Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015207.1 Corchorus olitorius cultivar O-4 contig15240, 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: 103834
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Found at i:450 original size:2 final size:2
Alignment explanation
Indices: 445--474 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
435 TCTTAGTGTG
445 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
475 CACACACTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8707 original size:18 final size:20
Alignment explanation
Indices: 8661--8712 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
8651 TTCACATCTA
8661 ATAAGGTTACTAAAAAAAACT
1 ATAAGGTTA-TAAAAAAAACT
*
8682 ATAGAGGTTATAAAAAAGA-T
1 ATA-AGGTTATAAAAAAAACT
8702 -TAAGGTTATAA
1 ATAAGGTTATAA
8713 CTTTAATGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 9 0.31
19 2 0.07
20 1 0.03
21 11 0.38
22 6 0.21
ACGTcount: A:0.54, C:0.04, G:0.15, T:0.27
Consensus pattern (20 bp):
ATAAGGTTATAAAAAAAACT
Found at i:10396 original size:15 final size:15
Alignment explanation
Indices: 10367--10434 Score: 54
Period size: 16 Copynumber: 4.7 Consensus size: 15
10357 TACCATCCAT
*
10367 AATATATCC-TTAAA
1 AATAAATCCTTTAAA
10381 AATAAATCCTTTAAAA
1 AATAAATCCTTT-AAA
* *
10397 AATACATTC-TT--A
1 AATAAATCCTTTAAA
*
10409 AATAATATCCTTCAAA
1 AATAA-ATCCTTTAAA
10425 AATAAATCCT
1 AATAAATCCT
10435 AGGGATGCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
12 5 0.12
13 3 0.07
14 9 0.21
15 9 0.21
16 16 0.38
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (15 bp):
AATAAATCCTTTAAA
Found at i:10399 original size:16 final size:15
Alignment explanation
Indices: 10367--10434 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
10357 TACCATCCAT
*
10367 AATATATCCTT-AAA
1 AATAAATCCTTAAAA
10381 AATAAATCCTTTAAAA
1 AATAAATCC-TTAAAA
* * *
10397 AATACATTCTTAAAT
1 AATAAATCCTTAAAA
*
10412 AAT--ATCCTTCAAA
1 AATAAATCCTTAAAA
10425 AATAAATCCT
1 AATAAATCCT
10435 AGGGATGCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
13 10 0.23
14 8 0.19
15 15 0.35
16 10 0.23
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (15 bp):
AATAAATCCTTAAAA
Found at i:10605 original size:19 final size:19
Alignment explanation
Indices: 10587--10627 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
10577 TATTAATTAT
*
10587 TTTA-ATATTATATTTTTA
1 TTTATATATTACATTTTTA
*
10605 TTTATATATTACATTTTTG
1 TTTATATATTACATTTTTA
10624 TTTA
1 TTTA
10628 AAAACTACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTATATATTACATTTTTA
Found at i:10760 original size:13 final size:13
Alignment explanation
Indices: 10742--10768 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10732 AAATATAATA
10742 AATATGATTTATG
1 AATATGATTTATG
10755 AATATGATTTATG
1 AATATGATTTATG
10768 A
1 A
10769 GGTTATAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (13 bp):
AATATGATTTATG
Found at i:12689 original size:32 final size:32
Alignment explanation
Indices: 12648--12712 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
12638 TTAGGCTTTT
12648 TTTTTTTGGAAGGAAAGATAGAATTGCTTTGA
1 TTTTTTTGGAAGGAAAGATAGAATTGCTTTGA
12680 TTTTTTTGGAAGGAAAGATAGAATTGCTTTGA
1 TTTTTTTGGAAGGAAAGATAGAATTGCTTTGA
12712 T
1 T
12713 AGAAATTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.03, G:0.25, T:0.42
Consensus pattern (32 bp):
TTTTTTTGGAAGGAAAGATAGAATTGCTTTGA
Found at i:13806 original size:25 final size:25
Alignment explanation
Indices: 13778--13827 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
13768 CTTGATGTTG
13778 GCTTAGATGAATAAAAATAATTGAT
1 GCTTAGATGAATAAAAATAATTGAT
*
13803 GCTTAGATGAATAAAAGTAATTGAT
1 GCTTAGATGAATAAAAATAATTGAT
13828 CATATTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.18, T:0.32
Consensus pattern (25 bp):
GCTTAGATGAATAAAAATAATTGAT
Found at i:17521 original size:21 final size:22
Alignment explanation
Indices: 17481--17521 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
17471 GACAAACTCG
*
17481 TAACCCGAATAACCCGAGAAGA
1 TAACCCGAATAACCCAAGAAGA
*
17503 TAACCCG-ATGACCCAAGAA
1 TAACCCGAATAACCCAAGAA
17522 TATTATAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.44, C:0.29, G:0.17, T:0.10
Consensus pattern (22 bp):
TAACCCGAATAACCCAAGAAGA
Found at i:18746 original size:6 final size:6
Alignment explanation
Indices: 18729--18783 Score: 94
Period size: 6 Copynumber: 9.3 Consensus size: 6
18719 GTAGTTTTTA
*
18729 ATATAG -TATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATAAAG
1 ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG
18776 ATATAG AT
1 ATATAG AT
18784 GTATTTTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
5 5 0.11
6 41 0.89
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.33
Consensus pattern (6 bp):
ATATAG
Found at i:20301 original size:21 final size:21
Alignment explanation
Indices: 20284--20330 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
20274 ATAAATTGGA
*
20284 CTTGAGGAGGAGAGAATTATG
1 CTTGAGGAGGAGAGAATTAGG
* *
20305 TTTGAGGAGGAGAGAATTATG
1 CTTGAGGAGGAGAGAATTAGG
20326 CTTGA
1 CTTGA
20331 TTGTGTGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.36, T:0.28
Consensus pattern (21 bp):
CTTGAGGAGGAGAGAATTAGG
Found at i:25948 original size:22 final size:23
Alignment explanation
Indices: 25899--25952 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 23
25889 CTGGCAAGAT
*
25899 ATTATCAAGTGATAAATGGAGAGA
1 ATTATC-AGAGATAAATGGAGAGA
25923 ATTATCAGAGATAAA-GGAGA-A
1 ATTATCAGAGATAAATGGAGAGA
25944 GATTATCAG
1 -ATTATCAG
25953 CAACATTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 1 0.04
22 13 0.46
23 8 0.29
24 6 0.21
ACGTcount: A:0.46, C:0.06, G:0.24, T:0.24
Consensus pattern (23 bp):
ATTATCAGAGATAAATGGAGAGA
Found at i:26962 original size:20 final size:20
Alignment explanation
Indices: 26925--26963 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
26915 ATTACTAAAC
*
26925 CAATCATCCTCAATACTCTT
1 CAATCATCCTCAAAACTCTT
26945 CAAT-ATCCTCCAAAACTCT
1 CAATCATCCT-CAAAACTCT
26964 ACTTTTCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (20 bp):
CAATCATCCTCAAAACTCTT
Found at i:27347 original size:87 final size:86
Alignment explanation
Indices: 27098--27334 Score: 282
Period size: 87 Copynumber: 2.7 Consensus size: 86
27088 CCATAAATTG
* * * * * *
27098 CCATAT-TCCCATTAGCAAGATCACACTGATTTGAATTCAAAATATCCACCACCAAATCAGTTTC
1 CCATATCT-CCATTAGGAAGATCAC-TTTATTTGAATTCAAACTATCCTCCACCTAATCAGTTTC
* *
27162 CAAAGATTTTGCATCATAACTTA
64 CAAAGATTTTGCACCATAACTCA
* * * *
27185 CCATAACTCCATTAGGAAGAGCACTAATATTTGAATTCAAACTATCCTCTACCATAAT-AGTTTC
1 CCATATCTCCATTAGGAAGATCACT-TTATTTGAATTCAAACTATCCTCCACC-TAATCAGTTTC
27249 CAAAGATTTTGCACCATAAC-CA
64 CAAAGATTTTGCACCATAACTCA
*
27271 CCCATATCTCCATTAGGAAGATCACGTTTATTTGAATTCAAACTATCCTCCACCTTATCAGTTT
1 -CCATATCTCCATTAGGAAGATCAC-TTTATTTGAATTCAAACTATCCTCCACCTAATCAGTTT
27335 TCGCAGAATT
Statistics
Matches: 127, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
86 4 0.03
87 118 0.93
88 5 0.04
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (86 bp):
CCATATCTCCATTAGGAAGATCACTTTATTTGAATTCAAACTATCCTCCACCTAATCAGTTTCCA
AAGATTTTGCACCATAACTCA
Found at i:29572 original size:23 final size:23
Alignment explanation
Indices: 29546--29592 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
29536 CATGGATGAT
29546 TCTCTCACAACAACCTAAAGCTA
1 TCTCTCACAACAACCTAAAGCTA
29569 TCTCTCACAACAACCTAAAGCTA
1 TCTCTCACAACAACCTAAAGCTA
29592 T
1 T
29593 ATTAGCTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.34, G:0.04, T:0.23
Consensus pattern (23 bp):
TCTCTCACAACAACCTAAAGCTA
Found at i:35609 original size:29 final size:32
Alignment explanation
Indices: 35565--35625 Score: 92
Period size: 29 Copynumber: 2.0 Consensus size: 32
35555 AACGAACTGA
*
35565 GACTAGACTCGAAACTGACTCGAAAA-AAACT
1 GACTAGACTCGAAACTGACTCAAAAACAAACT
35596 GACT-GACTC-AAACTGACTCAAAAACAAACT
1 GACTAGACTCGAAACTGACTCAAAAACAAACT
35626 CAAATAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 14 0.50
30 10 0.36
31 4 0.14
ACGTcount: A:0.46, C:0.25, G:0.13, T:0.16
Consensus pattern (32 bp):
GACTAGACTCGAAACTGACTCAAAAACAAACT
Found at i:40975 original size:55 final size:55
Alignment explanation
Indices: 40909--41022 Score: 210
Period size: 55 Copynumber: 2.1 Consensus size: 55
40899 CAATTGTTAT
*
40909 TGGGGGCAGATTATCATCACTTTTGGGCTAATCTATGTCACACAAAAACACTAAA
1 TGGGGGCAGATTATCATCACTTTTGGCCTAATCTATGTCACACAAAAACACTAAA
*
40964 TGGGGGCAGATTATCATCACTTTTGGCCTAATCTATGTCAGACAAAAACACTAAA
1 TGGGGGCAGATTATCATCACTTTTGGCCTAATCTATGTCACACAAAAACACTAAA
41019 TGGG
1 TGGG
41023 AAATGATTAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (55 bp):
TGGGGGCAGATTATCATCACTTTTGGCCTAATCTATGTCACACAAAAACACTAAA
Found at i:48060 original size:22 final size:22
Alignment explanation
Indices: 48011--48509 Score: 119
Period size: 22 Copynumber: 22.5 Consensus size: 22
48001 TGATAATCAA
* ** *
48011 ACCAAAATTACATAGAAAGATT
1 ACCAAAATTTCATAGTGAGGTT
* * *
48033 ATCAAAATTTCGTAGTGTGGTT
1 ACCAAAATTTCATAGTGAGGTT
*
48055 ACCAAAATTTCATA-TAGAGATT
1 ACCAAAATTTCATAGT-GAGGTT
* *
48077 ATCAAAACTTCATAGTGTA-GTT
1 ACCAAAATTTCATAGTG-AGGTT
* **
48099 ATCAAAATTTCATACAGAGGTT
1 ACCAAAATTTCATAGTGAGGTT
*
48121 ACCAAAATTTCATAGGGAGGGAGGTT
1 ACCAAAATTTCAT----AGTGAGGTT
*
48147 ACCAAAA-TT--T-GT--GCTT
1 ACCAAAATTTCATAGTGAGGTT
* * *
48163 ATCAAAATTTCCTAGAGAGGTT
1 ACCAAAATTTCATAGTGAGGTT
* * *
48185 AACAAAATTTTATAGGGAGGTT
1 ACCAAAATTTCATAGTGAGGTT
** * * *
48207 ATGAAAATTTTATGGAGAGGTT
1 ACCAAAATTTCATAGTGAGGTT
* * *
48229 ATCGAAAA-TACATAGAGAGGATAT
1 A-CCAAAATTTCATAGTGAGG-T-T
*** *
48253 CACCGTTTCATTCTCATAGGGAGGTT
1 -ACC--AAAATT-TCATAGTGAGGTT
* * * *
48279 ATCGAAATTTCATGGTGTGGTT
1 ACCAAAATTTCATAGTGAGGTT
* *
48301 ATCAAAATTTTCATAGTGCGGTT
1 ACCAAAA-TTTCATAGTGAGGTT
* * *
48324 ACC--AATTTTATTTAGTGTGATT
1 ACCAAAATTTCA--TAGTGAGGTT
** * *
48346 ATTAAAATTTTATAG-GCAGATT
1 ACCAAAATTTCATAGTG-AGGTT
* * * *
48368 ATCAAAATTTCACACTGAGATT
1 ACCAAAATTTCATAGTGAGGTT
* *
48390 ATCGAAATTTCATAGT-ATGGTT
1 ACCAAAATTTCATAGTGA-GGTT
* *
48412 ACCCAAATTTCATAGTGTGGTT
1 ACCAAAATTTCATAGTGAGGTT
* * * * *
48434 ATCGAATTTTCGTAGGGAGGTT
1 ACCAAAATTTCATAGTGAGGTT
* * *
48456 ATCGAAATTTCATA-TTAGGTT
1 ACCAAAATTTCATAGTGAGGTT
* * *
48477 ATC-AAATTTGCAAAATGAGGTT
1 ACCAAAATTT-CATAGTGAGGTT
* *
48499 ATCAATATTTC
1 ACCAAAATTTC
48510 TACATTGGAG
Statistics
Matches: 359, Mismatches: 84, Indels: 68
0.70 0.16 0.13
Matches are distributed among these distances:
16 9 0.03
17 2 0.01
18 1 0.00
19 1 0.00
20 11 0.03
21 17 0.05
22 244 0.68
23 33 0.09
24 9 0.03
25 5 0.01
26 16 0.04
27 2 0.01
28 9 0.03
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (22 bp):
ACCAAAATTTCATAGTGAGGTT
Found at i:48076 original size:44 final size:44
Alignment explanation
Indices: 48011--48135 Score: 160
Period size: 44 Copynumber: 2.8 Consensus size: 44
48001 TGATAATCAA
* * * * *
48011 ACCAAAATTACATAGAAAGATTATCAAAATTTCGTAGTGTGGTT
1 ACCAAAATTTCATACAGAGATTATCAAAATTTCATAGTGTAGTT
* *
48055 ACCAAAATTTCATATAGAGATTATCAAAACTTCATAGTGTAGTT
1 ACCAAAATTTCATACAGAGATTATCAAAATTTCATAGTGTAGTT
* * *
48099 ATCAAAATTTCATACAGAGGTTACCAAAATTTCATAG
1 ACCAAAATTTCATACAGAGATTATCAAAATTTCATAG
48136 GGAGGGAGGT
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 70 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.32
Consensus pattern (44 bp):
ACCAAAATTTCATACAGAGATTATCAAAATTTCATAGTGTAGTT
Found at i:48436 original size:44 final size:44
Alignment explanation
Indices: 48266--48482 Score: 140
Period size: 44 Copynumber: 4.9 Consensus size: 44
48256 CGTTTCATTC
* * *
48266 TCATAGGGAGGTTATCGAAATTTCATGGTGTGGTTATCAAAATTT
1 TCATAGGTAGGTTATCCAAATTTCATAGTGTGGTTATCAAAA-TT
* * * *
48311 TCATA-GTGCGGTTA-CC-AATTTTATTTAGTGTGATTATTAAAATT
1 TCATAGGT-AGGTTATCCAAATTTCA--TAGTGTGGTTATCAAAATT
* * * * * * * * *
48355 TTATAGGCAGATTATCAAAATTTCACACTGAGATTATCGAAATT
1 TCATAGGTAGGTTATCCAAATTTCATAGTGTGGTTATCAAAATT
* * *
48399 TCATA-GTATGGTTACCCAAATTTCATAGTGTGGTTATCGAATTT
1 TCATAGGTA-GGTTATCCAAATTTCATAGTGTGGTTATCAAAATT
* * *
48443 TCGTAGGGAGGTTATCGAAATTTCATA-T-TAGGTTATCAAA
1 TCATAGGTAGGTTATCCAAATTTCATAGTGT-GGTTATCAAA
48483 TTTGCAAAAT
Statistics
Matches: 130, Mismatches: 33, Indels: 20
0.71 0.18 0.11
Matches are distributed among these distances:
42 1 0.01
43 18 0.14
44 77 0.59
45 28 0.22
46 6 0.05
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (44 bp):
TCATAGGTAGGTTATCCAAATTTCATAGTGTGGTTATCAAAATT
Found at i:48436 original size:66 final size:65
Alignment explanation
Indices: 48366--48509 Score: 146
Period size: 66 Copynumber: 2.2 Consensus size: 65
48356 TATAGGCAGA
* * * *
48366 TTATCAAAATTTCACACTGAGATTATCGAAATTTCATAGTATGGTTACCCAAATTT-CATAGTGT
1 TTATCAAAATTTCACACGGAGATTATCGAAATTTCATAGTA-GGTTA-CCAAATTTGCAAAATGA
48430 GG
64 GG
* * ** * * * *
48432 TTATCGAATTTTCGTAGGGAGGTTATCGAAATTTCATATTAGGTTATCAAATTTGCAAAATGAGG
1 TTATCAAAATTTCACACGGAGATTATCGAAATTTCATAGTAGGTTACCAAATTTGCAAAATGAGG
*
48497 TTATCAATATTTC
1 TTATCAAAATTTC
48510 TACATTGGAG
Statistics
Matches: 62, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
64 7 0.11
65 22 0.35
66 33 0.53
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (65 bp):
TTATCAAAATTTCACACGGAGATTATCGAAATTTCATAGTAGGTTACCAAATTTGCAAAATGAGG
Found at i:49517 original size:3 final size:3
Alignment explanation
Indices: 49509--49553 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
49499 AGTATTCGAA
49509 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
49554 AATAGTAGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:49693 original size:19 final size:19
Alignment explanation
Indices: 49642--49694 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
49632 TGTTAATTAA
*
49642 AAATGTTTCACGATCTACC
1 AAATGTTTCAAGATCTACC
* * *
49661 AATTGATTCCAGATCTACC
1 AAATGTTTCAAGATCTACC
49680 AAATGTTTCAAGATC
1 AAATGTTTCAAGATC
49695 GTAAAAAAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (19 bp):
AAATGTTTCAAGATCTACC
Found at i:50366 original size:22 final size:22
Alignment explanation
Indices: 50341--50418 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
50331 ATCTAGGTAT
50341 TAATTTTTAGTATAAAAAATAA
1 TAATTTTTAGTATAAAAAATAA
** * ** *
50363 TAATTTGAAAGT-TAATCTAGGTAT
1 TAATTT-TTAGTATAA--AAAATAA
*
50387 TAATTTTTAGTATAAGAAATAA
1 TAATTTTTAGTATAAAAAATAA
50409 TAATTTTTAG
1 TAATTTTTAG
50419 GTAAATCGTT
Statistics
Matches: 40, Mismatches: 12, Indels: 8
0.67 0.20 0.13
Matches are distributed among these distances:
22 22 0.55
23 6 0.15
24 12 0.30
ACGTcount: A:0.45, C:0.01, G:0.10, T:0.44
Consensus pattern (22 bp):
TAATTTTTAGTATAAAAAATAA
Found at i:57292 original size:29 final size:29
Alignment explanation
Indices: 57250--57312 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
57240 ACTTGTAGCG
* * *
57250 TTTGGACGTTTTG-CCTCCTGAATTTCAAT
1 TTTGGACATTTTGCCCT-CTAAACTTCAAT
57279 TTTGGACATTTTGCCCTCTAAACTTCAAT
1 TTTGGACATTTTGCCCTCTAAACTTCAAT
57308 TTTGG
1 TTTGG
57313 GGTGTTTTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 27 0.90
30 3 0.10
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (29 bp):
TTTGGACATTTTGCCCTCTAAACTTCAAT
Found at i:60436 original size:332 final size:330
Alignment explanation
Indices: 58759--63490 Score: 3586
Period size: 332 Copynumber: 14.3 Consensus size: 330
58749 TTTCACGATT
* * *
58759 TTTTTCATATTTTTTCTCAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCACATAAAAA
1 TTTTTCATA-TTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA
* ** * * * * *
58824 CAAATCCTTAAATCCAATGTGATTGAAATTTGGTTAGATGAATAAAAAATATTTCAAGGAGTCTC
65 CAAATCCTTAAATTCAATGTGGCTGAGATTTGATTAGATGAAT-ATAGATATTTCAAGGAGTCTT
* ** * *
58889 GGTGCCAAAAATCATGCAAAAC-AGAGCCGTAGCTCTGTAACGCGTTTTTAGCCAAAAACC--G-
129 GGCGCCAAAAATCATGCAAAACTA-AGCCGGGGC-CCGGAACGCGTTTTTAGCCAAAAACCGTGA
* * *
58950 TG---A-T----GATTTCGGCTAAAATTTTACAAAAATTGACCCGAAAGATATTTCCTCAATTTT
192 TGATTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTTCCTCAATTTT
* *** * *
59007 TGGC-TAAAATACTCATAAAAAATATATAATTCGATATCAAAAAGATTG-AGGGCTTTTAATGCT
257 TGGCAT-AAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCT
* *
59070 TCTAATATTG
321 TTTAATATCG
* **
59080 TTTTTCCTATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGACTT-AGATGCTCGTAAA
1 TTTTT-C-ATATTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGA-TTCAGATGCTCGTAAA
* * * *
59144 AATAAATCCTTAAA-TCTAATGTGGCTGAGATTTGGTTAGATGAATAAAAATATTTCAAGGAGTC
63 AACAAATCCTTAAATTC-AATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTC
* * * * *
59208 TTGGCACCAAAAATCATGCAAAACTGAGTCGGGCCCCGGAACGCGTTTTTAGCCGAAAACCGTGA
127 TTGGCGCCAAAAATCATGCAAAACTAAGCCGGGGCCCGGAACGCGTTTTTAGCCAAAAACCGTGA
* * *
59273 TGATTAGTATACGATTTCGGCT-AAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTC-GTTTT
192 TGATTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTTCCTCAATTTT
* * * * * *
59336 CAAGTG-A-AAATACTCATAAAAAACAAATAATTCAACACCAAAAAAATTGAA-AGCTTTTTTCA
257 --TG-GCATAAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGC--TTTTCA
* *
59398 TGCTTCTAATATCG
317 CGCTTTTAATATCG
* * * * * ** *
59412 TTTTTCCTATTTTATTTCAAAATCAATTTCTGATTAAATCGAAACAAGATTTAGAAACTCGTACA
1 TTTTT-C-ATATT-TTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAA
* ** * * * * * *
59477 AACAAATTCTTAAATAAAATGTGACTGAGATTTGGTTAGATGAATATATATATAT-ATA-TAAT-
63 AACAAATCCTTAAATTCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCA-AGGAGTC
* * ***
59539 AT-GCACCAAAAATCATGCAAAACTAA-CCTAAAGCCTCGGAACGCGTTTTTAAGCCTAAAAAAA
127 TTGGCGCCAAAAATCATGCAAAACTAAGCC-GGGGCC-CGGAACGCGTTTTT-AGCC----AAAA
** * * * *
59602 ACCAAGATG-GTA-TACA--ATTTCGGCTAAAATTTTACAAACATTGACCCGAAATATTTTT-CT
185 ACCGTGATGATTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTTCCT
* * *
59662 CAATTTTTAGCCA-CAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTC
250 CAATTTTT-GGCATAAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTT
*
59726 TCACGCTTCTAATATCG
314 TCACGCTTTTAATATCG
* * * * *
59743 TTTTTCCTATTTGTTTTCAAATTAATTTCTAATTAAATTGAAACATGATTCAAATGCTCGTAAAA
1 TTTTTCATATTT-TTCT-AAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
* * * * * * *
59808 ACAAATCCTTAAGTCCAATGTGGCTAAGATTTGGTTAGATGAATATAGAAATTTCAAGGAATGTT
64 ACAAATCCTTAAATTCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTT
* * * * * * * *
59873 GCCACTAAAAATAATACAAAACT-GGCCCGGGGCTCCAGAACGCGTTTTTAGCCAAAAAATCGTG
129 GGCGCCAAAAATCATGCAAAACTAAG-CCGGGGC-CCGGAACGCGTTTTTAGCC-AAAAACCGTG
* * *
59937 ATG----GTACACGATTTCGGCTAAAA-TTTCCAAAAATTGACCCGAAATATTTTTCCTCCATTT
191 ATGATTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTTCCTCAATTT
* * * * * * * * *
59997 TTAGCCA-CAA-ACTCATAGAATATATATATAATTAAAAGCCAAAAAAATTGGAGGACTCTTCAC
256 TT-GGCATAAATACTCATA-AA-AAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCAC
60060 GCTTTTAATATCG
318 GCTTTTAATATCG
*
60073 TTTTTCATATTTTTCTTAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAC
1 TTTTTCATATTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAC
* * * * * *
60138 AAATCCTTAAATTGAATGTGACTAATATTTGATTAGTTAAATATAGATATTTCAAGGAGTCTTGG
66 AAATCCTTAAATTCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGG
* *
60203 CGCCAAAAATCATGCAAAACTAAGCCGGGGTCCCGAAACGCGTTTTTAACC-AAAACCGTGATGA
131 CGCCAAAAATCATGCAAAACTAAGCCGGGG-CCCGGAACGCGTTTTTAGCCAAAAACCGTGATGA
** * * * *
60267 TTAGTACACGATTTCGGCTAAAATTTTATAAAAAAATGACTCGAAAAATTTTTCTGTTAATTTTT
195 TTAGTACACGATTTCGGCTAAAATTTT-GCAAAAATTGACCCGAAAAATTTTTC-CTCAATTTTT
* * * * * * *
60332 GGCATAAATACTCATAAAATATATATAATTTAATGTCAAAAGGATTGGAGGACTTTTCACGCTTT
258 GGCATAAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTT
60397 TAATATCG
323 TAATATCG
* * * *
60405 TTTGTCATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCCGATGCTCGTAAAACC
1 TTTTTCATATTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAC
* * * * * * * * *
60470 AAATTCTTAAATCCAATGTAGCTAAGATTTAATTAGATGAATATGGATATCTCAAAGAGTTTTGG
66 AAATCCTTAAATTCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGG
* * * *
60535 CACCAAAAATCATGCAAAACTTAGCCGGGGCCCCGGAACGTGTTTTTAGCCAAAAACTGTGATGA
131 CGCCAAAAATCATGCAAAACTAAGCCGGGG-CCCGGAACGCGTTTTTAGCCAAAAACCGTGATGA
* * * * * *
60600 TTATTACACGATTTCGACTAAAATTTTGCAAAAAAATTAACTCG-AAAGTTATTTCCTCAAGTTT
195 TTAGTACACGATTTCGGCTAAAATTTTGC--AAAAATTGACCCGAAAAATT-TTTCCTCAATTTT
* * * * *
60664 TAG-TTGCAATACTCAGT--AAAATCATATAATTCAACGCCAAAAAGATTGAAGGGTTTTTCATG
257 TGGCAT-AAATACTCA-TAAAAAAT-ATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACG
* *
60726 CTTCTAGTATCG
319 CTTTTAATATCG
* * * * * *
60738 TTTTTCCTATTATTT-TCAAGATTAATTTCTAATTAAGTTGAAACATGATTCAGATGCTTGT-AT
1 TTTTTCATATT-TTTCT-AA-ATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAA
* * * * * * *
60801 TACAAATCCTTAAATCCATTATGGATGAGATTTGGTTAGATTAATATAGATATTTCAAGGAGT-T
63 AACAAATCCTTAAATTCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCT
* * * * * ** *
60865 TCGGCGCAAAAAATCAAGCAACACTGAA-CCGGGGCCCCCGACCGCGTTTTTAGAAAAAAAACCA
128 T-GGCGCCAAAAATCATGCAAAACT-AAGCCGGGG-CCCGGAACGCGTTTTTAG-CCAAAAACCG
* * * * * *
60929 TGATTTCGACTAACGCACACGATTTCGCCTAATATTTTGCAAAAATTGA-AC-ATAAA-------
189 TGA--T-GA-TTA-GTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTTCC
* * * *
60985 T--A------G--T--ATA-T-AT---ATATATATAATTCAACTCCAAAAACATT-AGAGGACTT
249 TCAATTTTTGGCATAAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGA-AGGGCTT
*
61032 TTCACGTTTTTAATA-CTG
313 TTCACGCTTTTAATATC-G
* ** * *
61050 TTTTTCATAGTTTTCTAAATTAAAATCTAATTAAATCGAAATAAGATTCAGATGCTTGTAAAAAC
1 TTTTTCATATTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAC
* * * * **
61115 AAAT-CTTTAATTGCAATGTGGCCGAGATTTGATTAGATGAATATATATATTTCAATGAGTCTCA
66 AAATCCTTAAATT-CAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTG
** * ** * * * *
61179 ATGCCAAAAATCATGCAAAACTGAGATGAGGTCCCGAAACCCGTTTTTAGCAAAAAAAAAAAAAC
130 GCGCCAAAAATCATGCAAAACTAAGCCG-GGGCCCGGAACGCGTTTTTAGC-------CAAAAAC
* * * * *
61244 CGTGATGGTTAGTACACGATTTCGCCTAAAATTTTACAAAAA-AGA-CC-AAAAACATTTTCCTC
187 CGTGATGATTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAA-TTTTTCCTC
* * * * * * *
61306 AATTTTTGGC-TAAAATACTTATGAAATATATATAATTTAACACCAAAAAGATTGGAGGGCGTTT
251 AATTTTTGGCAT-AAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTT
* *
61370 CACGATTTTCATATCG
315 CACGCTTTTAATATCG
* * * * * *
61386 TTTTTCATAGTTTTTTCTGAATTAATTTATAATTTAATCAAAATAAGATTTAGATGCTCGTAAAA
1 TTTTTCATA--TTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
* ** * * *
61451 ACAAATCCTTAAATGCAATGTGTTTGAGATTTAATTAGATGAATATAGATATCTCAAGTAGTCTT
64 ACAAATCCTTAAATTCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTT
* * * * * *
61516 AGCGCCAAAAATCATGCAAAACTAACCCAGGGCCTTGGAACACATTTTTAGCCAAAAACCGTGAT
129 GGCGCCAAAAATCATGCAAAACTAAGCCGGGGCC-CGGAACGCGTTTTTAGCCAAAAACCGTGAT
* * * * * *
61581 GATTATTACACGATTTCGGCTAAAATTTTGCAAAAAATGACCGGAAAGATATTTCATCAATTTTT
193 GATTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTTCCTCAATTTTT
* * * * * * * *
61646 TGC-TAAAT-CATCATAAAAAATAATGTAACTCTATGCCAAAAATATTGAAGGACTTTTTACGCT
258 GGCATAAATAC-TCATAAAAAAT-ATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCT
* *
61709 TCTAATATAG
321 TTTAATATCG
* * ** * *
61719 TTTTTCCTACTATTTCCGAATTAATTTCTAATTAAATCGAAAGAAGATTTAGATGCTCGT-AAAA
1 TTTTTCATA-TTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA
* * * * * *
61783 CAAATCCTTAAATCCAATGCGGCTGAGATTTGATTAGTTTAATAGAGATAGTTCAAGGAGTCTTG
65 CAAATCCTTAAATTCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTG
* * * * * * * *
61848 ACACCAAAAATCATGCAATACTGACCCGGGGTCCTGGAACGCGTTTTTAGCAAAAAAAAAAATAT
130 GCGCCAAAAATCATGCAAAACTAAGCCGGGG-CCCGGAACGCGTTTTTAGC------CAAAA-AC
* * * * * *
61913 CGTGATG-TT-G--CACGTTTTCGCCTAATATTTTGCAAAAAATT-ACGCGGAATATTTTT-CTC
187 CGTGATGATTAGTACACGATTTCGGCTAAAATTTTGC-AAAAATTGACCCGAAAAATTTTTCCTC
* * *
61972 AATTTTTAGTCA-CAATACTCAT-AAAAATATATAATTTAACGCCAAAAAGATTGAAGGGCTTTT
251 AATTTTT-GGCATAAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTT
* *
62035 CATG-TTTCTAATACCG
315 CACGCTTT-TAATATCG
* * * * * * * *
62051 TTTTCCCTATTTTTATGAATTAAATTCTAATTACAA-AGAAACATGATTCAAATGCT--TATAAA
1 TTTTTCATATTTTTCTAAATTAATTTCTAATTA-AATCGAAACAAGATTCAGATGCTCGTA-AAA
* * * *
62113 A-AAA----T-GA--C----T-G--G-GATTTGGTTAGATGAATATAGACATTTCCAGGAGTCTT
64 ACAAATCCTTAAATTCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTT
* * * * * ** * *
62162 GACGCCTAATATCATTCAAATCTGAA--ATGGGCCTCAGAACGCGTTTTTAGCCAAAACCCGTGA
129 GGCGCCAAAAATCATGCAAAACT-AAGCCGGGGCC-CGGAACGCGTTTTTAGCCAAAAACCGTGA
* * * * *
62225 TGATTATTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCCAGAGATATTTCCTCAATTTT
192 TGATTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTTCCTCAATTTT
** * * *
62290 TATCCAT-AATATTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTGATGCT
257 T-GGCATAAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCT
62354 TTTAATATCG
321 TTTAATATCG
* *
62364 TTTTTCATATTTTTCTAAATTAATTTCTAATTAAATCGAAACATGATTCAGATTCTCGTTAAAAA
1 TTTTTCATATTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCG-TAAAAA
* * * * *
62429 CCAAAAAAAAAAAT-CTTAAATGCAATGTGGCTAAGATTTTATTAGATAAATATAGTTATTTCAA
65 -C--------AAATCCTTAAATTCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAA
* * * * * * * ** *
62493 AGAGTGTCGGTGCCAAAAATTATGCAAAACTGAGCTGGTACCCCGAAACGCGTTTTTAGCCAAAA
121 GGAGTCTTGGCGCCAAAAATCATGCAAAACTAAGCCGG-GGCCCGGAACGCGTTTTTAGCCAAAA
* * * * *
62558 ATCGTGAT-A-T-GTACACGATTTTGACTAAAATTTTGC-AAAATATAACCCAAAAAATTTTTCC
185 ACCGTGATGATTAGTACACGATTTCGGCTAAAATTTTGCAAAAAT-TGACCCGAAAAATTTTTCC
* *
62619 TCAATTTTTGG-ATAAAATACTCCTAAGTGTATACATATATATATATATATATAATTTAACGGCA
249 TCAATTTTTGGCAT-AAATA---C--------T-CATA-A-A-A-A-ATATATAATTCAACGCCA
* * *
62683 AAAAGATTGGAGGACTTTTCACGCCTTTAATATCG
296 AAAAGATTGAAGGGCTTTTCACGCTTTTAATATCG
*** * *
62718 TTTTTCATATTTTTCGGTATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTTGTAAAAA-
1 TTTTTCATATTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAC
** * * * * *
62782 AAATTTTTAAATCCAATGTGGTTGTGATTTGATTAGATGAGTATAGATATCTCAAGGAGTCTTGG
66 AAATCCTTAAATTCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGG
* ** ** * *
62847 CGCCAAAAATCATGCAAAACTGAGCCGGGGCCACAAAACGTTTTTTTTATCCAAAAACTGTGATG
131 CGCCAAAAATCATGCAAAACTAAGCCGGGGCC-CGGAACG-CGTTTTTAGCCAAAAACCGTGATG
* * * * *
62912 GTTATTACACGATTTCGGCTAAAATTTTGTAAAAATTGACCCGAAAGATATTTCCTCAATTTTTG
194 ATTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTTCCTCAATTTTTG
* * * * *
62977 GC-TAAAATATTCATAAAAAATATATAACTCAATGCCAAAAAGATTGAAGGACTTTTGACG-TTT
259 GCAT-AAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTT
*
63040 CTAATATTG
323 -TAATATCG
* *
63049 TCTTTTCTATATTTTTCCAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAG
1 T-TTTTC-ATATTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
* * *
63114 ACAAATCTTTAAA-TCTAATGTGGGTGAGATTTGATTAGATGAATATAGATATTTCAAGTAGTCT
64 ACAAATCCTTAAATTC-AATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCT
* * * * * *** * *
63178 CGGAGCCAAAAATCATGCGAAATTGAGCCTGTTCCCCGGAACGTGTTTTTAGCCAAAATCCGTGA
128 TGGCGCCAAAAATCATGCAAAACTAAGCC-GGGGCCCGGAACGCGTTTTTAGCCAAAAACCGTGA
* * *
63243 TGGTTTGTTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACAC-AAAAGATTTCTT-CTC
192 T-G---ATTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAA-ATTT-TTCCTC
* * *
63306 AATTTTTGGC-TAAAATACTAAT-AAAAATATATAATTCAACGTCAAAAAGATTGGAGGGCTTTT
251 AATTTTTGGCAT-AAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTT
* *
63369 TACGCTTTTGATATCG
315 CACGCTTTTAATATCG
* * *
63385 TATTTCTTATTTTTTCTAAATTAATTTCTAATTAAATCGAGACAAGATTCAGATGCTCGTAAAAA
1 TTTTTCATA-TTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA
* * * *
63450 TAAATTCTTAAATCCAATGTTGCTGAGATTTGATTAGATGA
65 CAAATCCTTAAATTCAATGTGGCTGAGATTTGATTAGATGA
63491 TGTAAAGTAT
Statistics
Matches: 3532, Mismatches: 643, Indels: 458
0.76 0.14 0.10
Matches are distributed among these distances:
307 7 0.00
308 6 0.00
310 49 0.01
311 121 0.03
312 103 0.03
313 102 0.03
314 23 0.01
315 54 0.02
316 5 0.00
317 14 0.00
318 1 0.00
319 1 0.00
320 24 0.01
321 53 0.02
322 86 0.02
323 7 0.00
325 4 0.00
326 13 0.00
327 7 0.00
328 173 0.05
329 61 0.02
330 264 0.07
331 288 0.08
332 448 0.13
333 429 0.12
334 253 0.07
335 151 0.04
336 123 0.03
337 133 0.04
338 149 0.04
339 54 0.02
340 49 0.01
341 2 0.00
343 6 0.00
344 78 0.02
345 18 0.01
347 1 0.00
348 56 0.02
349 9 0.00
350 1 0.00
351 1 0.00
352 1 0.00
353 7 0.00
354 97 0.03
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (330 bp):
TTTTTCATATTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAC
AAATCCTTAAATTCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGG
CGCCAAAAATCATGCAAAACTAAGCCGGGGCCCGGAACGCGTTTTTAGCCAAAAACCGTGATGAT
TAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAAATTTTTCCTCAATTTTTGGC
ATAAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTCACGCTTTTAA
TATCG
Found at i:61795 original size:331 final size:328
Alignment explanation
Indices: 60997--63490 Score: 1902
Period size: 331 Copynumber: 7.5 Consensus size: 328
60987 GTATATATAT
* * * * * * *
60997 ATATATAATTCAACTCCAAAAACATT-AGAGGACTTTTCACGTTTTTAATA-CTGTTTTTCATAG
1 ATATATAA-TCTACGCCAAAAAGATTGA-AGGGCTTTTCACGCTTCTAATATC-GTTTTTCATAT
* ** * * *
61060 TTTTCTAAATTAAAATCTAATTAAATCGAAATAAGATTCAGATGCTTGTAAAAACAAATCTTTAA
63 TTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAA
* * * * ****
61125 TTGCAATGTGGCCGAGATTTGATTAGATGAATATATATATTTCAATGAGTCTCAATGCCAAAAAT
128 ATGCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAAT
* * * * *
61190 CATGCAAAACTGA-GATGAGGTCCCGAAACCCGTTTTTAGCAAAAAAAAAAAAACCGTGATGGTT
193 CATGCAAAACTGACCA-G-GG-CCCGGAACGCGTTTTTAGC-------CAAAAACCGTGATGATT
* * * * *
61254 AGTACACGATTTCGCCTAAAATTTTACAAAAAA-GACCAAAAACAT-TTTCCTCAATTTTTGGCT
248 ATTACACGATTTCGGCTAAAATTTTGCAAAAAATGACCCAAAAGATATTTCCTCAATTTTTGGCT
* * *
61317 AAAATACTTATGAAAT
313 AAAATACTCATAAAAA
* * * * * * *
61333 ATATATAATTTAACACCAAAAAGATTGGAGGGCGTTTCACGATTTTCATATCGTTTTTCATAGTT
1 ATATATAATCT-ACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCATA--T
* * * * *
61398 TTTTCTGAATTAATTTATAATTTAATCAAAATAAGATTTAGATGCTCGTAAAAACAAATCCTTAA
63 TTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAA
** * * * *
61463 ATGCAATGTGTTTGAGATTTAATTAGATGAATATAGATATCTCAAGTAGTCTTAGCGCCAAAAAT
128 ATGCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAAT
* * * *
61528 CATGCAAAACTAACCCAGGGCCTTGGAACACATTTTTAGCCAAAAACCGTGATGATTATTACACG
193 CATGCAAAACTGA-CCAGGGCC-CGGAACGCGTTTTTAGCCAAAAACCGTGATGATTATTACACG
** * *
61593 ATTTCGGCTAAAATTTTGCAAAAAATGACCGGAAAGATATTTCATCAATTTTTTGCT-AAAT-CA
256 ATTTCGGCTAAAATTTTGCAAAAAATGACCCAAAAGATATTTCCTCAATTTTTGGCTAAAATAC-
61656 TCATAAAAA
320 TCATAAAAA
* * * * * * *
61665 ATAATGTAACTCTATGCCAAAAATATTGAAGGACTTTTTACGCTTCTAATATAGTTTTTCCTACT
1 AT-ATATAA-TCTACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCATA-T
* * * *
61730 ATTTCCGAATTAATTTCTAATTAAATCGAAAGAAGATTTAGATGCTCGT-AAAACAAATCCTTAA
63 TTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAA
* * * * * * * *
61794 ATCCAATGCGGCTGAGATTTGATTAGTTTAATAGAGATAGTTCAAGGAGTCTTGACACCAAAAAT
128 ATGCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAAT
* * * * *** *
61859 CATGCAATACTGACCCGGGGTCCTGGAACGCGTTTTTAGCAAAAAAAAAAAT-ATCG-TGATGTT
193 CATGCAAAACTGA-CCAGGG-CCCGGAACGCGTTTTTAGC--CAAAAACCGTGAT-GAT--TATT
* * * * * * ** * * * *
61922 GCACGTTTTCGCCTAATATTTTGCAAAAAATTACGCGGAATAT-TTTTCTCAATTTTTAG-TCAC
251 ACACGATTTCGGCTAAAATTTTGCAAAAAATGACCCAAAAGATATTTCCTCAATTTTTGGCT-AA
61985 AATACTCAT-AAAA
315 AATACTCATAAAAA
* * * * * *
61998 ATATATAATTTAACGCCAAAAAGATTGAAGGGCTTTTCATGTTTCTAATACCGTTTTCCCTATTT
1 ATATATAATCT-ACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCATATTT
* * * * * *
62063 TTATGAATTAAATTCTAATTACAA-AGAAACATGATTCAAATGCT--T--ATA-AAA-----AAA
65 TTCTGAATTAATTTCTAATTA-AATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAA
* * * * * * *
62117 TG--A-----CTGGGATTTGGTTAGATGAATATAGACATTTCCAGGAGTCTTGACGCCTAATATC
129 TGCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATC
* * * * *
62175 ATTCAAATCTGA-AATGGGCCTCAGAACGCGTTTTTAGCCAAAACCCGTGATGATTATTACACGA
194 ATGCAAAACTGACCA-GGGCC-CGGAACGCGTTTTTAGCCAAAAACCGTGATGATTATTACACGA
* * * ** * * *
62239 TTTCGGCTAAAATTTTGCAAAAATTGACCCCAGAGATATTTCCTCAATTTTTATCCATAATATTC
257 TTTCGGCTAAAATTTTGCAAAAAATGACCCAAAAGATATTTCCTCAATTTTTGGCTAAAATACTC
62304 ATAAAAA
322 ATAAAAA
* * * *
62311 ATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTGATGCTTTTAATATCGTTTTTCATATTT
1 ATATATAA-TCTACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCATATTT
* * *
62376 TTCTAAATTAATTTCTAATTAAATCGAAACATGATTCAGATTCTCGTTAAAAACCAAAAAAAAAA
65 TTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCG-TAAAAA-C--------AA
* * * * * * * *
62441 AT-CTTAAATGCAATGTGGCTAAGATTTTATTAGATAAATATAGTTATTTCAAAGAGTGTCGGTG
120 ATCCTTAAATGCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGGCG
* * * * * *
62505 CCAAAAATTATGCAAAACTGAGCTGGTACCCCGAAACGCGTTTTTAGCCAAAAATCGTGAT-A-T
185 CCAAAAATCATGCAAAACTGACCAGG--GCCCGGAACGCGTTTTTAGCCAAAAACCGTGATGATT
* * * * * * * *
62568 -GTACACGATTTTGACTAAAATTTTGCAAAATATAACCCAAAAAATTTTTCCTCAATTTTTGGAT
248 ATTACACGATTTCGGCTAAAATTTTGCAAAAAATGACCCAAAAGATATTTCCTCAATTTTTGGCT
62632 AAAATACTCCTAAGTGTATACATATATATATA
313 AAAATA---C--------T-CATA-A-A-A-A
* * * *
62664 TATATATAATTTAACGGCAAAAAGATTGGAGGACTTTTCACGCCTT-TAATATCGTTTTTCATAT
1 -ATATATAATCT-ACGCCAAAAAGATTGAAGGGCTTTTCACG-CTTCTAATATCGTTTTTCATAT
* * * * **
62728 TTTTCGGTATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTTGTAAAAA-AAATTTTTAA
63 TTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAA
* * * * *
62792 ATCCAATGTGGTTGTGATTTGATTAGATGAGTATAGATATCTCAAGGAGTCTTGGCGCCAAAAAT
128 ATGCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAAT
* ** ** * * *
62857 CATGCAAAACTGAGCCGGGGCCACAAAACGTTTTTTTTATCCAAAAACTGTGATGGTTATTACAC
193 CATGCAAAACTGA-CCAGGGCC-CGGAACG-CGTTTTTAGCCAAAAACCGTGATGATTATTACAC
* * * *
62922 GATTTCGGCTAAAATTTTGTAAAAATTGACCCGAAAGATATTTCCTCAATTTTTGGCTAAAATAT
255 GATTTCGGCTAAAATTTTGCAAAAAATGACCCAAAAGATATTTCCTCAATTTTTGGCTAAAATAC
62987 TCATAAAAA
320 TCATAAAAA
* * * * * *
62996 ATATATAACTCAATGCCAAAAAGATTGAAGGACTTTTGACGTTTCTAATATTGTCTTTTCTATAT
1 ATATATAA-TCTACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGT-TTTTC-ATAT
** * *
63061 TTTTCCAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAGACAAATCTTTAA
63 TTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAA
* * * *
63126 AT-CTAATGTGGGTGAGATTTGATTAGATGAATATAGATATTTCAAGTAGTCTCGGAGCCAAAAA
128 ATGC-AATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAA
* * * ** * * * *
63190 TCATGCGAAATTGAGCCTGTTCCCCGGAACGTGTTTTTAGCCAAAATCCGTGATGGTTTGTTAGT
192 TCATGCAAAACTGA-CCAG-GGCCCGGAACGCGTTTTTAGCCAAAAACCGTGAT-G---ATTATT
* * * *
63255 ACATGATTTCGGCTAAAATTTTGCAAAAATTGACACAAAAGAT-TTCTTCTCAATTTTTGGCTAA
251 ACACGATTTCGGCTAAAATTTTGCAAAAAATGACCCAAAAGATATT-TCCTCAATTTTTGGCTAA
*
63319 AATACTAAT-AAAA
315 AATACTCATAAAAA
* * * * * * * *
63332 ATATATAATTCAACGTCAAAAAGATTGGAGGGCTTTTTACGCTTTTGATATCGTATTTCTTATTT
1 ATATATAA-TCTACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCATA-TT
* * * *
63397 TTTCTAAATTAATTTCTAATTAAATCGAGACAAGATTCAGATGCTCGTAAAAATAAATTCTTAAA
64 TTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAA
* *
63462 TCCAATGTTGCTGAGATTTGATTAGATGA
129 TGCAATGTGGCTGAGATTTGATTAGATGA
63491 TGTAAAGTAT
Statistics
Matches: 1718, Mismatches: 338, Indels: 205
0.76 0.15 0.09
Matches are distributed among these distances:
311 35 0.02
312 31 0.02
313 99 0.06
314 19 0.01
315 53 0.03
316 1 0.00
318 2 0.00
320 1 0.00
322 4 0.00
327 3 0.00
328 5 0.00
329 1 0.00
330 2 0.00
331 222 0.13
332 131 0.08
333 158 0.09
334 136 0.08
335 95 0.06
336 103 0.06
337 127 0.07
338 137 0.08
339 53 0.03
340 27 0.02
341 2 0.00
343 6 0.00
344 74 0.04
345 21 0.01
347 1 0.00
348 60 0.03
349 4 0.00
350 1 0.00
351 1 0.00
352 1 0.00
353 8 0.00
354 91 0.05
355 3 0.00
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (328 bp):
ATATATAATCTACGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCATATTTT
TCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATG
CAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCAT
GCAAAACTGACCAGGGCCCGGAACGCGTTTTTAGCCAAAAACCGTGATGATTATTACACGATTTC
GGCTAAAATTTTGCAAAAAATGACCCAAAAGATATTTCCTCAATTTTTGGCTAAAATACTCATAA
AAA
Found at i:63309 original size:685 final size:660
Alignment explanation
Indices: 60997--63490 Score: 2148
Period size: 685 Copynumber: 3.7 Consensus size: 660
60987 GTATATATAT
* * * *
60997 ATATATAATTCAACT-CCAAAAACATT-AGAGGACTTTTCACGTTTTTAATACT-GTTTTTC-AT
1 ATATATAACTCAA-TGCCAAAAAGATTGA-AGGACTTTTGACGTTTCTAATA-TAGTTTTTCTAT
* * ** * *
61058 AGTTTTCTAAATTAAAATCTAATTAAATCGAAATAAGATTCAGATGCTTGTAAAAACAAATCTTT
63 ATTTTTCCAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGT-AAAACAAATC-TT
* * * * *
61123 AATTGCAATGTGGCCGAGATTTGATTAGATGAATATATATATTTCAATGAGTCTC-AATGCCAAA
126 AAAT-CAATGTGGCTGAGATTTGATTAGATAAATATAGATATTTCAA-GAGTCTCGGA-GCCAAA
* * * * * *
61187 AATCATGCAAAACTGAG-ATGAGGT-CCCGAAACCCGTTTTTAGCAAAAAAAAAAAAACCGTGAT
188 AATCATGC-AAACTGAGCCT--GTTCCCCGGAACGCGTTTTTAGC--------CAAAATCGTGAT
* * ** *
61250 G--GTTAGTACACGATTTCGCCTAAAATTTTACAAAAAAGAC-CAAAAACATTTTCCTCAATTTT
242 GTTGTT-GTACACGATTTCGACTAAAATTTTGCAAAAATTACACAAAAA-ATTTTTCTCAATTTT
* * *
61312 TGGCTAAAATA-C--T---TATGAAATATATATAATTTAACACCAAAAAGATTGGAGGGCGTTTC
305 TGG-TAAAATACCAATACATAT-AAAAATATATAATTTAACGCCAAAAAGATTGGAGGGCTTTTC
* * * * * *
61371 ACGATTTTCATATCGTTTTTCATAGTTTTTTCTGAATTAATTTATAATTTAATCAAAATAAGATT
368 ACGCTTTTAATATCGTTTTTCATA-TTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATT
* * * * *
61436 TAGATGCTCGTAAAAACAAATCCTTAAATGCAATGTGTTTGAGATTTAATTAGATGAATATAGAT
432 CAGATGCTCGTAAAAACAAATTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGAT
* * * ** *
61501 ATCTCAAGTAGTCTTAGCGCCAAAAATCATGCAAAACTAACCCAGGGCCTTGGAACACATTTTTA
497 ATCTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGA-CCAGGGCCTCAGAACGCATTTTTA
* *
61566 GCCAAAAACCGTGATGATTATTACACGATTTCGGCTAAAATTTTGCAAAAAATGACCGGAAAGAT
561 GCCAAAAACCGTGATGATTATTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGAT
* *
61631 ATTTCATCAATTTTTTGCT-AAATCA-TCATAAAAA
626 ATTTCCTCAATTTTTAGCTAAAAT-ATTCATAAAAA
* * * * *
61665 ATAATGTAACTCTATGCCAAAAATATTGAAGGACTTTTTACGCTTCTAATATAGTTTTTCCTACT
1 AT-ATATAACTCAATGCCAAAAAGATTGAAGGACTTTTGACGTTTCTAATATAGTTTTT-CTA-T
* * *
61730 A--TTTCCGAATTAATTTCTAATTAAATCGAAAGAAGATTTAGATGCTCGTAAAACAAATCCTTA
63 ATTTTTCCAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAACAAAT-CTTA
* * * * * * *
61793 AATCCAATGCGGCTGAGATTTGATTAGTTTAATAGAGATAGTTCAAGGAGTCT-TGACACCAAAA
127 AAT-CAATGTGGCTGAGATTTGATTAGATAAATATAGATATTTCAA-GAGTCTCGGA-GCCAAAA
* * * * * ***** * *
61857 ATCATGCAATACTGACCCGGGGT-CCTGGAACGCGTTTTTAGCAAAAAAAAAAATATCGTGATGT
189 ATCATGCAA-ACTGAGCC-TGTTCCCCGGAACGCGTTTTTAGCCAAAATCGTGATGT--TGTTG-
* * * * * ** * *
61921 TGCACGTTTTCGCCTAATATTTTGCAAAAAATTACGCGGAATATTTTTCTCAATTTTTAGT----
249 TACACGATTTCGACTAAAATTTTGC-AAAAATTACACAAAAAATTTTTCTCAATTTTTGGTAAAA
* * *
61982 CA-CAATAC-TCATAAAAATATATAATTTAACGCCAAAAAGATTGAAGGGCTTTTCATG-TTTCT
313 TACCAATACAT-ATAAAAATATATAATTTAACGCCAAAAAGATTGGAGGGCTTTTCACGCTTT-T
* * * * * * * *
62044 AATACCGTTTTCCCTA-TTTTTATGAATTAAATTCTAATTACAA-AGAAACATGATTCAAATGCT
376 AATATCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTA-AATCGAAACAAGATTCAGATGCT
* * * * *
62107 --TATAAAA-AAA----T-GA--C----T-G--G-GATTTGGTTAGATGAATATAGACATTTCCA
440 CGTA-AAAACAAATTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATCTCAA
* * * * * * *
62154 GGAGTCTTGACGCCTAATATCATTCAAATCTGA-AATGGGCCTCAGAACGCGTTTTTAGCCAAAA
504 GGAGTCTTGGCGCCAAAAATCATGCAAAACTGACCA-GGGCCTCAGAACGCATTTTTAGCCAAAA
* * *
62218 CCCGTGATGATTATTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCCAGAGATATTTCCT
568 ACCGTGATGATTATTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGATATTTCCT
* * *
62283 CAATTTTTATCCATAATATTCATAAAAA
633 CAATTTTTAGCTAAAATATTCATAAAAA
* * * * *
62311 ATATATAATTCAACGCCAAAAAGATTGAAGGGCTTTTGATGCTTT-TAATATCGTTTTTC-ATAT
1 ATATATAACTCAATGCCAAAAAGATTGAAGGACTTTTGACG-TTTCTAATATAGTTTTTCTATAT
* * *
62374 TTTTCTAAATTAATTTCTAATTAAATCGAAACATGATTCAGATTCTCGTTAAAAACCAAAAAAAA
65 TTTTCCAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCG-T-AAAA-C--------
* * * * *
62439 AAATCTTAAATGCAATGTGGCTAAGATTTTATTAGATAAATATAGTTATTTCAAAGAGTGTCGGT
119 AAATCTTAAAT-CAATGTGGCTGAGATTTGATTAGATAAATATAGATATTTC-AAGAGTCTCGGA
* * *
62504 GCCAAAAATTATGCAAAACTGAG-CTGGTACCCCGAAACGCGTTTTTAGCCAAAAATCGTGA---
182 GCCAAAAATCATGC-AAACTGAGCCT-GTTCCCCGGAACGCGTTTTTAGCC-AAAATCGTGATGT
* * * *
62565 T-ATGTACACGATTTTGACTAAAATTTTGCAAAATATAACCCAAAAAATTTTTCCTCAATTTTTG
244 TGTTGTACACGATTTCGACTAAAATTTTGCAAAA-ATTACACAAAAAATTTTT-CTCAATTTTTG
*
62629 GATAAAATACTCCTAAGTGTATACATATATATATATATATATAATTTAACGGCAAAAAGATTGGA
307 G-TAAAATA--CC--A----ATACATATA-A-A-A-ATATATAATTTAACGCCAAAAAGATTGGA
* * * *
62694 GGACTTTTCACGCCTTTAATATCGTTTTTCATA-TTTTTCGGTATTAATTTCTAATTAAATCGAA
359 GGGCTTTTCACGCTTTTAATATCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTAAATCGAA
* * * *
62758 ACAAGATTTAGATGCTTGTAAAAA-AAATTTTTAAATCCAATGTGGTTGTGATTTGATTAGATGA
424 ACAAGATTCAGATGCTCGTAAAAACAAATTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGA
* * * *
62822 GTATAGATATCTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGCCGGGGCCACAAAACG
489 ATATAGATATCTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGA-CCAGGGCCTCAGAACG
** * * * *
62887 TTTTTTTTATCCAAAAACTGTGATGGTTATTACACGATTTCGGCTAAAATTTTGTAAAAATTGAC
553 -CATTTTTAGCCAAAAACCGTGATGATTATTACACGATTTCGGCTAAAATTTTGCAAAAATTGAC
*
62952 CCGAAAGATATTTCCTCAATTTTTGGCTAAAATATTCATAAAAA
617 CCGAAAGATATTTCCTCAATTTTTAGCTAAAATATTCATAAAAA
*
62996 ATATATAACTCAATGCCAAAAAGATTGAAGGACTTTTGACGTTTCTAATATTGTCTTTTCTATAT
1 ATATATAACTCAATGCCAAAAAGATTGAAGGACTTTTGACGTTTCTAATATAGT-TTTTCTATAT
63061 TTTTCCAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAGACAAATCTTTAA
65 TTTTCCAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAA-ACAAATC-TTAA
* *
63126 ATCTAATGTGGGTGAGATTTGATTAGATGAATATAGATATTTCAAGTAGTCTCGGAGCCAAAAAT
128 ATC-AATGTGGCTGAGATTTGATTAGATAAATATAGATATTTCAAG-AGTCTCGGAGCCAAAAAT
* *
63191 CATGCGAAATTGAGCCTGTTCCCCGGAACGTGTTTTTAGCCAAAATCCGTGATGGTTTGTTAGTA
191 CATGC-AAACTGAGCCTGTTCCCCGGAACGCGTTTTTAGCCAAAAT-CGTGAT-G-TTGTT-GTA
* * *
63256 CATGATTTCGGCTAAAATTTTGCAAAAATTGACACAAAAGATTTCTTCTCAATTTTTGGCTAAAA
251 CACGATTTCGACTAAAATTTTGCAAAAATT-ACACAAAAAATTT-TTCTCAATTTTTGG-TAAAA
* * * *
63321 TA-C--T--A-ATAAAAATATATAATTCAACGTCAAAAAGATTGGAGGGCTTTTTACGCTTTTGA
313 TACCAATACATATAAAAATATATAATTTAACGCCAAAAAGATTGGAGGGCTTTTCACGCTTTTAA
* * * *
63380 TATCGTATTTCTTATTTTTTCTAAATTAATTTCTAATTAAATCGAGACAAGATTCAGATGCTCGT
378 TATCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGT
* * *
63445 AAAAATAAATTCTTAAATCCAATGTTGCTGAGATTTGATTAGATGA
443 AAAAACAAATTCTTAAATCCAATGTGGTTGAGATTTGATTAGATGA
63491 TGTAAAGTAT
Statistics
Matches: 1467, Mismatches: 246, Indels: 225
0.76 0.13 0.12
Matches are distributed among these distances:
642 2 0.00
643 1 0.00
644 43 0.03
645 137 0.09
646 70 0.05
647 6 0.00
648 33 0.02
649 14 0.01
650 3 0.00
653 2 0.00
654 80 0.05
655 14 0.01
656 1 0.00
657 2 0.00
659 1 0.00
661 14 0.01
662 4 0.00
663 42 0.03
664 8 0.01
665 79 0.05
666 28 0.02
667 144 0.10
668 65 0.04
669 175 0.12
670 45 0.03
671 4 0.00
672 4 0.00
673 1 0.00
674 1 0.00
675 1 0.00
677 14 0.01
678 93 0.06
679 3 0.00
680 1 0.00
682 2 0.00
683 54 0.04
684 17 0.01
685 201 0.14
686 9 0.01
687 49 0.03
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (660 bp):
ATATATAACTCAATGCCAAAAAGATTGAAGGACTTTTGACGTTTCTAATATAGTTTTTCTATATT
TTTCCAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAACAAATCTTAAATC
AATGTGGCTGAGATTTGATTAGATAAATATAGATATTTCAAGAGTCTCGGAGCCAAAAATCATGC
AAACTGAGCCTGTTCCCCGGAACGCGTTTTTAGCCAAAATCGTGATGTTGTTGTACACGATTTCG
ACTAAAATTTTGCAAAAATTACACAAAAAATTTTTCTCAATTTTTGGTAAAATACCAATACATAT
AAAAATATATAATTTAACGCCAAAAAGATTGGAGGGCTTTTCACGCTTTTAATATCGTTTTTCAT
ATTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATTCT
TAAATCCAATGTGGTTGAGATTTGATTAGATGAATATAGATATCTCAAGGAGTCTTGGCGCCAAA
AATCATGCAAAACTGACCAGGGCCTCAGAACGCATTTTTAGCCAAAAACCGTGATGATTATTACA
CGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGATATTTCCTCAATTTTTAGCTAAAATA
TTCATAAAAA
Found at i:76318 original size:3 final size:3
Alignment explanation
Indices: 76312--76359 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
76302 TTTCTTTTAA
76312 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
76359 A
1 A
76360 TAAACAATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:77838 original size:332 final size:329
Alignment explanation
Indices: 77030--81710 Score: 4294
Period size: 332 Copynumber: 14.2 Consensus size: 329
77020 ATTCATGCGG
* * * *
77030 TAATATTGTTTTTCATATTTTTTCTGAATTAATTTTTAATTAAATCGAAACAAGATTTAGATGCA
1 TAATATCGTTTTTCATA-TTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCT
* * * * * *
77095 CATAAAAACAAACCCTTAAATCCAATGTGCCTAAGATTTGATTAGATGAATAAAGATATATATTT
65 CGTAAAAACAAATCCTTAAATCTAATGTGGCTGAGATTTGATTAGATGAAT----ATAGATATTT
* * * * ** * **
77160 CAAGGAGTCTCAGTGCCAAATATCAT-TAGTAC-G-T---GGCCCTGGAACGTATTTTTAGCCAA
126 CAAGGAGTCTCGGCGCCAAAAATCATGCAAAACTGATCCGGGCCCCGGAACG-CGTTTTAGCCAA
*
77219 AAACCGTGATAGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGATATTTT
190 AAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGAT-TTTT
* * **** *
77284 -CTCAATTTTTGGTTAAAATACTCATAAAAAATATATAATT-AAATAAAAAAAGATTGAAGGGCT
254 CCTCAATTTTTAGCTAAAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGACT
* *
77347 TTTAACGCTTC
319 TTTCACGCTTT
* * * * * *
77358 TAATAAT-GTTTTTCCTATTTCTTC-AAATTAATTTCTTATTAAATAGAAACAACATTCATATGC
1 TAAT-ATCGTTTTTCATATTT-TTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGC
* *
77421 TCGTAAAAACAAATCCTTAAATTTAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAA
64 TCGTAAAAACAAATCCTTAAATCTAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAA
* * * *
77486 GGAGTCTTGACAG-CAAAAATCATGCAAAACTGATCCGGGCCCCAGAACGCAGTTTCAGCCAAAA
129 GGAGTCTCGGC-GCCAAAAATCATGCAAAACTGATCCGGGCCCCGGAACGC-GTTTTAGCCAAAA
* * * *
77550 ACCGTGATGATTAGTACATGATTTCGGCTAAAATTTTGCAAAATTTGACCCGAAAGATTTTTCAT
192 ACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCT
* * * * * * *
77615 CGATTTCTAGCGAAAATACTCATAAAAATATATATAATTCAATGTCAAAAGGATTGGAGGACTTT
257 CAATTTTTAGCTAAAATACTCATAAAAA-ATATATAATTCAACGCCAAAAAGATTGAAGGACTTT
77680 TCACGCTTT
321 TCACGCTTT
* * * * *
77689 TAATATCGTTTTTCATATTCTTTCTGAATTAATTTTTAATTAAATCTAAATAAGATTCAGATTCA
1 TAATATCGTTTTTCATATT-TTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCT
* * * * * *
77754 CATAAAAACAAATCCTTAAATCTAATATGCCTTAGATTTGATTAGATGAATAAAGATATTTTAAG
65 CGTAAAAACAAATCCTTAAATCTAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAG
* * * * * **
77819 GAGTCTCGGCGTCAAAAATCATGTAAAACAGAGCCATGGCCGTGGAACGCGTATTTAGCCAAAAA
130 GAGTCTCGGCGCCAAAAATCATGCAAAACTGATCC-GGGCCCCGGAACGCGT-TTTAGCCAAAAA
* * * * * *** * *
77884 TCGCGATGGTTACTACACGATTTCGGCTAAAATTTTACAAAAATTTATTAGAAAGATATTTCTTC
193 CCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTC
* * * * ** * *
77949 AATTTTTGGATAAAATAGTCATAAAAAATATATAATTCGACATCAAAAAGATTGTAGGGCTTTT-
258 AATTTTTAGCTAAAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGACTTTTC
* *
78013 AAGACTTC
323 ACG-CTTT
* * ** *
78021 TAATATTGTTTTTCCTATTTTTCCAAATTAATTTCTAACTAAATCGAAACAAGATTCAGATGCTC
1 TAATATCGTTTTTCATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTC
* *
78086 GTAAAAATAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGG
66 GTAAAAACAAATCCTTAAATCTAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGG
* * * * * * * * * *
78151 CGTTTTGGCACAAAAAAT-ATGCCAAACTGAGCCGGGCCCTGGAACGCGGTTTT-TCTCGAAAAC
131 AGTCTCGGCGCCAAAAATCATGCAAAACTGATCCGGGCCCCGGAACGC-GTTTTAGC-CAAAAAC
* * *
78214 CGTGATGGTCAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACTCGAAAGATTTTTTCCTC
194 CGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGA-TTTTTCCTC
* * * * * *
78279 GATTTCTAGCGAAAATACTCATAAAAAATATATAATTCAACACCAAAAAAATTGAAAGCG-TTTT
258 AATTTTTAGCTAAAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTG-AAG-GACTTT
*
78343 TCATGCTTT
321 TCACGCTTT
* *
78352 TAATATCGTTTTTCATATTTTTTCTGAATTAATTTTTAATTAAATCGAAACAAGATTTAGATGCT
1 TAATATCGTTTTTCATA-TTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCT
* * *
78417 CGTAAAAACAAATTCTTAAAT-TCAATGTGGATGAGATTTGATTAGAAGAATATAGATATTTCAA
65 CGTAAAAACAAATCCTTAAATCT-AATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAA
* * * * *
78481 GAAGTCTCGGCACCAAAAATCATGCAAAACTGAGT-CGGGCGCCGGAATGCAGTTTTAGCCGAAA
129 GGAGTCTCGGCGCCAAAAATCATGCAAAACTGA-TCCGGGCCCCGGAACGC-GTTTTAGCCAAAA
* * *
78545 ACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTT-AAAAAATTGATCCGAAAGATATTTCCT
192 ACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCT
* * ** * * *
78609 CAA-TTTTAGGATAAAATACTCATAAAAAATATATAATTCGACATCACAAAGATTGTAGGGCTTT
257 CAATTTTTA-GCTAAAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGACTTT
* *
78673 TAACGCTTC
321 TCACGCTTT
* * *
78682 TAATATTGTTTTTCCTATTTTT-TAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTC
1 TAATATCGTTTTTCATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTC
* * * *
78746 GTAAAAAAAAATTTCTTAAATCTAATGTGGCTGAGATTTGGTTAGATGAATACAGAGGGGATATT
66 GTAAAAACAAA-TCCTTAAATCTAATGTGGCTGAGATTTGATTAGATGAAT--ATA---GATATT
* * * * * * *
78811 TCAAGCAGTTTTGGCACAAAAAATCATGCAAAACTGAGT-CGGGCCCTGGAATGCGGTTTTAGCC
125 TCAAGGAGTCTCGGCGCCAAAAATCATGCAAAACTGA-TCCGGGCCCCGGAACGC-GTTTTAGCC
* * * * *
78875 GAAAACCGTGATGGTCAGTACATGATTTCGGCTAAAATTTGGCAAAAATTGACTCGAAAGATTTT
188 AAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGATTTT
* ** * ** * ***
78940 TTCTCAATTACTAGCGAAAATACTCATAAAAAATATATAATTCAATACCAAAAAAATTGAAATCC
253 TCCTCAATTTTTAGCTAAAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGAC
*
79005 TTTTTCATGCTTT
318 -TTTTCACGCTTT
* * *
79018 TAATATCGTTTTTTATATTTTTTCTGAATTAATTTCTAATTAAATAGAAACAAGATTCAGATGGT
1 TAATATCGTTTTTCATA-TTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCT
* * *
79083 CGTAAAAATAAATCCTTAAAT-TCAATGTGGTTAAGATTTGATTAGATGAATATAGATATTTCAA
65 CGTAAAAACAAATCCTTAAATCT-AATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAA
* * * * *
79147 GGAGTCTCGGC-ACATAAAACCATGCAAAACTGAGT-CAGGCCCCGGAATGCGTTTTTAGCCGAA
129 GGAGTCTCGGCGCCA-AAAATCATGCAAAACTGA-TCCGGGCCCCGGAACGCG-TTTTAGCCAAA
* * *
79210 AACCGTGATGGTTAGTACATGATTTCGGCTAAAATTTTTCAAAATTTTGACCCGAAAGATTTTTC
191 AACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAA-ATTGACCCGAAAGATTTTTC
** * * * *
79275 GGAACAATTTTT-GCTAAAATACTCATAAAATATATAAAATTTAATGCCAAAAAGATTGGAA-GA
255 --CTCAATTTTTAGCTAAAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATT-GAAGGA
79338 CTTTTCACGCTTT
317 CTTTTCACGCTTT
* * * *
79351 TATTATCATTTTTCAAATTTTTCTGAATTAATTTCTAGTTAAATCGAAACAAGATTCAGATGCTC
1 TAATATCGTTTTTCATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTC
* * * * * * * * * * *
79416 ATAAAAACAAATTCTTCAATCCAATGTAGCTGAAATTAGATTAAATGAATATGGATATCTCAAAG
66 GTAAAAACAAATCCTTAAATCTAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGG
* * * ****
79481 AGTCTTGGCGCCAAAAATCATGCAAAACTTAGCCGAGATTGCGGAACGCGTTTTTAGCCAAAAAC
131 AGTCTCGGCGCCAAAAATCATGCAAAACTGATCCG-GGCCCCGGAACGCG-TTTTAGCCAAAAAC
* * * * * * **
79546 AGTGATTGATTATTACACGATTTGGGGTAGAATTTTGCAAAAATTGACTTG-AA-ATTTATATCC
194 CGTGA-TGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGATTT-T-TCC
* * * * * * **
79609 TCAATTTTTATCCACAATACTCATAAAAATTATATAATTGAACGCCAAAAACATTGAAGGGTTTT
256 TCAATTTTTAGCTAAAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGACTTT
* *
79674 TCATGCTTC
321 TCACGCTTT
* * *
79683 TAATATCGTTTTTCCTATTATTTTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGC
1 TAATATCGTTTTTCATA-T-TTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGC
* ** * *
79748 TTGT-TTAACAAATCCTTAAATAC-AATGTGGCTGAGATTTGGTTAGATGAATGTAGATATTTCA
64 TCGTAAAAACAAATCCTTAAAT-CTAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCA
* * * * *
79811 AGGAGTCTCGGTGCAAAAAATCATGCAACACTGAACCGGGACCCCAGAACGCGTTCTTAGCCAAA
128 AGGAGTCTCGGCGCCAAAAATCATGCAAAACTGATCCGGG-CCCCGGAACGCGTT-TTAGCCAAA
* * * * * * *
79876 AACCTTGATTTTGACTAACGTACACGATTTCGGCTAATATTTTGCATAAATTGACCAGAAA-TTT
191 AACCGTGA---TG-GTTA-GTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGATT
* * * * *
79940 TTTCCTTAATTTTT-GTCTAAAATACT--TATAATATATATAATTCAACTCCAAAAAGATTGGAG
251 TTTCCTCAATTTTTAG-CTAAAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAG
*
80002 GACTTTTCTCGCTTT
315 GACTTTTCACGCTTT
* * *
80017 TAATATCGTTTTTCATATTTTTCTGAATTAATTTCTAATTAAATTGAAACAAGATTCAGATACTT
1 TAATATCGTTTTTCATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTC
* * *
80082 GTAAAAAGAAATCCTTAAATGC-AATGTGACTGAGA--T--TTA-AT--A-A-AGATATTTCGAG
66 GTAAAAACAAATCCTTAAAT-CTAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAG
* ** * *
80137 GAGTCTCGACGCCAAAAATCATGCAAAACTGAGTTGGGGCCCCGAAACGCGTTTTTAGCAAAAAA
130 GAGTCTCGGCGCCAAAAATCATGCAAAACTGA-TCCGGGCCCCGGAACGCG-TTTTAGCCAAAAA
* * * * * * * * *
80202 CTGTGTTGATTAGTACACGATTTCGACTAAAATTTTACAAAAAAATGACCAGAAA-AATATTCTC
193 CCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGC-AAAAATTGACCCGAAAGATTTTTC-C
* * *
80266 TCAATTTTTAG-TCACAATACT-AAAAAAAATATATAATTCAACGCCAAAAAAATTGAAAGG-CT
256 TCAATTTTTAGCT-AAAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTG-AAGGACT
80328 TTTCACGCTTT
319 TTTCACGCTTT
* * * * * * *
80339 TGATATCGTTTTTCTTATTTTTTCCGAATTAATTTCTAATTAAAACGTAACATGATTCAGATGTT
1 TAATATCGTTTTTCATA-TTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCT
* * * * * *
80404 TGT-------AA-----AAA-C-AA--TGGTTGAAATTTGGTTAGATGAATATAAATATTTCATG
65 CGTAAAAACAAATCCTTAAATCTAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAG
* * * * * *
80453 GAGTCTCGGTGCCAAACATCATTCAAAATTGAACCGGGCCCCGGAACGCGTTTTTAGCTAAAAAC
130 GAGTCTCGGCGCCAAAAATCATGCAAAACTGATCCGGGCCCCGGAACGCG-TTTTAGCCAAAAAC
* * * * * *
80518 CGTGATGATTATTATACGATTTCGGCAAAAATTTTGCAAAAATTCACCCGAAAGATATTTCCTCA
194 CGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCA
* * * *
80583 ATTTTTAG-TCATAATAGTCAT--AAAATATATAATTCAACGCCCAAAAGATTGAAGGCCTTTTC
259 ATTTTTAGCT-AAAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGACTTTTC
80645 ACGCTTT
323 ACGCTTT
* * *
80652 TAATATCATTTTTTTATATTTTTTCTGAATTAATTTCTAATTAAAAT-GAAACAAGATTTAGATG
1 TAATATC-GTTTTTCATA-TTTTTCTGAATTAATTTCTAATT-AAATCGAAACAAGATTCAGATG
* * *
80716 CTCGTAAAAACAAATTCTTAAATGC-AATGTGGCTAAGAATTT-ATTAGATGATTATAGATATTT
63 CTCGTAAAAACAAATCCTTAAAT-CTAATGTGGCTGAG-ATTTGATTAGATGAATATAGATATTT
* * * * * * *
80779 CAAGGAG-CGTAGGTGCCAAAAACCATGCAAAACTGAACCGGGGCCCGAAACGCGTTTTTAGCTA
126 CAAGGAGTC-TCGGCGCCAAAAATCATGCAAAACTGATCCGGGCCCCGGAACGCG-TTTTAGCCA
* * * * * *
80843 AAAACCGTGATGGTTAGTACATGATTTTGGCTAAAACTTTGCAAAAAATGACCCGAAAAATTTTC
189 AAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGATTTTT
* * * * * * * * *
80908 CCCCTATTTTTGGATAAAATAATCATAATATATATATATAATTTAACACCAAAAAGATTGGAGGA
254 CCTCAATTTTTAGCTAAAATACTCATAA-A-AAATATATAATTCAACGCCAAAAAGATTGAAGGA
*
80973 CTTTTTACGCTTT
317 CTTTTCACGCTTT
* *
80986 TAATATCATTTTTCATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTT
1 TAATATCGTTTTTCATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTC
* * *
81051 GTAAAAACAAATTCTTAAATCTAATGTGGTTGAGATTTGATTAGATGAATATAGATATCTCAAGG
66 GTAAAAACAAATCCTTAAATCTAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGG
* * * * * * *
81116 AGTCTCTGCACCAAAAATCATGCAAAAATGAGCTGGGCCCCCAGAACGCCTTTTTAGCCAAAAAC
131 AGTCTCGGCGCCAAAAATCATGCAAAACTGATCCGGG-CCCCGGAACG-CGTTTTAGCCAAAAAC
** * * * ** *** * *
81181 TATGATGGTTATTACACGATTTCAGCTAAAA----GGAAAAATCAATTAGAAAAATATTTCCTC-
194 CGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCA
* *** * * *
81241 -TTTTT---T---TTTGGC-T---AAATATATAATTCAACGCCAAAAATATGGAAGGACTTTTGA
259 ATTTTTAGCTAAAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGACTTTTCA
81295 CG-TTT
324 CGCTTT
* * ** *
81300 CTAATATC-ATTTTCCTATTTTTCCCAAATTAATTTCTAATTAAA-CAGAAACAAGATTTAGATG
1 -TAATATCGTTTTTCATATTTTT-CTGAATTAATTTCTAATTAAATC-GAAACAAGATTCAGATG
* * * * *
81363 TTCGTAAAAACAAATCATTAAATCCAATGTGACTGAGATTTGATTAAATGAATATAGATATTTCA
63 CTCGTAAAAACAAATCCTTAAATCTAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCA
* * * * *
81428 AGTAGTCTCTGAGCCAAAAATCATGCAAAATTGAGT-CGGGTCCCCAGAACGCGTTTTTAGCCAA
128 AGGAGTCTCGGCGCCAAAAATCATGCAAAACTGA-TCCGGG-CCCCGGAACGCG-TTTTAGCCAA
* * * * * *
81492 AAACTGTGATGGTTTGTTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTAACACAAAATATT
190 AAACCGTGAT-G---GTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGATT
* * * *
81557 TCTCCTCAATTTTTGGCTAAAATACTCAT-AAAAATATATAATTCAACGCTAAAAAGATTGGAGT
251 TTTCCTCAATTTTTAGCTAAAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAG-
*
81621 G-CTTTTTACGCTTT
315 GACTTTTCACGCTTT
* * * * *
81635 TAATATTGTATTTCTTATTTTTCTAAATTAATTTCTAGTTAAATCGAAACAAGATTCAGATGCTC
1 TAATATCGTTTTTCATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTC
81700 GTAAAAA-AAAT
66 GTAAAAACAAAT
81711 TATTATAATT
Statistics
Matches: 3560, Mismatches: 640, Indels: 301
0.79 0.14 0.07
Matches are distributed among these distances:
307 6 0.00
309 4 0.00
311 6 0.00
312 6 0.00
313 47 0.01
314 98 0.03
315 263 0.07
316 39 0.01
319 44 0.01
320 22 0.01
321 22 0.01
322 56 0.02
323 94 0.03
324 67 0.02
325 11 0.00
326 5 0.00
327 84 0.02
328 76 0.02
329 231 0.06
330 258 0.07
331 263 0.07
332 758 0.21
333 427 0.12
334 405 0.11
335 96 0.03
336 48 0.01
337 70 0.02
338 54 0.02
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (329 bp):
TAATATCGTTTTTCATATTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTC
GTAAAAACAAATCCTTAAATCTAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGG
AGTCTCGGCGCCAAAAATCATGCAAAACTGATCCGGGCCCCGGAACGCGTTTTAGCCAAAAACCG
TGATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGATTTTTCCTCAAT
TTTTAGCTAAAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAGGACTTTTCACG
CTTT
Found at i:79088 original size:666 final size:660
Alignment explanation
Indices: 77030--81710 Score: 4459
Period size: 666 Copynumber: 7.1 Consensus size: 660
77020 ATTCATGCGG
* * * *
77030 TAATATTGTTTTTCATATTTTTTCTGAATTAATTTTTAATTAAATCGAAACAAGATTTAGATGCA
1 TAATATCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCT
* * * * * *
77095 CATAAAAACAAACCCTTAAATCCAATGTGCCTAAGATTTGATTAGATGAATAAAGATATATATTT
66 CGTAAAAACAAATCCTTAAATTCAATGTGGCTGAGATTTGATTAGATGAAT----ATAGATATTT
* * ** * * **
77160 CAAGGAGTCTCAGTGCC--AAAT-AT-CATTAGT-A--CGTGGCCCTGGAACGTATTTTTAGCCA
127 CAAGGAGTCTCGGCGCCAAAAATCATGCAAAACTGAGCCG-GGCCCCGGAACG-CGTTTTAGCCA
* *
77218 AAAACCGTGATAGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAAGATATTT
190 AAAACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGAAAAAATTGACCCGAAAGATATTT
* * *
77283 TCTCAATTTTTGGTTAAAATACTCATAAAAAATATATAATT-AA-ATAAAAAAAGATTGAAGGGC
255 CCTCAATTTTTGG-TAAAATACTCATAAAAAATATATAATTCAACAT-CAAAAAGATTGAAGGAC
* * *
77346 TTTTAACGCTTCTAATAATGTTTTTCCTATTTCTTC-AAATTAATTTCTTATTAAATAGAAACAA
318 TTTTAACGCTTCTAATATTGTTTTTCCTATTT-TTCTAAATTAATTTCTAATTAAATCGAAACAA
* * * * *
77410 CATTCATATGCTCGTAAAAACAAATCCTTAAATTTAATGTGGCTGAGATTTGGTTAGATGAATAT
382 GATTCAGATGCTCGTAAAAACAAATTCTTAAATCTAATGTGGCTGAGATTTGATTAGATGAATAT
* * *
77475 AGATATTTCAAGGAGTCTTGACAGCAAAAATCATGCAAAACTGA-TCCGGGCCCCAGAACGCAG-
447 AGATATTTCAAGGAGTCTTGGCACCAAAAATCATGCAAAACTGAGT-CGGGCCCCGGAACGC-GT
* * * *
77538 TTTCAGCCAAAAACCGTGATGATTAGTACATGATTTCGGCTAAAATTTTGCAAAATTTGACCCGA
510 TTTTAGCCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACTCGA
* * * * **
77603 AAGA-TTTTTCATCGATTTCTAGCGAAAATACTCATAAAAATATATATAATTCAATGTCAAAAGG
575 AAGATTTTTTC-TCAATTTTTAGCGAAAATACTCATAAAAA-ATATATAATTCAACGCCAAAAAA
*
77667 ATTG-GAGGAC-TTTTCACGCTTT
638 ATTGAAAGG-CTTTTTCACGCTTT
* * * * * *
77689 TAATATCGTTTTTCATATTCTTTCTGAATTAATTTTTAATTAAATCTAAATAAGATTCAGATTCA
1 TAATATCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCT
* * * * * *
77754 CATAAAAACAAATCCTTAAA-TCTAATATGCCTTAGATTTGATTAGATGAATAAAGATATTTTAA
66 CGTAAAAACAAATCCTTAAATTC-AATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAA
* * * * **
77818 GGAGTCTCGGCGTCAAAAATCATGTAAAACAGAGCCATGGCCGTGGAACGCGTATTTAGCCAAAA
130 GGAGTCTCGGCGCCAAAAATCATGCAAAACTGAGCC-GGGCCCCGGAACGCGT-TTTAGCCAAAA
* * * * *** *
77883 ATCGCGATGGTTACTACACGATTTCGGCTAAAATTTT-ACAAAAATTTATTAGAAAGATATTTCT
193 ACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGA-AAAAATTGACCCGAAAGATATTTCC
* * * *
77947 TCAATTTTTGGATAAAATAGTCATAAAAAATATATAATTCGACATCAAAAAGATTGTAGGGCTTT
257 TCAATTTTTGG-TAAAATACTCATAAAAAATATATAATTCAACATCAAAAAGATTGAAGGACTTT
* *
78012 TAA-GACTTCTAATATTGTTTTTCCTATTTTTCCAAATTAATTTCTAACTAAATCGAAACAAGAT
321 TAACG-CTTCTAATATTGTTTTTCCTATTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGAT
* * *
78076 TCAGATGCTCGTAAAAATAAATCCTTAAATCTAATGTGGCTGAGATTTGGTTAGATGAATATAGA
385 TCAGATGCTCGTAAAAACAAATTCTTAAATCTAATGTGGCTGAGATTTGATTAGATGAATATAGA
* * * * * *
78141 TATTTCAAGGCGTTTTGGCACAAAAAAT-ATGCCAAACTGAGCCGGGCCCTGGAACGCGGTTTTT
450 TATTTCAAGGAGTCTTGGCACCAAAAATCATGCAAAACTGAGTCGGGCCCCGGAACGC-GTTTTT
* *
78205 --CTCGAAAACCGTGATGGTCAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACTCGAAAG
514 AGC-CAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACTCGAAAG
* * *
78268 ATTTTTTCCTCGATTTCTAGCGAAAATACTCATAAAAAATATATAATTCAACACCAAAAAAATTG
578 ATTTTTT-CTCAATTTTTAGCGAAAATACTCATAAAAAATATATAATTCAACGCCAAAAAAATTG
*
78333 AAA-GCGTTTTTCATGCTTT
642 AAAGGC-TTTTTCACGCTTT
* *
78352 TAATATCGTTTTTCATATTTTTTCTGAATTAATTTTTAATTAAATCGAAACAAGATTTAGATGCT
1 TAATATCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCT
* * *
78417 CGTAAAAACAAATTCTTAAATTCAATGTGGATGAGATTTGATTAGAAGAATATAGATATTTCAAG
66 CGTAAAAACAAATCCTTAAATTCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAG
* * * * * *
78482 AAGTCTCGGCACCAAAAATCATGCAAAACTGAGTCGGGCGCCGGAATGCAGTTTTAGCCGAAAAC
131 GAGTCTCGGCGCCAAAAATCATGCAAAACTGAGCCGGGCCCCGGAACGC-GTTTTAGCCAAAAAC
*
78547 CGTGATGGTTAGTACACGATTTCGGCTAAAATTTT-AAAAAATTGATCCGAAAGATATTTCCTCA
195 CGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGAAAAAATTGACCCGAAAGATATTTCCTCA
* * * * *
78611 ATTTTAGGATAAAATACTCATAAAAAATATATAATTCGACATCACAAAGATTGTAGGGCTTTTAA
260 ATTTTTGG-TAAAATACTCATAAAAAATATATAATTCAACATCAAAAAGATTGAAGGACTTTTAA
78676 CGCTTCTAATATTGTTTTTCCTATTTTT-TAAATTAATTTCTAATTAAATCGAAACAAGATTCAG
324 CGCTTCTAATATTGTTTTTCCTATTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAG
* * *
78740 ATGCTCGTAAAAAAAAATTTCTTAAATCTAATGTGGCTGAGATTTGGTTAGATGAATACAGAGGG
389 ATGCTCGTAAAAACAAA-TTCTTAAATCTAATGTGGCTGAGATTTGATTAGATGAAT--ATA---
* * * * * *
78805 GATATTTCAAGCAGTTTTGGCACAAAAAATCATGCAAAACTGAGTCGGGCCCTGGAATGCGGTTT
448 GATATTTCAAGGAGTCTTGGCACCAAAAATCATGCAAAACTGAGTCGGGCCCCGGAACGCGTTTT
* * *
78870 TAGCCGAAAACCGTGATGGTCAGTACATGATTTCGGCTAAAATTTGGCAAAAATTGACTCGAAAG
513 TAGCCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACTCGAAAG
** **
78935 ATTTTTTCTCAATTACTAGCGAAAATACTCATAAAAAATATATAATTCAATACCAAAAAAATTGA
578 ATTTTTTCTCAATTTTTAGCGAAAATACTCATAAAAAATATATAATTCAACGCCAAAAAAATTGA
** *
79000 AATCCTTTTTCATGCTTT
643 AAGGCTTTTTCACGCTTT
* * *
79018 TAATATCGTTTTTTATATTTTTTCTGAATTAATTTCTAATTAAATAGAAACAAGATTCAGATGGT
1 TAATATCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCT
* * *
79083 CGTAAAAATAAATCCTTAAATTCAATGTGGTTAAGATTTGATTAGATGAATATAGATATTTCAAG
66 CGTAAAAACAAATCCTTAAATTCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAG
* * * * * *
79148 GAGTCTCGGC-ACATAAAACCATGCAAAACTGAGTCAGGCCCCGGAATGCGTTTTTAGCCGAAAA
131 GAGTCTCGGCGCCA-AAAATCATGCAAAACTGAGCCGGGCCCCGGAACGCG-TTTTAGCCAAAAA
* * ** *
79212 CCGTGATGGTTAGTACATGATTTCGGCTAAAATTTTTCAAAATTTTGACCCGAAAGATTTTTCGG
194 CCGTGATGGTTAGTACACGATTTCGGCTAAAA-TTTTGAAAAAATTGACCCGAAAGATATTTC--
** * * * * ***
79277 AACAATTTTTGCTAAAATACTCATAAAATATATAAAATTTAATGCCAAAAAGATTGGAA-GACTT
256 CTCAATTTTTGGTAAAATACTCATAAAAAATATATAATTCAACATCAAAAAGATT-GAAGGACTT
* * * ** ** * *
79341 TTCACGCTTTTATTATCATTTTTCAAATTTTTCTGAATTAATTTCTAGTTAAATCGAAACAAGAT
320 TTAACGCTTCTAATATTGTTTTTCCTATTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGAT
* * * * * * * *
79406 TCAGATGCTCATAAAAACAAATTCTTCAATCCAATGTAGCTGAAATTAGATTAAATGAATATGGA
385 TCAGATGCTCGTAAAAACAAATTCTTAAATCTAATGTGGCTGAGATTTGATTAGATGAATATAGA
* * * * * ****
79471 TATCTCAAAGAGTCTTGGCGCCAAAAATCATGCAAAACTTAGCCGAGATTGCGGAACGCGTTTTT
450 TATTTCAAGGAGTCTTGGCACCAAAAATCATGCAAAACTGAGTCG-GGCCCCGGAACGCGTTTTT
* * * * * * * *
79536 AGCCAAAAACAGTGATTGATTATTACACGATTTGGGGTAGAATTTTGCAAAAATTGACTTG-AA-
514 AGCCAAAAACCGTGA-TGGTTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACTCGAAAG
* * * * * * *
79599 ATTTATATCCTCAATTTTTATCCACAATACTCATAAAAATTATATAATTGAACGCCAAAAACATT
578 ATTT-T-TTCTCAATTTTTAGCGAAAATACTCATAAAAAATATATAATTCAACGCCAAAAAAATT
* * *
79664 G-AAGGGTTTTTCATGCTTC
641 GAAAGGCTTTTTCACGCTTT
* * *
79683 TAATATCGTTTTTCCTATTATTTTCCGAATTAATTTCTAATTAAATCGAAACATGATTCAGATGC
1 TAATATCGTTTTTCATATT-TTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGC
* ** * * *
79748 TTGT-TTAACAAATCCTTAAATACAATGTGGCTGAGATTTGGTTAGATGAATGTAGATATTTCAA
65 TCGTAAAAACAAATCCTTAAATTCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAA
* * * * *
79812 GGAGTCTCGGTGCAAAAAATCATGCAACACTGAACCGGGACCCCAGAACGCGTTCTTAGCCAAAA
130 GGAGTCTCGGCGCCAAAAATCATGCAAAACTGAGCCGGG-CCCCGGAACGCGTT-TTAGCCAAAA
* * * * * * * * *
79877 ACCTTGATTTTGACTAACGTACACGATTTCGGCTAATATTTTGCATAAATTGACCAGAAA-TTTT
193 ACCGTGA---TG-GTTA-GTACACGATTTCGGCTAAAATTTTGAAAAAATTGACCCGAAAGATAT
* * * * *
79941 TTCCTTAATTTTTGTCTAAAATACT--TATAATATATATAATTCAAC-TCCAAAAAGATTGGAGG
253 TTCCTCAATTTTTG-GTAAAATACTCATAAAAAATATATAATTCAACAT-CAAAAAGATTGAAGG
** * * * * *
80003 ACTTTTCTCGCTTTTAATATCGTTTTTCATATTTTTCTGAATTAATTTCTAATTAAATTGAAACA
316 ACTTTTAACGCTTCTAATATTGTTTTTCCTATTTTTCTAAATTAATTTCTAATTAAATCGAAACA
* * * * *
80068 AGATTCAGATACTTGTAAAAAGAAATCCTTAAATGC-AATGTGACTGAGA--T--TTA-AT--A-
381 AGATTCAGATGCTCGTAAAAACAAATTCTTAAAT-CTAATGTGGCTGAGATTTGATTAGATGAAT
* * * * * *
80124 A-AGATATTTCGAGGAGTCTCGACGCCAAAAATCATGCAAAACTGAGTTGGGGCCCCGAAACGCG
445 ATAGATATTTCAAGGAGTCTTGGCACCAAAAATCATGCAAAACTGAG-TCGGGCCCCGGAACGCG
* * * * * * * *
80188 TTTTTAGCAAAAAACTGTGTTGATTAGTACACGATTTCGACTAAAATTTTACAAAAAAATGAC-C
509 TTTTTAGCCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAAATTTTGC-AAAAATTGACTC
* * * * *
80252 AGAAAAATATTCTCTCAATTTTTAGTC-ACAATACT-AAAAAAAATATATAATTCAACGCCAAAA
573 -GAAAGATTTTTTCTCAATTTTTAG-CGAAAATACTCATAAAAAATATATAATTCAACGCCAAAA
80315 AAATTGAAAGGC-TTTTCACGCTTT
636 AAATTGAAAGGCTTTTTCACGCTTT
* * * * * * *
80339 TGATATCGTTTTTCTTATTTTTTCCGAATTAATTTCTAATTAAAACGTAACATGATTCAGATGTT
1 TAATATCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCT
* * * * * *
80404 TGT-------AA-----AAA--CAA--TGGTTGAAATTTGGTTAGATGAATATAAATATTTCATG
66 CGTAAAAACAAATCCTTAAATTCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAG
* * * * * *
80453 GAGTCTCGGTGCCAAACATCATTCAAAATTGAACCGGGCCCCGGAACGCGTTTTTAGCTAAAAAC
131 GAGTCTCGGCGCCAAAAATCATGCAAAACTGAGCCGGGCCCCGGAACGCG-TTTTAGCCAAAAAC
* * * * * *
80518 CGTGATGATTATTATACGATTTCGGCAAAAATTTTGCAAAAATTCACCCGAAAGATATTTCCTCA
195 CGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGAAAAAATTGACCCGAAAGATATTTCCTCA
* * * ** * * *
80583 ATTTTTAGTCATAATAGTCAT--AAAATATATAATTCAACGCCCAAAAGATTGAAGGCCTTTTCA
260 ATTTTTGGT-AAAATACTCATAAAAAATATATAATTCAACATCAAAAAGATTGAAGGACTTTTAA
* ** *
80646 CGCTTTTAATATCAT-TTTTTTATATTTTTTCTGAATTAATTTCTAATTAAAAT-GAAACAAGAT
324 CGCTTCTAATAT--TGTTTTTCCTA-TTTTTCTAAATTAATTTCTAATT-AAATCGAAACAAGAT
* * *
80709 TTAGATGCTCGTAAAAACAAATTCTTAAATGC-AATGTGGCTAAGAATTT-ATTAGATGATTATA
385 TCAGATGCTCGTAAAAACAAATTCTTAAAT-CTAATGTGGCTGAG-ATTTGATTAGATGAATATA
* ** * ** * *
80772 GATATTTCAAGGAG-CGTAGGTGCCAAAAACCATGCAAAACTGAACCGGGGCCCGAAACGCGTTT
448 GATATTTCAAGGAGTC-TTGGCACCAAAAATCATGCAAAACTGAGTCGGGCCCCGGAACGCGTTT
* * * * *
80836 TTAGCTAAAAACCGTGATGGTTAGTACATGATTTTGGCTAAAACTTTGCAAAAAATGACCCGAAA
512 TTAGCCAAAAACCGTGATGGTTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACTCGAAA
* ** * * * ** * * * * *
80901 AATTTTCCCCCTATTTTTGGATAAAATAATCATAATATATATATATAATTTAACACCAAAAAGAT
577 GATTTTTTCTCAATTTTTAGCGAAAATACTCATAA-A-AAATATATAATTCAACGCCAAAAAAAT
*
80966 TG-GAGGACTTTTT-ACGCTTT
640 TGAAAGG-CTTTTTCACGCTTT
*
80986 TAATATCATTTTTCATA-TTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCT
1 TAATATCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCT
* * * *
81050 TGTAAAAACAAATTCTTAAA-TCTAATGTGGTTGAGATTTGATTAGATGAATATAGATATCTCAA
66 CGTAAAAACAAATCCTTAAATTC-AATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAA
* * * * * *
81114 GGAGTCTCTGCACCAAAAATCATGCAAAAATGAGCTGGGCCCCCAGAACGCCTTTTTAGCCAAAA
130 GGAGTCTCGGCGCCAAAAATCATGCAAAACTGAGCCGGG-CCCCGGAACG-CGTTTTAGCCAAAA
** * * * ** *** *
81179 ACTATGATGGTTATTACACGATTTCAGCTAAAA----GGAAAAATCAATTAGAAAAATATTTCCT
193 ACCGTGATGGTTAGTACACGATTTCGGCTAAAATTTTGAAAAAATTGACCCGAAAGATATTTCCT
* *** ** * * *
81240 C--TTTTT--T---TTTGGC-T---AAATATATAATTCAACGCCAAAAATATGGAAGGACTTTTG
258 CAATTTTTGGTAAAATACTCATAAAAAATATATAATTCAACATCAAAAAGATTGAAGGACTTTTA
* ** *
81294 ACGTTTCTAATA-TCATTTTCCTATTTTTCCCAAATTAATTTCTAATTAAA-CAGAAACAAGATT
323 ACGCTTCTAATATTGTTTTTCCTATTTTT-CTAAATTAATTTCTAATTAAATC-GAAACAAGATT
* * * * *
81357 TAGATGTTCGTAAAAACAAA-TCATTAAATCCAATGTGACTGAGATTTGATTAAATGAATATAGA
386 CAGATGCTCGTAAAAACAAATTC-TTAAATCTAATGTGGCTGAGATTTGATTAGATGAATATAGA
* * *
81421 TATTTCAAGTAGTCTCT-G-AGCCAAAAATCATGCAAAATTGAGTCGGGTCCCCAGAACGCGTTT
450 TATTTCAAGGAGTCT-TGGCA-CCAAAAATCATGCAAAACTGAGTCGGG-CCCCGGAACGCGTTT
* * *
81484 TTAGCCAAAAACTGTGATGGTTTGTTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTAACAC
512 TTAGCCAAAAACCGTGAT-G---GTTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACTC
* * * * * * * *
81549 AAAATATTTCTCCTCAATTTTTGGCTAAAATACTCAT-AAAAATATATAATTCAACGCTAAAAAG
573 GAAAGATTTTTTCTCAATTTTTAGCGAAAATACTCATAAAAAATATATAATTCAACGCCAAAAAA
*
81613 ATTG-GAGTGCTTTTT-ACGCTTT
638 ATTGAAAG-GCTTTTTCACGCTTT
* * * * *
81635 TAATATTGTATTTCTTA-TTTTTCTAAATTAATTTCTAGTTAAATCGAAACAAGATTCAGATGCT
1 TAATATCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCT
81699 CGTAAAAA-AAAT
66 CGTAAAAACAAAT
81711 TATTATAATT
Statistics
Matches: 3399, Mismatches: 494, Indels: 269
0.82 0.12 0.06
Matches are distributed among these distances:
634 36 0.01
635 69 0.02
636 10 0.00
637 71 0.02
638 5 0.00
639 26 0.01
640 69 0.02
641 3 0.00
642 5 0.00
644 38 0.01
645 63 0.02
646 102 0.03
647 165 0.05
648 37 0.01
649 154 0.05
650 3 0.00
651 4 0.00
652 66 0.02
653 2 0.00
655 68 0.02
656 83 0.02
657 106 0.03
658 12 0.00
659 133 0.04
660 53 0.02
661 155 0.05
662 342 0.10
663 398 0.12
664 49 0.01
665 147 0.04
666 586 0.17
667 108 0.03
668 32 0.01
669 104 0.03
670 77 0.02
671 18 0.01
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (660 bp):
TAATATCGTTTTTCATATTTTTTCTGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCT
CGTAAAAACAAATCCTTAAATTCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAG
GAGTCTCGGCGCCAAAAATCATGCAAAACTGAGCCGGGCCCCGGAACGCGTTTTAGCCAAAAACC
GTGATGGTTAGTACACGATTTCGGCTAAAATTTTGAAAAAATTGACCCGAAAGATATTTCCTCAA
TTTTTGGTAAAATACTCATAAAAAATATATAATTCAACATCAAAAAGATTGAAGGACTTTTAACG
CTTCTAATATTGTTTTTCCTATTTTTCTAAATTAATTTCTAATTAAATCGAAACAAGATTCAGAT
GCTCGTAAAAACAAATTCTTAAATCTAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTC
AAGGAGTCTTGGCACCAAAAATCATGCAAAACTGAGTCGGGCCCCGGAACGCGTTTTTAGCCAAA
AACCGTGATGGTTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACTCGAAAGATTTTTTC
TCAATTTTTAGCGAAAATACTCATAAAAAATATATAATTCAACGCCAAAAAAATTGAAAGGCTTT
TTCACGCTTT
Found at i:81788 original size:15 final size:16
Alignment explanation
Indices: 81770--81799 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
81760 ATAAATAATA
81770 ATATTATAAT-TAAAT
1 ATATTATAATCTAAAT
81785 ATATTATAATCTAAA
1 ATATTATAATCTAAA
81800 AATAATTATT
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:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATTATAATCTAAAT
Found at i:82256 original size:270 final size:268
Alignment explanation
Indices: 81774--82313 Score: 992
Period size: 272 Copynumber: 2.0 Consensus size: 268
81764 ATAATAATAT
81774 TATAATTAAATATATTATAATCTAAAAATAATTATTAAAAGTAAATTATTAATTACAATTATAAT
1 TATAATTAAATATATTATAATCTAAAAATAATTATTAAAAGTAAATTATTAATTACAATTATAAT
* **
81839 GGATTATTAATATCTTTTCATAATTTAAAAAATTTAAATATTGGATTTGCAATATCTTTCCATAA
66 GGATTATTAATATCTTTCCATAATTTAAAAAATTTAAATATAAGATTTGCAATATCTTTCCATAA
81904 TTAATAAAAAGTTGAATTAAAAAAATCATCTAAAAAAATTTTAAAAAAAAGTTAAATGATTAAAA
131 TTAATAAAAAGTTGAATTAAAAAAATCATCTAAAAAAA-TTTAAAAAAAAGTTAAATGATTAAAA
81969 AGAATACTTATTAAAAAAATTATTATACTATATTGCTAAGGGTATTTATGAAATTTGCCAATTAA
195 AGAATACTTATT-AAAAAATTATTATACTATATTGCTAAGGGTATTTATGAAATTTGCCAATTAA
82034 AATTTCTGAA
259 AATTTCTGAA
*
82044 TATAATTAAATATATTATAATCTAAAAATAATTATTAGTAAGTAAATTATTAATTACAATTATAA
1 TATAATTAAATATATTATAATCTAAAAATAATTATTA-AAAGTAAATTATTAATTACAATTATAA
82109 TGGATTATTAATATCTTTCCATAATTTTAAAAAATTTAAATATAAGATTTGCAATATCTTTCCAT
65 TGGATTATTAATATCTTTCCATAA-TTTAAAAAATTTAAATATAAGATTTGCAATATCTTTCCAT
82174 AATTAATAAAAAGTTGAATTAAAAAAATCATCTAAAAAAA-TTAAAAAAAAGTTAAATGATTAAA
129 AATTAATAAAAAGTTGAATTAAAAAAATCATCTAAAAAAATTTAAAAAAAAGTTAAATGATTAAA
*
82238 AAGAATACTTATTAAAAAATTATTATACTATATTGCTAAGGGTATTTATGAAATTTTCCAATTAA
194 AAGAATACTTATTAAAAAATTATTATACTATATTGCTAAGGGTATTTATGAAATTTGCCAATTAA
82303 AATTTCTGAA
259 AATTTCTGAA
82313 T
1 T
82314 TGGTGATTTT
Statistics
Matches: 263, Mismatches: 5, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
269 62 0.24
270 74 0.28
271 49 0.19
272 78 0.30
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (268 bp):
TATAATTAAATATATTATAATCTAAAAATAATTATTAAAAGTAAATTATTAATTACAATTATAAT
GGATTATTAATATCTTTCCATAATTTAAAAAATTTAAATATAAGATTTGCAATATCTTTCCATAA
TTAATAAAAAGTTGAATTAAAAAAATCATCTAAAAAAATTTAAAAAAAAGTTAAATGATTAAAAA
GAATACTTATTAAAAAATTATTATACTATATTGCTAAGGGTATTTATGAAATTTGCCAATTAAAA
TTTCTGAA
Found at i:83026 original size:21 final size:22
Alignment explanation
Indices: 82988--83036 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
82978 TATATGTTTA
82988 TTTTAAATAAGTAATTTTA-TAT
1 TTTTAAATAAGTAATTTTACT-T
83010 TTTTAAA-AA-TAATTTTTACTT
1 TTTTAAATAAGTAA-TTTTACTT
83031 TTTTAA
1 TTTTAA
83037 TTTCACGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 3 0.12
21 14 0.56
22 8 0.32
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTTAAATAAGTAATTTTACTT
Found at i:83032 original size:20 final size:22
Alignment explanation
Indices: 82988--83033 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
82978 TATATGTTTA
82988 TTTTAAATAAGTAATTTTATAT
1 TTTTAAATAAGTAATTTTATAT
83010 TTTTAAA-AA-TAATTTT-TACT
1 TTTTAAATAAGTAATTTTATA-T
83030 TTTT
1 TTTT
83034 TAATTTCACG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.09
20 12 0.52
21 2 0.09
22 7 0.30
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTTAAATAAGTAATTTTATAT
Found at i:85926 original size:40 final size:40
Alignment explanation
Indices: 85871--85956 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 40
85861 GGTGACAAGG
85871 TATTTTTTCCTATACATTATACGCATATGGGTGCATAAAT
1 TATTTTTTCCTATACATTATACGCATATGGGTGCATAAAT
85911 TATTTTTTCCTATACATTATACGCATATGGGTGCATAAAT
1 TATTTTTTCCTATACATTATACGCATATGGGTGCATAAAT
*
85951 TGTTTT
1 TATTTT
85957 ACTTTGATTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (40 bp):
TATTTTTTCCTATACATTATACGCATATGGGTGCATAAAT
Found at i:89714 original size:22 final size:21
Alignment explanation
Indices: 89689--89851 Score: 132
Period size: 22 Copynumber: 7.5 Consensus size: 21
89679 CTCCTACTTA
*
89689 CTATGAAATTTTGATAATCTC
1 CTATGAAATTTTGATAACCTC
*
89710 GCTAT-ATTATTTTGATAACCTCC
1 -CTATGA-AATTTTGATAACCT-C
* * *
89733 CTAAGAAATTGTGATAATCTC
1 CTATGAAATTTTGATAACCTC
* * *
89754 CATGTGAAACTTTGATAACCAC
1 C-TATGAAATTTTGATAACCTC
89776 ACTATGAAATTTTGAT-ACCATC
1 -CTATGAAATTTTGATAACC-TC
*
89798 CTATGAAATTTTGATAACCAC
1 CTATGAAATTTTGATAACCTC
* *
89819 ACTATAAAATTGTGATAACCTC
1 -CTATGAAATTTTGATAACCTC
*
89841 TATATGAAATT
1 -CTATGAAATT
89852 AATTTTGATT
Statistics
Matches: 111, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
21 22 0.20
22 86 0.77
23 3 0.03
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.36
Consensus pattern (21 bp):
CTATGAAATTTTGATAACCTC
Found at i:89849 original size:87 final size:88
Alignment explanation
Indices: 89688--89849 Score: 206
Period size: 87 Copynumber: 1.9 Consensus size: 88
89678 TCTCCTACTT
* * * * *
89688 ACTATGAAATTTTGATAATCTCGCTATATTATTTTGATAACCTCCCTAAGAAATTGTGATAATCT
1 ACTATGAAATTTTGATAACCTCGCTATATAATTTTGATAACCACACTAAGAAATTGTGATAACCT
*
89753 CCATGTGAAACTTTGATAACCAC
66 CCATATGAAACTTTGATAACCAC
89776 ACTATGAAATTTTGAT-ACCATC-CTATGA-AATTTTGATAACCACACTATA-AAATTGTGATAA
1 ACTATGAAATTTTGATAACC-TCGCTAT-ATAATTTTGATAACCACACTA-AGAAATTGTGATAA
*
89837 CCTCTATATGAAA
63 CCTCCATATGAAA
89850 TTAATTTTGA
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
87 44 0.69
88 20 0.31
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.35
Consensus pattern (88 bp):
ACTATGAAATTTTGATAACCTCGCTATATAATTTTGATAACCACACTAAGAAATTGTGATAACCT
CCATATGAAACTTTGATAACCAC
Found at i:89949 original size:22 final size:22
Alignment explanation
Indices: 89924--90088 Score: 92
Period size: 22 Copynumber: 7.5 Consensus size: 22
89914 ATAATCATAT
89924 TATGAAATTTTGATAACCTCCA
1 TATGAAATTTTGATAACCTCCA
* * * *
89946 TATGGAATGTTGATAACTTCCC
1 TATGAAATTTTGATAACCTCCA
* * *
89968 TAT-AGAATTTCGTTAATCT-CA
1 TATGA-AATTTTGATAACCTCCA
* ***
89989 TCATGAAATTTTGATAAGCAAAA
1 T-ATGAAATTTTGATAACCTCCA
* * *
90012 TATGAAATTTTAATTACCTTC-
1 TATGAAATTTTGATAACCTCCA
*
90033 TATGAAATTTTTG-TAACC-ACA
1 TATGAAA-TTTTGATAACCTCCA
90054 TTATGAAATTTTGATAA--TCACA
1 -TATGAAATTTTGATAACCTC-CA
90076 TTATGAAATTTTG
1 -TATGAAATTTTG
90089 GTAGCCACAC
Statistics
Matches: 107, Mismatches: 26, Indels: 20
0.70 0.17 0.13
Matches are distributed among these distances:
20 1 0.01
21 18 0.17
22 85 0.79
23 3 0.03
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (22 bp):
TATGAAATTTTGATAACCTCCA
Found at i:90097 original size:22 final size:22
Alignment explanation
Indices: 90033--90108 Score: 107
Period size: 22 Copynumber: 3.5 Consensus size: 22
90023 AATTACCTTC
*
90033 TATGAAATTTTTGTAACCACAT
1 TATGAAATTTTGGTAACCACAT
* *
90055 TATGAAATTTTGATAATCACAT
1 TATGAAATTTTGGTAACCACAT
* *
90077 TATGAAATTTTGGTAGCCACAC
1 TATGAAATTTTGGTAACCACAT
90099 TATGAAATTT
1 TATGAAATTT
90109 CGATTATATG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (22 bp):
TATGAAATTTTGGTAACCACAT
Found at i:94413 original size:332 final size:330
Alignment explanation
Indices: 92948--96075 Score: 2828
Period size: 332 Copynumber: 9.5 Consensus size: 330
92938 CCTTGAGATA
* * * *
92948 TTAATCAAATCTTAGCCACATTGAATTTAAGAATTTGTTTTTACAAGCATCTGAATCTTGTTTCG
1 TTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCG
93013 ATTTAATTAGAAATTAATTCAGAAAAAAATATGAAAAACGATATT-AAAGCCGTGAAAAGTCCTC
66 ATTTAATTAGAAATTAATTCAG-AAAAAATATGAAAAACGATATTAAAAG-CGTGAAAAGTCCTC
* *** * * * *
93077 CAATC-TTTTGGTGTTAAATTATATATA--TTATGAGTATTTTATCCAGAAATAGGGGAAAAAAT
129 CAATCTTTTTGGTGTTGAATTATATATATTTTATGAGTATTTTAGATAAAAATTGAGGAATAAA-
* * * *
93139 TTTCGGGTCATTTTTTGCAAAGTTTTAGCCAAAATCGTGTACTAACCATCACGGTTTTTGGCTAA
193 TTTCGAGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAA
* * * ** * * *
93204 AAACGCGTTTCAGGG-CCCGGTTCAATTTTAAATGATTTTTGGCGCCGAGACTCTTTGAAATATC
258 AAACGCG-TTCCGGGCCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATC
93268 TATATTCAT
322 TATATTCAT
* * * * *
93277 CTAACCAAATCTCA---AC------------CA-TTGTTTTTACAAACATCTGAAT-TATGTTTC
1 TTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCT-TGTTTC
* * * * * * * *
93325 GTTTTAATTAAAAATTAATTCGGAAAAAATAGGATAAACGACATTATAAGCGTGAAAAG-CCTTT
65 GATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCC-TC
* * * * * * * * *
93389 GAAT-TTTTTTGCGTTGAATTATATATATATATATTTTTAATATTGTGGCTAAAAATTGAGAGAA
129 CAATCTTTTTGGTGTTGAA-T-TATATATAT-T-TTATGAGTATTTTAGATAAAAATTGAG-GAA
** * ** * *
93453 TATTTTTCTG-GTCATTTTTTGTGAAATTTTAGCCGAAATCGTATACGTTA--A-CACGGTATTT
189 TAAATTTC-GAGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC-TAACCATCACGGT-TTT
* ** * * * * *
93514 T-GCTAAAAACGCGTTTCGGAGCCCCAACTCAATTTTGCATGATTTTTGGCGTCGAGACTCCTCG
251 TGGCTAAAAACGCGTTCCGG-GCCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTG
93578 AAATATC--TA-T-A-
315 AAATATCTATATTCAT
* * * *
93589 -T--T-AAATCTCAGCCACATTGCATTTAAGGATTTCTTTTTACGAGTATCTGAATCTTGTTTTG
1 TTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCG
*
93650 ATTTAATTAGAAATTAATTCAG--AAAATATGAAAAACGATATTAAAAGCGAGAAAAGTCCTCCA
66 ATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCA
* * * * * * *
93713 ATTTTTTTTGGAGTTGAATTATATA-A-ATTATAAGTATTTTAGACAAAAATTAAGGAAAAATAT
131 A-TCTTTTTGGTGTTGAATTATATATATTTTATGAGTATTTTAGATAAAAATTGAGGAATAA-AT
* * * *
93776 TTCTG-GTCAATTTTTGCAAAATATTAGCCGAAATCGTGTACGTTAGTCGAAATCAAGGTTTTTG
194 TTC-GAGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC--TA-AC--CATCACGGTTTTTG
*** * * * *
93840 GCTAAAAACGCGTTCCGAGGTTTCGGTTCAGTGTTGCATGAATTTTTGCGCCGAGACTCCTTGAA
253 GCTAAAAACGCGTTCCG-GGCCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAA
93905 ATATC--TA--CA-
317 ATATCTATATTCAT
* * * * *** * *
93914 TTCATCTAA-GTCAGCCACATTGGATTTAACGATTTG-TAAAACAAGCATCTGAATCATGTTTCG
1 TTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCG
* * * * ** *
93977 ATTTAATTAGAAATTAATTCGGAAAATAATAGGAAAAACGATATTATAAGCATGAAAAACCCTTC
66 ATTTAATTAGAAATTAATTCAGAAAA-AATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCC
* * * * *
94042 AATCTTTTTTGTGTTCAATTATATA-ATTTTTATGAGTATTGTGGATAAAACTTGAGGATATAAA
130 AATCTTTTTGGTGTTGAATTATATATA-TTTTATGAGTATTTTAGATAAAAATTGAGGA-ATAAA
** * * * *
94106 TTTCGAGTCAATTTTTGCAAAATGCTAGCCCAAATCGTGTAATAATCAATCACTGTTTTTGGCTA
193 TTTCGAGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAA-CCATCACGGTTTTTGGCTA
* ** * * *
94171 AAAACGCGTTCCGCGGCCCCGGCTAAACTTTGCATGATTTTTTACGCCAAGACTCTTTGAGATAT
257 AAAACGCGTTCCG-GGCCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATAT
*
94236 CCATATTCAT
321 CTATATTCAT
* * * * *
94246 TTAATCTAATCTCAGCTACATTGGATTGAAGAATTTGTTTTTATGAGCATCTGAATCTTGTTTCG
1 TTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCG
* *
94311 ATTTAACTAGAAATTAATTCAG-AAAAATATGAAAAATGATATTAAAAGCGTGAAAAGTCCTCCA
66 ATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCA
* **
94375 ATCTTTTTGGCGTT-AGATTATATATATTTTATGAGTATTTTAGCCAAAAATTGATTGGAA-AAA
131 ATCTTTTTGGTGTTGA-ATTATATATATTTTATGAGTATTTTAGATAAAAATTGA--GGAATAAA
* * * * * * **
94438 TCTTTGGGGTCAAATGTTTGCTAAATTTTATCCGAAATCATGTACTAACCATCACGGTTTCCGGC
193 --TTTCGAGTC-AATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGC
* * * * * * *
94503 TAAAAACGCATTCCAGGG-CCTGACTCAGTTTTGCATGATTTTTGGTGTCGAGACTCCTTGAAAT
255 TAAAAACGCGTTCC-GGGCCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAAT
94567 ATCTATATTCA-
319 ATCTATATTCAT
* * * * * *
94578 TCAATCAAGTCTTAGCCACATTGAATTTAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCA
1 TTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCG
* * * * * *
94643 ATTTAATTGGAAACTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCATGAAAAAGGCTTTC
66 ATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTG-AAAAGTCCTCC
* * * * * * *
94708 AATTTTTTTGGTGTTGAATTACATATTTTTTATGAGTATTTTTGCTAGAAATTGAGGAAAAATAT
130 AATCTTTTTGGTGTTGAATTATATATATTTTATGAGTATTTTAGATAAAAATTGAGGAATAA-AT
* * * * * * * *
94773 TTCTAGGCAATTTTTGCAAAATTTTAGCCAAAATCATGTATTGACCATCATGGTTTTCGGCTAAA
194 TTCGAGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAA
* * ** * ** *
94838 ACCGCGTTCCAAGG-ATCGGCTTAGTTTTGCATGATTTTTTTGTTCCAAAACTCCTTGAAATATC
259 AACGCGTTCC-GGGCCCCGGCTCAGTTTTGCATGA-TTTTTTGCGCCAAGACTCCTTGAAATATC
94902 TATATTCAT
322 TATATTCAT
* * * * *
94911 CTAACCAAAAT-TCAGCCACATTAGATTTAAGGATTTATTTTTACGAGCATCTGAATCGTGTTTC
1 TTAATC-AAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
* * * * * * *
94975 GATTTAATTAGAAATTAATT-TGAAAATATAGGAAAAACAATATTAGAAGCGTTAAAAG-CGCTA
65 GATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTC-CTC
* * * *** * **
95038 CAATCTTTTTGATGTCGAATTATATATTTTTTATGAGTATTTTATCCAAAAATTGAAGAAATATC
129 CAATCTTTTTGGTGTTGAATTATATATATTTTATGAGTATTTTAGATAAAAATTG-AGGAATAAA
** * *
95103 TTTCG-GATCAATTTTTATAAACTTTTAGCCGAAATCGTGTACTAACCATCACTGATTTTTTTGG
193 TTTCGAG-TCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCAC-G--GTTTTTGG
* * * * * * *
95167 CTAAATACGTGTTCCATGGCCACGGCTCTA-TTTTACATGATTTTTTACGCCAAGACTCCTTAAA
254 CTAAAAACGCGTTCC-GGGCCCCGGCTC-AGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAA
*
95231 ATATCTTTATTCAT
317 ATATCTATATTCAT
* * ** * * * * *
95245 TTAATCAAATCTTAGACGTATTAGATTTAAGGATTTGTTTTTATGTGAATCTGAATCTTATTTCG
1 TTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCG
*
95310 ATTTAATTAAAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCA
66 ATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCA
* ** * * * *
95375 ATCCTTTTGAAGTTGAATTATATATATTTTTATGAGTATTTTCGCTAGAAATCGAGGAA-AAATC
131 ATCTTTTTGGTGTTGAATTATATATA-TTTTATGAGTATTTTAGATAAAAATTGAGGAATAAA--
* * * * *
95439 TTTCGAATCAAATTTTGCAAAATTTTAGCAGAAATCATGTACTAACCATCACGGTTTTCGGCTAA
193 TTTCGAGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAA
* * * * * * *
95504 AACCGCGTTCCGGGGCCCGGATCAGTTTTGCATGATTTTTGGTGTCAAAACTCCTTGAAATATCT
258 AAACGCGTTCCGGGCCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCT
95569 ATATTCAT
323 ATATTCAT
* * **
95577 CTAACCAAATCTCAGCCACATTAAATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCG
1 TTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCG
* * * * * *
95642 ATTTAATTAGAAATTAATT-TGAAAAAATAGGAAAAACAATATTAAAAGCGTTAAAAGCCCTTCA
66 ATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCA
* * **
95706 AT-TTTTTTGTGTTTAATTATATAT-TTTTATGAGTATTTTA-ACTAAAAATTGAGGAAATATCT
131 ATCTTTTTGGTGTTGAATTATATATATTTTATGAGTATTTTAGA-TAAAAATTGAGG-AATAAAT
* * *
95768 TTCGGGTCAATTTTTGTAAAATTTTAGTCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAA
194 TTCGAGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAA
* * * * * *
95833 AACGCGTTCCAGGGCCACGACTCTGTTTTGCATGATTTTTGGCACCGAGACTCCTTGAAATATCT
259 AACGCGTTCC-GGGCCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCT
*
95898 TTATTCAT
323 ATATTCAT
* * * * * *
95906 CTAATCAAATCTTAGGCACATTGGATTTAAGGATTTGTTTTTATGGGCATCTAAATCTTGTTTCG
1 TTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCG
95971 ATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCA
66 ATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCA
* * *
96036 ATCCTTTTGGCGTTGAATTATTTATA-TTTATGAGTATTTT
131 ATCTTTTTGGTGTTGAATTATATATATTTTATGAGTATTTT
96076 TGCCAAAAAA
Statistics
Matches: 2251, Mismatches: 443, Indels: 208
0.78 0.15 0.07
Matches are distributed among these distances:
308 8 0.00
311 5 0.00
312 43 0.02
313 52 0.02
314 10 0.00
315 6 0.00
316 19 0.01
317 50 0.02
318 108 0.05
319 8 0.00
321 1 0.00
322 38 0.02
323 5 0.00
324 60 0.03
325 64 0.03
326 4 0.00
327 109 0.05
328 116 0.05
329 169 0.08
330 95 0.04
331 304 0.14
332 355 0.16
333 190 0.08
334 257 0.11
335 107 0.05
336 68 0.03
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.37
Consensus pattern (330 bp):
TTAATCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCG
ATTTAATTAGAAATTAATTCAGAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCCTCCA
ATCTTTTTGGTGTTGAATTATATATATTTTATGAGTATTTTAGATAAAAATTGAGGAATAAATTT
CGAGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAA
CGCGTTCCGGGCCCCGGCTCAGTTTTGCATGATTTTTTGCGCCAAGACTCCTTGAAATATCTATA
TTCAT
Found at i:100486 original size:32 final size:33
Alignment explanation
Indices: 100438--100502 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
100428 CCCAATTATT
100438 TTTTTTTCCTCCAGAAATACCACACTTTTTTTA
1 TTTTTTTCCTCCAGAAATACCACACTTTTTTTA
* **
100471 TTTTTTT-CTCTAGAAATACCATGCTTTTTTTA
1 TTTTTTTCCTCCAGAAATACCACACTTTTTTTA
100503 GCACAGCCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 22 0.76
33 7 0.24
ACGTcount: A:0.23, C:0.20, G:0.05, T:0.52
Consensus pattern (33 bp):
TTTTTTTCCTCCAGAAATACCACACTTTTTTTA
Found at i:101628 original size:19 final size:19
Alignment explanation
Indices: 101578--101641 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
101568 TTGGGATCAA
*
101578 ACAGTATAATCTCATTTGT
1 ACAGTATAATCTCATCTGT
* *
101597 ATAGTACATAATCTAATCTGT
1 ACAGT--ATAATCTCATCTGT
101618 ACAGTATAATCTCATCTGT
1 ACAGTATAATCTCATCTGT
101637 ACAGT
1 ACAGT
101642 TGCTAAACAG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
19 22 0.58
21 16 0.42
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (19 bp):
ACAGTATAATCTCATCTGT
Found at i:101843 original size:50 final size:50
Alignment explanation
Indices: 101789--101889 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
101779 GAAATACACC
101789 ACCACACAAGCTTCTCGGGGAAGGGGGAGATGTTAAAATAAATATTTGAA
1 ACCACACAAGCTTCTCGGGGAAGGGGGAGATGTTAAAATAAATATTTGAA
101839 ACCACACAAGCTTCTCGGGGAAGGGGGAGATGTTAAAATAAATATTTGAA
1 ACCACACAAGCTTCTCGGGGAAGGGGGAGATGTTAAAATAAATATTTGAA
101889 A
1 A
101890 GTAATTAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.22
Consensus pattern (50 bp):
ACCACACAAGCTTCTCGGGGAAGGGGGAGATGTTAAAATAAATATTTGAA
Found at i:102062 original size:15 final size:16
Alignment explanation
Indices: 102042--102075 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
102032 GTAATAAGAT
102042 TATTATTACTATA-TA
1 TATTATTACTATATTA
*
102057 TATTATTATTATATTA
1 TATTATTACTATATTA
102073 TAT
1 TAT
102076 ATAATAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTACTATATTA
Found at i:102063 original size:18 final size:18
Alignment explanation
Indices: 102040--102077 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
102030 AAGTAATAAG
102040 ATTATTATTACTA-TATAT
1 ATTATTATTA-TATTATAT
102058 ATTATTATTATATTATAT
1 ATTATTATTATATTATAT
102076 AT
1 AT
102078 AATAACAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTATTATTATATTATAT
Found at i:103654 original size:333 final size:328
Alignment explanation
Indices: 102870--103827 Score: 1099
Period size: 333 Copynumber: 2.9 Consensus size: 328
102860 CCATGATGGT
* * *
102870 AAAAA-TGACCTGAAAGATTTTTCCTCAATTTTTGACAAAAATACTCATAAAATATATATAATTC
1 AAAAATTGACCCGAAAGATTTTTCCTCAATTTTAG-CAAAAATACTCATAAAAAATATATAATTC
* * * * *
102934 AACGCCAAAAAGATTGGAGGACTTTTCACGCTTTTAATATCGTTTT--TCATTT-TTTCTGAATT
65 AATGCCAAAAAGATTGAAGGACTTTT-TCGCTTCTAATATCGTTTTCCTTATTTCTTTCTGAATT
* * * *
102996 AATTTCTAATTAAATCGATACAAGATTCAGATGCACATAAAAATAAATCGTTAAATCCAATGTGG
129 AATTTCTAATTAAATCGAAACAAGATTCAAATGCTCATAAAAATAAATCCTTAAAT-CAATGTGG
** * * * * *
103061 CTGAGATTTTATTAGATGACTAAAGATATTTCAAGGAGCCTCGGCGCCAAAAATCATGCAAAACA
193 CTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACT
* * ** * **
103126 AAGCCGTGGCCTTGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTTGGCTAA
258 GAGCCG-GACCCCGGAACGCGTTTTTAG-CGAAAACCGTGATGGTTAGTACACGATTTCAGCTAA
*
103191 AATTTTGC
321 AATTTTCC
* * * * *
103199 AAAAATTGACCCGAAAGATATTTCCTTAATTTTTGGCTAAAATACTCATAAAAAATATATGATTC
1 AAAAATTGACCCGAAAGATTTTTCCTCAA-TTTTAGCAAAAATACTCATAAAAAATATATAATTC
* ** * * *
103264 GATATCAAAAAGATTGAAGGGCTTTTAACGCTTCTAATATTGTTTTTCC-TATTTCTTTCTGAAT
65 AATGCCAAAAAGATTGAAGGACTTTT-TCGCTTCTAATATCG-TTTTCCTTATTTCTTTCTGAAT
* *
103328 TAATTTCTAATTAAATCGAAACAAGATTCAAATGCTCTTAAAAATAAATCCTTAAATCTAATATG
128 TAATTTCTAATTAAATCGAAACAAGATTCAAATGCTCATAAAAATAAATCCTTAAATC-AATGTG
* *
103393 GCTAAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCACCAAAAATCATGCAAAAC
192 GCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAAC
* * *
103458 TGAGCCGGACCCCGGAACGTGTTTTTAGTCGAAAATCGTGATGGTTAGTATACGATTTCAGCTAA
257 TGAGCCGGACCCCGGAACGCGTTTTTAG-CGAAAACCGTGATGGTTAGTACACGATTTCAGCTAA
103523 AATTTTCC
321 AATTTTCC
* * *
103531 AAAAATTGACCCGAAAAATTTTTCCTCGATTTCTAGCGAAAATACTCATAAAAAATATATAATTC
1 AAAAATTGACCCGAAAGATTTTTCCTCAATTT-TAGCAAAAATACTCATAAAAAATATATAATTC
* * * * **
103596 AATGCCAAAAA-AATGAAAGCCTTTTTCTTGCTTCAAATATCGTTTTCCTTATTTTCTTTCCAAA
65 AATGCCAAAAAGATTGAAGGACTTTTTC--GCTTCTAATATCGTTTTCCTTA-TTTCTTTCTGAA
* * * *
103660 TTAATTTCTAACTAAATCAAAACAAGATTTAGAAAT--TCGT-AAAATCAAATCCTTAAATACAA
127 TTAATTTCTAATTAAATCGAAACAAGA-TT-CAAATGCTCATAAAAAT-AAATCCTTAAAT-CAA
* *
103722 TGTGGCTGAGATTTGGTTAGATGAATACT-GATATACTTTAAGGAGTCGTGGCGCCAAAAATCAT
188 TGTGGCTGAGATTTGGTTAGATGAATA-TAGATAT--TTCAAGGAGTCTTGGCGCCAAAAATCAT
*
103786 GCAAAACTGAGTCAGGACCCCGGAACGCGTTTTTAGCGAAAA
250 GCAAAACTGAG-CCGGACCCCGGAACGCGTTTTTAGCGAAAA
103828 AAAAAAA
Statistics
Matches: 536, Mismatches: 73, Indels: 34
0.83 0.11 0.05
Matches are distributed among these distances:
329 5 0.01
330 80 0.15
331 29 0.05
332 140 0.26
333 210 0.39
334 4 0.01
335 46 0.09
336 22 0.04
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (328 bp):
AAAAATTGACCCGAAAGATTTTTCCTCAATTTTAGCAAAAATACTCATAAAAAATATATAATTCA
ATGCCAAAAAGATTGAAGGACTTTTTCGCTTCTAATATCGTTTTCCTTATTTCTTTCTGAATTAA
TTTCTAATTAAATCGAAACAAGATTCAAATGCTCATAAAAATAAATCCTTAAATCAATGTGGCTG
AGATTTGGTTAGATGAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAG
CCGGACCCCGGAACGCGTTTTTAGCGAAAACCGTGATGGTTAGTACACGATTTCAGCTAAAATTT
TCC
Done.