Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 32 of 77
Found at i:6480424 original size:9 final size:9
Alignment explanation
Indices: 6480410--6480439 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
6480400 TATACTGAAA
6480410 ATATAAAAT
1 ATATAAAAT
6480419 ATATAAAAT
1 ATATAAAAT
6480428 ATAT-AAAT
1 ATATAAAAT
6480436 ATAT
1 ATAT
6480440 TAATTATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
ATATAAAAT
Found at i:6484484 original size:20 final size:21
Alignment explanation
Indices: 6484459--6484527 Score: 74
Period size: 20 Copynumber: 3.4 Consensus size: 21
6484449 TTTAGTTTAG
6484459 AATTTTTTAT-TTATAATAAT
1 AATTTTTTATATTATAATAAT
*
6484479 AA-TTTTTATATTATCAAT-TT
1 AATTTTTTATATTAT-AATAAT
* *
6484499 AATTATTTATGTTATAATAA-
1 AATTTTTTATATTATAATAAT
6484519 AATTTTTTA
1 AATTTTTTA
6484528 CAATTGTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
19 7 0.17
20 20 0.50
21 13 0.32
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (21 bp):
AATTTTTTATATTATAATAAT
Found at i:6484662 original size:19 final size:18
Alignment explanation
Indices: 6484640--6484701 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 18
6484630 TATTTTCACA
6484640 TTTTTACTTTAACACTTAT
1 TTTTTACTTTAA-ACTTAT
* *
6484659 TTTTTAGTTTAAAATTAT
1 TTTTTACTTTAAACTTAT
* * *
6484677 TTGTTATTTATAATACTAAT
1 TTTTTACTT-TAA-ACTTAT
6484697 TTTTT
1 TTTTT
6484702 TACGTTACAA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
18 12 0.35
19 14 0.41
20 8 0.24
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTTACTTTAAACTTAT
Found at i:6484676 original size:18 final size:19
Alignment explanation
Indices: 6484640--6484678 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6484630 TATTTTCACA
*
6484640 TTTTTACTTTAACACTTAT
1 TTTTTACTTTAACAATTAT
*
6484659 TTTTTAGTTTAA-AATTAT
1 TTTTTACTTTAACAATTAT
6484677 TT
1 TT
6484679 GTTATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTTACTTTAACAATTAT
Found at i:6485033 original size:216 final size:210
Alignment explanation
Indices: 6484398--6485133 Score: 560
Period size: 216 Copynumber: 3.4 Consensus size: 210
6484388 GTTTGACATT
* * * * * *
6484398 AAATTATATCAATTTTACGATTATTCTTATCTTTTATGTTAACACTTATTTTTTAGTTTAGAA-T
1 AAATAATATTAATTTTATGATTATTCTCAT-TTTTACGTTAACACTTATTTTTTAGTTTAAAATT
* * *
6484462 -TTTTTATTTATAATAATA-ATTTTTATATTATCAAT-TTAATTATTTATGTTATAATAAAAT-T
65 ATTTTTATTTATAATAATATTTTTTTACATTA-CAATCTTAA-TA-TTATGTTATAATAATATCT
* * * ** *
6484523 TTTTACAATTGTTTTAACCTTTTATTATGTTCAAAATCATCAT-AACTTTTTCTTAAGTATTCCA
127 TTTTACAATTGTTGTAA-CTTTTATTATGTTTAAAATTATCATAAACTTTTT-AAAAGTATTACA
** * * **
6484587 ACACTCAAAAATATTTTACACC
190 ACTTTC-TAAACATTTTACGTC
* * * * * *
6484609 AAATTATACTAATTTTGTTATTATTTTCACATTTTTACTTTAACACTTATTTTTTAGTTTAAAAT
1 AAATAATATTAATTTTATGATTA--TTCTCATTTTTACGTTAACACTTATTTTTTAGTTTAAAAT
* * * *
6484674 TATTTGTTATTTATAATACTAATTTTTTTACGTTACAAAC-T--TATTATGTTTTAATAATATCT
64 TATTT-TTATTTATAATAAT-ATTTTTTTACATTACAATCTTAATATTATGTTATAATAATATCT
*** ** * ** * *
6484736 TTTTATGTTTGTTGTAACTTTTCATTATACTTAAAATTATTATAATTTTTGTTAAGATGTAATGA
127 TTTTACAATTGTTGTAACTTTT-ATTATGTTTAAAATTATCATAAACTTT-TTAA-AAGT-ATTA
* *
6484801 -TA-TTTCTAATCATTTTACGTC
188 CAACTTTCTAAACATTTTACGTC
* *
6484822 AAATAATATTAATTTTATGATTATTCTCATTGTTTTACGTTAACTCTTATTTTTT-GATTAAAAT
1 AAATAATATTAATTTTATGATTATTCTCA-T-TTTTACGTTAACACTTATTTTTTAGTTTAAAAT
* *
6484886 TATTTTTATTTATAATAATATTTTTTTTACATTACCATCTTAATCACTTACGTTATAATAATATC
64 TATTTTTATTTATAATAATA-TTTTTTTACATTACAATCTTAAT-A-TTATGTTATAATAATATC
* * *
6484951 TTTTTACACTTGTTGCTATCTTTTATTATGTTTAGAATTATCATAAACTTTTTAAAAGTATTACA
126 TTTTTACAATTGTTG-TAACTTTTATTATGTTTAAAATTATCATAAACTTTTTAAAAGTATTACA
*
6485016 ACGTTTCTAACCATTTTACGTC
190 AC-TTTCTAAACATTTTACGTC
** * ** * ** * **
6485038 AAATAATAACAATTTCACAATTAATCTCACCTTTTTTATATTAACACTTATTTTTTTGTTTGGAA
1 AAATAATATTAATTTTATGATTATTCTCA---TTTTTACGTTAACACTTATTTTTTAGTTTAAAA
* *
6485103 TTATTATTTACTTCTAATAATTAATTTTTTT
63 TTATT-TTTATTTATAATAA-T-ATTTTTTT
6485134 GCGTGCCAAA
Statistics
Matches: 410, Mismatches: 83, Indels: 55
0.75 0.15 0.10
Matches are distributed among these distances:
210 1 0.00
211 51 0.12
212 64 0.16
213 90 0.22
214 14 0.03
215 24 0.06
216 97 0.24
217 36 0.09
218 12 0.03
219 12 0.03
220 8 0.02
221 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.52
Consensus pattern (210 bp):
AAATAATATTAATTTTATGATTATTCTCATTTTTACGTTAACACTTATTTTTTAGTTTAAAATTA
TTTTTATTTATAATAATATTTTTTTACATTACAATCTTAATATTATGTTATAATAATATCTTTTT
ACAATTGTTGTAACTTTTATTATGTTTAAAATTATCATAAACTTTTTAAAAGTATTACAACTTTC
TAAACATTTTACGTC
Found at i:6485567 original size:217 final size:219
Alignment explanation
Indices: 6485303--6485870 Score: 592
Period size: 217 Copynumber: 2.6 Consensus size: 219
6485293 TTATGTTATG
* * * * * * *
6485303 ACACTTTTAATATACTTTATGTCAAATGATTTCACTTTTATAATTATTTTCA-TATTTTTACATT
1 ACACTTCTAATATATTTTATGTCAAATGATATCAATTTTACAATTATTCTCACTATTTTTATATT
*
6485367 AACATTTATTTTTTTGTTTAGAATTA-TTTTTATTTATGATAATAATTTTTTTATATTGTCAATT
66 AACATTTATTTTTTTGTTTAGAATTATTTTTTATTTATAATAATAATTTTTTTATATTGTCAA-T
* * *
6485431 TAATTATTTACATTATAATAAAATC-TTTTGCATTTGTT-TTTACCTTTT-ATTATATTTATAAT
130 TAATTATTTACATTATAATAAAATCTTTTTCCATTTGTTGTTT--CTTTTCATTACATTTAAAAT
**
6485493 TATTATAATT-TTTCTTAAAGTATTGTA
193 TATTATAATTATTT-TTAAAGTATAATA
* * *
6485520 ACACTTCTAATATATTTTACGTCAAATGATACCAATTTTACAATTATTCTCACT-TTTTTATTTT
1 ACACTTCTAATATATTTTATGTCAAATGATATCAATTTTACAATTATTCTCACTATTTTTATATT
* * * * *
6485584 AACATTTA-CTTTTGGTTTAGAATTATTTTTTATTTATAATACTAATTTTTTTACATTATCAA-T
66 AACATTTATTTTTTTGTTTAGAATTATTTTTTATTTATAATAATAATTTTTTTATATTGTCAATT
* * * *
6485647 --TTA-TTACATTTTAATAATATCTTTTTCCGTTTGTTGTTTCTTTTCATTACGTTTAAAATTAT
131 AATTATTTACATTATAATAAAATCTTTTTCCATTTGTTGTTTCTTTTCATTACATTTAAAATTAT
* * *
6485709 TATAATTATTTTTAAGGTGTAATG
196 TATAATTATTTTTAAAGTATAATA
* * * * * * *
6485733 ATACTTCTAA-CTATTTTATATTAAATAATATCAATTTTACGATTATTCTCACTA-TTTTATGTT
1 ACACTTCTAATATATTTTATGTCAAATGATATCAATTTTACAATTATTCTCACTATTTTTATATT
* ** * * *
6485796 AAC-TCTCATTTGCTTATTTAAAATTATTTTTTATTTGTAATAATAATTTTTTTATATTG-CTAA
66 AACAT-TTATTTTTTTGTTTAGAATTATTTTTTATTTATAATAATAATTTTTTTATATTGTC-AA
6485859 CTTAATTATTTA
129 -TTAATTATTTA
6485871 TGTTACAATA
Statistics
Matches: 288, Mismatches: 48, Indels: 29
0.79 0.13 0.08
Matches are distributed among these distances:
211 1 0.00
212 71 0.25
213 94 0.33
214 6 0.02
215 2 0.01
216 15 0.05
217 95 0.33
218 4 0.01
ACGTcount: A:0.31, C:0.09, G:0.05, T:0.55
Consensus pattern (219 bp):
ACACTTCTAATATATTTTATGTCAAATGATATCAATTTTACAATTATTCTCACTATTTTTATATT
AACATTTATTTTTTTGTTTAGAATTATTTTTTATTTATAATAATAATTTTTTTATATTGTCAATT
AATTATTTACATTATAATAAAATCTTTTTCCATTTGTTGTTTCTTTTCATTACATTTAAAATTAT
TATAATTATTTTTAAAGTATAATA
Found at i:6485784 original size:212 final size:214
Alignment explanation
Indices: 6485338--6485849 Score: 522
Period size: 213 Copynumber: 2.4 Consensus size: 214
6485328 ATGATTTCAC
* * ** *
6485338 TTTTATAATTATTTTCA-TATTTTTACATTAACATTTATTTTTTTGTTTAGAATTA-TTTTTATT
1 TTTTACAATTATTCTCACTA-TTTTATGTTAACATTTA-CTTTTTGTTTAGAATTATTTTTTATT
* * * *
6485401 TATGATAATAATTTTTTTATATTGTCAATTTAATTATTTACATTATAATAAAATCTTTTGCATTT
64 TATAATAATAATTTTTTTACATTATCAA-TT-ATTATTTACATTATAATAAAATCTTTTCCATTT
* * **
6485466 GTTTTTACCTTTTATTATATTTATAATTATTATAATTTTTCTTAAAGTATTGTAACACTTCTAAT
127 GTTTTTA-CTTTTATTACATTTAAAATTATTATAATTTTTCTTAAAGTATAATAACACTTCTAAT
* *
6485531 ATATTTTACGTCAAATGATACCAA
191 ATATTTTACATCAAATAATACCAA
* * *
6485555 TTTTACAATTATTCTCACTTTTTTATTTTAACATTTACTTTTGGTTTAGAATTATTTTTTATTTA
1 TTTTACAATTATTCTCACTATTTTATGTTAACATTTACTTTTTGTTTAGAATTATTTTTTATTTA
* * * *
6485620 TAATACTAATTTTTTTACATTATCAA-T-TTA-TTACATTTTAATAATATCTTTTTCCGTTTGTT
66 TAATAATAATTTTTTTACATTATCAATTATTATTTACATTATAATAAAATC-TTTTCCATTTGTT
* * * * * *
6485682 GTTT-CTTTTCATTACGTTTAAAATTATTATAATTATTT-TTAAGGTGTAATGATACTTCTAA-C
130 -TTTACTTTT-ATTACATTTAAAATTATTATAATT-TTTCTTAAAGTATAATAACACTTCTAATA
* * *
6485744 TATTTTATATTAAATAATATCAA
192 TATTTTACATCAAATAATACCAA
* * * *
6485767 TTTTACGATTATTCTCACTATTTTATGTTAAC-TCT-CATTTGCTTATTTAAAATTATTTTTTAT
1 TTTTACAATTATTCTCACTATTTTATGTTAACATTTAC-TTT--TTGTTTAGAATTATTTTTTAT
*
6485830 TTGTAATAATAATTTTTTTA
63 TTATAATAATAATTTTTTTA
6485850 TATTGCTAAC
Statistics
Matches: 247, Mismatches: 39, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
210 1 0.00
211 5 0.02
212 68 0.28
213 88 0.36
214 6 0.02
215 1 0.00
216 15 0.06
217 62 0.25
218 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.05, T:0.56
Consensus pattern (214 bp):
TTTTACAATTATTCTCACTATTTTATGTTAACATTTACTTTTTGTTTAGAATTATTTTTTATTTA
TAATAATAATTTTTTTACATTATCAATTATTATTTACATTATAATAAAATCTTTTCCATTTGTTT
TTACTTTTATTACATTTAAAATTATTATAATTTTTCTTAAAGTATAATAACACTTCTAATATATT
TTACATCAAATAATACCAA
Found at i:6490005 original size:17 final size:17
Alignment explanation
Indices: 6489983--6490020 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
6489973 GATGGATATG
6489983 TAATTATAT-ATATAACT
1 TAATTATATAATATAA-T
6490000 TAATTATATAATATAAT
1 TAATTATATAATATAAT
6490017 TAAT
1 TAAT
6490021 AAATTTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATTATATAATATAAT
Found at i:6491131 original size:2 final size:2
Alignment explanation
Indices: 6491126--6491175 Score: 52
Period size: 2 Copynumber: 26.0 Consensus size: 2
6491116 ATCATTAATC
* *
6491126 AT AT AT AA AT AT AT A- AA AT CAT -T AT AT -T 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 AT
6491166 AT AT AT AT AT
1 AT AT AT AT AT
6491176 TTGTACATGA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
1 3 0.07
2 36 0.88
3 2 0.05
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:6491145 original size:20 final size:22
Alignment explanation
Indices: 6491122--6491162 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6491112 ATATATCATT
6491122 AATCA-TATA-TAAATATATAA
1 AATCATTATATTAAATATATAA
*
6491142 AATCATTATATTATATATATA
1 AATCATTATATTAAATATATA
6491163 TATATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 4 0.22
22 9 0.50
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AATCATTATATTAAATATATAA
Found at i:6491160 original size:28 final size:27
Alignment explanation
Indices: 6491116--6491168 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
6491106 ATCATAATAT
6491116 ATCATTAATCATATATAAATATATAAA
1 ATCATTAATCATATATAAATATATAAA
* *
6491143 ATCATTATATTATATATATATATATA
1 ATCATTA-ATCATATATAAATATATA
6491169 TATATATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (27 bp):
ATCATTAATCATATATAAATATATAAA
Found at i:6492727 original size:20 final size:21
Alignment explanation
Indices: 6492693--6492741 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
6492683 AAATTATTTG
* *
6492693 AATAAATTAAATAAT-AAAAT
1 AATAATTTCAATAATAAAAAT
*
6492713 AATTATTTCAATAATAAAAAT
1 AATAATTTCAATAATAAAAAT
6492734 AATAATTT
1 AATAATTT
6492742 TTGTATACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AATAATTTCAATAATAAAAAT
Found at i:6492733 original size:29 final size:28
Alignment explanation
Indices: 6492667--6492738 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
6492657 ATTATTTAAA
*
6492667 AATAATATAAA-AAT-AAAAATTATTTG
1 AATAATATAAATAATAAAAAATTATTTC
6492693 AATAA-ATTAAATAATAAAATAATTATTTC
1 AATAATA-TAAATAATAAAA-AATTATTTC
*
6492722 AATAATAAAAATAATAA
1 AATAATATAAATAATAA
6492739 TTTTTGTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
25 1 0.03
26 9 0.23
27 3 0.08
28 3 0.08
29 22 0.56
30 1 0.03
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (28 bp):
AATAATATAAATAATAAAAAATTATTTC
Found at i:6492734 original size:21 final size:20
Alignment explanation
Indices: 6492702--6492741 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
6492692 GAATAAATTA
*
6492702 AATAATAAAATAATTATTTC
1 AATAATAAAATAATAATTTC
6492722 AATAATAAAAATAATAATTT
1 AATAAT-AAAATAATAATTT
6492742 TTGTATACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AATAATAAAATAATAATTTC
Found at i:6493817 original size:16 final size:16
Alignment explanation
Indices: 6493793--6493832 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
6493783 AATATGAGAC
6493793 AATTGAAATTTAAAAT
1 AATTGAAATTTAAAAT
*
6493809 AATTTAAATTTAAAAT
1 AATTGAAATTTAAAAT
6493825 ATATTGAA
1 A-ATTGAA
6493833 TCAAACCAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (16 bp):
AATTGAAATTTAAAAT
Found at i:6494028 original size:16 final size:16
Alignment explanation
Indices: 6494009--6494042 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6493999 ATCTAAATAT
*
6494009 AAAATAACCTAAACTC
1 AAAATAACATAAACTC
*
6494025 AAAATGACATAAACTC
1 AAAATAACATAAACTC
6494041 AA
1 AA
6494043 TGACTTGAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.21, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAATAACATAAACTC
Found at i:6494815 original size:15 final size:15
Alignment explanation
Indices: 6494795--6494825 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6494785 AAAATAATCG
*
6494795 TAATTTAATTTTAAA
1 TAATTTAATTTAAAA
6494810 TAATTTAATTTAAAA
1 TAATTTAATTTAAAA
6494825 T
1 T
6494826 TAATCAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATTTAATTTAAAA
Found at i:6496222 original size:19 final size:19
Alignment explanation
Indices: 6496176--6496223 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
6496166 TTTTTTTTTG
*
6496176 TTTTTAAAATGATTTTGAA
1 TTTTTAAAAAGATTTTGAA
**
6496195 TTTAAAAAAAGAATTTT-AA
1 TTTTTAAAAAG-ATTTTGAA
6496214 TTTTTAAAAA
1 TTTTTAAAAA
6496224 AGTATTTTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (19 bp):
TTTTTAAAAAGATTTTGAA
Found at i:6497223 original size:22 final size:22
Alignment explanation
Indices: 6497195--6497252 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
6497185 AAGGTACATT
*
6497195 AAAAATATGTACTTAATACTTA
1 AAAAATATGTACATAATACTTA
* *
6497217 AAAAATATTTACATAATTCTTA
1 AAAAATATGTACATAATACTTA
* * *
6497239 TAAGATATATACAT
1 AAAAATATGTACAT
6497253 TTAGGTATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (22 bp):
AAAAATATGTACATAATACTTA
Found at i:6497452 original size:22 final size:22
Alignment explanation
Indices: 6497427--6497469 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6497417 CTTTGTATAT
*
6497427 AATACTTATAGAATATGTACAA
1 AATACTTATAAAATATGTACAA
*
6497449 AATATTTATAAAATATGTACA
1 AATACTTATAAAATATGTACA
6497470 TCTATGTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (22 bp):
AATACTTATAAAATATGTACAA
Found at i:6497534 original size:18 final size:18
Alignment explanation
Indices: 6497499--6497534 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6497489 ATGTATACTG
*
6497499 AAAATATAAAAATTTTAA
1 AAAATATAAAAATATTAA
*
6497517 AAAATATAAATATATTAA
1 AAAATATAAAAATATTAA
6497535 TTATTCTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATATAAAAATATTAA
Found at i:6499854 original size:20 final size:20
Alignment explanation
Indices: 6499811--6499854 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
6499801 TAAAATCAGG
**
6499811 TTATGAAATATCATAATATT
1 TTATGAAATATCATAATAAA
* *
6499831 TTATGATATATCATGATAAA
1 TTATGAAATATCATAATAAA
6499851 TTAT
1 TTAT
6499855 ATAAAAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (20 bp):
TTATGAAATATCATAATAAA
Found at i:6500494 original size:214 final size:212
Alignment explanation
Indices: 6500273--6501154 Score: 540
Period size: 214 Copynumber: 4.1 Consensus size: 212
6500263 TTCCTTTTTA
* *
6500273 TTTAGAATTATTATAACTTTTTCTTAAGATGTTACTATAGCTCTAGTCTATTTTA-GAT-AAATG
1 TTTAGAATTATCATAACTTTTTCTTAAGA-GTTACAATAGCTCTA-TCTATTTTACG-TCAAATG
6500336 ATATCAATTTTACGATTATTCTCATTTTTTACATTAACACTTATTTTTTATTTAGAATTACTTTT
63 ATATCAATTTTACGATTATTCTCATTTTTTACATTAACACTTATTTTTTATTTAGAATTA-TTTT
* * * *
6500401 TATTTATAATAATAATTTTTATGTTATCAATTTAATTATTTACGTTATAATAATA-TGTTTTTAC
127 TATTTATAATAATAATTTTTATATTATCAACTTAATTATTTACATTA-AAAAATATTGTTTTTAC
* *
6500465 ACCTATTCTTATCTTTTCTTACG
191 ACCTATTCTTA-CATTTCATACG
* * * * *
6500488 -TTAGAATTATCATGACTTTTT-TTAAGGAGTGACAACA-CT-TATAATACACTTTTATGTCAAA
1 TTTAGAATTATCATAACTTTTTCTTAA-GAGTTACAATAGCTCTAT-CT--A-TTTTACGTCAAA
** *
6500549 TGATAT-ATATTTTATAATTATTCTCATTTTTTTACA-T-ATACTTATTTTTTGA-TT-GAATTA
61 TGATATCA-ATTTTACGATTATTCTCA-TTTTTTACATTAACACTTATTTTTT-ATTTAGAATTA
* * *
6500609 TTTTTTATTTATAATAATAATTTTTTATATTGTTAACTTAATTATTTACATTAAAAAATATTTTT
123 -TTTTTATTTATAATAATAA-TTTTTATATTATCAACTTAATTATTTACATTAAAAAATATTGTT
** * *
6500674 TTTATGCTTGTTCTTACATTTCATACG
186 TTTACACCTATTCTTACATTTCATACG
* * * * *
6500701 TTTAGAATTATCATAACTCTTTCTTATGAAGTTACGATAGTTCTAACTTATTTTACGTCAAATGA
1 TTTAGAATTATCATAACTTTTTCTTAAG-AGTTACAATAGCTCTATC-TATTTTACGTCAAATGA
* * * * * *
6500766 TA-CTAATTTTACGACTATTATCACTTTTTA-ATGTTAACACTT-TTTTTTGTTCAAAATTATTT
64 TATC-AATTTTACGATTATTCTCATTTTTTACA--TTAACACTTATTTTTTATTTAGAATTATTT
* * * * * * * * *
6500828 TT-TTTATAATAATAATTCTTT-TACGTTGTTAATTTTATTATTGACATTACAATAGTTTTTTTT
126 TTATTTATAATAATAATT-TTTATA--TTATCAACTTAATTATTTACATTA-AAAAATATTGTTT
**** * * * * *
6500891 TTATGGTTGTTCTAACTTTTTATTACA
187 TTACACCTATTCTTACATTTCA-TACG
* * * * * * * *
6500918 TTTAGAATT-T-ACAATTTTTTATTAAGATGTTACGACA-CTTCTAACCCATTTTAAG-CGAAAT
1 TTTAGAATTATCATAACTTTTTCTTAAGA-GTTACAATAGC-TCT-ATCTATTTTACGTC-AAAT
* ** * * * *
6500979 GATACCAATTTTATAATTATT-T-TTTCTTTTACATAAACATTTATTTTTTGGTTTAGAATTATT
62 GATATCAATTTTACGATTATTCTCATT-TTTTACATTAACACTTATTTTTT-ATTTAGAATTATT
* * * * *
6501042 TTGTATTTATAATAATAATTCTTTTACATCATCAAATTATTTATTTACATTACAATAATA-T-TT
125 TT-TATTTATAATAATAA-T-TTTTATATTATCAACTTAATTATTTACATTA-AAAAATATTGTT
* * *
6501105 TTTATA--TATGTTTTGACATTTTATTACG
186 TTTACACCTAT-TCTT-ACATTTCA-TACG
*
6501133 TTTAGAATTATCACAACTTTTT
1 TTTAGAATTATCATAACTTTTT
6501155 TTGGCCTTAT
Statistics
Matches: 529, Mismatches: 89, Indels: 96
0.74 0.12 0.13
Matches are distributed among these distances:
210 1 0.00
211 3 0.01
212 3 0.01
213 71 0.13
214 166 0.31
215 164 0.31
216 55 0.10
217 60 0.11
218 4 0.01
219 2 0.00
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (212 bp):
TTTAGAATTATCATAACTTTTTCTTAAGAGTTACAATAGCTCTATCTATTTTACGTCAAATGATA
TCAATTTTACGATTATTCTCATTTTTTACATTAACACTTATTTTTTATTTAGAATTATTTTTATT
TATAATAATAATTTTTATATTATCAACTTAATTATTTACATTAAAAAATATTGTTTTTACACCTA
TTCTTACATTTCATACG
Found at i:6501096 original size:217 final size:214
Alignment explanation
Indices: 6500331--6501155 Score: 594
Period size: 215 Copynumber: 3.8 Consensus size: 214
6500321 TATTTTAGAT
* ** * * *
6500331 AAATGATATCAATTTTACGATTATTCTCATT-TTTTACATTAACACTTATTTTTTATTTAGAATT
1 AAATGATACCAATTTTATAATTATT-T-TTTCTTTTACATAAACA-TTATTTTTTGTTTAGAATT
** * * * * *
6500395 ACTTTTTATTTATAATAATAA-T-TTTTATGTTATCAATTTAATTATTTACGTTATAATAATA-T
63 A-TTTTTATTTATAATAATAATTCTTTTACATTGT-AAATTATTTATTTACATTACAATAATATT
* *** * * * ** * * *
6500457 GTTTTTACACCTATTCTTATC-TTTTCTTACG-TTAGAATTATCATGACTTTTT-TTAAGGAGTG
126 TTTTTTA-TGTTGTTC-TAACATTTTATTACGTTTAGAATTATCACAATTTTTTATTAAGAAGTT
* * ** *
6500519 ACAACACTTATAATACACTTTTATGTC
189 ACGACACTTCTAACCCA-TTTTAAGTC
* * *
6500546 AAATGATA-TATATTTTATAATTATTCTCATTT-TTTTACATATAC-TTATTTTTTGATT-GAAT
1 AAATGATACCA-ATTTTATAATTATT-T--TTTCTTTTACATAAACATTATTTTTTGTTTAGAAT
* * * *
6500607 TATTTTTTATTTATAATAATAATT-TTTTATATTGTTAACTTAATTATTTACATTA-AAAAATAT
62 TA-TTTTTATTTATAATAATAATTCTTTTACATTG-TAAATTATTTATTTACATTACAATAATAT
* * * * * * *
6500670 TTTTTTTATGCTTGTTCTTACATTTCA-TACGTTTAGAATTATCATAACTCTTTCTTATGAAGTT
125 TTTTTTTATG-TTGTTCTAACATTTTATTACGTTTAGAATTATCACAATTTTTTATTAAGAAGTT
* * ** *
6500734 ACGATAGTTCTAACTTATTTTACGTC
189 ACGACACTTCTAACCCATTTTAAGTC
* ** * * ** * * *
6500760 AAATGATACTAATTTTACGACTATTATCACTTTTTA-ATGTTAACACTT-TTTTTTGTTCAAAAT
1 AAATGATACCAATTTTATAATTATTTTTTC-TTTTACA--TAAACA-TTATTTTTTGTTTAGAAT
* * * * * *
6500823 TATTTTT-TTTATAATAATAATTCTTTTACGTTGTTAATTTTATTATTGACATTACAATAGTTTT
62 TATTTTTATTTATAATAATAATTCTTTTACATTGTAAATTAT-TTATTTACATTACAATAATATT
* * *
6500887 TTTTTTATGGTTGTTCTAACTTTTTATTACATTTAGAATT-T-ACAATTTTTTATTAAGATGTTA
126 TTTTTTAT-GTTGTTCTAACATTTTATTACGTTTAGAATTATCACAATTTTTTATTAAGAAGTTA
6500950 CGACACTTCTAACCCATTTTAAG-C
190 CGACACTTCTAACCCATTTTAAGTC
6500974 GAAATGATACCAATTTTATAATTATTTTTTCTTTTACATAAACATTTATTTTTTGGTTTAGAATT
1 -AAATGATACCAATTTTATAATTATTTTTTCTTTTACATAAACA-TTATTTTTT-GTTTAGAATT
**
6501039 ATTTTGTATTTATAATAATAATTCTTTTACATCATCAAATTATTTATTTACATTACAATAATATT
63 ATTTT-TATTTATAATAATAATTCTTTTACATTGT-AAATTATTTATTTACATTACAATAATATT
* * * *
6501104 TTTTATAT-ATGTTTTGACATTTTATTACGTTTAGAATTATCACAACTTTTTT
126 TTTTTTATGTTGTTCTAACATTTTATTACGTTTAGAATTATCACAA-TTTTTT
6501156 TGGCCTTATG
Statistics
Matches: 480, Mismatches: 98, Indels: 61
0.75 0.15 0.10
Matches are distributed among these distances:
211 1 0.00
212 1 0.00
213 49 0.10
214 132 0.28
215 170 0.35
216 49 0.10
217 67 0.14
218 11 0.02
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.52
Consensus pattern (214 bp):
AAATGATACCAATTTTATAATTATTTTTTCTTTTACATAAACATTATTTTTTGTTTAGAATTATT
TTTATTTATAATAATAATTCTTTTACATTGTAAATTATTTATTTACATTACAATAATATTTTTTT
TATGTTGTTCTAACATTTTATTACGTTTAGAATTATCACAATTTTTTATTAAGAAGTTACGACAC
TTCTAACCCATTTTAAGTC
Found at i:6502425 original size:19 final size:18
Alignment explanation
Indices: 6502403--6502449 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
6502393 TTATTCTCAC
6502403 TTTTTTATTTTA-ACATTTA
1 TTTTTTATTTTAGA-A-TTA
*
6502422 TTTTTTAGTTTAGAATTA
1 TTTTTTATTTTAGAATTA
6502440 TTTTTTATTT
1 TTTTTTATTT
6502450 ATAATACTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 12 0.48
19 12 0.48
20 1 0.04
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTTTTATTTTAGAATTA
Found at i:6502754 original size:219 final size:219
Alignment explanation
Indices: 6502209--6502760 Score: 620
Period size: 214 Copynumber: 2.5 Consensus size: 219
6502199 CGTGTATGTT
* * *
6502209 TTTATTTAGAATTA-TTTTTATTTATGATAATAATTTTTTTATGTTGTCAATTTAATTATTTACG
1 TTTATTTAGAATTATTTTTTATTTATAATAATAATTTTTTTATGTTGCCAA-TTAATTATTTATG
* * * *
6502273 TTACAATAA-AA--TCTTATGTTTATTCTTACTTTTTATTATATTTAGAATTATTATAATTTTTT
65 TTACAATAATAACTTTTTATGTTTGTTGTTACTTTTCATTATATTTAGAATTATTATAATTTTTT
** * *
6502335 TCTTAAAGTATTACAATACTTCTAATATATTTTACGTCAAATGATACCAATTTTATTATTATTCT
130 TCTTAAAGTACAACAATACTTCTAATATATTTTACGTCAAATAATACCAATTTTATGATTATTCT
** * **
6502400 CACTTTTTTATTTTAACATTTATTT
195 CACCGTTTTATGTTAACATTTATGG
* * * * *
6502425 TTTAGTTTAGAATTATTTTTTATTTATAATACTAATTTTTTTACGTTACCAATTTATTA--CAT-
1 TTTA-TTTAGAATTATTTTTTATTTATAATAATAATTTTTTTATGTTGCCAATTAATTATTTATG
* * * *
6502487 TT-TAATAATATCTTTTTATGTTTGTTGTTTCTTTTCATTATGTTTAGAATTATTATAATTTTTT
65 TTACAATAATAACTTTTTATGTTTGTTGTTACTTTTCATTATATTTAGAATTATTATAATTTTTT
* ** * * **
6502551 TC-TAAGGTACAATGATACTTCTAATA-ATTTTAGGTTAAATAATATTAATTTTATGATTATTCT
130 TCTTAAAGTACAACAATACTTCTAATATATTTTACGTCAAATAATACCAATTTTATGATTATTCT
* *
6502614 TACCGTTTTATGTTAACTTTTATCGG
195 CACCGTTTTATGTTAACATTTAT-GG
* * * *
6502640 TTTATTTAAAATTATTTTTTCTTTCTAATAATAATTTTTTTATATTGCCAACTTAATTATTTATG
1 TTTATTTAGAATTATTTTTTATTTATAATAATAATTTTTTTATGTTGCCAA-TTAATTATTTATG
* * * *
6502705 TTACAATAATAACTTTTTATGATTGTTGTTACCTTTCATTACATTTAGAAATATTA
65 TTACAATAATAACTTTTTATGTTTGTTGTTACTTTTCATTATATTTAGAATTATTA
6502761 AAACTCTTTG
Statistics
Matches: 274, Mismatches: 51, Indels: 19
0.80 0.15 0.06
Matches are distributed among these distances:
213 5 0.02
214 92 0.34
215 30 0.11
216 51 0.19
217 18 0.07
218 33 0.12
219 45 0.16
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (219 bp):
TTTATTTAGAATTATTTTTTATTTATAATAATAATTTTTTTATGTTGCCAATTAATTATTTATGT
TACAATAATAACTTTTTATGTTTGTTGTTACTTTTCATTATATTTAGAATTATTATAATTTTTTT
CTTAAAGTACAACAATACTTCTAATATATTTTACGTCAAATAATACCAATTTTATGATTATTCTC
ACCGTTTTATGTTAACATTTATGG
Found at i:6504373 original size:10 final size:10
Alignment explanation
Indices: 6504350--6504384 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
6504340 TTGAACATCT
6504350 ATTTTTAGAAA
1 ATTTTTA-AAA
*
6504361 ATTTTTAATA
1 ATTTTTAAAA
6504371 ATTTTTAAAA
1 ATTTTTAAAA
6504381 ATTT
1 ATTT
6504385 ATTTTCAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 15 0.68
11 7 0.32
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (10 bp):
ATTTTTAAAA
Found at i:6516911 original size:18 final size:19
Alignment explanation
Indices: 6516874--6516912 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
6516864 TTGGTTTGCT
6516874 AAATTTGAAATTTCAAAAA
1 AAATTTGAAATTTCAAAAA
* *
6516893 AAATTT-AACTTTTAAAAA
1 AAATTTGAAATTTCAAAAA
6516911 AA
1 AA
6516913 TTATCAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (19 bp):
AAATTTGAAATTTCAAAAA
Found at i:6517644 original size:11 final size:12
Alignment explanation
Indices: 6517620--6517649 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
6517610 ATATCATAAA
6517620 TATTTTATTTAT
1 TATTTTATTTAT
6517632 TATTTTA-TTAT
1 TATTTTATTTAT
6517643 TATTTTA
1 TATTTTA
6517650 CACTATCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TATTTTATTTAT
Found at i:6523019 original size:17 final size:18
Alignment explanation
Indices: 6522994--6523027 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6522984 TCAAAACACC
*
6522994 CCTACTTTCT-TAACCCG
1 CCTAATTTCTATAACCCG
6523011 CCTAATTTCTATAACCC
1 CCTAATTTCTATAACCC
6523028 AAAATCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.24, C:0.38, G:0.03, T:0.35
Consensus pattern (18 bp):
CCTAATTTCTATAACCCG
Found at i:6525212 original size:30 final size:32
Alignment explanation
Indices: 6525164--6525222 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 32
6525154 TGAAATTAAT
* * *
6525164 AAAATATTATTTTTTAAATA-A-AAATATTTA
1 AAAATATCATTATATAAATATATAAATATTTA
6525194 AAAATATCATTATATAAATATATAAATAT
1 AAAATATCATTATATAAATATATAAATAT
6525223 AATTAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.71
31 1 0.04
32 6 0.25
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (32 bp):
AAAATATCATTATATAAATATATAAATATTTA
Found at i:6525926 original size:31 final size:31
Alignment explanation
Indices: 6525890--6525958 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 31
6525880 CAAATTTTAA
*
6525890 AAATTTAATCCTTATACTCTA-GTGAAATTTG
1 AAATTTAATCCTTATACT-TATATGAAATTTG
*
6525921 AAATTTAATTCTTATACTTATATGAAATTTG
1 AAATTTAATCCTTATACTTATATGAAATTTG
6525952 AAATTTA
1 AAATTTA
6525959 GTTACTCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 2 0.06
31 33 0.94
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (31 bp):
AAATTTAATCCTTATACTTATATGAAATTTG
Found at i:6526870 original size:13 final size:13
Alignment explanation
Indices: 6526852--6526896 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
6526842 AACTTTCATA
6526852 TATTAATTTAAAT
1 TATTAATTTAAAT
6526865 TATTAATATTATAAT
1 TATTAAT-TTA-AAT
*
6526880 TGATTAATATAAAT
1 T-ATTAATTTAAAT
6526894 TAT
1 TAT
6526897 ACTAATATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 9 0.32
14 7 0.25
15 6 0.21
16 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (13 bp):
TATTAATTTAAAT
Found at i:6526885 original size:29 final size:32
Alignment explanation
Indices: 6526849--6526916 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 32
6526839 ATTAACTTTC
*
6526849 ATAT-ATTAATTTAAATTAT-TAATATTA-TA
1 ATATGATTAATATAAATTATATAATATTATTA
6526878 AT-TGATTAATATAAATTATACTAATATTATTA
1 ATATGATTAATATAAATTATA-TAATATTATTA
6526910 ATATGAT
1 ATATGAT
6526917 ATTATTAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 1 0.03
29 16 0.48
31 8 0.24
32 4 0.12
33 4 0.12
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (32 bp):
ATATGATTAATATAAATTATATAATATTATTA
Found at i:6526887 original size:16 final size:14
Alignment explanation
Indices: 6526852--6526906 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 14
6526842 AACTTTCATA
6526852 TATTAAT-TTAAAT
1 TATTAATATTAAAT
6526865 TATTAATATTATAAT
1 TATTAATATTA-AAT
6526880 TGATTAATA-TAAAT
1 T-ATTAATATTAAAT
6526894 TATACTAATATTA
1 TAT--TAATATTA
6526907 TTAATATGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 9 0.25
14 7 0.19
15 11 0.31
16 9 0.25
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (14 bp):
TATTAATATTAAAT
Found at i:6526924 original size:14 final size:13
Alignment explanation
Indices: 6526852--6526924 Score: 60
Period size: 14 Copynumber: 5.5 Consensus size: 13
6526842 AACTTTCATA
* *
6526852 TATTAATTTAAAT
1 TATTAATATATAT
6526865 TATTAATATTATAAT
1 TATTAATA-TAT-AT
*
6526880 TGATTAATATAAAT
1 T-ATTAATATATAT
*
6526894 TA-TACTA-ATAT
1 TATTAATATATAT
6526905 TATTAATATGATAT
1 TATTAATAT-ATAT
6526919 TATTAA
1 TATTAA
6526925 CAATTAATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
11 5 0.10
12 8 0.17
13 8 0.17
14 15 0.31
15 5 0.10
16 7 0.15
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (13 bp):
TATTAATATATAT
Found at i:6526943 original size:40 final size:40
Alignment explanation
Indices: 6526863--6526943 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 40
6526853 ATTAATTTAA
* * *
6526863 ATTATTAATATTATAATTGATTAATATAAATTATACTAAT
1 ATTATTAATATGATAATTGATTAAAATAAATTATAATAAT
*
6526903 ATTATTAATATGAT-ATT-ATTAACAATTAATTATATATAAT
1 ATTATTAATATGATAATTGATTAA-AATAAATTATA-ATAAT
6526943 A
1 A
6526944 AAAACTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
38 5 0.14
39 12 0.34
40 18 0.51
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (40 bp):
ATTATTAATATGATAATTGATTAAAATAAATTATAATAAT
Found at i:6527055 original size:31 final size:31
Alignment explanation
Indices: 6527020--6527105 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 31
6527010 TTGGACAGAT
*
6527020 TAAATTTCAAATTTTGTGTGAGTATATGA-AC
1 TAAATTTTAAATTTTGTGTGAGTATA-GATAC
* ** *
6527051 TAAATTTTAAATTTTATGCAAGTATAGATAT
1 TAAATTTTAAATTTTGTGTGAGTATAGATAC
* *
6527082 TAAATTTTAAATTTAGTATGAGTA
1 TAAATTTTAAATTTTGTGTGAGTA
6527106 CAACGACTAT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
30 2 0.05
31 42 0.95
ACGTcount: A:0.40, C:0.03, G:0.13, T:0.44
Consensus pattern (31 bp):
TAAATTTTAAATTTTGTGTGAGTATAGATAC
Found at i:6528741 original size:8 final size:9
Alignment explanation
Indices: 6528728--6528851 Score: 53
Period size: 9 Copynumber: 13.7 Consensus size: 9
6528718 GAAAATTTTT
6528728 AAAAA-TTA
1 AAAAATTTA
6528736 AAAAATTTA
1 AAAAATTTA
6528745 AAAAAGTTT-
1 AAAAA-TTTA
6528754 --AAATTTA
1 AAAAATTTA
*
6528761 ATTAAATTTTGA
1 A--AAAATTT-A
* * *
6528773 AATATTTTT
1 AAAAATTTA
6528782 AAAAA-TTA
1 AAAAATTTA
6528790 AAAAA-TTA
1 AAAAATTTA
* *
6528798 TGATAATTTA
1 -AAAAATTTA
*
6528808 AAAAATTTT
1 AAAAATTTA
* *
6528817 AAAAATCTC
1 AAAAATTTA
*
6528826 AAAATTTTA
1 AAAAATTTA
6528835 ATAAAATTTCA
1 A-AAAATTT-A
6528846 AAAAAT
1 AAAAAT
6528852 AAGAAATTAA
Statistics
Matches: 87, Mismatches: 17, Indels: 22
0.69 0.13 0.17
Matches are distributed among these distances:
6 3 0.03
7 3 0.03
8 15 0.17
9 34 0.39
10 23 0.26
11 7 0.08
12 2 0.02
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (9 bp):
AAAAATTTA
Found at i:6528742 original size:18 final size:18
Alignment explanation
Indices: 6528719--6528822 Score: 63
Period size: 18 Copynumber: 5.8 Consensus size: 18
6528709 GCATTGAAAG
6528719 AAAATTTTTAAAAATTAA
1 AAAATTTTTAAAAATTAA
*
6528737 AAAA-TTTAAAAAAGTT--
1 AAAATTTTTAAAAA-TTAA
* ** *
6528753 TAAATTTAATTAAATTTTGA
1 AAAATTT--TTAAAAATTAA
*
6528773 AATATTTTTAAAAATTAA
1 AAAATTTTTAAAAATTAA
* * * *
6528791 AAAATTATGATAATTTAA
1 AAAATTTTTAAAAATTAA
6528809 AAAA-TTTTAAAAAT
1 AAAATTTTTAAAAAT
6528823 CTCAAAATTT
Statistics
Matches: 61, Mismatches: 19, Indels: 13
0.66 0.20 0.14
Matches are distributed among these distances:
16 3 0.05
17 16 0.26
18 33 0.54
19 4 0.07
20 5 0.08
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
AAAATTTTTAAAAATTAA
Found at i:6528941 original size:15 final size:15
Alignment explanation
Indices: 6528917--6528950 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6528907 ACAATTCACA
6528917 AAAAATTAAAAAAACT
1 AAAAATTAAAAAAA-T
6528933 AAAAA-TAAAAAAAT
1 AAAAATTAAAAAAAT
6528947 AAAA
1 AAAA
6528951 GTTTTTGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 8 0.44
16 5 0.28
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAAATTAAAAAAAT
Found at i:6529010 original size:19 final size:19
Alignment explanation
Indices: 6528969--6529012 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
6528959 AAACAGTTTT
**
6528969 AAAATTAAAAAAATTATTG
1 AAAATTAAAAAAATTATAA
6528988 AAAATTAAAAAAATT-TCAA
1 AAAATTAAAAAAATTAT-AA
6529007 AAAATT
1 AAAATT
6529013 TAAATGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAATTAAAAAAATTATAA
Found at i:6529162 original size:17 final size:18
Alignment explanation
Indices: 6529134--6529197 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
6529124 AACTTAAGAG
*
6529134 TTTTTATTTTTTAGAAAT
1 TTTTTAATTTTTAGAAAT
6529152 TTTTTAATTTTTAG-AAT
1 TTTTTAATTTTTAGAAAT
* *
6529169 GTTTTAGATTTTTA-AAAA
1 TTTTTA-ATTTTTAGAAAT
6529187 TTTTTAATTTT
1 TTTTTAATTTT
6529198 ACAAAGTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
17 13 0.32
18 27 0.68
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (18 bp):
TTTTTAATTTTTAGAAAT
Found at i:6529207 original size:17 final size:19
Alignment explanation
Indices: 6529132--6529208 Score: 67
Period size: 18 Copynumber: 4.4 Consensus size: 19
6529122 AAAACTTAAG
*
6529132 AGTTTTTA-TTTTTTAGAA
1 AGTTTTTAGATTTTTAGAA
*
6529150 ATTTTTTA-ATTTTTAGAA
1 AGTTTTTAGATTTTTAGAA
*
6529168 TG-TTTTAGATTTTTA-AA
1 AGTTTTTAGATTTTTAGAA
* *
6529185 AATTTTTA-A-TTTTACAA
1 AGTTTTTAGATTTTTAGAA
6529202 AGTTTTT
1 AGTTTTT
6529209 TTTAATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
16 5 0.10
17 16 0.33
18 28 0.57
ACGTcount: A:0.31, C:0.01, G:0.08, T:0.60
Consensus pattern (19 bp):
AGTTTTTAGATTTTTAGAA
Found at i:6529348 original size:44 final size:44
Alignment explanation
Indices: 6529276--6529394 Score: 127
Period size: 44 Copynumber: 2.7 Consensus size: 44
6529266 TTTTGTGAAT
* *
6529276 TTTTTTAAATATTAAGAAATTTTT--ATTTTTATCAAAATTTTCA-
1 TTTTTT-AATTTTAAG-AATTTTTGGATTTTTATCAAAATTTGCAG
*
6529319 TTTTTTAATTTTATAGAATTTTTGGATTTTTATCAAAATTTGGAG
1 TTTTTTAATTTTA-AGAATTTTTGGATTTTTATCAAAATTTGCAG
* * *
6529364 TTTTTTTATTTTAAAAATTTTTAGGTTTTTT
1 TTTTTTAATTTTAAGAATTTTT-GGATTTTT
6529395 TTTAATTTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
42 13 0.20
43 8 0.12
44 25 0.38
45 19 0.29
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.60
Consensus pattern (44 bp):
TTTTTTAATTTTAAGAATTTTTGGATTTTTATCAAAATTTGCAG
Found at i:6529425 original size:18 final size:18
Alignment explanation
Indices: 6529404--6529438 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6529394 TTTTAATTTT
*
6529404 TTTTAGTTTTCTTAAATA
1 TTTTAATTTTCTTAAATA
*
6529422 TTTTAATTTTTTTAAAT
1 TTTTAATTTTCTTAAAT
6529439 TCTTAAAATT
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:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTAATTTTCTTAAATA
Found at i:6530365 original size:22 final size:22
Alignment explanation
Indices: 6530340--6530383 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6530330 TTATATGATT
6530340 TATTAACAATGTATAAAATATA
1 TATTAACAATGTATAAAATATA
* * * *
6530362 TATTGATATTGTATCAAATATA
1 TATTAACAATGTATAAAATATA
6530384 AATTCAAATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (22 bp):
TATTAACAATGTATAAAATATA
Found at i:6531100 original size:12 final size:12
Alignment explanation
Indices: 6531083--6531108 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6531073 TTTTTAGTAC
6531083 TTATCATTCTTG
1 TTATCATTCTTG
6531095 TTATCATTCTTG
1 TTATCATTCTTG
6531107 TT
1 TT
6531109 GGAGTGTATA
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:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (12 bp):
TTATCATTCTTG
Found at i:6532157 original size:20 final size:21
Alignment explanation
Indices: 6532111--6532158 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
6532101 ATTGATTTTT
6532111 ATAATTTAAATTATATAAAAA
1 ATAATTTAAATTATATAAAAA
*
6532132 AT-ATTTGAATTA-A-AAAAA
1 ATAATTTAAATTATATAAAAA
6532150 ACTAATTTA
1 A-TAATTTA
6532159 TTAAATTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 6 0.26
19 2 0.09
20 13 0.57
21 2 0.09
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
ATAATTTAAATTATATAAAAA
Found at i:6533237 original size:24 final size:22
Alignment explanation
Indices: 6533185--6533237 Score: 54
Period size: 24 Copynumber: 2.4 Consensus size: 22
6533175 AATATATATT
6533185 TTTTATT-TTATTAAATTTAAA
1 TTTTATTATTATTAAATTTAAA
* * *
6533206 TATAATTATTATTAAAATTTTATA
1 TTTTATTATTATT-AAA-TTTAAA
6533230 TTTTATTA
1 TTTTATTA
6533238 GTTTTATATA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
21 5 0.21
22 5 0.21
23 3 0.12
24 11 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTATTATTATTAAATTTAAA
Found at i:6546227 original size:17 final size:18
Alignment explanation
Indices: 6546193--6546227 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6546183 TTTAGAATTT
*
6546193 TTAAAATTTTTTTACAAA
1 TTAAAATTTTCTTACAAA
6546211 TTAAAATTTTCTT-CAAA
1 TTAAAATTTTCTTACAAA
6546228 ATCTCTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAAAATTTTCTTACAAA
Found at i:6548754 original size:19 final size:20
Alignment explanation
Indices: 6548718--6548756 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
6548708 ATATATTATT
* *
6548718 TTAATATAATTTTTAATATA
1 TTAATATAAATTTAAATATA
6548738 TTAA-ATAAATTTAAATATA
1 TTAATATAAATTTAAATATA
6548757 AAATATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAATATAAATTTAAATATA
Found at i:6549044 original size:2 final size:2
Alignment explanation
Indices: 6549033--6549062 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6549023 ATGTTTTTAA
6549033 AT AT -T 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 AT AT A
6549063 AATAAAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6549683 original size:2 final size:2
Alignment explanation
Indices: 6549676--6549706 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6549666 TTTGTTTAAA
*
6549676 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6549707 AGGGATGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6552013 original size:2 final size:2
Alignment explanation
Indices: 6552006--6552037 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
6551996 GAGGCAGCCT
6552006 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6552038 GTTTAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6557651 original size:12 final size:11
Alignment explanation
Indices: 6557622--6557651 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
6557612 TTGAATAATT
6557622 ATAAAATTATA
1 ATAAAATTATA
6557633 ATAAAATTATA
1 ATAAAATTATA
6557644 AGTAAAAT
1 A-TAAAAT
6557652 ACATTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
ATAAAATTATA
Found at i:6559756 original size:37 final size:37
Alignment explanation
Indices: 6559703--6559775 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
6559693 TCATTAGCAG
* *
6559703 ATAGTATAACACATTTAAAAGCTCTAGAAAGAAAGTT
1 ATAGTATAAAACATTTAAAAGCCCTAGAAAGAAAGTT
* *
6559740 ATAGTATAAAAGATTTAAAAGCCCTAGAAAGTAAGT
1 ATAGTATAAAACATTTAAAAGCCCTAGAAAGAAAGT
6559776 GATTTCCTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (37 bp):
ATAGTATAAAACATTTAAAAGCCCTAGAAAGAAAGTT
Found at i:6562930 original size:31 final size:31
Alignment explanation
Indices: 6562892--6562954 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
6562882 GTATTTTAGA
6562892 AAGTTTTTAAAAATTTTTTAGATTTTGTTTT
1 AAGTTTTTAAAAATTTTTTAGATTTTGTTTT
* *
6562923 AAGTTTTTAAATATTTTTTAGATTTTTTTTT
1 AAGTTTTTAAAAATTTTTTAGATTTTGTTTT
6562954 A
1 A
6562955 CACATTGGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (31 bp):
AAGTTTTTAAAAATTTTTTAGATTTTGTTTT
Found at i:6565195 original size:14 final size:14
Alignment explanation
Indices: 6565178--6565229 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
6565168 GATTGATTTA
6565178 AATTTAATTTTATT
1 AATTTAATTTTATT
* *
6565192 AATTCAATTTAATT
1 AATTTAATTTTATT
6565206 AA-TT-ATTTT-TT
1 AATTTAATTTTATT
6565217 AAATTTAATTTTA
1 -AATTTAATTTTA
6565230 AATTTTTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
11 2 0.07
12 6 0.20
13 3 0.10
14 19 0.63
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
AATTTAATTTTATT
Found at i:6566282 original size:18 final size:20
Alignment explanation
Indices: 6566261--6566299 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
6566251 TTTATTTGAC
6566261 AAAATT-AT-AAAATATATA
1 AAAATTAATAAAAATATATA
6566279 AAAATTAATAAAAATATATA
1 AAAATTAATAAAAATATATA
6566299 A
1 A
6566300 TTCAATTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.32
19 2 0.11
20 11 0.58
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATTAATAAAAATATATA
Found at i:6568563 original size:19 final size:18
Alignment explanation
Indices: 6568523--6568579 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
6568513 TTTTTAAATC
6568523 AAAAGAAAAAAAT-GA-A
1 AAAAGAAAAAAATAGAGA
* *
6568539 TTAAAGAAATAAAATGGAGA
1 -AAAAGAAA-AAAATAGAGA
*
6568559 AAAAGAAAAAAGTAGAGA
1 AAAAGAAAAAAATAGAGA
6568577 AAA
1 AAA
6568580 GTGAGAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 7 0.21
18 16 0.48
19 9 0.27
20 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.18, T:0.11
Consensus pattern (18 bp):
AAAAGAAAAAAATAGAGA
Found at i:6574720 original size:20 final size:21
Alignment explanation
Indices: 6574688--6574726 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
6574678 AAAAGTTTTC
6574688 AATTTTTTAAATTTTTTAAGA
1 AATTTTTTAAATTTTTTAAGA
6574709 AATTTTTT-AATTTTTTAA
1 AATTTTTTAAATTTTTTAA
6574727 ACGTATTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
AATTTTTTAAATTTTTTAAGA
Found at i:6574840 original size:16 final size:17
Alignment explanation
Indices: 6574819--6574854 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
6574809 TTTTTAAATA
6574819 TTTTAAAA-TTTTCATT
1 TTTTAAAAGTTTTCATT
*
6574835 TTTTAAAAGTTTTTATT
1 TTTTAAAAGTTTTCATT
6574852 TTT
1 TTT
6574855 ATTTAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTAAAAGTTTTCATT
Found at i:6578377 original size:47 final size:47
Alignment explanation
Indices: 6578324--6578419 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
6578314 TTTCATTTTC
6578324 TAAATGGTGTTTCTCTCTTCTTCATTACATTTATCCGTCTGTCTCTA
1 TAAATGGTGTTTCTCTCTTCTTCATTACATTTATCCGTCTGTCTCTA
6578371 TAAATGGTGTTTCTCTCTTCTTCATTACATTTATCCGTCTGTCTCTA
1 TAAATGGTGTTTCTCTCTTCTTCATTACATTTATCCGTCTGTCTCTA
6578418 TA
1 TA
6578420 TTGTGTGTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.18, C:0.23, G:0.10, T:0.49
Consensus pattern (47 bp):
TAAATGGTGTTTCTCTCTTCTTCATTACATTTATCCGTCTGTCTCTA
Found at i:6583901 original size:69 final size:69
Alignment explanation
Indices: 6583765--6583903 Score: 188
Period size: 69 Copynumber: 2.0 Consensus size: 69
6583755 TTAGCAGAAC
* ** * * * * *
6583765 TGCATTCACGAGCAAAGTGTCCTCCTTCTCCACAGTTGTAGCATAAGCTAGTTGTTGCAGTACCA
1 TGCATTCACGAGCAAAGTGTCCTCCTTCACCACACCTATAGCATAAGCTAGGTGATCCACTACCA
6583830 GTGG
66 GTGG
* *
6583834 TGCATTCACGTGCAAAGTGTCCTCCTTCACCACACCTATAGCATAAGCTAGGTGATCCACTATCA
1 TGCATTCACGAGCAAAGTGTCCTCCTTCACCACACCTATAGCATAAGCTAGGTGATCCACTACCA
6583899 GTGG
66 GTGG
6583903 T
1 T
6583904 TTCCTTGGTT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (69 bp):
TGCATTCACGAGCAAAGTGTCCTCCTTCACCACACCTATAGCATAAGCTAGGTGATCCACTACCA
GTGG
Found at i:6587554 original size:8 final size:8
Alignment explanation
Indices: 6587543--6587588 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
6587533 AATTAATTAA
*
6587543 TTATTTAT
1 TTATATAT
6587551 TTATATAT
1 TTATATAT
6587559 TTATAT-T
1 TTATATAT
6587566 ATTATATAT
1 -TTATATAT
*
6587575 TTAAATAT
1 TTATATAT
6587583 TTATAT
1 TTATAT
6587589 TTAAAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
7 1 0.03
8 31 0.94
9 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TTATATAT
Found at i:6587575 original size:24 final size:24
Alignment explanation
Indices: 6587542--6587589 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
6587532 TAATTAATTA
* *
6587542 ATTATTTATTTATATATTTATATT
1 ATTATATATTTAAATATTTATATT
6587566 ATTATATATTTAAATATTTATATT
1 ATTATATATTTAAATATTTATATT
6587590 TAAAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTATATATTTAAATATTTATATT
Found at i:6587587 original size:14 final size:15
Alignment explanation
Indices: 6587551--6587593 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 15
6587541 AATTATTTAT
*
6587551 TTATATATTTATATTA
1 TTATATATTTA-AATA
6587567 TTATATATTTAAATA
1 TTATATATTTAAATA
6587582 TT-TATATTTAAA
1 TTATATATTTAAA
6587594 AAAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 10 0.38
15 5 0.19
16 11 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATATATTTAAATA
Found at i:6587647 original size:26 final size:25
Alignment explanation
Indices: 6587600--6587650 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
6587590 TAAAAAAATA
* *
6587600 ATAATTTATTAATTTCGGATCGAAT
1 ATAATTTATTAATATCAGATCGAAT
*
6587625 ATAATTTATATAATATCATATCGAAT
1 ATAATTTAT-TAATATCAGATCGAAT
6587651 TAGATTCGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (25 bp):
ATAATTTATTAATATCAGATCGAAT
Found at i:6587863 original size:17 final size:18
Alignment explanation
Indices: 6587838--6587872 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
6587828 AAGATTCAAA
*
6587838 TTTATAAAAT-ATTATTT
1 TTTAAAAAATAATTATTT
6587855 TTTAAAAAATAATTATTT
1 TTTAAAAAATAATTATTT
6587873 AATTTAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTAAAAAATAATTATTT
Found at i:6590746 original size:24 final size:24
Alignment explanation
Indices: 6590714--6590759 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
6590704 GATGGAGTCA
6590714 TGTTAGGATCTTCACCCTGTGAGC
1 TGTTAGGATCTTCACCCTGTGAGC
6590738 TGTTAGGATCTTCACCCTGTGA
1 TGTTAGGATCTTCACCCTGTGA
6590760 CCACATGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (24 bp):
TGTTAGGATCTTCACCCTGTGAGC
Found at i:6592080 original size:14 final size:14
Alignment explanation
Indices: 6592045--6592073 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6592035 GTAGCAAACA
6592045 TATCAAACAATATT
1 TATCAAACAATATT
6592059 TATCAAACAATATT
1 TATCAAACAATATT
6592073 T
1 T
6592074 GACAAACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (14 bp):
TATCAAACAATATT
Found at i:6596392 original size:62 final size:63
Alignment explanation
Indices: 6596326--6596459 Score: 143
Period size: 62 Copynumber: 2.2 Consensus size: 63
6596316 CTTTGAATGG
*
6596326 GATTATTCAAAA-TGTTTGTGG-TAAAAAACGTATTAAATAATCTCCTTT-AATTTTAATAGAG-
1 GATTATTCAAAAGTGTTTGTGGCT-AAAAACATATTAAATAATCT-CTTTCAATTTT-ATAGAGA
6596387 A
63 A
* * * * * *
6596388 GATTATT-AAAAGTTTTTTTGGCTAAAAACATCTTCAATAATCTTTTTCAATTTTTTAGAGAA
1 GATTATTCAAAAGTGTTTGTGGCTAAAAACATATTAAATAATCTCTTTCAATTTTATAGAGAA
6596450 GATTATTCAA
1 GATTATTCAA
6596460 TGCATTTTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
61 12 0.20
62 45 0.75
63 3 0.05
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (63 bp):
GATTATTCAAAAGTGTTTGTGGCTAAAAACATATTAAATAATCTCTTTCAATTTTATAGAGAA
Found at i:6597129 original size:62 final size:63
Alignment explanation
Indices: 6597063--6597193 Score: 158
Period size: 63 Copynumber: 2.1 Consensus size: 63
6597053 TTTGAATGAA
* * * *
6597063 ATTATTGAAGGTGTTTATAAT-AAAAAACGCCTT-GAATAATCTCTTTCAATTTTTATAAGTAG
1 ATTATTGAAGGTATTTATAATAAAAAAAC-ACTTCAAATAATCTCTTTCAATTTTTATAAGAAG
* * * * *
6597125 ATTATTTAAGGTATTTTTGATAAAAAAACACTTCAAATAATCTCTTTCAATTTTTTTGAGAAG
1 ATTATTGAAGGTATTTATAATAAAAAAACACTTCAAATAATCTCTTTCAATTTTTATAAGAAG
6597188 ATTATT
1 ATTATT
6597194 CAATATGTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
62 20 0.34
63 38 0.66
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (63 bp):
ATTATTGAAGGTATTTATAATAAAAAAACACTTCAAATAATCTCTTTCAATTTTTATAAGAAG
Found at i:6598939 original size:27 final size:29
Alignment explanation
Indices: 6598909--6598968 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 29
6598899 TTCAATAATA
6598909 AATA-TTAATATAATAAATAATA-T-TTTT
1 AATATTTAA-ATAATAAATAATATTATTTT
* *
6598936 AATATTTGAATAATTAATAATATTATTTT
1 AATATTTAAATAATAAATAATATTATTTT
6598965 AATA
1 AATA
6598969 ACATGGTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 16 0.57
28 4 0.14
29 8 0.29
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
AATATTTAAATAATAAATAATATTATTTT
Found at i:6599021 original size:21 final size:21
Alignment explanation
Indices: 6598975--6599023 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
6598965 AATAACATGG
* *
6598975 TTATTTTAAATAAAATTTTTA
1 TTATTTTAAATAAAATATATA
*
6598996 ATATTTTAAATTAAAA-ATATA
1 TTATTTTAAA-TAAAATATATA
6599017 TTATTTT
1 TTATTTT
6599024 TATATTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATTTTAAATAAAATATATA
Found at i:6599266 original size:19 final size:19
Alignment explanation
Indices: 6599250--6599317 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
6599240 AATTTAATTG
6599250 TTTAATATTAATATAATAT
1 TTTAATATTAATATAATAT
6599269 TTTAATATTAA-AT-AT-T
1 TTTAATATTAATATAATAT
*
6599285 ATT-ATATTAAAGTATAACTAT
1 TTTAATATT-AA-TATAA-TAT
6599306 TTTGAATATTAA
1 TTT-AATATTAA
6599318 CAATTTTACT
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
15 5 0.13
16 5 0.13
17 2 0.05
18 4 0.10
19 12 0.31
20 1 0.03
21 3 0.08
22 2 0.05
23 5 0.13
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (19 bp):
TTTAATATTAATATAATAT
Found at i:6603022 original size:62 final size:62
Alignment explanation
Indices: 6602921--6603044 Score: 203
Period size: 62 Copynumber: 2.0 Consensus size: 62
6602911 GTGTAGGATA
* *
6602921 ATGTTTCTTACGTTAAAGGATAATCTCAGACATTGGATATAAGATAATTTCAGACTCCTAAT
1 ATGTTTCTTACGTTAAAGGATAATCTCAGACATTAGATATAACATAATTTCAGACTCCTAAT
* * *
6602983 ATGTTTCTTACTTTAAAGGATAATCTCAGATATTAGATATATCATAATTTCAGACTCCTAAT
1 ATGTTTCTTACGTTAAAGGATAATCTCAGACATTAGATATAACATAATTTCAGACTCCTAAT
6603045 TTTCTTTATA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (62 bp):
ATGTTTCTTACGTTAAAGGATAATCTCAGACATTAGATATAACATAATTTCAGACTCCTAAT
Found at i:6612522 original size:31 final size:31
Alignment explanation
Indices: 6612461--6612522 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
6612451 CCCTCTAATT
* *
6612461 TTTCAGCCACCTACCACCTTAAATCCAGAAA
1 TTTCAGCCACCCACCACCCTAAATCCAGAAA
**
6612492 TTTCAGCCACCCATTACCCTAAA-CCTAGAAA
1 TTTCAGCCACCCACCACCCTAAATCC-AGAAA
6612523 GCGACCGGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.35, C:0.35, G:0.06, T:0.23
Consensus pattern (31 bp):
TTTCAGCCACCCACCACCCTAAATCCAGAAA
Found at i:6613929 original size:18 final size:20
Alignment explanation
Indices: 6613885--6613929 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
6613875 TATTATATTT
6613885 TTTAAAAATTACATTAATAA
1 TTTAAAAATTACATTAATAA
*
6613905 TTT--AAATTATA-TAA-AA
1 TTTAAAAATTACATTAATAA
6613921 TTTAAAAAT
1 TTTAAAAAT
6613930 AAATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
16 5 0.23
17 3 0.14
18 11 0.50
20 3 0.14
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTAAAAATTACATTAATAA
Found at i:6614028 original size:17 final size:18
Alignment explanation
Indices: 6614001--6614038 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
6613991 AATAAAATAA
6614001 TATTATTTAAT-ATAATTT
1 TATTATTTAATAAT-ATTT
6614019 TATT-TTTAATAATATTT
1 TATTATTTAATAATATTT
6614036 TAT
1 TAT
6614039 CTTATCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTATTTAATAATATTT
Found at i:6629916 original size:14 final size:14
Alignment explanation
Indices: 6629897--6629924 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6629887 TTTTCATTGT
6629897 TCATTATAACTACC
1 TCATTATAACTACC
6629911 TCATTATAACTACC
1 TCATTATAACTACC
6629925 ACTATAGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (14 bp):
TCATTATAACTACC
Found at i:6632414 original size:23 final size:23
Alignment explanation
Indices: 6632388--6632446 Score: 77
Period size: 21 Copynumber: 2.6 Consensus size: 23
6632378 ATTTAACCAA
6632388 AAATTAATAAAATATTATTTTTT
1 AAATTAATAAAATATTATTTTTT
6632411 AAA-T-ATAAAATATTATTTTTT
1 AAATTAATAAAATATTATTTTTT
*
6632432 TAATATATATAAAAT
1 AAAT-TA-ATAAAAT
6632447 TAAAAAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 19 0.61
22 1 0.03
23 4 0.13
25 7 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AAATTAATAAAATATTATTTTTT
Found at i:6632418 original size:21 final size:21
Alignment explanation
Indices: 6632394--6632438 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
6632384 CCAAAAATTA
6632394 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
*
6632415 ATAAAATATTATTTTTTTAAT
1 ATAAAATATTATTTTTTAAAT
6632436 ATA
1 ATA
6632439 TATAAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:6633406 original size:15 final size:15
Alignment explanation
Indices: 6633360--6633410 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
6633350 ATTAAAAGAT
*
6633360 ATAAATATTATTTAA
1 ATAAATTTTATTTAA
**
6633375 CATAAATTTTAAATAA
1 -ATAAATTTTATTTAA
*
6633391 ATTAATTTTATTTAA
1 ATAAATTTTATTTAA
6633406 A-AAAT
1 ATAAAT
6633411 GTTCACATGA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
14 3 0.11
15 13 0.46
16 12 0.43
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAAATTTTATTTAA
Found at i:6635833 original size:2 final size:2
Alignment explanation
Indices: 6635788--6635814 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6635778 CATAGATTTT
6635788 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
6635815 GAAATATATC
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:6636467 original size:21 final size:23
Alignment explanation
Indices: 6636441--6636490 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
6636431 TTCAATTCAC
6636441 ATATATTAAAA-TAAAAT-AAAA
1 ATATATTAAAACTAAAATCAAAA
6636462 ATATA-TAAAACTTAAAATCAAAA
1 ATATATTAAAAC-TAAAATCAAAA
*
6636485 TTATAT
1 ATATAT
6636491 AATAGTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 5 0.21
21 5 0.21
22 6 0.25
23 8 0.33
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (23 bp):
ATATATTAAAACTAAAATCAAAA
Found at i:6636572 original size:15 final size:15
Alignment explanation
Indices: 6636532--6636577 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
6636522 GTTTTTATTT
*
6636532 TTAATATATATATAAA
1 TTAACATATATAT-AA
*
6636548 TTAACTTATATATAA
1 TTAACATATATATAA
*
6636563 TTCACATATATATAA
1 TTAACATATATATAA
6636578 ATAAAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAACATATATATAA
Found at i:6638978 original size:20 final size:20
Alignment explanation
Indices: 6638928--6638967 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6638918 AGTTATATCT
6638928 TTTA-AATAA-AAA-TAGAC
1 TTTAGAATAATAAAGTAGAC
6638945 TTTAGAATAATAAAGTAGAC
1 TTTAGAATAATAAAGTAGAC
6638965 TTT
1 TTT
6638968 GATATGATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 5 0.25
19 3 0.15
20 8 0.40
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (20 bp):
TTTAGAATAATAAAGTAGAC
Found at i:6640872 original size:29 final size:29
Alignment explanation
Indices: 6640826--6640885 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
6640816 GTATTGTTTT
* *
6640826 TGGTGTGATGAGGTATTCTGCTACAATGG
1 TGGTGTGATAAGGCATTCTGCTACAATGG
6640855 TGGTGTGATAAGGCATTCTGCTACAATGG
1 TGGTGTGATAAGGCATTCTGCTACAATGG
6640884 TG
1 TG
6640886 TAAAAAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.22, C:0.12, G:0.33, T:0.33
Consensus pattern (29 bp):
TGGTGTGATAAGGCATTCTGCTACAATGG
Found at i:6641739 original size:86 final size:88
Alignment explanation
Indices: 6641637--6641806 Score: 238
Period size: 90 Copynumber: 1.9 Consensus size: 88
6641627 TATTTATTTC
* * *
6641637 GATTTAACAACTATGATAATGATTTAC-AATTAACTATGGAT-ACGGAG-GGTGGCCTACACCTC
1 GATTTAACAACTATGATAATGATTTACTAATTAACAAGGGATGA-GGAGAGGTGGCCTACACCGC
*
6641699 TTCTTAGGTGACACTACTAATCTA
65 TTCTTACGTGACACTACTAATCTA
*
6641723 GATTTAACAACTATGATAATGATTTACATTAATTAACAAGGGATGAGGAGAGGTGGCCTCCACCG
1 GATTTAACAACTATGATAATGATTTAC--TAATTAACAAGGGATGAGGAGAGGTGGCCTACACCG
*
6641788 CTTCTTACGTGATACTACT
64 CTTCTTACGTGACACTACT
6641807 TTGTTACTTA
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
86 27 0.37
89 16 0.22
90 30 0.41
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (88 bp):
GATTTAACAACTATGATAATGATTTACTAATTAACAAGGGATGAGGAGAGGTGGCCTACACCGCT
TCTTACGTGACACTACTAATCTA
Found at i:6641894 original size:27 final size:28
Alignment explanation
Indices: 6641864--6641919 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
6641854 TTATAATTAG
*
6641864 TAAAA-TATTTAATATGATATTTGAATT
1 TAAAATTATTTAATATGATATTTAAATT
* *
6641891 TAAAATTTTTTTAATGTGATATTTAAATT
1 TAAAA-TTATTTAATATGATATTTAAATT
6641920 ATGAATCTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.21
29 19 0.79
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (28 bp):
TAAAATTATTTAATATGATATTTAAATT
Found at i:6642283 original size:81 final size:81
Alignment explanation
Indices: 6642135--6642290 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 81
6642125 TTCCTCTTGA
* * *
6642135 TATTATAGTTCTTGTTTAAACAAAACTAATGGAAGTAGTTATTTAAAATTGGTTTCTTTTTTAAA
1 TATTATAGGTCTTGTTTAAACAAAACTAATGAAAGTAGTTATTTAAAATTGGTTTATTTTTTAAA
6642200 ATCCATGTGCCCTTAG
66 ATCCATGTGCCCTTAG
* * *
6642216 TATTAT-GGTCTTGTTTAAACAAAATTAATGAAAGTAGTT-TCCTTAAATTTGGTTTATTTTTTG
1 TATTATAGGTCTTGTTTAAACAAAACTAATGAAAGTAGTTAT--TTAAAATTGGTTTATTTTTTA
*
6642279 AAATCTATGTGC
64 AAATCCATGTGC
6642291 TCAGTTGTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
79 1 0.02
80 30 0.45
81 35 0.53
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (81 bp):
TATTATAGGTCTTGTTTAAACAAAACTAATGAAAGTAGTTATTTAAAATTGGTTTATTTTTTAAA
ATCCATGTGCCCTTAG
Found at i:6645462 original size:8 final size:7
Alignment explanation
Indices: 6645432--6645459 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
6645422 TACTCTTGTT
6645432 TAAAAAA
1 TAAAAAA
6645439 TAAAAAA
1 TAAAAAA
6645446 TAAAAAA
1 TAAAAAA
6645453 TAAAAAA
1 TAAAAAA
6645460 ATATTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
TAAAAAA
Found at i:6650551 original size:3 final size:3
Alignment explanation
Indices: 6650543--6650570 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6650533 TTTACACATA
6650543 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6650571 TTTGGATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6651469 original size:13 final size:14
Alignment explanation
Indices: 6651451--6651484 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
6651441 TAACATCGAG
*
6651451 TAAATTT-AATATT
1 TAAATTTCAATACT
6651464 TAAATTTCAATACT
1 TAAATTTCAATACT
6651478 TAAATTT
1 TAAATTT
6651485 TGTTTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATTTCAATACT
Found at i:6653148 original size:31 final size:31
Alignment explanation
Indices: 6653105--6653169 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
6653095 CACAATGACA
6653105 TCTAAATATCTCCGTATCATCATAATCTAAT
1 TCTAAATATCTCCGTATCATCATAATCTAAT
*
6653136 TCTAAATCTCTCCGTATCATCATAATCTAAT
1 TCTAAATATCTCCGTATCATCATAATCTAAT
6653167 TCT
1 TCT
6653170 TTATGTACTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.40
Consensus pattern (31 bp):
TCTAAATATCTCCGTATCATCATAATCTAAT
Found at i:6653939 original size:41 final size:41
Alignment explanation
Indices: 6653894--6653973 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
6653884 TAGGTTAAAG
* * *
6653894 AATTATCTTAAAATTTTTTAATATTTGAGATAATTTAAATT
1 AATTACCTTAAAATTTTTCAATATTTGAGAGAATTTAAATT
6653935 AATTACCTTAAAATTTTTCAATATTTGAGAGAATTTAAA
1 AATTACCTTAAAATTTTTCAATATTTGAGAGAATTTAAA
6653974 AATAACTCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.46
Consensus pattern (41 bp):
AATTACCTTAAAATTTTTCAATATTTGAGAGAATTTAAATT
Found at i:6657871 original size:21 final size:21
Alignment explanation
Indices: 6657845--6657892 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
6657835 ATTAATATGC
*
6657845 ACATAATATATATAAAGAACA
1 ACATAATATATACAAAGAACA
6657866 ACATAATATATACAAAGAACA
1 ACATAATATATACAAAGAACA
6657887 ACATAA
1 ACATAA
6657893 AGGGTTAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.62, C:0.12, G:0.04, T:0.21
Consensus pattern (21 bp):
ACATAATATATACAAAGAACA
Found at i:6660522 original size:41 final size:43
Alignment explanation
Indices: 6660425--6660541 Score: 107
Period size: 41 Copynumber: 2.7 Consensus size: 43
6660415 CTTCTTCTTT
*
6660425 TGTATTTTATGTATTGTA-TTATTTATTATTATTATGTATTAATATA
1 TGTATTTTATTTATT-TATTTATTT-TT-TTATTATGTATT-ATATA
* * *
6660471 TGTA-TATATTTATTTATTTATTTTTTTGTTA-GTATT-TATG
1 TGTATTTTATTTATTTATTTATTTTTTTATTATGTATTATATA
* *
6660511 TGTATTTTATTTATATATATATATTTTTTAT
1 TGTATTTTATTTATTTATTTAT-TTTTTTAT
6660542 CTTTTTTATT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
40 7 0.12
41 14 0.23
42 12 0.20
43 5 0.08
44 4 0.07
45 14 0.23
46 4 0.07
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (43 bp):
TGTATTTTATTTATTTATTTATTTTTTTATTATGTATTATATA
Found at i:6660572 original size:53 final size:55
Alignment explanation
Indices: 6660467--6660577 Score: 124
Period size: 55 Copynumber: 2.1 Consensus size: 55
6660457 TATGTATTAA
* * *
6660467 TATATGTATATATTTATTTATTTATTTTTTTGTTAGTATTTATGTGTATTTTATT
1 TATATATATATATTTATTTATTTATTTTATTGTTAGTATTTATGTGTATTTTACT
*
6660522 TATATATATATATTT-TTTATCTT-TTTTATT-TTATTCATTT-T-TGTATTTTTACT
1 TATATATATATATTTATTTAT-TTATTTTATTGTTAGT-ATTTATGTGTA-TTTTACT
6660575 TAT
1 TAT
6660578 CTAATTATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
52 4 0.08
53 14 0.29
54 15 0.31
55 16 0.33
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.68
Consensus pattern (55 bp):
TATATATATATATTTATTTATTTATTTTATTGTTAGTATTTATGTGTATTTTACT
Found at i:6661058 original size:31 final size:31
Alignment explanation
Indices: 6661000--6661067 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
6660990 ATTTTCAGAA
*
6661000 TCCGGCGAA-AATTCCGGCGAAATTTGAATTT
1 TCCGGC-AACAATTCCGGCGAAATTTGAAGTT
*
6661031 TTCGGCAACAATTCCGGCGAACA-TTGAAGTT
1 TCCGGCAACAATTCCGGCGAA-ATTTGAAGTT
6661062 TCCGGC
1 TCCGGC
6661068 GACCTACCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 2 0.06
31 29 0.91
32 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (31 bp):
TCCGGCAACAATTCCGGCGAAATTTGAAGTT
Found at i:6661398 original size:5 final size:5
Alignment explanation
Indices: 6661388--6661425 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
6661378 CAGCCCCCCT
6661388 CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCGAG CCG
6661426 CCAAGCCGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.18, C:0.42, G:0.39, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:6661521 original size:13 final size:13
Alignment explanation
Indices: 6661503--6661530 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6661493 TTTTTCTTTG
6661503 TTTATTTGTTTAT
1 TTTATTTGTTTAT
6661516 TTTATTTGTTTAT
1 TTTATTTGTTTAT
6661529 TT
1 TT
6661531 ATTAGATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (13 bp):
TTTATTTGTTTAT
Found at i:6661672 original size:27 final size:27
Alignment explanation
Indices: 6661642--6661695 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
6661632 AAGTTGAAAG
6661642 TATCAATTTTCCTT-AGAAATAAATTTC
1 TATCAATTTT-CTTCAGAAATAAATTTC
6661669 TATCAATTTTCTTCAGAAATAAATTTC
1 TATCAATTTTCTTCAGAAATAAATTTC
6661696 AAAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 3 0.12
27 23 0.88
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (27 bp):
TATCAATTTTCTTCAGAAATAAATTTC
Found at i:6661942 original size:59 final size:59
Alignment explanation
Indices: 6661669--6662041 Score: 454
Period size: 59 Copynumber: 6.2 Consensus size: 59
6661659 AATAAATTTC
*
6661669 TATCAATTTT-CTTCAG-AAATAAATTTCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAG
1 TATCAATTTTCCTT-AGAAAATAAATTTC--AAAAAAAATATTTTTGGGGAAAAGTTGAAAG
* * *
6661729 TATCAATTTTCCTTA-AGAATAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAG
1 TATCAATTTTCCTTAGAAAATAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAG
6661787 TATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAAAAAAGTATTTTTGGGGAAAAGTTGAAAG
1 TATCAATTTTCCTT---AG-AAAATAAATTT-CAAAAAAAA-TATTTTTGGGGAAAAGTTGAAAG
*
6661852 TATCAATTTT-CTTTGAAAATCAAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAG
1 TATCAATTTTCCTTAGAAAAT--AAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAG
* *** *
6661912 TATCAATTTGCCTTAG-AAATAAATTTTCAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAG
1 TATCAATTTTCCTTAGAAAATAAA-TTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAG
* * *
6661971 TATCAATTTTCCTT-GAAAATCAAAATTTC-CAAAAAATATTTTTGGAGAAAAGTTGAAAA
1 TATCAATTTTCCTTAGAAAAT--AAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAG
6662030 TATCAATTTTCC
1 TATCAATTTTCC
6662042 CTAAAAAAAA
Statistics
Matches: 277, Mismatches: 20, Indels: 33
0.84 0.06 0.10
Matches are distributed among these distances:
58 48 0.17
59 83 0.30
60 66 0.24
61 21 0.08
62 6 0.02
63 10 0.04
64 11 0.04
65 32 0.12
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (59 bp):
TATCAATTTTCCTTAGAAAATAAATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAG
Found at i:6665838 original size:8 final size:7
Alignment explanation
Indices: 6665825--6665891 Score: 73
Period size: 7 Copynumber: 9.4 Consensus size: 7
6665815 ATGAAAAATG
*
6665825 AGAAAAG
1 AGAAAAA
6665832 AGAAAAA
1 AGAAAAA
*
6665839 AAAAAAA
1 AGAAAAA
6665846 AGAAAAA
1 AGAAAAA
*
6665853 A-AAAAG
1 AGAAAAA
6665859 AGAAAAA
1 AGAAAAA
*
6665866 TGAAAAA
1 AGAAAAA
6665873 ATGAAAAA
1 A-GAAAAA
6665881 ATGAAAAA
1 A-GAAAAA
6665889 AGA
1 AGA
6665892 TATCCAAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
6 5 0.10
7 31 0.61
8 15 0.29
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (7 bp):
AGAAAAA
Found at i:6665838 original size:16 final size:16
Alignment explanation
Indices: 6665817--6665891 Score: 81
Period size: 16 Copynumber: 5.0 Consensus size: 16
6665807 AACACTGGAT
*
6665817 GAAAAATGAGAAAAGA
1 GAAAAATGAAAAAAGA
*
6665833 GAAAAA--AAAAAAAA
1 GAAAAATGAAAAAAGA
6665847 G-AAAA--AAAAAAGA
1 GAAAAATGAAAAAAGA
6665860 GAAAAATGAAAAAATGA
1 GAAAAATGAAAAAA-GA
6665877 -AAAAATGAAAAAAGA
1 GAAAAATGAAAAAAGA
6665892 TATCCAAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
13 12 0.23
14 11 0.21
15 2 0.04
16 25 0.48
17 2 0.04
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (16 bp):
GAAAAATGAAAAAAGA
Found at i:6665862 original size:27 final size:28
Alignment explanation
Indices: 6665827--6665881 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
6665817 GAAAAATGAG
6665827 AAAAGAGAAAAA-AAAAAAAAGAAAAAA
1 AAAAGAGAAAAATAAAAAAAAGAAAAAA
* *
6665854 AAAAGAGAAAAATGAAAAAATGAAAAAA
1 AAAAGAGAAAAATAAAAAAAAGAAAAAA
6665882 TGAAAAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.04
Consensus pattern (28 bp):
AAAAGAGAAAAATAAAAAAAAGAAAAAA
Found at i:6665862 original size:34 final size:35
Alignment explanation
Indices: 6665818--6665889 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
6665808 ACACTGGATG
*
6665818 AAAAATGAGAAAAGA-GAAAAAA-AAAAAAAGAAAA
1 AAAAAAGAGAAAA-ATGAAAAAAGAAAAAAAGAAAA
*
6665852 AAAAAAGAGAAAAATGAAAAAATGAAAAAATGAAAA
1 AAAAAAGAGAAAAATGAAAAAA-GAAAAAAAGAAAA
6665888 AA
1 AA
6665890 GATATCCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 1 0.03
34 19 0.58
36 13 0.39
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.06
Consensus pattern (35 bp):
AAAAAAGAGAAAAATGAAAAAAGAAAAAAAGAAAA
Found at i:6666585 original size:12 final size:12
Alignment explanation
Indices: 6666567--6666600 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
6666557 GTGATGGTGG
6666567 ATGAAATTTGTT
1 ATGAAATTTGTT
*
6666579 TTGAAATTTGTT
1 ATGAAATTTGTT
6666591 ATGAAATTTG
1 ATGAAATTTG
6666601 CTAGCACTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (12 bp):
ATGAAATTTGTT
Found at i:6667210 original size:42 final size:41
Alignment explanation
Indices: 6667137--6667710 Score: 823
Period size: 42 Copynumber: 14.0 Consensus size: 41
6667127 GTCTAGGAGT
*
6667137 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* *
6667177 ATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
6667219 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
6667260 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
6667300 ATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
6667342 ATTTACTTTTCAAAATTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
6667382 ATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
6667424 ATTTACTTTTCCAAAGTCGTGGTGCTTCTGTTTAGAGGAGCA
1 ATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
6667466 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGTA
1 ATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
6667508 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
6667548 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
6667590 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
6667630 ATTTACTTTTCC-AAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
6667670 ATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTACTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
6667711 TTTGGTAAAA
Statistics
Matches: 491, Mismatches: 21, Indels: 42
0.89 0.04 0.08
Matches are distributed among these distances:
39 9 0.02
40 168 0.34
41 91 0.19
42 214 0.44
43 9 0.02
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (41 bp):
ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:6667331 original size:82 final size:81
Alignment explanation
Indices: 6667137--6667710 Score: 876
Period size: 82 Copynumber: 7.0 Consensus size: 81
6667127 GTCTAGGAGT
*
6667137 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAG-TCGTGG
1 ATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAGTTCGT--
*
6667199 TACCTCTGTTTAGAGGAGCA
62 TGCCTCTGTTTAGAGGAGCA
6667219 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCC
1 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCC
6667284 TCTGTTTAGAGGAGCA
66 TCTGTTTAGAGGAGCA
*
6667300 ATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAATTCGTTGC
1 ATTTACTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
6667365 CTCTGTTTAGAGGAGCA
65 CTCTGTTTAGAGGAGCA
6667382 ATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG-TCGTGG
1 ATTTACTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCGT--
*
6667446 TGCTTCTGTTTAGAGGAGCA
62 TGCCTCTGTTTAGAGGAGCA
* *
6667466 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGTAATTTACTTTTCAAAGTTCGTTGC
1 ATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
6667531 CTCTGTTTAGAGGAGCA
65 CTCTGTTTAGAGGAGCA
*
6667548 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
1 ATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGC
6667613 CTCTGTTTAGAGGAGCA
65 CTCTGTTTAGAGGAGCA
*
6667630 ATTTACTTTTCC-AAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAG-TCGTG
1 ATTTAC-TTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTTCGT-
6667691 GTGCCTCTGTTTAGAGGAGC
62 -TGCCTCTGTTTAGAGGAGC
6667711 TTTGGTAAAA
Statistics
Matches: 468, Mismatches: 11, Indels: 26
0.93 0.02 0.05
Matches are distributed among these distances:
80 33 0.07
81 41 0.09
82 283 0.60
83 39 0.08
84 67 0.14
85 5 0.01
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (81 bp):
ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCC
TCTGTTTAGAGGAGCA
Found at i:6667735 original size:9 final size:9
Alignment explanation
Indices: 6667717--6667805 Score: 116
Period size: 9 Copynumber: 10.3 Consensus size: 9
6667707 GAGCTTTGGT
6667717 AAAA-AAAA
1 AAAACAAAA
6667725 AAAAC-AAA
1 AAAACAAAA
6667733 AAAACAAAA
1 AAAACAAAA
6667742 AAAAC--AA
1 AAAACAAAA
6667749 AAAAC-AAA
1 AAAACAAAA
*
6667757 AAAACCAAA
1 AAAACAAAA
6667766 AAAACAAAA
1 AAAACAAAA
6667775 AAAACAAAAA
1 AAAAC-AAAA
6667785 AAAACAAAA
1 AAAACAAAA
*
6667794 AAAACCAAA
1 AAAACAAAA
6667803 AAA
1 AAA
6667806 TGTTGAGTTG
Statistics
Matches: 74, Mismatches: 2, Indels: 9
0.87 0.02 0.11
Matches are distributed among these distances:
7 7 0.09
8 19 0.26
9 39 0.53
10 9 0.12
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAACAAAA
Found at i:6667743 original size:17 final size:17
Alignment explanation
Indices: 6667717--6667805 Score: 128
Period size: 17 Copynumber: 5.2 Consensus size: 17
6667707 GAGCTTTGGT
6667717 AAAA-AAAAAAAACAAA
1 AAAACAAAAAAAACAAA
6667733 AAAACAAAAAAAAC-AA
1 AAAACAAAAAAAACAAA
*
6667749 AAAACAAAAAAACCAAA
1 AAAACAAAAAAAACAAA
6667766 AAAACAAAAAAAACAAAAA
1 AAAACAAAAAAAAC--AAA
6667785 AAAACAAAAAAAACCAAA
1 AAAACAAAAAAAA-CAAA
6667803 AAA
1 AAA
6667806 TGTTGAGTTG
Statistics
Matches: 66, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
16 19 0.29
17 24 0.36
18 6 0.09
19 16 0.24
20 1 0.02
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAACAAAAAAAACAAA
Found at i:6667805 original size:1 final size:1
Alignment explanation
Indices: 6667717--6667797 Score: 81
Period size: 1 Copynumber: 81.0 Consensus size: 1
6667707 GAGCTTTGGT
* * * * ** * *
6667717 AAAAAAAAAAAACAAAAAAACAAAAAAAACAAAAAACAAAAAAACCAAAAAAACAAAAAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
6667782 AAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAA
6667798 CCAAAAAATG
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6667805 original size:8 final size:8
Alignment explanation
Indices: 6667717--6667796 Score: 101
Period size: 8 Copynumber: 9.6 Consensus size: 8
6667707 GAGCTTTGGT
6667717 AAAAA-AA
1 AAAAACAA
6667724 AAAAACAA
1 AAAAACAA
6667732 AAAAACAA
1 AAAAACAA
6667740 AAAAA-ACA
1 AAAAACA-A
6667748 AAAAACAA
1 AAAAACAA
6667756 AAAAACCAA
1 AAAAA-CAA
6667765 AAAAACAAA
1 AAAAAC-AA
6667774 AAAAACAAAA
1 AAAAAC--AA
6667784 AAAAACAA
1 AAAAACAA
6667792 AAAAA
1 AAAAA
6667797 ACCAAAAAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 11
0.86 0.00 0.14
Matches are distributed among these distances:
7 6 0.09
8 35 0.52
9 17 0.25
10 9 0.13
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAACAA
Found at i:6668118 original size:14 final size:17
Alignment explanation
Indices: 6668099--6668135 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
6668089 TATATATATA
6668099 TATTTTA-TC-TTTTT-
1 TATTTTATTCATTTTTG
6668113 TATTTTATTCATTTTTG
1 TATTTTATTCATTTTTG
6668130 TATTTT
1 TATTTT
6668136 TACTTATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 7 0.35
15 2 0.10
16 5 0.25
17 6 0.30
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (17 bp):
TATTTTATTCATTTTTG
Found at i:6669291 original size:117 final size:117
Alignment explanation
Indices: 6669159--6669618 Score: 533
Period size: 116 Copynumber: 3.9 Consensus size: 117
6669149 AAAAAATTCC
6669159 AAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT-AAATTTCCAAAAA
1 AAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAAATTTCCAAAAA
* *
6669222 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAGAATAAATTTTCAAA
66 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTAAGAATAAATTTTC--A
*
6669276 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAGAAAA-ATAAATTTCCAA
1 AAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTT--AGAAAATA-AAATTTCC-A
* * *
6669340 AAAAAAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCA
62 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-T--AAG---AATAAATTTTCA
* * * * *
6669402 AAAAAAA-GTTTTTGGGGAAAAGTTGAAAGTATCAATTTT-CTTTGAAAATCAAAATTTCAAAAA
1 AAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAAT-AAAATTTC-CAAA
* *
6669465 AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTGCCTTAGAAATAAATTTTC-
64 AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTAAG-AATAAATTTTCA
*** *
6669519 -AAAAAGGGTTTTT-GAGGAAAGTTGAAAGTATCAATTTTCCTT-GAAAATTCAAAATTTCCAAA
1 AAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAA-T-AAAATTTCCAAA
* *
6669581 AAATATTTTTGGAGAAAAGTTGAAAATATCAATTTTCC
64 AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
6669619 CTAAAAAAAA
Statistics
Matches: 303, Mismatches: 22, Indels: 37
0.84 0.06 0.10
Matches are distributed among these distances:
116 71 0.23
117 62 0.20
118 11 0.04
119 2 0.01
120 5 0.02
121 8 0.03
122 44 0.15
123 46 0.15
124 4 0.01
125 32 0.11
126 8 0.03
128 10 0.03
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.33
Consensus pattern (117 bp):
AAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAAATTTCCAAAAA
ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTAAGAATAAATTTTCA
Found at i:6669636 original size:60 final size:59
Alignment explanation
Indices: 6669142--6669636 Score: 465
Period size: 60 Copynumber: 8.3 Consensus size: 59
6669132 TTTCTTTAAA
* *
6669142 TAAAAATAAAA-AATTCCAAAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAA-AAAATATTTCC-AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCT
* * * *
6669202 T-AGAAATAA-ATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTC-
1 TAAAAAAAAATATTTCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCT
* * * *
6669258 TCAGAATAAAT-TTTCAAAAAAAAAATATTTTTAGG-GAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAAAAATATTTC---CAAAAAATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTCCT
* *
6669319 TAAAGAAAAATAAATTTCCAAAAAAAAATTTTTAGG-GAAAAGTTGAAAGTATCAATTTTCCT
1 TAAA-AAAAA-ATATTTCC-AAAAAATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTCCT
* * *
6669381 TAAAAGAAAAATAAATTTCCAAAAAAAAGTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCTT
1 TAAAA-AAAAAT--ATTTCCAAAAAATA-TTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCT
** * * *
6669444 TGAAAATCAAA-ATTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTGCCT
1 T-AAAAAAAAATATTTC-CAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCT
* * *** *
6669504 TAGAAATAAAT-TTT-CAAAAAGGGTTTTT-GAGGAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAAAAATATTTCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCT
** * *
6669560 TGAAAATTCAAA-ATTTCCAAAAAATATTTTTGGAGAAAAGTTGAAAATATCAATTTTCCC
1 T-AAAA-AAAAATATTTCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCT
6669620 TAAAAAAAAATCATTTC
1 TAAAAAAAAAT-ATTTC
6669637 TTTCCTTCCT
Statistics
Matches: 364, Mismatches: 45, Indels: 52
0.79 0.10 0.11
Matches are distributed among these distances:
56 27 0.07
57 61 0.17
58 17 0.05
59 27 0.07
60 107 0.29
61 13 0.04
62 63 0.17
63 41 0.11
64 8 0.02
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.33
Consensus pattern (59 bp):
TAAAAAAAAATATTTCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCT
Done.