTTAAAA
1 AATTATTTAAAA
6451099 AATTATT
1 AATTATT
6451106 AAATAGTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTATTTAAAA
Found at i:6452411 original size:64 final size:63
Alignment explanation
Indices: 6452310--6452437 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 63
6452300 GAATAAAAAA
*
6452310 ATATGTAACTTTAATTAATGTAAATGGATTTTTACCCTTTATAAAAAGCCAATATGTAAACTTT
1 ATATGTAACTTTAATTAATGTAAATAGATTTTTACCCTTTAT-AAAAGCCAATATGTAAACTTT
6452374 ATATGTAACTTTAATTAATGTAAATAGATTTTTACCCTTTATAAAAGCCAATATGTAAACTTT
1 ATATGTAACTTTAATTAATGTAAATAGATTTTTACCCTTTATAAAAGCCAATATGTAAACTTT
6452437 A
1 A
6452438 AGAACTTTTA
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
63 22 0.35
64 41 0.65
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.41
Consensus pattern (63 bp):
ATATGTAACTTTAATTAATGTAAATAGATTTTTACCCTTTATAAAAGCCAATATGTAAACTTT
Found at i:6453909 original size:2 final size:2
Alignment explanation
Indices: 6453884--6453923 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
6453874 TCTAACTTCA
* * *
6453884 AT AT AA AT AT AA AT AT AA 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 AT AT AT AT AT
6453924 TACATTAGTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:6455074 original size:23 final size:23
Alignment explanation
Indices: 6455024--6455067 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6455014 TTATGTGTTC
* *
6455024 ATTAAATTTTATGTAAATTAAAA
1 ATTAAAATTTAAGTAAATTAAAA
*
6455047 ATTAAAATTTAAGTTAATTAA
1 ATTAAAATTTAAGTAAATTAA
6455068 TATTTAATAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (23 bp):
ATTAAAATTTAAGTAAATTAAAA
Found at i:6456105 original size:22 final size:23
Alignment explanation
Indices: 6456070--6456112 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
6456060 CCATTCCAAA
*
6456070 TAACAAATATAAAATTAAAAATT
1 TAACAAATAGAAAATTAAAAATT
*
6456093 TAAC-AATAGAAAATTCAAAA
1 TAACAAATAGAAAATTAAAAA
6456113 GCCAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (23 bp):
TAACAAATAGAAAATTAAAAATT
Found at i:6456220 original size:22 final size:22
Alignment explanation
Indices: 6456195--6456237 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6456185 TATTTAAAAA
* *
6456195 AATTAGTAGTATAATAATAATT
1 AATTAATAGTAGAATAATAATT
*
6456217 AATTAATAGTAGAGTAATAAT
1 AATTAATAGTAGAATAATAAT
6456238 AATACTCCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (22 bp):
AATTAATAGTAGAATAATAATT
Found at i:6456541 original size:12 final size:12
Alignment explanation
Indices: 6456503--6456541 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
6456493 GATGAATTTA
6456503 ATTTAATTTGATT
1 ATTTAA-TTGATT
*
6456516 AATTAATTGATT
1 ATTTAATTGATT
*
6456528 ATTTAATTAATT
1 ATTTAATTGATT
6456540 AT
1 AT
6456542 AATAAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 18 0.78
13 5 0.22
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (12 bp):
ATTTAATTGATT
Found at i:6456640 original size:16 final size:16
Alignment explanation
Indices: 6456621--6456655 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6456611 AGTAAAATTT
*
6456621 TAATTGAAATATAATA
1 TAATTGAAATATAAAA
*
6456637 TAATTTAAATATAAAA
1 TAATTGAAATATAAAA
6456653 TAA
1 TAA
6456656 AAAATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (16 bp):
TAATTGAAATATAAAA
Found at i:6456801 original size:16 final size:17
Alignment explanation
Indices: 6456774--6456807 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6456764 AAAAAGTTAA
6456774 AATTTAAAATATAATTT
1 AATTTAAAATATAATTT
*
6456791 AATTT-AAATATATTTT
1 AATTTAAAATATAATTT
6456807 A
1 A
6456808 TTTTTGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTAAAATATAATTT
Found at i:6463187 original size:10 final size:10
Alignment explanation
Indices: 6463163--6463192 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
6463153 TATTTTATCA
6463163 ATTAAAATA-
1 ATTAAAATAT
6463172 ATTAAAATAT
1 ATTAAAATAT
6463182 ATTAAAATAT
1 ATTAAAATAT
6463192 A
1 A
6463193 AAAATTCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:6463559 original size:27 final size:26
Alignment explanation
Indices: 6463529--6463585 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
6463519 TTTAAATGTC
6463529 AATTTTAATAAAATTATATTAATATAA
1 AATTTTAATAAAATTATATTAAT-TAA
* * * *
6463556 AATTTTTATTAAATTTTTTTAATTAA
1 AATTTTAATAAAATTATATTAATTAA
6463582 AATT
1 AATT
6463586 ACAATAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
AATTTTAATAAAATTATATTAATTAA
Found at i:6463597 original size:24 final size:25
Alignment explanation
Indices: 6463567--6463622 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
6463557 ATTTTTATTA
*
6463567 AATTTTTTT-AATTAAAATTACAAT
1 AATTTTTTTCAATCAAAATTACAAT
* *
6463591 AATTTTTTTCAATCATAATTATAAT
1 AATTTTTTTCAATCAAAATTACAAT
*
6463616 AAATTTT
1 AATTTTT
6463623 ATTATTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (25 bp):
AATTTTTTTCAATCAAAATTACAAT
Found at i:6464141 original size:23 final size:22
Alignment explanation
Indices: 6464115--6464168 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
6464105 TTTAATGTAT
6464115 TAATTAATTAAT-TAATGATATAA
1 TAATTAATTAATATAA--ATATAA
*
6464138 TAATTGATT-ATATAAATATAA
1 TAATTAATTAATATAAATATAA
*
6464159 TATTTAATTA
1 TAATTAATTA
6464169 TGAGTGAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 13 0.50
22 2 0.08
23 11 0.42
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (22 bp):
TAATTAATTAATATAAATATAA
Found at i:6464757 original size:2 final size:2
Alignment explanation
Indices: 6464750--6464800 Score: 54
Period size: 2 Copynumber: 26.5 Consensus size: 2
6464740 ATCCGAATTC
* *
6464750 AT AT AT AT AT AT AT AT AA AT -T AT TT AT AT AT AT AT AT AT GA-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
6464791 AT -T AT AT AT A
1 AT AT AT AT AT A
6464801 AAACAATTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
1 3 0.07
2 37 0.90
3 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6464777 original size:19 final size:19
Alignment explanation
Indices: 6464755--6464800 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
6464745 AATTCATATA
* *
6464755 TATATATATATAAATTATT
1 TATATATATATAAATGAAT
*
6464774 TATATATATATATATGAAT
1 TATATATATATAAATGAAT
6464793 TATATATA
1 TATATATA
6464801 AAACAATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TATATATATATAAATGAAT
Found at i:6464777 original size:23 final size:23
Alignment explanation
Indices: 6464750--6464800 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
6464740 ATCCGAATTC
6464750 ATATATATATATATATAAATTAT
1 ATATATATATATATATAAATTAT
* *
6464773 TTATATATATATATATGAATTAT
1 ATATATATATATATATAAATTAT
6464796 ATATA
1 ATATA
6464801 AAACAATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
ATATATATATATATATAAATTAT
Found at i:6464950 original size:20 final size:21
Alignment explanation
Indices: 6464904--6464950 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
6464894 TTTTTGATTA
6464904 TATATATAAATTAAATATAATC
1 TATAT-TAAATTAAATATAATC
*
6464926 T-TATTAAATTAAATTTAAT-
1 TATATTAAATTAAATATAATC
6464945 TATATT
1 TATATT
6464951 TTTTAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 1 0.04
20 18 0.78
21 3 0.13
22 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTAAATTAAATATAATC
Found at i:6465087 original size:20 final size:20
Alignment explanation
Indices: 6465064--6465102 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6465054 TGAATTAAAC
6465064 TTAA-ATAAATATATAAATTA
1 TTAATATAAA-ATATAAATTA
*
6465084 TTAATATTAAATATAAATT
1 TTAATATAAAATATAAATT
6465103 CGATTTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAATATAAAATATAAATTA
Found at i:6471368 original size:6 final size:6
Alignment explanation
Indices: 6471353--6471469 Score: 99
Period size: 6 Copynumber: 19.5 Consensus size: 6
6471343 TGCTTTACGG
* * * * * *
6471353 ATATAC ATATAT ATATAT ATGTAT ATACAT ATACAT ATACAT ATACAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * *
6471401 ATGTAT ACATGT ATATAC ATATAT ATATGT ATATAT ATTTAT ATGTAA
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
*
6471449 ATATAC ATATAT ATATAT ATA
1 ATATAT ATATAT ATATAT ATA
6471470 AATGTACTTT
Statistics
Matches: 90, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 90 1.00
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (6 bp):
ATATAT
Found at i:6471372 original size:10 final size:10
Alignment explanation
Indices: 6471353--6471469 Score: 99
Period size: 10 Copynumber: 11.7 Consensus size: 10
6471343 TGCTTTACGG
*
6471353 ATATACATAT
1 ATATATATAT
6471363 ATATATATAT
1 ATATATATAT
* *
6471373 GTATATACAT
1 ATATATATAT
* *
6471383 ATACATATAC
1 ATATATATAT
*
6471393 ATATACATAT
1 ATATATATAT
* * *
6471403 GTATACATGT
1 ATATATATAT
*
6471413 ATATACATAT
1 ATATATATAT
*
6471423 ATATATGTAT
1 ATATATATAT
*
6471433 ATATATTTAT
1 ATATATATAT
* *
6471443 ATGTAAATAT
1 ATATATATAT
*
6471453 ACATATATAT
1 ATATATATAT
6471463 ATATATA
1 ATATATA
6471470 AATGTACTTT
Statistics
Matches: 83, Mismatches: 24, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
10 83 1.00
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (10 bp):
ATATATATAT
Found at i:6471583 original size:2 final size:2
Alignment explanation
Indices: 6471572--6471621 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
6471562 GGATATATGC
* * * * *
6471572 AT AT AC AT AT AT AT AT TT AT AT AT GT AT AT GT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6471614 AT AT AT AT
1 AT AT AT AT
6471622 GTGTGTGTGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6472126 original size:2 final size:2
Alignment explanation
Indices: 6472119--6472156 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
6472109 TGCAAAGGTT
*
6472119 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6472157 AACTTTTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:6472440 original size:2 final size:2
Alignment explanation
Indices: 6472433--6472459 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6472423 TGCAAAGGTT
6472433 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
6472460 TTTTTTTAAG
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:6472449 original size:314 final size:309
Alignment explanation
Indices: 6471827--6472459 Score: 929
Period size: 314 Copynumber: 2.0 Consensus size: 309
6471817 AGGCTTAACC
* * *
6471827 ATATATATATATATATAAACAACTTCTGAAGTAAAACCAAATAATCATACAAAGTCTTTTTTTTT
1 ATATATATATATATATAAACAACTTCTGAAGTAAAACCAAATAATCAAACAAAG-C-TTCTTTGT
* *
6471892 TATATTTTAATCAATTAAAATTTTTAAATATTTATTTTTAATTAATTTAGTTTTTATTGGATGAA
64 TATATTTCAATCAATTAAAATTTTTAAATATTTATTTTTAATTAATTTAGCTTTTATTGGATGAA
* *
6471957 AATTAGTTAAATTTTATCATTAATTTTTGTTCAATTGATGGTTAATAGGACGAAAATAGATGTTT
129 AATTAGTTAAATTTTATCATTAATTTTCGTTCAATTGATGGTTAATAGGACGAAAATAAATGTTT
*
6472022 AAAATTTTAATTAAATGAAAATAAATGTTTGAGAATCAAATTGATTATAATAAAAAAATTTAGAT
194 AAAATTTTAATTAAATGAAAATAAATGTTTGAAAATCAAATTGATTATAATAAAAAAATTTAGAT
6472087 GATTATTTAATTTTGTTTCAAATGCAAAGGTTTATATATATATATATATAT
259 GATTATTTAATTTTGTTTCAAATGCAAAGGTTTATATATATATATATATAT
* * * *
6472138 ATATATATATTTATATATA-AACTTTTGAAGTAAAACCAAATAATCAAATAAA-C-TCTTTGTT-
1 ATATATATATATATATAAACAACTTCTGAAGTAAAACCAAATAATCAAACAAAGCTTCTTTGTTA
6472199 T-TTTCAATCAATT-AAATTTTTAAATATTTATTTTTAATTAATTTAGCTTTTATTGGATGAAAA
66 TATTTCAATCAATTAAAATTTTTAAATATTTATTTTTAATTAATTTAGCTTTTATTGGATGAAAA
* * *
6472262 TTAGTTAAATTTTATCATTAATTTTCGTTCAATTGATGATTTATTA-GATGAAAATAAATGTTTA
131 TTAGTTAAATTTTATCATTAATTTTCGTTCAATTGATG-GTTAATAGGACGAAAATAAATGTTTA
* * *
6472326 AGAGATGTTTAACAGTTTAATTAAATGAAAATAAATGTTTGAAAATTAAGTTGATTGTAATAAAA
195 A-A-A----T-----TTTAATTAAATGAAAATAAATGTTTGAAAATCAAATTGATTATAATAAAA
6472391 AAATTTAGATGATTATTTAATTTTGTTTCAAATGCAAAGGTTTATATATATATATATATAT
249 AAATTTAGATGATTATTTAATTTTGTTTCAAATGCAAAGGTTTATATATATATATATATAT
6472452 ATATATAT
1 ATATATAT
6472460 TTTTTTTAAG
Statistics
Matches: 292, Mismatches: 18, Indels: 21
0.88 0.05 0.06
Matches are distributed among these distances:
303 103 0.35
304 17 0.06
305 2 0.01
306 6 0.02
308 1 0.00
309 1 0.00
310 30 0.10
311 17 0.06
314 115 0.39
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.45
Consensus pattern (309 bp):
ATATATATATATATATAAACAACTTCTGAAGTAAAACCAAATAATCAAACAAAGCTTCTTTGTTA
TATTTCAATCAATTAAAATTTTTAAATATTTATTTTTAATTAATTTAGCTTTTATTGGATGAAAA
TTAGTTAAATTTTATCATTAATTTTCGTTCAATTGATGGTTAATAGGACGAAAATAAATGTTTAA
AATTTTAATTAAATGAAAATAAATGTTTGAAAATCAAATTGATTATAATAAAAAAATTTAGATGA
TTATTTAATTTTGTTTCAAATGCAAAGGTTTATATATATATATATATAT
Found at i:6472610 original size:11 final size:10
Alignment explanation
Indices: 6472590--6472700 Score: 60
Period size: 11 Copynumber: 11.5 Consensus size: 10
6472580 TTGAATATTC
6472590 AATT-ATTAT
1 AATTAATTAT
6472599 AACTTAATTAT
1 AA-TTAATTAT
*
6472610 AATTTAATAATT
1 AA-TTAATTA-T
6472622 AATTAATTAT
1 AATTAATTAT
6472632 --TT-A-TAT
1 AATTAATTAT
* *
6472638 AAAT-ATAAT
1 AATTAATTAT
6472647 AATTAATTAT
1 AATTAATTAT
*
6472657 AATT-ATAAT
1 AATTAATTAT
*
6472666 ATTTTAATT-T
1 A-ATTAATTAT
*
6472676 AATGAA-TAT
1 AATTAATTAT
6472685 AATTAGATTAT
1 AATTA-ATTAT
6472696 AATTA
1 AATTA
6472701 TAACATTAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 22
0.69 0.12 0.20
Matches are distributed among these distances:
6 3 0.04
7 1 0.01
8 5 0.06
9 20 0.26
10 16 0.21
11 29 0.38
12 3 0.04
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.49
Consensus pattern (10 bp):
AATTAATTAT
Found at i:6472678 original size:25 final size:24
Alignment explanation
Indices: 6472597--6472667 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
6472587 TTCAATTATT
6472597 ATAACTTAATTATAATT-TAATA-A
1 ATAA-TTAATTATAATTATAATATA
* *
6472620 TTAATTAATTAT-TTATATAAATATA
1 ATAATTAATTATAAT-TAT-AATATA
6472645 ATAATTAATTATAATTATAATAT
1 ATAATTAATTATAATTATAATAT
6472668 TTTAATTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
21 1 0.03
22 9 0.23
23 4 0.10
24 9 0.23
25 15 0.38
26 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (24 bp):
ATAATTAATTATAATTATAATATA
Found at i:6474878 original size:27 final size:26
Alignment explanation
Indices: 6474848--6474900 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 26
6474838 TTTTTATTAT
6474848 TTACTTAATTTTATATTTATATATTTA
1 TTACTTAATTTTATATTTATAT-TTTA
6474875 TTACTTAATTTTATATTTATATTTTA
1 TTACTTAATTTTATATTTATATTTTA
6474901 AAAAGTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (26 bp):
TTACTTAATTTTATATTTATATTTTA
Found at i:6474901 original size:19 final size:20
Alignment explanation
Indices: 6474855--6474901 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
6474845 TATTTACTTA
6474855 ATTTTATATTTATATATTTAT
1 ATTTTA-ATTTATATATTTAT
*
6474876 -TACTTAATTT-TATATTTAT
1 AT-TTTAATTTATATATTTAT
6474895 ATTTTAA
1 ATTTTAA
6474902 AAAGTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
19 13 0.59
20 6 0.27
21 3 0.14
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTTAATTTATATATTTAT
Found at i:6474910 original size:25 final size:27
Alignment explanation
Indices: 6474853--6474913 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
6474843 ATTATTTACT
** **
6474853 TAATTTTATATTTATATATTTATTACT
1 TAATTTTATATTTATATATTTAAAAAG
6474880 TAATTTTATATTTATAT-TTTAAAAAG
1 TAATTTTATATTTATATATTTAAAAAG
6474906 T-ATTTTAT
1 TAATTTTAT
6474914 TAATTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 7 0.23
26 6 0.20
27 17 0.57
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (27 bp):
TAATTTTATATTTATATATTTAAAAAG
Found at i:6475014 original size:26 final size:27
Alignment explanation
Indices: 6474982--6475032 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
6474972 ATTAAAAAAT
*
6474982 AATATTT-TAATATCAAATCAAATTTA
1 AATATTTATAATATAAAATCAAATTTA
* *
6475008 AATATTTATTATATAAAATTAAATT
1 AATATTTATAATATAAAATCAAATT
6475033 GAATTCGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.33
27 14 0.67
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (27 bp):
AATATTTATAATATAAAATCAAATTTA
Found at i:6482179 original size:19 final size:19
Alignment explanation
Indices: 6482133--6482182 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
6482123 AAAAAAATTT
6482133 AAAT-AATAATTATACATC
1 AAATAAATAATTATACATC
* * *
6482151 AAATATATAATTATATATT
1 AAATAAATAATTATACATC
*
6482170 ATATAAATAATTA
1 AAATAAATAATTA
6482183 AACTTAATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATAAATAATTATACATC
Found at i:6482610 original size:23 final size:21
Alignment explanation
Indices: 6482556--6482611 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
6482546 TTTTAATTTA
* *
6482556 TTTAATATTAAATTTTATTTT
1 TTTAATATAAAATTTTATATT
*
6482577 TTATAAAATAAAAGTTTTATGATT
1 TT-TAATATAAAA-TTTTAT-ATT
6482601 TTTAATATAAA
1 TTTAATATAAA
6482612 TATGGAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 2 0.07
22 8 0.29
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (21 bp):
TTTAATATAAAATTTTATATT
Found at i:6485392 original size:116 final size:117
Alignment explanation
Indices: 6485177--6485412 Score: 375
Period size: 116 Copynumber: 2.0 Consensus size: 117
6485167 GGTAGTTGAA
* ** *
6485177 AGATAATTCTCTATCCCTTCTTTTTTGCATTCACTTTTTTTCACTTCTTGGTTCTGAAGGATAAT
1 AGATAATTCTCTATCCCTTCTTGTTCCCATTCACTTTTTTGCACTTCTTGGTTCTGAAGGATAAT
* *
6485242 TTCCCTTTTGTAAACTGCTTTTACTCTGAACTATACAAACTATGCACAT-AT
66 TTCCCTTTTGTAAACTGCTTTTAATCAGAACTATACAAACTATGCACATAAT
* *
6485293 AGATAATTCTGTATCCCTTCTTGTTCCCATTCACTTTTTTGCACTTCTTGGTTCTGAAGGATGAT
1 AGATAATTCTCTATCCCTTCTTGTTCCCATTCACTTTTTTGCACTTCTTGGTTCTGAAGGATAAT
* *
6485358 TTCCCTTTTGTAAACTGCTTTTAATGAGAGCTATACAAACTATGCACATAAT
66 TTCCCTTTTGTAAACTGCTTTTAATCAGAACTATACAAACTATGCACATAAT
6485410 AGA
1 AGA
6485413 AATGACATAT
Statistics
Matches: 109, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
116 104 0.95
117 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (117 bp):
AGATAATTCTCTATCCCTTCTTGTTCCCATTCACTTTTTTGCACTTCTTGGTTCTGAAGGATAAT
TTCCCTTTTGTAAACTGCTTTTAATCAGAACTATACAAACTATGCACATAAT
Found at i:6487301 original size:288 final size:288
Alignment explanation
Indices: 6486785--6487364 Score: 1160
Period size: 288 Copynumber: 2.0 Consensus size: 288
6486775 AGTAAATGAC
6486785 TGGGAAAATTTCCTGAAATATTCAAGAAACAATTTATTACTCTAAAAGCCAGGACATTTGTTTAT
1 TGGGAAAATTTCCTGAAATATTCAAGAAACAATTTATTACTCTAAAAGCCAGGACATTTGTTTAT
6486850 AAGATTATCAGGCTTGGTTTAGTTCATTGTGATTAATTTGCAGTTTATGCTCCAAATTTTTCTCA
66 AAGATTATCAGGCTTGGTTTAGTTCATTGTGATTAATTTGCAGTTTATGCTCCAAATTTTTCTCA
6486915 AATACAAAAGGTTATGCAGCTGTTGTAGGCAAATTAAAAATCTTGGAAAAACTACAGCATTCTAT
131 AATACAAAAGGTTATGCAGCTGTTGTAGGCAAATTAAAAATCTTGGAAAAACTACAGCATTCTAT
6486980 GCCAAATACATCCTTGATTCTTTCTCAGAACAAACTAGTGTTTTCTTTAGAAAGTGGATGAACAC
196 GCCAAATACATCCTTGATTCTTTCTCAGAACAAACTAGTGTTTTCTTTAGAAAGTGGATGAACAC
6487045 ACAAACCTTGTTAAGGAAAAGTGTAATT
261 ACAAACCTTGTTAAGGAAAAGTGTAATT
6487073 TGGGAAAATTTCCTGAAATATTCAAGAAACAATTTATTACTCTAAAAGCCAGGACATTTGTTTAT
1 TGGGAAAATTTCCTGAAATATTCAAGAAACAATTTATTACTCTAAAAGCCAGGACATTTGTTTAT
6487138 AAGATTATCAGGCTTGGTTTAGTTCATTGTGATTAATTTGCAGTTTATGCTCCAAATTTTTCTCA
66 AAGATTATCAGGCTTGGTTTAGTTCATTGTGATTAATTTGCAGTTTATGCTCCAAATTTTTCTCA
6487203 AATACAAAAGGTTATGCAGCTGTTGTAGGCAAATTAAAAATCTTGGAAAAACTACAGCATTCTAT
131 AATACAAAAGGTTATGCAGCTGTTGTAGGCAAATTAAAAATCTTGGAAAAACTACAGCATTCTAT
6487268 GCCAAATACATCCTTGATTCTTTCTCAGAACAAACTAGTGTTTTCTTTAGAAAGTGGATGAACAC
196 GCCAAATACATCCTTGATTCTTTCTCAGAACAAACTAGTGTTTTCTTTAGAAAGTGGATGAACAC
6487333 ACAAACCTTGTTAAGGAAAAGTGTAATT
261 ACAAACCTTGTTAAGGAAAAGTGTAATT
6487361 TGGG
1 TGGG
6487365 TATGGACTTT
Statistics
Matches: 292, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
288 292 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (288 bp):
TGGGAAAATTTCCTGAAATATTCAAGAAACAATTTATTACTCTAAAAGCCAGGACATTTGTTTAT
AAGATTATCAGGCTTGGTTTAGTTCATTGTGATTAATTTGCAGTTTATGCTCCAAATTTTTCTCA
AATACAAAAGGTTATGCAGCTGTTGTAGGCAAATTAAAAATCTTGGAAAAACTACAGCATTCTAT
GCCAAATACATCCTTGATTCTTTCTCAGAACAAACTAGTGTTTTCTTTAGAAAGTGGATGAACAC
ACAAACCTTGTTAAGGAAAAGTGTAATT
Done.