Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2537
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: 66355
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Found at i:2441 original size:20 final size:18
Alignment explanation
Indices: 2416--2492 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 18
2406 GTTGCAGGCT
2416 ATGTATCGATACATGGTAC
1 ATGTATCGATACAT-GTAC
2435 AATGTATCGATACATTGTACC
1 -ATGTATCGATACA-TGTA-C
*
2456 ATGTATCGATACAATGAAC
1 ATGTATCGATAC-ATGTAC
2475 ATGTATCGATACAATGTA
1 ATGTATCGATAC-ATGTA
2493 TCAATATAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
19 18 0.35
20 31 0.60
21 3 0.06
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (18 bp):
ATGTATCGATACATGTAC
Found at i:3486 original size:63 final size:62
Alignment explanation
Indices: 3414--3596 Score: 192
Period size: 63 Copynumber: 2.9 Consensus size: 62
3404 GGATTACAAC
* ** * *
3414 CTAGGTCTTTTCTCTTAAGTTGAATTTATTTTCCTAGAAATAGTTCGAGCTTAGGATCGCAGT
1 CTAGGTCTTTTCTTTTAAGTCAAATTTATTTTCCTAGAAATAGTT-GAGCCTAGGATCACAGT
* * * * * *
3477 CTAGGTCTTTTCTTTTTAGTCAAATCTATTTTCCTTA-AAATAAG-TGAAGCCCAGTATTATAGT
1 CTAGGTCTTTTCTTTTAAGTCAAATTTATTTTCC-TAGAAAT-AGTTG-AGCCTAGGATCACAGT
3540 CTAGGGT-TTTTCTTTTAAGTCAAATTTATTTTCCTAGAAATAGTTTGAGCCTAGGAT
1 CTA-GGTCTTTTCTTTTAAGTCAAATTTATTTTCCTAGAAATAG-TTGAGCCTAGGAT
3597 TGCAATTTAG
Statistics
Matches: 98, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
62 5 0.05
63 84 0.86
64 9 0.09
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (62 bp):
CTAGGTCTTTTCTTTTAAGTCAAATTTATTTTCCTAGAAATAGTTGAGCCTAGGATCACAGT
Found at i:4218 original size:100 final size:98
Alignment explanation
Indices: 3981--4399 Score: 326
Period size: 100 Copynumber: 4.2 Consensus size: 98
3971 CTGGTAAGAA
* * * * * ** *
3981 GTTAAGCCCTATAGAGTCAAAGCCTACACGAGTTGGCACCTGATAAGGTGCTTAAGCCTTATAAA
1 GTTAAGCCCTATAAAGTCAAAGCCTATACTAGCTGGCACCTTATAAGAAGGTTAAGCCTTATAAA
* * * * ** * * *
4046 GTGAATGTCCA-ACTAACTGGCACTTGGTAAAAAG
66 ATTAAAG-CCACATTAGTTGGCACCT-ATAGAAAG
* * * *
4080 GTTAAG-CCTATAGAGTTAAAGCCTATACTAGCTGGCACCTTATAAGAAGGTTAAGCCCTAGAAA
1 GTTAAGCCCTATAAAGTCAAAGCCTATACTAGCTGGCACCTTATAAGAAGGTTAAGCCTTATAAA
*
4144 ATTAAAGTCCACATTAGCTGGCACCTACTAGAAAG
66 ATTAAAG-CCACATTAGTTGGCACCTA-TAGAAAG
* * * ** *
4179 GTTAAGCCTTATAAAGTCAAAGCCTATATTAGCTAGCACCTGCTAGGAAGGTTAAGCCTTATAAA
1 GTTAAGCCCTATAAAGTCAAAGCCTATACTAGCTGGCACCTTATAAGAAGGTTAAGCCTTATAAA
* * * **
4244 GTCAAAGCCTATATTAGTTGGCACGAAATAGGAAA-
66 ATTAAAGCC-ACATTAGTTGGCAC-CTATA-GAAAG
** * *
4279 GTTAAGCCCTATGGAGTTAAAGTCC-ATACTAGCTGGCACCTTATAAGAATGTTAAGCCTTATAA
1 GTTAAGCCCTATAAAGTCAAAG-CCTATACTAGCTGGCACCTTATAAGAAGGTTAAGCCTTATAA
* * * *
4343 AGA-TAAAGCCCACACTAGTTGGCACTTGATAGGAAT
65 A-ATTAAAG-CCACATTAGTTGGCACCT-ATAGAAAG
*
4379 GTTAAGCCCTATAAAATCAAA
1 GTTAAGCCCTATAAAGTCAAA
4400 ATCCATACTA
Statistics
Matches: 254, Mismatches: 55, Indels: 21
0.77 0.17 0.06
Matches are distributed among these distances:
98 56 0.22
99 34 0.13
100 155 0.61
101 9 0.04
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (98 bp):
GTTAAGCCCTATAAAGTCAAAGCCTATACTAGCTGGCACCTTATAAGAAGGTTAAGCCTTATAAA
ATTAAAGCCACATTAGTTGGCACCTATAGAAAG
Found at i:4287 original size:150 final size:149
Alignment explanation
Indices: 4077--4399 Score: 357
Period size: 150 Copynumber: 2.2 Consensus size: 149
4067 ACTTGGTAAA
* * ** *
4077 AAGGTTAAGCCTATAGAGTTAAAGCCTATACTAGCTGGCACCTTATAAGAAGGTTAAGCCCTA-G
1 AAGGTTAAGCCTATAAAGTCAAAGCCTATACTAGCTGGCACCAAATAAGAAAGTTAAGCCCTATG
*
4141 AAAATTAAAGTCCACATTAGCTGGCACC-TACT-AGAAAGGTTAAGCCTTATAAAG-TCAAAGCC
66 -AAATTAAAGTCCACACTAGCTGGCACCTTA-TAAG-AAGGTTAAGCCTTATAAAGAT-AAAGCC
* * * *
4203 TATATTAGCTAGCACCTGCTAGG
127 CACACTAGCTAGCACCTGATAGG
* * * *
4226 AAGGTTAAGCCTTATAAAGTCAAAGCCTATATTAGTTGGCACGAAATAGGAAAGTTAAGCCCTAT
1 AAGGTTAAGCC-TATAAAGTCAAAGCCTATACTAGCTGGCACCAAATAAGAAAGTTAAGCCCTAT
* * * *
4291 GGAGTTAAAGTCCATACTAGCTGGCACCTTATAAGAATGTTAAGCCTTATAAAGATAAAGCCCAC
65 GAAATTAAAGTCCACACTAGCTGGCACCTTATAAGAAGGTTAAGCCTTATAAAGATAAAGCCCAC
* * *
4356 ACTAGTTGGCACTTGATAGG
130 ACTAGCTAGCACCTGATAGG
* *
4376 AATGTTAAGCCCTATAAAATCAAA
1 AAGGTTAAG-CCTATAAAGTCAAA
4400 ATCCATACTA
Statistics
Matches: 145, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
149 11 0.08
150 126 0.87
151 8 0.06
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (149 bp):
AAGGTTAAGCCTATAAAGTCAAAGCCTATACTAGCTGGCACCAAATAAGAAAGTTAAGCCCTATG
AAATTAAAGTCCACACTAGCTGGCACCTTATAAGAAGGTTAAGCCTTATAAAGATAAAGCCCACA
CTAGCTAGCACCTGATAGG
Found at i:4417 original size:50 final size:50
Alignment explanation
Indices: 3981--4450 Score: 246
Period size: 50 Copynumber: 9.5 Consensus size: 50
3971 CTGGTAAGAA
* * * * * *
3981 GTTAAGCCCTATAGAGTCAAAG-CCTACACGAGTTGGCACCTGATAAGG--T
1 GTTAAGCCCTATAAAATCAAAGTCC-ATACTAGCTGGCACTTGAT-AGGAAT
* * * * * * ** *
4030 GCTTAAGCCTTATAAAGTGAATGTCCA-ACTAACTGGCACTTGGTAAAAAG
1 G-TTAAGCCCTATAAAATCAAAGTCCATACTAGCTGGCACTTGATAGGAAT
* * * * *
4080 GTTAAG-CCTATAGAGTTAAAG-CCTATACTAGCTGGCACCTT-ATAAGAAG
1 GTTAAGCCCTATAAAATCAAAGTCC-ATACTAGCTGGCA-CTTGATAGGAAT
* * * * * * *
4129 GTTAAGCCCTAGAAAATTAAAGTCCACATTAGCTGGCACCT-ACTAGAAAG
1 GTTAAGCCCTATAAAATCAAAGTCCATACTAGCTGGCACTTGA-TAGGAAT
* * * * * * *
4179 GTTAAGCCTTATAAAGTCAAAG-CCTATATTAGCTAGCACCTGCTAGGAAG
1 GTTAAGCCCTATAAAATCAAAGTCC-ATACTAGCTGGCACTTGATAGGAAT
* * * * *** *
4229 GTTAAGCCTTATAAAGTCAAAG-CCTATATTAGTTGGCACGAAATAGGAAA
1 GTTAAGCCCTATAAAATCAAAGTCC-ATACTAGCTGGCACTTGATAGGAAT
** * * *
4279 GTTAAGCCCTATGGAGTTAAAGTCCATACTAGCTGGCACCTT-ATAAGAAT
1 GTTAAGCCCTATAAAATCAAAGTCCATACTAGCTGGCA-CTTGATAGGAAT
* * * *
4329 GTTAAGCCTTATAAAGAT-AAAGCCCACACTAGTTGGCACTTGATAGGAAT
1 GTTAAGCCCTATAAA-ATCAAAGTCCATACTAGCTGGCACTTGATAGGAAT
* * * **
4379 GTTAAGCCCTATAAAATCAAAATCCATACTAACCGGCACTTGATAGGGTT
1 GTTAAGCCCTATAAAATCAAAGTCCATACTAGCTGGCACTTGATAGGAAT
*
4429 GTTAA-CCCTACAAAATCAAAGT
1 GTTAAGCCCTATAAAATCAAAGT
4451 TCATGCCTTT
Statistics
Matches: 333, Mismatches: 71, Indels: 34
0.76 0.16 0.08
Matches are distributed among these distances:
47 2 0.01
48 13 0.04
49 65 0.20
50 245 0.74
51 8 0.02
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (50 bp):
GTTAAGCCCTATAAAATCAAAGTCCATACTAGCTGGCACTTGATAGGAAT
Found at i:4417 original size:150 final size:150
Alignment explanation
Indices: 4032--4417 Score: 327
Period size: 150 Copynumber: 2.6 Consensus size: 150
4022 GATAAGGTGC
* * * * * * * ** * *
4032 TTAAGCCTTATAAAGTGAATGTCCA-ACTAACTGGCACTTGGTAAAAAGGTTAAG-CCTATAGAG
1 TTAAGCCTTATAAAGTCAAAGCCCACACTAGCTAGCACCTGATAGGAAGGTTAAGCCCTATAAAA
* * * *** * * * * *
4095 TTAAAGCCTATACTAGCTGGCACCTTATAAGAAGGTTAAGCCCTA-GAAAATTAAAGTCCACATT
66 TCAAAGCCTATACTAACCGGCACGAAATAGGAAAGTTAAGCCCTATG-GAGTTAAAGTCCACACT
4159 AGCTGGCACCTACTAGAAAGG
130 AGCTGGCACCTACTAGAAAGG
* * * * * *
4180 TTAAGCCTTATAAAGTCAAAGCCTATATTAGCTAGCACCTGCTAGGAAGGTTAAGCCTTATAAAG
1 TTAAGCCTTATAAAGTCAAAGCCCACACTAGCTAGCACCTGATAGGAAGGTTAAGCCCTATAAAA
* *** *
4245 TCAAAGCCTATATTAGTTGGCACGAAATAGGAAAGTTAAGCCCTATGGAGTTAAAGTCCATACTA
66 TCAAAGCCTATACTAACCGGCACGAAATAGGAAAGTTAAGCCCTATGGAGTTAAAGTCCACACTA
*
4310 GCTGGCACCTTA-TA-AGAATG
131 GCTGGCACC-TACTAGA-AAGG
* * * *
4330 TTAAGCCTTATAAAGAT-AAAGCCCACACTAGTTGGCACTTGATAGGAATGTTAAGCCCTATAAA
1 TTAAGCCTTATAAAG-TCAAAGCCCACACTAGCTAGCACCTGATAGGAAGGTTAAGCCCTATAAA
*
4394 ATCAAAATCC-ATACTAACCGGCAC
65 ATC-AAAGCCTATACTAACCGGCAC
4418 TTGATAGGGT
Statistics
Matches: 190, Mismatches: 41, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
148 21 0.11
149 23 0.12
150 137 0.72
151 9 0.05
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (150 bp):
TTAAGCCTTATAAAGTCAAAGCCCACACTAGCTAGCACCTGATAGGAAGGTTAAGCCCTATAAAA
TCAAAGCCTATACTAACCGGCACGAAATAGGAAAGTTAAGCCCTATGGAGTTAAAGTCCACACTA
GCTGGCACCTACTAGAAAGG
Found at i:8689 original size:20 final size:21
Alignment explanation
Indices: 8666--8718 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
8656 CATTAAGGGA
8666 TGTATCGATACATTATGT-AT-
1 TGTATCGATACATT-TGTCATG
*
8686 TGTATCGATACATTTTTCATG
1 TGTATCGATACATTTGTCATG
8707 TGTATCGATACA
1 TGTATCGATACA
8719 AATAAGGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 2 0.07
20 16 0.53
21 12 0.40
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (21 bp):
TGTATCGATACATTTGTCATG
Found at i:10561 original size:20 final size:20
Alignment explanation
Indices: 10536--10588 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
10526 TCCAAATCTA
10536 TCGATACATTATT-CATTGTC
1 TCGATACATT-TTGCATTGTC
*
10556 TCGATACATTTTGCATTGTA
1 TCGATACATTTTGCATTGTC
* *
10576 TTGATAAATTTTG
1 TCGATACATTTTG
10589 AAAAAAACTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.47
Consensus pattern (20 bp):
TCGATACATTTTGCATTGTC
Found at i:15472 original size:22 final size:23
Alignment explanation
Indices: 15433--15477 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
15423 GAATTGATGG
15433 AGGAAGAAGATTTGAAGGAATTTA
1 AGGAAGAAGATTTGAAGG-ATTTA
15457 AGGAAGAA-A-TTGAAGGATTTA
1 AGGAAGAAGATTTGAAGGATTTA
15478 GTGGCAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 7 0.33
23 1 0.05
24 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (23 bp):
AGGAAGAAGATTTGAAGGATTTA
Found at i:24881 original size:22 final size:20
Alignment explanation
Indices: 24854--24908 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
24844 CATAACTAAA
*
24854 TGTATCAATACATGCTTTCAAT
1 TGTATCGATACAT-CTTTC-AT
* *
24876 TGTATCGATATATTTTTCAT
1 TGTATCGATACATCTTTCAT
24896 TGTATCGATACAT
1 TGTATCGATACAT
24909 TCTGGGTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 14 0.48
21 4 0.14
22 11 0.38
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATCTTTCAT
Found at i:26370 original size:79 final size:79
Alignment explanation
Indices: 26244--26486 Score: 251
Period size: 79 Copynumber: 3.1 Consensus size: 79
26234 AAAAATATTG
* * * *
26244 ATTTTTCATTTCAGGGATATTCCAACCTTATTAA-TTCTGAGGGGATACTCCAACCCTGTTTTTA
1 ATTTTTCATCTCGGGGATACTCCAACCCTATTAATTTC-GAGGGGATACTCCAACCCT-TTTTTA
26308 TTTCAAAAATATTAAA
64 TTTCAAAAATATTAAA
* * * * *
26324 ATTTTT-ATCTCGGGGATACTCCAACCCTATCAATTTCGAGGAGATACTCTAACTCTATTTTTAC
1 ATTTTTCATCTCGGGGATACTCCAACCCTATTAATTTCGAGGGGATACTCCAACCCT-TTTTTAT
* **
26388 TTCCAAAATA-T-CG
65 TTCAAAAATATTAAA
* * * * **
26401 ATTTTTCATCTCGGGAATACTCCAACCCTGTTATTTTTGAGGGGATACTTGAACCCCATTTTTTA
1 ATTTTTCATCTCGGGGATACTCCAACCCTATTAATTTCGAGGGGATACTCCAA-CCC-TTTTTTA
26466 TTTCAAAAATATTAAA
64 TTTCAAAAATATTAAA
26482 ATTTT
1 ATTTT
26487 CAATCTTGAG
Statistics
Matches: 131, Mismatches: 26, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
77 6 0.05
78 39 0.30
79 70 0.53
80 11 0.08
81 5 0.04
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.40
Consensus pattern (79 bp):
ATTTTTCATCTCGGGGATACTCCAACCCTATTAATTTCGAGGGGATACTCCAACCCTTTTTTATT
TCAAAAATATTAAA
Found at i:26534 original size:78 final size:77
Alignment explanation
Indices: 26246--26534 Score: 230
Period size: 79 Copynumber: 3.7 Consensus size: 77
26236 AAATATTGAT
* * * * * *
26246 TTTTCATTTCAGGGATATTCCAACCTTATTAATTCTGAGGGGATACTCCAA-CCC-TGTTTTTAT
1 TTTTCATCTC-GGGATACTCCAACCCT-GTATTTC-GAGGGGATACTCTAACCCCAT-TTTTTAT
26309 TTCAAAAATATTAAAA
62 TTCAAAAATATTAAAA
* * * * * *
26325 TTTTTATCTCGGGGATACTCCAACCCTATCAATTTCGAGGAGATACTCTAACTCTA-TTTTTACT
1 TTTTCATCTC-GGGATACTCCAACCCTGT--ATTTCGAGGGGATACTCTAACCCCATTTTTTATT
* ** *
26389 TCCAAAATA-TCGAT
63 TCAAAAATATTAAAA
*
26403 TTTTCATCTCGGGAATACTCCAACCCTGTTATTTTTGAGGGGATACT-TGAACCCCATTTTTTAT
1 TTTTCATCTCGGG-ATACTCCAACCCTG-TA-TTTCGAGGGGATACTCT-AACCCCATTTTTTAT
26467 TTCAAAAATATTAAAA
62 TTCAAAAATATTAAAA
* * * *
26483 TTTTCAATCTTGAGGAGACTCAAACCCTGTA-TTCGAGGGGACACTCTAACCC
1 TTTTC-ATCTCG-GGATACTCCAACCCTGTATTTCGAGGGGATACTCTAACCC
26535 TGCTTCTTAT
Statistics
Matches: 165, Mismatches: 32, Indels: 27
0.74 0.14 0.12
Matches are distributed among these distances:
77 5 0.03
78 60 0.36
79 67 0.41
80 14 0.08
81 17 0.10
82 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.36
Consensus pattern (77 bp):
TTTTCATCTCGGGATACTCCAACCCTGTATTTCGAGGGGATACTCTAACCCCATTTTTTATTTCA
AAAATATTAAAA
Found at i:32668 original size:32 final size:31
Alignment explanation
Indices: 32616--32719 Score: 122
Period size: 32 Copynumber: 3.4 Consensus size: 31
32606 TAAAGCAACC
* *
32616 TTTTCAAAGCCCATGACTCAGTAGCATCTCT
1 TTTTCAAAGTCCACGACTCAGTAGCATCTCT
* *
32647 TTCTTCAAAGTCCAC-AGCTCAGTGGCATCCCT
1 TT-TTCAAAGTCCACGA-CTCAGTAGCATCTCT
* *
32679 TTTTCAAAGTCCACGACTTAGTAGCACCTC-
1 TTTTCAAAGTCCACGACTCAGTAGCATCTCT
32709 TTTTCAAAGTC
1 TTTTCAAAGTC
32720 TATGACTCCG
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
30 11 0.18
31 25 0.40
32 26 0.42
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (31 bp):
TTTTCAAAGTCCACGACTCAGTAGCATCTCT
Found at i:32688 original size:31 final size:33
Alignment explanation
Indices: 32616--32719 Score: 107
Period size: 31 Copynumber: 3.3 Consensus size: 33
32606 TAAAGCAACC
*
32616 TTTTCAAAG-CC-CATGACTCAGTAGCATCTCT
1 TTTTCAAAGTCCACATGACTCAGTAGCATCCCT
*
32647 TTCTTCAAAGTCCACA-G-CTCAGTGGCATCCCT
1 TT-TTCAAAGTCCACATGACTCAGTAGCATCCCT
*
32679 TTTTCAAAGTCCAC--GACTTAGTAGCA--CCT
1 TTTTCAAAGTCCACATGACTCAGTAGCATCCCT
32708 CTTTTCAAAGTC
1 -TTTTCAAAGTC
32720 TATGACTCCG
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
29 3 0.05
30 12 0.19
31 22 0.34
32 22 0.34
33 3 0.05
34 2 0.03
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (33 bp):
TTTTCAAAGTCCACATGACTCAGTAGCATCCCT
Found at i:32736 original size:30 final size:29
Alignment explanation
Indices: 32609--32741 Score: 106
Period size: 31 Copynumber: 4.4 Consensus size: 29
32599 TCCCCAGTAA
* * *
32609 AGCAACCTTTTCAAAGCCCATGACTCAGT
1 AGCACCCTTTTCAAAGTCCACGACTCAGT
*
32638 AGCATCTCTTTCTTCAAAGTCCAC-AGCTCAGT
1 AGCA-C-CCTT-TTCAAAGTCCACGA-CTCAGT
* *
32670 GGCATCCCTTTTTCAAAGTCCACGACTTAGT
1 AGCA-CCC-TTTTCAAAGTCCACGACTCAGT
* * *
32701 AGCACCTCTTTTCAAAGTCTATGACTCCGT
1 AGCACC-CTTTTCAAAGTCCACGACTCAGT
*
32731 GGCACCCTTTT
1 AGCACCCTTTT
32742 TACACTTTAG
Statistics
Matches: 84, Mismatches: 13, Indels: 14
0.76 0.12 0.13
Matches are distributed among these distances:
29 9 0.11
30 25 0.30
31 26 0.31
32 24 0.29
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (29 bp):
AGCACCCTTTTCAAAGTCCACGACTCAGT
Found at i:32824 original size:63 final size:62
Alignment explanation
Indices: 32747--37160 Score: 3364
Period size: 62 Copynumber: 70.2 Consensus size: 62
32737 CTTTTTACAC
* * * * *
32747 TTTAGTCTTCAAAGAGCAAGATGTCTTTTCTCTTTTTAAAGCCCACATGAGTTGGGGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTT-TCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * * * *
32810 TTTAGTCATCAAAGAGCAGGACGCCTTTTTTCTTCTTAAAGCCCGCGCAAGTTGATGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCC-TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* *** * * * * *
32873 TTTAGTCCTCAAAGAGCAAGACATCTTTTTCTTTTTAGAGTCCACACGAATTGATGGCACAT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* ** *
32935 TTTAGTCCTCAGAGAATAGGATGCCTTTTT-TATTTATAAAGCCCACACGAGTTGGTGGCACGT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCT-TTT-TAAAGCCCACACGAGTTGGTGGCACCT
* *
32998 TTTAGTCCTCAAAAAGCAGGATGCCTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * *
33060 TTTAGTCCTTAAAAAGTAGGATGCCTTTTT-TTTTTAAAGCCCATACGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
** * *
33121 TTTAGTCCTCAAAGAGCAGGATGTTTTTTTTCTTTATAAAGCCCACATGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATG-CCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * *
33184 TTTAGTCATCAAAGAGCATGATGCTTTTTTCGTTTTTAAAGCCCGCACGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTC-TTTTTAAAGCCCACACGAGTTGGTGGCACCT
* *
33247 TTTAG-CCTTCAAAGAGGAGGAGGCCTTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
1 TTTAGTCC-TCAAAGAGCAGGATGCC-TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * * ** * * * *
33310 TTTAGTCCTAAAAAACCAAGACGTTTTTTTCTTTTCAAAACCTACACGAGTTGTTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * *
33372 TTTAGTCCTCAAAGAGCAGG-TCCCGTTCTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCA
1 TTTAGTCCTCAAAGAGCAGGATGCC-TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * *
33434 TTTAGTCCTCAAAGAACAGGATGCC-TTTTCTTTTTCAGAGCCCACATGAGTTGGTGGAACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTT-AAAGCCCACACGAGTTGGTGGCACCT
* * * * *
33496 TTTAGTCCTCAAAAAGCATGATGCCTTTTT-TCTTATAAAACCCATACGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCT-TTTTAAAGCCCACACGAGTTGGTGGCACCT
* * ** * * *
33558 TTTAGTCCTTAAA-AGGTAGGACACC--TTT-TTTTTAAAGCACAGACGAGTTGGTGGCACAT
1 TTTAGTCCTCAAAGA-GCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * *
33617 TTTATTCCTTAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGCTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * * * *
33679 TTCAGTCCACAAAGAGCAGGATACCTTTTTCTTTTCAAAGCCCACATGAGCTAGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * * *
33741 TTTAGTCCTCAAAGAGCCA-TACGTCTGTTCCTTTTTAAAGCCCACACGAGTTCGTGGCACCT
1 TTTAGTCCTCAAAGAG-CAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * * *
33803 TTTAGTCCTCAAA-ACGCAAGATGCCTTTTTTCTTTTCAAAGCCTAAATGAATTGGTGGCACCT
1 TTTAGTCCTCAAAGA-GCAGGATGCC-TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
** *
33866 TTTAGTCCTCAAAGAGCAGGATGTTTTTTTCTTTTTGAAGCCCACACGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* *
33928 TTTAGTCCTCGAAA-AGTAGG-T-CACTTTTTTCTTTTTAAAGCCCACATGAGTTGGTGGCACCT
1 TTTAGTCCTC-AAAGAGCAGGATGC-C-TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * * *
33990 TTTAGTCCTCGAAGAGTAAGACACTTTCCTTTTTCTTTCTTGAAA-ACCACACAAGTTGGTGGCA
1 TTTAGTCCTCAAAGAG-CAG-GA--TGCCTTTTTCTTT-TT-AAAGCCCACACGAGTTGGTGGCA
34054 CCT
60 CCT
* * ** ** * * * *
34057 TTTAGTTCTCAAAGAGAAGGGCGTTTTTTTTCTTTTTAAAGCCCACACAAGTGGGTGGTAGCT
1 TTTAGTCCTCAAAGAGCAGGATG-CCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * * * *
34120 TTTAGTCCTCAAAAAGCAGGATGCCTTTTCCTTTTCAAAGCCAACACAAGTTGCTTGCACCTT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACC-T
* * * * **
34183 TTTA-TCCTCAAAGAGCATGATGCCTTTTTTCCTTTTAAAGCCTACACGAGTTAGCAGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCC-TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * ** * * *
34245 TTTAGTCCTCAAAGAGCATGATGCCTTTTTCTTTTCAAAGTGCACACAAGTTGGCGGCTCCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * *
34307 TTTAGTCCTCAAAGAGCAAGATGTCTTTTTCTTTTTAAAGCCCATATGAGTTGGAGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
** * * *
34369 TTTAGTCCTCAAAGAGCAGGACCCCTTCTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCA
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * *
34431 TTTAGTCCTCAAAGAGCAAGATGCCTTCTCCTTTTCAAAGCCCACATGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * * * * *
34493 TTTAGTCCTCTAAA-AACATGACGCCTTTTTTTTCTTATAAATCGCATACGAGTTGGTGGCACTT
1 TTTAGTCCTC-AAAGAGCAGGATGCCTTTTTCTT-TT-TAAAGCCCACACGAGTTGGTGGCACCT
* ** * * * *
34557 TTTAGTCCTTAAA-AGGCAGGACACCTTTTT-TTTTAAAAGCACAGACGAGTTGGTGGCATCT
1 TTTAGTCCTCAAAGA-GCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * *
34618 TTTATTCCTCAAAGAGCAAGATGCCTTTTTCTTTTCAAAGCCCACACGAGCTGGTGGTACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * * * * *
34680 TTCAATCCACAAAGAGTAGGATACCTTTTTCTTTTCAAAGCCCACATGAGTTAGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * * *
34742 TTTAGTCCTCAAAGAGCCA-TACGCCTTTTCCTTTTTAAAGCCCACACAAGTTTGTGGAACCT
1 TTTAGTCCTCAAAGAG-CAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * ** * * * * * * *
34804 TTTAGTCCTCACCTTTTAGTCGTCAAAAAGCAAGATGCCTTTTTTCTTTTCAAAGCCTACATGAT
1 TTTAGTCCTCA-----AAG-AG-CAGGATGC---CT--TTTT---CTTTTTAAAGCCCACACGAG
*
34869 TTGGTGGCAACT
51 TTGGTGGCACCT
* * *
34881 TTTAGTCCTCAAAGAGCAGGATGCTTTTTTTCTTTATAAAGCCCACATGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGC-CTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * *
34944 TTTAGTCCTCAAAGAGGAGGATGACTTTTTCCCTTTTAAAGCCCGCACGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTT-CTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* *
35007 TTTAG-CCTTCAAAGAGGAGGAGGCCTTTATTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
1 TTTAGTCC-TCAAAGAGCAGGATGCCTTT-TTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * * ** * * *
35070 TTTAGTCCTAAAAAACCAAGACGTTTTTTTCTTTTCAAAACCTACACGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * *
35132 TTTAGTCCTCAAAGAGCAGGA-CCCGTTTTTCTTTTTAAAGCCAACACAAGTTGGTGGCACCA
1 TTTAGTCCTCAAAGAGCAGGATGCC-TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * * *
35194 TTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTCAGAGCCTACATGAGTTGGTGACACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * * * *
35256 TTTAGTCCTCAAAAAGCATGACGCCTTTTT-TTCTTATAAAACCCATATGAGTTGGAGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTT-TT-TAAAGCCCACACGAGTTGGTGGCACCT
* * ** * * *
35319 TTTAGTCCTTAAA-AGGTAGGACACCTTTTT-TTTCTAAAAGCACAGACGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGA-GCAGGATGCCTTTTTCTTT-TTAAAGCCCACACGAGTTGGTGGCACCT
* * * *
35381 TTTATTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCTCACACGAGCTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * * * *
35443 TTCAGTCCACAAAGAGCAGGATACCTTTTTCTTTTCAAAGCCTACATGAGTTAGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * *
35505 TTTAGTCCTCAAAGAGC--CATACGCTTGTTTCTTTTTAAAGCCCACACGAGTTCGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGC-CTT-TTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* ** ** * * * * * *
35567 TTTAGTTCCTCACCTTTTAGTCCTCAAAAAGCAAGATGCCTTTTTTCTTTTCAAAGCCTACATGA
1 TTTAG-TCCTCA-----AAG--AGCAGGATGC---CT--TTTT---CTTTTTAAAGCCCACACGA
*
35632 TTTGGTGGCACCT
50 GTTGGTGGCACCT
** *
35645 TTTAGTCCTCAAAGAGCAGGATGTTTTTTTCTTTTTGAAGCCCACACGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* *
35707 TTTAGTCCTCGAAA-AGTAGG-T-CACTTTTTTCTTTTTAAAGCCCATACGAGTTGGTGGCACCT
1 TTTAGTCCTC-AAAGAGCAGGATGC-C-TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * ** * * *
35769 TTTAGTCCTTAAAGAGTAAGACACTTTCCTTTTTCTTTCCCGAAA-ACCATACAAGTTGGTGGCA
1 TTTAGTCCTCAAAGAG-CAG-GA--TGCCTTTTTCTTT--TTAAAGCCCACACGAGTTGGTGGCA
35833 CCT
60 CCT
* * ** * * * * *
35836 TTTAGTTCTCAAAGAGAAGGGCAT-TTTTTTTCTTTTTAAAGCCCATACAAGTGGGTGGTAGCT
1 TTTAGTCCTCAAAGAGCA-GG-ATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * * *
35899 TTTAGTCCTCAAAAAGCAGGATGCCTTTTTCTTTTCAAAGCCAACACAAGTTGTTTGCACCTT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACC-T
* * * * **
35962 TTTA-TCGTCAAAGAGCATGAT-CTCTTTTTTCCTTTTAAAGCCCACACGAGTTAGCAGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGC-C-TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * * * *
36024 TTTAGTCCTCAAAGAGCATGATCCCTTTTTCTTTTCAAAGTCCACACAAGTTGGCGGCTCCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
** * * * *
36086 TTTAGTCCTCAAAGAGTGGGATGTCTTTTTCTTTTTAAAGCCCATATGAGTTGGAGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * *
36148 TTTAGTCCTCAAAGAGCAGGATGCC--TTT-TTTTAAAATCCCACACAAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * *** * *
36207 TTTAGTTCTCAAAGAGCAGGACG-TTTTTTCATTTCGGAGCCCACACGACTTGGTGGCACAT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * ** * * * * *
36268 TTTAGTCTTCAAAAAGTAGGACACATTTTCCTTTTAAAAGCCCACTCAAGTTGGTGGCA-CT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * * * * * * *
36329 TTTTG-CCTAGAAAAAACATGACG-TTTTTTCCTTTTCAAAGCCCAC-CCACGTTGGTGGCACTT
1 TTTAGTCCT-CAAAGAGCAGGATGCCTTTTT-CTTTTTAAAGCCCACACGA-GTTGGTGGCACCT
* * * * **** * * *
36391 TTTAGTCCCCACCTTTTACTCTTCAAAG-AGCAAGAAGCCTTT-TTTTCAAAGCCTACACAAGTT
1 TTTAGTCCTCA------A------AGAGCAGGATG-CCTTTTTCTTTTTAAAGCCCACACGAGTT
*
36454 GGTGCCACCT
53 GGTGGCACCT
* * * * * *
36464 TTTAGTCTTCAAAGAGGAAGATG-TTTTTTCTTTTTAAAGCGCACACGAGTTGGTCGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * ** ** *
36525 TTTACTCCTCAAAGAGTAGGTTGTTTTTTTCTTTTTAAAGCCCACACGAGTTGGTGTAACCG
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * ** * * *
36587 TCTAGTCTTCGAAGAGTAAAATGCTTTCCGTTTTCTTTCTCAAAGCCCACACGAGTTGGTGG-AA
1 TTTAGTCCTCAAAGAGCAGGATG----CCTTTTTCTTT-TTAAAGCCCACACGAGTTGGTGGCAC
36651 CT
61 CT
* * ** * * * * *
36653 ATTTTGTCTTCAAAGAGTAACACGCTTTCTTTTTTCTTTTAAAAGCCAACACGAGTTGGCGGCAC
1 -TTTAGTCCTCAAAGAG---CA-GGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCAC
36718 CT
61 CT
* * * * * *
36720 TTTAGTCCTTAAAGAGCAAGACGCC-TTTTC-TTTCATAGCCCACACGAGTTGGTGACACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * * * *
36780 TTTCA-TCCTCAAAAAGCATGATGCCTTTTTTTCTTTTATAGCCC-CTATGAGTTGGTGGTACTT
1 TTT-AGTCCTCAAAGAGCAGGATGCCTTTTTCT-TTTTAAAGCCCAC-ACGAGTTGGTGGCACCT
* * * * * * **
36843 TTTGGTCTTCAAAGAG-AAGATGCCTTTTTCTTTTCAAAGCACACACAAGTTGGTGGCATTT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* ** * *** * * **
36904 TTTA-TCCTCAAAGGGCAGGACACCTTTTT-TTTCTAAAGTTTACATGAGTTGCTGGCATGT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * ** * ** * *
36964 TTTAGTCCTTAAAGAGTAGGACACC-TTTTC--TTAAAAGCCCACATAAGATGGTGGCATCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * * * *
37023 TTTAGTCCTCAAAGAGTAGGATGCATTTTCCTTTTCAAAGCCCACAAGAGTTAGTGGCACAT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * *
37085 TTTAGTCCTCAAAGAGCATGATGCATTTTT-TTCTTAAATAGTCCATACGAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTT-TTTAA-AGCCCACACGAGTTGGTGGCACCT
37148 TTTAGTCCTCAAA
1 TTTAGTCCTCAAA
37161 AGGGAGGACA
Statistics
Matches: 3463, Mismatches: 719, Indels: 338
0.77 0.16 0.07
Matches are distributed among these distances:
59 131 0.04
60 113 0.03
61 313 0.09
62 1677 0.48
63 791 0.23
64 78 0.02
65 4 0.00
66 69 0.02
67 125 0.04
68 15 0.00
69 3 0.00
70 11 0.00
71 2 0.00
72 7 0.00
73 36 0.01
74 9 0.00
75 6 0.00
77 41 0.01
78 32 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.34
Consensus pattern (62 bp):
TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCT
Found at i:34891 original size:77 final size:76
Alignment explanation
Indices: 34737--34891 Score: 179
Period size: 77 Copynumber: 2.0 Consensus size: 76
34727 GAGTTAGTGG
* * * *
34737 CACCTTTTAGTCCTCAAAGAGCCATACGCCTTTTCCTTTTTAAAGCCCACACAAGTTTGTGGAAC
1 CACCTTTTAGTCCTCAAAAAGCAAGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTTGTGGAAC
34802 CTTTTAGTCCT
66 CTTTTAGTCCT
* * * * **
34813 CACCTTTTAGTCGTCAAAAAGCAAGATGCCTTTTTTCTTTTCAAAGCCTACATGA-TTTGGTGGC
1 CACCTTTTAGTCCTCAAAAAGCAAGACGCC-TTTTCCTTTTCAAAGCCCACACAAGTTT-GTGG-
34877 AA-CTTTTAGTCCT
63 AACCTTTTAGTCCT
34890 CA
1 CA
34892 AAGAGCAGGA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
76 28 0.42
77 36 0.55
78 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (76 bp):
CACCTTTTAGTCCTCAAAAAGCAAGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTTGTGGAAC
CTTTTAGTCCT
Found at i:35592 original size:14 final size:15
Alignment explanation
Indices: 35562--35592 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
35552 GAGTTCGTGG
35562 CACCTTTTAGTTCCT
1 CACCTTTTAGTTCCT
35577 CACCTTTTAG-TCCT
1 CACCTTTTAGTTCCT
35591 CA
1 CA
35593 AAAAGCAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.16, C:0.35, G:0.06, T:0.42
Consensus pattern (15 bp):
CACCTTTTAGTTCCT
Found at i:35640 original size:78 final size:76
Alignment explanation
Indices: 35500--35655 Score: 204
Period size: 78 Copynumber: 2.0 Consensus size: 76
35490 GAGTTAGTGG
* * * *
35500 CACCTTTTAGTCCTCAAAGAGCCATACGCTTGTTTCTTTTTAAAGCCCACACGAGTTCGTGGCAC
1 CACCTTTTAGTCCTCAAAAAGCAAGACGCTTGTTTCTTTTCAAAGCCCACACGAGTTCGTGGCAC
35565 CTTTTAGTTCCT
66 CTTTTAG-TCCT
* * * * * *
35577 CACCTTTTAGTCCTCAAAAAGCAAGATGCCTTTTTTCTTTTCAAAGCCTACATGATTTGGTGGCA
1 CACCTTTTAGTCCTCAAAAAGCAAGACG-CTTGTTTCTTTTCAAAGCCCACACGAGTTCGTGGCA
35642 CCTTTTAGTCCT
65 CCTTTTAGTCCT
35654 CA
1 CA
35656 AAGAGCAGGA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
77 30 0.44
78 38 0.56
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (76 bp):
CACCTTTTAGTCCTCAAAAAGCAAGACGCTTGTTTCTTTTCAAAGCCCACACGAGTTCGTGGCAC
CTTTTAGTCCT
Found at i:35740 original size:202 final size:200
Alignment explanation
Indices: 35376--35774 Score: 534
Period size: 202 Copynumber: 2.0 Consensus size: 200
35366 GAGTTGGTGG
* * *
35376 CACCTTTTATTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCTCACACGAGCTGGTGGCAC
1 CACCTTTTAGTCCTCAAAAAGCAAGATGCCTTTTTCTTTTCAAAGCTCACACGAGCTGGTGGCAC
* *
35441 CTTTCAGTCCACAAAGAGCAGGATACCTTTTTCTTTTCAAAGCCTACATGAGTTAGTGGCACCTT
66 CTTTCAGTCCACAAAGAGCAGGATACCTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCACCTT
*
35506 TTAGTCCTCAAAGAGCCATACGCTTGTTTCTTTTTAAAGCCCACACGAGTTCGTGGCACCTTTTA
131 TTAGTCCTCAAAGAG-CATACACTTGTTTCTTTTTAAAGCCCACACGAGTTCGTGGCACCTTTTA
35571 GTTCCT
195 GTTCCT
* **
35577 CACCTTTTAGTCCTCAAAAAGCAAGATGCCTTTTTTCTTTTCAAAGC-CTACATGATTTGGTGGC
1 CACCTTTTAGTCCTCAAAAAGCAAGATGCC-TTTTTCTTTTCAAAGCTC-ACACGAGCTGGTGGC
* * *** ** *
35641 ACCTTTTAGTCCTCAAAGAGCAGGATGTTTTTTTCTTTTTGAAGCCCACACGAGTTGGTGGCACC
64 ACCTTTCAGTCCACAAAGAGCAGGATACCTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCACC
* * * *
35706 TTTTAGTCCTCGAAAAGTAG-GT-CACTTTTTTCTTTTTAAAGCCCATACGAGTTGGTGGCACCT
129 TTTTAGTCCTC--AAAG-AGCATACACTTGTTTCTTTTTAAAGCCCACACGAGTTCGTGGCACCT
35769 TTTAGT
191 TTTAGT
35775 CCTTAAAGAG
Statistics
Matches: 172, Mismatches: 21, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
201 28 0.16
202 137 0.80
203 1 0.01
204 4 0.02
205 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (200 bp):
CACCTTTTAGTCCTCAAAAAGCAAGATGCCTTTTTCTTTTCAAAGCTCACACGAGCTGGTGGCAC
CTTTCAGTCCACAAAGAGCAGGATACCTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCACCTT
TTAGTCCTCAAAGAGCATACACTTGTTTCTTTTTAAAGCCCACACGAGTTCGTGGCACCTTTTAG
TTCCT
Found at i:36662 original size:67 final size:66
Alignment explanation
Indices: 36551--36711 Score: 196
Period size: 67 Copynumber: 2.4 Consensus size: 66
36541 TAGGTTGTTT
* * * * *
36551 TTTTCTTTTTAAAGCCCACACGAGTTGGTGTAACCGTCTAGTCTTCGAAGAGTAAAATGCTTTCC
1 TTTTCTTTTAAAAGCCCACACGAGTTGGTGGAACCATCTAGTCTTCAAAGAGTAAAACGCTTTCC
36616 G
66 G
* * * * *
36617 TTTTCTTTCTCAAAGCCCACACGAGTTGGTGGAACTATTTTGTCTTCAAAGAGTAACACGCTTTC
1 TTTTCTTT-TAAAAGCCCACACGAGTTGGTGGAACCATCTAGTCTTCAAAGAGTAAAACGCTTTC
**
36682 TT
65 CG
*
36684 TTTTCTTTTAAAAGCCAACACGAGTTGG
1 TTTTCTTTTAAAAGCCCACACGAGTTGG
36712 CGGCACCTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
66 26 0.32
67 55 0.68
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (66 bp):
TTTTCTTTTAAAAGCCCACACGAGTTGGTGGAACCATCTAGTCTTCAAAGAGTAAAACGCTTTCC
G
Found at i:37292 original size:62 final size:61
Alignment explanation
Indices: 37209--37620 Score: 333
Period size: 62 Copynumber: 6.6 Consensus size: 61
37199 TGATGGCACA
* * * * *
37209 TTTTTTCTTTTTGAAGTCCATACGAGTTGATGGCACCTTTTAGTCCTCAAAGAGTAGGACGT
1 TTTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGC
* * *
37271 TTTTTTCTTTGTAAAGCCCATACGAGTTGGTGGCACCTTTTAATCCTCAAAGAGTAGGATGCC
1 TTTTTTCTTT-TAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACG-C
* * * * * * *
37334 TTTTTCCTTTTAAAGCCTACACGAGTTGGTGGTACATTTTAGTCCTCGAAGAGTACGACAC
1 TTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGC
** * * * * * *
37395 CATTTTCTTTTTAAAGCCCACACGAGTTCGTGGCA-CTGATTAGTCTTCAAAAAATAGGAGGCC
1 TTTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCT-TTTAGTCCTCAAAGAGTAGGACG-C
* ** * * * *
37458 TTTTTTCTTATTAAAGCTCACACGAGTTGGCAGCACCTTCTAGACCTCAAAGACG-AGGATGT
1 TTTTTTCTT-TTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGA-GTAGGACGC
* * * * ** *
37520 TTTTTTCTTTTCAAAGCCTACATGAGTTGGTAGCACCTTTTAGTTCTCAAAGAGTAAAAATGC
1 TTTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGT-AGGACGC
* * * * *
37583 CTTCTCCTTTTTAATGCCCACACAAGTTGGTGGCACCT
1 TTTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCT
37621 CCTTTTCCTT
Statistics
Matches: 275, Mismatches: 63, Indels: 23
0.76 0.17 0.06
Matches are distributed among these distances:
61 12 0.04
62 177 0.64
63 80 0.29
64 6 0.02
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (61 bp):
TTTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACGC
Found at i:37350 original size:161 final size:161
Alignment explanation
Indices: 37077--37373 Score: 377
Period size: 161 Copynumber: 1.8 Consensus size: 161
37067 CAAGAGTTAG
* *
37077 TGGCACATTTTAGTCCTCAAAGAGCATGATGCATTTTTTTCTTAAATAGTCCATACGAGTTGGTG
1 TGGCACATTTTAGTCCTCAAAGAGCAGGA-GCATTTTTTTCTTAAATAGCCCATACGAGTTGGTG
* *
37142 GCACCTTTTAGTCCTCAAAAGGGAGGACACATTTTTTATTTTAAAGCC-AGCACAAGTTGATGGC
65 GCACCTTTTAATCCTCAAAAGGGAGGACACATTTTTCATTTTAAAGCCTA-CACAAGTTGATGGC
37206 ACATTTTTTCTTTTTGAAGTCCATACGAGTTGA
129 ACATTTTTTCTTTTTGAAGTCCATACGAGTTGA
* * * *
37239 TGGCACCTTTTAGTCCTCAAAGAGTAGGA-CGTTTTTTTCTTTGTAA-AGCCCATACGAGTTGGT
1 TGGCACATTTTAGTCCTCAAAGAGCAGGAGCATTTTTTTC-TT-AAATAGCCCATACGAGTTGGT
* ** * * * *
37302 GGCACCTTTTAATCCTC-AAAGAGTAGGATGCCTTTTTCCTTTTAAAGCCTACACGAGTTGGTGG
64 GGCACCTTTTAATCCTCAAAAG-GGAGGACACATTTTTCATTTTAAAGCCTACACAAGTTGATGG
*
37366 TACATTTT
128 CACATTTT
37374 AGTCCTCGAA
Statistics
Matches: 115, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
160 13 0.11
161 73 0.63
162 29 0.25
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (161 bp):
TGGCACATTTTAGTCCTCAAAGAGCAGGAGCATTTTTTTCTTAAATAGCCCATACGAGTTGGTGG
CACCTTTTAATCCTCAAAAGGGAGGACACATTTTTCATTTTAAAGCCTACACAAGTTGATGGCAC
ATTTTTTCTTTTTGAAGTCCATACGAGTTGA
Found at i:37641 original size:39 final size:39
Alignment explanation
Indices: 37582--37659 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
37572 AGTAAAAATG
* *
37582 CCTTCTCCTTTTTAATGCCCACACAAGTTGGTGGCACCT
1 CCTTCTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCT
* *
37621 CCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCT
1 CCTTCTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCT
37660 TTTAGTTCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.18, C:0.33, G:0.17, T:0.32
Consensus pattern (39 bp):
CCTTCTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCT
Found at i:37672 original size:36 final size:37
Alignment explanation
Indices: 37598--37673 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 37
37588 CCTTTTTAAT
* *
37598 GCCCACACAAGTTGGTGGCACCTCCTTTTCCTTTTCAAA
1 GCCCACACAAGTTGGTGGCA-C-CCTTTTACTTCTCAAA
* *
37637 GCCCACACGAGTTGGTGGCA-CCTTTTAGTTCTCAAA
1 GCCCACACAAGTTGGTGGCACCCTTTTACTTCTCAAA
37673 G
1 G
37674 AGCATGATGC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 14 0.42
39 19 0.58
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (37 bp):
GCCCACACAAGTTGGTGGCACCCTTTTACTTCTCAAA
Found at i:37839 original size:62 final size:62
Alignment explanation
Indices: 37621--38650 Score: 903
Period size: 62 Copynumber: 16.5 Consensus size: 62
37611 GGTGGCACCT
* * * *
37621 CCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTTCTCAAAGAGCATGATG
1 CCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATG
* * * * * *
37683 CCTTTTT-TTCTTATAAAGCCTATACGAGTTGGTGGCACCTATTAGTCCTTAAA-AGGCAAGACG
1 CCTTTTTCTT-TT-TAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGA-GCAGGATG
* * * * * * *
37746 -C-GTTTCTTTTGAAAAGCACACACAAGTTGGTGGAACCTTTTAGTCCTCAAAGAGTAAGATG
1 CCTTTTTCTTTT-TAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATG
** * * *
37807 CCTTTTTCTTTTTAAAGCCCACGTGAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGACAT-
1 CCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAG-CAG-GATG
** * * * *
37870 TTTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGTATGACG
1 CCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATG
* * ** * * * * **
37932 TCTTTTCCTTTTCGAAGCCCACAAGAGTTGGTGGCACCTTTCAGT-TTACAAAGAGCATGACA
1 CCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCT-CAAAGAGCAGGATG
* * * *
37994 CCTTTTT-TTCTTATAAAGCCTATACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACG
1 CCTTTTTCTT-TT-TAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATG
* * * * * ** *
38057 TCTTTTTTCATTTTAAAGCCCACATGAGTTGATGGCACCTTGTAGTCCTCAATTAGCAGGACG
1 -CCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATG
* * * * * * *
38120 CCTTTTTATTTTTAAAGTCCACATGAGTTGATGGCACCTTTTAGTCCTCAAGGAGCAAGACG
1 CCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATG
* * * * * * * *
38182 CTTTTTTTCATTGTAAAGCCCACATGAGTTAGTGGCACCTTTTAGTCGTCAAAGTGCAAGATG
1 C-CTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATG
* * * *
38245 CCTTTTTCCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGTAGGGTA
1 CCTTTTT-CTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATG
* * ** ** * * *
38308 CCTATTT-TTTTTAAAGCTCACAAAAGTTCATGGCA-CTTATTAGTCTTCAAAGAGTAAGA-G
1 CCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTT-TTAGTCCTCAAAGAGCAGGATG
* * * * * * *
38368 CTTTTTTTCTTTTCAAAGTCCACACGAGTTGGTGGCACCTTTTAGACGTCAAAGAACAGGAAG
1 C-CTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATG
* * * * * * *
38431 CTTTTTTCTTTTCAAAGCCTACAGGAGTTGCTGGCACCTTTTAGACCTCAAAGACCAGGATG
1 CCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATG
* * * * * *
38493 CTTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGACCTTAAAGACCAGGATG
1 CCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATG
* * * * *
38555 -CTTGTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGACCTCCAAGACCAGGATG
1 CCTT-TTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATG
* *
38617 CTTTTTTCTTTTCAAAGCCCACACGAGTTGGTGG
1 CCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGG
38651 TAGCTAGACA
Statistics
Matches: 798, Mismatches: 145, Indels: 50
0.80 0.15 0.05
Matches are distributed among these distances:
60 4 0.01
61 94 0.12
62 402 0.50
63 286 0.36
64 11 0.01
65 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (62 bp):
CCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATG
Found at i:38775 original size:63 final size:62
Alignment explanation
Indices: 38661--41347 Score: 1330
Period size: 62 Copynumber: 42.8 Consensus size: 62
38651 TAGCTAGACA
* * * * * * * * *
38661 CCTTTTTCTTTTTAAAGCCCACACGTGCTGGTGGCACCATTTAGTCTTCAAAGAGTAGAATG
1 CCTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * *
38723 CCATTTTCCTTTTCAAAGCCTACACGAGTTGGTGGCACTTTTTTGTCCTCAAAGAGCAGGACA
1 CC-TTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * * *
38786 CTTTTTTTCTCTTT-AAAG-CTCGCACGAGTTGGTGGTACCATTTAGTCATCAAAGAGCAGGACA
1 C-CTTTTTCT-TTTCAAAGCCT-ACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
** * * * * ** *
38849 TTTTTTTCTTTTTAAAGCCTATACTAGTTGGTGCCACCTTTTAGTCCTTGAAGAGAAGGACG
1 CCTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * *
38911 CTTTTCTTTTTCTTTCTCAAAGCCTACACAAATTGGTGGGAACTTTTAGTCCTCAAAGAGCAGGA
1 C----CTTTTTCTTT-TCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA
*
38976 TG
61 CG
* * * * * * * *
38978 CCTTTTTCTTTTCAAAACCTGCACGTGTTGATGGCACTTTTTAGTCCTCTAACAGAAGGACG
1 CCTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * * * * *
39040 CTTTTTTTTCTTTT-AACG-CTCACACAAGTTGATAGCACTTTTTAGTCCTCAAAGAGTAAGACG
1 C--CTTTTTCTTTTCAAAGCCT-ACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * * *
39103 CCTTTTTCTTTTCAAAGACC-ACATGAGTTGATGGCACCTTGTAGTCCACCAAGAGTAGGACG
1 CCTTTTTCTTTTCAAAG-CCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * * ** * *
39165 GCATTTTCATTTTC-AAGCCCACAAGAGTTGGTAGCATTTTTTAGTCCTCAAAGAGCAAGATG
1 CCTTTTTC-TTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * * * * * * *
39227 CC--TAT-TATTAAAAGCCTAAACAAGTTAGG-GGCACATTTTAGTCCTTAAAGAACATGATG
1 CCTTTTTCTTTTCAAAGCCTACACGAGTT-GGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * *
39286 CCTTTTTCATTTCAAAAGCCCACACGAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGACG
1 CCTTTTTCTTTTC-AAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* ** ** *
39349 CCTTTTTCTTTTCAAAGCCCATGCGAGTTGGTGGCACCTTTTAGTTTTCAAAGAGCAGGATG
1 CCTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * ** *
39411 CATTTTCCTTTTGAAAGCCCACACGAGTTAATGGCACCTTTTAGTCCTCAAAGAGTAGGACG
1 CCTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * *
39473 CCTTTTCCTTTTCAAAGCCCACACGAGTTTGTGGCACCCTTTAGTCCTCACCTTTTAGTCCTTAA
1 CCTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCA-----AAG------A
** * *
39538 AAAGCAAG
55 GCAGGACG
** * * * * *
39546 ATGTTTTTTTTCTTCTCAAAGCCTGCACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGAT
1 -CCTTTT---TCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGAC
39611 G
62 G
** * * * * * * * *
39612 TTTTTTTTCTTTTTAAAACCCACACGAATTGGTGGCACCTTTTAGTCTTCGAAGAGTAGGTC-
1 -CCTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * * ** * *
39674 ACTTTTTACTTTTTC-AAGCCCACATGAGTTAGTGGCACCTTTTAGTCTTTGAATAGTAGGATGC
1 CCTTTTT-C-TTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA--C
*
39738 TTT
62 --G
* * * * *
39741 CCTTTTTCTTTCTCAAAACCCACATGAGTTGGTGGTACCTTTTAGTCCTCAAAGAGCAGGATG
1 CCTTTTTCTTT-TCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * * * *
39804 CTTTTTTACTTTTTAAAGCCCACACGAGTTGGTAGTACTTTTTAGTCCTC--AG-GC----CA
1 CCTTTTT-CTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * * * * **
39860 CCTTTTTCATTTT-AAGGCCCACATGAGTTGATGGTACCTTTTAGTCCTCAATGAGCAAGATA
1 CCTTTTTC-TTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * ** * * *
39922 TCATTTTCTTTTTTAAGTCC-ACACGAGTTGATGGCACCTTTTAGTCCTTAAAGAGCAGGACAT
1 CCTTTTTCTTTTCAAAG-CCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGAC-G
** * * * *
39985 TTTTTTTCTTTGT-AAAGCCCACATGAGTTGGTGACACCTTTTAGTCCTCAAAGAGCAGGATG
1 CCTTTTTCTTT-TCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * *
40047 CCTTTTTCCTTTTTAAAGCCCACATGAGTTGGTGGCTA-CTTTTAGTCTTCAAAGAGCAGGATG
1 CCTTTTT-CTTTTCAAAGCCTACACGAGTTGGTGGC-ACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * * * * *
40110 CCTGTTTCTTTTCAAAGCCCACACGAGTTGGTGACACCTTCTAGTCCTTAAAAAGCATGATG
1 CCTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * * * * * *
40172 CCTTTTTTTCTTTT-ATAGCCCT-CATGAGTTTGTGTCTCCTTTTAGTTCTCAAGGAGCAAGACA
1 CC--TTTTTCTTTTCAAAG-CCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * * * *
40235 CCATTTTCTTTTCAAAGCCCACACGAGTTGGTGACATCTTTTA-TCCTTAAAGGGCAGGATG
1 CCTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * *
40296 CCTTTTTCCTTTT-AAAGCTTAGACGAGTTGCTGGCACGTTTTAGTCCTCAAAGAGTA-GA-G
1 CCTTTTT-CTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * * *
40356 CAC--CTT-TTTT-AAATG--TTCACAGAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGTAAGAT
1 C-CTTTTTCTTTTCAAA-GCCTACAC-G-AGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGAC
40415 G
62 G
* * * ** * ** * * * *
40416 CCTTTTCCTTTTCAAAACCCACATAAGTTGTTCACACTTTTTAGTCTTCAAAGAGTATGACG
1 CCTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * * * * *
40478 TCTTTTT-TTCTT-ATAAGGCTCATACGAGTTGGTAGCACCTTTTTGTCCTTAAA-AGGTAGGAT
1 CCTTTTTCTT-TTCA-AAGCCT-ACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGA-GCAGGAC
40540 G
62 G
* * *
40541 CCTTTTT-TTTT-AACAGCAC-ACACGAGTTGGTGGCACCTTGTAGTCCTCAAAGAGTAGGATG
1 CCTTTTTCTTTTCAA-AGC-CTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * *
40602 CCTTTTCCTTTTTTAAAG-CTCACACGAGTTGGTGGCACCTTTTAGTCCTTAAAGAGTAGGATG
1 CCTTTTTC-TTTTCAAAGCCT-ACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * * * *
40665 CCTTTTTCTTTTCGAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAAAGTAGG-CTA
1 CCTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGAC-G
* * * * *
40727 CC-TTTT-TTTT-AAAGCCCACACGAGTTAGTGGCACCTTTTAGTCCTGAAAGAGCAAGACA
1 CCTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * *
40786 CCTTTTCCTTTTTAAAGTCC-AC-CTGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATG
1 CCTTTTTCTTTTCAAAG-CCTACAC-GAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * * *
40848 CC-TTTTCTTTTTCAAAGCCTACCCAAGTTGGTGACACTTTTTAGTCC-CACCTTTTAGTCCTCA
1 CCTTTTTC-TTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCA-----AAG------
* *
40911 AGGAATAGGATG
54 A-G--CAGGACG
* ** * * * * * * **
40923 CCGTTTT-TTTTCAAAGCCCGCACAAGTTGGTGCCACCTTTTAGTCTTCAACGAGTAAGATA
1 CCTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
** * * * * ** *
40984 TTTTTTTCTTTTTAAAGCGTACATGAGTTGGTCGCACCTTTTTCTCCTC--A-AGCAGGTA-A
1 CCTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGG-ACG
** * * * * * * ** *
41043 TTTTTTTCTTTTTGAAGGCC-ACATGAATTGGTGGCAGCTTTTAGTCCTCGAAGAATAGAACG
1 CCTTTTTC-TTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
* * * ** *
41105 CTTTCCATTTTCCTTCTCAAAGCCCACACGAGTTGGTGAAACCTTTTAGTCCTCAAAGAGTAGGA
1 ----CC-TTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA
41170 CG
61 CG
* * * * * ** * * *
41172 CTTTCTTTTTTCTTTTTAAAGTCTACATGAGTTGGTGGTACCTTTTAGTTCAAAAAAAGTAGGAT
1 C---C-TTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGAC
41237 G
62 G
* * * * *
41238 CCTTTTTCTTTTCAAAGCCCACACGACTTGGTAGCACCTTTTAGTCC-CAAAAGAGCAAGATG
1 CCTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTC-AAAGAGCAGGACG
* * * * * * *
41300 CCTTTTACTTTTTCAGAGCCCACCCAAGTTGGTGGTACTTTTTAGTCC
1 CCTTTTTC-TTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCC
41348 CCACCTTTTA
Statistics
Matches: 2026, Mismatches: 455, Indels: 287
0.73 0.16 0.10
Matches are distributed among these distances:
55 32 0.02
56 13 0.01
57 9 0.00
58 35 0.02
59 121 0.06
60 27 0.01
61 158 0.08
62 734 0.36
63 552 0.27
64 37 0.02
65 3 0.00
66 80 0.04
67 126 0.06
70 1 0.00
72 2 0.00
73 6 0.00
74 37 0.02
75 11 0.01
76 4 0.00
77 38 0.02
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (62 bp):
CCTTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
Found at i:38792 original size:169 final size:169
Alignment explanation
Indices: 38495--38822 Score: 421
Period size: 169 Copynumber: 1.9 Consensus size: 169
38485 CCAGGATGCT
* * * *
38495 TTTTTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGACCTTAAAGACCAGGATGCTTGT
1 TTTTTCTTTTCAAAGCCCACACGAGCTGGTGGCACCATTTAGACCTTAAAGACCAGAATGCTTGT
* * **
38560 TTCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGACCTCCAAGACCAGGATGC-TTTTTT
66 TCCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGACCTCAAAGACCAGGACACTTTTTTT
38624 CT-TTTCAAAGCCCACACGAGTTGGTGGTAGCTAGACACC
131 CTCTTT-AAAGCCCACACGAGTTGGTGGTAGCTAGACACC
* * * **
38663 TTTTTCTTTTTAAAGCCCACACGTGCTGGTGGCACCATTTAG-TCTTCAAAGAGTAGAATGCCAT
1 TTTTTCTTTTCAAAGCCCACACGAGCTGGTGGCACCATTTAGACCTT-AAAGACCAGAATG-C-T
* * * *
38727 T-TTCCTTTTCAAAGCCTACACGAGTTGGTGGCACTTTTTTGTCCTCAAAGAGCAGGACACTTTT
63 TGTTCCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGACCTCAAAGACCAGGACACTTTT
* *
38791 TTTCTCTTTAAAGCTCGCACGAGTTGGTGGTA
128 TTTCTCTTTAAAGCCCACACGAGTTGGTGGTA
38823 CCATTTAGTC
Statistics
Matches: 136, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
167 3 0.02
168 47 0.35
169 52 0.38
170 31 0.23
171 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (169 bp):
TTTTTCTTTTCAAAGCCCACACGAGCTGGTGGCACCATTTAGACCTTAAAGACCAGAATGCTTGT
TCCTTTTCAAAGCCTACACGAGTTGGTGGCACCTTTTAGACCTCAAAGACCAGGACACTTTTTTT
CTCTTTAAAGCCCACACGAGTTGGTGGTAGCTAGACACC
Found at i:38890 original size:126 final size:123
Alignment explanation
Indices: 38663--39052 Score: 307
Period size: 129 Copynumber: 3.1 Consensus size: 123
38653 GCTAGACACC
* * * *
38663 TTTTTCTTTTTAAAGCCCACACGTGCTGGTGGCACCATTTAGTCTTCAAAGAGTAGAATGCCATT
1 TTTTTCTCTTTAAAGCCCACACGAGCTGGTGGCACCATTTAGTCATCAAAGAGCAGAAT--CATT
* * *
38728 TTCCTTTTCAAAGCCTACACGAGTTGGTGGCACTTTTTTGTCCTCAAAGAGCAGGACACTT
64 TTCCTTTTCAAAGCCTACACGAGTTGGTGCCAC-TTTTAGTCCTCAAAGAGAAGGACACTT
* * * * *
38789 TTTTTCTCTTTAAAGCTCGCACGAGTTGGTGGTACCATTTAGTCATCAAAGAGCAGGACAT-TTT
1 TTTTTCTCTTTAAAGCCCACACGAGCTGGTGGCACCATTTAGTCATCAAAGAGCA-GA-ATCATT
* * * * ** *
38853 TTTCTTTTTAAAGCCTATACTAGTTGGTGCCACCTTTTAGTCCTTGAAGAGAAGGACGCTT
64 TTCCTTTTCAAAGCCTACACGAGTTGGTGCCA-CTTTTAGTCCTCAAAGAGAAGGACACTT
* * * ** * * * * *
38914 TTCTTTTTCTTTCTCAAAGCCTACACAAATTGGTGGGAACTTTTAGTCCTCAAAGAGCAGGATGC
1 TT-TTTCTC-TT-T-AAAGCCCACACGAGCTGGTGGCACCATTTAGTCATCAAAGAGCAGAAT-C
* * * * * * * * * *
38979 CTTTTTCTTTTCAAAACCTGCACGTGTTGATGGCACTTTTTAGTCCTCTAACAGAAGGACGCTT
61 ATTTTCCTTTTCAAAGCCTACACGAGTTGGTGCCAC-TTTTAGTCCTCAAAGAGAAGGACACTT
39043 TTTTT-TCTTT
1 TTTTTCTCTTT
39053 TAACGCTCAC
Statistics
Matches: 212, Mismatches: 42, Indels: 21
0.77 0.15 0.08
Matches are distributed among these distances:
125 54 0.25
126 55 0.26
127 8 0.04
128 8 0.04
129 87 0.41
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.37
Consensus pattern (123 bp):
TTTTTCTCTTTAAAGCCCACACGAGCTGGTGGCACCATTTAGTCATCAAAGAGCAGAATCATTTT
CCTTTTCAAAGCCTACACGAGTTGGTGCCACTTTTAGTCCTCAAAGAGAAGGACACTT
Found at i:39107 original size:125 final size:124
Alignment explanation
Indices: 38663--42136 Score: 868
Period size: 125 Copynumber: 27.4 Consensus size: 124
38653 GCTAGACACC
** * * * * *
38663 TTTTTCTTTTTAAAGCCCACACGTGCTGGTGGCACCATTTAGTCTTCAAAGAGT-AGAATGCCAT
1 TTTTTC-TTTTAAAGCCCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAG-ACGCC-T
* * * * * * * *
38727 TTTCCTTTTCAAAGCCTACACGAGTTGGTGGCACTTTTTTGTCCTCAAAGAGCAGGACACTT
63 TTTTCTTTTCAAAACCTACACGAGTTGATGGCACCTTTTAGTCCTCTAAGAGAAGGACGCTT
* * * * * * * * * ***
38789 TTTTTCTCTTTAAAGCTCGCACGAGTTGGTGGTACCATTTAGTCATCAAAGAGCAGGACATTTTT
1 TTTTTCT-TTTAAAGCCCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGACGCCTTT
* * * * * *
38854 TTCTTTTTAAAGCCTATACTAGTTGGTGCCACCTTTTAGTCCT-TGAAGAGAAGGACGCTTTT
65 TTCTTTTCAAAACCTACACGAGTTGATGGCACCTTTTAGTCCTCT-AAGAGAAGGACGC--TT
* * * * * * * *
38916 CTTTTTCTTTCTCAAAGCCTACACAAATTGGTGGGAACTTTTAGTCCTCAAAGAGCAGGATGCCT
1 -TTTTTCTTT-T-AAAGCCCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGACGCCT
* * * *
38981 TTTTCTTTTCAAAACCTGCACGTGTTGATGGCACTTTTTAGTCCTCTAACAGAAGGACGCTTT
63 TTTTCTTTTCAAAACCTACACGAGTTGATGGCACCTTTTAGTCCTCTAAGAGAAGGACGC-TT
* * * *
39044 TTTTTCTTTTAACGCTCACACAAGTTGATAGCACTTTTTAGTCCTCAAAGAGTAAGACGCCTTTT
1 TTTTTCTTTTAAAGCCCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGACGCCTTTT
* * * * *
39109 TCTTTTCAAAGACC-ACATGAGTTGATGGCACCTTGTAGTCCACCAAGAGTAGGACGGC--
66 TCTTTTCAAA-ACCTACACGAGTTGATGGCACCTTTTAGTCCTCTAAGAGAAGGAC-GCTT
* * ** * *
39167 ATTTTCATTTTCAAGCCCACA-AGAGTTGGTAGCATTTTTTAGTCCTCAAAGAGCAAGATGCC--
1 TTTTTC-TTTTAAAGCCCACACA-AGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGACGCCTT
* * * * * * * * *
39229 TAT-TATT-AAAAGCCTAAACAAGTT-AGGGGCACATTTTAGTCCT-TAA-AGAACATGATGC-C
64 TTTCTTTTCAAAA-CCTACACGAGTTGA-TGGCACCTTTTAGTCCTCTAAGAG-A-AGGACGCTT
* *
39288 TTTTTCATTTCAAAAGCCCACACGAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGACGCCTT
1 TTTTTC-TTT-TAAAGCCCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGACGCCTT
* * ** * ** * * * *
39353 TTTCTTTTCAAAGCCCATGCGAGTTGGTGGCACCTTTTAGTTTTCAAAGAGCAGGATGC-A
64 TTTCTTTTCAAAACCTACACGAGTTGATGGCACCTTTTAGTCCTCTAAGAGAAGGACGCTT
* * ** * *
39413 TTTTCCTTTTGAAAGCCCACACGAGTTAATGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCTTT
1 TTTTTCTTTT-AAAGCCCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGACGCCTTT
* * * * * *
39478 TCCTTTTCAAAGCCCACACGAGTTTG-TGGCACCCTTTAGTCCTCACCTTTTAGTCCTTAAAAAG
65 TTCTTTTCAAAACCTACACGAG-TTGATGGCACCTTTTAGTCCT---C--TAAG------AGAAG
* *
39542 CAAGATGTTT
118 ---GACGCTT
* ** * * * * * **
39552 TTTTTCTTCTCAAAGCCTGCACGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGATGTTTTT
1 TTTTTCTT-TTAAAGCCCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGACG-CCTT
* * * * * * * * *
39617 TTTCTTTTTAAAACCCACACGAATTGGTGGCACCTTTTAGTCTTCGAAGAGTAGGTCAC-T
64 TTTCTTTTCAAAACCTACACGAGTTGATGGCACCTTTTAGTCCTCTAAGAGAAGGACGCTT
* * ** * * * ** * * *
39677 TTTTACTTTTTCAAGCCCACATGAGTTAGTGGCACCTTTTAGTCTTTGAATAGTAGGATGCTTTC
1 TTTTTC-TTTTAAAGCCCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGA--C--GC
* * * * * * *
39742 CTTTTTCTTTCTCAAAACCCACATGAGTTGGTGGTACCTTTTAGTCCTCAAAGAGCAGGATGCTT
61 CTTTTTCTTT-TCAAAACCTACACGAGTTGATGGCACCTTTTAGTCCTCTAAGAGAAGGACGCTT
* * * * * *
39807 TTTTACTTTTTAAAGCCCACACGAGTTGGTAGTACTTTTTAGTCCTC----AG---GCCACCTTT
1 TTTTTC-TTTTAAAGCCCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGACGCCTTT
** * * * * *
39865 TTCATTTT-AAGGCCCACATGAGTTGATGGTACCTTTTAGTCCTC-AATGAGCAAGATATC-ATT
65 TTC-TTTTCAAAACCTACACGAGTTGATGGCACCTTTTAGTCCTCTAA-GAG-AAG-GA-CGCTT
* * * * * * * * ***
39927 TTCTT-TTTT-AAGTCCACACGAGTTGATGGCACCTTTTAGTCCTTAAAGAGCAGGACATTTTTT
1 TTTTTCTTTTAAAGCCCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGAC-GCCTTT
* * * * * * * * *
39990 TTCTTTGT-AAAGCCCACATGAGTTGGTGACACCTTTTAGTCCTCAAAGAGCAGGATGCCT
65 TTCTTT-TCAAAACCTACACGAGTTGATGGCACCTTTTAGTCCTCTAAGAGAAGGACGCTT
* ** * * * * * *
40050 TTTTCCTTTTTAAAGCCCACATGAGTTGGTGGCTA-CTTTTAGTCTTCAAAGAGCAGGATGCCTG
1 TTTTTC-TTTTAAAGCCCACACAAGTTGGTAGC-ACCTTTTAGTCCTCAAAGAGTAAGACGCCTT
* * * * * * * * *
40114 TTTCTTTTCAAAGCCCACACGAGTTGGTGACACCTTCTAGTCCT-TAAAAAGCATGATGCCTT
64 TTTCTTTTCAAAACCTACACGAGTTGATGGCACCTTTTAGTCCTCT-AAGAGAAGGACG-CTT
* * ** * * * * * * *
40176 TTTTTCTTTTATAGCCCTCATGAGTTTGT-GTCTCCTTTTAGTTCTCAAGGAGCAAGACACCATT
1 TTTTTCTTTTAAAGCCCACACAAGTTGGTAG-CACCTTTTAGTCCTCAAAGAGTAAGACGCCTTT
* * * * * * * * *
40240 TTCTTTTCAAAGCCCACACGAGTTGGTGACATCTTTTA-TCCT-TAAAGGGCAGGATGCCT
65 TTCTTTTCAAAACCTACACGAGTTGATGGCACCTTTTAGTCCTCT-AAGAGAAGGACGCTT
* ** * * * * * *
40299 TTTTCCTTTTAAAGCTTAGACGAGTTGCTGGCACGTTTTAGTCCTCAAAGAGT-AGA-GCAC--C
1 TTTTTCTTTTAAAGCCCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGACGC-CTTT
** * * * * * *
40360 TT-TTTT--AAATGTTCACAGAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGTAA-GATGC-C
65 TTCTTTTCAAAACCTACAC-G-AGTTGATGGCACCTTTTAGTCCTCTAAGAG-AAGGACGCTT
* * * * * * * *
40418 TTTTCCTTTTCAAAACCCACATAAGTTGTTCA-CACTTTTTAGTCTTCAAAGAGTATGACGTCTT
1 TTTTTCTTTT-AAAGCCCACACAAGTTGGT-AGCACCTTTTAGTCCTCAAAGAGTAAGACGCCTT
** * * * * * * * *
40482 TTT-TTCTT-ATAAGGCTCATACGAGTTGGTAGCACCTTTTTGTCCT-TAAAAGGTAGGATGC-C
64 TTTCTT-TTCA-AAACCT-ACACGAGTTGATGGCACCTTTTAGTCCTCTAAGA-GAAGGACGCTT
* * * * * *
40543 TTTTT-TTTTAACAGCACACACGAGTTGGTGGCACCTTGTAGTCCTCAAAGAGTAGGATGCCTTT
1 TTTTTCTTTTAA-AGCCCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGACGCCTTT
* ** * * * * *
40607 TCCTTTTTTAAAGCTCACACGAGTTGGTGGCACCTTTTAGTCCT-TAAAGAGTAGGATGC-C
65 TTCTTTTCAAAACCT-ACACGAGTTGATGGCACCTTTTAGTCCTCT-AAGAGAAGGACGCTT
* * * * * *
40667 TTTTTCTTTTCGAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTAAAAAGT-AGGCTACC-T
1 TTTTTCTTTT-AAAGCCCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGAC-GCCTT
* * ** * *
40730 TTT-TTTT-AAAGCCCACACGAGTT-AGTGGCACCTTTTAGTCCTGAAAGAGCAA-GACAC-C
64 TTTCTTTTCAAAACCTACACGAGTTGA-TGGCACCTTTTAGTCCTCTAAGAG-AAGGACGCTT
* * * * * *
40788 TTTTCCTTTTTAAAGTCCAC-CTGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCC-T
1 TTTTTC-TTTTAAAGCCCACAC-AAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGACGCCTT
* * * *
40851 TTTCTTTTTCAAAGCCTACCCAAGTTGGTGACACTTTTTAGTCCCACCTTTTAGTCCTC-AAG-G
64 TTTC-TTTTCAAAACCTACACGAG-T--TG--A-----T-G--GCACCTTTTAGTCCTCTAAGAG
* **
40914 AATAGGATGCCG
115 -A-AGGACGCTT
* * * * ****
40926 TTTTT-TTTCAAAGCCCGCACAAGTTGGT-GCCACCTTTTAGTCTTCAACGAGTAAGATATTTTT
1 TTTTTCTTTTAAAGCCCACACAAGTTGGTAG-CACCTTTTAGTCCTCAAAGAGTAAGACGCCTTT
* * * * * * ** * *
40989 TTCTTTTTAAAGCGTACATGAGTTGGTCGCACCTTTTTCTCCTC-AAGCAG--GTA--ATT
65 TTCTTTTCAAAACCTACACGAGTTGATGGCACCTTTTAGTCCTCTAAG-AGAAGGACGCTT
* * * * * * *
41045 TTTTTCTTTTTGAAGGCCACATGAA-TTGGTGGCAGCTTTTAGTCCTCGAAGAAT-AGAACGCTT
1 TTTTTC-TTTTAAAGCCCACA-CAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAG-ACG---
* * * * * ** * *
41108 TCCATTTTCCTTCTCAAAGCCCACACGAGTTGGTGAAACCTTTTAGTCCTCAAAGAGTAGGACGC
60 -CC-TTTTTCTTTTCAAAACCTACACGAGTTGATGGCACCTTTTAGTCCTCTAAGAGAAGGACGC
41173 TTTCT
123 --T-T
* * ** * * * ** * * *
41178 TTTTTCTTTTTAAAGTCTACATGAGTTGGTGGTACCTTTTAGTTCAAAAAAAGTAGGATGCCTTT
1 TTTTTC-TTTTAAAGCCCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGACGCCTTT
* * * * * * *
41243 TTCTTTTCAAAGCCCACACGACTTGGTAGCACCTTTTAGTCC-CAAAAGAGCAA-GATGCCTT
65 TTCTTTTCAAAACCTACACGAGTTGATGGCACCTTTTAGTCCTC-TAAGAG-AAGGACG-CTT
* * * * *
41304 TTACTT-TTTCAGAGCCCACCCAAGTTGGTGGTACTTTTTAGTCCCCACCTTTTAGTCCTCAAAA
1 TT-TTTCTTTTAAAGCCCACACAAG-T--TGG-------TAG----CACCTTTTAGTCCTCAAAG
* * * * * * *
41368 AGCAAGACGTCTTTTTCTTTTCAAAACCCACATGAGTTGCTGGTACCTTTTAGTACC-CAAAGAG
51 AGTAAGACGCCTTTTTCTTTTCAAAACCTACACGAGTTGATGGCACCTTTTAGT-CCTCTAAGAG
*
41432 CAGGACG-TT
115 AAGGACGCTT
* * * *
41441 TTTTCCATTTCAAAGCCCACCCAAGTTGGTGGCACTTTTTAGTCCCCACCTTTGAGTCCTCAAAG
1 TTTTTC-TTTTAAAGCCCACACAAG-T--TGG-------TAG----CACCTTTTAGTCCTCAAAG
* * * * ** * * * *
41506 AGTAGGATGCCTTTTTTTTTTCAAAGCCCGCACGAATTGGTGCCACCTTTTAGT-CTTTAAAGAG
51 AGTAAGACGCCTTTTTCTTTTCAAAACCTACACGAGTTGATGGCACCTTTTAGTCCTCT-AAGAG
* *
41570 CAA-GATG-TA
115 -AAGGACGCTT
* ** * * * * * ***
41579 TTTTTCTTTTTAAATCATACACAAGTTGGTTGCGCCTTTTACTCCTCAAAGAGTAGGTCATTTTT
1 TTTTTC-TTTTAAAGCCCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGACGCCTTT
* * * * * * * * * * *
41644 TTCCTTTTTAAAGGCC-ATATGAGTTGGTGGCAGCTTTTAGTCATCGAAGAGTAGAACGTTTT
65 TT-CTTTTCAAA-ACCTACACGAGTTGATGGCACCTTTTAGTCCTCTAAGAGAAGGACG-CTT
* ** * * * *
41706 CCTTTTTCTTTCTCAAAGCCCACACGAGTTAGTGTA--ACCTTTTACACCTCAAAAAGCAGGATG
1 --TTTTTCTTT-T-AAAGCCCACACAAGTT-G-GTAGCACCTTTTAGTCCTCAAAGAGTAAGACG
* * * * * * * *
41769 CCTTTTTCTTTTC-AAAGCTCACACAAGTTGGTGGCACCTTTTCGTCCTCAAAGAGCATGACAC-
60 CCTTTTTCTTTTCAAAACCT-ACACGAGTTGATGGCACCTTTTAGTCCTCTAAGAGAAGGACGCT
*
41832 C
124 T
* * ** * * * *
41833 TTTTCCTTTTCAAAGCCCACATAAGTTGGCCGCACCTTTTAGTCTTCAAAGAGCATGATGCCATT
1 TTTTTCTTTT-AAAGCCCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGACGCC--T
* * * * * *
41898 TTTTCTTAT-AAATCCTATACGAGTTGGTGGCACCTTTTAGTCCT-TAAAAGGCAA-GATGCCTT
63 TTTTCTTTTCAAAACCTACACGAGTTGATGGCACCTTTTAGTCCTCTAAGA-G-AAGGACG-CTT
* * * ** * * * * * *
41960 TTCTT-TTTAAAAGCACACATGAGTTGGTGGCATCTTCTAGTCCCCAAAAAGTAGGACGCCTTTT
1 TTTTTCTTTTAAAGCCCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGACGCCTTTT
* ** * * * * * * * * *
42024 CCTTTTTGAAGCTTATACGAGTTGGTGGCGCCTTTAAGTCCT-TAAAGAGTAGGATGC-C
66 TCTTTTCAAAACCTACACGAGTTGATGGCACCTTTTAGTCCTCT-AAGAGAAGGACGCTT
* * * *
42082 TTTTTCTTTTCAAAGCCCACAGAAGTTCGT-GACACCTTTTTGTTCTCAAAGAGTA
1 TTTTTCTTTT-AAAGCCCACACAAGTTGGTAG-CACCTTTTAGTCCTCAAAGAGTA
42137 GGCTGCCCTT
Statistics
Matches: 2527, Mismatches: 610, Indels: 424
0.71 0.17 0.12
Matches are distributed among these distances:
117 36 0.01
118 41 0.02
119 49 0.02
120 68 0.03
121 159 0.06
122 68 0.03
123 96 0.04
124 413 0.16
125 596 0.24
126 180 0.07
127 33 0.01
128 80 0.03
129 181 0.07
130 79 0.03
131 1 0.00
132 4 0.00
133 44 0.02
134 2 0.00
135 15 0.01
136 61 0.02
137 29 0.01
138 132 0.05
139 120 0.05
140 40 0.02
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (124 bp):
TTTTTCTTTTAAAGCCCACACAAGTTGGTAGCACCTTTTAGTCCTCAAAGAGTAAGACGCCTTTT
TCTTTTCAAAACCTACACGAGTTGATGGCACCTTTTAGTCCTCTAAGAGAAGGACGCTT
Found at i:39695 original size:202 final size:200
Alignment explanation
Indices: 39351--39720 Score: 483
Period size: 202 Copynumber: 1.8 Consensus size: 200
39341 GTAAGACGCC
* ** * *
39351 TTTTTCTTTTCAAAGCCCATGCGAGTTGGTGGCACCTTTTAGTTTTCAAAGAGCAGGATGCATTT
1 TTTTTCTTCTCAAAGCCCA-GCGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGATGCATTT
* * *
39416 TCCTTTTGAAAGCCCACACGAGTTAATGGCACCTTTTAGTCCTCAAAGAGTAGGACGCCTTTTCC
65 TCCTTTTGAAAACCCACACGAATTAATGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTTTTCC
*
39481 TTTTCAAAGCCCACACGAGTTTGTGGCACCCTTTAGTCCTCACCTTTTAGTCCTTAAAAAGCAAG
130 TTTTCAAAGCCCACACGAGTTAGTGGCACCCTTTAGTCCTCACCTTTTAGTCCTTAAAAAGCAAG
39546 ATGTTT
195 ATGTTT
**
39552 TTTTTCTTCTCAAAGCCTGCA-CGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGATGTTTT
1 TTTTTCTTCTCAAAGCC--CAGCGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGATG-CAT
* * ** * * * *
39616 TTTTCTTTTTAAAACCCACACGAATTGGTGGCACCTTTTAGTCTTCGAAGAGTAGGTCACTTTTT
63 TTTCCTTTTGAAAACCCACACGAATTAATGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTTTT
* * *
39681 ACTTTTTC-AAGCCCACATGAGTTAGTGGCACCTTTTAGTC
128 -CCTTTTCAAAGCCCACACGAGTTAGTGGCACCCTTTAGTC
39721 TTTGAATAGT
Statistics
Matches: 143, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
201 51 0.36
202 84 0.59
203 8 0.06
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (200 bp):
TTTTTCTTCTCAAAGCCCAGCGAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAAGATGCATTTT
CCTTTTGAAAACCCACACGAATTAATGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTTTTCCT
TTTCAAAGCCCACACGAGTTAGTGGCACCCTTTAGTCCTCACCTTTTAGTCCTTAAAAAGCAAGA
TGTTT
Found at i:40963 original size:75 final size:74
Alignment explanation
Indices: 40820--40967 Score: 208
Period size: 74 Copynumber: 2.0 Consensus size: 74
40810 GAGTTGGTGG
* * * *
40820 CACCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTCTTTTTCAAAGCCTACCCAAGTTGGTGACAC
1 CACCTTTTAGTCCTCAAAGAATAGGATGCCGTTTCTTTTTCAAAGCCCACACAAGTTGGTGACAC
40885 TTTTTAGTCC
66 -TTTTAGTCC
* * *
40895 CACCTTTTAGTCCTCAAGGAATAGGATGCCGTTT-TTTTTCAAAGCCCGCACAAGTTGGTGCCAC
1 CACCTTTTAGTCCTCAAAGAATAGGATGCCGTTTCTTTTTCAAAGCCCACACAAGTTGGTGACA-
40959 CTTTTAGTC
65 CTTTTAGTC
40968 TTCAACGAGT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
74 33 0.51
75 32 0.49
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (74 bp):
CACCTTTTAGTCCTCAAAGAATAGGATGCCGTTTCTTTTTCAAAGCCCACACAAGTTGGTGACAC
TTTTAGTCC
Found at i:41116 original size:66 final size:66
Alignment explanation
Indices: 41046--41288 Score: 190
Period size: 67 Copynumber: 3.7 Consensus size: 66
41036 CAGGTAATTT
* * * * * *
41046 TTTTCTTTTTGAAGGCCACATGAATTGGTGGCAGCTTTTAGTCCTCGAAGAATAGAACGCTTTCC
1 TTTTCTTTTTAAAGCCCACATGAGTTGGTGGAACCTTTTAGTCCTCAAAGAATAGAACGCTTTCC
41111 A
66 A
* * * * * *
41112 TTTTCCTTCTCAAAGCCCACACGAGTTGGTGAAACCTTTTAGTCCTCAAAGAGTAGGACGCTTTC
1 TTTT-CTTTTTAAAGCCCACATGAGTTGGTGGAACCTTTTAGTCCTCAAAGAATAGAACGCTTTC
**
41177 TT
65 CA
* * * * * ** *
41179 TTTTCTTTTTAAAGTCTACATGAGTTGGTGGTACCTTTTAGT--TCAAA-AAAAGTA-GGATGCC
1 TTTTCTTTTTAAAGCCCACATGAGTTGGTGGAACCTTTTAGTCCTCAAAGAATAGAACGCTTTCC
*
41240 T
66 A
* * * * *
41241 TTTTCTTTTCAAAGCCCACACGACTTGGTAGCACCTTTTAGTCC-CAAA
1 TTTTCTTTTTAAAGCCCACATGAGTTGGTGGAACCTTTTAGTCCTCAAA
41289 AGAGCAAGAT
Statistics
Matches: 139, Mismatches: 35, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
62 39 0.28
63 8 0.06
64 5 0.04
66 35 0.25
67 52 0.37
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (66 bp):
TTTTCTTTTTAAAGCCCACATGAGTTGGTGGAACCTTTTAGTCCTCAAAGAATAGAACGCTTTCC
A
Found at i:41152 original size:67 final size:66
Alignment explanation
Indices: 41080--41220 Score: 165
Period size: 66 Copynumber: 2.1 Consensus size: 66
41070 TTGGTGGCAG
*
41080 CTTTTAGTCCTCGAAGAATAGAACGCTTTCCATTTTCCTTCTCAAAGCCCACACGAGTTGGTGAA
1 CTTTTAGTCCTCAAAGAATAGAACGCTTT-CATTTTCCTTCTCAAAGCCCACACGAGTTGGTGAA
41145 AC
65 AC
* * * * * * * * * **
41147 CTTTTAGTCCTCAAAGAGTAGGACGCTTTCTTTTTTCTTTTTAAAGTCTACATGAGTTGGTGGTA
1 CTTTTAGTCCTCAAAGAATAGAACGCTTTCATTTTCCTTCTCAAAGCCCACACGAGTTGGTGAAA
41212 C
66 C
41213 CTTTTAGT
1 CTTTTAGT
41221 TCAAAAAAAG
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
66 36 0.58
67 26 0.42
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (66 bp):
CTTTTAGTCCTCAAAGAATAGAACGCTTTCATTTTCCTTCTCAAAGCCCACACGAGTTGGTGAAA
C
Found at i:41418 original size:77 final size:76
Alignment explanation
Indices: 41272--41426 Score: 179
Period size: 76 Copynumber: 2.0 Consensus size: 76
41262 GACTTGGTAG
* * * * *
41272 CACCTTTTAGTCCCAAAAGAGCAAGATGCCTTTTACTTTTTCAGAGCCCACCCAAGTTGGTGGTA
1 CACCTTTTAGTCCCAAAAGAGCAAGACGCCTTTTACTTTTTCAAAACCCACACAAGTTGCTGGTA
*
41337 CTTTTTAGTCCC
66 C-TTTTAGTACC
* * **
41349 CACCTTTTAGTCCTCAAAA-AGCAAGACGTCTTTTTC-TTTTCAAAACCCACATGAGTTGCTGGT
1 CACCTTTTAGTCC-CAAAAGAGCAAGACGCCTTTTACTTTTTCAAAACCCACACAAGTTGCTGGT
41412 ACCTTTTAGTACC
65 A-CTTTTAGTACC
41425 CA
1 CA
41427 AAGAGCAGGA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
76 33 0.50
77 28 0.42
78 5 0.08
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (76 bp):
CACCTTTTAGTCCCAAAAGAGCAAGACGCCTTTTACTTTTTCAAAACCCACACAAGTTGCTGGTA
CTTTTAGTACC
Found at i:41468 original size:62 final size:61
Alignment explanation
Indices: 41349--41486 Score: 152
Period size: 62 Copynumber: 2.2 Consensus size: 61
41339 TTTTAGTCCC
* **
41349 CACCTTTTAGTCCTCAAAAAGCAAGACGTCTTTTTCTTTTCAAAACCCACATGAGTTGCTGG
1 CACCTTTTAGTCC-CAAAAAGCAAGACGTCTTTTTCATTTCAAAACCCACACAAGTTGCTGG
* * * * * *
41411 TACCTTTTAGTACCCAAAGAGCAGGACGT-TTTTTCCATTTCAAAGCCCACCCAAGTTGGTGG
1 CACCTTTTAGT-CCCAAAAAGCAAGACGTCTTTTT-CATTTCAAAACCCACACAAGTTGCTGG
*
41473 CACTTTTTAGTCCC
1 CACCTTTTAGTCCC
41487 CACCTTTGAG
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
61 8 0.13
62 53 0.84
63 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (61 bp):
CACCTTTTAGTCCCAAAAAGCAAGACGTCTTTTTCATTTCAAAACCCACACAAGTTGCTGG
Found at i:41619 original size:138 final size:135
Alignment explanation
Indices: 41225--41592 Score: 421
Period size: 138 Copynumber: 2.7 Consensus size: 135
41215 TTTAGTTCAA
*
41225 AAAAAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACGACTTGGTAGCACCTTTTAGTCCCAAAA
1 AAAAAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACGAATTGGT-GCACCTTTTAGT-CCAAAA
* * * *
41290 GAGCAAGATGCCTTTTACTTTTTCAGAGCCCACCCAAGTTGGTGGTACTTTTTAGTCCCCACCTT
64 GAGCAAGATG-TTTTTTCTTTTT-AAAGCCCACCCAAGTTGGTGGCACTTTTTAGTCCCCACCTT
*
41355 TTAGTCCTC
127 TGAGTCCTC
* * * * * * * * * *
41364 AAAAAGCAAGACGTCTTTTTCTTTTCAAAACCCACATGAGTTGCTGGTACCTTTTAGTACCCAAA
1 AAAAAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACGAATTGGT-GCACCTTTTAGT-CCAAAA
* * * *
41429 GAGCAGGACGTTTTTTCCATTTCAAAGCCCACCCAAGTTGGTGGCACTTTTTAGTCCCCACCTTT
64 GAGCAAGATGTTTTTT-CTTTTTAAAGCCCACCCAAGTTGGTGGCACTTTTTAGTCCCCACCTTT
41494 GAGTCCTC
128 GAGTCCTC
* * * **
41502 AAAGAGTAGGATGCCTTTTTTTTTTCAAAGCCCGCACGAATTGGTGCCACCTTTTAGTCTTTAAA
1 AAAAAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACGAATTGGTG-CACCTTTTAGTC-CAAAA
41567 GAGCAAGATGTATTTTTCTTTTTAAA
64 GAGCAAGATGT-TTTTTCTTTTTAAA
41593 TCATACACAA
Statistics
Matches: 186, Mismatches: 39, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
137 2 0.01
138 114 0.61
139 70 0.38
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (135 bp):
AAAAAGTAGGATGCCTTTTTCTTTTCAAAGCCCACACGAATTGGTGCACCTTTTAGTCCAAAAGA
GCAAGATGTTTTTTCTTTTTAAAGCCCACCCAAGTTGGTGGCACTTTTTAGTCCCCACCTTTGAG
TCCTC
Found at i:41860 original size:62 final size:62
Alignment explanation
Indices: 41487--42149 Score: 429
Period size: 62 Copynumber: 10.6 Consensus size: 62
41477 TTTTAGTCCC
* * * * * *
41487 CACCTTTGAGTCCTCAAAGAGTAGGATGCCTTTTTTTTTTCAAAGCCCGCACGAATTGGTGC
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGG
* * * ** * * ** * *
41549 CACCTTTTAGTCTTTAAAGAGCAAGATGTATTTTTCTTTTTAAATCATACACAAGTTGGTTG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGG
* * * * * * * *
41611 CGCCTTTTACTCCTCAAAGAGTAGG-T-CATTTTTTTCCTTTTTAAAGGCCATATGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGC--CTTTTT-CTTTTCAAAGCCCACACGAGTTGGTGG
* * * ** * *
41674 CAGCTTTTAGTCATCGAAGAGTAGAACGTTTTCCTTTTTCTTTCTCAAAGCCCACACGAGTTAGT
1 CACCTTTTAGTCCTC-AA-AG-AGCA-GGATGCCTTTTTCTTT-TCAAAGCCCACACGAGTTGGT
*
41739 GT
61 GG
* ** * * *
41741 AACCTTTTACACCTCAAAAAGCAGGATGCCTTTTTCTTTTCAAAGCTCACACAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGG
* * ** * ** **
41803 CACCTTTTCGTCCTCAAAGAGCATGACACCTTTTCCTTTTCAAAGCCCACATAAGTTGGCCG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGG
* * * * * *
41865 CACCTTTTAGTCTTCAAAGAGCATGATGCCATTTTTTCTTAT-AAATCCTATACGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCC--TTTTTCTTTTCAAAGCCCACACGAGTTGGTGG
* * * * *
41928 CACCTTTTAGTCCTTAAA-AGGCAAGATGCC-TTTTCTTTTTAAAAGCACACATGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGA-GCAGGATGCCTTTTTC-TTTTCAAAGCCCACACGAGTTGGTGG
* * * * * * * ** ** *
41990 CATCTTCTAGTCCCCAAAAAGTAGGACGCCTTTTCCTTTTTGAAGCTTATACGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGG
* * * * * *
42052 CGCCTTTAAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCCCACA-GAAGTTCGTGA
1 CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACG-AGTTGGTGG
* * * *
42114 CACCTTTTTGTTCTCAAAGAGTAGGCTGCCCTTTTT
1 CACCTTTTAGTCCTCAAAGAGCAGGATG-CCTTTTT
42150 TAAAGCCAGT
Statistics
Matches: 451, Mismatches: 131, Indels: 37
0.73 0.21 0.06
Matches are distributed among these distances:
60 5 0.01
61 5 0.01
62 287 0.64
63 94 0.21
64 13 0.03
65 3 0.01
66 9 0.02
67 33 0.07
68 1 0.00
69 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (62 bp):
CACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGG
Found at i:42137 original size:124 final size:123
Alignment explanation
Indices: 41487--42238 Score: 402
Period size: 124 Copynumber: 6.1 Consensus size: 123
41477 TTTTAGTCCC
* * * * **** * *
41487 CACCTTTGAGTCCTCAAAGAGTAGGATGCCTTTTTTTTTTCAAAGCCCGCACGAATTGGTGCCAC
1 CACCTTTTAGTCCTCAAAAAGCAGGATGCCTTTTCTTTTT-AAAGCTTATACGAGTTGGTGGCAC
* ** * * ** *
41552 CTTTTAGTCTTTAAAGAGCAAGATGTATTTTTCTTTTTAAATCATACACAAGTTGGTTG-
65 CTTTTAGTCCTTAAAGAGCAAGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGG-TGA
* * * * ** * *
41611 CGCCTTTTACTCCTCAAAGAGTAGGTCAT-TTTTTTCCTTTTTAAAGGC-CATATGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAAAGCAGG--ATGCCTTTT-CTTTTTAAA-GCTTATACGAGTTGGTGG
* * * * * *
41674 CAGCTTTTAGTCATCGAAGAGTAG-AACGTTTTCCTTTTTCTTTCTCAAAGCCCACACGAGTTAG
62 CACCTTTTAGTCCT-TAA-AG-AGCAA-G-ATGCCTTTTTCTTT-TCAAAGCCCACACGAGTTGG
41738 TGTA
121 TG-A
** * * * *
41742 -ACCTTTTACACCTCAAAAAGCAGGATGCCTTTTTCTTTTCAAAGCTCACACAAGTTGGTGGCAC
1 CACCTTTTAGTCCTCAAAAAGCAGGATGCC-TTTTCTTTTTAAAGCTTATACGAGTTGGTGGCAC
* * * ** * ** *
41806 CTTTTCGTCCTCAAAGAGCATGACACCTTTTCCTTTTCAAAGCCCACATAAGTTGGCCG-
65 CTTTTAGTCCTTAAAGAGCAAGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGG-TGA
* * * * *
41865 CACCTTTTAGTCTTCAAAGAGCATGATGCCATTTT-TTCTTATAAATCCTATACGAGTTGGTGGC
1 CACCTTTTAGTCCTCAAAAAGCAGGATGCC-TTTTCTT-TT-TAAAGCTTATACGAGTTGGTGGC
* * * *
41929 ACCTTTTAGTCCTTAAA-AGGCAAGATGCC-TTTTCTTTTTAAAAGCACACATGAGTTGGTGG
63 ACCTTTTAGTCCTTAAAGA-GCAAGATGCCTTTTTC-TTTTCAAAGCCCACACGAGTTGGTGA
* * * * * * *
41990 CATCTTCTAGTCCCCAAAAAGTAGGACGCCTTTTCCTTTTTGAAGCTTATACGAGTTGGTGGCGC
1 CACCTTTTAGTCCTCAAAAAGCAGGATGCCTTTT-CTTTTTAAAGCTTATACGAGTTGGTGGCAC
* * * *
42055 CTTTAAGTCCTTAAAGAGTAGGATGCCTTTTTCTTTTCAAAGCCCACA-GAAGTTCGTGA
65 CTTTTAGTCCTTAAAGAGCAAGATGCCTTTTTCTTTTCAAAGCCCACACG-AGTTGGTGA
* * * * * * *
42114 CACCTTTTTGTTCTCAAAGAGTAGGCTGCC--CT-TTTTTAAAGC-----C-A----GTGGCACT
1 CACCTTTTAGTCCTCAAAAAGCAGGATGCCTTTTCTTTTTAAAGCTTATACGAGTTGGTGGCACC
** * * * *
42166 TTTTAGT-CTTGAAAGAGCAAGACACTTTTTTCTTTT-AAATCCCACCCGAGTTGGTGG
66 TTTTAGTCCTT-AAAGAGCAAGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGA
42223 CACCTTTTAGTCCTCA
1 CACCTTTTAGTCCTCA
42239 CAGATTAGGA
Statistics
Matches: 486, Mismatches: 112, Indels: 75
0.72 0.17 0.11
Matches are distributed among these distances:
109 32 0.07
110 33 0.07
114 1 0.00
115 1 0.00
120 9 0.02
122 1 0.00
123 3 0.01
124 164 0.34
125 129 0.27
126 16 0.03
127 7 0.01
128 9 0.02
129 43 0.09
130 38 0.08
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (123 bp):
CACCTTTTAGTCCTCAAAAAGCAGGATGCCTTTTCTTTTTAAAGCTTATACGAGTTGGTGGCACC
TTTTAGTCCTTAAAGAGCAAGATGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGA
Found at i:42562 original size:61 final size:62
Alignment explanation
Indices: 42406--42573 Score: 153
Period size: 61 Copynumber: 2.7 Consensus size: 62
42396 GATGCTTTCT
* * * * ** *
42406 TTTTTCTTTTTAAAGCCCACAC-GGCTTGGTGGCACTTTTTAGTCCTTGAAGAGCAGGACGCC
1 TTTTCCTTTTCAAAGCCCACACAAG-TTGGTGGCACTCTTTAGTCCTCAAAGAGCAGGACACC
* * ** ** * *
42468 TTTTTCTTTTCAGAGCCCACATGAGTTACTGGCAC-CTTTATTCCTCAAAGAGCATGACACC
1 TTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTCTTTAGTCCTCAAAGAGCAGGACACC
*
42529 TTTTCCTTTTCAAAGCCCACCCAAGTTGGTGGCACAT-TTTAGTCC
1 TTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCAC-TCTTTAGTCC
42574 CCACCTTTAG
Statistics
Matches: 83, Mismatches: 20, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
61 48 0.58
62 34 0.41
63 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (62 bp):
TTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACTCTTTAGTCCTCAAAGAGCAGGACACC
Found at i:42885 original size:133 final size:129
Alignment explanation
Indices: 42726--43040 Score: 395
Period size: 133 Copynumber: 2.4 Consensus size: 129
42716 AGAAAGTCAT
* *
42726 TTTTTTCCTTTTAAAGGCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGAACGCTTT
1 TTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGAAGAACGCTTT
* * *
42791 CCTTTTT-CTTTCTCAAAGCTCACACGAGTTAGTGG-AACCTTTTAGTCCTAAAAAAGTAGAACG
66 CCTTTTTCCTTT-T-AAAGCCCACACGAGTTAGTGGTAA-CATTTAGTCCTAAAAAAGCAGAACG
42854 CTTTC
128 C---C
* * * *
42859 TTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGAACCTTTTAGTCCTCAAATAGAAGGATGCTTT
1 TTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGAAGAACGCTTT
* * * ** *
42924 CTTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGTAACATTTAGTCCTCAAAGTGCAGGACGCC
66 CCTTTTTCCTTTTAAAGCCCACACGAGTTAGTGGTAACATTTAGTCCTAAAAAAGCAGAACGCC
*
42988 -TTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCCCAAAGAG
1 TTTTTTCCTTTT-AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAG
43041 CAAGGTGTCT
Statistics
Matches: 161, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
127 5 0.03
128 44 0.27
129 1 0.01
132 39 0.24
133 68 0.42
134 4 0.02
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (129 bp):
TTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGAAGAACGCTTT
CCTTTTTCCTTTTAAAGCCCACACGAGTTAGTGGTAACATTTAGTCCTAAAAAAGCAGAACGCC
Found at i:42898 original size:66 final size:66
Alignment explanation
Indices: 42314--43040 Score: 393
Period size: 66 Copynumber: 11.2 Consensus size: 66
42304 TCCTTAAAAT
* * *
42314 GTCCTCAAAGAGTAGAATGCTTTCCTTTTT-CTTTCTCAAAGCTCACACGAGTTGGTGGAACCTT
1 GTCCTCAAAGAGTAGAACGCTTTCTTTTTTCCTTT-T-AAAGCCCACACGAGTTGGTGGAACCTT
*
42378 ATA
64 TTA
* * * * * * *
42381 ATCCTCAAAGTGTAGGATGCTTTCTTTTTTCTTTTTAAAGCCCACACG-GCTTGGTGGCACTTTT
1 GTCCTCAAAGAGTAGAACGCTTTCTTTTTTCCTTTTAAAGCCCACACGAG-TTGGTGGAACCTTT
42445 TA
65 TA
** * * * * ** *
42447 GTCCTTGAAGAGCAGGACGC---C-TTTTT-CTTTTCAGAGCCCACATGAGTTACTGGCACC-TT
1 GTCCTCAAAGAGTAGAACGCTTTCTTTTTTCCTTTT-AAAGCCCACACGAGTTGGTGGAACCTTT
42506 TA
65 TA
* * * * * * *
42508 TTCCTCAAAGAGCATG-ACAC---C--TTTTCCTTTTCAAAGCCCACCCAAGTTGGTGGCACATT
1 GTCCTCAAAGAGTA-GAACGCTTTCTTTTTTCCTTTT-AAAGCCCACACGAGTTGGTGGAACCTT
42567 TTA
64 TTA
* * ** * * * * * * *
42570 GTCCCCACCTTTAGTCCTCAAAAAGCAGTATGCCTTTTT--TTTCAAACCCCGCACGAGTTGGTG
1 GTCCTCA----AAG-AGT-AGAACGC--T-TTCTTTTTTCCTTTTAAAGCCCACACGAGTTGGTG
**
42633 CCACCTTTTA
57 GAACCTTTTA
* * * * * * ** * *
42643 ATCTTTAAAGAG--CAA-GATGTT-TTTTTTCTTTTTAAAGCGTACACGAGTTGGTCGCACCTTT
1 GTCCTCAAAGAGTAGAACGCT-TTCTTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGAACCTTT
*
42704 TT
65 TA
* * * * * *
42706 CTTCTTAAAGAG-A-AA-G-TCAT-TTTTTTCCTTTTAAAGGCCACACGAGTTGGTGGCACCTTT
1 GTCCTCAAAGAGTAGAACGCT-TTCTTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGAACCTTT
42766 TA
65 TA
* * *
42768 GTCCTCAAAGAGTAGAACGCTTTCCTTTTT-CTTTCTCAAAGCTCACACGAGTTAGTGGAACCTT
1 GTCCTCAAAGAGTAGAACGCTTTCTTTTTTCCTTT-T-AAAGCCCACACGAGTTGGTGGAACCTT
42832 TTA
64 TTA
* *
42835 GTCCTAAAAAAGTAGAACGCTTTCTTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGAACCTTTT
1 GTCCTCAAAGAGTAGAACGCTTTCTTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGAACCTTTT
42900 A
66 A
* * * * *
42901 GTCCTCAAATAGAAGGATGCTTTCTTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGTAA-CATT
1 GTCCTCAAAGAGTAGAACGCTTTCTTTTTTCCTTTTAAAGCCCACACGAGTTGGTGG-AACCTTT
42965 TA
65 TA
* * * *
42967 GTCCTCAAAGTGCAGGACGC---C-TTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACCTTT
1 GTCCTCAAAGAGTAGAACGCTTTCTTTTTTCCTTTT-AAAGCCCACACGAGTTGGTGGAACCTTT
43027 TA
65 TA
*
43029 GTCCCCAAAGAG
1 GTCCTCAAAGAG
43041 CAAGGTGTCT
Statistics
Matches: 517, Mismatches: 107, Indels: 77
0.74 0.15 0.11
Matches are distributed among these distances:
60 4 0.01
61 58 0.11
62 123 0.24
63 42 0.08
64 3 0.01
65 9 0.02
66 148 0.29
67 83 0.16
68 10 0.02
69 2 0.00
73 27 0.05
74 4 0.01
76 4 0.01
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (66 bp):
GTCCTCAAAGAGTAGAACGCTTTCTTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGAACCTTTT
A
Found at i:43053 original size:62 final size:60
Alignment explanation
Indices: 42575--43094 Score: 342
Period size: 62 Copynumber: 8.2 Consensus size: 60
42565 TTTTAGTCCC
* * * * * * * *
42575 CACC-TTTAGTCCTCAAAAAGCAGTATGCCTTTTT-TTTCAAACCCCGCACGAGTTGGTGC
1 CACCTTTTAGTCCTCAAAGAGAAG-GTGTCTTTTTCTTTTAAAGCCCACACGAGTTGGTGG
* * * * * ** *
42634 CACCTTTTAATCTTTAAAGAGCAAGATGTTTTTTTTCTTTTTAAAGCGTACACGAGTTGGTCG
1 CACCTTTTAGTCCTCAAAGAG-AAGGTG-TCTTTTTC-TTTTAAAGCCCACACGAGTTGGTGG
** * * * * * *
42697 CACCTTTTTCTTCTTAAAGAGAAAGTCATTTTTTTCCTTTTAAAGGCCACACGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGAAGGT-GTCTTTTT-CTTTTAAAGCCCACACGAGTTGGTGG
* * * *
42759 CACCTTTTAGTCCTCAAAGAGTAGAACGCTTTCCTTTTTCTTTCTCAAAGCTCACACGAGTTAGT
1 CACCTTTTAGTCCTC-AA-AG-AGAA-GGTGT-CTTTTTCTTT-T-AAAGCCCACACGAGTTGGT
42824 GG
59 GG
* * * *
42826 AACCTTTTAGTCCTAAAAAAGTAGAACGCTTTCTTTTTTCCTTTTAAAGCCCACACGAGTTGGTG
1 CACCTTTTAGTCCT--CAAAG-AGAA-GGTGTC-TTTTT-CTTTTAAAGCCCACACGAGTTGGTG
42891 G
60 G
* *
42892 AACCTTTTAGTCCTCAAATAGAAGGATGCTTTCTTTTTTCCTTTTAAAGCCCACACGAGTTGGTG
1 CACCTTTTAGTCCTCAAAGAGAAGG-TG---TC-TTTTT-CTTTTAAAGCCCACACGAGTTGGTG
42957 G
60 G
* * * * * * *
42958 TAACATTTAGTCCTCAAAGTGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAGAAGG-TGTCTTTTTCTTTT-AAAGCCCACACGAGTTGGTGG
* * * * *
43020 CACCTTTTAGTCCCCAAAGAGCAAGGTGTCTTTTCCTTTTTAAAGCCCCCCCAAGTTGGTGG
1 CACCTTTTAGTCCTCAAAGAG-AAGGTGTCTTTTTC-TTTTAAAGCCCACACGAGTTGGTGG
*
43082 CACTTTTTAGTCC
1 CACCTTTTAGTCC
43095 CCTCCATTTA
Statistics
Matches: 371, Mismatches: 65, Indels: 47
0.77 0.13 0.10
Matches are distributed among these distances:
59 4 0.01
60 15 0.04
61 12 0.03
62 122 0.33
63 51 0.14
64 5 0.01
65 9 0.02
66 97 0.26
67 50 0.13
68 6 0.02
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (60 bp):
CACCTTTTAGTCCTCAAAGAGAAGGTGTCTTTTTCTTTTAAAGCCCACACGAGTTGGTGG
Found at i:43095 original size:62 final size:62
Alignment explanation
Indices: 42728--43096 Score: 280
Period size: 66 Copynumber: 5.7 Consensus size: 62
42718 AAAGTCATTT
* * * * * * *
42728 TTTTCCTTTTAAAGGCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGAACGCTTTCC
1 TTTTCCTTTTAAAGCCCACACGAGTTGGTGGAACCTTTTAGTCCCCAAAGAG--CAAGGATGT-C
* * * ** * * *
42793 TTTTTCTTTCTCAAAGCTCACACGAGTTAGTGGAACCTTTTAGTCCTAAAAAAGTAG-AACGCTT
1 TTTTCCTTT-T-AAAGCCCACACGAGTTGGTGGAACCTTTTAGTCC--CCAAAG-AGCAAGGATG
42857 TC
61 TC
* *
42859 TTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGAACCTTTTAGTCCTCAAATAG-AAGGATGCTT
1 --TTTTCCTTTTAAAGCCCACACGAGTTGGTGGAACCTTTTAGTCCCCAAAGAGCAAGGATG---
42923 TC
61 TC
* * * * *
42925 TTTTTTCCTTTTAAAGCCCACACGAGTTGGTGGTAA-CATTTAGTCCTCAAAGTGC-AGGACGCC
1 --TTTTCCTTTTAAAGCCCACACGAGTTGGTGG-AACCTTTTAGTCCCCAAAGAGCAAGGATGTC
* *
42988 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAAGG-TGTC
1 TTTTCCTTTT-AAAGCCCACACGAGTTGGTGGAACCTTTTAGTCCCCAAAGAGCAAGGATGTC
* * * * *
43050 TTTTCCTTTTTAAAGCCCCCCCAAGTTGGTGGCACTTTTTAGTCCCC
1 TTTTCC-TTTTAAAGCCCACACGAGTTGGTGGAACCTTTTAGTCCCC
43097 TCCATTTAAT
Statistics
Matches: 255, Mismatches: 33, Indels: 35
0.79 0.10 0.11
Matches are distributed among these distances:
61 10 0.04
62 76 0.30
63 14 0.05
64 3 0.01
65 8 0.03
66 89 0.35
67 41 0.16
68 8 0.03
69 4 0.02
70 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (62 bp):
TTTTCCTTTTAAAGCCCACACGAGTTGGTGGAACCTTTTAGTCCCCAAAGAGCAAGGATGTC
Found at i:43251 original size:122 final size:123
Alignment explanation
Indices: 43021--43252 Score: 297
Period size: 122 Copynumber: 1.9 Consensus size: 123
43011 AGTTGGTGGC
* * * *
43021 ACCTTTTAGTCCCCAAAGAGCAAGGTGTCTTTTCCTTTTTAAAGCCCCCCCAAGTTGGTGGCACT
1 ACCTTTTAGTCCCCAAAGAGCAAGGTGACTTTTCCTTTTTAAAGCCCACCCAAGCTAGTGGCACT
* * * * **
43086 TTTTAGTCCCCTCCATTTAATCTTCAAAGAGCAGGACGTCTTTTTCTGAGTTAGTGAT
66 TTTTAATCCCCACCATTTAATCCTCAAAGAGCAAGACACCTTTTTCTGAGTTAGTGAT
* *
43144 ACCTTTTAGTCCCCAAAGAGCAGGGTGACTTTTCC-TTTTAAAGCCTACCCAAGCTAGTGGCACT
1 ACCTTTTAGTCCCCAAAGAGCAAGGTGACTTTTCCTTTTTAAAGCCCACCCAAGCTAGTGGCACT
* * * *
43208 TTTTAATTCCCACC-TTTGAGTCCTCAAAGAGTAAGATACCTTTTT
66 TTTTAATCCCCACCATTT-AATCCTCAAAGAGCAAGACACCTTTTT
43253 TTTCAAAACC
Statistics
Matches: 92, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
121 3 0.03
122 56 0.61
123 33 0.36
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (123 bp):
ACCTTTTAGTCCCCAAAGAGCAAGGTGACTTTTCCTTTTTAAAGCCCACCCAAGCTAGTGGCACT
TTTTAATCCCCACCATTTAATCCTCAAAGAGCAAGACACCTTTTTCTGAGTTAGTGAT
Found at i:46449 original size:13 final size:13
Alignment explanation
Indices: 46431--46470 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
46421 ACATTATGCT
46431 TTGTATCGATACA
1 TTGTATCGATACA
46444 TTGTATCGATACA
1 TTGTATCGATACA
46457 TTGTATCGATACA
1 TTGTATCGATACA
46470 T
1 T
46471 GTTCATTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:46500 original size:20 final size:19
Alignment explanation
Indices: 46454--46510 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
46444 TTGTATCGAT
*
46454 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
46473 TCATTGTATCGATATATGG
1 ACATTGTATCGATACATGG
*
46492 ACAATTGTATTGATACATG
1 AC-ATTGTATCGATACATG
46511 AAACTAGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.39
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:46582 original size:33 final size:33
Alignment explanation
Indices: 46540--46604 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
46530 TACCACTGTT
* * *
46540 TGTATCGATATATGGT-ACATTGTATTGATACAA
1 TGTATCGATACATGATGA-ATTGTATCGATACAA
46573 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGATGAATTGTATCGATACA
46605 TTGCTTGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (33 bp):
TGTATCGATACATGATGAATTGTATCGATACAA
Found at i:51811 original size:28 final size:28
Alignment explanation
Indices: 51730--51811 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
51720 TTTTGGAGAT
*
51730 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
51758 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
51786 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
51812 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:51917 original size:105 final size:104
Alignment explanation
Indices: 51789--52133 Score: 272
Period size: 105 Copynumber: 3.3 Consensus size: 104
51779 CCGATGAAAT
* * *
51789 AACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAATTGGAG
1 AACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAG
*
51854 TATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAA
66 TATCCCCGATTAAAGGAGAAATTGGTGTTCTGAAAATAA
* * * * * *
51893 AACCGGGGTTGGAGTATCCCCGATTATGAAAAATCGATA-TTTTGAAAATAAAGTCGGGGTTGGA
1 AA-CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGA
* * * * * ** *
51957 GTATCCCCTCAGAAATAACGG-G--GTTGGAGTATCCCCGATGAT-T
65 GTAT-CCC-C-G-ATTAAAGGAGAAATTGGTGT-T--CTGAAAATAA
* *
52000 AACGGGGTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTTTGGAAATAAAATCGGAGTT
1 AACGGGGTTGGAGTATCCCCGATTGTGAA-AAATT-G-G-TATTTTTGGAAATAAAATCGGAGTT
* ** * *
52065 GGAGTATCCCCGATTATA-GA-AAATTAATGTTTTGAAAGTAA
62 GGAGTATCCCCGATTAAAGGAGAAATTGGTGTTCTGAAAATAA
* * *
52106 AATCGGAGTTGGAATATCCTCGATTGTG
1 AA-CGGGGTTGGAGTATCCCCGATTGTG
52134 GAGAATTGAG
Statistics
Matches: 180, Mismatches: 43, Indels: 33
0.70 0.17 0.13
Matches are distributed among these distances:
104 27 0.15
105 43 0.24
106 30 0.17
107 33 0.18
108 16 0.09
109 1 0.01
110 4 0.02
111 26 0.14
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (104 bp):
AACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAG
TATCCCCGATTAAAGGAGAAATTGGTGTTCTGAAAATAA
Found at i:51954 original size:51 final size:51
Alignment explanation
Indices: 51794--51964 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
51784 GAAATAACGA
* * *
51794 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
51846 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
51899 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
51950 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
51965 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:52010 original size:27 final size:28
Alignment explanation
Indices: 51947--52022 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
51937 AAAATAAAGT
*
51947 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
51975 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
52002 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
52023 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:54507 original size:13 final size:13
Alignment explanation
Indices: 54489--54514 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54479 ACAAAGATCC
54489 ATGTATCGATACA
1 ATGTATCGATACA
54502 ATGTATCGATACA
1 ATGTATCGATACA
54515 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:54510 original size:33 final size:33
Alignment explanation
Indices: 54468--54534 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
54458 AAAATTTCCA
***
54468 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
54501 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
54534 A
1 A
54535 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:54578 original size:19 final size:18
Alignment explanation
Indices: 54554--54621 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
54544 CAGTAGCTAA
54554 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
54573 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
54588 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
54605 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
54622 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:54594 original size:13 final size:13
Alignment explanation
Indices: 54576--54600 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54566 ACAATACTTA
54576 TGTATCGATACAT
1 TGTATCGATACAT
54589 TGTATCGATACA
1 TGTATCGATACA
54601 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:54598 original size:32 final size:32
Alignment explanation
Indices: 54557--54619 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
54547 TAGCTAATTA
*
54557 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
54589 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
54620 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:54701 original size:21 final size:21
Alignment explanation
Indices: 54677--54733 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
54667 CATTTGTAGG
54677 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
54698 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
54719 ATGTATCGATACATT
1 ATGTATCGATACATT
54734 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:55432 original size:55 final size:55
Alignment explanation
Indices: 55348--56135 Score: 1179
Period size: 55 Copynumber: 14.3 Consensus size: 55
55338 ATAAATTGTA
* * * * * *
55348 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
55403 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
55458 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
55513 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
55568 TCCTGTTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
55623 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
55678 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
55733 TCCTGCTCTTTGAGGACTGGACAA--TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
55788 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
55843 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
55898 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
55953 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
56008 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
56063 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
56118 TCCTGCTCTTTGGGGACT
1 TCCTGCTCTTTGAGGACT
56136 AAAAAGCGGA
Statistics
Matches: 689, Mismatches: 29, Indels: 30
0.92 0.04 0.04
Matches are distributed among these distances:
53 2 0.00
54 18 0.03
55 651 0.94
56 16 0.02
57 2 0.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:57121 original size:1 final size:1
Alignment explanation
Indices: 57117--57169 Score: 70
Period size: 1 Copynumber: 53.0 Consensus size: 1
57107 CTTTTCTCTC
* * * *
57117 TTTTTCTTTGTTTTGTTTTTTTGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
57170 GAAGAGAAGG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.02, G:0.06, T:0.92
Consensus pattern (1 bp):
T
Done.