Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009574.1 Hibiscus syriacus cultivar Beakdansim tig00116939_pilon, 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: 2686660
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 14
Found at i:8609 original size:24 final size:24
Alignment explanation
Indices: 8565--8611 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
8555 ATAAAGAACC
*
8565 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
8589 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
8612 CAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:9682 original size:16 final size:17
Alignment explanation
Indices: 9657--9690 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9647 ACGAGGTGCC
9657 ACATTGACTTTT-TAAA
1 ACATTGACTTTTATAAA
*
9673 ACATTTACTTTTATAAA
1 ACATTGACTTTTATAAA
9690 A
1 A
9691 TCTCGTAAAA
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:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (17 bp):
ACATTGACTTTTATAAA
Found at i:11861 original size:134 final size:133
Alignment explanation
Indices: 11616--12169 Score: 637
Period size: 134 Copynumber: 4.1 Consensus size: 133
11606 TTTAATTTGT
* * * *
11616 AGATCTGATATTCCCTTCAGA-AGAAGCCGAACATGTCCCTCTTTTCTAACATTTGATATTCCTT
1 AGATCTGATATTCCCTTCAGAGA-AAGCGGAACATGTCCCTCTTTTCCAAGATTTGATATTCCCT
*** *
11680 GAGTGACAGCAGAACAAGTCTTTACCGATTTAATCTTCCCTGAGTGACAGTAGAATGGATAAACT
65 GAGTGACAGCAGAACAAGTCTACCCCGATTCAATCTTCCCTGAGTGACAGT-GAATGGATAAACT
*
11745 CCCTC
129 CCCCC
* * * * *
11750 AGATATGATATTCCCTTAAGAGAAAGCGGAACAAGTCTCTCTTTTCCAAGATTTGATATTCTCTG
1 AGATCTGATATTCCCTTCAGAGAAAGCGGAACATGTCCCTCTTTTCCAAGATTTGATATTCCCTG
* * * * * *
11815 AGTGATAGCGGAACAAGTCTACCCCAATTCAATCTTCCCTTAGTGACAACTGAATGGATCAACTC
66 AGTGACAGCAGAACAAGTCTACCCCGATTCAATCTTCCCTGAGTGAC-AGTGAATGGATAAACTC
11880 CCCC
130 CCCC
* * * *
11884 AGATATGATATTCCCTTCAGAGAAAGTGGAACATGTCACTCTTTTCCAAGATTTTATATTCCCTG
1 AGATCTGATATTCCCTTCAGAGAAAGCGGAACATGTCCCTCTTTTCCAAGATTTGATATTCCCTG
* * * * * *
11949 AGTGACAACATAACAAGTTTACCCCGATTCAATCTTCCCTAAGTGATAACG-GAATGTATAAACT
66 AGTGACAGCAGAACAAGTCTACCCCGATTCAATCTTCCCTGAGTGA-CA-GTGAATGGATAAACT
12013 CCCCC
129 CCCCC
* * *
12018 AAGGATCTGATATTCCCTTCAGAGAAAGTGGAACATGTCCCTATTTTCCAGGATTTGATATTCCC
1 -A-GATCTGATATTCCCTTCAGAGAAAGCGGAACATGTCCCTCTTTTCCAAGATTTGATATTCCC
* * * * * *
12083 CGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGTAATAGTGAAATGGATCAAC
64 TGAGTGACAGCAGAACAAGTCTACCCCGATTCAATCTTCCCTGAGTGACAGTG-AATGGATAAAC
*
12148 AT-CCTC
128 -TCCCCC
*
12154 ATATCTGATATTCCCT
1 AGATCTGATATTCCCT
12170 GAGTGATAGC
Statistics
Matches: 356, Mismatches: 55, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
134 239 0.67
135 7 0.02
136 109 0.31
137 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (133 bp):
AGATCTGATATTCCCTTCAGAGAAAGCGGAACATGTCCCTCTTTTCCAAGATTTGATATTCCCTG
AGTGACAGCAGAACAAGTCTACCCCGATTCAATCTTCCCTGAGTGACAGTGAATGGATAAACTCC
CCC
Found at i:12145 original size:270 final size:267
Alignment explanation
Indices: 11616--12169 Score: 686
Period size: 270 Copynumber: 2.1 Consensus size: 267
11606 TTTAATTTGT
* * *
11616 AGATCTGATATTCCCTTCAGAAGAAGCCGAACATGTCCCTCTTTTCTAACATTTGATATTCCTTG
1 AGATCTGATATTCCCTTCAGAAGAAGCCGAACATGTCACTCTTTTCCAACATTTGATATTCCCTG
* * * **
11681 AGTGACAGCAGAACAAGTCTTTACCGATTTAATCTTCCCTGAGTGACAGTAGAATGGATAAACTC
66 AGTGACAACAGAACAAG-CTTTACCGATTCAATCTTCCCTAAGTGACAACAGAATGGATAAACTC
* * *
11746 CCTCAGATATGATATTCCCTTAAGAGAAAGCGGAACAAGTCTCTCTTTTCCAAGATTTGATATTC
130 CCCCAGATATGATATTCCCTTAAGAGAAAGCGGAACAAGTCCCTATTTTCCAAGATTTGATATTC
* * * *
11811 TCTGAGTGATAGCGGAACAAGTCTACCCCAATTCAATCTTCCCTTAGTGACAACTGAATGGATCA
195 CCCGAGTGACAGCGGAACAAGTCTACCCCAATTCAATCTTCCCTGAGTGACAACTGAATGGATCA
11876 AC-TCCCCC
260 ACAT-CCCC
* ** * *
11884 AGATATGATATTCCCTTCAG-AGAAAGTGGAACATGTCACTCTTTTCCAAGATTTTATATTCCCT
1 AGATCTGATATTCCCTTCAGAAG-AAGCCGAACATGTCACTCTTTTCCAACATTTGATATTCCCT
* * * *
11948 GAGTGACAACATAACAAG-TTTACCCCGATTCAATCTTCCCTAAGTGATAACGGAATGTATAAAC
65 GAGTGACAACAGAACAAGCTTTA--CCGATTCAATCTTCCCTAAGTGACAACAGAATGGATAAAC
* * * * *
12012 TCCCCCAAGGATCTGATATTCCCTTCAGAGAAAGTGGAACATGTCCCTATTTTCCAGGATTTGAT
128 TCCCCC-A-GATATGATATTCCCTTAAGAGAAAGCGGAACAAGTCCCTATTTTCCAAGATTTGAT
* * *
12077 ATTCCCCGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATCTTCCCTGAGT-A-ATAGTGAAAT
191 ATTCCCCGAGTGACAGCGGAACAAGTCTACCCCAATTCAATCTTCCCTGAGTGACA-ACTG-AAT
*
12140 GGATCAACATCCTC
254 GGATCAACATCCCC
*
12154 ATATCTGATATTCCCT
1 AGATCTGATATTCCCT
12170 GAGTGATAGC
Statistics
Matches: 243, Mismatches: 35, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
266 4 0.02
267 2 0.01
268 108 0.44
269 5 0.02
270 123 0.51
271 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (267 bp):
AGATCTGATATTCCCTTCAGAAGAAGCCGAACATGTCACTCTTTTCCAACATTTGATATTCCCTG
AGTGACAACAGAACAAGCTTTACCGATTCAATCTTCCCTAAGTGACAACAGAATGGATAAACTCC
CCCAGATATGATATTCCCTTAAGAGAAAGCGGAACAAGTCCCTATTTTCCAAGATTTGATATTCC
CCGAGTGACAGCGGAACAAGTCTACCCCAATTCAATCTTCCCTGAGTGACAACTGAATGGATCAA
CATCCCC
Found at i:21043 original size:23 final size:23
Alignment explanation
Indices: 21017--21100 Score: 114
Period size: 23 Copynumber: 3.7 Consensus size: 23
21007 TATAATTACA
* *
21017 ATAACATATTAGGTAACGCTTAT
1 ATAATATAATAGGTAACGCTTAT
* *
21040 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAACGCTTAT
*
21063 ATAATATAATAGATAACGCTTAT
1 ATAATATAATAGGTAACGCTTAT
*
21086 ATAATAAAATAGGTA
1 ATAATATAATAGGTA
21101 TTTAACCGAA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.33
Consensus pattern (23 bp):
ATAATATAATAGGTAACGCTTAT
Found at i:21841 original size:200 final size:195
Alignment explanation
Indices: 21168--21890 Score: 799
Period size: 198 Copynumber: 3.6 Consensus size: 195
21158 TAGGTAGCGC
* * * * *
21168 TTATATTGACCTATTTTATAAGTAAACCGGTATATTTATACCGGTAACATTACAAATTTACCTAT
1 TTATGTTGACCTATTTTCTAA-T-AACCGGTATATTTATACCGGTTACATTATAAATTTACATAT
* * * *
21233 TACATTATAATTATCAGTTTCGATGTTTTTTGGATCGATACTTTTTATAAATGTATCGACACTAT
64 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC-TTTTAAAAATGTATCGACACTTT
* * * * * *
21298 ATGCGTTCACCCTTTTGGGTATTTATTCTGGAAAAAAGTATCGACACACCATTAAAAAGTGTCGA
128 ATGCGTGCACCCGTTTGGGCATTCATTCTGGACAAAAGTATCGACACA-AATTAAAAAGTGTCGA
*
21363 CACA
192 TACA
* ** * * *
21367 TTATGTAGACCTATTCTTACATAA-AACCGGTATAAATATACCGGTTATATTATAAAATTACGTA
1 TTATGTTGACCTATT-TT-C-TAATAACCGGTATATTTATACCGGTTACATTATAAATTTACATA
* * *
21431 TTACATTATAATTATGGGTTTTGATATTTTTGGGATCGATACTTTTTAAAAATGTATCGACACTT
63 TTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC-TTTTAAAAATGTATCGACACTT
** * * * * *
21496 TATTAGTGCACCCGTCT-GGCATTCA-TATGGACAAAATATATCGACACAAATTTAATAAGTATC
127 TATGCGTGCACCCGTTTGGGCATTCATTCTGGACAAAA-GTATCGACACAAA-TTAAAAAGTGTC
*
21559 GATACT
190 GATACA
* * * * *
21565 TTACGATGACCTATTTTCTCATAAAATCGGTATATTTATACCGGTTACATTGTAAATTTACATAT
1 TTATGTTGACCTATTTTCT-A-ATAACCGGTATATTTATACCGGTTACATTATAAATTTACATAT
*
21630 TACATTATAATTATCGGTTTCGAT-TTTATTGGGATCGATACTTTTAATAATTGTATCGACACTT
64 TACATTATAATTATCGGTTTCGATGTTT-TTGGGATCGATACTTTTAA-AAATGTATCGACACTT
* *
21694 TATGCGTGCACCCCGTTTGGGCATTCATTCTGTACAATAAGTATCAACACAAATTAAACAAGTGT
127 TATGCGTGCA-CCCGTTTGGGCATTCATTCTGGACAA-AAGTATCGACACAAATTAAA-AAGTGT
21759 CGATACA
189 CGATACA
* * ** * *
21766 TTATGTTTACCTGTTTTCTAATTAACCGGTATATTTATAATGGTTACATTGTTAATTTACATATT
1 TTATGTTGACCTATTTTCTAA-TAACCGGTATATTTATACCGGTTACATTATAAATTTACATATT
*
21831 ACATTATAATTATTGGTTTCGATGTTCTTTGGG-TCGATACTTTTAGAAAATGTATCGACA
65 ACATTATAATTATCGGTTTCGATGTT-TTTGGGATCGATACTTTTA-AAAATGTATCGACA
21891 TATTTAGGTA
Statistics
Matches: 439, Mismatches: 66, Indels: 37
0.81 0.12 0.07
Matches are distributed among these distances:
195 1 0.00
196 2 0.00
197 22 0.05
198 134 0.31
199 123 0.28
200 99 0.23
201 52 0.12
202 6 0.01
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (195 bp):
TTATGTTGACCTATTTTCTAATAACCGGTATATTTATACCGGTTACATTATAAATTTACATATTA
CATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAAAAATGTATCGACACTTTATG
CGTGCACCCGTTTGGGCATTCATTCTGGACAAAAGTATCGACACAAATTAAAAAGTGTCGATACA
Found at i:25769 original size:201 final size:200
Alignment explanation
Indices: 25216--25978 Score: 820
Period size: 199 Copynumber: 3.8 Consensus size: 200
25206 CGTTATTTAC
* * * *
25216 AAGTATCGACACAAATCTAAAACA-CGTCGATACATTATGTTCACCTATTTTCTCA-AAAAACTA
1 AAGTATCGACACAAATCTAAAA-AGTGTCGACACATTATGTACACCTATTTTCTCACAAAAACTG
* *
25279 GTACATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTT
65 GTACATTTATACCGGTTACATTGTAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * * * * *
25344 TGAGATCGATACTTTTTATAAATGTATCGACACTTTCTGCGTTCACCCGTCTTTGGGCATTCATT
130 TGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTTCAACC-TTTTTGGACATTCATT
*
25409 CTGGAAAA
194 CAGG-AAA
* * * * * *
25417 AAGTATTGACACATCAT-TTAAAAGTGTCGACAAATTATGTAGA-C-AATTTCTCACAAAAAC-G
1 AAGTATCGACACA-AATCTAAAAAGTGTCGACACATTATGTACACCTATTTTCTCACAAAAACTG
* * * *
25478 GTATATTTATACCAGTTATATTAG-AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
65 GTACATTTATACCGGTTACATT-GTAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * * * ** *
25542 TAGGGATCGATACTGTTTAAAAATGTATCGACACTTTATGGGTGCAACCTTTTTGGATTTTCCTT
129 TTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTTCAACCTTTTTGGACATTCATT
*
25607 GAGGACCAA
194 CAGGA--AA
* * * * * *
25616 AAGTATCGACATAAATCTACAACGTGTCAATACATTATGTTCACCTATTTTCT-A-AAACAACTG
1 AAGTATCGACACAAATCTAAAAAGTGTCGACACATTATGTACACCTATTTTCTCACAAA-AACTG
* * *
25679 GTACATTTGTACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
65 GTACATTTATACCGGTTACATTGTAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * *
25744 TGGGATCAATACTTTTTATAAATGTATCGACACTTTATGCGTTC-ACCCTTTTGGACATTCATTC
130 TGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTTCAACCTTTTTGGACATTCATTC
*
25808 TA-GATA
195 -AGGAAA
* * * *
25814 AAGTATCGACACAATAT-TAAAAATTGTCGACACATTATGTAGACCGA--TTCTCACATAAAACC
1 AAGTATCGACACAA-ATCTAAAAAGTGTCGACACATTATGTACACCTATTTTCTCACA-AAAACT
* ** * * * *
25876 GGTATAAATACACC-GTT-TATTGCAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
64 GGTACATTTATACCGGTTACATTGTAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTT
25939 TTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATG
129 TTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATG
25979 GGAAACTTTA
Statistics
Matches: 461, Mismatches: 84, Indels: 39
0.79 0.14 0.07
Matches are distributed among these distances:
196 84 0.18
197 5 0.01
198 63 0.14
199 143 0.31
200 32 0.07
201 132 0.29
202 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.37
Consensus pattern (200 bp):
AAGTATCGACACAAATCTAAAAAGTGTCGACACATTATGTACACCTATTTTCTCACAAAAACTGG
TACATTTATACCGGTTACATTGTAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
GGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTTCAACCTTTTTGGACATTCATTCA
GGAAA
Found at i:26304 original size:11 final size:11
Alignment explanation
Indices: 26288--26339 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
26278 TATACATAAC
26288 AATGTTCAAAT
1 AATGTTCAAAT
26299 AATGTTCAAAT
1 AATGTTCAAAT
* *
26310 AATTTATACATAAC
1 AATGT-T-CA-AAT
26324 AATGTTCAAAT
1 AATGTTCAAAT
26335 AATGT
1 AATGT
26340 ACCCACAACG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 22 0.65
12 3 0.09
13 3 0.09
14 6 0.18
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.37
Consensus pattern (11 bp):
AATGTTCAAAT
Found at i:29676 original size:398 final size:399
Alignment explanation
Indices: 28835--31160 Score: 3225
Period size: 398 Copynumber: 5.9 Consensus size: 399
28825 ATTTAAAATG
* * * * * * * * * *
28835 GTATCGACACAAATTTAACAATTGTCTATACTTTATG-ATTACCTATTTTCTCATAAAACTGGTA
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTA-GACCTATTCTCACATAAAACCGGTA
* * *
28899 TATTTATACCGGTTACATTA-AAAATTTACCTATTACATTATAATTATC-GCTTTCGATGTTATT
65 TATTTATACCGGTTATATTACAAAA-TTACCTATTACATTATAATTATCTG-TTTCGATATTTTT
* * * * * * *
28962 GGGATCGAGACTTTTTAAAAATGTATCGACACTTTATGCGTGCA--ACTTTTGG-ATTTCCTTCT
128 GGGATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCA-TTCATTCT
*
29024 GGACAAAAAGTATCGACAC-------ACAAGTGTCGATACATGT-TGTAGACCTATTCTTC-CAT
192 GGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACAT-TATGTAGACCTATTC-TCACAT
* * ** * * **
29080 AAAACCGGTAT-TGTTATACCGATTACATTGTAAATTTACCTATTACATTATATTTATAGGGTTT
255 AAAACCGGTATAT-TTATACCGGTTATATTACAAAATTACCTATTACATTATAATTAT-CTGTTT
* * * * * *
29144 CGATGTTTTTGGTATCGACACTTTTTATAAATGTATTGGCACTTTATTCGTTCATCATTTTTTGT
318 CGATGTTTTTGGGATCGACAC-TTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGC
29209 ATTCATTCTGGACAAAAA
382 ATTCATTCTGGACAAAAA
* * * *
29227 GTATCAACACAAAATAAAAAAGTATCGATACATTATGTAGACCTATTCTCACATAAAATCGATAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* * *
29292 ATTTATACCAGTTATATTAAAAAATTACCTATTACATTATAATTATCTGTTTCAATATTTTTGGG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATATTTTTGGG
* *
29357 ATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCCTTTTTGGCATTCATTATGGAC
131 ATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
* *
29422 AAAAAGTATCGACACAAAATAAAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAATC
196 AAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACC
* *
29487 GGTATATTTATACCGGTTATATTACAAAATTAACTATTACATTATAATTATCTGTTTTGATGTTT
261 GGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTT
*
29552 TTGGGATCGACACATTTTATATATGTATCGACAC-AT-TTCGTTCATCATTTTTGGCATTCATTC
326 TTGGGATCGACAC-TTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTC
29615 TGGACAAAAA
390 TGGACAAAAA
*
29625 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACATATTCTCACATAAAACCGGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* *
29690 ATTTATACCGGTTGTATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATATTTTTGGG
* * *
29755 ATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCACCATTTTTGACATTCAATCTGGAC
131 ATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
* *
29820 AAAAAGTATCGACAC--AA-AAAAAAGTGTCAATACATTATGTAGACCTATTCTCACATAAAGCC
196 AAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACC
*
29882 CG-ATATATTATACCGGTTATATTACAAAATTACCTATTACATTA-AATTATCTGTTTCGATGTT
261 GGTATAT-TTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTT
*
29945 TTTGGGATCGACACTTTTA-ATATGTA-CGACACTTTATTCGTTCATCATTTTTGGCATTCAATC
325 TTTGGGATCGACACTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTC
30008 TGGACAAAAA
390 TGGACAAAAA
** * *
30018 GTATCGACACAAAATAAAAAAGTGTTAATACATTATGTAGACCTATTCTCACGTAAAATCGGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* * *
30083 ATTTATAACGGTTATATTACAAAATTACCTATTACATTATAATTATATGTTTCAATGA-TTTTGG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGAT-ATTTTTGG
**
30147 GATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTT-TTATTCATTCTGGA
130 GATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGA
*
30211 CAAAAAGTATTGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAAC
195 CAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAAC
*
30276 TGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTA------TC--TGTT
260 CGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTT
* * *
30333 TTT-GGATCGACACTTTT-TATATGTATCGATAC-TTATTCGTTCATCATTTTTGGCATTCAATA
325 TTTGGGATCGACACTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTC
*
30395 TTGAC-AAAA
390 TGGACAAAAA
* **
30404 GTATCGATAC-AAATAAAAAAGTGTCGATACATTATGTAGATATATTCTCACATAAAACCGGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* *
30468 ATTTATACCTGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATATTTTTGGG
* *
30533 ATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTTGCATTCAATCTGGAC
131 ATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
* *
30598 AAAAAGTATCGACACAAAATAAAAAAATGTCGATACATTATGTAGACCTATTCTCACATAAAATC
196 AAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACC
* *
30663 GGTATATTTATACCGGTT-TATTAC-AAATTACCTATTACATTATAATTATTTGTTTCAATGTTT
261 GGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTT
* * *
30726 TTGGGATCGACAATTTTTATATATATATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTA
326 TTGGGATCGAC-ACTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTC
30791 TGGACAAAAA
390 TGGACAAAAA
** *
30801 GTATCGACACAAAATAAAAAAGTGTTAATACATTATGTAGACCTATTCCCACATAAAACCGGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* *
30866 ATTTATACCGGTTATATTACAAAATTACCAATTACATTATAATTATCTGTTTTGATA-TTTTGGG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATATTTTTGGG
30930 ATCGA-AC-TTTTATATA--TATCGACACATTTATTTTATTCGTTCATCATTTTTGGCATTCATT
131 ATCGACACTTTTTATATATGTATCGACAC------TTTATTCGTTCATCATTTTTGGCATTCATT
* *
30991 CTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTTGATACATTATGTAGACTTATTCTCACAT
190 CTGGACAAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACAT
* * * *
31056 AAAACCGGTATATTTATACTGGTTATTTTACAAAATTACCTATTACATTATAATTATATGTTTCA
255 AAAACCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCG
* * *
31121 ATGTTTTTAGGATCGACATGTTTTATAAATGTATCGACAC
320 ATGTTTTTGGGATCGACA-CTTTTATATATGTATCGACAC
31161 ATATGCTTAC
Statistics
Matches: 1740, Mismatches: 142, Indels: 95
0.88 0.07 0.05
Matches are distributed among these distances:
384 24 0.01
385 162 0.09
386 104 0.06
387 54 0.03
388 12 0.01
390 4 0.00
391 6 0.00
392 179 0.10
393 231 0.13
394 74 0.04
395 181 0.10
396 46 0.03
397 25 0.01
398 332 0.19
399 113 0.06
400 49 0.03
401 143 0.08
402 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (399 bp):
GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATATTTTTGGG
ATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
AAAAAGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACC
GGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTT
TTGGGATCGACACTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCT
GGACAAAAA
Found at i:29690 original size:198 final size:200
Alignment explanation
Indices: 28835--31160 Score: 3247
Period size: 198 Copynumber: 11.8 Consensus size: 200
28825 ATTTAAAATG
* * * * * * * * * *
28835 GTATCGACACAAATTTAACAATTGTCTATACTTTATG-ATTACCTATTTTCTCATAAAACTGGTA
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTA-GACCTATTCTCACATAAAACCGGTA
* *
28899 TATTTATACCGGTTACATTA-AAAATTTACCTATTACATTATAATTATC-GCTTTCGATGTTATT
65 TATTTATACCGGTTATATTACAAAA-TTACCTATTACATTATAATTATCTG-TTTCGATGTTTTT
* * * * * * *
28962 GGGATCGAGACTTTTTAAAAATGTATCGACACTTTATGCGTGCA--ACTTTTGG-ATTTCCTTCT
128 GGGATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCA-TTCATTCT
29024 GGACAAAAA
192 GGACAAAAA
*
29033 GTATCGACAC-------ACAAGTGTCGATACATGT-TGTAGACCTATTCTTC-CATAAAACCGGT
1 GTATCGACACAAAATAAAAAAGTGTCGATACAT-TATGTAGACCTATTC-TCACATAAAACCGGT
* * ** * * **
29089 AT-TGTTATACCGATTACATTGTAAATTTACCTATTACATTATATTTATAGGGTTTCGATGTTTT
64 ATAT-TTATACCGGTTATATTACAAAATTACCTATTACATTATAATTAT-CTGTTTCGATGTTTT
* * * * * *
29153 TGGTATCGACACTTTTTATAAATGTATTGGCACTTTATTCGTTCATCATTTTTTGTATTCATTCT
127 TGGGATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCT
29218 GGACAAAAA
192 GGACAAAAA
* * * *
29227 GTATCAACACAAAATAAAAAAGTATCGATACATTATGTAGACCTATTCTCACATAAAATCGATAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* * * *
29292 ATTTATACCAGTTATATTAAAAAATTACCTATTACATTATAATTATCTGTTTCAATATTTTTGGG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGG
* *
29357 ATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCCTTTTTGGCATTCATTATGGAC
131 ATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
29422 AAAAA
196 AAAAA
* *
29427 GTATCGACACAAAATAAAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAATCGGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* *
29492 ATTTATACCGGTTATATTACAAAATTAACTATTACATTATAATTATCTGTTTTGATGTTTTTGGG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGG
* *
29557 ATCGACACATTTTATATATGTATCGACAC-AT-TTCGTTCATCATTTTTGGCATTCATTCTGGAC
131 ATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
29620 AAAAA
196 AAAAA
*
29625 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACATATTCTCACATAAAACCGGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
*
29690 ATTTATACCGGTTGTATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGG
* * *
29755 ATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCACCATTTTTGACATTCAATCTGGAC
131 ATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
29820 AAAAA
196 AAAAA
* * *
29825 GTATCGACAC--AA-AAAAAAGTGTCAATACATTATGTAGACCTATTCTCACATAAAGCCCG-AT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
29886 ATATTATACCGGTTATATTACAAAATTACCTATTACATTA-AATTATCTGTTTCGATGTTTTTGG
66 AT-TTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGG
*
29950 GATCGACAC-TTTTA-ATATGTA-CGACACTTTATTCGTTCATCATTTTTGGCATTCAATCTGGA
130 GATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGA
30012 CAAAAA
195 CAAAAA
** * *
30018 GTATCGACACAAAATAAAAAAGTGTTAATACATTATGTAGACCTATTCTCACGTAAAATCGGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* * * *
30083 ATTTATAACGGTTATATTACAAAATTACCTATTACATTATAATTATATGTTTCAATGATTTTGGG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGG
**
30148 ATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTT-TTATTCATTCTGGAC
131 ATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
30212 AAAAA
196 AAAAA
* *
30217 GTATTGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACTGGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
30282 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTA------TC--TGTTTTT-GG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGG
* * * *
30338 ATCGACAC-TTTT-TATATGTATCGATAC-TTATTCGTTCATCATTTTTGGCATTCAATATTGAC
131 ATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
30400 -AAAA
196 AAAAA
* **
30404 GTATCGATAC-AAATAAAAAAGTGTCGATACATTATGTAGATATATTCTCACATAAAACCGGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
*
30468 ATTTATACCTGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGG
* *
30533 ATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTTGCATTCAATCTGGAC
131 ATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
30598 AAAAA
196 AAAAA
* *
30603 GTATCGACACAAAATAAAAAAATGTCGATACATTATGTAGACCTATTCTCACATAAAATCGGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* *
30668 ATTTATACCGGTT-TATTAC-AAATTACCTATTACATTATAATTATTTGTTTCAATGTTTTTGGG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGG
* * *
30731 ATCGACAATTTTTATATATATATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTATGGAC
131 ATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
30796 AAAAA
196 AAAAA
** *
30801 GTATCGACACAAAATAAAAAAGTGTTAATACATTATGTAGACCTATTCCCACATAAAACCGGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* * *
30866 ATTTATACCGGTTATATTACAAAATTACCAATTACATTATAATTATCTGTTTTGAT-ATTTTGGG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGG
30930 ATCGA-AC-TTTTATATA--TATCGACACATTTATTTTATTCGTTCATCATTTTTGGCATTCATT
131 ATCGACACTTTTTATATATGTATCGACAC------TTTATTCGTTCATCATTTTTGGCATTCATT
30991 CTGGACAAAAA
190 CTGGACAAAAA
* *
31002 GTATCGACACAAAATAAAAAAGTGTTGATACATTATGTAGACTTATTCTCACATAAAACCGGTAT
1 GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* * * * *
31067 ATTTATACTGGTTATTTTACAAAATTACCTATTACATTATAATTATATGTTTCAATGTTTTTAGG
66 ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGG
*
31132 ATCGACA-TGTTTTATAAATGTATCGACAC
131 ATCGACACT-TTTTATATATGTATCGACAC
31161 ATATGCTTAC
Statistics
Matches: 1917, Mismatches: 151, Indels: 112
0.88 0.07 0.05
Matches are distributed among these distances:
186 95 0.05
187 31 0.02
188 24 0.01
189 4 0.00
190 11 0.01
191 77 0.04
192 58 0.03
193 58 0.03
194 45 0.02
195 27 0.01
196 119 0.06
197 136 0.07
198 417 0.22
199 166 0.09
200 391 0.20
201 228 0.12
202 12 0.01
203 1 0.00
204 8 0.00
206 9 0.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (200 bp):
GTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
ATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATCTGTTTCGATGTTTTTGGG
ATCGACACTTTTTATATATGTATCGACACTTTATTCGTTCATCATTTTTGGCATTCATTCTGGAC
AAAAA
Found at i:31444 original size:19 final size:19
Alignment explanation
Indices: 31420--31468 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
31410 TTACATCCAC
31420 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
31439 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
31458 ATACAAAATTA
1 ATACAAAATTA
31469 ACTCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:33091 original size:18 final size:18
Alignment explanation
Indices: 33068--33104 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
33058 TTCTCCTCAT
33068 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
*
33086 TTCCTCCCTCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
33104 T
1 T
33105 ACATATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.03, C:0.41, G:0.00, T:0.57
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:33092 original size:29 final size:29
Alignment explanation
Indices: 32998--33092 Score: 127
Period size: 29 Copynumber: 3.3 Consensus size: 29
32988 CATCGACATC
* * *
32998 CTTCGTCCTCATTTCCTCTATCTTTCCTT
1 CTTCCTCCTCATTTCCTCCATCTTTTCTT
* **
33027 ATTCCTATTCATTTCCTCCATCTTTTCTT
1 CTTCCTCCTCATTTCCTCCATCTTTTCTT
*
33056 CTTTCTCCTCATTTCCTCCATCTTTTCTT
1 CTTCCTCCTCATTTCCTCCATCTTTTCTT
33085 CTTCCTCC
1 CTTCCTCC
33093 CTCTTTTCTT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.08, C:0.38, G:0.01, T:0.53
Consensus pattern (29 bp):
CTTCCTCCTCATTTCCTCCATCTTTTCTT
Found at i:33382 original size:21 final size:21
Alignment explanation
Indices: 33357--33419 Score: 117
Period size: 21 Copynumber: 3.0 Consensus size: 21
33347 CCTATTATGC
*
33357 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
33378 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
33399 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
33420 ATTGATTGTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.14, C:0.33, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:33527 original size:15 final size:15
Alignment explanation
Indices: 33507--33536 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
33497 CTGTTTTTCT
33507 TCACCGTCATCCCCC
1 TCACCGTCATCCCCC
33522 TCACCGTCATCCCCC
1 TCACCGTCATCCCCC
33537 AATACAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.60, G:0.07, T:0.20
Consensus pattern (15 bp):
TCACCGTCATCCCCC
Found at i:33588 original size:18 final size:18
Alignment explanation
Indices: 33565--33599 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33555 TCCTTCTCTT
*
33565 CTGCCTCTACTACATCCA
1 CTGCCTCCACTACATCCA
33583 CTGCCTCCACTACATCC
1 CTGCCTCCACTACATCC
33600 TTGCCAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.49, G:0.06, T:0.26
Consensus pattern (18 bp):
CTGCCTCCACTACATCCA
Found at i:36123 original size:181 final size:181
Alignment explanation
Indices: 35798--36639 Score: 1010
Period size: 181 Copynumber: 4.7 Consensus size: 181
35788 TATGCGTACT
* * * **
35798 TATTAAAGTATCGACACTTTCAATATATTCGGTAGT-GCTTTACCGGTTTTATCATTTAGAGACC
1 TATTAAAGTATCGACACTTT-AATATATCCGGTA-TCTCTTTACCGGTTTTATCTTTTCCAGACC
* * * * * * * *
35862 GGTTTTATCATATTTTTACCTATTATATCATTATGAATCAATACATTTTTATAAAGTATCGACAC
64 GGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACAC
* * * * * *
35927 TTTAAAGGTGCTAAAAC-AACTTCTCTTTTAAATTCACAAAGGGTCGAAACTTA
129 TTTATAGGTGCTAAAACTGA-TTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * * * ** *
35980 TATTAAATTATCGACAATTTAATATATCCGGTAGCTCTTTACTGGTTTTGTCTTTTTGAGACCGA
1 TATTAAAGTATCGACACTTTAATATATCCGGTATCTCTTTACCGGTTTTATCTTTTCCAGACCGG
* ** * *
36045 TTTTATCATATTTTTATTTTTTATATCATTGTGGATCGATACATATTTATAAAGAATCGACACTT
66 TTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTT
*
36110 TATAGGTGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
131 TATAGGTGCTAAAACTGATTCTCCTTTAAATTCACAATGTGTCGATACTTA
* ** * * * *
36161 TATTAAAGTATCGACACTTGCAATATATCTAGTATTTC-TTACCAGTTTTGTC-TTTCCTGACCG
1 TATTAAAGTATCGACACTT-TAATATATCCGGTATCTCTTTACCGGTTTTATCTTTTCCAGACCG
* *
36224 GTTTTGTCATA-TTTTACCTG-T-TATCGTTGTGGATCGATACACATTTATAAAGAATTGACACT
65 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
* * *
36286 TTCA-AGGCGCT-AAACTGATTCTCCTTTAAATTCACATTGTGTCGATAGTTA
130 TT-ATAGGTGCTAAAACTGATTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * *
36337 TATTAAAGTATCGACACTTGCAATATATCCGGTATCTCTTTACTGATTTTATCTTTTCCTGACCG
1 TATTAAAGTATCGACACTT-TAATATATCCGGTATCTCTTTACCGGTTTTATCTTTTCCAGACCG
36402 GTTTTGTCATA-TTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
65 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACT
* * *
36466 TTCTAGGAGCTAAAACTGATTCTCCTTTAATTTCACAATGTGTCGATACTTA
130 TTATAGGTGCTAAAACTGATTCTCCTTTAAATTCACAATGTGTCGATACTTA
* ** * *
36518 TATTAAAGTATCGATAC-TT-GCATAT-CGGTATCTC-TTACCGGTTTTATCTTTTCCTGACCAG
1 TATTAAAGTATCGACACTTTAATATATCCGGTATCTCTTTACCGGTTTTATCTTTTCCAGACCGG
*
36579 TTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCAATACATATTTATAAAGAATCGAC
66 TTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGAC
36640 TCCTTTAAAT
Statistics
Matches: 578, Mismatches: 71, Indels: 27
0.86 0.11 0.04
Matches are distributed among these distances:
176 106 0.18
177 114 0.20
178 37 0.06
179 7 0.01
180 65 0.11
181 218 0.38
182 31 0.05
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (181 bp):
TATTAAAGTATCGACACTTTAATATATCCGGTATCTCTTTACCGGTTTTATCTTTTCCAGACCGG
TTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTT
TATAGGTGCTAAAACTGATTCTCCTTTAAATTCACAATGTGTCGATACTTA
Found at i:36453 original size:357 final size:357
Alignment explanation
Indices: 35798--36868 Score: 1302
Period size: 357 Copynumber: 3.0 Consensus size: 357
35788 TATGCGTACT
* * * ***
35798 TATTAAAGTATCGACACTTTCAATATAT-TCGGTAGTGCTTTACCGGTTTTATCATTTAGAGACC
1 TATTAAAGTATCGACACTTGCAATATATCT-GGTATTTC-TTACCGGTTTTATCATTTCCTGACC
* * * * * * *
35862 GGTTTTATCATATTTTTACCTATTATATCATTATGAATCAATACATTTTTATAAAGTATCGACAC
64 GGTTTTGTCATATTTTTACCT-GTATATCGTTGTGGATCAATACATATTTATAAAGAAT-GACAC
* * * * * *
35927 TTTAAAGGTGCTAAAACAACTTCTCTTTTAAATTCACAAAGGGTCGAAACTTATATTAAATTATC
127 TTT-AAGG-GCT-AAACGA-TTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATC
* * * *** *
35992 GACAATT-TAATATATCCGGTAGCTCTTTACTGGTTTTGTCTTTTTGAGACCGATTTTATCATAT
188 GACACTTGCAATATATCCGGTATCTCTTTACTGGTTTTGTCTTTTCCTGACCGGTTTTATCATAT
** * * *
36056 TTTTATTTTTTATATCATTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGTGCTA
253 TTTTACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGAGCTA
36121 AAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
318 AAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * *
36161 TATTAAAGTATCGACACTTGCAATATATCTAGTATTTCTTACCAGTTTTGTC-TTTCCTGACCGG
1 TATTAAAGTATCGACACTTGCAATATATCTGGTATTTCTTACCGGTTTTATCATTTCCTGACCGG
* *
36225 TTTTGTCATA-TTTTACCTGT-TATCGTTGTGGATCGATACACATTTATAAAGAATTGACACTTT
66 TTTTGTCATATTTTTACCTGTATATCGTTGTGGATCAATACATATTTATAAAGAA-TGACACTTT
* *
36288 CAAGGCGCTAAACTGATTCTCCTTTAAATTCACATTGTGTCGATAGTTATATTAAAGTATCGACA
130 -AAGG-GCTAAAC-GATTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACA
* * *
36353 CTTGCAATATATCCGGTATCTCTTTACTGATTTTATCTTTTCCTGACCGGTTTTGTCATA-TTTT
192 CTTGCAATATATCCGGTATCTCTTTACTGGTTTTGTCTTTTCCTGACCGGTTTTATCATATTTTT
*
36417 ACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTCTAGGAGCTAAAAC
257 ACCTGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGAGCTAAAAC
* *
36482 TGATTCTCCTTTAATTTCACAATGTGTCGATACTTA
322 TGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * *
36518 TATTAAAGTATCGATACTTGC---ATATC-GGTATCTCTTACCGGTTTTATCTTTTCCTGACCAG
1 TATTAAAGTATCGACACTTGCAATATATCTGGTATTTCTTACCGGTTTTATCATTTCCTGACCGG
36579 TTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCAATACATATTTAT--A-AA-G-------
66 TTTTGTCATATTTTTACCTG-TATATCGTTGTGGATCAATACATATTTATAAAGAATGACACTTT
36633 AA----T---CGA--CTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTT
130 AAGGGCTAAACGATTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTT
* * * *
36689 GCAATATATCTGGTATCTCTTTACCGGTTTTGTCTTTTCCTAACCGGTTTTTTCATATTTTTACC
195 GCAATATATCCGGTATCTCTTTACTGGTTTTGTCTTTTCCTGACCGGTTTTATCATATTTTTACC
* *
36754 TGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGCGCTAAAACTCC
260 TGTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGAGCTAAAACTGC
* * *
36819 TTCACCTTTAAATTCACTATGTATCGATACTTA
325 TTCTCCTTTAAATTCACAATGTGTCGATACTTA
36852 TATTAAAGTATCGACAC
1 TATTAAAGTATCGACAC
36869 GTGTAAAATA
Statistics
Matches: 628, Mismatches: 71, Indels: 47
0.84 0.10 0.06
Matches are distributed among these distances:
333 99 0.16
334 113 0.18
335 2 0.00
336 1 0.00
339 1 0.00
344 2 0.00
352 1 0.00
353 18 0.03
354 28 0.04
355 10 0.02
356 1 0.00
357 190 0.30
358 89 0.14
359 2 0.00
360 8 0.01
361 18 0.03
362 12 0.02
363 32 0.05
364 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.41
Consensus pattern (357 bp):
TATTAAAGTATCGACACTTGCAATATATCTGGTATTTCTTACCGGTTTTATCATTTCCTGACCGG
TTTTGTCATATTTTTACCTGTATATCGTTGTGGATCAATACATATTTATAAAGAATGACACTTTA
AGGGCTAAACGATTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTG
CAATATATCCGGTATCTCTTTACTGGTTTTGTCTTTTCCTGACCGGTTTTATCATATTTTTACCT
GTTATATCGTTGTGGATCGATACATATTTATAAAGAATCGACACTTTATAGGAGCTAAAACTGCT
TCTCCTTTAAATTCACAATGTGTCGATACTTA
Found at i:36768 original size:157 final size:152
Alignment explanation
Indices: 36487--36796 Score: 512
Period size: 157 Copynumber: 2.0 Consensus size: 152
36477 AAAACTGATT
* *
36487 CTCCTTTAATTTCACAATGTGTCGATACTTATATTAAAGTATCGATACTTGCATATCGGTATCTC
1 CTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTGCATATCGGTATCTC
*
36552 TTACCGGTTTTATCTTTTCCTGACCAGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCA
66 TTACCGGTTTTATCTTTTCCTAACCAGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCA
36617 ATACATATTTATAAAGAATCGA
131 ATACATATTTATAAAGAATCGA
36639 CTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTGCAATATATCTGGTA
1 CTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTGC---ATATC-GGTA
* * *
36704 TCTCTTTACCGGTTTTGTCTTTTCCTAACCGGTTTTTTCATATTTTTACCTGTTATATCGTTGTG
62 TCTC-TTACCGGTTTTATCTTTTCCTAACCAGTTTTGTCATATTTTTACCTGTTATATCGTTGTG
*
36769 GATCGATACATATTTATAAAGAATCGA
126 GATCAATACATATTTATAAAGAATCGA
36796 C
1 C
36797 ACTTTATAGG
Statistics
Matches: 146, Mismatches: 7, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
152 50 0.34
155 5 0.03
156 8 0.05
157 83 0.57
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (152 bp):
CTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTATCGACACTTGCATATCGGTATCTC
TTACCGGTTTTATCTTTTCCTAACCAGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCA
ATACATATTTATAAAGAATCGA
Found at i:38522 original size:64 final size:65
Alignment explanation
Indices: 38403--38532 Score: 253
Period size: 64 Copynumber: 2.0 Consensus size: 65
38393 CTGGCACCGT
38403 CGACTGTAATCAACTCTACCCTCCTGACCGCATCCGACGGTTGTCGCCTTTGGACATGCCCAAAC
1 CGACTGTAATCAACTCTACCCTCCTGACCGCATCCGACGGTTGTCGCCTTTGGACATGCCCAAAC
38468 CGACTGTAATCAACTCTACCCTCCTGA-CGCATCCGACGGTTGTCGCCTTTGGACATGCCCAAAC
1 CGACTGTAATCAACTCTACCCTCCTGACCGCATCCGACGGTTGTCGCCTTTGGACATGCCCAAAC
38532 C
1 C
38533 ACCGTAGTCT
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
64 38 0.58
65 27 0.42
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (65 bp):
CGACTGTAATCAACTCTACCCTCCTGACCGCATCCGACGGTTGTCGCCTTTGGACATGCCCAAAC
Found at i:40972 original size:26 final size:26
Alignment explanation
Indices: 40939--40990 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
40929 AACTTCAACT
40939 ACATTTTCCTTGAGCCTAGAGGATAC
1 ACATTTTCCTTGAGCCTAGAGGATAC
40965 ACATTTTCCTTGAGCCTAGAGGATAC
1 ACATTTTCCTTGAGCCTAGAGGATAC
40991 CAAGATACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (26 bp):
ACATTTTCCTTGAGCCTAGAGGATAC
Found at i:45051 original size:21 final size:21
Alignment explanation
Indices: 45025--45065 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
45015 CCAAACAATC
45025 CAAACAACCAAATATCCAAAA
1 CAAACAACCAAATATCCAAAA
* *
45046 CAAACATCCAAATATTCAAA
1 CAAACAACCAAATATCCAAA
45066 TACATAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.15
Consensus pattern (21 bp):
CAAACAACCAAATATCCAAAA
Found at i:45054 original size:13 final size:13
Alignment explanation
Indices: 45004--45057 Score: 54
Period size: 13 Copynumber: 3.8 Consensus size: 13
44994 TTTCAAAATT
*
45004 AAACATCCAAACC
1 AAACATCCAAAAC
45017 AAACAATCCAAACAACC
1 AAAC-ATCC-AA-AA-C
*
45034 AAATATCCAAAAC
1 AAACATCCAAAAC
45047 AAACATCCAAA
1 AAACATCCAAA
45058 TATTCAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
13 15 0.44
14 6 0.18
15 4 0.12
16 5 0.15
17 4 0.12
ACGTcount: A:0.59, C:0.31, G:0.00, T:0.09
Consensus pattern (13 bp):
AAACATCCAAAAC
Found at i:57018 original size:2 final size:2
Alignment explanation
Indices: 57011--57063 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
57001 CCGAGTGGAC
57011 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57053 AT AT AT AT AT A
1 AT AT AT AT AT A
57064 ATTACGAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:57227 original size:85 final size:84
Alignment explanation
Indices: 57119--57307 Score: 290
Period size: 85 Copynumber: 2.2 Consensus size: 84
57109 AATGACGTAT
* * *
57119 GCTTCAATGACACGCAATATAAGTCATACATGCGTGTCATAAATTTATGACACATAAATGTGTAT
1 GCTTCAATGACACTCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTGTAT
57184 CAAGC-AGATTTATGACGGGG
66 C-AGCTA-ATTTATGACGGGG
* *
57204 GCTTCAATGACGCTCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTGTTT
1 GCTTCAATGACACTCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTGTAT
*
57269 CATCTTAATTTATGACGGGG
66 CAGC-TAATTTATGACGGGG
57289 GCTTCAATGACACTCAATG
1 GCTTCAATGACACTCAATG
57308 AATATCATAA
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
84 2 0.02
85 92 0.97
86 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (84 bp):
GCTTCAATGACACTCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTGTAT
CAGCTAATTTATGACGGGG
Found at i:57328 original size:85 final size:85
Alignment explanation
Indices: 57119--57332 Score: 245
Period size: 85 Copynumber: 2.5 Consensus size: 85
57109 AATGACGTAT
* * * * ** *
57119 GCTTCAATGACACGCAATATAAGTCATACATGCGTGTCATAAATTTATGACACATAAATGTGTAT
1 GCTTCAATGACACTCAATGTAAATCATAAATGCACGTCATAAATTTATGACACACAAATGTGTAT
57184 CAAGCAGATTTATGACGGGG
66 CAAGCAGATTTATGACGGGG
* * * ** *
57204 GCTTCAATGACGCTCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTGTTT
1 GCTTCAATGACACTCAATGTAAATCATAAATGCACGTCATAAATTTATGACACACAAATGTGTAT
*
57269 C-ATCTTA-ATTTATGACGGGG
66 CAAGC--AGATTTATGACGGGG
*
57289 GCTTCAATGACACTCAATG-AATATCATAAATGTACGTCATAAAT
1 GCTTCAATGACACTCAATGTAA-ATCATAAATGCACGTCATAAAT
57333 GTGTGGCATA
Statistics
Matches: 114, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
84 4 0.04
85 109 0.96
86 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (85 bp):
GCTTCAATGACACTCAATGTAAATCATAAATGCACGTCATAAATTTATGACACACAAATGTGTAT
CAAGCAGATTTATGACGGGG
Found at i:57355 original size:13 final size:13
Alignment explanation
Indices: 57312--57355 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
57302 TCAATGAATA
*
57312 TCATAAATGTACG
1 TCATAAATGTGCG
*
57325 TCATAAATGTGTG
1 TCATAAATGTGCG
* *
57338 GCATAAATGCGCG
1 TCATAAATGTGCG
57351 TCATA
1 TCATA
57356 GATTTATGAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (13 bp):
TCATAAATGTGCG
Found at i:60280 original size:19 final size:19
Alignment explanation
Indices: 60256--60319 Score: 128
Period size: 19 Copynumber: 3.4 Consensus size: 19
60246 TTCTTGAGTA
60256 TAGCCTTGAGCAACAAGTC
1 TAGCCTTGAGCAACAAGTC
60275 TAGCCTTGAGCAACAAGTC
1 TAGCCTTGAGCAACAAGTC
60294 TAGCCTTGAGCAACAAGTC
1 TAGCCTTGAGCAACAAGTC
60313 TAGCCTT
1 TAGCCTT
60320 ATTCCTCACT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (19 bp):
TAGCCTTGAGCAACAAGTC
Found at i:80130 original size:20 final size:20
Alignment explanation
Indices: 80105--80155 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
80095 CATTCATGAG
80105 GTATCGATACC-TGAAGAACA
1 GTATCGATACCGT-AAGAACA
* *
80125 GTATCGATACCGTAAGGACG
1 GTATCGATACCGTAAGAACA
80145 GTATCGATACC
1 GTATCGATACC
80156 ATCTTTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (20 bp):
GTATCGATACCGTAAGAACA
Found at i:80711 original size:18 final size:18
Alignment explanation
Indices: 80681--80729 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 18
80671 TATAAGTAAT
80681 ATGATATTG-ACATAAGGA
1 ATGATA-TGAACATAAGGA
*
80699 ATGATATGAACAT--GTA
1 ATGATATGAACATAAGGA
80715 AT-ATATGAACATAAG
1 ATGATATGAACATAAG
80730 AGATTAAGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 10 0.37
16 4 0.15
17 3 0.11
18 10 0.37
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (18 bp):
ATGATATGAACATAAGGA
Found at i:81049 original size:28 final size:28
Alignment explanation
Indices: 80981--81049 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 28
80971 TCTTAAGGAG
* * *
80981 TGGTCCTTAGGGACATATGTTTTATAAG
1 TGGTCCTTAGGGACATATGTGTTAGAAA
* * *
81009 GGGTTCTTTGGGACATATGTGTTAGAAA
1 TGGTCCTTAGGGACATATGTGTTAGAAA
*
81037 TGGTCCTTCGGGA
1 TGGTCCTTAGGGA
81050 AAAATTCAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.22, C:0.12, G:0.30, T:0.36
Consensus pattern (28 bp):
TGGTCCTTAGGGACATATGTGTTAGAAA
Found at i:82965 original size:18 final size:18
Alignment explanation
Indices: 82942--82976 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
82932 ATTGTGATAT
82942 GAATAAGGATTT-TGCAAA
1 GAATAAGG-TTTATGCAAA
82960 GAATAAGGTTTATGCAA
1 GAATAAGGTTTATGCAA
82977 GTAATGCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.43, C:0.06, G:0.23, T:0.29
Consensus pattern (18 bp):
GAATAAGGTTTATGCAAA
Found at i:85261 original size:28 final size:28
Alignment explanation
Indices: 85190--85262 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 28
85180 GTTCTTAAGG
85190 AGTGGTCCTTAGGGACATATGTGTTATA
1 AGTGGTCCTTAGGGACATATGTGTTATA
85218 AGTGGTCCTTTA-GGACATATGTGTTATA
1 AGTGGTCC-TTAGGGACATATGTGTTATA
*
85246 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTAGGGACA
85263 AATTATAAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
27 2 0.05
28 37 0.88
29 3 0.07
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (28 bp):
AGTGGTCCTTAGGGACATATGTGTTATA
Found at i:87290 original size:26 final size:26
Alignment explanation
Indices: 87254--87309 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
87244 GGTTTTCTCC
87254 TTGTATATCTGAGCATTCTCATATGT
1 TTGTATATCTGAGCATTCTCATATGT
87280 TTGTATATCTGAGCATTCTCATATGT
1 TTGTATATCTGAGCATTCTCATATGT
87306 TTGT
1 TTGT
87310 GCTCTAAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.21, C:0.14, G:0.16, T:0.48
Consensus pattern (26 bp):
TTGTATATCTGAGCATTCTCATATGT
Found at i:99326 original size:32 final size:31
Alignment explanation
Indices: 99257--99328 Score: 108
Period size: 32 Copynumber: 2.3 Consensus size: 31
99247 ACCCACCAAC
**
99257 CTTTTATTTTATTGTTCGAACTAACCTTTAA
1 CTTTTATTTTATTGTTCGAACTAACCGCTAA
99288 CTTTTTATTTTATTGTTCGAACTAACCCGCTAA
1 C-TTTTATTTTATTGTTCGAACTAA-CCGCTAA
99321 CTTTTATT
1 CTTTTATT
99329 ATTCGAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 1 0.03
32 30 0.81
33 6 0.16
ACGTcount: A:0.24, C:0.18, G:0.07, T:0.51
Consensus pattern (31 bp):
CTTTTATTTTATTGTTCGAACTAACCGCTAA
Found at i:101167 original size:26 final size:27
Alignment explanation
Indices: 101126--101187 Score: 99
Period size: 26 Copynumber: 2.3 Consensus size: 27
101116 TAGTCAACAT
101126 AAATATTAAGTCGTAATCATATGTAAC
1 AAATATTAAGTCGTAATCATATGTAAC
101153 AAATATT-AGTCGTAATCATATGTAAC
1 AAATATTAAGTCGTAATCATATGTAAC
* *
101179 GAATTTTAA
1 AAATATTAA
101188 CATTAAACTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 24 0.75
27 8 0.25
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (27 bp):
AAATATTAAGTCGTAATCATATGTAAC
Found at i:104181 original size:39 final size:39
Alignment explanation
Indices: 104137--104254 Score: 191
Period size: 39 Copynumber: 3.0 Consensus size: 39
104127 ATGGTGCGGC
* * *
104137 ACGCAAACTGGAAAACCTCCTTTCATCAGAATCAACATT
1 ACGCAAACTAGAGAACCTCCTTTCACCAGAATCAACATT
*
104176 ACGCAAACTAGAGCACCTCCTTTCACCAGAATCAACATT
1 ACGCAAACTAGAGAACCTCCTTTCACCAGAATCAACATT
*
104215 ACGCAAACTAGAGTACCTCCTTTCACCAGAATCAACATT
1 ACGCAAACTAGAGAACCTCCTTTCACCAGAATCAACATT
104254 A
1 A
104255 AGGCAAGAAT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.37, C:0.31, G:0.10, T:0.22
Consensus pattern (39 bp):
ACGCAAACTAGAGAACCTCCTTTCACCAGAATCAACATT
Found at i:109568 original size:25 final size:25
Alignment explanation
Indices: 109512--109562 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
109502 TGCCATGCTG
*
109512 AAGAAAAAGGATTTTTTTTTGAAGCA
1 AAGAAAAAGGATTTTTTGTTGAA-CA
109538 AAGAAAAAGGATATTGTTTGTTGAA
1 AAGAAAAAGGAT-TT-TTTGTTGAA
109563 AAGAAAGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 12 0.55
27 2 0.09
28 8 0.36
ACGTcount: A:0.43, C:0.02, G:0.22, T:0.33
Consensus pattern (25 bp):
AAGAAAAAGGATTTTTTGTTGAACA
Found at i:110345 original size:111 final size:111
Alignment explanation
Indices: 110188--110667 Score: 644
Period size: 111 Copynumber: 4.3 Consensus size: 111
110178 AACTTTCAAA
* * ** * *
110188 AAAGTATCGATCCTTTTTATAAAAAGTATATATACTTCCAACATATTAGGTAAATTTTACCGATT
1 AAAGTATCGATCATTTTTAT-AAAAGGATCGATACTTTCAACATATTAGGTAAATTTTACCGTTT
* * *
110253 TTATCATAATAAAACTGGTTTTGTCATATTTTTATCTGTTATATTAT
65 TTTTCATAATAAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* * * *
110300 AAAGTATCTATCTTTTTTATAAAAGGATGGATACTTTCAACATATTAAGTAAATTTTACCGTTTT
1 AAAGTATCGATCATTTTTATAAAAGGATCGATACTTTCAACATATTAGGTAAATTTTACCGTTTT
* * *
110365 TGTCATAATAAAACTGGTTTTATTATATTTTTACCTGTTATATTGT
66 TTTCATAATAAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
** * *
110411 AAAGTATTTATCATTTTTATAAAATGATCGATACTTTCAACATATTTGGTAAATTTTACCGTTTT
1 AAAGTATCGATCATTTTTATAAAAGGATCGATACTTTCAACATATTAGGTAAATTTTACCGTTTT
* * *
110476 TTTCATAATGAAACTGGTTTTGTCATA-TTTTGCTTGTTATATTGT
66 TTTCATAATAAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
*
110521 AAAGTATCGATCATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACC--TT
1 AAAGTATCGATCATTTTTAT-AAAAGGATCGATACTTTCAACATATTAGGTAAATTTTACCGTTT
* *
110584 TTTTCATAATGAAACTGGTTTTGTCATATTTTTACCTATTATATTGT
65 TTTTCATAATAAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* * *
110631 AAAATATCGATATATTTTTAT-AAAGTATCGATACTTT
1 AAAGTATCGAT-CATTTTTATAAAAGGATCGATACTTT
110668 ATAGGCGCTA
Statistics
Matches: 329, Mismatches: 36, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
109 45 0.14
110 59 0.18
111 207 0.63
112 18 0.05
ACGTcount: A:0.33, C:0.11, G:0.10, T:0.46
Consensus pattern (111 bp):
AAAGTATCGATCATTTTTATAAAAGGATCGATACTTTCAACATATTAGGTAAATTTTACCGTTTT
TTTCATAATAAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
Found at i:111298 original size:111 final size:111
Alignment explanation
Indices: 111100--111580 Score: 718
Period size: 111 Copynumber: 4.3 Consensus size: 111
111090 AACTTTCAAA
* * ** *
111100 AAAGTATCGATCATTTTTATAAAAAGTATATATACTTTCAACATATCAGGTAAATTTTACCGGTT
1 AAAGTATCTATCATTTTTAT-AAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCAGTT
*
111165 TTGTCATAATGAAACT-AGTTTTGTCATATTTTTATCTGTTATATTGT
65 TTGTCATAATGAAACTGA-TTTTGTCATATTTTTACCTGTTATATTGT
* * *
111212 AAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTCAACATATTAGGTAAATTTTACCATTTT
1 AAAGTATCTATCATTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCAGTTT
111277 TGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGT
66 TGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGT
* *
111323 AAAGTATCTATCTTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCATTTT
1 AAAGTATCTATCATTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCAGTTT
*
111388 TGTCATAATGAAACTG-GTTTGTCATATTTTTACCTGTTATATTGT
66 TGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGT
* * * *
111433 AAAGTATTTATCGTTTTTATAAAAGGATCGATACTTTCAACATATCAAGTAAATTTTACCGGTTT
1 AAAGTATCTATCATTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCAGTTT
* *
111498 TGTCATAATGAAATTGGTTTTGTCATATTTTTACCTGTTATATTGT
66 TGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGT
* *
111544 AAAATATCGATAT-ATTTTTAT-AAAGTATCGATACTTT
1 AAAGTATC--TATCATTTTTATAAAAGGATCGATACTTT
111581 ATAGGCGCTA
Statistics
Matches: 342, Mismatches: 23, Indels: 9
0.91 0.06 0.02
Matches are distributed among these distances:
110 103 0.30
111 210 0.61
112 26 0.08
113 3 0.01
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (111 bp):
AAAGTATCTATCATTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCAGTTT
TGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGT
Found at i:111521 original size:221 final size:222
Alignment explanation
Indices: 111100--111580 Score: 759
Period size: 221 Copynumber: 2.2 Consensus size: 222
111090 AACTTTCAAA
* ** *
111100 AAAGTATCGATCATTTTTATAAAAAGTATATATACTTTCAACATATCAGGTAAATTTTACCGGTT
1 AAAGTATCGATCTTTTTTAT-AAAAGTATCGATACTTTCAACATATCAGGTAAATTTTACCAGTT
* *
111165 TTGTCATAATGAAACTAGTTTTGTCATATTTTTATCTGTTATATTGTAAAGTATCTATCCTTTTT
65 TTGTCATAATGAAACTAGGTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCCTTTTT
* * *
111230 ATAAAAGGATCGATACTTTCAACATATTAGGTAAATTTTACCATTTTTGTCATAATGAAACTGAT
130 ATAAAAGGATCGATACTTTCAACATATCAAGTAAATTTTACCAGTTTTGTCATAATGAAACTGAT
111295 TTTGTCATATTTTTACCTGTTATATTGT
195 TTTGTCATATTTTTACCTGTTATATTGT
* * *
111323 AAAGTATCTATCTTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCATTTT
1 AAAGTATCGATCTTTTTTATAAAAGTATCGATACTTTCAACATATCAGGTAAATTTTACCAGTTT
* *
111388 TGTCATAATGAAACT-GGTTTGTCATATTTTTACCTGTTATATTGTAAAGTATTTATCGTTTTTA
66 TGTCATAATGAAACTAGGTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCCTTTTTA
* * *
111452 TAAAAGGATCGATACTTTCAACATATCAAGTAAATTTTACCGGTTTTGTCATAATGAAATTGGTT
131 TAAAAGGATCGATACTTTCAACATATCAAGTAAATTTTACCAGTTTTGTCATAATGAAACTGATT
111517 TTGTCATATTTTTACCTGTTATATTGT
196 TTGTCATATTTTTACCTGTTATATTGT
* *
111544 AAAATATCGATATATTTTTAT-AAAGTATCGATACTTT
1 AAAGTATCGATCT-TTTTTATAAAAGTATCGATACTTT
111581 ATAGGCGCTA
Statistics
Matches: 236, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
221 156 0.66
222 62 0.26
223 18 0.08
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (222 bp):
AAAGTATCGATCTTTTTTATAAAAGTATCGATACTTTCAACATATCAGGTAAATTTTACCAGTTT
TGTCATAATGAAACTAGGTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCCTTTTTA
TAAAAGGATCGATACTTTCAACATATCAAGTAAATTTTACCAGTTTTGTCATAATGAAACTGATT
TTGTCATATTTTTACCTGTTATATTGT
Found at i:111885 original size:913 final size:907
Alignment explanation
Indices: 109871--113427 Score: 4607
Period size: 913 Copynumber: 4.0 Consensus size: 907
109861 TGTTCATACT
*
109871 TATTTCACTGTGAAAAATATTAATTTAAGGTTATCTTTTGAGTG-GGTGTTAATATATTAATTTA
1 TATTTCACTGTGAAAAATATTAATTTAAGGTTATCTTTTGAGTGAGAT-TTAATATATTAATTTA
* *
109935 ATAATTATACACATCTAATGATTTATTTTTTATGTTACAGTATATATTATTATTAAATTAAAAAT
65 ATAATTATACGCATCTAATGATTTATTTTTTATGTTACAGTATATATTATTATTAAATTAAAAAC
*
110000 AATAAACATAGATATTACATATTTATTATTATCTTTAGTTAAAATTATTAAATTTAAATTCTAAA
130 AATAAACATAGATATTACATATTTATTATTATCTTTAGTTAAAATTGTTAAATTTAAATTCTAAA
110065 TAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAAT
195 TAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAAT
110130 ATTGTAGGTGGAAAACATG------ATTAAAAAATTTTAAAACATAAATTACATAACTTTCAAAA
260 ATTGTAGGTGGAAAACATGAAAACTATTAAAAAATTTTAAAACATAAATTACATAACTTTCAAAA
* *
110189 AAGTATCGATCCTTTTTATAAAAAGTATATATACTTCCAACATATTAGGTAAATTTTACCGATTT
325 AAGTATCGATCCTTTTTATAAAAAGTATATATACTTTCAACATATTAGGTAAATTTTACCGGTTT
* * * *
110254 TATCATAATAAAACTGGTTTTGTCATATTTTTATCTGTTATATTATAAAGTATCTATCTTTTTTA
390 TGTCATAATGAAACT-GTTTTGTCATATTTTTATCTGTTATATTGTAAAGTATCTATCCTTTTTA
* * *
110319 TAAAAGGATGGATACTTTCAACATATTAAGTAAATTTTACCGTTTTTGTCATAATAAAACTGGTT
454 TAAAAGGATCGATACTTTCAACATATTAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTT
* * * *
110384 TTATTATATTTTTACCTGTTATATTGTAAAGTATTTATCATTTTTATAAAATGATCGATACTTTC
519 TTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCATTTTTATAAAAGGATCGATACTTTC
** * *
110449 AACATATTTGGTAAATTTTACCGTTTTTTTCATAATGAAACTGGTTTTGTCATA-TTTTGCTTGT
584 AACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGG-TTTGTCATATTTTTACTTGT
**
110513 TATATTGTAAAGTATCGATCATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTT
648 TATATTGTAAAGTATTTATCATTTTTAT-AAAAGGATCGATACTTTCAACATATCA-GTAAATTT
* *
110578 TACCTTTTTTCATAATGAAACTGGTTTTGTCATATTTTTACCTATTATATTGTAAAATATCGATA
711 TACC-TTTTTCATAATGAAATTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAATATCGATA
110643 TATTTTTATAAAGTATCGATACTTTATAGGCGCTATTACTGCTTTTCTTTTAAATTCCAAAAGTT
775 TATTTTTATAAAGTATCGATACTTTATAGGCGCTATTACTGCTTTTCTTTTAAATTCCAAAAGTT
* *
110708 TCGATACTTATTTAAAT-AGAATCGATACTTTCAACATATTCGATAGGTAGTTTAATGTAATAAG
840 TCGATACTTATTTAAATGA-AATCGATACTTTCAACATATCCGGTAGGTAGTTTAATGTAATAAG
110772 TAGG
904 TAGG
* * * *
110776 TATTTCACTGTGAAAAAAATTAATTTAAGGTTATCTTTTTAGTGAGTTTTAAGATATTAATTTAA
1 TATTTCACTGTGAAAAATATTAATTTAAGGTTATCTTTTGAGTGAGATTTAATATATTAATTTAA
* * *
110841 TAATTATACGCGTCTAATAATTTATTTTTTATGTTA-TGATATATATTATTATTAAATTAAAAAC
66 TAATTATACGCATCTAATGATTTATTTTTTATGTTACAG-TATATATTATTATTAAATTAAAAAC
*
110905 AATAAACATAGATATTACATATTTATTATTATCTTTAGTTAAAATTGTTAAATTTAGATTCTAAA
130 AATAAACATAGATATTACATATTTATTATTATCTTTAGTTAAAATTGTTAAATTTAAATTCTAAA
110970 TAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAAT
195 TAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAAT
111035 ATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTTTAAAACATAAATTACATAACTTTCAAA
260 ATTGTAGGTGGAAAACATGAAA-ACTATTAAAAAATTTTAAAACATAAATTACATAACTTTCAAA
* *
111100 AAAGTATCGATCATTTTTATAAAAAGTATATATACTTTCAACATATCAGGTAAATTTTACCGGTT
324 AAAGTATCGATCCTTTTTATAAAAAGTATATATACTTTCAACATATTAGGTAAATTTTACCGGTT
111165 TTGTCATAATGAAACTAGTTTTGTCATATTTTTATCTGTTATATTGTAAAGTATCTATCCTTTTT
389 TTGTCATAATGAAACT-GTTTTGTCATATTTTTATCTGTTATATTGTAAAGTATCTATCCTTTTT
* *
111230 ATAAAAGGATCGATACTTTCAACATATTAGGTAAATTTTACCATTTTTGTCATAATGAAACTGAT
453 ATAAAAGGATCGATACTTTCAACATATTAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGT
*
111295 TTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCTTTTTTATAAAAGGATCGATACTTT
518 TTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCATTTTTATAAAAGGATCGATACTTT
* *
111360 CAACATATCAGGTAAATTTTACCATTTTTGTCATAATGAAACTGGTTTGTCATATTTTTACCTGT
583 CAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTGTCATATTTTTACTTGT
*
111425 TATATTGTAAAGTATTTATCGTTTTTATAAAAGGATCGATACTTTCAACATATCAAGTAAATTTT
648 TATATTGTAAAGTATTTATCATTTTTATAAAAGGATCGATACTTTCAACATATC-AGTAAATTTT
111490 ACCGGTTTTGTCATAATGAAATTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAATATCGAT
712 ACC--TTTT-TCATAATGAAATTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAATATCGAT
111555 ATATTTTTATAAAGTATCGATACTTTATAGGCGCTATTACTGCTTTTCTTTTAAATTCCAAAAGT
774 ATATTTTTATAAAGTATCGATACTTTATAGGCGCTATTACTGCTTTTCTTTTAAATTCCAAAAGT
* *
111620 TTTGATACTTATTTAAATGAAATCGATACTTTCAACATATCCGGTAGGTAGTTTAATGTAATATG
839 TTCGATACTTATTTAAATGAAATCGATACTTTCAACATATCCGGTAGGTAGTTTAATGTAATAAG
111685 TAGG
904 TAGG
111689 TATTTCACTGTGAAAAATATTAATTTAAGGTTATCTTTTGAGTGAGATTTAATATATTAATTTAA
1 TATTTCACTGTGAAAAATATTAATTTAAGGTTATCTTTTGAGTGAGATTTAATATATTAATTTAA
*
111754 TAATTATAGGCATCTAATGATTTATTTTTTATGTTACAGTATATATTATTATTAAATTAAAAACA
66 TAATTATACGCATCTAATGATTTATTTTTTATGTTACAGTATATATTATTATTAAATTAAAAACA
* * *
111819 ATAAACATAGATATTACATATTTATTATTATTTTTGGTTAAAATTGTTAAATTTAAATTATAAAT
131 ATAAACATAGATATTACATATTTATTATTATCTTTAGTTAAAATTGTTAAATTTAAATTCTAAAT
* * *
111884 AATATTTTATAAAATATCAAAACAATCAAATAATTTTTTATGTAAATGAAATTATTAAATTAATA
196 AATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAATA
* * *
111949 TTGTAGGTAGATAACATGAAATACTATTAAAAAATTTTGAAACATAAATTACATAACTTTCAAAA
261 TTGTAGGTGGAAAACATGAAA-ACTATTAAAAAATTTTAAAACATAAATTACATAACTTTCAAAA
* *
112014 AAGTATCGATCCTTTTTATAAAAAAAGTATATATACTTTCAACATATTAAGTAAATTTTATCGGT
325 AAGTATCGATCCTTTTTAT--AAAAAGTATATATACTTTCAACATATTAGGTAAATTTTACCGGT
* * *
112079 TTTGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGTAAAGTATATATTCTTTT
388 TTTGTCATAATGAAACTG-TTTTGTCATATTTTTATCTGTTATATTGTAAAGTATCTATCCTTTT
* *
112144 TATAAAATGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTT-TCATAATGAAACTGG
452 TATAAAAGGATCGATACTTTCAACATATTAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGG
* *
112208 TTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCCTTGTTATAAAAGGATCGATACTT
517 TTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCATTTTTATAAAAGGATCGATACTT
* *
112273 TCAACATATCAGGT-AATTTTACTGTTTTTGTCATAATGAAACTGATTTTGTCATATTTTTACTT
582 TCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTG-GTTTGTCATATTTTTACTT
*
112337 GTTATATTGTAAAGTATTTATCTTTTTTATAAAA-G---G-------------ATC-G---A---
646 GTTATATTGTAAAGTATTTATCATTTTTATAAAAGGATCGATACTTTCAACATATCAGTAAATTT
112378 TA-C---TTCATAATGAAATTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAATATCGATAT
711 TACCTTTTTCATAATGAAATTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAATATCGATAT
* *
112439 ATTTTTATAAAGTATCGATACTTTATAGGCGCTATTAATGCTTTTCTTTTAAATTCTAAAA-TTG
776 ATTTTTATAAAGTATCGATACTTTATAGGCGCTATTACTGCTTTTCTTTTAAATTCCAAAAGTT-
* * *
112503 TCGATACTTATTTAAATGGAATCGATACTTTCAACATA-CC-GTAAGTAGTTTAATGTAATAGGT
840 TCGATACTTATTTAAATGAAATCGATACTTTCAACATATCCGGTAGGTAGTTTAATGTAATAAGT
*
112566 AGCACATT
905 AG-----G
* * * ** * * *** * ** * * * *
112574 TTTTTTACCGTTTACATTATTAACAATCTTCAA-AAAAACGGTAG-GT-A-TTTTAATGTAATAG
1 TATTTCACTGTGAAAAATATT---AAT-TT-AAGGTTATCTTTTGAGTGAGATTTAATATATTA-
* * * ** * * * * * *
112635 GTATTTTA-AATT-T---TAT-TAA-CATTTA-TTCATAAGGTA-A--ATTTATTATAACT-GA-
60 --ATTTAATAATTATACGCATCTAATGATTTATTTTTTATGTTACAGTATATATTATTATTAAAT
* * ** * * * * ** * *
112687 TAACAA-ATTAAGTA-AG-TAATTACCTATTTTGTTACATAAGCGCTATTTAATA-TGTT--A-T
123 TAAAAACAATAAACATAGAT-ATTACATA-TTTATT--ATTATCTTTAGTTAAAATTGTTAAATT
* * * ** * *
112745 T--ATACTTAATAATGTTTT-TGTAAT-T---AAC---C----GA----TTATGTAAATAAAATT
184 TAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGTAAATAAAATT
* * * *
112792 ATTAAATTAATATTATAGGTGGAAAACATAAAACACTATTAAAAATTTTTGAAAA-ATAAATTAT
249 ATTAAATTAATATTGTAGGTGGAAAACATGAAA-ACTATTAAAAAATTTT-AAAACATAAATTAC
* * * * *
112856 ATAACTTTCAAAAAAGTATCGATCATTTTT-TAAAAAGTATCTATACTTTTAACATATCAAGT-A
312 ATAACTTTCAAAAAAGTATCGATCCTTTTTATAAAAAGTATATATACTTTCAACATATTAGGTAA
*
112919 A----A------TT-T--T-AT----C-GTTTTGTCATATTTTTACCTGTTATATTGTAAAGTAT
377 ATTTTACCGGTTTTGTCATAATGAAACTGTTTTGTCATATTTTTATCTGTTATATTGTAAAGTAT
* * * *
112965 CTAT-CTTTTTATAAAATGATCGATACTTTCAACATATCAAGTAAATTTTACCTTTTTTGTCATA
442 CTATCCTTTTTATAAAAGGATCGATACTTTCAACATATTAGGTAAATTTTACCGTTTTTGTCATA
* * * *
113029 ATGAAACTGGTTATGTCATATTTTTACATGTTATATTGTAAAGTATATATCATTTTTATAAAATG
507 ATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCATTTTTATAAAAGG
* * *
113094 ATCGATATTTTCAACATATCAGGTAAATTTTATCGTTTTTGTCATAATGAAACTGGTTTTATCAT
572 ATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGG-TTTGTCAT
* *
113159 ATTTTTA-TCTGTTATATTGTAAAGTATCTATCATTTTTATAAAATGATCGATACTTTCAACATA
636 ATTTTTACT-TGTTATATTGTAAAGTATTTATCATTTTTATAAAAGGATCGATACTTTCAACATA
*
113223 TCAAATAAATTTTACCGGTTTTTCATAATGAAATTGGTTTTGTCATATTTTTACCTGTTATATTG
700 TC-AGTAAATTTTACC--TTTTTCATAATGAAATTGGTTTTGTCATATTTTTACCTGTTATATTG
* *
113288 TAAAATATCGATAGATTTTTATAAAGTATCGATACTTTATAGGCGCTATTGCTGCTTTTCTTTTA
762 TAAAATATCGATATATTTTTATAAAGTATCGATACTTTATAGGCGCTATTACTGCTTTTCTTTTA
* *
113353 AATTCCAAAAGTGTCGATACTTATTTAATTGAAATCGATACTTTCAACATA-CCTGGTAGGTAGT
827 AATTCCAAAAGTTTCGATACTTATTTAAATGAAATCGATACTTTCAACATATCC-GGTAGGTAGT
113417 TTAATGTAATA
891 TTAATGTAATA
113428 GGTACGCATA
Statistics
Matches: 2399, Mismatches: 177, Indels: 192
0.87 0.06 0.07
Matches are distributed among these distances:
830 52 0.02
831 127 0.05
832 76 0.03
833 2 0.00
836 1 0.00
837 2 0.00
838 1 0.00
840 1 0.00
841 2 0.00
847 1 0.00
849 3 0.00
851 2 0.00
852 28 0.01
854 2 0.00
855 96 0.04
856 3 0.00
857 2 0.00
858 1 0.00
859 1 0.00
863 154 0.06
864 1 0.00
865 19 0.01
866 3 0.00
869 1 0.00
870 4 0.00
871 13 0.01
873 3 0.00
874 10 0.00
875 10 0.00
876 9 0.00
877 10 0.00
878 10 0.00
880 24 0.01
881 11 0.00
882 157 0.07
883 4 0.00
884 2 0.00
885 14 0.01
886 10 0.00
887 2 0.00
888 10 0.00
889 13 0.01
890 2 0.00
892 1 0.00
895 1 0.00
897 3 0.00
904 1 0.00
905 262 0.11
906 2 0.00
910 1 0.00
911 47 0.02
912 359 0.15
913 532 0.22
914 144 0.06
915 147 0.06
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (907 bp):
TATTTCACTGTGAAAAATATTAATTTAAGGTTATCTTTTGAGTGAGATTTAATATATTAATTTAA
TAATTATACGCATCTAATGATTTATTTTTTATGTTACAGTATATATTATTATTAAATTAAAAACA
ATAAACATAGATATTACATATTTATTATTATCTTTAGTTAAAATTGTTAAATTTAAATTCTAAAT
AATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAATA
TTGTAGGTGGAAAACATGAAAACTATTAAAAAATTTTAAAACATAAATTACATAACTTTCAAAAA
AGTATCGATCCTTTTTATAAAAAGTATATATACTTTCAACATATTAGGTAAATTTTACCGGTTTT
GTCATAATGAAACTGTTTTGTCATATTTTTATCTGTTATATTGTAAAGTATCTATCCTTTTTATA
AAAGGATCGATACTTTCAACATATTAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTT
GTCATATTTTTACCTGTTATATTGTAAAGTATCTATCATTTTTATAAAAGGATCGATACTTTCAA
CATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTGTCATATTTTTACTTGTTAT
ATTGTAAAGTATTTATCATTTTTATAAAAGGATCGATACTTTCAACATATCAGTAAATTTTACCT
TTTTCATAATGAAATTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAATATCGATATATTTT
TATAAAGTATCGATACTTTATAGGCGCTATTACTGCTTTTCTTTTAAATTCCAAAAGTTTCGATA
CTTATTTAAATGAAATCGATACTTTCAACATATCCGGTAGGTAGTTTAATGTAATAAGTAGG
Found at i:112213 original size:110 final size:110
Alignment explanation
Indices: 112046--112382 Score: 525
Period size: 110 Copynumber: 3.1 Consensus size: 110
112036 AAAAGTATAT
* * * *
112046 ATACTTTCAACATATTAAGTAAATTTTATCGGTTTTGTCATAATGAAACTGATTTTGTCATATTT
1 ATACTTTCAACATATCAGGTAAATTTTA-CCGTTTTTTCATAATGAAACTGATTTTGTCATATTT
*
112111 TTACCTGTTATATTGTAAAGTATATATTCTTTTTATAAAATGATCG
65 TTACCTGTTATATTGTAAAGTATATATTCTTTTTATAAAAGGATCG
*
112157 ATACTTTCAACATATCAGGTAAATTTTACCGTTTTTTCATAATGAAACTGGTTTTGTCATATTTT
1 ATACTTTCAACATATCAGGTAAATTTTACCGTTTTTTCATAATGAAACTGATTTTGTCATATTTT
* * *
112222 TACCTGTTATATTGTAAAGTATCTATCCTTGTTATAAAAGGATCG
66 TACCTGTTATATTGTAAAGTATATATTCTTTTTATAAAAGGATCG
*
112267 ATACTTTCAACATATCAGGT-AATTTTACTGTTTTTGTCATAATGAAACTGATTTTGTCATATTT
1 ATACTTTCAACATATCAGGTAAATTTTACCGTTTTT-TCATAATGAAACTGATTTTGTCATATTT
* *
112331 TTACTTGTTATATTGTAAAGTATTTA-TCTTTTTTATAAAAGGATCG
65 TTACCTGTTATATTGTAAAGTATATATTC-TTTTTATAAAAGGATCG
112377 ATACTT
1 ATACTT
112383 CATAATGAAA
Statistics
Matches: 209, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
109 15 0.07
110 168 0.80
111 26 0.12
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (110 bp):
ATACTTTCAACATATCAGGTAAATTTTACCGTTTTTTCATAATGAAACTGATTTTGTCATATTTT
TACCTGTTATATTGTAAAGTATATATTCTTTTTATAAAAGGATCG
Found at i:112404 original size:79 final size:79
Alignment explanation
Indices: 112303--112461 Score: 230
Period size: 79 Copynumber: 2.0 Consensus size: 79
112293 ACTGTTTTTG
* * ** *
112303 TCATAATGAAACTGATTTTGTCATATTTTTACTTGTTATATTGTAAAGTATTTATCT-TTTTTAT
1 TCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGTAAAATATCGATATATTTTTAT
112367 AAAAGGATCGATACT
66 -AAAGGATCGATACT
* *
112382 TCATAATGAAATTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAATATCGATATATTTTTAT
1 TCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGTAAAATATCGATATATTTTTAT
*
112447 AAAGTATCGATACT
66 AAAGGATCGATACT
112461 T
1 T
112462 TATAGGCGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 64 0.90
80 7 0.10
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (79 bp):
TCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGTAAAATATCGATATATTTTTAT
AAAGGATCGATACT
Found at i:113066 original size:110 final size:111
Alignment explanation
Indices: 112928--113325 Score: 622
Period size: 111 Copynumber: 3.6 Consensus size: 111
112918 AAATTTTATC
112928 GTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATC-TTTTTATAAAATGATCGATACT
1 GTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCATTTTTATAAAATGATCGATACT
*
112992 TTCAACATATCAAGTAAATTTTACCTTTTTTGTCATAATGAAACTG
66 TTCAACATATCAAGTAAATTTTACCGTTTTTGTCATAATGAAACTG
* * * *
113038 GTTATGTCATATTTTTACATGTTATATTGTAAAGTATATATCATTTTTATAAAATGATCGATATT
1 GTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCATTTTTATAAAATGATCGATACT
* *
113103 TTCAACATATCAGGTAAATTTTATCGTTTTTGTCATAATGAAACTG
66 TTCAACATATCAAGTAAATTTTACCGTTTTTGTCATAATGAAACTG
* *
113149 GTTTTATCATATTTTTATCTGTTATATTGTAAAGTATCTATCATTTTTATAAAATGATCGATACT
1 GTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCATTTTTATAAAATGATCGATACT
* * *
113214 TTCAACATATCAAATAAATTTTACCGGTTTT-TCATAATGAAATTG
66 TTCAACATATCAAGTAAATTTTACCGTTTTTGTCATAATGAAACTG
* * * *
113259 GTTTTGTCATATTTTTACCTGTTATATTGTAAAATATCGATAGATTTTTATAAAGT-ATCGATAC
1 GTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTAT-CATTTTTATAAAATGATCGATAC
113323 TTT
65 TTT
113326 ATAGGCGCTA
Statistics
Matches: 262, Mismatches: 24, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
110 100 0.38
111 162 0.62
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (111 bp):
GTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCATTTTTATAAAATGATCGATACT
TTCAACATATCAAGTAAATTTTACCGTTTTTGTCATAATGAAACTG
Found at i:113834 original size:87 final size:87
Alignment explanation
Indices: 113683--113943 Score: 355
Period size: 87 Copynumber: 3.0 Consensus size: 87
113673 TAACAAATTA
* * * * * *
113683 AGTAATTAACCTATTTTAATATATAAACGCTA-CTCATTACGTTATATATGCT-CTACTTAATAT
1 AGTAATTAACCTATTTTATTATATAAGCGATACCT-ATTACATTATATAAG-TGCTACCTAATAT
*
113746 GTTATTGTGCTTGATAATGTTTCT
64 GTTATTGTGCTTGATAATGTTTCC
* *
113770 AGTAATTAACCTATTTTATTATATAAGCGTTACCTATTACATTATATAAGTGCTACCTATTATGT
1 AGTAATTAACCTATTTTATTATATAAGCGATACCTATTACATTATATAAGTGCTACCTAATATGT
*
113835 TATTGTGCTTGACAATGTTTCC
66 TATTGTGCTTGATAATGTTTCC
* * *
113857 AGTAATTAATCTATTTTATTATATAAGCGATACCTATTACATTATATAAGCGGTACCTAATATGT
1 AGTAATTAACCTATTTTATTATATAAGCGATACCTATTACATTATATAAGTGCTACCTAATATGT
* *
113922 TATTGTACTTAATAATGTTTCC
66 TATTGTGCTTGATAATGTTTCC
113944 GGTTAAATGA
Statistics
Matches: 155, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
86 1 0.01
87 152 0.98
88 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (87 bp):
AGTAATTAACCTATTTTATTATATAAGCGATACCTATTACATTATATAAGTGCTACCTAATATGT
TATTGTGCTTGATAATGTTTCC
Found at i:113837 original size:23 final size:23
Alignment explanation
Indices: 113778--113837 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
113768 CTAGTAATTA
* *
113778 ACCTATTTTATTATATAAGCGTT
1 ACCTATTATATTATATAAGCGCT
* *
113801 ACCTATTACATTATATAAGTGCT
1 ACCTATTATATTATATAAGCGCT
*
113824 ACCTATTATGTTAT
1 ACCTATTATATTAT
113838 TGTGCTTGAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.45
Consensus pattern (23 bp):
ACCTATTATATTATATAAGCGCT
Found at i:113924 original size:23 final size:23
Alignment explanation
Indices: 113874--113918 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
113864 AATCTATTTT
*
113874 ATTATATAAGCGATACCTATTAC
1 ATTATATAAGCGATACCTAATAC
*
113897 ATTATATAAGCGGTACCTAATA
1 ATTATATAAGCGATACCTAATA
113919 TGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGATACCTAATAC
Found at i:116494 original size:14 final size:14
Alignment explanation
Indices: 116475--116507 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
116465 TCAAAACTAT
116475 ATTATAAATATCAA
1 ATTATAAATATCAA
116489 ATTATAAATATCAA
1 ATTATAAATATCAA
116503 ATTAT
1 ATTAT
116508 GTTATTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
ATTATAAATATCAA
Found at i:119128 original size:45 final size:45
Alignment explanation
Indices: 119077--119244 Score: 248
Period size: 45 Copynumber: 3.8 Consensus size: 45
119067 TTCAAAATAT
* * *
119077 TTACCATTTATCCCATAAGCTCGTAAACTTATTTTACTAACATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACTAATATAC
*
119122 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACTAATATAC
* **
119167 TTACCATTTGTTTTATAAGCTCGTAAGCTTATTTTACTAATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACTAATATAC
**
119212 TTGTCA-TTATTCCATAAGCTCGTAAGCTTATTT
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTT
119245 GTATGGTTAC
Statistics
Matches: 110, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
44 24 0.22
45 86 0.78
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACTAATATAC
Found at i:119407 original size:40 final size:40
Alignment explanation
Indices: 119349--119425 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
119339 ACAGTAGTGC
*
119349 TACATATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
119389 TACACATAAGGTCGTGCCCACCATTTACACCGAAGTG
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTG
119426 AACTATAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:122304 original size:12 final size:12
Alignment explanation
Indices: 122285--122319 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
122275 TATTCAAGCC
122285 GAGAGAGAGAAA
1 GAGAGAGAGAAA
*
122297 GGGAGAGAGAAA
1 GAGAGAGAGAAA
*
122309 GAGAGGGAGAA
1 GAGAGAGAGAA
122320 GAAGAAGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (12 bp):
GAGAGAGAGAAA
Found at i:122306 original size:16 final size:16
Alignment explanation
Indices: 122285--122322 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
122275 TATTCAAGCC
*
122285 GAGAGAGAGAAAGGGA
1 GAGAGAAAGAAAGGGA
*
122301 GAGAGAAAGAGAGGGA
1 GAGAGAAAGAAAGGGA
122317 GA-AGAA
1 GAGAGAA
122323 GAAGAAGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (16 bp):
GAGAGAAAGAAAGGGA
Found at i:131305 original size:20 final size:20
Alignment explanation
Indices: 131280--131317 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
131270 TTCGAATTAG
131280 GGTGTGCATCGATACATCAA
1 GGTGTGCATCGATACATCAA
*
131300 GGTGTGCATCGGTACATC
1 GGTGTGCATCGATACATC
131318 CCTTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (20 bp):
GGTGTGCATCGATACATCAA
Found at i:131631 original size:13 final size:13
Alignment explanation
Indices: 131615--131648 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
131605 TAAAATTTTC
131615 TTTGAAAATAACT
1 TTTGAAAATAACT
*
131628 TTTG-AAATCACT
1 TTTGAAAATAACT
131640 TTTGAAAAT
1 TTTGAAAAT
131649 TACTCACCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (13 bp):
TTTGAAAATAACT
Found at i:133953 original size:44 final size:44
Alignment explanation
Indices: 133899--134047 Score: 217
Period size: 44 Copynumber: 3.4 Consensus size: 44
133889 GGTACACTGA
* * * *
133899 ATAGTATATCGATGCATATTTAAGGAATGAATCGGTGCACTTTC
1 ATAGTGTATCGATGCACATTCAAGGAATGCATCGGTGCACTTTC
* *
133943 ATAGTGTATCGATGCACATTCAAGGCATGCATCGGTGTACTTTC
1 ATAGTGTATCGATGCACATTCAAGGAATGCATCGGTGCACTTTC
* * *
133987 ATAGTGTATCGATGCACATTCAAGGGATGCATCGGTACACTTTT
1 ATAGTGTATCGATGCACATTCAAGGAATGCATCGGTGCACTTTC
134031 ATAGTGTATCGATGCAC
1 ATAGTGTATCGATGCAC
134048 TTTGCACAAA
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 95 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.32
Consensus pattern (44 bp):
ATAGTGTATCGATGCACATTCAAGGAATGCATCGGTGCACTTTC
Found at i:133958 original size:21 final size:21
Alignment explanation
Indices: 133929--134050 Score: 86
Period size: 21 Copynumber: 5.6 Consensus size: 21
133919 TAAGGAATGA
*
133929 ATCGGTGCACTTTCATAGTGT
1 ATCGATGCACTTTCATAGTGT
* *
133950 ATCGATGCACATTCA-AGGCATGC
1 ATCGATGCACTTTCATA-G--TGT
* *
133973 ATCGGTGTACTTTCATAGTGT
1 ATCGATGCACTTTCATAGTGT
* *
133994 ATCGATGCACATTCA-AGGGATGC
1 ATCGATGCACTTTCATA--G-TGT
* * *
134017 ATCGGTACACTTTTATAGTGT
1 ATCGATGCACTTTCATAGTGT
134038 ATCGATGCACTTT
1 ATCGATGCACTTT
134051 GCACAAAAAT
Statistics
Matches: 75, Mismatches: 18, Indels: 16
0.69 0.17 0.15
Matches are distributed among these distances:
20 2 0.03
21 41 0.55
22 2 0.03
23 28 0.37
24 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (21 bp):
ATCGATGCACTTTCATAGTGT
Found at i:134020 original size:23 final size:23
Alignment explanation
Indices: 133950--134020 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
133940 TTCATAGTGT
*
133950 ATCGATGCACATTCAAGGCATGC
1 ATCGATGCACATTCAAGGGATGC
* * * *
133973 ATCGGTGTACTTTCATA--G-TGT
1 ATCGATGCACATTCA-AGGGATGC
133994 ATCGATGCACATTCAAGGGATGC
1 ATCGATGCACATTCAAGGGATGC
134017 ATCG
1 ATCG
134021 GTACACTTTT
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
20 1 0.03
21 14 0.40
22 1 0.03
23 18 0.51
24 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (23 bp):
ATCGATGCACATTCAAGGGATGC
Found at i:140133 original size:22 final size:20
Alignment explanation
Indices: 140083--140124 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
140073 TTTTGGTGCA
*
140083 GAGGGAATCGATCCCCCCTT
1 GAGGGAACCGATCCCCCCTT
*
140103 GAGGGAACCGATCCCCCTTT
1 GAGGGAACCGATCCCCCCTT
140123 GA
1 GA
140125 AGGGGAACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.33, G:0.26, T:0.19
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCTT
Found at i:144972 original size:26 final size:26
Alignment explanation
Indices: 144943--144994 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
144933 CACTTTCATC
*
144943 AAGCTTATTCTTAAATACCCATCTAG
1 AAGCTTATTCTTAAATACACATCTAG
144969 AAGCTTATTCTTAAATACACATCTAG
1 AAGCTTATTCTTAAATACACATCTAG
144995 TACCTACAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.35
Consensus pattern (26 bp):
AAGCTTATTCTTAAATACACATCTAG
Found at i:148822 original size:65 final size:64
Alignment explanation
Indices: 148712--148868 Score: 172
Period size: 65 Copynumber: 2.4 Consensus size: 64
148702 TACACTTGGG
** * * * * * **
148712 GTGCATCGGTACACCAATTACAGTCGATGTTTCAAAAGAGCCAGGAGTGTATTGATGCATGGTTT
1 GTGCATCGGTACAAAAAATACATTCGATGTTTCAAAAGAACCAGGAGTGCATCGATGCAT-GACT
* *
148777 GTGCATCGGTACATAAAATACATTCGATGTTTCAATAA-AATCAGGAGTGCATCGATGCATGACT
1 GTGCATCGGTACAAAAAATACATTCGATGTTTCAA-AAGAACCAGGAGTGCATCGATGCATGACT
*
148841 GTGCATCGGTACACAAAAATGCATTCGA
1 GTGCATCGGTACA-AAAAATACATTCGA
148869 ATTAGGGTGT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
64 15 0.19
65 61 0.78
66 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (64 bp):
GTGCATCGGTACAAAAAATACATTCGATGTTTCAAAAGAACCAGGAGTGCATCGATGCATGACT
Found at i:148899 original size:20 final size:20
Alignment explanation
Indices: 148874--148912 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
148864 TTCGAATTAG
148874 GGTGTGCATCGATACATCAA
1 GGTGTGCATCGATACATCAA
*
148894 GGTGTGCATCGGTACATCA
1 GGTGTGCATCGATACATCA
148913 CTTTATAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (20 bp):
GGTGTGCATCGATACATCAA
Found at i:159732 original size:21 final size:21
Alignment explanation
Indices: 159689--159732 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
159679 GGATGAACTG
*
159689 TGGCTTTGGAAAAATGTTGTT
1 TGGCTTTGGAAAAATGTTCTT
*
159710 TGGCTTTGTAACAAAT-TTCTT
1 TGGCTTTGGAA-AAATGTTCTT
159731 TG
1 TG
159733 ATTTTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.45
Consensus pattern (21 bp):
TGGCTTTGGAAAAATGTTCTT
Found at i:159800 original size:21 final size:20
Alignment explanation
Indices: 159770--159808 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
159760 CATCAAGGTA
*
159770 TTTGTGGAAGCCATGAAATCT
1 TTTGTCGAAGCCAT-AAATCT
159791 TTTGTCGAAGCCATAAAT
1 TTTGTCGAAGCCATAAAT
159809 TCCTGCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (20 bp):
TTTGTCGAAGCCATAAATCT
Found at i:160514 original size:16 final size:16
Alignment explanation
Indices: 160493--160527 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
160483 CTATCCCAAT
160493 ATTCGTACATTGATTC
1 ATTCGTACATTGATTC
160509 ATTCGTACATTGATTC
1 ATTCGTACATTGATTC
160525 ATT
1 ATT
160528 ATCTCCTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (16 bp):
ATTCGTACATTGATTC
Found at i:163153 original size:31 final size:31
Alignment explanation
Indices: 163118--163227 Score: 107
Period size: 31 Copynumber: 3.4 Consensus size: 31
163108 TTAGGTCCAT
163118 AAGGAATTACCAGTCGGTGCTGAACCTATAA
1 AAGGAATTACCAGTCGGTGCTGAACCTATAA
* * *
163149 AAGGAATTACCAG-CAGCGACTGAACCTACCAGA
1 AAGGAATTACCAGTCGGTG-CTGAACCTA-TA-A
* *
163182 TATAGGAATTACCAGTCGGTACAT-AACCTATAC
1 -A-AGGAATTACCAGTCGGTGC-TGAACCTATAA
163215 AAGGAATTACCAG
1 AAGGAATTACCAG
163228 CAACGACTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
30 3 0.05
31 34 0.53
32 2 0.03
33 1 0.02
34 2 0.03
35 19 0.30
36 3 0.05
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (31 bp):
AAGGAATTACCAGTCGGTGCTGAACCTATAA
Found at i:163225 original size:66 final size:66
Alignment explanation
Indices: 163119--163247 Score: 197
Period size: 66 Copynumber: 2.0 Consensus size: 66
163109 TAGGTCCATA
* * *
163119 AGGAATTACCAGTCGGTGCTGAACCTATAAAAGGAATTACCAGCAGCGACTGAACCTACCAGATA
1 AGGAATTACCAGTCGGTACTGAACCTATAAAAGGAATTACCAGCAACGACTAAACCTACCAGATA
163184 T
66 T
* *
163185 AGGAATTACCAGTCGGTACAT-AACCTATACAAGGAATTACCAGCAACGACTAAACCTTCCAGA
1 AGGAATTACCAGTCGGTAC-TGAACCTATAAAAGGAATTACCAGCAACGACTAAACCTACCAGA
163248 GTCTTCATAC
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 56 0.98
67 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (66 bp):
AGGAATTACCAGTCGGTACTGAACCTATAAAAGGAATTACCAGCAACGACTAAACCTACCAGATA
T
Found at i:164857 original size:178 final size:180
Alignment explanation
Indices: 164558--164916 Score: 695
Period size: 178 Copynumber: 2.0 Consensus size: 180
164548 AGGGGCAATT
164558 TCATAATTTTATAATCAGGTGATTCTGGTATTAAACCTTTTAACAAAAATAAGTAGAATTTAATA
1 TCATAATTTTATAATCAGGTGATTCTGGTATTAAACCTTTTAACAAAAATAAGTAGAATTTAATA
*
164623 AATCTAAGGTAATTTGCTCTTCATATTAATCACTGTACTAGAAATTATTTCTTACC-ATCTTCCA
66 AATCTAAGGTAATTTGCGCTTCATATTAATCACTGTACTAGAAATTATTTCTTACCAATCTTCCA
164687 ATTCCTTTATGTAATTCAATAGAGTCTTAACC-ATTTCTCACTTAAATCG
131 ATTCCTTTATGTAATTCAATAGAGTCTTAACCAATTTCTCACTTAAATCG
164736 TCATAATTTTATAATCAGGTGATTCTGGTATTAAACCTTTTAACAAAAATAAGTAGAATTTAATA
1 TCATAATTTTATAATCAGGTGATTCTGGTATTAAACCTTTTAACAAAAATAAGTAGAATTTAATA
164801 AATCTAAGGTAATTTGCGCTTCATATTAATCACTGTACTAGAAATTATTTCTTACCAATCTTCCA
66 AATCTAAGGTAATTTGCGCTTCATATTAATCACTGTACTAGAAATTATTTCTTACCAATCTTCCA
164866 ATTCCTTTATGTAATTCAATAGAGTCTTAACCAATTTCTCACTTAAATCG
131 ATTCCTTTATGTAATTCAATAGAGTCTTAACCAATTTCTCACTTAAATCG
164916 T
1 T
164917 ATTCGGTTCA
Statistics
Matches: 178, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
178 120 0.67
179 40 0.22
180 18 0.10
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (180 bp):
TCATAATTTTATAATCAGGTGATTCTGGTATTAAACCTTTTAACAAAAATAAGTAGAATTTAATA
AATCTAAGGTAATTTGCGCTTCATATTAATCACTGTACTAGAAATTATTTCTTACCAATCTTCCA
ATTCCTTTATGTAATTCAATAGAGTCTTAACCAATTTCTCACTTAAATCG
Found at i:167202 original size:21 final size:20
Alignment explanation
Indices: 167160--167224 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 20
167150 AATAATAAAA
*
167160 TAAAATAATAAAAAGGATAT
1 TAAAATAATAAAAAAGATAT
167180 TAAAATAAATTAAAAAAGA-AT
1 TAAAAT-AA-TAAAAAAGATAT
**
167201 TAAAA-AAGGAAAAAGA-AT
1 TAAAATAATAAAAAAGATAT
167219 TAAAAT
1 TAAAAT
167225 TAGGTTTGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 14 0.36
19 2 0.05
20 6 0.15
21 9 0.23
22 8 0.21
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (20 bp):
TAAAATAATAAAAAAGATAT
Found at i:169984 original size:25 final size:25
Alignment explanation
Indices: 169927--169994 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 25
169917 TCATAAACCT
* * *
169927 CAACTAAATCCTAAACCTTAAGTCC
1 CAACCAAATCCTAAACCTTAAATCA
*
169952 CAACCAAATTCTAAACCTTAAATCA
1 CAACCAAATCCTAAACCTTAAATCA
* * * *
169977 TAATCAAACCCTAGACCT
1 CAACCAAATCCTAAACCT
169995 CATAAACCAT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.43, C:0.31, G:0.03, T:0.24
Consensus pattern (25 bp):
CAACCAAATCCTAAACCTTAAATCA
Found at i:180858 original size:16 final size:16
Alignment explanation
Indices: 180833--180865 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
180823 AATCAATACA
180833 AATATTTAAAT-ATTT
1 AATATTTAAATAATTT
180848 AATATTTTAAATAATTT
1 AATA-TTTAAATAATTT
180865 A
1 A
180866 TTTAGGTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 7 0.44
17 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATATTTAAATAATTT
Found at i:182492 original size:35 final size:38
Alignment explanation
Indices: 182453--182522 Score: 103
Period size: 35 Copynumber: 1.9 Consensus size: 38
182443 GTTTAAGATA
182453 AAATATATTA-TTTAA-TCA-TTTAAAATA-TAATAAAT
1 AAATATATTATTTTAACT-ATTTTAAAATATTAATAAAT
182488 AAATATATTATTTTAACTATTTTAAAATATTAATA
1 AAATATATTATTTTAACTATTTTAAAATATTAATA
182523 TATACGAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
35 10 0.32
36 6 0.19
37 10 0.32
38 5 0.16
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (38 bp):
AAATATATTATTTTAACTATTTTAAAATATTAATAAAT
Found at i:183277 original size:17 final size:17
Alignment explanation
Indices: 183255--183288 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
183245 TAATTATATA
183255 TTAAATCTTTTA-AAATT
1 TTAAAT-TTTTATAAATT
183272 TTAAATTTTTATAAATT
1 TTAAATTTTTATAAATT
183289 AAATTAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAATTTTTATAAATT
Found at i:183668 original size:66 final size:64
Alignment explanation
Indices: 183586--183710 Score: 171
Period size: 66 Copynumber: 1.9 Consensus size: 64
183576 ACTAAAGTTC
*
183586 AAAAACACTAGATTTAATTATTAAACATCTGAATTACTTTTTTTTATCAGTTATTCAATTAAATT
1 AAAAACACTAGATTTAATTATTAAACATCTGAATTAC--TTTTTTATCAGTTACTCAATTAAATT
183651 A
64 A
*** *
183652 AAAAACACTCAG-TTTAATTATTAAGTTTTTGAATTACTTTTTTATCAGTTACTCAATTA
1 AAAAACACT-AGATTTAATTATTAAACATCTGAATTACTTTTTTATCAGTTACTCAATTA
183711 TTGAATAGTT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
64 21 0.40
66 30 0.57
67 2 0.04
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (64 bp):
AAAAACACTAGATTTAATTATTAAACATCTGAATTACTTTTTTATCAGTTACTCAATTAAATTA
Found at i:195892 original size:18 final size:18
Alignment explanation
Indices: 195869--195903 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
195859 ACTGAATATT
*
195869 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
195887 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
195904 GATAATACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.20, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:199483 original size:14 final size:15
Alignment explanation
Indices: 199464--199502 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
199454 TCTCGATTAC
199464 ATCCACTTTGG-CTT
1 ATCCACTTTGGTCTT
*
199478 ATCCACTTTGGTTTT
1 ATCCACTTTGGTCTT
199493 ATCCACTTTG
1 ATCCACTTTG
199503 ATGCCTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.15, C:0.26, G:0.13, T:0.46
Consensus pattern (15 bp):
ATCCACTTTGGTCTT
Found at i:201919 original size:21 final size:20
Alignment explanation
Indices: 201890--201929 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
201880 GTATCAAGGT
201890 TTTTATTGAAGCCATGAAATC
1 TTTTATTGAAGCCAT-AAATC
* *
201911 TTTTGTTGAGGCCATAAAT
1 TTTTATTGAAGCCATAAAT
201930 TCATGCAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.40
Consensus pattern (20 bp):
TTTTATTGAAGCCATAAATC
Found at i:205607 original size:6 final size:6
Alignment explanation
Indices: 205578--205609 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
205568 TATTATTATT
*
205578 ATTTTT ATTTTA ATTTTA ATTTTA ATTTTA AT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA AT
205610 AATTTTTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
ATTTTA
Found at i:205744 original size:16 final size:16
Alignment explanation
Indices: 205719--205750 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
205709 TTTGAAACCC
*
205719 TACGATTTCCAATCGT
1 TACGAATTCCAATCGT
205735 TACGAATTCCAATCGT
1 TACGAATTCCAATCGT
205751 AGCCGTCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (16 bp):
TACGAATTCCAATCGT
Found at i:207731 original size:5 final size:5
Alignment explanation
Indices: 207721--207757 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
207711 ATTGGTAATT
207721 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TT
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TT
207758 TATTTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TTAAA
Found at i:211090 original size:22 final size:23
Alignment explanation
Indices: 211037--211101 Score: 78
Period size: 22 Copynumber: 2.8 Consensus size: 23
211027 TCGACTCCCT
*
211037 AAAGGAGGGAATCGGTTCCCATTC
1 AAAGG-GGGAATCGATTCCCATTC
* *
211061 AAAGGGGGAAACGATTCCCCTTC
1 AAAGGGGGAATCGATTCCCATTC
*
211084 -AAGGGGGTATCGATTCCC
1 AAAGGGGGAATCGATTCCC
211102 TTTGCACTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
22 16 0.44
23 15 0.42
24 5 0.14
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.20
Consensus pattern (23 bp):
AAAGGGGGAATCGATTCCCATTC
Found at i:211102 original size:21 final size:21
Alignment explanation
Indices: 211020--211103 Score: 71
Period size: 21 Copynumber: 3.9 Consensus size: 21
211010 CAGAACCCGT
* * *
211020 GGGGGTATCGACTCCC-TAAA
1 GGGGGAATCGATTCCCTTCAA
*
211040 GGAGGGAATCGGTTCCCATTCAAA
1 GG-GGGAATCGATTCCC-TTC-AA
*
211064 GGGGGAAACGATTCCCCTTCAA
1 GGGGGAATCGATT-CCCTTCAA
*
211086 GGGGGTATCGATTCCCTT
1 GGGGGAATCGATTCCCTT
211104 TGCACTAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
20 2 0.04
21 16 0.31
22 13 0.25
23 13 0.25
24 7 0.14
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.23
Consensus pattern (21 bp):
GGGGGAATCGATTCCCTTCAA
Found at i:236547 original size:117 final size:116
Alignment explanation
Indices: 236406--236615 Score: 278
Period size: 116 Copynumber: 1.8 Consensus size: 116
236396 CATATACGAT
* * * * * *
236406 GAATCGAGCTAAGGTTAAATAAGTTCTTCTCATTATGAGCTTTTTCT-CCTTCATCAAATGATTT
1 GAATCGAACCAAGGTTAAACAAGTTCTTATCA-TATGAACTTTTTCTCCCTT-ATCAAATGAGTT
* *
236470 CTTCTCATTATGAACTCTCCATTGGAAATGTTAATCTACCTCCTTCTGTGATG
64 CTTCTCAATATGAACTCTCCATCGGAAATGTTAATCTACCTCCTTCTGTGATG
* * ***
236523 GAATCGAACCAAGGTTGAACAAGTTCTTATCATATGAACTTTTTCTCCCTTGTTGGATGAGTTCT
1 GAATCGAACCAAGGTTAAACAAGTTCTTATCATATGAACTTTTTCTCCCTTATCAAATGAGTTCT
236588 TCTCAATATGAACTCTCCATCGGAAATG
66 TCTCAATATGAACTCTCCATCGGAAATG
236616 CCAATCCCTC
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
116 48 0.61
117 31 0.39
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (116 bp):
GAATCGAACCAAGGTTAAACAAGTTCTTATCATATGAACTTTTTCTCCCTTATCAAATGAGTTCT
TCTCAATATGAACTCTCCATCGGAAATGTTAATCTACCTCCTTCTGTGATG
Found at i:237193 original size:37 final size:35
Alignment explanation
Indices: 237091--237210 Score: 100
Period size: 37 Copynumber: 3.3 Consensus size: 35
237081 ATCCATCTTG
* *
237091 AGTGAGATAGATTTTGTTTCGAGAGAAAACTGTCTCA
1 AGTGAGATA-ATTTT-TTTCAAGGGAAAACTGTCTCA
* * *
237128 AGCGAGATGAAGTTATTTTT-AA-GAAAAACTATCTCA
1 AGTGAGAT-AA-TT-TTTTTCAAGGGAAAACTGTCTCA
*
237164 AGTGAGATACATTTTATTTCAAGGGAAAACTGCCTCA
1 AGTGAGATA-ATTTT-TTTCAAGGGAAAACTGTCTCA
*
237201 AGAGAGATAA
1 AGTGAGATAA
237211 AATTCGTTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
34 2 0.03
35 6 0.09
36 22 0.33
37 28 0.42
38 6 0.09
39 2 0.03
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (35 bp):
AGTGAGATAATTTTTTTCAAGGGAAAACTGTCTCA
Found at i:237221 original size:73 final size:73
Alignment explanation
Indices: 236997--237237 Score: 205
Period size: 73 Copynumber: 3.3 Consensus size: 73
236987 TAAGAAACTT
* * * * * * * *
236997 GTTTTAAGAAAAGCTCTCTCAAGTTAGATAAATTTTGTTTCAAAGGAAAATTGTCTTTAA-TGAG
1 GTTTTAAGAAAAACTATCTCAAGTGAGATAAATTTTGTTTCAAGGGAAAACTG-CCTCAAGAGAG
* *
237061 ACGAAGTTT
65 ATGAAGTTA
* * * ** * * * * *
237070 GTTTTAGGAAAATCCATCTTGAGTGAGATAGATTTTGTTTCGAGAGAAAACTGTCTCAAGCGAGA
1 GTTTTAAGAAAAACTATCTCAAGTGAGATAAATTTTGTTTCAAGGGAAAACTGCCTCAAGAGAGA
237135 TGAAGTTA
66 TGAAGTTA
* * *
237143 TTTTTAAGAAAAACTATCTCAAGTGAGATACATTTTATTTCAAGGGAAAACTGCCTCAAGAGAGA
1 GTTTTAAGAAAAACTATCTCAAGTGAGATAAATTTTGTTTCAAGGGAAAACTGCCTCAAGAGAGA
* * *
237208 TAAAATTC
66 TGAAGTTA
** *
237216 GTTTTAAGGGAAACGATCTCAA
1 GTTTTAAGAAAAACTATCTCAA
237238 ATACTTGTGT
Statistics
Matches: 130, Mismatches: 37, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
72 3 0.02
73 127 0.98
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.32
Consensus pattern (73 bp):
GTTTTAAGAAAAACTATCTCAAGTGAGATAAATTTTGTTTCAAGGGAAAACTGCCTCAAGAGAGA
TGAAGTTA
Found at i:237310 original size:44 final size:45
Alignment explanation
Indices: 237221--237312 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 45
237211 AATTCGTTTT
* * * * * *
237221 AAGGGAAACGATCTCAAATACTTGTGTTTCAATAGAAATTATCTC
1 AAGGGAAACGATATCAAAGAATGGTGTTTCAAGAGAAACTATCTC
* *
237266 AAGGGAAAC-ATATCAAAGAATGGTGTTTCAAGGGAAACTGTCTC
1 AAGGGAAACGATATCAAAGAATGGTGTTTCAAGAGAAACTATCTC
237310 AAG
1 AAG
237313 AGAGACAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 30 0.77
45 9 0.23
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (45 bp):
AAGGGAAACGATATCAAAGAATGGTGTTTCAAGAGAAACTATCTC
Found at i:237337 original size:36 final size:36
Alignment explanation
Indices: 237289--237718 Score: 241
Period size: 37 Copynumber: 12.4 Consensus size: 36
237279 CAAAGAATGG
237289 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
237325 CGTTTCAAGGGAAAC-GATCTC-----A-A-ATATTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATT
* * * * * *
237354 ATGTTTCAACGAAAACTTTATCAAGGGAGACGAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAATT
* * *
237392 TGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
* * * *
237429 TATTTCAAGGGAAACTGTCTTAAGGGAGACGAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAATT
** *
237466 TGTTTCAAAAGAAACTGTCTCAAGGGAGACAAAACTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
* *
237503 TGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
237539 CT-TTTCAAGGGAAA-TTTTTC-A-A-AG-----TTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* *
237566 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
237603 CGTTTCAAGGGAAAC-GTTTTC-A-A-AG-----TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATT
** * *
237631 ATGTTTCAAGACAAACTGTCTAAAAAGAGACAAAATT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* *
237668 CGTTTCAAGGGAATC-GATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATT
*
237704 TGTTTCAAGAGAAAC
1 TGTTTCAAGGGAAAC
237719 AATCTCAAAG
Statistics
Matches: 298, Mismatches: 59, Indels: 74
0.69 0.14 0.17
Matches are distributed among these distances:
27 3 0.01
28 13 0.04
29 22 0.07
30 19 0.06
31 2 0.01
32 6 0.02
33 2 0.01
34 1 0.00
35 9 0.03
36 95 0.32
37 118 0.40
38 8 0.03
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:237479 original size:74 final size:75
Alignment explanation
Indices: 237374--237546 Score: 298
Period size: 74 Copynumber: 2.3 Consensus size: 75
237364 GAAAACTTTA
237374 TCAAGGGAGACGAAATTTTGTTT-AAAGAGAAACTGTCTCAAGGGAGACAAAACTTTATTTCAAG
1 TCAAGGGAGACGAAATTTTGTTTCAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTATTTCAAG
237438 GGAAACTGTC
66 GGAAACTGTC
* *
237448 TTAAGGGAGACGAAATTTTGTTTCAAA-AGAAACTGTCTCAAGGGAGACAAAACTTTGTTTCAAG
1 TCAAGGGAGACGAAATTTTGTTTCAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTATTTCAAG
237512 GGAAACTGTC
66 GGAAACTGTC
*
237522 TCAAGGGAGACGAAATTCT-TTTCAA
1 TCAAGGGAGACGAAATTTTGTTTCAA
237547 GGGAAATTTT
Statistics
Matches: 94, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
73 6 0.06
74 85 0.90
75 3 0.03
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.27
Consensus pattern (75 bp):
TCAAGGGAGACGAAATTTTGTTTCAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTATTTCAAG
GGAAACTGTC
Found at i:237609 original size:64 final size:65
Alignment explanation
Indices: 237503--237680 Score: 277
Period size: 65 Copynumber: 2.8 Consensus size: 65
237493 GACAAAACTT
* * * *
237503 TGTTTCAAGGGAAACTGTCTCAAGGGAGACGAAATTCTTTTCAAGGGAAA-TTTTTCAAAGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACGTTTTCAAAGTTTA
237567 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACGTTTTCAAAGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACGTTTTCAAAGTTTA
* * **
237632 TGTTTCAAGACAAACTGTCTAAAAAGAGACAAAATTCGTTTCAAGGGAA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAA
237681 TCGATCTCAA
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
64 47 0.45
65 58 0.55
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACGTTTTCAAAGTTTA
Found at i:237724 original size:36 final size:36
Alignment explanation
Indices: 237632--237727 Score: 111
Period size: 36 Copynumber: 2.7 Consensus size: 36
237622 TCAAAGTTTA
* ** *
237632 TGTTTCAAGACAAACTGTCTAAAAAGAGACAAAATT
1 TGTTTCAAGAGAAACAATCTCAAAAGAGACAAAATT
* * * * *
237668 CGTTTCAAGGGAATCGATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACAATCTCAAAAGAGACAAAATT
237704 TGTTTCAAGAGAAACAATCTCAAA
1 TGTTTCAAGAGAAACAATCTCAAA
237728 GTTTATCAAT
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.24
Consensus pattern (36 bp):
TGTTTCAAGAGAAACAATCTCAAAAGAGACAAAATT
Found at i:242996 original size:27 final size:26
Alignment explanation
Indices: 242966--243026 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
242956 TAAACTTAAT
*
242966 TAAAATAATTAAAATAACAA-ATAAAAA
1 TAAAATAAGTAAAA-AACAACAT-AAAA
242993 TAAAA-ACAGTAAAAAACAACATAAAA
1 TAAAATA-AGTAAAAAACAACATAAAA
243019 TAAAATAA
1 TAAAATAA
243027 AAATAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
26 16 0.53
27 14 0.47
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.18
Consensus pattern (26 bp):
TAAAATAAGTAAAAAACAACATAAAA
Found at i:250190 original size:24 final size:24
Alignment explanation
Indices: 250157--250214 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
250147 ATGAGTCATG
250157 AAAGTACCCACATTAGTGCATGACC
1 AAAG-ACCCACATTAGTGCATGACC
*
250182 AAAGACCCATATTAGTGCATGACC
1 AAAGACCCACATTAGTGCATGACC
250206 AAAGACCCA
1 AAAGACCCA
250215 AATCATGTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 28 0.88
25 4 0.12
ACGTcount: A:0.40, C:0.28, G:0.16, T:0.17
Consensus pattern (24 bp):
AAAGACCCACATTAGTGCATGACC
Found at i:251876 original size:258 final size:258
Alignment explanation
Indices: 251419--252481 Score: 1354
Period size: 258 Copynumber: 4.1 Consensus size: 258
251409 TGATTTTCAA
* * * * * *
251419 AAAAATGAGAAAAGGATTTCCAAAGTTTCTCATTTAAATCTTTTTCTGAAAATGACATTTTTGAA
1 AAAAATGAGAAAGGGATTTTCAAAGTTTCTCATTT-AGT-ATTTTCAGAAAATGAAATTTTTGAA
* * ***
251484 ACGTAAGAAAGCGATTTCCAAAGTTTCTTAACTAGTAAACTATTTTTGAAATTGGTAAGTCCTTC
64 AAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTC
* * ** *
251549 GGGCCATCAATAAATCTTTCGAACATGATGATTAAATGTTTCGGGTCATCTGTCAGTCTTTTGAG
129 GGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAG
* * *
251614 CAAGATGATAAGTCATTCGGGCCATCTATAAGACATTCGGGAAAGATGCTT-AAAT-ATAATTTG
194 CAAGATGATAAGTCATTCGGGCCATCTATAAGACCTTCGGGCAAGATGCTTCATATGATAATTTG
* *
251677 AAAAATGAGAAAGGGATTTTCAAATTTTCTCATTTAGTATTTTCAAAAACAATGAAATTTTTGAA
1 AAAAATGAGAAAGGGATTTTCAAAGTTTCTCATTTAGTATTTTC-AGAA-AATGAAATTTTTGAA
* * *
251742 AAGTAAGAAAGCAATTTCCAAAGTTTCTTACCTACTAAACTATTTCCAAAATTGGTAAGTACTTC
64 AAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTC
* * * *
251807 GGGCCATCAGTAAGTCTTTCGAGCATGATTATTAAATCCTTCGGGTCATTTGTTAGTCTTTCGAG
129 GGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAG
* * * *
251872 CAAGATGATAAGTCCA-TCGGGTCATCTATAAGACCTTTGGGCAATATGTTTTCATATGATAATT
194 CAAGATGATAAGT-CATTCGGGCCATCTATAAGACCTTCGGGCAAGATG-CTTCATATGATAATT
251936 TG
257 TG
* * * *
251938 AAAAATGAGAACGTGG-TTTTCAAAGCTTCTCATTTAGTATTTTCAGAAAATGATATATTTGAAA
1 AAAAATGAGAAAG-GGATTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAA
* * *
252002 AGTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCATTAG
65 AGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCG
* * * * * * *
252067 GGCCATCAATATGTCTTTCGAGAATGATGATTAAATCCTTCAGGTTATTTGTCAGTATTTCAAGC
130 GGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGC
* * * *** *
252132 AAGATGGTAAGTCCTTCGGGCTATCTATAAGACCTTC-GTTTAGATG-TT-TTCAT-ATAATTTG
195 AAGATGATAAGTCATTCGGGCCATCTATAAGACCTTCGGGCAAGATGCTTCAT-ATGATAATTTG
*
252193 AAAATTGAGAAAGCGG-TTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAA
1 AAAAATGAGAAAG-GGATTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAA
* * * *
252257 ATTAAGAAAGCGATTTCCAAAGTTTCATACCTAGTAAACTATTTCCAAAATTGATACGTCCTTCG
65 AGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCG
* * * *
252322 GGCCATGAGTAAGTCTTTTGAGCATGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGG
130 GGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGC
* ** *
252387 AAGATGATAAGTCCTTTTGGCCATCTATAAGACCTTTGGGCAAGATGCTTTCATATGATAATTTG
195 AAGATGATAAGTCATTCGGGCCATCTATAAGACCTTCGGGCAAGATGC-TTCATATGATAATTTG
*
252452 AAAAATGAG-AAGGCGATTTCCAAAGTTTCT
1 AAAAATGAGAAAGG-GATTTTCAAAGTTTCT
252482 TACCTAGTAA
Statistics
Matches: 691, Mismatches: 98, Indels: 31
0.84 0.12 0.04
Matches are distributed among these distances:
255 211 0.31
256 15 0.02
257 5 0.01
258 213 0.31
259 193 0.28
260 6 0.01
261 46 0.07
262 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (258 bp):
AAAAATGAGAAAGGGATTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAA
GTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGG
GCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCA
AGATGATAAGTCATTCGGGCCATCTATAAGACCTTCGGGCAAGATGCTTCATATGATAATTTG
Found at i:252293 original size:255 final size:258
Alignment explanation
Indices: 251419--252481 Score: 1327
Period size: 255 Copynumber: 4.1 Consensus size: 258
251409 TGATTTTCAA
* * * * * *
251419 AAAAATGAGAAAAG-GATTTCCAAAGTTTCTCATTTAAATCTTTTTCTGAAAATGACATTTTTGA
1 AAAAATGAG-AAAGCGGTTTTCAAAGTTTCTCATTT-AGT-ATTTTCAGAAAATGAAATTTTTGA
* * *** *
251483 AACGTAAGAAAGCGATTTCCAAAGTTTCTTAACTAGTAAACTATTTTTGAAATTGGTAAGTCCTT
63 AAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCATT
* ** *
251548 CGGGCCATCAATAAATCTTTCGA-ACATGATGATTAAATGTTTCGGGTCATCTGTCAGTCTTTTG
128 CGGGCCATCAATAAGTCTTTCGAGA-ATGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCG
* * * *
251612 AGCAAGATGATAAGTCATTCGGGCCATCTATAAGA-CATTCGGGAAAGATGC-TTAAAT-ATAAT
192 AGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTTC-GGCAAGATGCTTTCAATGATAAT
251674 TTG
256 TTG
* *
251677 AAAAATGAGAAAG-GGATTTTCAAATTTTCTCATTTAGTATTTTCAAAAACAATGAAATTTTTGA
1 AAAAATGAGAAAGCGG-TTTTCAAAGTTTCTCATTTAGTATTTTC-AGAA-AATGAAATTTTTGA
* *
251741 AAAGTAAGAAAGCAATTTCCAAAGTTTCTTACCTACTAAACTATTTCCAAAATTGGTAAGT-ACT
63 AAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCA-T
* * * * *
251805 TCGGGCCATCAGTAAGTCTTTCGAGCATGATTATTAAATCCTTCGGGTCATTTGTTAGTCTTTCG
127 TCGGGCCATCAATAAGTCTTTCGAGAATGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCG
* * * * *
251870 AGCAAGATGATAAGTCCATCGGGTCATCTATAAGACCTTTGGGCAATATGTTTTCATATGATAAT
192 AGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTTCGGCAAGATGCTTTCA-ATGATAAT
251935 TTG
256 TTG
* * * * *
251938 AAAAATGAGAACGTGGTTTTCAAAGCTTCTCATTTAGTATTTTCAGAAAATGATATATTTGAAAA
1 AAAAATGAGAAAGCGGTTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAA
* *
252003 GTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCATTAGG
66 GTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCATTCGG
* * * * * *
252068 GCCATCAATATGTCTTTCGAGAATGATGATTAAATCCTTCAGGTTATTTGTCAGTATTTCAAGCA
131 GCCATCAATAAGTCTTTCGAGAATGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCA
* * *** *
252133 AGATGGTAAGTCCTTCGGGCTATCTATAAGACC-TTCGTTTAGATGTTTTC-AT-ATAATTTG
196 AGATGATAAGTCCTTCGGGCCATCTATAAGACCTTTCGGCAAGATGCTTTCAATGATAATTTG
*
252193 AAAATTGAGAAAGCGGTTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAA
1 AAAAATGAGAAAGCGGTTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAA
* * * * *
252258 TTAAGAAAGCGATTTCCAAAGTTTCATACCTAGTAAACTATTTCCAAAATTGATACGTCCTTCGG
66 GTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCATTCGG
* * * * *
252323 GCCATGAGTAAGTCTTTTGAGCATGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGGA
131 GCCATCAATAAGTCTTTCGAGAATGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCA
** *
252388 AGATGATAAGTCCTTTTGGCCATCTATAAGACCTTTGGGCAAGATGCTTTCATATGATAATTTG
196 AGATGATAAGTCCTTCGGGCCATCTATAAGACCTTTCGGCAAGATGCTTTCA-ATGATAATTTG
* * *
252452 AAAAATGAGAAGGCGATTTCCAAAGTTTCT
1 AAAAATGAGAAAGCGGTTTTCAAAGTTTCT
252482 TACCTAGTAA
Statistics
Matches: 691, Mismatches: 99, Indels: 29
0.84 0.12 0.04
Matches are distributed among these distances:
255 208 0.30
256 19 0.03
257 9 0.01
258 202 0.29
259 199 0.29
260 6 0.01
261 46 0.07
262 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (258 bp):
AAAAATGAGAAAGCGGTTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAATTTTTGAAAA
GTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCATTCGG
GCCATCAATAAGTCTTTCGAGAATGATGATTAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCA
AGATGATAAGTCCTTCGGGCCATCTATAAGACCTTTCGGCAAGATGCTTTCAATGATAATTTG
Found at i:252393 original size:42 final size:41
Alignment explanation
Indices: 252315--252411 Score: 95
Period size: 42 Copynumber: 2.3 Consensus size: 41
252305 AATTGATACG
* * *
252315 TCCTTCGGGCCATGAGTAAGTCTTTTGAGCATGATGATTAAA
1 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAGATGA-TAAA
* * * * *
252357 TCCTTCGGGTCATCTGTCAGTCTTTCGAGGAAGATGATAAG
1 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAGATGATAAA
**
252398 TCCTTTTGGCCATC
1 TCCTTCGGGCCATC
252412 TATAAGACCT
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
41 14 0.32
42 30 0.68
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.34
Consensus pattern (41 bp):
TCCTTCGGGCCATCAGTAAGTCTTTCGAGCAAGATGATAAA
Found at i:252441 original size:514 final size:517
Alignment explanation
Indices: 251460--252462 Score: 1476
Period size: 514 Copynumber: 1.9 Consensus size: 517
251450 ATTTAAATCT
* * *
251460 TTTTCTGAAAATGACATTTTTGAAACGTAAGAAAGCGATTTCCAAAGTTTCTTAACTAGTAAACT
1 TTTTCAGAAAATGACATATTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTAACTAGTAAACT
*** * * **
251525 ATTTTTGAAATTGGTAAGTCCTTCGGGCCATCAATAAATCTTTCGAACATGATGATTAAATGTTT
66 ATTTCCAAAATTGGTAAGTCATTAGGGCCATCAATAAATCTTTCGAACATGATGATTAAATCCTT
* * **
251590 CGGGTCATCTGTCAGTCTTTTGAGCAAGATGATAAGTCATTCGGGCCATCTATAAGACATTCGGG
131 CAGGTCATCTGTCAGTATTTCAAGCAAGATGATAAGTCATTCGGGCCATCTATAAGACATTCGGG
*
251655 AAAGATGCTTAAATATAATTTGAAAAATGAGAAAGGGATTTTCAAATTTTCTCATTTAGTATTTT
196 AAAGATGCTTAAATATAATTTGAAAAATGAGAAAGGGATTTTCAAAGTTTCTCATTTAGTATTTT
*
251720 CAAAAACAATGAAATTTTTGAAAAGTAAGAAAGCAATTTCCAAAGTTTCTTACCTACTAAACTAT
261 CAAAAACAATGAAATTTTTGAAAAGTAAGAAAGCAATTTCCAAAGTTTCATACCTACTAAACTAT
* *
251785 TTCCAAAATTGGTAAGTACTTCGGGCCATCAGTAAGTCTTTCGAGCATGATTATTAAATCCTTCG
326 TTCCAAAATTGATAAGTACTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCG
* * *
251850 GGTCATTTGTTAGTCTTTCGAGCAAGATGATAAGTCCATCGGGTCATCTATAAGACCTTTGGGCA
391 GGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCATCGGGCCATCTATAAGACCTTTGGGCA
* *
251915 ATATGTTTTCATATGATAATTTGAAAAATGAGAACGTGGTTTTCAAAGCTTCTCATTTAGTA
456 AGATGCTTTCATATGATAATTTGAAAAATGAGAACGTGGTTTTCAAAGCTTCTCATTTAGTA
* * *
251977 TTTTCAGAAAATGATATATTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACT
1 TTTTCAGAAAATGACATATTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTAACTAGTAAACT
**
252042 ATTTCCAAAATTGGTAAGTCATTAGGGCCATCAATATGTCTTTCGAGA-ATGATGATTAAATCCT
66 ATTTCCAAAATTGGTAAGTCATTAGGGCCATCAATAAATCTTTCGA-ACATGATGATTAAATCCT
* * * * * *
252106 TCAGGTTATTTGTCAGTATTTCAAGCAAGATGGTAAGTCCTTCGGGCTATCTATAAGACCTTC-G
130 TCAGGTCATCTGTCAGTATTTCAAGCAAGATGATAAGTCATTCGGGCCATCTATAAGACATTCGG
*** * ** *
252170 TTTAGATGTTTTCATATAATTTGAAAATTGAGAAAGCGG-TTTTCAAAGTTTCTCATTTAGTATT
195 GAAAGATGCTTAAATATAATTTGAAAAATGAGAAAG-GGATTTTCAAAGTTTCTCATTTAGTATT
* * * *
252234 TTC-AGAA-AATGAAATTTTTGAAAATTAAGAAAGCGATTTCCAAAGTTTCATACCTAGTAAACT
259 TTCAAAAACAATGAAATTTTTGAAAAGTAAGAAAGCAATTTCCAAAGTTTCATACCTACTAAACT
* * * *
252297 ATTTCCAAAATTGATACGTCCTTCGGGCCATGAGTAAGTCTTTTGAGCATGATGATTAAATCCTT
324 ATTTCCAAAATTGATAAGTACTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTT
* * **
252362 CGGGTCATCTGTCAGTCTTTCGAGGAAGATGATAAGTCCTTTTGGCCATCTATAAGACCTTTGGG
389 CGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCATCGGGCCATCTATAAGACCTTTGGG
252427 CAAGATGCTTTCATATGATAATTTGAAAAATGAGAA
454 CAAGATGCTTTCATATGATAATTTGAAAAATGAGAA
252463 GGCGATTTCC
Statistics
Matches: 431, Mismatches: 53, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
514 203 0.47
515 3 0.01
516 57 0.13
517 167 0.39
518 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (517 bp):
TTTTCAGAAAATGACATATTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTAACTAGTAAACT
ATTTCCAAAATTGGTAAGTCATTAGGGCCATCAATAAATCTTTCGAACATGATGATTAAATCCTT
CAGGTCATCTGTCAGTATTTCAAGCAAGATGATAAGTCATTCGGGCCATCTATAAGACATTCGGG
AAAGATGCTTAAATATAATTTGAAAAATGAGAAAGGGATTTTCAAAGTTTCTCATTTAGTATTTT
CAAAAACAATGAAATTTTTGAAAAGTAAGAAAGCAATTTCCAAAGTTTCATACCTACTAAACTAT
TTCCAAAATTGATAAGTACTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCG
GGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCATCGGGCCATCTATAAGACCTTTGGGCA
AGATGCTTTCATATGATAATTTGAAAAATGAGAACGTGGTTTTCAAAGCTTCTCATTTAGTA
Found at i:252585 original size:453 final size:453
Alignment explanation
Indices: 251987--252933 Score: 1660
Period size: 453 Copynumber: 2.1 Consensus size: 453
251977 TTTTCAGAAA
* * * *
251987 ATGATATATTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAA
1 ATGATA-ATTTGAAAAATGAGAAGGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAA
*
252052 TTGGTAAGTCATTAGGGCCATCAATATGTCTTTCGAGAATGATGATTAAATCCTTCAGGTTATTT
65 TTGGTAAGTCATTAGGGCCATCAATATGTCTTTCAAGAATGATGATTAAATCCTTCAGGTTATTT
* ** *
252117 GTCAGTATTTCAAGCAAGATGGTAAGTCCTTCGGGCTATCTATAAGACCTTCGTTTAGATGTTTT
130 GTCAGTATTTCAAGCAAGATGATAAGTCCTTCGGGCTATCTATAAGACCTTCGGCTAGATGCTTT
252182 CATATAATTTGAAAATTGAGAAAGCGGTTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAA
195 CATATAATTTGAAAATTGAGAAAGCGGTTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAA
*
252247 ATTTTTGAAAATTAAGAAAGCGATTTCCAAAGTTTCATACCTAGTAAACTATTTCCAAAATTGAT
260 ATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCATACCTAGTAAACTATTTCCAAAATTGAT
* * *
252312 ACGTCCTTCGGGCCATGAGTAAGTCTTTTGAGCATGATGATTAAATCCTTCGGGTCATCTGTCAG
325 AAGTCCTTCGGGCCATGAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGTCATCTGTCAG
* * *
252377 TCTTTCGAGGAAGATGATAAGTCCTTTTGGCCATCTATAAGACCTTTGGGCAAGATGCTTTCAT
390 TCTTTCAAGCAAGATGATAAGTCCTTTTGGCCATCTATAAGACCTTTGGGCAAGATACTTTCAT
252441 ATGATAATTTGAAAAATGAGAAGGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAAT
1 ATGATAATTTGAAAAATGAGAAGGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAAT
* *
252506 TGGTAAGTCATTAGGGCCATCAGTATGTCTTTCAAGAATGATGATTAAATCCTTTAGGTTATTTG
66 TGGTAAGTCATTAGGGCCATCAATATGTCTTTCAAGAATGATGATTAAATCCTTCAGGTTATTTG
* *
252571 TCAGTATTTCAAGCAAGATGATAAGTCCTTTGGGCTATCTATAAGACCTTCGGCTATATGCTTTC
131 TCAGTATTTCAAGCAAGATGATAAGTCCTTCGGGCTATCTATAAGACCTTCGGCTAGATGCTTTC
* * *
252636 ATATGATTTGATAGTTGAGAAAGCGGTTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAA
196 ATATAATTTGAAAATTGAGAAAGCGGTTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAA
*
252701 TTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGATA
261 TTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCATACCTAGTAAACTATTTCCAAAATTGATA
*
252766 AGTCCTTCGGGCCATGAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGTCATTTGTCAGT
326 AGTCCTTCGGGCCATGAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGTCATCTGTCAGT
252831 CTTTCAAGCAAGATGATAAGTCCTTTTGGCCATCTATAAGACCTTTGGGCAAGATACTTTCAT
391 CTTTCAAGCAAGATGATAAGTCCTTTTGGCCATCTATAAGACCTTTGGGCAAGATACTTTCAT
252894 ATGATAATTTGAAAAATGAGAAGGCGATTTCCAAAGTTTC
1 ATGATAATTTGAAAAATGAGAAGGCGATTTCCAAAGTTTC
252934 CCATTTAGTA
Statistics
Matches: 468, Mismatches: 25, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
453 462 0.99
454 6 0.01
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (453 bp):
ATGATAATTTGAAAAATGAGAAGGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAAT
TGGTAAGTCATTAGGGCCATCAATATGTCTTTCAAGAATGATGATTAAATCCTTCAGGTTATTTG
TCAGTATTTCAAGCAAGATGATAAGTCCTTCGGGCTATCTATAAGACCTTCGGCTAGATGCTTTC
ATATAATTTGAAAATTGAGAAAGCGGTTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAA
TTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCATACCTAGTAAACTATTTCCAAAATTGATA
AGTCCTTCGGGCCATGAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGTCATCTGTCAGT
CTTTCAAGCAAGATGATAAGTCCTTTTGGCCATCTATAAGACCTTTGGGCAAGATACTTTCAT
Found at i:252591 original size:198 final size:197
Alignment explanation
Indices: 252250--252642 Score: 552
Period size: 198 Copynumber: 2.0 Consensus size: 197
252240 AAATGAAATT
* *
252250 TTTGAAAATTAAGAAAGCGATTTCCAAAGTTTCATACCTAGTAAACTATTTCCAAAATTGATACG
1 TTTGAAAAATAAGAAAGCGATTTCCAAAGTTTCATACCTAGTAAACTATTTCCAAAATTGATAAG
* * * ** * * *
252315 TCCTTCGGGCCATGAGTAAGTCTTTTGAGCATGATGATTAAATCCTTCGGGTCATCTGTCAGTCT
66 TCATTAGGGCCATCAGTAAGTCTTTCAAGAATGATGATTAAATCCTTCAGGTCATCTGTCAGTAT
* * * *
252380 TTCGAGGAAGATGATAAGTCCTTTTGGCCATCTATAAGACCTTTGGGCAAGATGCTTTCATATGA
131 TTCAAGCAAGATGATAAGTCCTTTGGGCCATCTATAAGACC-TTCGGCAAGATGCTTTCATATGA
252445 TAA
195 TAA
* * * *
252448 TTTGAAAAATGAGAAGGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAG
1 TTTGAAAAATAAGAAAGCGATTTCCAAAGTTTCATACCTAGTAAACTATTTCCAAAATTGATAAG
* * * *
252513 TCATTAGGGCCATCAGTATGTCTTTCAAGAATGATGATTAAATCCTTTAGGTTATTTGTCAGTAT
66 TCATTAGGGCCATCAGTAAGTCTTTCAAGAATGATGATTAAATCCTTCAGGTCATCTGTCAGTAT
* * *
252578 TTCAAGCAAGATGATAAGTCCTTTGGGCTATCTATAAGACCTTCGGCTATATGCTTTCATATGAT
131 TTCAAGCAAGATGATAAGTCCTTTGGGCCATCTATAAGACCTTCGGCAAGATGCTTTCATATGAT
252643 TTGATAGTTG
Statistics
Matches: 170, Mismatches: 25, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
197 21 0.12
198 149 0.88
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (197 bp):
TTTGAAAAATAAGAAAGCGATTTCCAAAGTTTCATACCTAGTAAACTATTTCCAAAATTGATAAG
TCATTAGGGCCATCAGTAAGTCTTTCAAGAATGATGATTAAATCCTTCAGGTCATCTGTCAGTAT
TTCAAGCAAGATGATAAGTCCTTTGGGCCATCTATAAGACCTTCGGCAAGATGCTTTCATATGAT
AA
Found at i:253017 original size:259 final size:255
Alignment explanation
Indices: 252448--253119 Score: 966
Period size: 259 Copynumber: 2.6 Consensus size: 255
252438 CATATGATAA
* * *
252448 TTTGAAAAATGAGAAGGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAG
1 TTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAG
* * * * * ** * *
252513 TCATTAGGGCCATCAGTATGTCTTTCAAGAATGATGATTAAATCCTTTAGGTTATTTGTCAGTAT
66 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATTTGTCAGTCT
* * * *
252578 TTCAAGCAAGATGATAAGTCCTTTGGGCTATCTATAAGACCTTCGGCTATATGCTTTCATATGAT
131 TTCAAGCAAGATGATAAGTCCTTTGGGCCATCTATAAGACCTTCGGCAAGATACTTTCATATGAT
* ** * * *
252643 TTGATAGTTGAGAAAGCGGTTTTCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAATT
196 TTGAAAAATGAGAAAGCGATTTCCAAAGTTTCCCATTTAGTATTTTCAGAAAATGAAATT
*
252703 TTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGATAAG
1 TTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAG
* *
252768 TCCTTCGGGCCATGAGTAAGTCTTTCGAGCATGATAATTAAATCCTTCGGGTCATTTGTCAGTCT
66 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATTTGTCAGTCT
* *
252833 TTCAAGCAAGATGATAAGTCCTTTTGGCCATCTATAAGACCTTTGGGCAAGATACTTTCATATGA
131 TTCAAGCAAGATGATAAGTCCTTTGGGCCATCTATAAGACC-TTCGGCAAGATACTTTCATATG-
* * *
252898 TAATTTGAAAAATGAGAAGGCGATTTCCAAAGTTTCCCATTTAGTATTTTCAGAAACTGAATTT
194 --ATTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCCCATTTAGTATTTTCAGAAAATGAAATT
* *
252962 TTTGTAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTGGTAAACTATTTCCAAAATTGGTAAG
1 TTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAG
* * * *
253027 TCCTTCAGGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTGTCAGTCT
66 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATTTGTCAGTCT
* *
253092 TTCGAGCAAGATGATAATTCCTTTGGGC
131 TTCAAGCAAGATGATAAGTCCTTTGGGC
253120 AAGATGCTTT
Statistics
Matches: 371, Mismatches: 42, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
255 154 0.42
256 18 0.05
259 199 0.54
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (255 bp):
TTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAG
TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATTTGTCAGTCT
TTCAAGCAAGATGATAAGTCCTTTGGGCCATCTATAAGACCTTCGGCAAGATACTTTCATATGAT
TTGAAAAATGAGAAAGCGATTTCCAAAGTTTCCCATTTAGTATTTTCAGAAAATGAAATT
Found at i:253965 original size:21 final size:21
Alignment explanation
Indices: 253936--254015 Score: 99
Period size: 21 Copynumber: 3.7 Consensus size: 21
253926 AAAGTGACAT
253936 AGTACACAAAGTACTACTCCA
1 AGTACACAAAGTACTACTCCA
* *
253957 AGAACACAAAGTACT-CTTGCTA
1 AGTACACAAAGTACTAC-T-CCA
*
253979 TAGTACACAAAGTACTACTTCA
1 -AGTACACAAAGTACTACTCCA
254001 AGTACACAAAGTACT
1 AGTACACAAAGTACT
254016 CTTACAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
20 1 0.02
21 30 0.60
22 3 0.06
23 15 0.30
24 1 0.02
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.23
Consensus pattern (21 bp):
AGTACACAAAGTACTACTCCA
Found at i:253983 original size:44 final size:44
Alignment explanation
Indices: 253934--254018 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
253924 ACAAAGTGAC
253934 ATAGTACACAAAGTACTACTCCAAGAACACAAAGTACTCTTGCT
1 ATAGTACACAAAGTACTACTCCAAGAACACAAAGTACTCTTGCT
* *
253978 ATAGTACACAAAGTACTACTTCAAGTACACAAAGTACTCTT
1 ATAGTACACAAAGTACTACTCCAAGAACACAAAGTACTCTT
254019 ACAAAAATGC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.25
Consensus pattern (44 bp):
ATAGTACACAAAGTACTACTCCAAGAACACAAAGTACTCTTGCT
Found at i:256032 original size:18 final size:18
Alignment explanation
Indices: 256006--256042 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
255996 TAAACTATCC
*
256006 ATTTATGGAATAAAAATT
1 ATTTATGGAAAAAAAATT
*
256024 ATTTTTGGAAAAAAAATT
1 ATTTATGGAAAAAAAATT
256042 A
1 A
256043 GGTTCCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (18 bp):
ATTTATGGAAAAAAAATT
Found at i:256515 original size:41 final size:42
Alignment explanation
Indices: 256434--256515 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 42
256424 GCCATCAGTA
* *
256434 AGTCTTTCGAGCATGATGATTAAATCCTTCAGGTCATCTATC
1 AGTCTTTCGAGCAAGATGATTAAATCCTTCAGGACATCTATC
* *
256476 AGTCTTTCGAGCAAGATGA-TAAGTCCTTCGGGACATCTAT
1 AGTCTTTCGAGCAAGATGATTAAATCCTTCAGGACATCTAT
256516 AAGACCTTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 18 0.50
42 18 0.50
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (42 bp):
AGTCTTTCGAGCAAGATGATTAAATCCTTCAGGACATCTATC
Found at i:256672 original size:259 final size:256
Alignment explanation
Indices: 256148--256739 Score: 907
Period size: 259 Copynumber: 2.3 Consensus size: 256
256138 TAGTAATTCT
* * * * *
256148 AAAATTGGTAAGTCCTTCAGGCCATCAGTAATTCTTTCGAGCATGATGATTAAACCCTCCGGGCC
1 AAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTC
* * * *
256213 ATATATCAGTCTTTCGAGCAAGATGATAATTCCTTCGGGCCATCTATAAGACCTTCTGGCAAGAT
66 ATCTATCAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGACATCTATAAGACCTTCTGGCAAGAA
* * * *
256278 GCTTTCATATAATTTGAAAACTGAGAAAGTGATTTTCAAAGTTTCTCATTTATTATTTTCAGAAA
131 GCTTTCATATAATTTGAAAAATGAGAAAGCGATTTTCAAAGTTTATCATTTAGTATTTTCAGAAA
256343 ATGAAATTTTTGAAAAGCAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCC
196 ATGAAATTTTTGAAAAGCAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCC
** *
256404 AAAATTGGTAAGTTATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTC
1 AAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTC
* *
256469 ATCTATCAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGACATCTATAAGACCTT-TGGGGAATA
66 ATCTATCAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGACATCTATAAGACCTTCT-GGCAAGA
*
256533 AGCTTTCATATGAAAATTTGAAAAATGAGAAGGCGATTTTCAAAGTTTATCATTTAGTATTTTCA
130 AGCTTTCATAT---AATTTGAAAAATGAGAAAGCGATTTTCAAAGTTTATCATTTAGTATTTTCA
* * * *
256598 GAAAATGAAATTTTTGAAATGTAAGAGAGCGATTTTCAAAGTTTCTTACCTAGTAAACTATTTCC
192 GAAAATGAAATTTTTGAAAAGCAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCC
* *
256663 AAAATTGGTAAGTCCTTCGGGTCATCAGTAAGTTTTTCGAGCATGATGATTAAATCCTTCGGGTC
1 AAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTC
*
256728 ATCTACCAGTCT
66 ATCTATCAGTCT
256740 CACTTGAGAC
Statistics
Matches: 303, Mismatches: 29, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
255 1 0.00
256 124 0.41
259 178 0.59
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (256 bp):
AAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTC
ATCTATCAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGACATCTATAAGACCTTCTGGCAAGAA
GCTTTCATATAATTTGAAAAATGAGAAAGCGATTTTCAAAGTTTATCATTTAGTATTTTCAGAAA
ATGAAATTTTTGAAAAGCAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCC
Found at i:256882 original size:3 final size:3
Alignment explanation
Indices: 256874--256899 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
256864 TTTAATTAAC
256874 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
256900 ATGTTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:263087 original size:193 final size:194
Alignment explanation
Indices: 262755--263143 Score: 744
Period size: 193 Copynumber: 2.0 Consensus size: 194
262745 GAAATAAAAA
262755 GCGTTGATTTCTAATTCACCACAACAAAATTCTCAAAATATGTAATAACAAAATTAGCCCCCAAT
1 GCGTTGATTTCTAATT--CCACAACAAAATTCTCAAAATATGTAATAACAAAATTAGCCCCCAAT
262820 ATTTTTGTTTGGAAAATTTTAATCTCTAATATTTTGATATATCATTTCTACATATATTAATTGAT
64 ATTTTTGTTTGGAAAATTTTAATCTCTAATATTTTGATATATCATTTCTACATATATTAATTGAT
*
262885 GATCATGTTATCCAAATTGATGATATAATATGTACCATGTAACCCATAATTATAGTATAATACGT
129 GATCATGTTATCCAAATTGATAATATAATATGTACCATGTAACCCATAATTATAGTATAATACGT
262950 G
194 G
262951 GCGTTGATTTCTAATT-CACAACAAAATTCTCAAAATATGTAATAACAAAATTAGCCCCCAATAT
1 GCGTTGATTTCTAATTCCACAACAAAATTCTCAAAATATGTAATAACAAAATTAGCCCCCAATAT
263015 TTTTGTTTGGAAAATTTTAATCTCTAATATTTTGATATATCATTTCTACATATATTAATTGATGA
66 TTTTGTTTGGAAAATTTTAATCTCTAATATTTTGATATATCATTTCTACATATATTAATTGATGA
263080 TCATGTTATCCAAATTGATAATATAATATGTACCATGTAACCCATAATTATAGTATAATACGTG
131 TCATGTTATCCAAATTGATAATATAATATGTACCATGTAACCCATAATTATAGTATAATACGTG
263144 TCACGTCACT
Statistics
Matches: 192, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
193 176 0.92
196 16 0.08
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (194 bp):
GCGTTGATTTCTAATTCCACAACAAAATTCTCAAAATATGTAATAACAAAATTAGCCCCCAATAT
TTTTGTTTGGAAAATTTTAATCTCTAATATTTTGATATATCATTTCTACATATATTAATTGATGA
TCATGTTATCCAAATTGATAATATAATATGTACCATGTAACCCATAATTATAGTATAATACGTG
Found at i:263293 original size:24 final size:23
Alignment explanation
Indices: 263261--263307 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
263251 TTTGATCAAA
263261 AATTGAAAAATTAAGAATCAAAAT
1 AATTGAAAAATTAA-AATCAAAAT
* *
263285 AATTTAAAAATTAAAATTAAAAT
1 AATTGAAAAATTAAAATCAAAAT
263308 TAAAATGCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (23 bp):
AATTGAAAAATTAAAATCAAAAT
Found at i:263873 original size:5 final size:5
Alignment explanation
Indices: 263858--263911 Score: 64
Period size: 5 Copynumber: 11.6 Consensus size: 5
263848 CTGGGTGTTT
263858 TTTTCC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTC -TTTC -TTTC -TTTC
1 TTTT-C TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
263905 -TTTC TTT
1 TTTTC TTT
263912 GTTGCTTGTG
Statistics
Matches: 47, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
4 20 0.43
5 23 0.49
6 4 0.09
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:263894 original size:4 final size:4
Alignment explanation
Indices: 263865--263911 Score: 58
Period size: 4 Copynumber: 10.8 Consensus size: 4
263855 TTTTTTTCCT
263865 TTTC TTTTC TTTTC TTTTC TTTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC -TTTC -TTTC -TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TTT
263912 GTTGCTTGTG
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 23 0.55
5 19 0.45
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTC
Found at i:266903 original size:3 final size:3
Alignment explanation
Indices: 266895--266956 Score: 97
Period size: 3 Copynumber: 20.7 Consensus size: 3
266885 GGGAAACTGT
266895 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** *
266943 AAA TTA TTA GTA TT
1 TTA TTA TTA TTA TT
266957 GACATCAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:267194 original size:6 final size:6
Alignment explanation
Indices: 267183--267210 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
267173 CCAAAAGGCT
267183 TGGACA TGGACA TGGACA TGGACA TGGA
1 TGGACA TGGACA TGGACA TGGACA TGGA
267211 GAGATGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.36, T:0.18
Consensus pattern (6 bp):
TGGACA
Found at i:267415 original size:15 final size:15
Alignment explanation
Indices: 267395--267423 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
267385 GTATGTTGCA
267395 GTGATGATGTGACAT
1 GTGATGATGTGACAT
267410 GTGATGATGTGACA
1 GTGATGATGTGACA
267424 CGTCACACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.34, T:0.31
Consensus pattern (15 bp):
GTGATGATGTGACAT
Found at i:272441 original size:32 final size:32
Alignment explanation
Indices: 272400--272491 Score: 106
Period size: 32 Copynumber: 3.0 Consensus size: 32
272390 ACGATATTTT
272400 AATGATGTATACTGACACTGTCGTTGCTTTCA
1 AATGATGTATACTGACACTGTCGTTGCTTTCA
* * *
272432 AATGATGTATACTG--ACTAG--GAT-ATTT-T
1 AATGATGTATACTGACACT-GTCGTTGCTTTCA
272459 AATGATGTATACTGACACTGTCGTTGCTTTCA
1 AATGATGTATACTGACACTGTCGTTGCTTTCA
272491 A
1 A
272492 GCACTGATTC
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
27 14 0.30
28 4 0.09
29 5 0.11
30 5 0.11
31 4 0.09
32 15 0.32
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (32 bp):
AATGATGTATACTGACACTGTCGTTGCTTTCA
Found at i:272462 original size:27 final size:27
Alignment explanation
Indices: 272382--272474 Score: 89
Period size: 27 Copynumber: 3.3 Consensus size: 27
272372 GACGTTAACT
*
272382 TACTGACTACGATATTTTAATGATGTA
1 TACTGACTAGGATATTTTAATGATGTA
* * *
272409 TACTGAC-ACTGTCGTTGCTTTCAAATGATGTA
1 TACTGACTA--G--GAT-ATTT-TAATGATGTA
272441 TACTGACTAGGATATTTTAATGATGTA
1 TACTGACTAGGATATTTTAATGATGTA
272468 TACTGAC
1 TACTGAC
272475 ACTGTCGTTG
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
26 1 0.02
27 23 0.44
28 3 0.06
29 2 0.04
30 2 0.04
31 4 0.08
32 16 0.31
33 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (27 bp):
TACTGACTAGGATATTTTAATGATGTA
Found at i:276771 original size:60 final size:58
Alignment explanation
Indices: 276647--276829 Score: 167
Period size: 60 Copynumber: 3.1 Consensus size: 58
276637 GTCCTCTAAT
* * * *
276647 TATGATATTCATTTTAAATTAGT-CTCTAAACTTTTAAACATTCTAATTTCA-CCCTTAAAT
1 TATGACATTCATTCTAAATTAGTCCTC-AAACTTTTGAACATTC-AATTTCATCCC--AAAC
276707 TATGA-ATGTCATTCTAAATTAGTCCTCAAACTTTTGAACACTTCAATTTCATTCCCAAAC
1 TATGACAT-TCATTCTAAATTAGTCCTCAAACTTTTGAACA-TTCAATTTCA-TCCCAAAC
* * * * *
276767 TATGACCTTC-CTCTAAATTAGTCCCCCAAACTTTTTGAACATTTTAATTTCATCTCAAAC
1 TATGACATTCATTCTAAATTAGT-CCTCAAAC-TTTTGAACA-TTCAATTTCATCCCAAAC
276827 TAT
1 TAT
276830 ACGTATATAC
Statistics
Matches: 106, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
59 13 0.12
60 65 0.61
61 25 0.24
62 3 0.03
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (58 bp):
TATGACATTCATTCTAAATTAGTCCTCAAACTTTTGAACATTCAATTTCATCCCAAAC
Found at i:277025 original size:59 final size:60
Alignment explanation
Indices: 276957--277134 Score: 168
Period size: 59 Copynumber: 3.0 Consensus size: 60
276947 TGAATTTGAT
* * * * *
276957 GATGGAATTGGAAGATTCAAAATTTTAGGGACTAAATTAAAATGAGGGTTATAGTTT-TG
1 GATGAAATTGGAAGATTCAAAAATTTAGGGACTAATTTAAAATGAGAGTTATAGTTTAGG
* * * * *
277016 GATGAAATTGGAATATTCAAAAGATTAAGGG-CTAATTTAGAATGATAGTCATAGTTTAGG
1 GATGAAATTGGAAGATTCAAAA-ATTTAGGGACTAATTTAAAATGAGAGTTATAGTTTAGG
*** * * *
277076 GATGAAATT-G--GATTCAATGGTTTAAGGACTAATTTAAAATGAGTGTTATAGTTTGGG
1 GATGAAATTGGAAGATTCAAAAATTTAGGGACTAATTTAAAATGAGAGTTATAGTTTAGG
277133 GA
1 GA
277135 CATATAATGC
Statistics
Matches: 95, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
56 5 0.05
57 32 0.34
59 42 0.44
60 16 0.17
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (60 bp):
GATGAAATTGGAAGATTCAAAAATTTAGGGACTAATTTAAAATGAGAGTTATAGTTTAGG
Found at i:278802 original size:14 final size:14
Alignment explanation
Indices: 278780--278813 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
278770 GATAACATGT
*
278780 GTCATATGTTAGAA
1 GTCAAATGTTAGAA
278794 GTCAAATGTTAGAA
1 GTCAAATGTTAGAA
278808 GTCAAA
1 GTCAAA
278814 CATGATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (14 bp):
GTCAAATGTTAGAA
Found at i:280885 original size:19 final size:19
Alignment explanation
Indices: 280859--280902 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
280849 GACATCTTGG
*
280859 ACAGTAAATTACTATTTGA
1 ACAGTAAATCACTATTTGA
* *
280878 ATAGTAAATCACTGTTTGA
1 ACAGTAAATCACTATTTGA
280897 ACAGTA
1 ACAGTA
280903 CCCGAGGCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (19 bp):
ACAGTAAATCACTATTTGA
Found at i:281034 original size:21 final size:21
Alignment explanation
Indices: 281008--281049 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
280998 ATTTGAATAT
*
281008 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
281029 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
281050 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:281111 original size:21 final size:21
Alignment explanation
Indices: 281078--281117 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
281068 TTTTTGCAGA
*
281078 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
281100 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
281118 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Done.