Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01014636.1 Corchorus olitorius cultivar O-4 contig14669, 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: 86294
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Found at i:1495 original size:16 final size:16
Alignment explanation
Indices: 1474--1504 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1464 AAACCCTTTT
1474 ATTTAATTAATTAATC
1 ATTTAATTAATTAATC
1490 ATTTAATTAATTAAT
1 ATTTAATTAATTAAT
1505 TAATCTCCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTAATTAATTAATC
Found at i:1499 original size:20 final size:20
Alignment explanation
Indices: 1471--1509 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1461 CTAAAACCCT
*
1471 TTTATTTAATTAATTAATCA
1 TTTAATTAATTAATTAATCA
1491 TTTAATTAATTAATTAATC
1 TTTAATTAATTAATTAATC
1510 TCCCCACCTT
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:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTAATTAATTAATTAATCA
Found at i:12811 original size:40 final size:40
Alignment explanation
Indices: 12761--12846 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
12751 TATCCGGTGA
*
12761 CCACATTGGGTCTAGACTATTTGACTATTTCAAAGTCCGG
1 CCACATTGGGTCTAGACTATTTGACTATTTCAAAGTCCAG
* *
12801 CCACATTGGGTCTAGACTATTTGACTATTTCAGAGTTCAG
1 CCACATTGGGTCTAGACTATTTGACTATTTCAAAGTCCAG
12841 CCACAT
1 CCACAT
12847 CAGAGAAGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (40 bp):
CCACATTGGGTCTAGACTATTTGACTATTTCAAAGTCCAG
Found at i:15904 original size:320 final size:315
Alignment explanation
Indices: 15184--16518 Score: 1514
Period size: 322 Copynumber: 4.2 Consensus size: 315
15174 CTTTTCGGGT
* *
15184 CGGCTCATTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATC-ATACTCATCTAACCAAA
1 CGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAA
* *
15248 TCTCAGCCATAATGAATTTAAGGATTTGTTTTTACGAGCATTTTTGAATCTTGTTTCGATTTAAT
66 TCTCAGCCACAATGAATTTAAGGATTTGTTTTTACGAGCA--TCTGAATCTTGTTTCGATTTAAT
* * * *
15313 AAGAAATAAA-TCCAAAAAAAAAGGAAAAACGATATTAGAAACGTGAAAAACCCTTCAATTTTTT
129 TAGAAATAAATTCGAAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAA-TTTTT
* *
15377 TGGCATTAAA-TTATATTTTTTTGAGTATTGTGGCAAAACATTGAGGAAAAACTTTTCGGGTTAA
193 TGGCATTAAATTTATATTTTTTTGAGTATTGAGGCAAAAAATTGAGGAAAAACTTTTCGGGTTAA
* * *
15441 TTTTTAGCCGAAATCGTGT---A-CA-GGATTTTGGCTAAAAACAAGTTTCGGGGCCT
258 TTTTTAGCCGAAATCGTGTACCATCACAGATTTTGGCTAAAAACGAGTTTCGGGGCCC
* * **
15494 CTGCTCAGTTTTGCATGATTTAT-G-A-AAAGACTCCTTGCGATATCTATATTCATCTAACCAAA
1 CGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAA
* * * *
15556 TCTCAGTCACAATGGATTTAAGGATTTGTTTTTACTAGCATCTGAATCTTGTTTCGGTTTAATTA
66 TCTCAGCCACAATGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA
*** *
15621 GAAATAAATTCGGGGAAAAATGGAAAAACGATATTGGAAGCGTGAAAAACCCTTCAATTTTTTGG
131 GAAATAAATTCGAAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTGG
*
15686 CATTAAATTATATATTTTTTTAGAGTATTGAGGCAAAAAATTGAGGAAAAACTTTTCGGGTCAAT
196 CATTAAATT-TATATTTTTTT-GAGTATTGAGGCAAAAAATTGAGGAAAAACTTTTCGGGTTAAT
* * * *
15751 TTTTAGCCGAAATCGGGTACAACCATCACAAATTTTGGCTAGAAACGAGTTTCGGGGCGC
259 TTTTAGCCGAAATCGTGT---ACCATCACAGATTTTGGCTAAAAACGAGTTTCGGGGCCC
* *
15811 CGGCTCAGTTTTGCATGATTTATGGCAGAAAGACTCCTTGAAATATTTATATTCATCTAACCAAA
1 CGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAA
* * *
15876 TCTCAGCCACAATGAATTTAAGGATTTGTCTTTACGAGAAT-TGGAATCTTGTTTCAATTTAATT
66 TCTCAGCCACAATGAATTTAAGGATTTGTTTTTACGAGCATCT-GAATCTTGTTTCGATTTAATT
* * *
15940 AGAAATAAATTCGAAAAAAAATGGAAAAACGATATTAAAAGAGTGGAAAACCCTTCAATTTGTTT
130 AGAAATAAATTCGAAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTT-TTT
* * * ** * * * *
16005 CGCCATTGAATTCTTTATTTTTCCGGAATATTTTA--CAAAAAATTGAGAAAAAAACATTTCGGG
194 -GGCATTAAATT-TATATTTTT-TTGAGTA-TTGAGGCAAAAAATTGAG-GAAAAACTTTTCGGG
* * **
16068 TTAGTTTTTAGCCGAAATCGTGTACAACCATCACAGATTTTGGCTAATATTGAGTTTCGGGGCCC
254 TTAATTTTTAGCCGAAATCGTGT---ACCATCACAGATTTTGGCTAAAAACGAGTTTCGGGGCCC
* * ** * *
16133 CGGCTCACTTTTGCATGATTTTTGCCAGAAAGACTCCTTGCGATATCTATATTTATGTAACCAAA
1 CGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAA
* * ** * *
16198 TCTCAGCCACAATGGATTTAATGATTTGTTTTTTTGAGCATCTGAATCTTGTTACGACTTAATTA
66 TCTCAGCCACAATGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA
** * ** * * *
16263 GAAATTCATTTGTAAAAAAAAT-GAAAATTGATATTACAAGCGTGAAAAGCCCGTCAATGTTTTT
131 GAAATAAATTCG-AAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAAT-TTTTT
** * * * ** * * * *
16327 GGTGTTGAATTGCATATTTTTTCTGATTATT-TTGTAAAAAATGGGGGAAAAACGTTTCGGGTTA
194 GGCATTAAATT-TATATTTTTT-TGAGTATTGAGGCAAAAAATTGAGGAAAAACTTTTCGGGTTA
* * * * * **
16391 GTTTTTAGCCGAAAATCATGTATCATCACGGATTTTGGCTAAAAACGCGTTTCTAGGCCC
257 ATTTTTAGCCG-AAATCGTGTACCATCACAGATTTTGGCTAAAAACGAGTTTCGGGGCCC
* * *
16451 CGACTCAGTTTTGCATGATTTTTTTGCAGAAAGACTCCTTGAAATATCTATATTCATCTAATCAA
1 CGGCTCAGTTTTGCATGA-TTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAA
16516 ATC
65 ATC
16519 AAAAGTCCAA
Statistics
Matches: 868, Mismatches: 127, Indels: 51
0.83 0.12 0.05
Matches are distributed among these distances:
306 45 0.05
307 59 0.07
308 64 0.07
309 58 0.07
310 20 0.02
315 1 0.00
316 2 0.00
317 47 0.05
318 48 0.06
319 44 0.05
320 172 0.20
321 51 0.06
322 242 0.28
323 15 0.02
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (315 bp):
CGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAA
TCTCAGCCACAATGAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA
GAAATAAATTCGAAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAACCCTTCAATTTTTTGG
CATTAAATTTATATTTTTTTGAGTATTGAGGCAAAAAATTGAGGAAAAACTTTTCGGGTTAATTT
TTAGCCGAAATCGTGTACCATCACAGATTTTGGCTAAAAACGAGTTTCGGGGCCC
Found at i:16262 original size:642 final size:626
Alignment explanation
Indices: 15184--16518 Score: 1612
Period size: 642 Copynumber: 2.1 Consensus size: 626
15174 CTTTTCGGGT
* * *
15184 CGGCTCATTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATA-TCATACTCATCTAACCAAA
1 CGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATTTATATTCATCTAACCAAA
* * * * *
15248 TCTCAGCCATAATGAATTTAAGGATTTGTTTTTACGAGCATTTTTGAATCTTGTTTCGATTTAAT
66 TCTCAGCCACAATGAATTTAAGGATTTGTCTTTACGAGCATATTGGAATCTTGTTTCAATTTAAT
* *
15313 AAGAAATAAATCCAAAAAAAAAGGAAAAACGATATTAGAAACGTGAAAAACCCTTCAATTTTTTT
131 AAGAAATAAATCCAAAAAAAAAGGAAAAACGATATTAGAAAAGTGAAAAACCCTTCAATTTTTTC
* * * * * *
15378 GGCATTAAATTATATTTTTTTGAGTATTGTGGCAAAACATTGAGGAAAAACTTTTCGGGTTAATT
196 GCCATTAAATTATATTTTTTTGAATATTGTGACAAAAAATTGAGAAAAAACATTTCGGGTTAATT
* * * *
15443 TTTAGCCGAAATCGTGTACAGGATTTTGGCTAAAAACAAGTTTCGGGGCCTCTGCTCAGTTTTGC
261 TTTAGCCGAAATCGTGTACAAGATTTTGGCTAAAAACAAGTTTCGGGGCCCCGGCTCACTTTTGC
*
15508 ATGATTTATGAAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTCAGTCACAATGGAT
326 ATGATTTATGAAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTCAGCCACAATGGAT
* ** ***
15573 TTAAGGATTTGTTTTTACTAGCATCTGAATCTTGTTTCGGTTTAATTAGAAATAAATTCG-GGGA
391 TTAAGGATTTGTTTTTACTAGCATCTGAATCTTGTTACGACTTAATTAGAAATAAATTCGTAAAA
** * *
15637 AAAATGGAAAAACGATATTGGAAGCGTGAAAAACCCTTCAAT-TTTTTGGCATTAAATTATATAT
456 AAAAT-GAAAAACGATATTACAAGCGTGAAAAACCCGTCAATGTTTTTGGCATTAAATTACATAT
* *
15701 TTTTT-TAGAGTATTGAGGCAAAAAATTGAGGAAAAACTTTTCGGGTCAATTTTTAGCCG-AAAT
520 TTTTTCT-GAGTATT-AGGCAAAAAATGGAGGAAAAACGTTTCGGGTCAATTTTTAGCCGAAAAT
* * * *
15764 CGGGTACAACCATCACAAATTTTGGCTAGAAACGAGTTTCGGGGCGC
583 CAGGT---ACCATCACAAATTTTGGCTAAAAACGAGTTTCGAGGCCC
*
15811 CGGCTCAGTTTTGCATGATTTATGGCAGAAAGACTCCTTGAAATATTTATATTCATCTAACCAAA
1 CGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATTTATATTCATCTAACCAAA
15876 TCTCAGCCACAATGAATTTAAGGATTTGTCTTTACGAG-A-ATTGGAATCTTGTTTCAATTTAAT
66 TCTCAGCCACAATGAATTTAAGGATTTGTCTTTACGAGCATATTGGAATCTTGTTTCAATTTAAT
* * * *
15939 TAGAAATAAATTCGAAAAAAAATGGAAAAACGATATTA-AAAGAGTGGAAAACCCTTCAATTTGT
131 AAGAAATAAA-TCCAAAAAAAAAGGAAAAACGATATTAGAAA-AGTGAAAAACCCTTCAATTT-T
* * *
16003 TTCGCCATTGAATTCT-TTATTTTTCCGGAATATT-TTACAAAAAATTGAGAAAAAAACATTTCG
193 TTCGCCATTAAATTATATT-TTTTT---GAATATTGTGACAAAAAATTGAG-AAAAAACATTTCG
* * ***
16066 GGTTAGTTTTTAGCCGAAATCGTGTACAACCATCACAGATTTTGGCTAATATTGAGTTTCGGGGC
253 GGTTAATTTTTAGCCGAAATCGTGT------A-CA-AGATTTTGGCTAAAAACAAGTTTCGGGGC
* * *
16131 CCCGGCTCACTTTTGCATGATTTTTGCCAGAAAGACTCCTTGCGATATCTATATTTATGTAACCA
310 CCCGGCTCACTTTTGCATGATTTATG--A-AAAGACTCCTTGCGATATCTATATTCATCTAACCA
* *
16196 AATCTCAGCCACAATGGATTTAATGATTTGTTTTT-TTGAGCATCTGAATCTTGTTACGACTTAA
372 AATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACT-AGCATCTGAATCTTGTTACGACTTAA
** * ** *
16260 TTAGAAATTCATTTGTAAAAAAAATGAAAATTGATATTACAAGCGTGAAAAGCCCGTCAATGTTT
436 TTAGAAATAAATTCGTAAAAAAAATGAAAAACGATATTACAAGCGTGAAAAACCCGTCAATGTTT
** * * * ** * * *
16325 TTGGTGTTGAATTGCATATTTTTTCTGATTATTTTGTAAAAAATGGGGGAAAAACGTTTCGGGTT
501 TTGGCATTAAATTACATATTTTTTCTGAGTATTAGGCAAAAAATGGAGGAAAAACGTTTCGGGTC
* * * ** * *
16390 AGTTTTTAGCCGAAAATCATGTATCATCACGGATTTTGGCTAAAAACGCGTTTCTAGGCCC
566 AATTTTTAGCCGAAAATCAGGTACCATCACAAATTTTGGCTAAAAACGAGTTTCGAGGCCC
* * * *
16451 CGACTCAGTTTTGCATGATTTTTTTGCAGAAAGACTCCTTGAAATATCTATATTCATCTAATCAA
1 CGGCTCAGTTTTGCATGA-TTTTTGGCAGAAAGACTCCTTGAAATATTTATATTCATCTAACCAA
16516 ATC
65 ATC
16519 AAAAGTCCAA
Statistics
Matches: 599, Mismatches: 83, Indels: 38
0.83 0.12 0.05
Matches are distributed among these distances:
626 33 0.06
627 89 0.15
628 71 0.12
630 12 0.02
631 41 0.07
637 1 0.00
638 2 0.00
639 46 0.08
640 48 0.08
641 47 0.08
642 167 0.28
643 41 0.07
644 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (626 bp):
CGGCTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATTTATATTCATCTAACCAAA
TCTCAGCCACAATGAATTTAAGGATTTGTCTTTACGAGCATATTGGAATCTTGTTTCAATTTAAT
AAGAAATAAATCCAAAAAAAAAGGAAAAACGATATTAGAAAAGTGAAAAACCCTTCAATTTTTTC
GCCATTAAATTATATTTTTTTGAATATTGTGACAAAAAATTGAGAAAAAACATTTCGGGTTAATT
TTTAGCCGAAATCGTGTACAAGATTTTGGCTAAAAACAAGTTTCGGGGCCCCGGCTCACTTTTGC
ATGATTTATGAAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTCAGCCACAATGGAT
TTAAGGATTTGTTTTTACTAGCATCTGAATCTTGTTACGACTTAATTAGAAATAAATTCGTAAAA
AAAATGAAAAACGATATTACAAGCGTGAAAAACCCGTCAATGTTTTTGGCATTAAATTACATATT
TTTTCTGAGTATTAGGCAAAAAATGGAGGAAAAACGTTTCGGGTCAATTTTTAGCCGAAAATCAG
GTACCATCACAAATTTTGGCTAAAAACGAGTTTCGAGGCCC
Found at i:17707 original size:320 final size:321
Alignment explanation
Indices: 16755--21419 Score: 6009
Period size: 320 Copynumber: 14.6 Consensus size: 321
16745 AACCACAATG
* * *
16755 AGGATTTATTTTTACGAGCATTTGAATCTTATTTCGATTTAATTAGAAA-AAATTC-AAAAAAAA
1 AGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGAAAAAAAA
* * * * *
16818 TGGAAAAACGATATTAGAAGCGTGAAAAACCCTTTAATTTTTTTCGGCGTTTAATTGTATAATTT
66 -GGAAAAACGATATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGT-TTATTT
* * * *
16883 TTTCGGAATATTTTGCAAAAAATTGAGATAATACATTTCCGGTCAATTTTTAGCCGAAATCGTGT
129 TTTCGGAATATTTTGCAAAAAATTGAGAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCGTGT
* *
16948 ACTAACCATCACGGATTTTGGCTAAAATCGAGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTG
194 ACTAACCATCACGAATTTTGGCTAAAATCGAGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTT
* ** * * *
17013 TGGCAGAAAGACTCGTTGAAATATCTATATTCATCTGACCAAATCTGAGCCACAATGAATTTA
259 TGGCAGAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTA
* * * *
17076 AGGATTTGTATTTACGAGCAT-TGGAATCATGTTTCAATTTAATTAGAAATAAATTCG-TAAAAA
1 AGGATTTGTTTTTACGAGCATCT-GAATCTTGTTTCGATTTAATTAGAAATAAATTCGAAAAAAA
* *
17139 TGGAAAAACGATATTAGAAGCGCT-GAAAACCCTTCAATTTCTTTCGGCGTTGAATTGTTTATTT
65 AGGAAAAACGATATTAGAAGCG-TGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGTTTATTT
*
17203 TTTCGGAAATATTTTGCAAAAAATTGAGAAAAAACATTTCGGGTCAGTTTTTAGCCGAAACCGTG
129 TTTCGG-AATATTTTGCAAAAAATTGAGAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCGTG
* * *
17268 TACT-ACCATCACGAATTTTGGCTAAAATCGAGTTTC-GGGACCCGTCTCAATTTTGCATGATTT
193 TACTAACCATCACGAATTTTGGCTAAAATCGAGTTTCGGGGCCCCGACTCAGTTTTGCATGATTT
*
17331 TTGGCAGAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTTAGCCACAATGGATTTA
258 TTGGCAGAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTA
* *
17395 AGGATTTGTTTTTACGAGCATCAGAATCTTCTTTCGATTTAATTA-AAACTAAATTCGAAAAAAA
1 AGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAA-TAAATTCGAAAAAAA
* * * * *
17459 AGGGAAAACAATATTAGAAGCGTGGAAAACCCTACAATTTGTTTCGGCATTGAATTGTATATTTT
65 AGGAAAAACGATATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGTTTATTTT
* * * * * * *
17524 TTTGGAATATTTTGCAAACAATTGAGAAAAGACATTTCAGGTTAGTTATTAGCCGAGATCGTGTA
130 TTCGGAATATTTTGCAAAAAATTGAGAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCGTGTA
* * * * *
17589 CTAACCATCACGGA-TTTGGCTAAAATCTAGTTTAGGGGCTCCGACTCAGTTTTGCTTGATTTTT
195 CTAACCATCACGAATTTTGGCTAAAATCGAGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTT
* * * * *
17653 CGCAGAAAAACTCTTTGCCATATCTATATTCATTTAACCAAATCTCAGCCACAATGGATTTA
260 GGCAGAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTA
* *
17715 AGGATTTGTTTTTACGAGCATCTGAATCTTCTTTCGATTTAATTAGAAATAAATTCGAAAAAAAT
1 AGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGAAAAAAAA
* * * * * *
17780 GGGAAAATGATATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCCGCTTTTAATTGTATATTTTT
66 GGAAAAACGATATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGTTTATTTTT
* * ** * *
17845 TTGGAATATTTTGCTAAAAATTGATTAAAAACATTTCAGGTCAGTTATTAGCCGAAATCGTGTAC
131 TCGGAATATTTTGCAAAAAATTGAGAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCGTGTAC
* * * * * * *
17910 TAACCACCACGAA-TTT-GCTAAAATCGAGTTTCGGGGCCCCGGCTAAGTGTTGCTTGGTTTTTC
196 TAACCATCACGAATTTTGGCTAAAATCGAGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTG
* *
17973 GCAGAAAGACTGCTTGCGATATCTATAATCATCTAACCAAATCTCAGCCACAATGGATTTA
261 GCAGAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTA
* * *
18034 AGGGTTTGTTTTTACGAGTATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGGGAAAAA
1 AGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTC--GAAAAAA
* * * * * * * * * *
18099 ATGGGAAAACGATATTAGAAGCGTGAAAAACCCTTCGATTTTTTTTGGCATTAAATTATATATTT
64 AAGGAAAAACGATATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGTTTATTT
* * * * * *
18164 TTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGGTCAATTTTTAGCCGAAATCGTG
129 TTTCGGAATATT-TTGCAAAAAATTGAGAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCGTG
* * * ** **
18229 TACAAACCATCACAGATTTTTGACT-AAATACGAGTTTCGGGGCCTTGGTTCAGTTTTGCATGAT
193 TACTAACCATCAC-GAATTTTGGCTAAAAT-CGAGTTTCGGGGCCCCGACTCAGTTTTGCATGAT
* ** * *
18293 TTATGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAACCACAATGAATTT
256 TTTTGGCAGAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTT
18358 A
321 A
*
18359 AGGATTTGTTTTTACGAGCAT-TGGAATCTTGTTTCAATTTAATTAGAAATAAATTCGAGGAAAA
1 AGGATTTGTTTTTACGAGCATCT-GAATCTTGTTTCGATTTAATTAGAAATAAATTCGA--AAAA
* * * *
18423 AATGGAAAAACGATATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGCCATTGAATTATTTATT
63 AAAGGAAAAACGATATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGTTTATT
* * * *
18488 TTTTCGGAATATTTTGCAAAAATTTGGGAAAAAACAATTCGGGTCAGTTTTAAGCCGAAATCGTG
128 TTTTCGGAATATTTTGCAAAAAATTGAGAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCGTG
* * * * * * *
18553 AACTAATCATAAC-AGATATTAGCTAAAATCGAGTTTCGGGGCCTCGCCTCAGTTTTGCATGATT
193 TACTAACCATCACGA-ATTTTGGCTAAAATCGAGTTTCGGGGCCCCGACTCAGTTTTGCATGATT
* * * *
18617 TATGGCAGAAAGACTCCTTG-AATTATCTATACTCATCTAACCAAATCTCAGCCACAATGAATTT
257 TTTGGCAGAAAGACTCCTTGCGA-TATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTT
18681 A
321 A
*
18682 AGGATTTGTTTTTACGAGCAT-TGGAATCTTGTTTCAATTTAATTAGAAATAAATTCGAAAAAAA
1 AGGATTTGTTTTTACGAGCATCT-GAATCTTGTTTCGATTTAATTAGAAATAAATTCGAAAAAAA
* *
18746 TGG-AAAACGATATTAGAAGCGTGGAAAACCCTTCAATTTGTTTTGGCGTTGAATTGTTTATTTT
65 AGGAAAAACGATATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGTTTATTTT
* * * * * *
18810 TTGGGAATATTTTTCAAAAAATTAAGAAAAAATAATTCGGGTCAATTTTTAGCCGAAATCGTGTA
130 TTCGGAATATTTTGCAAAAAATTGAGAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCGTGTA
* * * *
18875 CTAACTATAACGAATCTTGGCTAAAATCGAGTTTCGGGGCCCCGCCTCAGTTTTGCATGATTTTT
195 CTAACCATCACGAATTTTGGCTAAAATCGAGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTT
*
18940 GGCAGAAAGACTCCTTGCGATATCTATATTCATCTAACGAAATCTCAGCCACAATGGATTTA
260 GGCAGAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTA
* * *
19002 AGGATTTGTTTTTACGACCATCTGAAACATGTTTCGATTTAATTAGAAATAAAATTCAAGGAAAA
1 AGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAAT-AAATTC---GAAAA
* * * *
19067 AAATGGAAAAACGATATTAGAAGCGCGGAAAACCCTTCAATTTCTTTCGGCGTTGAAATGTTTAT
62 AAAAGGAAAAACGATATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGTTTAT
*
19132 TTTTTCAGAAATATTTTGCAAAAAATTGAGAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCG
127 TTTTTC-GGAATATTTTGCAAAAAATTGAGAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCG
* * * * *
19197 TGTACTAACCATCACGAATTTTGGCAAAAATCGAGTTTCGGGACCTCGTCTCAATTTTGCATGAT
191 TGTACTAACCATCACGAATTTTGGCTAAAATCGAGTTTCGGGGCCCCGACTCAGTTTTGCATGAT
* *
19262 TTTTGGCAGAAAGACTCTTTGCGATATCTATATTCATCTAACCAAATCTTAGCCACAATGGATTT
256 TTTTGGCAGAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTT
19327 A
321 A
* * *
19328 AGGATTTGTTTTTACGAGCATCAGAATCTTCTTTCGATTTAATTA-AAACCAAATTCGAAAAAAA
1 AGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAA-TAAATTCGAAAAAAA
* * *
19392 AGGGAAAACGATATTAGAAGCGTGGACAACCCTTCAATTTGTTTCGGAGTTGAATTGTTTATTTT
65 AGGAAAAACGATATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGTTTATTTT
* * *
19457 TTAGGAATATTTTGCAAAAAATTGAGAAAAAACAATTCGGGTCAGTTTTTAGCCAAAATCGTGTA
130 TTCGGAATATTTTGCAAAAAATTGAGAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCGTGTA
* * * * *
19522 TTAATCATAACGAAATTTGGCTAAAATCGAGTTTCGGGGCCCCGCCTCAGTTTTGCATGATTTTT
195 CTAACCATCACGAATTTTGGCTAAAATCGAGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTT
* *
19587 GGCAGAAAGACTCCTTGCGATATCTATATTCATCTAACGAAATCTCAGCCACAATAGATTTA
260 GGCAGAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTA
* *
19649 AGGATTTGTTTTTACGAGTATCTGAAACTTGTTTCGATTTAATTAGAAATAAATTCGAGGAAAAA
1 AGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGA--AAAAA
* * *
19714 AATGGAAAAACGATATTAGAAGCATGGAAAACCCTTCAATTTCTTTCGGCGTTGTATTGTTTATT
64 AA-GGAAAAACGATATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGTTTATT
* *
19779 TTTTCAGAATATTTTGCAAAAAATTGAGAAAAAA-GTTTCGGGTCAGTTTTTAGCCGAAATCGTG
128 TTTTCGGAATATTTTGCAAAAAATTGAGAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCGTG
* * * * *
19843 TACTAACTATAACGAATTTTTGCTAAAATCGAGTTTCGGGGCCCCGACTTAGTTTTGCATCATTT
193 TACTAACCATCACGAATTTTGGCTAAAATCGAGTTTCGGGGCCCCGACTCAGTTTTGCATGATTT
* * ** * * * * *
19908 ATGGCAGAAAGACTCATTGAAATATCAATATTTATCTGACCAAATCTGAGCCACAATGAATTTA
258 TTGGCAGAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTA
** * * * *
19972 AATATTTGTTTTTACGAGCAT-TGCATTTTTTTTCAATTTAATTAGAAATAAATTCGAAAAAATG
1 AGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGAAAAAA--
* *
20036 AA--AAAAACAAAATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGTTTATTT
64 AAGGAAAAACGATATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGTTTATTT
* * *
20099 TTTCGGAATATTTTGCAAAAAATTGAGGAAAAACATTTGGGGTCAGTTTTTAGCCGAAATCATGT
129 TTTCGGAATATTTTGCAAAAAATTGAGAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCGTGT
* * * * *
20164 ACTAATCATAACGAATTTTGGCTAAAATCGAGTTTCGTGGACCCTGA-TCAGTTTTGCATGACTT
194 ACTAACCATCACGAATTTTGGCTAAAATCGAGTTTCG-GGGCCCCGACTCAGTTTTGCATGATTT
* *
20228 ATGGCAGAAGGACTCCTTGCGATATCTATATTCATCTAACCAAATCTCAGCCA-AAGTGGATTTA
258 TTGGCAGAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTCAGCCACAA-TGGATTTA
* * *
20292 AGGATTTATTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAGAAATAAATTCGAAAAAAAT
1 AGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGAAAAAAAA
*
20357 GGGAAAACGATATTAGAAGCGTGGAAAACCCTTCAA-------------T---TTG-------TT
66 GGAAAAACGATATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGTTTATTTTT
* ** * *
20399 TCGGAATATTTTGCAAAAAGTTGTTCAAAAAACATTTCGGGTCAGTTGTTAGCGGAAATCGTGTA
131 TCGGAATATTTTGCAAAAAATTG-AGAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCGTGTA
* * * * * *
20464 CTAACCATCACGAATTTTGGCTTAAATTGAGTTTCGAGGCCCCGTCTCAGATTTGTATGATTTTT
195 CTAACCATCACGAATTTTGGCTAAAATCGAGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTT
* *
20529 GGCAGAAAGACTCCTTGTGATATCTATATTCATCTAACCAAATCTTAGCCACAATGGATTTA
260 GGCAGAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTA
* * *
20591 AGGATTTGTTTTTACGAGCATCTGAAACTTGTTTCGGTTTAATTCGAAATAAATTCGAAAAAAAA
1 AGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCG--AAAAAA
* * * * **
20656 AATGGGAAATCGATATTAGAAGAGTGGAAAACCCTTCAATTTGTTTTGGCGTTGAATTGAATATT
64 AA-GGAAAAACGATATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGTTTATT
* * * *
20721 TTTTCGGAATATTTTGCAAAATATTGAGAAAAAACAATTCAGGTCAGTTATTAGCCGAAATCGTG
128 TTTTCGGAATATTTTGCAAAAAATTGAGAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCGTG
* * * *
20786 TACTAACAATCACGTA-TTTGGCTAAAATCGAGTTTCGGGGCCCC-AGCTCAGTTTTGCTTTTAT
193 TACTAACCATCACGAATTTTGGCTAAAATCGAGTTTCGGGGCCCCGA-CTCAGTTTTGC-ATGAT
* * * * * *
20849 GTTTCGCAG-AAGACTCCTTG-TAGTATCTATATTTATATAACCAAATCTCAGCTACAATGGATT
256 TTTTGGCAGAAAGACTCCTTGCGA-TATCTATATTCATCTAACCAAATCTCAGCCACAATGGATT
20912 TA
320 TA
*
20914 AGGATTTGTTTTTCCGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGCGAAAAA
1 AGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATT---CGAAAAA
* * * *
20979 AATGGAAAAACGATATTAGAAAC-TAGGAAACCCCTTCAATTTGTTTCGGCGTTGAACTGTTTAT
63 AAAGGAAAAACGATATTAGAAGCGT-GGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGTTTAT
* * * * *
21043 TTTTTCTGACTATTTTGCAAAAATTTGAGAAAAAAACATTTCGGGTCTGTTTTTAGTCGAAATCG
127 TTTTTCGGAATATTTTGCAAAAAATTGAG-AAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCG
* * * * *
21108 TGTACTAA-CATAACAAATTTTGGCTAAAATCGAGTTTCGGGGCCCCGGCTCAGTGTTGCTTGAT
191 TGTACTAACCATCACGAATTTTGGCTAAAATCGAGTTTCGGGGCCCCGACTCAGTTTTGCATGAT
* * * * * *
21172 TTTTCGCAGAAAGACTCCTTGGGATATCTTTATTCATCTAACCAAATCTTAGCTACAACGGATTT
256 TTTTGGCAGAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTT
21237 A
321 A
* *
21238 AGAATTTGTTTTTACGAGCATCTGAAACTTGTTTCGATTTAATTAGAAATAAATTCGAGGGAAAA
1 AGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGA---AAAA
* * *
21303 AAATGGAAAAACGATATTAGAAGCGTGGAAAACCCTTCAACTTCTTTCGGCTTTGAATTGTTTAT
63 AAA-GGAAAAACGATATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGTTTAT
*
21368 TTTTTCGGAATATTTTGCAAAAAGTTGAGAAAAAA-ATTTTCGGGTCAGTTTT
127 TTTTTCGGAATATTTTGCAAAAAATTGAGAAAAAACA-TTTCGGGTCAGTTTT
21420 GCATCATTTA
Statistics
Matches: 3813, Mismatches: 437, Indels: 185
0.86 0.10 0.04
Matches are distributed among these distances:
298 29 0.01
299 189 0.05
300 2 0.00
301 7 0.00
302 34 0.01
305 3 0.00
308 1 0.00
315 1 0.00
318 6 0.00
319 440 0.12
320 809 0.21
321 543 0.14
322 176 0.05
323 547 0.14
324 430 0.11
325 381 0.10
326 215 0.06
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (321 bp):
AGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGAAAAAAAA
GGAAAAACGATATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGTTTATTTTT
TCGGAATATTTTGCAAAAAATTGAGAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCGTGTAC
TAACCATCACGAATTTTGGCTAAAATCGAGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTG
GCAGAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTA
Found at i:21239 original size:324 final size:321
Alignment explanation
Indices: 20392--21419 Score: 1368
Period size: 324 Copynumber: 3.2 Consensus size: 321
20382 AAACCCTTCA
*** *
20392 ATTTGTTTCGGAATATTTTGCAAAAAGTTGTTCAAAAAACATTTCGGGTCAGTTGTTAGCGGAAA
1 ATTT-TTTCGGAATATTTTGCAAAAAGTTGAGAAAAAAACATTTCGGGTCAGTTTTTAGC-GAAA
* * * * * *
20457 TCGTGTACTAACCATCACGAATTTTGGCTTAAATTGAGTTTCGAGGCCCCGTCTCAGATTTG-TA
64 TCGTGTACTAA-CATAACAAATTTTGGCTAAAATCGAGTTTCGGGGCCCCGGCTCAG-TTTGCT-
* * *
20521 TGATTTTTGGCAGAAAGACTCCTTGTGATATCTATATTCATCTAACCAAATCTTAGCCACAATGG
126 TGATTTTTCGCAGAAAGACTCCTTGGGATATCTATATTCATCTAACCAAATCTTAGCTACAATGG
* * * *
20586 ATTTAAGGATTTGTTTTTACGAGCATCTGAAACTTGTTTCGGTTTAATTCGAAATAAATTCGAAA
191 ATTTAAGGATTTGTTTTTACGAGCATCTGAAACTTGTTTCGATTTAATTAGAAATAAATTCGGAG
* * * * *
20651 AAAAAAATGGGAAATCGATATTAGAAGAGTGGAAAACCCTTCAATTTGTTTTGGCGTTGAATTGA
256 AAAAAAATGGAAAAACGATATTAGAA-ACTGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGT
*
20716 AT
320 TT
* * *
20718 ATTTTTTCGGAATATTTTGCAAAATA-TTGAG-AAAAAACAATTCAGGTCAGTTATTAGCCGAAA
1 ATTTTTTCGGAATATTTTGCAAAA-AGTTGAGAAAAAAACATTTCGGGTCAGTTTTTAG-CGAAA
* ** *
20781 TCGTGTACTAACA-ATCACGTATTTGGCTAAAATCGAGTTTCGGGGCCCCAGCTCAGTTTTGCTT
64 TCGTGTACTAACATAACAAAT-TTTGGCTAAAATCGAGTTTCGGGGCCCCGGCTCAG-TTTGC-T
* * * * * *
20845 TTATGTTTCGCAG-AAGACTCCTT-GTAGTATCTATATTTATATAACCAAATCTCAGCTACAATG
126 TGATTTTTCGCAGAAAGACTCCTTGGGA-TATCTATATTCATCTAACCAAATCTTAGCTACAATG
* * *
20908 GATTTAAGGATTTGTTTTTCCGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCGGC
190 GATTTAAGGATTTGTTTTTACGAGCATCTGAAACTTGTTTCGATTTAATTAGAAATAAATTCGGA
* *
20973 GAAAAAAATGGAAAAACGATATTAGAAACTAGGAAACCCCTTCAATTTGTTTCGGCGTTGAACTG
255 GAAAAAAATGGAAAAACGATATTAGAAACT-GGAAAACCCTTCAATTTGTTTCGGCGTTGAATTG
21038 TTT
319 TTT
* * * *
21041 ATTTTTTCTGACTATTTTGCAAAAATTTGAGAAAAAAACATTTCGGGTCTGTTTTTAGTCGAAAT
1 ATTTTTTCGGAATATTTTGCAAAAAGTTGAGAAAAAAACATTTCGGGTCAGTTTTTAG-CGAAAT
21106 CGTGTACTAACATAACAAATTTTGGCTAAAATCGAGTTTCGGGGCCCCGGCTCAGTGTTGCTTGA
65 CGTGTACTAACATAACAAATTTTGGCTAAAATCGAGTTTCGGGGCCCCGGCTCAGT-TTGCTTGA
* *
21171 TTTTTCGCAGAAAGACTCCTTGGGATATCTTTATTCATCTAACCAAATCTTAGCTACAACGGATT
129 TTTTTCGCAGAAAGACTCCTTGGGATATCTATATTCATCTAACCAAATCTTAGCTACAATGGATT
* *
21236 TAAGAATTTGTTTTTACGAGCATCTGAAACTTGTTTCGATTTAATTAGAAATAAATTCGAGGGAA
194 TAAGGATTTGTTTTTACGAGCATCTGAAACTTGTTTCGATTTAATTAGAAATAAATTCG-GAGAA
* * * *
21301 AAAAATGGAAAAACGATATTAGAAGCGTGGAAAACCCTTCAACTTCTTTCGGCTTTGAATTGTTT
258 AAAAATGGAAAAACGATATTAGAAAC-TGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGTTT
*
21366 ATTTTTTCGGAATATTTTGCAAAAAGTTGAGAAAAAAA-TTTTCGGGTCAGTTTT
1 ATTTTTTCGGAATATTTTGCAAAAAGTTGAGAAAAAAACATTTCGGGTCAGTTTT
21420 GCATCATTTA
Statistics
Matches: 613, Mismatches: 74, Indels: 32
0.85 0.10 0.04
Matches are distributed among these distances:
322 6 0.01
323 233 0.38
324 241 0.39
325 127 0.21
326 6 0.01
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (321 bp):
ATTTTTTCGGAATATTTTGCAAAAAGTTGAGAAAAAAACATTTCGGGTCAGTTTTTAGCGAAATC
GTGTACTAACATAACAAATTTTGGCTAAAATCGAGTTTCGGGGCCCCGGCTCAGTTTGCTTGATT
TTTCGCAGAAAGACTCCTTGGGATATCTATATTCATCTAACCAAATCTTAGCTACAATGGATTTA
AGGATTTGTTTTTACGAGCATCTGAAACTTGTTTCGATTTAATTAGAAATAAATTCGGAGAAAAA
AATGGAAAAACGATATTAGAAACTGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGTTT
Found at i:21623 original size:250 final size:252
Alignment explanation
Indices: 21177--21670 Score: 701
Period size: 250 Copynumber: 2.0 Consensus size: 252
21167 TTGATTTTTC
** * * *
21177 GCAGAAAGACTCCTTGGGATATCTTTATTCATCTAACCAAATCTTAGCTACAACGGATTTAAGAA
1 GCAGAAAGACTCCTTGAAATATCTTTATTCATCTAACCAAATCTCAGCCACAACGAATTTAAGAA
* * *
21242 TTTGTTTTTACGAGCATCTGAAACTTGTTTCGATTTAATTAGAAATAAATTCGAGGGAAAAAAAT
66 TTTGCTTTTACGAGCATCTGAAACCTGTTTCAATTTAATTAGAAATAAATTC---GGAAAAAAAT
* *
21307 GGAAAAACGATATTAGAAGCGTGGAAAACCCTTCAACTTCTTTCGGCTTTGAATTGTTTATTTTT
128 GGAAAAACGAAATTAGAAGCGTGGAAAACCCTTCAACTTCTTTCGGCGTTGAATTGTTTATTTTT
*
21372 TCGGAATATTTTGCAAAAAGTTGAGAAAAAA-ATTTTCGGGTCAGTTTTGCATCATTTATG
193 TCGGAATATTTTGCAAAAAATTGAGAAAAAACA-TTTCGGGTCAGTTTTGCATCATTTATG
* * * * *
21432 GCAGAAAGACTCCTTGAAATAT-TTATATTCATCTGACTAGATCTCAGCCACAATGAATTTAAGG
1 GCAGAAAGACTCCTTGAAATATCTT-TATTCATCTAACCAAATCTCAGCCACAACGAATTTAAGA
*
21496 ATTT-CTTTTACGAGCAT-TGGAATCCTGTTTCAATTTAATTAGAAATAAATTC-GAAAAAAATG
65 ATTTGCTTTTACGAGCATCT-GAAACCTGTTTCAATTTAATTAGAAATAAATTCGGAAAAAAATG
* * *
21558 GAAAAATGAAATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGTTTATTTTTT
129 GAAAAACGAAATTAGAAGCGTGGAAAACCCTTCAACTTCTTTCGGCGTTGAATTGTTTATTTTTT
*
21623 CGTAATATTTTGCAAAAAATTGAGAAAAAACCATTTCGGGTCAGTTTT
194 CGGAATATTTTGCAAAAAATTGAGAAAAAA-CATTTCGGGTCAGTTTT
21671 TAGCCGAAAT
Statistics
Matches: 214, Mismatches: 21, Indels: 12
0.87 0.09 0.05
Matches are distributed among these distances:
250 98 0.46
251 15 0.07
252 1 0.00
253 1 0.00
254 44 0.21
255 55 0.26
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.35
Consensus pattern (252 bp):
GCAGAAAGACTCCTTGAAATATCTTTATTCATCTAACCAAATCTCAGCCACAACGAATTTAAGAA
TTTGCTTTTACGAGCATCTGAAACCTGTTTCAATTTAATTAGAAATAAATTCGGAAAAAAATGGA
AAAACGAAATTAGAAGCGTGGAAAACCCTTCAACTTCTTTCGGCGTTGAATTGTTTATTTTTTCG
GAATATTTTGCAAAAAATTGAGAAAAAACATTTCGGGTCAGTTTTGCATCATTTATG
Found at i:22115 original size:320 final size:320
Alignment explanation
Indices: 21412--22894 Score: 1742
Period size: 322 Copynumber: 4.6 Consensus size: 320
21402 AATTTTCGGG
* * * ** * * * *
21412 TCAGTTTTGCATCATTTATGGCAGAAAGACTCCTTGAAATATTTATATTCATCTGACTAGATCTC
1 TCAGTTTTGCATGATTTTTGACAGAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTC
* * *
21477 AGCCACAATGAATTTAAGGATTT-CTTTTACGAGCATTGGAATCCTGTTTCAATTTAATTAGAAA
66 AGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATTGGAATCTTGTTTCAATTTAATTAGAAA
*
21541 TAAATTCGAAAAAAATGGAAAAATGAAATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGGCGT
131 TAAATTCGAAAAAAATGGAAAAATGATATTAGAAGCGTGGAAAA-CCTTCAATTTGTTTCGGCGT
* * * * *
21606 TGAATTGTTTATTTTTTCGTAATATTTTGCAAAAAATTGAGAAAAAACCATTTCGGGTCAGTTTT
195 TGAATTGTATATTTTTTCGGAATATTTTGCAAAAAATTAAGAAAAAATCATTTCAGGTCAGTTTT
* *
21671 TAGCCGAAATCGTGTACTAACCAAAACGAATTGTGGTTAAAATCGAGTTTCGGGGCCCCGTC
260 TAGCCGAAATCGTGTACTAACCATAACGAATT-TGGCTAAAATCGAGTTTCGGGGCCCCGTC
* * * * **
21733 TCAGTTTTGCATGATTTATGGCAGAAAAATTCCTTGAAATATCTATATTCATCTAACCAAATCTC
1 TCAGTTTTGCATGATTTTTGACAGAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTC
* * * *
21798 AGCCACAATGAATTTAAGAATTTGTTTTTACGAGCATTGGAATCTTGCTTCAATTTAATGAGAAA
66 AGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATTGGAATCTTGTTTCAATTTAATTAGAAA
* * * *
21863 TAAATTCGAAATAAATTGAAAAATGATATTAGATGCGTGGAAAATCCTTCAATTTGTATCGGCGT
131 TAAATTCGAAAAAAATGGAAAAATGATATTAGAAGCGTGGAAAA-CCTTCAATTTGTTTCGGCGT
* * * * *
21928 TG-ATGTGTTTATTTTTT-GGAATATATTACAAAAAATTAAGAAAAAATCA-TTCGGGTAAGTTT
195 TGAAT-TGTATATTTTTTCGGAATATTTTGCAAAAAATTAAGAAAAAATCATTTCAGGTCAGTTT
* * *
21990 TTAGCCGAAATCGTGTACTAACCATAACGAATTTTGGCTAAAATCGAGTTTCGAGACCCCGTT
259 TTAGCCGAAATCGTGTACTAACCATAACGAA-TTTGGCTAAAATCGAGTTTCGGGGCCCCGTC
*
22053 TCAGTTTTGCATGATTTTTGACAGAAAGACTCCTTGCGATATCTATATTCATCTAGCCAAATCTC
1 TCAGTTTTGCATGATTTTTGACAGAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTC
* * *
22118 AGCCACAATGGATTCATGGATTTGTTTTTACGAGCATTGGAATCCTGTTTCAATTTAATTAGAAA
66 AGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATTGGAATCTTGTTTCAATTTAATTAGAAA
* * *
22183 TAAATTCGAGGAAAAAAATGGAAAAA-CATAATTATAAGCGTGGAAAACTTATCAATTTGTTTCG
131 TAAATTC---GAAAAAAATGGAAAAATGAT-ATTAGAAGCGTGGAAAACCT-TCAATTTGTTTCG
* * * *
22247 GCGTTGAATTGTATATTTTTTCAGAATATTTTGCAAAAAA--ATGATAAAATACATTTCAGATCA
191 GCGTTGAATTGTATATTTTTTCGGAATATTTTGCAAAAAATTAAGAAAAAAT-CATTTCAGGTCA
* * * * * * * **
22310 GTTATTAGCCGAAATCGTATACTAACCATCACGGATATGGCTAAAATCGAATTTTGGGG-CCCAA
255 GTTTTTAGCCGAAATCGTGTACTAACCATAACGAATTTGGCTAAAATCGAGTTTCGGGGCCCCGT
22374 C
320 C
* * * * *
22375 TCAGTTTTGCTTAATTTTTCG-CAGAATGAATCCTTGCGATATCTATATCCATCTAACCAAATCT
1 TCAGTTTTGCATGATTTTT-GACAGAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCT
* * *
22439 CAGCCACAATGGATTTAAGGATTTCTTTTTACGAGCATCT-GAATCTTCTTTCGAA-TTAATTAA
65 CAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCAT-TGGAATCTTGTTTC-AATTTAATTAG
* * *
22502 AAATAAATTCGAAAAAAATGCG-AAAACGATATTGGAAGCGTGGAAAAGCCTTCAATTTGTTTTG
128 AAATAAATTCGAAAAAAATG-GAAAAATGATATTAGAAGCGTGGAAAA-CCTTCAATTTGTTTCG
* * * * *
22566 TCGTTGAATTGTATATTTTTTCGGAATATTTTTCAAAAAATTGAGAAAAAA-CATTTCATGTTAG
191 GCGTTGAATTGTATATTTTTTCGGAATATTTTGCAAAAAATTAAGAAAAAATCATTTCAGGTCAG
* * * * *
22630 TTGTTAGCCGAAATCGTGTACTAACCATCATGGATTTGGCTAAAATCGAGTTTCGGGGTCCCAG-
256 TTTTTAGCCGAAATCGTGTACTAACCATAACGAATTTGGCTAAAATCGAGTTTCGGGG-CCCCGT
22694 C
320 C
* * * * * * *
22695 TCAGATTTGCTTTTATTTTTCACAGAAAGACTCCTTGCGGTATCTATATTTATATAACCAAAT-T
1 TCAGTTTTGC-ATGATTTTTGACAGAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCT
* *
22759 CAGCCACAATGGATTTAAGGATTTGTTTTTCCGAGCATCT-GAATCTTGTTTGAATTTAA-TATG
65 CAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCAT-TGGAATCTTGTTTCAATTTAATTA-G
* * * * * *
22822 AAAGAAAATCGGGGAAAAAATGGAAAAACGATATTAGAAAC-TAGGAAACCCGTTCAATTTGTTT
128 AAATAAATTC--GAAAAAAATGGAAAAATGATATTAGAAGCGT-GGAAAACC-TTCAATTTGTTT
22886 CGGCGTTGA
189 CGGCGTTGA
22895 GAAAAAAAAA
Statistics
Matches: 1004, Mismatches: 127, Indels: 61
0.84 0.11 0.05
Matches are distributed among these distances:
319 144 0.14
320 266 0.26
321 166 0.17
322 291 0.29
323 83 0.08
324 54 0.05
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (320 bp):
TCAGTTTTGCATGATTTTTGACAGAAAGACTCCTTGCGATATCTATATTCATCTAACCAAATCTC
AGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATTGGAATCTTGTTTCAATTTAATTAGAAA
TAAATTCGAAAAAAATGGAAAAATGATATTAGAAGCGTGGAAAACCTTCAATTTGTTTCGGCGTT
GAATTGTATATTTTTTCGGAATATTTTGCAAAAAATTAAGAAAAAATCATTTCAGGTCAGTTTTT
AGCCGAAATCGTGTACTAACCATAACGAATTTGGCTAAAATCGAGTTTCGGGGCCCCGTC
Found at i:22764 original size:642 final size:643
Alignment explanation
Indices: 21433--24434 Score: 2290
Period size: 642 Copynumber: 4.7 Consensus size: 643
21423 TCATTTATGG
** * * * * * *
21433 CAGAAAGACTCCTTGAAATATTTATATTCATCTGACTAGATCTCAGCCACAATGAATTTAAGGAT
1 CAGAAAGACTCCTTGCGATATCTATATTCATATAACCAAATCTCAGCCACAATGGATTTAAGGAT
*
21498 TT-CTTTTACGAGCATTGGAATCCTGTTTCAATTTAATTAGAAATAAATTC--GAAAAAAATGGA
66 TTGTTTTTACGAGCATTGGAATCCTGTTTCAATTTAATTAGAAATAAATTCGGGAAAAAAATGGA
* *
21560 AAAATGA-AATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGGCGTTGAATTGTTTATTTTTTC
131 AAAA-CATAATTAGAAGCGTGGAAAA-CCTTCAATTTGTTTCGGCGTTGAATTGTATATTTTTTC
* * * * *
21624 GTAATATTTTGCAAAAAATTGAGAAAAAACCATTTCGGGTCAGTTTTTAGCCGAAATCGTGTACT
194 GTAATATTTTGCAAAAAAATGAGAAAAAACCATTTCAGATCAGTTATTAGCCGAAATCGTATACT
* * * ** * *
21689 AACCAAAACGAATTGTGGTTAAAATCGAGTTTCGGGGCCCCGTCTCAGTTTTGCATGATTTATGG
259 AACCAAAACGAATTATGGCTAAAATCGAATTTCGGGGCCCCAACTCAGTTTTGCATAATTTATCG
*
21754 CAGAAAAATTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGAATTTAAGAAT
324 CAGAAAAATTCCTTGAAATATCTATATCCATCTAACCAAATCTCAGCCACAATGAATTTAAGAAT
* * *
21819 TTGTTTTTACGAGCATTGGAATCTTGCTTCAATTTAATGAGAAATAAATTCGAAATAAATTGAAA
389 TTCTTTTTACGAGCATTGGAATCTTGCTTCAATTTAATGAAAAATAAATTCGAAATAAAATGAAA
* * * *
21884 AATGATATTAGATGCGTGGAAAATCCTTCAATTTGTATCGGCGTTGATGTGTTTATTTTTTGGAA
454 AACGATATTAGAAGCGTGGAAAAGCCTTCAATTTGTATCGGCGTTGATGTGTATATTTTTTGGAA
* *
21949 TATATTACAAAAAATTAAGAAAAAATCATTCGGGTAAGTTTTTAGCCGAAATCGTGTACTAACCA
519 TATATTACAAAAAATTAAGAAAAAATCATTCAGGTAAGTTGTTAGCCGAAATCGTGTACTAACCA
* * * *
22014 TAACGAATTTTGGCTAAAATCGAGTTTCGAGACCCCGTTTCAGTTTTGCATGATTTTTGA
584 TAACGAATTTTGGCTAAAATCGAGTTTCGAGACCCAGTCTCAGATTTGCATGATTTTTCA
* * * *
22074 CAGAAAGACTCCTTGCGATATCTATATTCATCTAGCCAAATCTCAGCCACAATGGATTCATGGAT
1 CAGAAAGACTCCTTGCGATATCTATATTCATATAACCAAATCTCAGCCACAATGGATTTAAGGAT
22139 TTGTTTTTACGAGCATTGGAATCCTGTTTCAATTTAATTAGAAATAAATTCGAGGAAAAAAATGG
66 TTGTTTTTACGAGCATTGGAATCCTGTTTCAATTTAATTAGAAATAAATTCG-GGAAAAAAATGG
* *
22204 AAAAACATAATTATAAGCGTGGAAAACTTATCAATTTGTTTCGGCGTTGAATTGTATATTTTTTC
130 AAAAACATAATTAGAAGCGTGGAAAACCT-TCAATTTGTTTCGGCGTTGAATTGTATATTTTTTC
* *
22269 AG-AATATTTTGCAAAAAAATGATAAAATA-CATTTCAGATCAGTTATTAGCCGAAATCGTATAC
194 -GTAATATTTTGCAAAAAAATGAGAAAAAACCATTTCAGATCAGTTATTAGCCGAAATCGTATAC
** * * * *
22332 TAACCATCACGGA-TATGGCTAAAATCGAATTTTGGGG-CCCAACTCAGTTTTGCTTAATTTTTC
258 TAACCAAAACGAATTATGGCTAAAATCGAATTTCGGGGCCCCAACTCAGTTTTGCATAATTTATC
* ** * *
22395 GCAGAATGAA-TCCTTGCGATATCTATATCCATCTAACCAAATCTCAGCCACAATGGATTTAAGG
323 GCAGAA-AAATTCCTTGAAATATCTATATCCATCTAACCAAATCTCAGCCACAATGAATTTAAGA
*
22459 ATTTCTTTTTACGAGCATCT-GAATCTT-CTTTCGAA-TTAATTAAAAATAAATTCGAAA-AAAA
387 ATTTCTTTTTACGAGCAT-TGGAATCTTGC-TTC-AATTTAATGAAAAATAAATTCGAAATAAAA
* * * * *
22520 TGCGAAAACGATATTGGAAGCGTGGAAAAGCCTTCAATTTGTTTTGTCGTTGAAT-TGTATATTT
449 TG-AAAAACGATATTAGAAGCGTGGAAAAGCCTTCAATTTGTATCGGCGTTG-ATGTGTATATTT
* * * * *
22584 TTTCGGAATATTTTTCAAAAAATTGAGAAAAAA-CATTTCATGTTAGTTGTTAGCCGAAATCGTG
512 TTT-GGAATATATTACAAAAAATTAAGAAAAAATCA-TTCAGGTAAGTTGTTAGCCGAAATCGTG
* * * * * * *
22648 TACTAACCATCATGGA-TTTGGCTAAAATCGAGTTTCGGGGTCCCAG-CTCAGATTTGCTTTTAT
575 TACTAACCATAACGAATTTTGGCTAAAATCGAGTTTC-GAGACCCAGTCTCAGATTTGC-ATGAT
22711 TTTTCA
638 TTTTCA
* *
22717 CAGAAAGACTCCTTGCGGTATCTATATTTATATAACCAAAT-TCAGCCACAATGGATTTAAGGAT
1 CAGAAAGACTCCTTGCGATATCTATATTCATATAACCAAATCTCAGCCACAATGGATTTAAGGAT
* * * * * *
22781 TTGTTTTTCCGAGCATCT-GAATCTTGTTTGAATTTAA-TATGAAAGAAAATCGGGGAAAAAATG
66 TTGTTTTTACGAGCAT-TGGAATCCTGTTTCAATTTAATTA-GAAATAAATTCGGGAAAAAAATG
* * **** * ***
22844 GAAAAACGAT-ATTAGAAAC-TAGGAAACCCGTTCAATTTGTTTCGGCGTTGAGAAAAAAAAACA
129 GAAAAAC-ATAATTAGAAGCGT-GGAAAACC-TTCAATTTGTTTCGGCGTTGA-ATTGTATATTT
* ** * * ** ** * **
22907 TTTCG-GATCAGTTTTTAGC--CGAAATCGTG-TACTACCATAAC-GA--A-TT-TTGGCTAAAA
190 TTTCGTAAT-A--TTTT-GCAAAAAAAT-GAGAAAAAACCATTTCAGATCAGTTATTAGCCGAAA
* * *** **** * * * ** *** *
22963 TTG-AGTTTCGGGGCCCTGTCTCAGTT-TTG-T---ATC--ATTT-TTGGCAGAAAGACTC---C
250 TCGTA--TAC-TAACCAAAAC-GAATTATGGCTAAAATCGAATTTCGGGGC-CCCA-ACTCAGTT
* * * * * * *** * *
23016 TTGCGAT-ATCTAT---------ATTCATTTAACCAAATCT-CAGCCA-C-AA-TGGATTTAAG-
309 TTGC-ATAATTTATCGCAGAAAAATTCCTTGAA--ATATCTATATCCATCTAACCAAATCTCAGC
* ** ** * * * * * * *
23066 GA-TTTGTTTTTACG-A-GT-ATTTGA--ATC-TT-G--T-TTCGATTTAA-TT-A-GAAATAA-
371 CACAATGAATTTAAGAATTTCTTTTTACGAGCATTGGAATCTT-GCTTCAATTTAATGAAA-AAT
***** ** * * *
23116 ATTCGGGGAAA-AAATGGAAAAACGATATTAGAAGCGTGGAAAACCCTTCAATTTCTCTCGGCGT
434 A-AATTCGAAATAAAATGAAAAACGATATTAGAAGCGTGGAAAAGCCTTCAATTTGTATCGGCGT
* * * * * * * *
23180 TGAAT-TGTTTATTTTTCCGGAATATTTTGCAAAAAATTGAGAAAAAAAACATTTCGGGTCAGTT
498 TG-ATGTGTATATTTTT-TGGAATATATTACAAAAAATTAAG-AAAAAATCA-TTCAGGTAAGTT
* * * * * * * * * *
23244 TTTAGTCGAAACCGTGTACTCACCATCAC-AGATTTTCGCTGAAATCGAGTTTCGGGGCACC-GG
559 GTTAGCCGAAATCGTGTACTAACCATAACGA-ATTTTGGCTAAAATCGAGTTTCGAGAC-CCAGT
* **
23307 CTCA-ATTTTGCATGATTTGTGG
622 CTCAGA-TTTGCATGATTTTTCA
* ** * * * * ** *
23329 CAGAAAGACTCGTTGAAATATTTATAGTCATCTTATTAAATCTCAGCCACAATGAATTTAAGGAT
1 CAGAAAGACTCCTTGCGATATCTATATTCATATAACCAAATCTCAGCCACAATGGATTTAAGGAT
*
23394 TTG-TTTTACGAGCATTGGAATCCTGTTTCAATTTAATTAGAAATAAATTC-GAAAAAAAATGGA
66 TTGTTTTTACGAGCATTGGAATCCTGTTTCAATTTAATTAGAAATAAATTCGGGAAAAAAATGGA
* * * *
23457 AAAACGA-AATTAGAACCGGGGAAAACCCTTCAATTTGTTTCGGCGATGAATTGTTTATTTTTTC
131 AAAAC-ATAATTAGAAGCGTGGAAAA-CCTTCAATTTGTTTCGGCGTTGAATTGTATATTTTTTC
* * * * * * * * * * *
23521 GGAAAAGTTTGCAAAAAATTGAGAAAAAA-TATTTCGGGTTAGTTTTTAGCCGAAACCGTGTACT
194 GTAATATTTTGCAAAAAAATGAGAAAAAACCATTTCAGATCAGTTATTAGCCGAAATCGTATACT
* * * * ** * * **
23585 AACCATAACGAATTGTGGCAAAAATCGAGTTTCGGGGCCCCGTCTCAGTTTTTCATGATTTAAGG
259 AACCAAAACGAATTATGGCTAAAATCGAATTTCGGGGCCCCAACTCAGTTTTGCATAATTTATCG
* * * *
23650 CAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGAATTTAAGGAT
324 CAGAAAAATTCCTTGAAATATCTATATCCATCTAACCAAATCTCAGCCACAATGAATTTAAGAAT
* * * * *
23715 TTGTTTTTACGAGCATTGGAATCTTGTTTCAATTTAATTAGACATAAATTCGAAA-AAAATGATA
389 TTCTTTTTACGAGCATTGGAATCTTGCTTCAATTTAATGAAAAATAAATTCGAAATAAAATGA-A
* *
23779 AAACGATATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGGCGTTGAAT-TGTATATTTTTTGG
453 AAACGATATTAGAAGCGTGGAAAAGCCTTCAATTTGTATCGGCGTTG-ATGTGTATATTTTTTGG
* * * * * * * *
23843 ATTACT-TTGCAAAAAATTGAGAAAAAAACATTTCAAGTCAGTTTTTAGCCGAAATCGTGTACAA
517 AATA-TATTACAAAAAATTAAGAAAAAATCA-TTCAGGTAAGTTGTTAGCCGAAATCGTGTACTA
* * * * * * * * *
23907 ACCATTACAGATTTTTGAC-AAAATACGAGTTTCGGGACCCCGTTTCAGTTTTGCATGATTTATG
580 ACCATAAC-GAATTTTGGCTAAAAT-CGAGTTTCGAGACCCAGTCTCAGATTTGCATGATTTTTC
23971 A
643 A
* * *
23972 CAGAAAGATTCCTTGTGATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTAAGGAT
1 CAGAAAGACTCCTTGCGATATCTATATTCATATAACCAAATCTCAGCCACAATGGATTTAAGGAT
* * *
24037 TTCTTTTTACGAGCATCT-GAATCTTGTTTCGATTTAATTAGAAATAAATTC--G-AAAAAATGG
66 TTGTTTTTACGAGCAT-TGGAATCCTGTTTCAATTTAATTAGAAATAAATTCGGGAAAAAAATGG
* *
24098 TAAAACGAT-ATTAGAAGCGTGGAAAACCCTTCAATTTGTTTCGGCGCTGAATTGTATATTTTTT
130 AAAAAC-ATAATTAGAAGCGTGGAAAA-CCTTCAATTTGTTTCGGCGTTGAATTGTATATTTTTT
* * * * * *
24162 CGGAATATTTTGCAAGAAATTGAGAAAAAA-CATTTCAGGTCAGTTTTTAGCCGAAATCGTGTAC
193 CGTAATATTTTGCAAAAAAATGAGAAAAAACCATTTCAGATCAGTTATTAGCCGAAATCGTATAC
** * ** * * * *
24226 TAACCATCACGAATT-TGGCTAAAATCGAGTTTCGGGATCCCGACTCAGTTTTGCTTGATTTTTC
258 TAACCAAAACGAATTATGGCTAAAATCGAATTTCGGGGCCCCAACTCAGTTTTGCATAATTTATC
* * ** ** *
24290 GCAGAAAGACTCCTTGCGATATCTATATTTATCTAACCAAATCTCAGCCACAATGGATTTAACG-
323 GCAGAAAAATTCCTTGAAATATCTATATCCATCTAACCAAATCTCAGCCACAATGAATTTAA-GA
* * ** * * * *
24354 ATTTGTTTTTACAAGCATCT-GAATCTTATTTCGATTTAATTAGAAATAAATTCGGGAA-AAAAT
387 ATTTCTTTTTACGAGCAT-TGGAATCTTGCTTCAATTTAATGAAAAATAAATTC-GAAATAAAAT
24417 GGAAAAACGATATTAGAA
450 -GAAAAACGATATTAGAA
24435 TGAAATGGTC
Statistics
Matches: 1873, Mismatches: 364, Indels: 247
0.75 0.15 0.10
Matches are distributed among these distances:
607 2 0.00
608 8 0.00
609 6 0.00
610 92 0.05
611 77 0.04
612 128 0.07
613 67 0.04
615 5 0.00
616 4 0.00
617 5 0.00
618 5 0.00
619 11 0.01
620 1 0.00
621 1 0.00
622 7 0.00
623 1 0.00
624 5 0.00
625 3 0.00
626 10 0.01
627 7 0.00
628 13 0.01
629 2 0.00
630 5 0.00
631 1 0.00
632 7 0.00
633 1 0.00
634 1 0.00
635 14 0.01
636 5 0.00
637 3 0.00
638 10 0.01
639 10 0.01
640 5 0.00
641 275 0.15
642 545 0.29
643 277 0.15
644 159 0.08
645 94 0.05
646 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (643 bp):
CAGAAAGACTCCTTGCGATATCTATATTCATATAACCAAATCTCAGCCACAATGGATTTAAGGAT
TTGTTTTTACGAGCATTGGAATCCTGTTTCAATTTAATTAGAAATAAATTCGGGAAAAAAATGGA
AAAACATAATTAGAAGCGTGGAAAACCTTCAATTTGTTTCGGCGTTGAATTGTATATTTTTTCGT
AATATTTTGCAAAAAAATGAGAAAAAACCATTTCAGATCAGTTATTAGCCGAAATCGTATACTAA
CCAAAACGAATTATGGCTAAAATCGAATTTCGGGGCCCCAACTCAGTTTTGCATAATTTATCGCA
GAAAAATTCCTTGAAATATCTATATCCATCTAACCAAATCTCAGCCACAATGAATTTAAGAATTT
CTTTTTACGAGCATTGGAATCTTGCTTCAATTTAATGAAAAATAAATTCGAAATAAAATGAAAAA
CGATATTAGAAGCGTGGAAAAGCCTTCAATTTGTATCGGCGTTGATGTGTATATTTTTTGGAATA
TATTACAAAAAATTAAGAAAAAATCATTCAGGTAAGTTGTTAGCCGAAATCGTGTACTAACCATA
ACGAATTTTGGCTAAAATCGAGTTTCGAGACCCAGTCTCAGATTTGCATGATTTTTCA
Found at i:23127 original size:288 final size:288
Alignment explanation
Indices: 22611--23182 Score: 800
Period size: 288 Copynumber: 2.0 Consensus size: 288
22601 AAAAATTGAG
* * * * *
22611 AAAAAACATTTCATGTTAGTTGTTAGCCGAAATCGTGTACTAACCATCATGGATTTGGCTAAAAT
1 AAAAAACATTTCAGGTCAGTTGTTAGCCGAAATCGTGTACTAACCATAACGAATTTGGCTAAAAT
* * *
22676 CGAGTTTCGGGGTCCCAGCTCAGATTTGCTTTTATTTTTCACAGAAAGACTCCTTGCGGTATCTA
66 CGAGTTTCGGGGTCCCAGCTCAGATTTGCTATCATTTTTCACAGAAAGACTCCTTGCGATATCTA
* *
22741 TATTTATATAACCAAATTCAGCCACAATGGATTTAAGGATTTGTTTTTCCGAGCATCTGAATCTT
131 TATTCATATAACCAAATTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTT
22806 GTTTGAATTTAATATGAAAGAAAATCGGGGAAAAAATGGAAAAACGATATTAGAAAC-TAGG-AA
196 GTTTGAATTTAATATGAAAGAAAATCGGGGAAAAAATGGAAAAACGATATTAGAAACGT-GGAAA
* *
22869 ACCCGTTCAATTTGTTTCGGCGTTGAGAAA
260 ACCC-TTCAATTTCTCTCGGCGTTGAGAAA
*
22899 AAAAAACATTTC-GGATCAGTTTTTAGCCGAAATCGTGTACT-ACCATAACGAATTTTGGCTAAA
1 AAAAAACATTTCAGG-TCAGTTGTTAGCCGAAATCGTGTACTAACCATAACGAA-TTTGGCTAAA
* * * **
22962 ATTGAGTTTCGGGG-CCCTGTCTCAGTTTTG-TATCATTTTTGGCAGAAAGACTCCTTGCGATAT
64 ATCGAGTTTCGGGGTCCCAG-CTCAGATTTGCTATCATTTTTCACAGAAAGACTCCTTGCGATAT
* * *
23025 CTATATTCATTTAACCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGTATTTGAA
128 CTATATTCATATAACCAAAT-TCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAA
* * *
23090 TCTTGTTTCG-ATTTAAT-TAGAAATAAATTCGGGGAAAAAATGGAAAAACGATATTAGAAGCGT
192 TCTTGTTT-GAATTTAATAT-GAAAGAAAATCGGGGAAAAAATGGAAAAACGATATTAGAAACGT
23153 GGAAAACCCTTCAATTTCTCTCGGCGTTGA
255 GGAAAACCCTTCAATTTCTCTCGGCGTTGA
23183 ATTGTTTATT
Statistics
Matches: 252, Mismatches: 24, Indels: 16
0.86 0.08 0.05
Matches are distributed among these distances:
287 60 0.24
288 184 0.73
289 8 0.03
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (288 bp):
AAAAAACATTTCAGGTCAGTTGTTAGCCGAAATCGTGTACTAACCATAACGAATTTGGCTAAAAT
CGAGTTTCGGGGTCCCAGCTCAGATTTGCTATCATTTTTCACAGAAAGACTCCTTGCGATATCTA
TATTCATATAACCAAATTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTT
GTTTGAATTTAATATGAAAGAAAATCGGGGAAAAAATGGAAAAACGATATTAGAAACGTGGAAAA
CCCTTCAATTTCTCTCGGCGTTGAGAAA
Found at i:23668 original size:321 final size:321
Alignment explanation
Indices: 22898--24434 Score: 2131
Period size: 321 Copynumber: 4.8 Consensus size: 321
22888 GCGTTGAGAA
*
22898 AAAAAAACATTTCGGATCAGTTTTTAGCCGAAATCGTGTACT-ACCATAACGAATTTTGGCTAAA
1 AAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATAACGAATTTTGGCTAAA
* * * * * *
22962 ATTGAGTTTCGGGGCCCTGTCTCAGTTTTGTATCATTTTTGGCAGAAAGACTCCTTGCGATATCT
66 ATCGAGTTTCGGGGCCCCGTCTCAGTTTTGCATGATTTATGGCAGAAAGACTCCTTGAGATATCT
* *
23027 ATATTCATTTAACCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGTATTTGAATC
131 ATATTCATCTAACCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCA-TTGAATC
*
23092 TTGTTTCGATTTAATTAGAAATAAATTCGGGGAAAAAATGGAAAAACGATATTAGAAGCGTGGAA
195 TTGTTTCGATTTAATTAGAAATAAATTC--GAAAAAAATGGAAAAACGATATTAGAAGCGTGGAA
* * * *
23157 AACCCTTCAATTTCTCTCGGCGTTGAATTGTTTATTTTTCCGGAATATTTTGCAAAAAATTGAG
258 AACCCTTCAATTTGTTTCGGCGTTGAATTGTATATTTTTTCGGAATATTTTGCAAAAAATTGAG
* * * * * *
23221 AAAAAAAACATTTCGGGTCAGTTTTTAGTCGAAACCGTGTACTCACCATCAC-AGATTTTCGCTG
1 -AAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATAACGA-ATTTTGGCTA
* * * * * *
23285 AAATCGAGTTTCGGGGCACCGGCTCAATTTTGCATGATTTGTGGCAGAAAGACTCGTTGAAATAT
64 AAATCGAGTTTCGGGGCCCCGTCTCAGTTTTGCATGATTTATGGCAGAAAGACTCCTTGAGATAT
* * * ** *
23350 TTATAGTCATCTTATTAAATCTCAGCCACAATGAATTTAAGGATTTG-TTTTACGAGCATTGGAA
129 CTATATTCATCTAACCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATT-GAA
* * * * *
23414 TCCTGTTTCAATTTAATTAGAAATAAATTCGAAAAAAAATGGAAAAACGAAATTAGAACCGGGGA
193 TCTTGTTTCGATTTAATTAGAAATAAATTCG-AAAAAAATGGAAAAACGATATTAGAAGCGTGGA
* * * *
23479 AAACCCTTCAATTTGTTTCGGCGATGAATTGTTTATTTTTTCGGAAAAGTTTGCAAAAAATTGAG
257 AAACCCTTCAATTTGTTTCGGCGTTGAATTGTATATTTTTTCGGAATATTTTGCAAAAAATTGAG
* * * * *
23544 -AAAAAATATTTCGGGTTAGTTTTTAGCCGAAACCGTGTACTAACCATAACGAATTGTGGCAAAA
1 AAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATAACGAATTTTGGCTAAA
* * *
23608 ATCGAGTTTCGGGGCCCCGTCTCAGTTTTTCATGATTTAAGGCAGAAAGACTCCTTGAAATATCT
66 ATCGAGTTTCGGGGCCCCGTCTCAGTTTTGCATGATTTATGGCAGAAAGACTCCTTGAGATATCT
*
23673 ATATTCATCTAACCAAATCTCAGCCACAATGAATTTAAGGATTTGTTTTTACGAGCATTGGAATC
131 ATATTCATCTAACCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATT-GAATC
* *
23738 TTGTTTCAATTTAATTAGACATAAATTCGAAAAAAAT-GATAAAACGATATTAGAAGCGTGGAAA
195 TTGTTTCGATTTAATTAGAAATAAATTCGAAAAAAATGGA-AAAACGATATTAGAAGCGTGGAAA
* *
23802 ACCCTTCAATTTGTTTCGGCGTTGAATTGTATATTTTTT-GGATTACTTTGCAAAAAATTGAG
259 ACCCTTCAATTTGTTTCGGCGTTGAATTGTATATTTTTTCGGAATATTTTGCAAAAAATTGAG
** * * * *
23864 AAAAAAACATTTCAAGTCAGTTTTTAGCCGAAATCGTGTACAAACCATTACAGATTTTTGAC-AA
1 AAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATAAC-GAATTTTGGCTAA
* * * * *
23928 AATACGAGTTTCGGGACCCCGTTTCAGTTTTGCATGATTTATGACAGAAAGATTCCTTGTGATAT
65 AAT-CGAGTTTCGGGGCCCCGTCTCAGTTTTGCATGATTTATGGCAGAAAGACTCCTTGAGATAT
*
23993 CTATATTCATCTAACCAAATCTCAGCCACAATGGATTTAAGGATTTCTTTTTACGAGCATCTGAA
129 CTATATTCATCTAACCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCAT-TGAA
*
24058 TCTTGTTTCGATTTAATTAGAAATAAATTCG-AAAAAATGGTAAAACGATATTAGAAGCGTGGAA
193 TCTTGTTTCGATTTAATTAGAAATAAATTCGAAAAAAATGGAAAAACGATATTAGAAGCGTGGAA
* *
24122 AACCCTTCAATTTGTTTCGGCGCTGAATTGTATATTTTTTCGGAATATTTTGCAAGAAATTGAG
258 AACCCTTCAATTTGTTTCGGCGTTGAATTGTATATTTTTTCGGAATATTTTGCAAAAAATTGAG
* *
24186 -AAAAAACATTTCAGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGAA-TTTGGCTAAA
1 AAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATAACGAATTTTGGCTAAA
** * * * * *
24249 ATCGAGTTTCGGGATCCCGACTCAGTTTTGCTTGATTTTTCGCAGAAAGACTCCTTGCGATATCT
66 ATCGAGTTTCGGGGCCCCGTCTCAGTTTTGCATGATTTATGGCAGAAAGACTCCTTGAGATATCT
* * *
24314 ATATTTATCTAACCAAATCTCAGCCACAATGGATTTAACGATTTGTTTTTACAAGCATCTGAATC
131 ATATTCATCTAACCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCAT-TGAATC
* *
24379 TTATTTCGATTTAATTAGAAATAAATTCGGGAAAAAATGGAAAAACGATATTAGAA
195 TTGTTTCGATTTAATTAGAAATAAATTC-GAAAAAAATGGAAAAACGATATTAGAA
24435 TGAAATGGTC
Statistics
Matches: 1082, Mismatches: 115, Indels: 35
0.88 0.09 0.03
Matches are distributed among these distances:
319 147 0.14
320 30 0.03
321 405 0.37
322 219 0.20
323 91 0.08
324 81 0.07
325 109 0.10
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (321 bp):
AAAAAAACATTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATAACGAATTTTGGCTAAA
ATCGAGTTTCGGGGCCCCGTCTCAGTTTTGCATGATTTATGGCAGAAAGACTCCTTGAGATATCT
ATATTCATCTAACCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATTGAATCT
TGTTTCGATTTAATTAGAAATAAATTCGAAAAAAATGGAAAAACGATATTAGAAGCGTGGAAAAC
CCTTCAATTTGTTTCGGCGTTGAATTGTATATTTTTTCGGAATATTTTGCAAAAAATTGAG
Found at i:31333 original size:55 final size:55
Alignment explanation
Indices: 31274--31384 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
31264 GTTAATCATG
31274 CTTCCATCAAAGAAATGTAAAACAACATATGAAGGACCATAATTCATGAATCACA
1 CTTCCATCAAAGAAATGTAAAACAACATATGAAGGACCATAATTCATGAATCACA
31329 CTTCCATCAAAGAAATGTAAAACAACATATGAAGGACCATAATTCATGAATCACA
1 CTTCCATCAAAGAAATGTAAAACAACATATGAAGGACCATAATTCATGAATCACA
31384 C
1 C
31385 ATTATACGAG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.47, C:0.21, G:0.11, T:0.22
Consensus pattern (55 bp):
CTTCCATCAAAGAAATGTAAAACAACATATGAAGGACCATAATTCATGAATCACA
Found at i:33266 original size:10 final size:11
Alignment explanation
Indices: 33249--33274 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33239 ATTTAACGGG
33249 GAAAAAAAAAA
1 GAAAAAAAAAA
33260 GAAAAAAAAAA
1 GAAAAAAAAAA
33271 GAAA
1 GAAA
33275 CAAATATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:37063 original size:39 final size:39
Alignment explanation
Indices: 37009--37088 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
36999 GGTGGTTCAA
37009 ACAATCCCATAAATTGTTCCATCGAACTTTAATTTTTAG
1 ACAATCCCATAAATTGTTCCATCGAACTTTAATTTTTAG
* *
37048 ACAATTCCATAAATTGTTCCATCGAACTTTATTTTTTAG
1 ACAATCCCATAAATTGTTCCATCGAACTTTAATTTTTAG
37087 AC
1 AC
37089 TATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (39 bp):
ACAATCCCATAAATTGTTCCATCGAACTTTAATTTTTAG
Found at i:38559 original size:100 final size:98
Alignment explanation
Indices: 38384--38688 Score: 364
Period size: 102 Copynumber: 3.0 Consensus size: 98
38374 TATTTACTTA
* *
38384 TATGTCACTCCACTCGTCCGACTCCTGAGTGGTTTAAAGTATGATTCGGACCTAAAATTTTTACC
1 TATGTCACTTCACTCGTCCGA-TCC-GAGTGGTTTAAAGTATGATTCGGACCTAAGATTTTTACC
* *
38449 CATATTTCACCTCATCCTGACCACTCGAGTTTGAGT
64 CATATCTCACCTCA-CCTGACCACTTGAGTTTGAGT
* *
38485 TATGTCACTTCACTCGTCCGATTCCGAGTGGTTTAAAGTATGATTTGAACCTAAGATTTTTACCC
1 TATGTCACTTCACTCGTCCGA-TCCGAGTGGTTTAAAGTATGATTCGGACCTAAGATTTTTACCC
38550 ATATCTCACCTCACCTCGACCACTTGATCAGTTTGAGT
65 ATATCTCACCTCACCT-GACCACTTG---AGTTTGAGT
* * * * * * *
38588 T-TACTCATATTTATTTC-ACCG-TCCGAGTGGTTTAAAGTATGACTCGGACTTAAGATTTTTAC
1 TAT-GTCA-CTTCA-CTCGTCCGATCCGAGTGGTTTAAAGTATGATTCGGACCTAAGATTTTTAC
38650 CCATATCTCACCTCACCCTGACCACTTGAGTTTGAGT
63 CCATATCTCACCTCA-CCTGACCACTTGAGTTTGAGT
38687 TA
1 TA
38689 ACCCGAGTGG
Statistics
Matches: 179, Mismatches: 16, Indels: 19
0.84 0.07 0.09
Matches are distributed among these distances:
99 13 0.07
100 57 0.32
101 23 0.13
102 62 0.35
103 16 0.09
104 6 0.03
105 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.35
Consensus pattern (98 bp):
TATGTCACTTCACTCGTCCGATCCGAGTGGTTTAAAGTATGATTCGGACCTAAGATTTTTACCCA
TATCTCACCTCACCTGACCACTTGAGTTTGAGT
Found at i:49491 original size:10 final size:10
Alignment explanation
Indices: 49465--49512 Score: 53
Period size: 10 Copynumber: 4.6 Consensus size: 10
49455 TCATGGCTAT
49465 GAAAGAGAAAGA
1 GAAAGAG-AA-A
49477 GAAAGAGAAA
1 GAAAGAGAAA
*
49487 GAAAGAGACA
1 GAAAGAGAAA
49497 GAAAGA-AGAA
1 GAAAGAGA-AA
49507 GAAAGA
1 GAAAGA
49513 AGGAAAAGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 1 0.03
10 23 0.70
11 2 0.06
12 7 0.21
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (10 bp):
GAAAGAGAAA
Found at i:56087 original size:2 final size:2
Alignment explanation
Indices: 56080--56125 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
56070 AATTAAGCTG
* *
56080 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56122 TA TA
1 TA TA
56126 GTTAGCTTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62348 original size:52 final size:52
Alignment explanation
Indices: 62289--62391 Score: 206
Period size: 52 Copynumber: 2.0 Consensus size: 52
62279 AGAGGCTTTC
62289 TAATTCTTTCCATGGTAATTACTACTAATTAATTAAATTTACTAGGCTCATG
1 TAATTCTTTCCATGGTAATTACTACTAATTAATTAAATTTACTAGGCTCATG
62341 TAATTCTTTCCATGGTAATTACTACTAATTAATTAAATTTACTAGGCTCAT
1 TAATTCTTTCCATGGTAATTACTACTAATTAATTAAATTTACTAGGCTCAT
62392 TACAGTACCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.43
Consensus pattern (52 bp):
TAATTCTTTCCATGGTAATTACTACTAATTAATTAAATTTACTAGGCTCATG
Found at i:70258 original size:1 final size:1
Alignment explanation
Indices: 70252--70284 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
70242 GAGATATCTG
70252 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
70285 CAATTAGTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:70849 original size:12 final size:12
Alignment explanation
Indices: 70817--70850 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
70807 ATAATATAAT
70817 ATAATAATAACA
1 ATAATAATAACA
*
70829 ATAACAATAACA
1 ATAATAATAACA
*
70841 ATAGTAATAA
1 ATAATAATAA
70851 TAAAGGAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.65, C:0.09, G:0.03, T:0.24
Consensus pattern (12 bp):
ATAATAATAACA
Found at i:75122 original size:16 final size:16
Alignment explanation
Indices: 75101--75131 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
75091 CATCCCTTTC
75101 ACTCGATCCAACATGT
1 ACTCGATCCAACATGT
*
75117 ACTCGATCTAACATG
1 ACTCGATCCAACATG
75132 CATTGATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (16 bp):
ACTCGATCCAACATGT
Found at i:83127 original size:12 final size:12
Alignment explanation
Indices: 83110--83134 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
83100 AAAAATTTTG
83110 AGAAGAAGAACA
1 AGAAGAAGAACA
83122 AGAAGAAGAACA
1 AGAAGAAGAACA
83134 A
1 A
83135 TTGGACATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAGAAGAACA
Found at i:86277 original size:13 final size:12
Alignment explanation
Indices: 86261--86294 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
86251 CAAATTTTCC
86261 TTTGTGTTCTGTT
1 TTTG-GTTCTGTT
86274 TTTGGTTCCTGTT
1 TTTGGTT-CTGTT
86287 TTTGGTTC
1 TTTGGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.00, C:0.12, G:0.24, T:0.65
Consensus pattern (12 bp):
TTTGGTTCTGTT
Done.