Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01014708.1 Corchorus olitorius cultivar O-4 contig14741, 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: 75037
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:2364 original size:6 final size:7
Alignment explanation
Indices: 2352--2397 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 7
2342 CACTATACAC
2352 ATATAAT
1 ATATAAT
2359 -TATAAT
1 ATATAAT
2365 ATAT-AT
1 ATATAAT
2371 ATAT-AT
1 ATATAAT
2377 ATATATAT
1 ATATA-AT
2385 ATATATAT
1 ATATA-AT
2393 ATATA
1 ATATA
2398 TCTATTAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 18 0.50
7 3 0.08
8 15 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
ATATAAT
Found at i:2370 original size:2 final size:2
Alignment explanation
Indices: 2359--2398 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
2349 CACATATAAT
2359 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2399 CTATTAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4008 original size:11 final size:11
Alignment explanation
Indices: 3992--4026 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
3982 ATGTTACATG
3992 TTCTTTTCTTT
1 TTCTTTTCTTT
4003 TTCTTTTCTTT
1 TTCTTTTCTTT
*
4014 TCCCTTTTCTTT
1 T-TCTTTTCTTT
4026 T
1 T
4027 CAATCTCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
TTCTTTTCTTT
Found at i:4022 original size:12 final size:12
Alignment explanation
Indices: 3994--4027 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
3984 GTTACATGTT
*
3994 CTTTTCTTTT-T
1 CTTTTCTTTTCC
4005 CTTTTCTTTTCC
1 CTTTTCTTTTCC
4017 CTTTTCTTTTC
1 CTTTTCTTTTC
4028 AATCTCTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
CTTTTCTTTTCC
Found at i:4561 original size:12 final size:12
Alignment explanation
Indices: 4544--4568 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4534 TATTTAATAG
4544 AAAATGATATAT
1 AAAATGATATAT
4556 AAAATGATATAT
1 AAAATGATATAT
4568 A
1 A
4569 TATATATATA
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
AAAATGATATAT
Found at i:5152 original size:55 final size:55
Alignment explanation
Indices: 5078--5182 Score: 149
Period size: 55 Copynumber: 1.9 Consensus size: 55
5068 TTTACGTGTG
*
5078 AATGATTGATTTAGTGATTCATTG-GTTGTTTATAATTTTGGCATAATAAAAACAT
1 AATGATTGATTTAGTGATTCATTGACTT-TTTATAATTTTGGCATAATAAAAACAT
* * * *
5133 AATGGTTGTTTTAGTGATTCATTGACTTTTTTTAATTTTTGCATAATAAA
1 AATGATTGATTTAGTGATTCATTGACTTTTTATAATTTTGGCATAATAAA
5183 CTCACCAAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
55 42 0.95
56 2 0.05
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (55 bp):
AATGATTGATTTAGTGATTCATTGACTTTTTATAATTTTGGCATAATAAAAACAT
Found at i:9596 original size:72 final size:71
Alignment explanation
Indices: 9477--9711 Score: 386
Period size: 72 Copynumber: 3.3 Consensus size: 71
9467 TATTTAGTCA
*
9477 TTACTAAAAGTTGCAACTTCTTACTTTGGTAGGAGGGAGATATATGTAGATTTTCATTCCTAAAA
1 TTACTAAAAGTTGCAACTTCTTA-TTTGGCAGGAGGGAGATATATGTAGATTTTCATTCCTAAAA
9542 TTAAAAC
65 TTAAAAC
** *
9549 AAACTAAAAGTTGCAACTTCTTAATTTGGCAGGAGGGAGATATATGTAGATTTTCATTCCTTAAA
1 TTACTAAAAGTTGCAACTTCTT-ATTTGGCAGGAGGGAGATATATGTAGATTTTCATTCCTAAAA
9614 TTAAAAC
65 TTAAAAC
*
9621 TTACTAAAAGTTACAACTTC---TTTGGCAGGAGGGAGATATATGTAGATTTTCATTCCTAAAAT
1 TTACTAAAAGTTGCAACTTCTTATTTGGCAGGAGGGAGATATATGTAGATTTTCATTCCTAAAAT
9683 TAAAAC
66 TAAAAC
9689 TTACTAAAAGTTGCAACTTCTTA
1 TTACTAAAAGTTGCAACTTCTTA
9712 CTATAAAGAA
Statistics
Matches: 150, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
68 66 0.44
72 83 0.55
73 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (71 bp):
TTACTAAAAGTTGCAACTTCTTATTTGGCAGGAGGGAGATATATGTAGATTTTCATTCCTAAAAT
TAAAAC
Found at i:33676 original size:658 final size:655
Alignment explanation
Indices: 32005--34574 Score: 3585
Period size: 658 Copynumber: 3.9 Consensus size: 655
31995 AAATGTACAT
* * * * * * *
32005 CTAAAAACGTGTTTCGGGACCCGGGCTCAGTTTTGA-ATGATTTTAGGCAGAAAGACTCCTTAAA
1 CTAAAAACGCGTTTCGGGGCCCCGACTCAGTTTT-ACATGATTTTTGGCAAAAAGACTCCTTGAA
** * * * * *
32069 ATATCTATATTCATCTAATTAAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATC
65 ATATCTATATTCATCTAACCAAGTCTAAGCCACAATGGATTTAAGGATTTGTTGTTACGAGCATC
* * * *
32134 TGAATCTCGTTTCGA--T--TTAATTAGAAATAAATTCGGGGAAAAAAAGGGAAAACGATATTAG
130 TGAATCTTGTTTCGATTTAATTAATTAAAAATAAATTC--GAAAAAAAAGGAAAAACGATATTAG
* * * * *
32195 AAGCGTGAAAAACCCTTCAAAT-TTTTGGCGTTGAATTATATATTTTTTCTGAGTATTCTGCCAA
193 AAGTGTGAAAAACCCGTCAATTATTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAA
* * ** * * *
32259 A-ATATTGATG-AAAAACTTTTCAAGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC-CAT
258 AGA-ATTGAGGAAAAAAATTTTCGGGTCAGTTTTTGCAAAATTTTAGTCGAAATCGTTTACTCAT
* * ** ** * * * **
32321 CACGGTTTTTGGCTAAAAA-GTCGTTCTGAAGTGCCGACTCAATTTTGCAGGATTTTTGGCACAA
322 CACAGTTTTTGGCTAAAAACG-CGTTCCGGGGCCCCGACTTAGTTTTGCATGATTTTTGGCGTAA
** * *
32385 AGACTCCTTGAAATATCTATATTCATCGAA-TCAAATGTCAGCCACATTGGATATAAGGATTTGT
386 AGACTCCTTGAAATATCTATATTCATCGAACT-AAATCCCAGCCACATTGGATTTAACGATTTGT
* * * * *
32449 TTTTACGAGCATCTCAATCTTGTTTTGATTTAATTAGAAATTAATTCGGAAACAAATGGAAAAAC
450 TTTTACGAGCATCTGAATCTTGTTTCGAATTAAATAGAAATTAATTC-GAAAAAAATGGAAAAAC
* *
32514 GATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCA-TTGAATTATATATTTTTTCTAAATA
514 GATATTAGAAGCGTGAAAAACCCTTCAATCTTTTTGG-AGTTGAATTATATATTTTTTCTAAATA
* ** *
32578 ATTCGTAAAAAATTGAGAAAAAAAACTTTTCGGGTCAGTTTTTAACCGAAATCGTGTACTAACCA
578 TTTCACAAAAAATTGAGAAAAAAAACTTTTCGGGTCAGTTTTTAACCGAAATCGTGTACTTACCA
32643 TCACGATTTTCGG
643 TCACGATTTTCGG
* * * ** *
32656 CTAAAAACGCATTTCGGGGCCCCGACTCAGTTTTGCATGATTTTTGGTAGGAAGACTCTTTGAAA
1 CTAAAAACGCGTTTCGGGGCCCCGACTCAGTTTTACATGATTTTTGGCAAAAAGACTCCTTGAAA
*
32721 TATCTATATTCATCTAACCAAGTCTAAGCCACAATGGATTTAAGGATTTGTTGTTACGAGCATTT
66 TATCTATATTCATCTAACCAAGTCTAAGCCACAATGGATTTAAGGATTTGTTGTTACGAGCATCT
* *
32786 AAATCTTGGTTCGATTTAATTAATTAAAAATAAATTCG-AAAAAAAGG-AAAACGATATTAGAAG
131 GAATCTTGTTTCGATTTAATTAATTAAAAATAAATTCGAAAAAAAAGGAAAAACGATATTAGAAG
* * *
32849 TGTGAAAAACCCGTCAATTATTTTGGCGTTGAACTATATATTTTTTATGAGTATTGTGGAAAAGA
196 TGTGAAAAACCCGTCAATTATTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAGA
* *
32914 ATTGAGGGAAAAAATTTTCGGGTCAGTTTTTGCAAAATTTTAGTCGAAATCGTTTGCTCATCACA
261 ATTGAGGAAAAAAATTTTCGGGTCAGTTTTTGCAAAATTTTAGTCGAAATCGTTTACTCATCACA
32979 GTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGACTTAGTTTTGCATGATTTTTGGCGTAAAGACT
326 GTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGACTTAGTTTTGCATGATTTTTGGCGTAAAGACT
* *
33044 CTTTGAAATATCTATATTCATCGAACTAAATCCCAGTCACATTGGATTTAACGATTTGTTTTTAC
391 CCTTGAAATATCTATATTCATCGAACTAAATCCCAGCCACATTGGATTTAACGATTTGTTTTTAC
* * * *
33109 GAGCATCTGATTCTTGTTTCGAATTAAATAGAAATTAATTCGGGAAAAATTGGAAAAATGATATT
456 GAGCATCTGAATCTTGTTTCGAATTAAATAGAAATTAATTC-GAAAAAAATGGAAAAACGATATT
* *
33174 AGAGGCGTGAAAAACCCTTC-ATGCTTTTTAGAGTTGAATTATATATTTTTTCTAAATATTTCAC
520 AGAAGCGTGAAAAACCCTTCAAT-CTTTTTGGAGTTGAATTATATATTTTTTCTAAATATTTCAC
* * * *
33238 AAAAAATTGAGAAAAAAAAACTTTTCGGATCAGTTTTTAGCCGAAATCGTGTACGTTACCGTAAC
584 AAAAAATTGAG-AAAAAAAACTTTTCGGGTCAGTTTTTAACCGAAATCGTGTAC-TTACCATCAC
*
33303 GGTTTTCGG
647 GATTTTCGG
*
33312 CTAAAAACGCGTTTCGGGGTCCCGACTCAGTTTTACATGATTTTTGGCAAAAAGACTCCTTGAAA
1 CTAAAAACGCGTTTCGGGGCCCCGACTCAGTTTTACATGATTTTTGGCAAAAAGACTCCTTGAAA
* *
33377 TATCTATATTCATCTAACCAAGTCTAAGCCACAATGGATTTAATGATTTGTTGTTATGAGCATCT
66 TATCTATATTCATCTAACCAAGTCTAAGCCACAATGGATTTAAGGATTTGTTGTTACGAGCATCT
*
33442 GAATCTTGTTTCGATTTAATTATTTAAAAATAAATTCGAAAAAAAAGGAAAAACGATATTAGAAG
131 GAATCTTGTTTCGATTTAATTAATTAAAAATAAATTCGAAAAAAAAGGAAAAACGATATTAGAAG
33507 TGTGAAAAACCCGTCAATTATTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAGA
196 TGTGAAAAACCCGTCAATTATTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAGA
*
33572 ATTGAGGAAAAAAATTTTCGGGTCAGGTTTTGCAAAATTTTAGTCGAAATCGTTTACTCATCACA
261 ATTGAGGAAAAAAATTTTCGGGTCAGTTTTTGCAAAATTTTAGTCGAAATCGTTTACTCATCACA
* *
33637 GTTTTTGACTAAAAACGCGTTCC-GGGCCTCCGGCTTAGTTTTGCATGATTTTTGGCGTAAAGAC
326 GTTTTTGGCTAAAAACGCGTTCCGGGGCC-CCGACTTAGTTTTGCATGATTTTTGGCGTAAAGAC
* *
33701 TCCTTGAAATATCTATATTCATCGAACTAAATCCCAGTCACATCGGATTTAACGATTTGTTTTTA
390 TCCTTGAAATATCTATATTCATCGAACTAAATCCCAGCCACATTGGATTTAACGATTTGTTTTTA
* *
33766 CGAGCATTTGATTCTTGTTTCGAATTAAATAGAAATTAATTCGGAAAAAAATGGAAAAACGATAT
455 CGAGCATCTGAATCTTGTTTCGAATTAAATAGAAATTAATTC-GAAAAAAATGGAAAAACGATAT
* * *
33831 TAGAGGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTTCTAAATATTTCG
519 TAGAAGCGTGAAAAACCCTTCAATCTTTTTGGAGTTGAATTATATA-TTTTTTCTAAATATTTCA
*
33896 CAAAAAATTGAG-AAAAAAACTTTTCGGGTCAGTTTTTATCCGAAATCGTGTACATTA-CATCAC
583 CAAAAAATTGAGAAAAAAAACTTTTCGGGTCAGTTTTTAACCGAAATCGTGTAC-TTACCATCAC
*
33959 GATTTTCGA
647 GATTTTCGG
* * *
33968 CTAAAAACGCGTTTCGGGGCCCCGACTTAGTTTTGCATGATTTTTTGCAGAAAA-ACTCCTTGAA
1 CTAAAAACGCGTTTCGGGGCCCCGACTCAGTTTTACATGATTTTTGGCA-AAAAGACTCCTTGAA
* *
34032 ATATCTATATTCATCTAACCAAGTCTAAGCCACAATGTATTTAAGGATTTGTTGTTACGAGCATT
65 ATATCTATATTCATCTAACCAAGTCTAAGCCACAATGGATTTAAGGATTTGTTGTTACGAGCATC
* * * * *
34097 TGAATCTTGTTTCCATTTAATTAATTAGAAATAAATTCGAAAAAAAA--ACGATA--TTATTAGA
130 TGAATCTTGTTTCGATTTAATTAATTAAAAATAAATTCGAAAAAAAAGGA-AAAACGATATTAGA
*
34158 AGTGTGAAAAACCCGTCAATAATTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAA
194 AGTGTGAAAAACCCGTCAATTATTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAA
*
34223 GAATTGAGGAAAAAAA-ATTCGGGTCAGTTTTTGCAAAATTTTAGTCGAAATCGTTTACTCATTC
259 GAATTGAGGAAAAAAATTTTCGGGTCAGTTTTTGCAAAATTTTAGTCGAAATCGTTTACTCA-TC
* * *
34287 ACAGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGACTTAGTTTTACATGATTTTCGACGTAAAG
323 ACAGTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGACTTAGTTTTGCATGATTTTTGGCGTAAAG
* *
34352 ACTCCTTGAAATATCTATATTCATCGAATTAAATCCCAGCCACATTGGATTTAAGGATTTGTTTT
388 ACTCCTTGAAATATCTATATTCATCGAACTAAATCCCAGCCACATTGGATTTAACGATTTGTTTT
* * * *
34417 TACGAGCATCTGAATCTTATTTCG-ATTTAATAAGAAATAAATTCGAAAAAAATGGAAAAACGGT
453 TACGAGCATCTGAATCTTGTTTCGAATTAAAT-AGAAATTAATTCGAAAAAAATGGAAAAACGAT
* * * * * *
34481 ATTAGAATCATGAAAAAACCCTTCAAT-TTTTTTGACGTTAAATTATATATTTTTTCTGAGTATT
517 ATTAGAAGCGTG-AAAAACCCTTCAATCTTTTTGGA-GTTGAATTATATATTTTTTCTAAATATT
* *
34545 GTGACAAAAAATTGAG-GAAAAAA-TTTTCGG
580 -TCACAAAAAATTGAGAAAAAAAACTTTTCGG
34575 AAAAACAAAT
Statistics
Matches: 1733, Mismatches: 158, Indels: 55
0.89 0.08 0.03
Matches are distributed among these distances:
651 153 0.09
652 156 0.09
653 329 0.19
654 241 0.14
655 61 0.04
656 341 0.20
657 60 0.03
658 361 0.21
659 31 0.02
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (655 bp):
CTAAAAACGCGTTTCGGGGCCCCGACTCAGTTTTACATGATTTTTGGCAAAAAGACTCCTTGAAA
TATCTATATTCATCTAACCAAGTCTAAGCCACAATGGATTTAAGGATTTGTTGTTACGAGCATCT
GAATCTTGTTTCGATTTAATTAATTAAAAATAAATTCGAAAAAAAAGGAAAAACGATATTAGAAG
TGTGAAAAACCCGTCAATTATTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAGA
ATTGAGGAAAAAAATTTTCGGGTCAGTTTTTGCAAAATTTTAGTCGAAATCGTTTACTCATCACA
GTTTTTGGCTAAAAACGCGTTCCGGGGCCCCGACTTAGTTTTGCATGATTTTTGGCGTAAAGACT
CCTTGAAATATCTATATTCATCGAACTAAATCCCAGCCACATTGGATTTAACGATTTGTTTTTAC
GAGCATCTGAATCTTGTTTCGAATTAAATAGAAATTAATTCGAAAAAAATGGAAAAACGATATTA
GAAGCGTGAAAAACCCTTCAATCTTTTTGGAGTTGAATTATATATTTTTTCTAAATATTTCACAA
AAAATTGAGAAAAAAAACTTTTCGGGTCAGTTTTTAACCGAAATCGTGTACTTACCATCACGATT
TTCGG
Found at i:37428 original size:30 final size:29
Alignment explanation
Indices: 37369--37429 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
37359 ATGTAAAATC
*
37369 AATTTAATATATCTAACCTCCCTCAAAAAA
1 AATTTAATATATCTAA-CTCCCACAAAAAA
*
37399 AATTTAATATATCTAA-TCGCCACATAAAA
1 AATTTAATATATCTAACTC-CCACAAAAAA
37428 AA
1 AA
37430 GAATGCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 2 0.07
29 10 0.36
30 16 0.57
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.30
Consensus pattern (29 bp):
AATTTAATATATCTAACTCCCACAAAAAA
Found at i:40850 original size:2 final size:2
Alignment explanation
Indices: 40837--40867 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
40827 TTATTATAGA
*
40837 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
40868 ATAGGGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:44481 original size:15 final size:16
Alignment explanation
Indices: 44456--44485 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44446 AATAATTATT
44456 TTTAGATTATAATATA
1 TTTAGATTATAATATA
44472 TTTA-ATTATAATAT
1 TTTAGATTATAATAT
44486 TATTATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGATTATAATATA
Found at i:46152 original size:664 final size:657
Alignment explanation
Indices: 44837--48211 Score: 3291
Period size: 665 Copynumber: 5.1 Consensus size: 657
44827 ATACTTTACA
* * * * *
44837 TCATCTAACCAAATCTAAGCCAGATTGCATTTTAGAATTTGTTTTTACGAGCATCTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACATTGCACTTAAG-ATTTGTTTTTACGAGCATCTGAATCTTGT
* * * * *
44902 TTCGATTTAATTAGAAATTAATT-AAGAAAAAAT-AAGAAATGCGATATTAAAAGCGTGTAAGGC
65 TTCGATTTAATTAGAAATTAATTCAA-AAAATATGAA-AAA-ACGATATTAAAAGCGTGAAAAGT
* * * * * * *
44965 CCCCCAATCTTTTTTGGCGTTGAATTATACAT-TTTTATGAGTTTTTTAGCCAAAAATTGAGGAG
127 CCTCCAAT-ATTTTTGGCGTTAAATTATATATATTTTATGAGTATTTTAGCAAAAAATTGAGGAA
** * * * *
45029 AAA-TCATTCGTGTCAATTTTTGCAAAAATTT-AG-TCGAAATTGTGTACTAACTAACCATAACG
191 AAATTTTTTAG-GTCATTTTTTGC-AAAATTTAAGCT-GAAATCGTGTAC---CT----ATCACG
* * * * * * *
45091 GTTTTTGGCTAAAAATGCGTTCCGGAGACCC-GCTCAATTTTGCATGATGTTTGAC-TCCGAGAC
246 GTTTTTGGCTAAAAACGCGTTTCGGAGCCCCGGCTTAGTTTTGCATGATTTTTGGCGT-CGAGAC
* * * * * *
45154 -CACTTGAAATATCTATATTCATTTAATGAAATCTCAACCACATAGGATTTAAGGATTTACTTTT
310 TC-CTTGAAATATCTATATTCATCTAATAAAATCTCAGCCACATTGAATTTAAGGATTTATTTTT
* * * *
45218 ACGAGCATCTTAATCTTGTTTCGATTTAATTATAAATTAATTCGGAAAAA-ATAGAAAAAACGAT
374 ACGAGCATCTGAATCTTGTTTTGATTTAATTAGAAATTAATTCAGAAAAATAT-G-AAAAACGAT
* * * *
45282 ATTAGAAA-CGTCAAAAGCCCTTCAATCTTTTTGGCGTTGAAATATATAT-TTTTATGAGTATTT
437 ATTA-AAAGCGTGAAAAGTCCTTCAATCTTTTTGGCGTAGAATTATATATATTTTATGAGTATTT
* * * *
45345 TAGCCAAAAATTGA-GAAAATATTTTTCGGGCCCATTTTTTACAAAATTTTAACTGAAATCGTGT
501 TAGCCAAAAATTGAGGAAAA-ATTTTTCGGG-TCATTTTTTGCAAAATTTTAGCCGAAATCGTGT
* ** * * *
45409 AATAACCATCACAATTTTTGGCTAAAAAAGCGTTCCGGGGCCCCAGCTCAGTTTTGCATGATTTT
564 AATAATCATCACGGTTTTTGGCTAAAAACGCGTTCTGGGG-CCCGGCTCAGTTTTGCATGATTTT
* *
45474 TGGCGTCAAGACTCCTT-AAGATATCCATAT
628 TGGCGTCGAGACTCCTTGAA-ATATCTATAT
* * * * *
45504 TCATTTAATCAAATCTCAGCTACATTGGACTTAAGATTTTTTTTTACGAGCATCTGAATCTTATT
1 TCATCTAATCAAATCTCAGCCACATTGCACTTAAGATTTGTTTTTACGAGCATCTGAATCTTGTT
*
45569 TCGATTTAATTAGAAATTAATTCAAAAAATATGAAAAAACGATATTAAAAGCGTGAAAAGTCATC
66 TCGATTTAATTAGAAATTAATTCAAAAAATATGAAAAAACGATATTAAAAGCGTGAAAAGTCCTC
** * *
45634 CAATATTTTTGATGTTAAATTATATATATTTTATGAGTATTTTATCAAAAAAATGAGGAAAAATT
131 CAATATTTTTGGCGTTAAATTATATATATTTTATGAGTATTTTAGCAAAAAATTGAGGAAAAATT
* * ** *
45699 TTTTAGGTCATTTTTTTTTCAAAATTTTAGCCAAAATCGTGTACCTATCACGATTTTTTGGCTAA
196 TTTTAGGTCA--TTTTTTGCAAAATTTAAGCTGAAATCGTGTACCTATCACG-GTTTTTGGCTAA
* * * * * *
45764 AAACGCG-TTCGGTGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTTGAAACTCCTTGAAGTATT
258 AAACGCGTTTCGGAGCCCCGGCTTAGTTTTGCATGATTTTTGGCGTCGAGACTCCTTGAAATATC
* * * * * *
45828 TGTATTCATCTCATAAAATCTTATCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCTGAAT
323 TATATTCATCTAATAAAATCTCAGCCACATTGAATTTAAGGATTTATTTTTACGAGCATCTGAAT
* * *
45893 CTTGTTTTGATTTTTAATTTGAAATTAATTCTGAAAAAATATGAAAAACAATATTAAAAGCGTGA
388 CTTGTTTTGA--TTTAATTAGAAATTAATTCAG-AAAAATATGAAAAACGATATTAAAAGCGTGA
* * * * * *
45958 AAAATCCTTCAATCTTTTTTGGTGTAGAATTATATAT-TTCTTATGAGTATTGTGGCTAAAATTT
450 AAAGTCCTTCAATC-TTTTTGGCGTAGAATTATATATATT-TTATGAGTATTTTAGCCAAAAATT
* * * *
46022 GAGGAAATATCTTTT-AGGTCAATTTTTGCAAAATTTTAGCCGAAAATCGTATAATAATCATCAC
513 GAGGAAAAAT-TTTTCGGGTCATTTTTTGCAAAATTTTAGCCG-AAATCGTGTAATAATCATCAC
* * * **
46086 GGTTTTTGGCTAAAAACGTGTTCTGGGGCCCGGTTCAGTTTTGCATGATTTTTGCCACCGAGACT
576 GGTTTTTGGCTAAAAACGCGTTCTGGGGCCCGGCTCAGTTTTGCATGATTTTTGGCGTCGAGACT
46151 CCTT-AAAGTATCTATAT
641 CCTTGAAA-TATCTATAT
* * * *
46168 TTATCTAACCAAA--T----CACA----AC-T---A-TTGTTTTTACAAGCATCTGAATCATGTT
1 TCATCTAATCAAATCTCAGCCACATTGCACTTAAGATTTGTTTTTACGAGCATCTGAATCTTGTT
* * * * *
46218 TTGACTTAATTAGAAATTAGTTCGGAAAAAATA-GAAAAAACGATATTAAAACCGTGAAAAGCCC
66 TCGATTTAATTAGAAATTAATTC--AAAAAATATGAAAAAACGATATTAAAAGCGTGAAAAGTCC
* * * *
46282 TTCAATCTTTTTGGCGTTGAATTATAAATTTTTTATGAGTATTATGGCTAAACATTGAGGAAAAA
129 TCCAATATTTTTGGC---G---T-TAAA--TTATAT-A-TATT-T---T----A-TGA-G---TA
* * * ** * * * *
46347 TATTTCGCCAAAAATTGAGGAGAAATTTTTCGGGTCATTTTCTGCAAAATTTAAACTGGAATTGT
170 T-TTTAGCAAAAAATTGAGGAAAAATTTTTTAGGTCATTTTTTGCAAAATTTAAGCTGAAATCGT
* *
46412 GTACTAACAATCACGGTTTTTTGGCTAAAAACGCGTTTCGGAGCCTCGGCTTAGTTTTGCATGAT
234 GTAC---CTATCACGG-TTTTTGGCTAAAAACGCGTTTCGGAGCCCCGGCTTAGTTTTGCATGAT
* *
46477 TTTTGGCG-CTGAGACTCCTTGAAATATCTATATTCATCTAATCAAATCTCATCCACATTTGAAT
295 TTTTGGCGTC-GAGACTCCTTGAAATATCTATATTCATCTAATAAAATCTCAGCCACA-TTGAAT
* *
46541 TTAAGGATTTATTTTTACGAGCATCTAAATTTTGTTTTGATTTAATTAGAAATTAATTCAGAAAA
358 TTAAGGATTTATTTTTACGAGCATCTGAATCTTGTTTTGATTTAATTAGAAATTAATTCAGAAAA
* * *
46606 ATATGAAAAACGATATGAAAAGC-TCGAAAAGTCCTTCAACCTTTTTGGTGTTA-AATTATATAT
423 ATATGAAAAACGATATTAAAAGCGT-GAAAAGTCCTTCAATCTTTTTGGCG-TAGAATTATATAT
* *
46669 ATTTCATGAGTATTTTAGCCAAAAATTGAAGAAAAATTTTTCGGGTCATTTTTTGCAAAATTTTA
486 ATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAAATTTTTCGGGTCATTTTTTGCAAAATTTTA
* * * *
46734 GCCGAAATCGT-AAACTAACCATCACGGTTTTTTGCTAAAAACGAGTT-TCGGGGCTCCGGCTCA
551 GCCGAAATCGTGTAA-TAATCATCACGGTTTTTGGCTAAAAACGCGTTCT-GGGGC-CCGGCTCA
* *
46797 TTTTTGCATGATTTTTGGCGTTGAGACTCCTTGAAATATCTATAT
613 GTTTTGCATGATTTTTGGCGTCGAGACTCCTTGAAATATCTATAT
* * *
46842 TCATCTAATCAAATCTCAGCCACATTGCATTTAAGAATTTGTTTATACGAGCATCTGAATCTTAT
1 TCATCTAATCAAATCTCAGCCACATTGCACTTAAG-ATTTGTTTTTACGAGCATCTGAATCTTGT
* *
46907 TTCGATTTAATTAAAAATTAATTCAGAAAAATATAAAAAAAACGATATTAAAAGCGTGAAAAGTC
65 TTCGATTTAATTAGAAATTAATTCA-AAAAATAT-GAAAAAACGATATTAAAAGCGTGAAAAGTC
* * * * * *
46972 CTCCAATCTTTTTCGCGTTAAATTATATATATATTATGACTATTTTAGCCAAAAATTGAGG-AGA
128 CTCCAATATTTTTGGCGTTAAATTATATATATTTTATGAGTATTTTAGCAAAAAATTGAGGAAAA
** * * * *
47036 ATTTTTCGGGCCATTTTCTGCAAAATTTAAGTTGGAATCGTG----TATCACGGTTTTTGGCTAA
193 ATTTTTTAGGTCATTTTTTGCAAAATTTAAGCTGAAATCGTGTACCTATCACGGTTTTTGGCTAA
* * *
47097 AAACGCGTTTCGGGGCCCCGACTTAGTTTTGCATGATTTTTGGCGTCGAGACTCCTTGAGATATC
258 AAACGCGTTTCGGAGCCCCGGCTTAGTTTTGCATGATTTTTGGCGTCGAGACTCCTTGAAATATC
* * *
47162 TATACTCAT-TAA-AAAAACTCAGCCACATTTGAATTTAATGATTTATTTTTACGAGCATCT-AC
323 TATATTCATCTAATAAAATCTCAGCCACA-TTGAATTTAAGGATTTATTTTTACGAGCATCTGA-
* *
47224 ATCTTATTTTGATTTAATTAGAAATTAATTCAGAAAAATATGAAAGACGATATTAAAAGC-TCGA
386 ATCTTGTTTTGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGT-GA
*
47288 AAAGTCCTTCAA-CATTTTTGGCGTTA-AATTATATATATTTCATGAGTATTTTAGCCAAAAATT
450 AAAGTCCTTCAATC-TTTTTGGCG-TAGAATTATATATATTTTATGAGTATTTTAGCCAAAAATT
* *
47351 GAAGAAAAATTTTTCGGGTCATTTTTTTGCAAAATTTTAGCCGAAATCGTGT-AT-GT--TCACG
513 GAGGAAAAATTTTTCGGGTCA-TTTTTTGCAAAATTTTAGCCGAAATCGTGTAATAATCATCACG
* *
47412 GTCTTTT-GCTAAAAACGCGTT-TCAGGGCTCCGACTCAGTTTTGCATGATTTTTGGCGTCGAGA
577 GT-TTTTGGCTAAAAACGCGTTCT-GGGGC-CCGGCTCAGTTTTGCATGATTTTTGGCGTCGAGA
47475 CTCCTTGAAATATCTATAT
639 CTCCTTGAAATATCTATAT
* * * * * *
47494 TCATCTAATTAAATATCAGCCACATTGCATTTAAGGATTTGTTTATAGGAGCATTTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACATTGCACTTAA-GATTTGTTTTTACGAGCATCTGAATCTTGT
47559 TTCGATTTAATTAGAAATTAATTCAGAAAAATATG-AAAAACGATATTAAAAGCGTGAAAAGTCC
65 TTCGATTTAATTAGAAATTAATTCA-AAAAATATGAAAAAACGATATTAAAAGCGTGAAAAGTCC
*
47623 TCCAATATTTTTGGCGTTAAATTATATATATATATATATATTATGAGTATTTTAGCTAAAAATTT
129 TCCAATATTTTTGGCGTT--A--A-AT-TATATATAT-T-TTATGAGTATTTTAGC-AAAAAATT
* * * * * * **
47688 TA-TAAAGATTTTTTCGGGTCATTTTTAGCAAAATTTAAGCTGAAATCTAGTATTAATTATCACG
185 GAGGAAAAATTTTTT-AGGTCATTTTTTGCAAAATTTAAGCTGAAATC--GT-GTACCTATCACG
* * * *
47752 GTTTTTGGCTAAAAACACGTTTCGGGGCCTCGGCTTAGTTTTGCATGATTTCTGGCGTCGAGACT
246 GTTTTTGGCTAAAAACGCGTTTCGGAGCCCCGGCTTAGTTTTGCATGATTTTTGGCGTCGAGACT
* * * * * *
47817 CC----AATATCTATATTCATCTAATCAAATCTCAGCTACATTGCATTTAAGAATTTGTTTATAC
311 CCTTGAAATATCTATATTCATCTAATAAAATCTCAGCCACATTGAATTTAAGGATTTATTTTTAC
* * *
47878 GAACATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAATATAAAAAACGATATTA
376 GAGCATCTGAATCTTGTTTTGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTA
* * * * * * *
47943 AAAACGTGAAAAGTCCTCCAATCTTTTCGGAGTTGAATTATATATATTTTATGAGTATTTTGGCT
441 AAAGCGTGAAAAGTCCTTCAATCTTTTTGGCGTAGAATTATATATATTTTATGAGTATTTTAGCC
* * * * * *
48008 AAAAATTGAGGAAAAATATATCGGGTC-TATTTTTGTAAAATTTTAGTCGAAATCGCGT-ACAAT
506 AAAAATTGAGGAAAAATTTTTCGGGTCAT-TTTTTGCAAAATTTTAGCCGAAATCGTGTAATAAT
*** * * ** * * * *
48071 CA-CAATTTTTTTGACTAAAAACGCGTTCCGGGGTCCTTGTTCAGTTTTGCATGATTTTTTGTGG
570 CATCACGGTTTTTGGCTAAAAACGCGTTCTGGGG-CCCGGCTCAGTTTTGCATGATTTTTGGCGT
* * * *
48135 CAAAACTCCTTTAAATATCTATAG
634 CGAGACTCCTTGAAATATCTATAT
* * *
48159 TCATCTAATCTAATCTTAGCCACATT-CAATTTAAGAATTTGTTTTTACGAGCA
1 TCATCTAATCAAATCTCAGCCACATTGC-ACTTAAG-ATTTGTTTTTACGAGCA
48212 GTAGAGCAAG
Statistics
Matches: 2280, Mismatches: 304, Indels: 250
0.80 0.11 0.09
Matches are distributed among these distances:
649 44 0.02
650 85 0.04
651 8 0.00
652 169 0.07
653 7 0.00
654 5 0.00
655 188 0.08
656 42 0.02
657 82 0.04
658 26 0.01
659 19 0.01
660 41 0.02
661 118 0.05
662 10 0.00
663 88 0.04
664 283 0.12
665 288 0.13
666 96 0.04
667 121 0.05
669 1 0.00
670 3 0.00
671 4 0.00
672 4 0.00
673 69 0.03
674 128 0.06
675 74 0.03
676 46 0.02
677 74 0.03
678 42 0.02
679 1 0.00
680 7 0.00
681 1 0.00
682 5 0.00
684 5 0.00
685 2 0.00
688 2 0.00
689 8 0.00
690 43 0.02
691 41 0.02
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (657 bp):
TCATCTAATCAAATCTCAGCCACATTGCACTTAAGATTTGTTTTTACGAGCATCTGAATCTTGTT
TCGATTTAATTAGAAATTAATTCAAAAAATATGAAAAAACGATATTAAAAGCGTGAAAAGTCCTC
CAATATTTTTGGCGTTAAATTATATATATTTTATGAGTATTTTAGCAAAAAATTGAGGAAAAATT
TTTTAGGTCATTTTTTGCAAAATTTAAGCTGAAATCGTGTACCTATCACGGTTTTTGGCTAAAAA
CGCGTTTCGGAGCCCCGGCTTAGTTTTGCATGATTTTTGGCGTCGAGACTCCTTGAAATATCTAT
ATTCATCTAATAAAATCTCAGCCACATTGAATTTAAGGATTTATTTTTACGAGCATCTGAATCTT
GTTTTGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTC
CTTCAATCTTTTTGGCGTAGAATTATATATATTTTATGAGTATTTTAGCCAAAAATTGAGGAAAA
ATTTTTCGGGTCATTTTTTGCAAAATTTTAGCCGAAATCGTGTAATAATCATCACGGTTTTTGGC
TAAAAACGCGTTCTGGGGCCCGGCTCAGTTTTGCATGATTTTTGGCGTCGAGACTCCTTGAAATA
TCTATAT
Found at i:47876 original size:336 final size:329
Alignment explanation
Indices: 44837--48211 Score: 2781
Period size: 332 Copynumber: 10.2 Consensus size: 329
44827 ATACTTTACA
* * * * * *
44837 TCATCTAACCAAATCTAAGCCAGATTGCATTTTAGAATTTGTTTTTACGAGCATCTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTTTATACGAGCATCTGAATCTTGT
* * ** * * *
44902 TTCGATTTAATTAGAAATTAATTAAGAAAAAATAAGAAATGCGATATTAAAAGCGTGTAAGGCCC
66 TTCGATTTAATTAGAAATTAATTCAG-AAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCC
** * * *
44967 CCCAATCTTTTTTGGCG-T-TGAAT-TATACAT-TTTTATGAGTTTTTTAGCCAAAAA-TTGAGG
130 TTCAATC-TTTTTGGCGTTATTAATATATATATATTTTATGAGTATTTTAGCCAAAAATTTGA-G
* ** * * * *
45027 AGAAATCATTCGTGTCAATTTTTGCAAAAATTT-AGTCGAAATTGTGTACTAACTAACCATAACG
193 AAAAATTTTTCGGGTC-ATTTTTGC-AAAATTTAAGCCGAAATCGTGTA-TAACT----ATCACG
** * * * * *
45091 GTTTTTGGCTAAAAATGCGTTCCGGAGACC-C-GCTCAATTTTGCATGATGTTTGAC-TCCGAGA
251 GTTTTTGGCTAAAAACACGTTTCGG-GGCCTCGGCTCAGTTTTGCATGATTTTTGGCGT-CGAGA
45153 C-CACTTGAAATATCTATAT
314 CTC-C-T--AATATCTATAT
* * * * * * *
45172 TCATTTAATGAAATCTCAACCACATAGGATTTAAGGATTTACTTT-TACGAGCATCTTAATCTTG
1 TCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTT-GTTTATACGAGCATCTGAATCTTG
* * *
45236 TTTCGATTTAATTATAAATTAATTCGGAAAAA-ATAGAAAAAACGATATTAGAAA-CGTCAAAAG
65 TTTCGATTTAATTAGAAATTAATTCAGAAAAATAT-G-AAAAACGATATTA-AAAGCGTGAAAAG
* *
45299 CCCTTCAATCTTTTTGGCG-T-TGAA-ATATATAT-TTTTATGAGTATTTTAGCCAAAAA-TTGA
127 TCCTTCAATCTTTTTGGCGTTATTAATATATATATATTTTATGAGTATTTTAGCCAAAAATTTGA
* * * * **
45359 GAAAATATTTTTCGGGCCCATTTTTTACAAAATTTTAA-CTGAAATCGTGTAATAACCATCACAA
192 GAAAA-ATTTTTCGGG-TCA-TTTTTGCAAAA-TTTAAGCCGAAATCGTGT-ATAACTATCACGG
* * * *
45423 TTTTTGGCTAAAAA-AGCGTTCCGGGGCCCCAGCTCAGTTTTGCATGATTTTTGGCGTCAAGACT
252 TTTTTGGCTAAAAACA-CGTTTCGGGGCCTCGGCTCAGTTTTGCATGATTTTTGGCGTCGAGACT
*
45487 CCTTAAGATATCCATAT
316 CC-T-A-ATATCTATAT
* * * * * * *
45504 TCATTTAATCAAATCTCAGCTACATTGGACTTAA-GATTTTTTTTTACGAGCATCTGAATCTTAT
1 TCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTTTATACGAGCATCTGAATCTTGT
*
45568 TTCGATTTAATTAGAAATTAATTCA-AAAAATATGAAAAAACGATATTAAAAGCGTGAAAAGTCA
66 TTCGATTTAATTAGAAATTAATTCAGAAAAATATG-AAAAACGATATTAAAAGCGTGAAAAGTCC
* * ** * **
45632 TCCAATATTTTTGATGTTA--AAT-TATATATATTTTATGAGTATTTTA-TCAAAAAAATGAGGA
130 TTCAATCTTTTTGGCGTTATTAATATATATATATTTTATGAGTATTTTAGCCAAAAATTTGA-GA
** * * * * *
45693 AAAATTTTTTAGGTCATTTTTTTTTCAAAATTTTAGCCAAAATCGTG--TACCTATCACGATTTT
194 AAAATTTTTCGGGTCA---TTTTTGCAAAATTTAAGCCGAAATCGTGTATAACTATCACG-GTTT
* * * * *
45756 TTGGCTAAAAACGCG-TTCGGTGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTTGAAACTCCTT
255 TTGGCTAAAAACACGTTTCGGGGCCTCGGCTCAGTTTTGCATGATTTTTGGCGTCGAGACTCC-T
* *
45820 GAAGTATTTGTAT
319 -AA-TATCTATAT
* * * * *
45833 TCATCTCATAAAATCTTATCCACATTGCATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTTTATACGAGCATCTGAATCTTGT
* * * * *
45898 TTTGATTTTTAATTTGAAATTAATTCTGAAAAAATATGAAAAACAATATTAAAAGCGTGAAAAAT
66 TTCGA--TTTAATTAGAAATTAATTCAG-AAAAATATGAAAAACGATATTAAAAGCGTGAAAAGT
* * * * *
45963 CCTTCAATCTTTTTTG-GTGTA-GAAT-TATATAT-TTCTTATGAGTATTGT-GGCTAAAATTTG
128 CCTTCAATCTTTTTGGCGT-TATTAATATATATATATT-TTATGAGTATTTTAGCCAAAAATTTG
* * * *
46023 AGGAAATATCTTTT-AGGTCAATTTTTGCAAAATTTTAGCCGAAAATCGTATAATAA-TCATCAC
191 A-GAAAAAT-TTTTCGGGTC-ATTTTTGCAAAATTTAAGCCG-AAATCGTGT-ATAACT-ATCAC
* * **
46086 GGTTTTTGGCT-AAAA-ACGTGTTCTGGGGCC-CGGTTCAGTTTTGCATGATTTTTGCCACCGAG
250 GGTTTTTGGCTAAAAACACGT-TTC-GGGGCCTCGGCTCAGTTTTGCATGATTTTTGGCGTCGAG
46148 ACTCCTTAAAGTATCTATAT
313 ACTCC-T-AA-TATCTATAT
* * * * *
46168 TTATCTAACCAAA--TCA--CA-A---C---T----A-TTGTTTTTACAAGCATCTGAATCATGT
1 TCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTTTATACGAGCATCTGAATCTTGT
* * * * * *
46217 TTTGACTTAATTAGAAATTAGTTCGGAAAAA-ATAGAAAAAACGATATTAAAACCGTGAAAAGCC
66 TTCGATTTAATTAGAAATTAATTCAGAAAAATAT-G-AAAAACGATATTAAAAGCGTGAAAAGTC
* * *
46281 CTTCAATCTTTTTGGCGTTGAATTATAAATTTTTTATGAGTATTATGGCTAAACATTGAGGAAAA
129 CTTCAATCTTTTTGGCGTT--A-T-T-AA-TATATAT-A-TATT-T---T----A-TGA-G---T
* * * * * *
46346 ATATTTCGCCAAAAA-TTGAGGAGAAATTTTTCGGGTCATTTTCTGCAAAATTTAAACTGGAATT
173 AT-TTTAGCCAAAAATTTGA-GAAAAATTTTTCGGGTCATTTT-TGCAAAATTTAAGCCGAAATC
* * * *
46410 GTGTACTAACAATCACGGTTTTTTGGCTAAAAACGCGTTTCGGAGCCTCGGCTTAGTTTTGCATG
235 GTGTA-TAACTATCACGG-TTTTTGGCTAAAAACACGTTTCGGGGCCTCGGCTCAGTTTTGCATG
46475 ATTTTTGGCG-CTGAGACTCCTTGAAATATCTATAT
298 ATTTTTGGCGTC-GAGACTCC-T--AATATCTATAT
* * * * * *
46510 TCATCTAATCAAATCTCATCCACATTTGAATTTAAGGATTTATTTTTACGAGCATCTAAATTTTG
1 TCATCTAATCAAATCTCAGCCACA-TTGCATTTAAGGATTTGTTTATACGAGCATCTGAATCTTG
* *
46575 TTTTGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATGAAAAGC-TCGAAAAGTC
65 TTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGT-GAAAAGTC
* * *
46639 CTTCAACCTTTTTGGTGTTA--AAT-TATATATATTTCATGAGTATTTTAGCCAAAAA-TTGAAG
129 CTTCAATCTTTTTGGCGTTATTAATATATATATATTTTATGAGTATTTTAGCCAAAAATTTG-AG
* ** *
46700 AAAAATTTTTCGGGTCATTTTTTGCAAAATTTTAGCCGAAATCGTAAACTAACCATCACGGTTTT
193 AAAAATTTTTCGGGTCA-TTTTTGCAAAATTTAAGCCGAAATCGTGTA-TAACTATCACGGTTTT
* * *
46765 TTGCTAAAAACGA-GTTTCGGGG-CTCCGGCTCATTTTTGCATGATTTTTGGCGTTGAGACTCCT
256 TGGCTAAAAAC-ACGTTTCGGGGCCT-CGGCTCAGTTTTGCATGATTTTTGGCGTCGAGACTCC-
46828 TGAAATATCTATAT
318 T--AATATCTATAT
* *
46842 TCATCTAATCAAATCTCAGCCACATTGCATTTAAGAATTTGTTTATACGAGCATCTGAATCTTAT
1 TCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTTTATACGAGCATCTGAATCTTGT
* *
46907 TTCGATTTAATTAAAAATTAATTCAGAAAAATATAAAAAAAACGATATTAAAAGCGTGAAAAGTC
66 TTCGATTTAATTAGAAATTAATTCAGAAAAATAT--GAAAAACGATATTAAAAGCGTGAAAAGTC
* * * * *
46972 CTCCAATCTTTTTCGCGTTA--AAT-TATATATATATTATGACTATTTTAGCCAAAAA-TTGAGG
129 CTTCAATCTTTTTGGCGTTATTAATATATATATATTTTATGAGTATTTTAGCCAAAAATTTGAGA
* * ** *
47033 AGAATTTTTCGGGCCATTTTCTGCAAAATTTAAGTTGGAATCGTG------TATCACGGTTTTTG
194 AAAATTTTTCGGGTCATTTT-TGCAAAATTTAAGCCGAAATCGTGTATAACTATCACGGTTTTTG
* * * *
47092 GCTAAAAACGCGTTTCGGGGCCCCGACTTAGTTTTGCATGATTTTTGGCGTCGAGACTCCTTGAG
258 GCTAAAAACACGTTTCGGGGCCTCGGCTCAGTTTTGCATGATTTTTGGCGTCGAGACTCC-T-A-
*
47157 ATATCTATAC
320 ATATCTATAT
* * * * * *
47167 TCAT-TAA-AAAAACTCAGCCACATTTGAATTTAATGATTTATTTTTACGAGCATCT-ACATCTT
1 TCATCTAATCAAATCTCAGCCACA-TTGCATTTAAGGATTTGTTTATACGAGCATCTGA-ATCTT
* * *
47229 ATTTTGATTTAATTAGAAATTAATTCAGAAAAATATGAAAGACGATATTAAAAGC-TCGAAAAGT
64 GTTTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGT-GAAAAGT
*
47293 CCTTCAA-CATTTTTGGCGTTA--AAT-TATATATATTTCATGAGTATTTTAGCCAAAAA-TTGA
128 CCTTCAATC-TTTTTGGCGTTATTAATATATATATATTTTATGAGTATTTTAGCCAAAAATTTG-
* *
47353 AGAAAAATTTTTCGGGTCATTTTTTTGCAAAATTTTAGCCGAAATCGTGTAT--GT-TCACGGTC
191 AGAAAAATTTTTCGGGTCA--TTTTTGCAAAATTTAAGCCGAAATCGTGTATAACTATCACGGT-
* * *
47415 TTTT-GCTAAAAACGCGTTTCAGGG-CTCCGACTCAGTTTTGCATGATTTTTGGCGTCGAGACTC
253 TTTTGGCTAAAAACACGTTTCGGGGCCT-CGGCTCAGTTTTGCATGATTTTTGGCGTCGAGACTC
47478 CTTGAAATATCTATAT
317 C-T--AATATCTATAT
* * * *
47494 TCATCTAATTAAATATCAGCCACATTGCATTTAAGGATTTGTTTATAGGAGCATTTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTTTATACGAGCATCTGAATCTTGT
47559 TTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCT
66 TTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCT
* * * *
47624 CCAATATTTTTGGCGTTAAATTATATATATATATATATATTATGAGTATTTTAGCTAAAAATTTT
131 TCAATCTTTTTGGCGTT--ATTA-ATATATATATAT-T-TTATGAGTATTTTAGCCAAAAATTTG
* * * *
47689 ATAAAGATTTTTTCGGGTCATTTTTAGCAAAATTTAAGCTGAAATC-TAGTATTAATTATCACGG
191 AGAAA-AATTTTTCGGGTCATTTTT-GCAAAATTTAAGCCGAAATCGT-GTA-TAACTATCACGG
* *
47753 TTTTTGGCTAAAAACACGTTTCGGGGCCTCGGCTTAGTTTTGCATGATTTCTGGCGTCGAGACTC
252 TTTTTGGCTAAAAACACGTTTCGGGGCCTCGGCTCAGTTTTGCATGATTTTTGGCGTCGAGACTC
47818 C-AATATCTATAT
317 CTAATATCTATAT
* * *
47830 TCATCTAATCAAATCTCAGCTACATTGCATTTAAGAATTTGTTTATACGAACATCTGAATCTTGT
1 TCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTTTATACGAGCATCTGAATCTTGT
* *
47895 TTCGATTTAATTAGAAATTAATTCAGAAAAATATAAAAAACGATATTAAAAACGTGAAAAGTCCT
66 TTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCT
* * * * * *
47960 CCAATCTTTTCGGAG-T-TGAAT-TATATATATTTTATGAGTATTTTGGCTAAAAA-TTGAGGAA
131 TCAATCTTTTTGGCGTTATTAATATATATATATTTTATGAGTATTTTAGCCAAAAATTTGA-GAA
* * * * * * * ***
48021 AAATATATCGGGTCTATTTTTGTAAAATTTTAGTCGAAATCGCGTACAA-TCA-CAATTTTTTTG
195 AAATTTTTCGGGTC-ATTTTTGCAAAATTTAAGCCGAAATCGTGTATAACT-ATCACGGTTTTTG
* * * * * * * * * *
48084 ACTAAAAACGCGTTCCGGGGTCCT-TGTTCAGTTTTGCATGATTTTTTGTGGCAAAACTCCTTTA
258 GCTAAAAACACGTTTCGGGG-CCTCGGCTCAGTTTTGCATGATTTTTGGCGTCGAGACTCC--T-
*
48148 AATATCTATAG
319 AATATCTATAT
* * * *
48159 TCATCTAATCTAATCTTAGCCACATT-CAATTTAAGAATTTGTTTTTACGAGCA
1 TCATCTAATCAAATCTCAGCCACATTGC-ATTTAAGGATTTGTTTATACGAGCA
48212 GTAGAGCAAG
Statistics
Matches: 2533, Mismatches: 340, Indels: 340
0.79 0.11 0.11
Matches are distributed among these distances:
315 2 0.00
316 6 0.00
317 56 0.02
318 2 0.00
319 31 0.01
320 1 0.00
321 2 0.00
322 76 0.03
323 32 0.01
324 92 0.04
325 139 0.05
326 9 0.00
327 111 0.04
328 151 0.06
329 158 0.06
330 123 0.05
331 186 0.07
332 261 0.10
333 198 0.08
334 137 0.05
335 199 0.08
336 213 0.08
337 18 0.01
338 3 0.00
339 7 0.00
340 86 0.03
341 46 0.02
342 66 0.03
343 6 0.00
344 3 0.00
346 3 0.00
347 5 0.00
348 1 0.00
349 4 0.00
350 1 0.00
351 2 0.00
354 1 0.00
356 1 0.00
357 1 0.00
358 41 0.02
359 51 0.02
360 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (329 bp):
TCATCTAATCAAATCTCAGCCACATTGCATTTAAGGATTTGTTTATACGAGCATCTGAATCTTGT
TTCGATTTAATTAGAAATTAATTCAGAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCT
TCAATCTTTTTGGCGTTATTAATATATATATATTTTATGAGTATTTTAGCCAAAAATTTGAGAAA
AATTTTTCGGGTCATTTTTGCAAAATTTAAGCCGAAATCGTGTATAACTATCACGGTTTTTGGCT
AAAAACACGTTTCGGGGCCTCGGCTCAGTTTTGCATGATTTTTGGCGTCGAGACTCCTAATATCT
ATAT
Found at i:52838 original size:27 final size:27
Alignment explanation
Indices: 52802--52859 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
52792 TTTTTAATAA
* *
52802 TTATTCTTTTTAG-TCATTTAACTTTT
1 TTATTTTTTTTAGATCATTCAACTTTT
*
52828 TTATTTTTTTTAGATGATTCAACTTTT
1 TTATTTTTTTTAGATCATTCAACTTTT
52855 TTATT
1 TTATT
52860 AATTATGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 12 0.43
27 16 0.57
ACGTcount: A:0.21, C:0.09, G:0.05, T:0.66
Consensus pattern (27 bp):
TTATTTTTTTTAGATCATTCAACTTTT
Found at i:54900 original size:334 final size:335
Alignment explanation
Indices: 54411--55070 Score: 823
Period size: 334 Copynumber: 2.0 Consensus size: 335
54401 TCGTGTCAGT
* * * *
54411 TTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTGAAAACGCGTTCCGGGGTCTCCAC
1 TTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCATTCCGGAGTCACCAC
* * * *
54476 TTAGTTTTGCATGGTTTTTGGCATACAGACTCCTTGAAAAATCTATATTCATGTAACCAAATCTC
66 TCAATTTTACATGATTTTTGGCATACAGACTCCTTGAAAAATCTATATTCATGTAACCAAATCTC
* * * * *
54541 AACGAAATTGGATTTAAGGATTTGTTTTTATGAG-TATCTGAATCTTGTTTTGATTTTATAAGAA
131 AACGAAATTAGATTTAAAGATTTGTTTTTACGAGAT-TCTGAATCTTGTTTCGATTTAATAAGAA
* * * * *
54605 ATAAATTCAGGAAAAAAAAAGAAAAACGATATTAGAAG-CGTGAAAAACCCTTCAATTTTTTTGG
195 ATAAATT-AGGAAAAAAAAAGAAAAACAATATTAGAAGTC-CGAAAAACCCGTCAATCTTTTCGG
* * * * *
54669 CGTTGAATTATATATTTTTT-TGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGATCAGT
258 CGTTAAATTATATATTTTTTATGAGTATTATAGCAAAAAATTGAGAAAAAAATTTTCGGATCAGT
54733 TTTTTTGGCAAAA
323 TTTTTTGGCAAAA
* * * * **
54746 TTTTAGCTGAAATCGTGTACTAACCATCA-TGTTTTTGTCTAAAAATGCATTCCGGAGTCACGGC
1 TTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCATTCCGGAGTCACCAC
*
54810 TCAATTTTACATGATTTTTGGTGCA-A-AGACTCCTTGAAATATCTATATTCATCG-AACCAAAT
66 TCAATTTTACATGATTTTT-G-GCATACAGACTCCTTGAAAAATCTATATTCAT-GTAACCAAAT
* * *
54872 CTCAGAC-ACATTAGATTTAAAGATTTGTTTTTACGAGATTCTGAATTTTGTTTCGATTTAATTA
128 CTCA-ACGAAATTAGATTTAAAGATTTGTTTTTACGAGATTCTGAATCTTGTTTCGATTTAATAA
* * ** * *
54936 GAAATTAATTTGGAAAAAAATGGAAAACCAATATTAGAAGTCCGAAAAGCCCGTCAATCTTTTCG
192 GAAATAAATTAGGAAAAAAAAAGAAAAACAATATTAGAAGTCCGAAAAACCCGTCAATCTTTTCG
* * *
55001 GTGTTAAATTATATATTTTTTATGAGTATTATAGCAAAAAATTGAGAAAAAAATTTTCGGGTTAG
257 GCGTTAAATTATATATTTTTTATGAGTATTATAGCAAAAAATTGAGAAAAAAATTTTCGGATCAG
55066 TTTTT
322 TTTTT
55071 AGCCGAAAAC
Statistics
Matches: 276, Mismatches: 42, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
333 62 0.22
334 177 0.64
335 34 0.12
336 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (335 bp):
TTTTAGCCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAACGCATTCCGGAGTCACCAC
TCAATTTTACATGATTTTTGGCATACAGACTCCTTGAAAAATCTATATTCATGTAACCAAATCTC
AACGAAATTAGATTTAAAGATTTGTTTTTACGAGATTCTGAATCTTGTTTCGATTTAATAAGAAA
TAAATTAGGAAAAAAAAAGAAAAACAATATTAGAAGTCCGAAAAACCCGTCAATCTTTTCGGCGT
TAAATTATATATTTTTTATGAGTATTATAGCAAAAAATTGAGAAAAAAATTTTCGGATCAGTTTT
TTTGGCAAAA
Found at i:56612 original size:321 final size:322
Alignment explanation
Indices: 55686--58135 Score: 1159
Period size: 321 Copynumber: 7.4 Consensus size: 322
55676 GTCCGGTTCT
* ** * * * * *
55686 GAAAACAATGATTAGAAGCGTGAAAA-ATTATTCAATTTTTTTGGTGTTGAGTTATGTATTTTTT
1 GAAAACGAT-ATTAGAAGCGTGAAAAGCCT-GTCAATCTTTTTGGCGTTGAATTATATATTTTTT
* * * * * * * *
55750 TTTAGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTCAGTTTTTTGAAATTTTAACCGAA
64 CTGAATATTGTGGCAAAAAATTGAGAAAAAACTTTTCAGG--A------TCAATTTTTAGCCG-A
* * * * *
55815 AATCGTGCACTAACCATCACGGTTTTTTTTTTTGCTAAAAACACGTTTCGAGGCCCCGGCTTAGT
120 AATCGTGTACTAACCATCACGG-----TTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGT
* * ** **
55880 TTTGCATGATCTTAGGTAGAACA-ACTCCTTGAAATATCTATATTCATCTAATTAAATCTCAGCC
180 TTTGCATGATTTTTGGCGGAA-AGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCC
* * * * * * **
55944 ACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCATGTTTTGATTTTA-TAAAAAAAAA
244 ACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
*
56008 TTCGCGGAAAAAA-AG
309 TT--CGGAAAAAATTG
* * * * *
56023 AAAAACGATATTAGAAGCGTGAAAAACACT-TCAATTTTTTTGGTGTTGAATTATAT-TTTTTTA
1 GAAAACGATATTAGAAGCGTGAAAAGC-CTGTCAATCTTTTTGGCGTTGAATTATATATTTTTTC
* * * * *
56086 TGAGTATTCTGGCAAAAAAATTGAGGAAAAACTTTTCGGGTCAATTTTTGCAAAATTTTAGCCGA
65 TGAATATTGTGGC-AAAAAATTGAGAAAAAACTTTTCAGG---A----T-C-AATTTTTAGCCGA
* * * * * ** * *
56151 AATCGTGTACTAACCATTACGGTTTTTGGCTAAAAACACGTTCCAGAGTGCCGGGTCAATTTTGC
120 AATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGC
* * * * * * *
56216 AAGATTTTTGGCGCAAAGACTCCTTGAATTATCAATATTCAT-TGAATCAAATGTCAGGCA-AAT
185 ATGATTTTTGGCGGAAAGACTCCTTGAAATATCTATATTCATCT-AACCAAATCTCAGCCACAA-
* * * * *
56279 TGGATATAAGGATTTGTATGTACGAGCATCTCAATCTTGTTTTGATTTAATTAGAAATTAATTC-
248 TGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCG
56343 GAAAACAATTG
313 GAAAA-AATTG
* * *
56354 GAAAACGATATTAGAAGCGTGAACAGCCTGTCTATCTTTTTGGCATTGAATTATATATATTTTT-
1 GAAAACGATATTAGAAGCGTGAAAAGCCTGTCAATCTTTTTGGCGTTGAATTATATAT-TTTTTC
* * *
56418 TAAATATT-TCGCAAAAAATTGAGAAAAAAACTTTTC-GGATCAGTTTTTAGCCGAAATCGTGTA
65 TGAATATTGTGGCAAAAAATTGAG-AAAAAACTTTTCAGGATCAATTTTTAGCCGAAATCGTGTA
* *
56481 CTAACCATCACGGTTTTCGGCTAAAAACGCGTTTCGGGGCCCCGACTCAGTTTTGCATGATTTTT
129 CTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTT
* * *
56546 GGTGGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTAAGCCACAATAGATTTAAGG
194 GGCGGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTAAGG
* *
56611 ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTATTTAACTAGAAATAAATTCGGAAAAAA
259 ATTTGTTTTTACGAGCATCTGAATCTTGTTTCG----ATTTAATTAGAAATTAATTCGGAAAAAA
56676 ---
320 TTG
* * * *
56676 -AAAACGATATTAGAAGTGTGAAAAACCTGTCAATTTTTTTGGCATTGAA-T-TATATTTTTT-T
1 GAAAACGATATTAGAAGCGTGAAAAGCCTGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCT
* * * * *
56737 -AGTATTGTGGCAAAGAATTGAGGAAAAAA--TATCAGGTCAGTTTTTGCAAAATTTTAGTCGAA
66 GAATATTGTGGCAAAAAATTGA-GAAAAAACTTTTCAGG--A-----T-C-AATTTTTAGCCGAA
* * * * *
56799 ATCGTTTACT---CATCACGGTTTTTGACTTAAAAACGCG-TTCTGGGGCCTCGACTTAGTTTTG
121 ATCGTGTACTAACCATCACGGTTTTTGGC-TAAAAACGCGTTTC-GGGGCCCCGGCTCAGTTTTG
** * * * *
56860 CATGATTTTTGATGTAAAGACTCCTTAAAATATCTATAGTCAT-TGAACTAAATC-CTAGCCACA
184 CATGATTTTTGGCGGAAAGACTCCTTGAAATATCTATATTCATCT-AACCAAATCTC-AGCCACA
* * * * *
56923 TTGGATTTATA-TATTTGTTTTAACGAGCATCTGATTCTTGTTTCGAATTAATTAGAAATTAATT
247 ATGGATTTA-AGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATT
56987 CGG-AAAAA-TG
311 CGGAAAAAATTG
* * * * *
56997 GAAAAAC-ATTATTAGAGGCGTGAAAAACCCT-TCAATCTGTTTGGTGCTGAATTATAT-TTTTT
1 G-AAAACGA-TATTAGAAGCGTG-AAAAGCCTGTCAATCTTTTTGGCGTTGAATTATATATTTTT
* * * *
57059 TATGAATATTGTGGCAAAAAAAATTGA-AAAAAA-TTTTCAGG-TTAATTTTTAACCGAAATCAT
63 TCTGAATATTGTGGC--AAAAAATTGAGAAAAAACTTTTCAGGATCAATTTTTAGCCGAAATCGT
* * * ** * *
57121 GTAC--AGCATCACCGTTTTTTGGCTAAAAACGCGTTTTGGGGCATCGACTCAGTTTTGCATGGT
126 GTACTAACCATCA-CGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGAT
* ** * * ** * * * * * *
57184 TTTTGTCATATAGACTCCTTGAAATATATATATAAATATATA-TATATATATGTATG-TATATAT
190 TTTTGGCGGAAAGACTCCTTGAAATATCTATATTCATCTA-ACCA-A-ATCT-CA-GCCACA-AT
** * ** * * * * * **
57247 ATATATATATA-TATATTAATCTAACCGA--ATCTCAACCACATTGGATTTAAGGATTTGTTTTT
249 GGAT-T-TA-AGGAT-TTGTTTTTA-CGAGCATCTGAA--TC-TT-G-TTT--CGA-TT-TAATT
* * * **
57309 ACGAGCATCTGAATCTTGTTTCAATTTAATTAG
300 A-GA-AAT-T-AAT-TCG---GAA-AAAATT-G
* ** * ** * *
57342 AAATATATTCGGA-AAAAAAATG-GAAAAACGATATTAGAATCGTGAAGAAACTCTTCAATTTTT
1 GAA-A-A--C-GATATTAGAA-GCG--TGA--A-A--AG---C---------CT-GTCAATCTTT
* * * **
57405 TTGGCTTTAAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAACTTTTTGGGT
40 TTGGCGTTGAATTATATATTTTTTCTGAATATTGTGGCAAAAAATTGAGAAAAAACTTTTCAGG-
* * * ** ** *
57470 AAGTTTTTGCAAAATTTTAGCCAAAATTGTGTACTCATTCAAAATCGGTTTTTCGCTAAAAACGC
104 -A-----T-C-AATTTTTAGCCGAAATCGTGTACT-AACCATCA-CGGTTTTTGGCTAAAAACGC
* * ** * ** **** * *
57535 GTTTTGGGGACCCAACTCAATTTTGCATGATTTTTTACTCCGAGACTACTTGAAATATCTATACT
159 GTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGGAAAGACTCCTTGAAATATCTATATT
* * * * * *
57600 CATCAAACCAAATCTCAGCCACATTGGATATAACGATTTGTTTTTATGA-CTATCTGAATCTTAT
224 CATCTAACCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGC-ATCTGAATCTTGT
* *
57664 TTTGATTTTATTAGAAATTAATTCGGAAAAAAAAATAATG
288 TTCGATTTAATTAGAAATTAATTCGG---AAAAAAT--TG
*
57704 GAAAAGCGATATTAGAAGCGTGAAAAGGCC-GTCAATCTTTTTGGGGTTGAATTATATATTTTTT
1 GAAAA-CGATATTAGAAGCGTGAAAA-GCCTGTCAATCTTTTTGGCGTTGAATTATATATTTTTT
* * ** *
57768 CTGAATATT-TTGCAATAAATTGAGAAAAAAAATTTC-GTG-T-AAGTTTTTAACCGAAATCGTG
64 CTGAATATTGTGGCAAAAAATTGAGAAAAAACTTTTCAG-GATCAA-TTTTTAGCCGAAATCGTG
** * * * * *
57829 TA-T---TGTCACTGTTTTTGGCTAAAAACGCGTTTCGAGGCCCTGACTCTGTTTTGCATGATTT
127 TACTAACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTT
* * * * *
57890 TTGGCAGAAA-ATCTCCTTGAAATATCTATATTCATCTAACCAAATCTTAACCACATTGG-TATA
192 TTGGCGGAAAGA-CTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTA
* * *
57953 AGGATTTGTTTTTACGAGCATCTGAATCTTTGTTTCGATTTAATTAAAAATAAATTCAGAAAAAA
256 AGGATTTGTTTTTACGAGCATCTGAATC-TTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAA
**
58018 AAG
320 TTG
* * * * *
58021 GAAAAACGATATTATAGAAGTGTGAAAAACCCT-TCAATTTTTTTAGCGTTGAATTATATCTTTT
1 G-AAAACGATA-T-TAGAAGCGTG-AAAAGCCTGTCAATCTTTTTGGCGTTGAATTATATATTTT
* * * * *
58085 TTATGAGTATTGTGGCAAAAAACTGAGGAAAAACTTTTC-GGGTCAATTTTT
62 TTCTGAATATTGTGGCAAAAAATTGAGAAAAAACTTTTCAGGATCAATTTTT
58136 GCAAAATTTT
Statistics
Matches: 1632, Mismatches: 321, Indels: 337
0.71 0.14 0.15
Matches are distributed among these distances:
316 3 0.00
317 32 0.02
318 98 0.06
319 81 0.05
320 54 0.03
321 230 0.14
322 124 0.08
323 52 0.03
324 147 0.09
325 32 0.02
326 45 0.03
327 12 0.01
328 26 0.02
329 8 0.00
330 22 0.01
331 184 0.11
332 17 0.01
333 9 0.01
334 2 0.00
335 24 0.01
336 86 0.05
337 23 0.01
338 26 0.02
339 37 0.02
341 1 0.00
342 1 0.00
343 2 0.00
344 3 0.00
345 2 0.00
346 1 0.00
348 5 0.00
349 2 0.00
350 2 0.00
351 1 0.00
352 2 0.00
353 1 0.00
354 2 0.00
355 1 0.00
357 2 0.00
358 3 0.00
359 6 0.00
360 1 0.00
361 4 0.00
362 7 0.00
363 4 0.00
364 1 0.00
365 2 0.00
366 4 0.00
367 15 0.01
368 28 0.02
369 26 0.02
371 3 0.00
373 2 0.00
374 3 0.00
375 6 0.00
376 10 0.01
377 1 0.00
378 4 0.00
379 21 0.01
380 3 0.00
381 2 0.00
382 74 0.05
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (322 bp):
GAAAACGATATTAGAAGCGTGAAAAGCCTGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCT
GAATATTGTGGCAAAAAATTGAGAAAAAACTTTTCAGGATCAATTTTTAGCCGAAATCGTGTACT
AACCATCACGGTTTTTGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGG
CGGAAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACAATGGATTTAAGGAT
TTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAATTG
Found at i:57214 original size:2 final size:2
Alignment explanation
Indices: 57207--57262 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
57197 ACTCCTTGAA
* * *
57207 AT AT AT AT AT AA AT AT AT AT AT AT AT AT GT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57249 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
57263 TAATCTAACC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59571 original size:661 final size:651
Alignment explanation
Indices: 58270--60046 Score: 2118
Period size: 661 Copynumber: 2.7 Consensus size: 651
58260 ATTCATCGAA
* * * * *
58270 ATCTGAATCTTGTTTTGATGTAATTAGAAATTAATTCGGAAAAAAATAATAGAAAAACGATATTG
1 ATCTGAATCTTGTTTCGTTTTAATTAGAAATTAATTCGG-AAAAAA-AATGGAAAAACGATATTA
* * *
58335 GAAGCGTCAAAAAGACGTCAATCTTTTTGACGTTGAATTATATATATATTTTTTAATATTTTGCA
64 GAAGCGT-GAAAAGCCGTCAATCTTTTTGGCGTTGAATTATATAT-T-TTTTTTAATATTTTGCA
** *
58400 AAAAATTGAGAAAAACTTTTTTGGTCAGTTTTTAGCTGAAATCGTATACTAACCATCACAGTTTT
126 AAAAATTGAGAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATCGTATACTAACCATCA-AGTTTT
* * * *
58465 TGGCTAAAAAC-AAGTTTCATGGCCCCGGCTCAGTTTTGAATGATTTTTGGCAGAAAGACACCTT
190 TGGCTAAAAACGCA-TTTC--GGCCCCGGCTTAGTTTTGAATGATTTTTGGCAAAAAGACTCCTT
*
58529 GAAATATCTATATTCATCTAATCAAATCTCAGCTACAATGGATTTAAGGATTTGTTTTTACGAGC
252 GAAATATCTATATTCATCTAATCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGC
* * *
58594 ATCTGAATCTTTGTTTCAATTTAATTAGAAATAAATTCGGA-AAAAAGAT-GGAAAAACGATA-G
317 ATCTGAATCTTTGTTTCGATTTAATTAGAAATAAATTCGGAGAAAAAAATAGGAAAAACGATATT
*** * * *
58656 TGATAGCGTGAAATCCCCTTCAATTTTTTTGGCGTTGAA-TTATATGTTTTCTGAGTATTGTCTC
382 TGA-AGCGTGAAAAATCCTTCAA-TTTTTTGGTGTTGAATTTATATATTTTCTGAGTATTGTCGC
** * * *
58720 AAAAAAAATTG-AGGAAAAACTTTTCAAGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACT
445 --AAAAAATTGAAAAAAAAACTTTTCAAGTCAATTTTTACAAAATTTTAGCCGAAATCATATACT
* * * * *
58784 AACTATCACGGTTTTTGGCAAAAACAATGTTCCGGAGTCTCGGCTCAGTCTTGCATGATTTTTGG
508 AACCATCACGGTTTTTGGCAAAAACAACGTTCCGGAGCCCCGGCTCAATCTTGCATGATTTTTGG
* *
58849 CGTAAAGACCCATTGAAATATCTATATTTATCGAACCAAATCTCAGCCACATTGTATATAAGGAT
573 CGTAAAGACCCATTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATATAAGGAT
58914 TTGTTTTAACGAGC
638 TTGTTTTAACGAGC
*
58928 AT-TCGAATCTTGTTTCGTTTTAATTAGAAATTAATTCGGAAAAAAAATGGAAAAATGATATTAG
1 ATCT-GAATCTTGTTTCGTTTTAATTAGAAATTAATTCGGAAAAAAAATGGAAAAACGATATTAG
*
58992 AAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTAAATATTTTGCAAA
65 AAGCGTGAAAAG-CCGTCAATCTTTTTGGCGTTGAATTATATATTTTTT-TTAATATTTTGCAAA
* * *
59057 AAATTGAGAAAAACTTTTCGGGTTAGTTTTTAGCCGAAACCGTGTACTAACCATCAAGATTTTTG
128 AAATTGAGAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATCGTATACTAACCATCAAG-TTTTTG
* * * *
59122 GCTAAAAACGCATTTCGGATCCCGACTTAGTTTTAAATGATTTTTGGCAAAAAGACTCCGTGAAA
192 GCTAAAAACGCATTTCGG-CCCCGGCTTAGTTTTGAATGATTTTTGGCAAAAAGACTCCTTGAAA
*
59187 TATCTATATTCATCTAA-CAAAATCTCAGCCACAATGGATTTAAGAATTTGTTTTTACGAGCATC
256 TATCTATATTCATCTAATC-AAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATC
*
59251 TCAATCTTTGTTTCGATTTAATTAGAAATAAATTCGGAAGAAAAAAATAAAGGAAAAACGATATT
320 TGAATCTTTGTTTCGATTTAATTAGAAATAAATTCGG-AGAAAAAAAT--AGGAAAAACGATATT
* * * *
59316 TGAAGCGTGAAAAATCCTTTAATTTTTTGGTGTTAAATTATATATTTTTTCTGAGTATTGTGGCA
382 TGAAGCGTGAAAAATCCTTCAATTTTTTGGTGTTGAATT-TATATATTTTCTGAGTATTGTCGCA
* *
59381 AAAAATTGAAAAAAAAAAACTTTTCAGGTCAGTTTTTACAAAATTTTAGCCGAAATCATATACTA
446 AAAAATTG--AAAAAAAAACTTTTCAAGTCAATTTTTACAAAATTTTAGCCGAAATCATATACTA
* * *
59446 ACCATCACTGTTTTTGTCTAAAAAC-ACGTTCCGGAGCCCCGGCTCAATTTTGCATGATTTTTGG
509 ACCATCACGGTTTTTGGC-AAAAACAACGTTCCGGAGCCCCGGCTCAATCTTGCATGATTTTTGG
* *
59510 CGTAAAGATTCC-TTGAAATAT-TCATATTCATCGAACCAAATGTCAGCCACATTGGATATAAGG
573 CGTAAAGA-CCCATTGAAATATCT-ATATTCATCGAACCAAATCTCAGCCACATTGGATATAAGG
*
59573 ATTTGTTTTTACGAGC
636 ATTTGTTTTAACGAGC
*
59589 ATCTGAATCTTATTTC-TATTTAATTAGAAATTAATTC-GAGAAAAAAATGGAAAAACGATATTA
1 ATCTGAATCTTGTTTCGT-TTTAATTAGAAATTAATTCGGA-AAAAAAATGGAAAAACGATATTA
* * * * *
59652 AAAGCGTGAAAAAGCCGTCAATATTTTTGGCGTTGAATTATATATTTTTTTTTTTAGATTGTGGC
64 GAAGCGTG-AAAAGCCGTCAATCTTTTTGGCGTTGAATTATATA--TTTTTTTTAATATT-TTGC
* * * * *
59717 -CAAAATTGAGAATAAACGTTTCGGGTCAGTTTTAAGCCGAAATTGTATACTAACCATCACGGTT
125 AAAAAATTGAGAA-AAACTTTTCGGGTCAGTTTTTAGCCGAAATCGTATACTAACCATCA-AGTT
* * * * * * ***
59781 CTTGACTAAAAACGCGTTCCGGGGCCACGGCTCT-GTTTTGCATGATTTTTGGCGTCAAGACTCC
188 TTTGGCTAAAAACGCATTTC--GGCCCCGGCT-TAGTTTTGAATGATTTTTGGCAAAAAGACTCC
* * * *** * * * *
59845 TTGAAATAACTTTATTCATCTAATCAAACCTTTTCCACATTGGACTTAAGGATTTGCTTTTACGT
250 TTGAAATATCTATATTCATCTAATCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGA
* * * *
59910 GCATCTGAAT-TTTGTTTCGATTTAAGTAGTAATTAATTC--AG-AAAAAATATG-AAAACGATA
315 GCATCTGAATCTTTGTTTCGATTTAATTAGAAATAAATTCGGAGAAAAAAATAGGAAAAACGATA
** * * * * * *
59970 TTAAAAGTGTGAAAAGTCCTCCAATCTTTTTGGTGTTGAATTTTATATATTTTATGAGTATTTTT
380 TTTGAAGCGTGAAAAATCCTTCAAT-TTTTTGGTGTTGAA-TTTATATATTTTCTGAGTATTGTC
*
60035 GCCAAAAATTGA
443 GCAAAAAATTGA
60047 TTAAAAATTT
Statistics
Matches: 967, Mismatches: 116, Indels: 75
0.84 0.10 0.06
Matches are distributed among these distances:
653 3 0.00
654 140 0.14
655 91 0.09
656 87 0.09
657 50 0.05
658 58 0.06
659 35 0.04
660 30 0.03
661 255 0.26
662 30 0.03
663 93 0.10
664 91 0.09
665 4 0.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (651 bp):
ATCTGAATCTTGTTTCGTTTTAATTAGAAATTAATTCGGAAAAAAAATGGAAAAACGATATTAGA
AGCGTGAAAAGCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTTTAATATTTTGCAAAAAA
TTGAGAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATCGTATACTAACCATCAAGTTTTTGGCTA
AAAACGCATTTCGGCCCCGGCTTAGTTTTGAATGATTTTTGGCAAAAAGACTCCTTGAAATATCT
ATATTCATCTAATCAAATCTCAGCCACAATGGATTTAAGGATTTGTTTTTACGAGCATCTGAATC
TTTGTTTCGATTTAATTAGAAATAAATTCGGAGAAAAAAATAGGAAAAACGATATTTGAAGCGTG
AAAAATCCTTCAATTTTTTGGTGTTGAATTTATATATTTTCTGAGTATTGTCGCAAAAAATTGAA
AAAAAAACTTTTCAAGTCAATTTTTACAAAATTTTAGCCGAAATCATATACTAACCATCACGGTT
TTTGGCAAAAACAACGTTCCGGAGCCCCGGCTCAATCTTGCATGATTTTTGGCGTAAAGACCCAT
TGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATATAAGGATTTGTTTTAACGAG
C
Found at i:59801 original size:323 final size:321
Alignment explanation
Indices: 58270--60022 Score: 1646
Period size: 323 Copynumber: 5.4 Consensus size: 321
58260 ATTCATCGAA
* * *
58270 ATCTGAATCTTGTTT-TGATGTAATTAGAAATTAATTCGGAAAAAAATAATAGAAAAACGATATT
1 ATCTGAATCTTGTTTCT-ATTTAATTAGAAATTAATTC-GAGAAAAA-AATGGAAAAACGATATT
** * * * * *
58334 GGAAGCGTCAAAAAGACGTCAATCTTTTTGACGTTGAATTATATATATATTTTTTAATATT-TTG
63 AAAAGCGTGAAAAAGCCGTCAATCTTTTTGGCGTTGAATTATATAT-T-TTTTTTAAGATTGTGG
** * * *
58398 CAAAAAATTGAGAAAAACTTTTTTGGTCAGTTTTTAGCTGAAATCGTATACTAACCATCACAGTT
126 CAAAAAATTGAGAAAAACTTTTCAGGTCAGTTTTAAGCCGAAATCGTATACTAACCATCACGGTT
* ** * *
58463 TTTGGCTAAAAACAAGTTTCATG-GCCCCGGCTCAGTTTTGAATGATTTTTGGCAG-AAAGACAC
191 TTTGGCTAAAAACACG-TTCCGGAGCCCCGGCTCAGTTTTGCATGATTTTTGGC-GTAAAGACTC
* * * *
58526 CTTGAAATATCTATATTCATCTAATCAAATCTCAGCTACAATGGATTTAAGGATTTGTTTTTACG
254 CTTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATATAAGGATTTGTTTTTACG
58591 AGC
319 AGC
* * * *
58594 ATCTGAATCTTTGTTTCAATTTAATTAGAAATAAATTCG-GAAAAAAGATGGAAAAACGATAGTG
1 ATCTGAATC-TTGTTTCTATTTAATTAGAAATTAATTCGAGAAAAAA-ATGGAAAAACGATATTA
* *** * * * * * **
58658 ATAGCGTGAAATCCCCTTCAATTTTTTTGGCGTTGAA-T-TATATGTTTTCTGAGTATTGTCTCA
64 AAAGCGTGAAAAAGCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTTTAAG-ATTGTGGC-
* * *
58721 AAAAAAATTGAGGAAAAACTTTTCAAGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAA
127 -AAAAAATTGA-GAAAAACTTTTCAGGTC-AGTTTT-----A----AGCCGAAATCGTATACTAA
* * * * *
58786 CTATCACGGTTTTTGGC-AAAAACAATGTTCCGGAGTCTCGGCTCAGTCTTGCATGATTTTTGGC
180 CCATCACGGTTTTTGGCTAAAAAC-ACGTTCCGGAGCCCCGGCTCAGTTTTGCATGATTTTTGGC
* * *
58850 GTAAAGAC-CCATTGAAATATCTATATTTATCGAACCAAATCTCAGCCACATTGTATATAAGGAT
244 GTAAAGACTCC-TTGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATATAAGGAT
*
58914 TTGTTTTAACGAGC
308 TTGTTTTTACGAGC
*
58928 AT-TCGAATCTTGTTTCGT-TTTAATTAGAAATTAATTCG-GAAAAAAAATGGAAAAATGATATT
1 ATCT-GAATCTTGTTTC-TATTTAATTAGAAATTAATTCGAG-AAAAAAATGGAAAAACGATATT
* * * *
58990 AGAAGCGTG-AAAAGCCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTAA-ATATTTTG
63 AAAAGCGTGAAAAAG-CCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTTTAAGAT-TGTGG
* * * * * * *
59053 CAAAAAATTGAGAAAAACTTTTCGGGTTAGTTTTTAGCCGAAACCGTGTACTAACCATCAAGATT
126 CAAAAAATTGAGAAAAACTTTTCAGGTCAGTTTTAAGCCGAAATCGTATACTAACCATCACGGTT
* * * * * * ** ** *
59118 TTTGGCTAAAAACGCATTTCGGA-TCCCGACTTAGTTTTAAATGATTTTTGGCAAAAAGACTCCG
191 TTTGGCTAAAAACACGTTCCGGAGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCT
* * * *
59182 TGAAATATCTATATTCATCTAACAAAATCTCAGCCACAATGGATTTAAGAATTTGTTTTTACGAG
256 TGAAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGATATAAGGATTTGTTTTTACGAG
59247 C
321 C
* * *
59248 ATCTCAATCTTTGTTTCGATTTAATTAGAAATAAATTCGGAAGAAAAAAATAAAGGAAAAACGAT
1 ATCTGAATC-TTGTTTCTATTTAATTAGAAATTAATTC-G-AGAAAAAAAT---GGAAAAACGAT
** * * * * * * *
59313 ATTTGAAGCGTGAAAAATCCTTTAAT-TTTTTGGTGTTAAATTATATATTTTTTCTGAGTATTGT
60 ATTAAAAGCGTGAAAAAGCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTTTAAG-ATTGT
* *
59377 GGCAAAAAATTGAAAAAAAAAAACTTTTCAGGTCAGTTTTTACAAAATTTTAGCCGAAATCATAT
124 GGCAAAAAATTG----AGAAAAACTTTTCAGGTCAG-TTTT-----A----AGCCGAAATCGTAT
* * *
59442 ACTAACCATCACTGTTTTTGTCTAAAAACACGTTCCGGAGCCCCGGCTCAATTTTGCATGATTTT
175 ACTAACCATCACGGTTTTTGGCTAAAAACACGTTCCGGAGCCCCGGCTCAGTTTTGCATGATTTT
* * *
59507 TGGCGTAAAGATTCCTTGAAATAT-TCATATTCATCGAACCAAATGTCAGCCACATTGGATATAA
240 TGGCGTAAAGACTCCTTGAAATATCT-ATATTCATCTAACCAAATCTCAGCCACATTGGATATAA
59571 GGATTTGTTTTTACGAGC
304 GGATTTGTTTTTACGAGC
*
59589 ATCTGAATCTTATTTCTATTTAATTAGAAATTAATTCGAGAAAAAAATGGAAAAACGATATTAAA
1 ATCTGAATCTTGTTTCTATTTAATTAGAAATTAATTCGAGAAAAAAATGGAAAAACGATATTAAA
* * *
59654 AGCGTGAAAAAGCCGTCAATATTTTTGGCGTTGAATTATATATTTTTTTTTTTAGATTGTGGC-C
66 AGCGTGAAAAAGCCGTCAATCTTTTTGGCGTTGAATTATATA--TTTTTTTTAAGATTGTGGCAA
* * * *
59718 AAAATTGAGAATAAACGTTTCGGGTCAGTTTTAAGCCGAAATTGTATACTAACCATCACGGTTCT
129 AAAATTGAGAA-AAACTTTTCAGGTCAGTTTTAAGCCGAAATCGTATACTAACCATCACGGTTTT
* * * * * *
59783 TGACTAAAAACGCGTTCCGGGGCCACGGCTCTGTTTTGCATGATTTTTGGCGTCAAGACTCCTTG
193 TGGCTAAAAACACGTTCCGGAGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTG
* * * * *** * *
59848 AAATAACTTTATTCATCTAATCAAACCTTTTCCACATTGGACT-TAAGGATTTGCTTTTACGTGC
258 AAATATCTATATTCATCTAACCAAATCTCAGCCACATTGGA-TATAAGGATTTGTTTTTACGAGC
* * * *
59912 ATCTGAATTTTGTTTCGATTTAAGTAGTAATTAATTC-AGAAAAAATAT-G-AAAACGATATTAA
1 ATCTGAATCTTGTTTCTATTTAATTAGAAATTAATTCGAGAAAAAA-ATGGAAAAACGATATTAA
* * * *
59974 AAGTGTG-AAAAGTCC-TCCAATCTTTTTGGTGTTGAATTTTATATATTTT
65 AAGCGTGAAAAAG-CCGT-CAATCTTTTTGGCGTTGAATTATATATTTTTT
60023 ATGAGTATTT
Statistics
Matches: 1175, Mismatches: 186, Indels: 141
0.78 0.12 0.09
Matches are distributed among these distances:
319 11 0.01
320 102 0.09
321 117 0.10
322 18 0.02
323 233 0.20
324 27 0.02
325 57 0.05
326 40 0.03
327 7 0.01
330 22 0.02
331 18 0.02
332 19 0.02
333 98 0.08
334 142 0.12
335 44 0.04
336 26 0.02
337 8 0.01
338 19 0.02
339 1 0.00
340 69 0.06
341 97 0.08
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (321 bp):
ATCTGAATCTTGTTTCTATTTAATTAGAAATTAATTCGAGAAAAAAATGGAAAAACGATATTAAA
AGCGTGAAAAAGCCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTTTAAGATTGTGGCAAAA
AATTGAGAAAAACTTTTCAGGTCAGTTTTAAGCCGAAATCGTATACTAACCATCACGGTTTTTGG
CTAAAAACACGTTCCGGAGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAA
TATCTATATTCATCTAACCAAATCTCAGCCACATTGGATATAAGGATTTGTTTTTACGAGC
Found at i:63249 original size:321 final size:322
Alignment explanation
Indices: 61614--64182 Score: 2106
Period size: 321 Copynumber: 7.8 Consensus size: 322
61604 CGAAATCGTG
* * ** *
61614 TTGTTTCGATATAATTAGAAATTAATTTAGAAAATAAATGG-AAAACGATATTAGAAGCGTG-AA
1 TTGTTTCGATTTAATTAGAAATAAATTCGGAAAA-AAAAGGAAAAACGATATTAGAAGCGTGAAA
* * * * * * *
61677 AACCGTTCAATCTTTTTT-CCGTTGAATTAT-TTTTTTTTTTGAATATTGTGGTAAAAAATTGAG
65 AACCCTTCAAT-TTTTTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAG
* * * * * * * ***
61740 AAAAAAACTTTTCGTGTTAGTTTTTTA-CCGAAATCTTGTACTAACTATCATTATTTTTGGCTAA
129 -GAAAAACTTTTCGGGTCAG-ATTTTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGCTAA
** * * * * * *
61804 AAACGCGTTTTGGGGCCTCC-ACTCAGTTTTGCATGGTTTTTAGCATACAGACTCCATT-AAAAA
192 AAACGCGTTCCGGGGCC-CCGGCTCAGTTTTGCATGATTTTTGGCGTAAAGACTCC-TTGAAATA
* *
61867 TCTATATTCAT-GTAACCAAATCTCAGACACATTGGATTTAAGGATTTGTTTTTACGAGCATCTA
255 TCTATATTCATCG-AACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTG
61931 AATC
319 AATC
* * * * * * ** *
61935 ATGTTTTGATTTTATTAGAAATAAATTCAGATAAAAAAGGGAAAACGATATTATTAGTGTGAAAA
1 TTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAAGGAAAAACGATATTAGAAGCGTGAAAA
* *
62000 ACCCTTCAATTTTTTTGGCGTTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTAAGGA
66 ACCCTTCAATTTTTTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGA
* * * * * *
62065 AAAACTTTTCAGGTCA-ATTTTTTTACAAAATCATAGCCGAAATCATGTACTTACCACCACGTTT
131 AAAACTTTTCGGGTCAGA-----TT------T--TAGACGAAATCGTGTACTAACCATCACGGTT
* * * * * * *
62129 TTTGGCTAAAAATGCGTTCCGGAGTCACGGCTCAATTTTGCATTATTATTGGCGTAAAGACAT-C
183 TTTGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTAAAGAC-TCC
* * *
62193 TTGAAATATCGATATTCATCAAAACAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGA
247 TTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGA
** *
62258 GTTTCTGAATT
312 GCATCTGAATC
* * * *
62269 TTGTTTCGATTTAATTAGAAATTAATTTGGAAACAAAAAACAAATTGGAAAACCAATATTAGAAG
1 TTGTTTCGATTTAATTAGAAATAAATTCGG-----AAAAA-AAA--GGAAAAACGATATTAGAAG
** * * * * * *
62334 CCCGAAAATCCCCTCAATCTTTTTGCCGTTGAATTATATATTTTTTATGAGTACTT-TGGCAAAA
58 CGTGAAAAACCCTTCAATTTTTTTGGCATTGAATTATATATTTTTTCTGAGTA-TTGTGGCAAAA
* * ** * * * * * *
62398 TAATTTAGAAAAAAAAATTT-GGGTTAGTTTTTAGCCAAAATCGTG---T-A-CATTATGGTTTT
122 -AATTGAG-GAAAAACTTTTCGGGTCAGATTTTAGACGAAATCGTGTACTAACCATCACGGTTTT
* * * * * * *
62457 TGGCAAAAAAAACACGTTTCGGGGCCCCGGTTCAGTATTGCATAATTTTT-G-GTAGAAGGAATC
185 TGGC--TAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTA-AA-GACTC
* ** * * * * **
62520 CTTGAAATATCTATATTCATCTAACTGAATCTCAGCTACATTAGATTCACGGATTTGTTTTTATA
246 CTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACG
* *
62585 AGTATCTAAATC
311 AGCATCTGAATC
* * *
62597 TTGTTTCGATTTAATTATAAATAAATTCGGAAAAAAATGGAAAAATGATATTAGAAGCGTGAAAA
1 TTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAAGGAAAAACGATATTAGAAGCGTGAAAA
* * * * *
62662 ACCCTTCAATTTTTTGGTGTAGTG--TTATATATTTTTTCTTAGTATTATGGCAAAAAATTGAGG
66 ACCCTTCAATTTTTTTG-GCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGG
* * *
62725 AAAAATTTTTCAGGTCAGTTTTTCGAGATTTTA-ATCGAAATCGTGCACTAACTATCA-GAGTAT
130 AAAAACTTTTC-GG---G----TC-AGATTTTAGA-CGAAATCGTGTACTAACCATCACG-GT-T
* * * * * * *
62788 TTTAGGTTAAAAACGCGCTT-TGGGGCCCCGGTTCAGTTTTGAATGATTTTAGGTAG-AAAAACT
183 TTT-GGCTAAAAACGCG-TTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGG-CGTAAAGACT
* ** * *
62851 CCTTGAAATATCTATATTCATCTAATTAAATCTCAGCCACATTGGATTTAAGAATTTGTTTTTAT
245 CCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTAC
*
62916 GAGTATCTGAATC
310 GAGCATCTGAATC
* *
62929 TTGTTTCAATTTAATTAGAAATAAATTCGGAAAAAAAAAGAAAAACGATATTAGAAGCGTGAAAA
1 TTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAAGGAAAAACGATATTAGAAGCGTGAAAA
*
62994 ACACTTCAATTTTTTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGA
66 ACCCTTCAATTTTTTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGA
*
63059 AAAACTTTTCGGGTCA-ATTTTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGTTAAAAAC
131 AAAACTTTTCGGGTCAGATTTTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAAC
** ** * * *
63123 GCGTTCCGAAGTGCCGGCTAAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATA
196 GCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATA
* * *
63188 TTCATCGAACCAAATGTCAGCCACATTGGATATAAGGATTTGTTTTTACGAGCACCTGAATC
261 TTCATCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATC
* * * *
63250 TTGTTTTGATTTAATTAGAAATTAATTCGGAAAAAAATGGAAAAACGATATTAGAAGTGTGAAAA
1 TTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAAGGAAAAACGATATTAGAAGCGTGAAAA
* * * * * *
63315 TCCCGTCAATCTTTTTGGAATTGAATTATATATTTTTTCTGAATATT-TCGCAAAAAATTGAAAA
66 ACCCTTCAATTTTTTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTG---A
** *** * * * **
63379 TAAAAAACTTTTTAAGTCAGTTTTTAGTCGAAATCATGTACTAACCATCACGGTTTACGGCTAAA
128 GGAAAAACTTTTCGGGTCAGATTTTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAA
* * ** *
63444 AACGCGTTTCGGGGCCCCGGCTCAGGTTTGCATGATTTTTGGCAAAAAAAACTCCTTGAAATATC
193 AACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGC-GTAAAGACTCCTTGAAATATC
* * * * * * *
63509 TATATTTAT-GTAACTAAATCTAAGCCACAATGGATTTGAGAATTTGTTTTTACGAGCATATGAA
257 TATATTCATCG-AACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAA
63573 TC
321 TC
* * ** * *
63575 TTGTTTCAATTTAATAAGAAATAAATTCAAAAAAAAAAGGAAAAACGATATTAGAATCGTTAAAA
1 TTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAAGGAAAAACGATATTAGAAGCGTGAAAA
* * * * *
63640 ACACTTCAATTTTTTTGGCGTTGAATTACATATTTTTTCTGAGTATTGTTGCAAAGAATTGAGGA
66 ACCCTTCAATTTTTTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGG-
* ** * * * *
63705 AAAAAATTTCGCTTCAGTTTTTGCAAAATTTTAGTCGAAATCGTTTACT---CATTCATGGTTTT
130 -AAAAACTT---TTC-G--GGT-C-AGATTTTAGACGAAATCGTGTACTAACCA-TCACGGTTTT
* * * * * *
63767 TGGCTAAAAACGCGTTCCGGGGTCCCGACTCAATTTTGCATGATTTTTTGCATAAAGTCTCCTTG
185 TGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTG
* * * * *
63832 AAATATCTATATTCATCCTCATCAAACCAAATCCCAGCCATATTGGATTTAATGATTTGTTTTAA
250 AAATATC--TA-T-AT--TCATCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTA
* * **
63897 CAAACATCTGGTTC
309 CGAGCATCTGAATC
* * * * * * **
63911 TTGTTTTGATTGAATTAGAAATTAATTCGGAGAAAAATGGAAAAATGATATTAGAAGCGTGCTAA
1 TTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAAGGAAAAACGATATTAGAAGCGTGAAAA
* *
63976 ACCCTTCAATATTTTTGGCATTGAATTATATATTATTTTTATGAGTATTGTGGCAAAAAATTGA-
66 ACCCTTCAATTTTTTTGGCATTGAATTATATA-T-TTTTTCTGAGTATTGTGGCAAAAAATTGAG
** * * * * **
64040 GAAAATTTTTTCGGGTCAGTTTTTAGCCGAAATCATGTACTAACAATCACGGTTTTTAACTAAAA
129 GAAAAACTTTTCGGGTCAGATTTTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAA
* * * * * * * * ** *
64105 ACACGTTTCGGGGACTCGACTCAGTTTTGCATGGTTTTTGTCATAAAGACTTTTTGAAATATATA
194 ACGCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTA
* *
64170 TCTTCATCTAACC
259 TATTCATCGAACC
64183 GAACATAACA
Statistics
Matches: 1801, Mismatches: 347, Indels: 198
0.77 0.15 0.08
Matches are distributed among these distances:
317 8 0.00
318 8 0.00
319 28 0.02
320 55 0.03
321 263 0.15
322 44 0.02
323 86 0.05
324 78 0.04
325 178 0.10
326 28 0.02
327 42 0.02
328 128 0.07
329 69 0.04
330 22 0.01
331 73 0.04
332 193 0.11
333 83 0.05
334 159 0.09
335 9 0.00
336 123 0.07
337 2 0.00
338 26 0.01
339 6 0.00
340 3 0.00
342 67 0.04
343 12 0.01
344 8 0.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (322 bp):
TTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAAGGAAAAACGATATTAGAAGCGTGAAAA
ACCCTTCAATTTTTTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGA
AAAACTTTTCGGGTCAGATTTTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAAC
GCGTTCCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCGTAAAGACTCCTTGAAATATCTATA
TTCATCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATC
Found at i:64245 original size:661 final size:638
Alignment explanation
Indices: 62494--64182 Score: 1539
Period size: 646 Copynumber: 2.6 Consensus size: 638
62484 CGGTTCAGTA
* * * * * * ** * *
62494 TTGCATAATTTTTGGTAGAAGGAATCCTTGAAATATCTATATTCATCTAACTGAATCTCAGCTAC
1 TTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCCCAGCCAC
* * * * ** * * * * * *
62559 ATTAGAT-TCACGGATTTGTTTTTATAAGTATCTAAATCTTGTTTCGATTTAATTATAAATAAAT
66 ATTGGATAT-AAGGATTTGTTTTAACAAACACCTGAATCTTGTTTTGATTGAATTAGAAATTAAT
* * * ** * **
62623 TCGGAAAAAAATGGAAAAATGATATTAGAAGCGTGAAAAACCCTTCAAT-TTTTTGGTGTAGTGT
130 TCGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATCCCGTCAATATTTTTGGAATTGAAT
* * * * * *
62687 TATATATTTTTTCTTAGTATTATGGCAAAAAATTGAGGAAAAA-TTTTTCAGGTCAGTTTTTCGA
195 TATATATTTTTTATGAATATT-TCGCAAAAAATTGA-AAAAAACTTTTT-AAGTCAGTTTTT--A
* * * * ** ** * *
62751 GATTTTAATCGAAATCGTGCACTAACTATCA-GAGTATTTTAGGTTAAAAACGCGCTTT-GGGGC
255 G-------CCGAAATCATGTACTAACAATCACG-GT-TTACA-ACTAAAAACACG-TTTCGGGGA
** * * * * * * **
62814 CCCGGTTCAGTTTTGAATGATTTTAGG-TAGAAAAACTCCTTGAAATATCTATATTCATCTAATT
309 CCCGACTCAGGTTTGCATGATTTTTGGCAAAAAAAACTCCTTGAAATATATATATTCATCTAACC
* * * * * * * **
62878 AAATCTCAGCCACATTGGA-TTTAAGAATTTGTTTTTATGAGTATCTGAATCTTGTTTCAATTTA
374 AAATCT-A-ACACAATGGACCTGAA-AATTTGTTTTTACGAGCATATGAATCTCATTTCAATTTA
* *
62942 ATTAGAAATAAATTCGGAAAAAAAAAGAAAAACGATATTAGAAGCGTGAAAAACACTTCAATTTT
436 ATAAGAAATAAATTCGAAAAAAAAAAGAAAAACGATATTAGAAGCGTGAAAAACACTTCAATTTT
*
63007 TTTGGCATTGAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGG
501 TTTGGCATTGAATTACATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGG
* *
63072 TCAATTTTAGACGAAATCGTGTACTAACCATCACGGTTTTTGGTTAAAAACGCGTTCCGAAGTGC
566 TCAATTTTAGACGAAATCGTGTACT-A-CATCACGGTTTTTGGCTAAAAACGCGTTCCGAAGTCC
*
63137 CGGCTAAATT
629 CGACTAAATT
* * **
63147 TTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATGTCAGCCAC
1 TTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCCCAGCCAC
* * * *
63212 ATTGGATATAAGGATTTGTTTTTACGAGCACCTGAATCTTGTTTTGATTTAATTAGAAATTAATT
66 ATTGGATATAAGGATTTGTTTTAACAAACACCTGAATCTTGTTTTGATTGAATTAGAAATTAATT
* *
63277 CGGAAAAAAATGGAAAAACGATATTAGAAGTGTGAAAATCCCGTCAATCTTTTTGGAATTGAATT
131 CGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATCCCGTCAATATTTTTGGAATTGAATT
* *
63342 ATATATTTTTTCTGAATATTTCGCAAAAAATTGAAAATAAAAAACTTTTTAAGTCAGTTTTTAGT
196 ATATATTTTTTATGAATATTTCGCAAAAAATTG---A-AAAAAACTTTTTAAGTCAGTTTTTAGC
* ** * * *
63407 CGAAATCATGTACTAACCATCACGGTTTACGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGGTT
257 CGAAATCATGTACTAACAATCACGGTTTACAACTAAAAACACGTTTCGGGGACCCGACTCAGGTT
* * * *
63472 TGCATGATTTTTGGCAAAAAAAACTCCTTGAAATATCTATATTTATGTAACTAAATCTAAGCCAC
322 TGCATGATTTTTGGCAAAAAAAACTCCTTGAAATATATATATTCATCTAACCAAATCTAA--CAC
** * **
63537 AATGGATTTGAGAATTTGTTTTTACGAGCATATGAATCTTGTTTCAATTTAATAAGAAATAAATT
385 AATGGACCTGAAAATTTGTTTTTACGAGCATATGAATCTCATTTCAATTTAATAAGAAATAAATT
* * *
63602 C-AAAAAAAAAAGGAAAAACGATATTAGAATCGTTAAAAACACTTCAATTTTTTTGGCGTTGAAT
450 CGAAAAAAAAAA-GAAAAACGATATTAGAAGCGTGAAAAACACTTCAATTTTTTTGGCATTGAAT
* * * **
63666 TACATATTTTTTCTGAGTATTGTTGCAAAGAATTGAGGAAAAAAATTTCGCTTCAGTTTTTGCAA
514 TACATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGG--AAAAACTT---TTC-G--GGT-C--
* * * **
63731 AATTTTAGTCGAAATCGTTTACT-CATTCATGGTTTTTGGCTAAAAACGCGTTCCGGGGTCCCGA
568 AATTTTAGACGAAATCGTGTACTACA-TCACGGTTTTTGGCTAAAAACGCGTTCCGAAGTCCCGA
*
63795 CTCAATT
632 CTAAATT
* * *
63802 TTGCATGATTTTTTGCATAAAGTCTCCTTGAAATATCTATATTCATCCTCATCAAACCAAATCCC
1 TTGCATGATTTTTGGCACAAAGACTCCTTGAAATATC--TA-T-AT--TCATCAAACCAAATCCC
* * * * **
63867 AGCCATATTGGATTTAATGATTTGTTTTAACAAACATCTGGTTCTTGTTTTGATTGAATTAGAAA
60 AGCCACATTGGATATAAGGATTTGTTTTAACAAACACCTGAATCTTGTTTTGATTGAATTAGAAA
* * * * *
63932 TTAATTCGGAGAAAAATGGAAAAATGATATTAGAAGCGTGCTAAA-CCCTTCAATATTTTTGGCA
125 TTAATTCGGAAAAAAATGGAAAAACGATATTAGAAGCGTG-AAAATCCCGTCAATATTTTTGGAA
* * * * **
63996 TTGAATTATATATTATTTTTATGAGTATTGTGGCAAAAAATTG-AGAAAATTTTTTCGGGTCAGT
189 TTGAATTATATA-T-TTTTTATGAATATT-TCGCAAAAAATTGAAAAAAACTTTTT-AAGTCAGT
** *
64060 TTTTAGCCGAAATCATGTACTAACAATCACGGTTTTTAACTAAAAACACGTTTCGGGGACTCGAC
250 TTTTAGCCGAAATCATGTACTAACAATCACGGTTTACAACTAAAAACACGTTTCGGGGACCCGAC
* * * * * ** *
64125 TCAGTTTTGCATGGTTTTTGTC-ATAAAGACTTTTTGAAATATATATCTTCATCTAACC
315 TCAGGTTTGCATGATTTTTGGCAAAAAAAACTCCTTGAAATATATATATTCATCTAACC
64183 GAACATAACA
Statistics
Matches: 868, Mismatches: 132, Indels: 66
0.81 0.12 0.06
Matches are distributed among these distances:
644 3 0.00
645 49 0.06
646 182 0.21
647 25 0.03
648 8 0.01
651 3 0.00
652 1 0.00
653 163 0.19
654 35 0.04
655 72 0.08
656 17 0.02
657 28 0.03
658 1 0.00
659 39 0.04
660 80 0.09
661 134 0.15
662 4 0.00
663 12 0.01
664 12 0.01
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (638 bp):
TTGCATGATTTTTGGCACAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCCCAGCCAC
ATTGGATATAAGGATTTGTTTTAACAAACACCTGAATCTTGTTTTGATTGAATTAGAAATTAATT
CGGAAAAAAATGGAAAAACGATATTAGAAGCGTGAAAATCCCGTCAATATTTTTGGAATTGAATT
ATATATTTTTTATGAATATTTCGCAAAAAATTGAAAAAAACTTTTTAAGTCAGTTTTTAGCCGAA
ATCATGTACTAACAATCACGGTTTACAACTAAAAACACGTTTCGGGGACCCGACTCAGGTTTGCA
TGATTTTTGGCAAAAAAAACTCCTTGAAATATATATATTCATCTAACCAAATCTAACACAATGGA
CCTGAAAATTTGTTTTTACGAGCATATGAATCTCATTTCAATTTAATAAGAAATAAATTCGAAAA
AAAAAAGAAAAACGATATTAGAAGCGTGAAAAACACTTCAATTTTTTTGGCATTGAATTACATAT
TTTTTCTGAGTATTGTGGCAAAAAATTGAGGAAAAACTTTTCGGGTCAATTTTAGACGAAATCGT
GTACTACATCACGGTTTTTGGCTAAAAACGCGTTCCGAAGTCCCGACTAAATT
Found at i:73773 original size:21 final size:21
Alignment explanation
Indices: 73749--73790 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
73739 TAACGTAAGC
*
73749 CTTCAACAAATAACTTAGCCA
1 CTTCAACAAATAACCTAGCCA
73770 CTTCAACAAATAACCTAGCCA
1 CTTCAACAAATAACCTAGCCA
73791 ACATGCAGCC
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:0.43, C:0.31, G:0.05, T:0.21
Consensus pattern (21 bp):
CTTCAACAAATAACCTAGCCA
Found at i:74048 original size:29 final size:30
Alignment explanation
Indices: 73978--74049 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
73968 ATACCGTACA
* *
73978 GGTCTCTCTACTTACAAAAAGGGATCAATTT
1 GGTCCCTCTAC-TACAAAAAGGGATCAATTC
* **
74009 GGTCCCCCTACTACAAAAATTG-TCAATTC
1 GGTCCCTCTACTACAAAAAGGGATCAATTC
*
74038 GGTCCTTCTACT
1 GGTCCCTCTACT
74050 TGCAATTTGG
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 16 0.47
30 9 0.26
31 9 0.26
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
GGTCCCTCTACTACAAAAAGGGATCAATTC
Found at i:74420 original size:31 final size:30
Alignment explanation
Indices: 74346--74422 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 30
74336 TGACACCAAA
* *
74346 TTGTAAGTAGAGGGACCAAATTGACAGTTT
1 TTGTAAGTAGAGGGACCAAACTGACACTTT
* *
74376 TTATAA-TAGAGGGACCAAACTGATCCCTTT
1 TTGTAAGTAGAGGGACCAAACTGA-CACTTT
74406 TTGTAAGTAGAGGGACC
1 TTGTAAGTAGAGGGACC
74423 TGTATGGTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
29 16 0.40
30 14 0.35
31 10 0.25
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (30 bp):
TTGTAAGTAGAGGGACCAAACTGACACTTT
Done.