Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001184.1 Hibiscus syriacus cultivar Beakdansim tig00002351_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 106578
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Found at i:491 original size:20 final size:20
Alignment explanation
Indices: 466--695 Score: 238
Period size: 20 Copynumber: 11.4 Consensus size: 20
456 AAAAATCGCA
466 TGCGATTTACGGATACGCGT
1 TGCGATTTACGGATACGCGT
486 TGCGATTTTAC-GAT-CGTCGT
1 TGCGA-TTTACGGATACG-CGT
*
506 TGCGATTTACGGATACGCAT
1 TGCGATTTACGGATACGCGT
* * *
526 TGCGATTTACGTATTCTCGT
1 TGCGATTTACGGATACGCGT
*
546 TGCGATTTACAGATACGCGT
1 TGCGATTTACGGATACGCGT
* * * *
566 TGCGATTTATGTATTCTCGT
1 TGCGATTTACGGATACGCGT
586 TGCGATTTACGGATACGCGT
1 TGCGATTTACGGATACGCGT
* *
606 TGCGATTTTACGTAT-TGTCGT
1 TGCGA-TTTACGGATACG-CGT
627 TGCGATTTACGGATACGCGT
1 TGCGATTTACGGATACGCGT
*
647 TGCGATTTTACGGATA-TCGT
1 TGCGA-TTTACGGATACGCGT
*
667 TGCGATAGTTA-GAAT-CGCGT
1 TGCGAT--TTACGGATACGCGT
687 TGCGATTTA
1 TGCGATTTA
696 TATGTTCGCG
Statistics
Matches: 174, Mismatches: 25, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
18 3 0.02
19 8 0.05
20 126 0.72
21 37 0.21
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
TGCGATTTACGGATACGCGT
Found at i:521 original size:40 final size:41
Alignment explanation
Indices: 466--732 Score: 315
Period size: 40 Copynumber: 6.7 Consensus size: 41
456 AAAAATCGCA
466 TGCGATTTACGGATACGCGTTGCGATTTTACG-ATCGTCGT
1 TGCGATTTACGGATACGCGTTGCGATTTTACGTATCGTCGT
*
506 TGCGATTTACGGATACGCATTGCGA-TTTACGTATTC-TCGT
1 TGCGATTTACGGATACGCGTTGCGATTTTACGTA-TCGTCGT
* *
546 TGCGATTTACAGATACGCGTTGCGA-TTTATGTATTC-TCGT
1 TGCGATTTACGGATACGCGTTGCGATTTTACGTA-TCGTCGT
*
586 TGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGT
1 TGCGATTTACGGATACGCGTTGCGATTTTACGTATCGTCGT
* *
627 TGCGATTTACGGATACGCGTTGCGATTTTACGGAT-ATCGT
1 TGCGATTTACGGATACGCGTTGCGATTTTACGTATCGTCGT
* *
667 TGCGATAGTTA-GAAT-CGCGTTGCGATTTATATGT-TCG-CGT
1 TGCGAT--TTACGGATACGCGTTGCGATTT-TACGTATCGTCGT
*
707 TGCGATTTTC--ATATCGCGTTGCGATT
1 TGCGATTTACGGATA-CGCGTTGCGATT
733 CTGGAAAATC
Statistics
Matches: 202, Mismatches: 14, Indels: 23
0.85 0.06 0.10
Matches are distributed among these distances:
37 2 0.01
38 2 0.01
39 18 0.09
40 124 0.61
41 53 0.26
42 3 0.01
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (41 bp):
TGCGATTTACGGATACGCGTTGCGATTTTACGTATCGTCGT
Found at i:567 original size:60 final size:60
Alignment explanation
Indices: 462--695 Score: 264
Period size: 60 Copynumber: 3.9 Consensus size: 60
452 CTTTAAAAAT
462 CGCA-TGCGATTTACGGATACGCGTTGCGATTTTACGATCGTCGTTGCGATTTACGGATA
1 CGCATTGCGATTTACGGATACGCGTTGCGATTTTACGATCGTCGTTGCGATTTACGGATA
* * * * * *
521 CGCATTGCGATTTACGTATTCTCGTTGCGA-TTTACAGATACG-CGTTGCGATTTATGTATT
1 CGCATTGCGATTTACGGATACGCGTTGCGATTTTAC-GAT-CGTCGTTGCGATTTACGGATA
* * *
581 CTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATA
1 CGCATTGCGATTTACGGATACGCGTTGCGATTTTACG-ATCGTCGTTGCGATTTACGGATA
* * *
642 CGCGTTGCGATTTTACGGATA-TCGTTGCGATAGTTA-GAATCG-CGTTGCGATTTA
1 CGCATTGCGA-TTTACGGATACGCGTTGCGAT-TTTACG-ATCGTCGTTGCGATTTA
696 TATGTTCGCG
Statistics
Matches: 147, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
59 9 0.06
60 79 0.54
61 46 0.31
62 13 0.09
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCATTGCGATTTACGGATACGCGTTGCGATTTTACGATCGTCGTTGCGATTTACGGATA
Found at i:704 original size:20 final size:19
Alignment explanation
Indices: 680--732 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
670 GATAGTTAGA
680 ATCGCGTTGCGATTTAT-AT
1 ATCGCGTTGCGATTT-TCAT
*
699 GTTCGCGTTGCGATTTTCAT
1 -ATCGCGTTGCGATTTTCAT
719 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
733 CTGGAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.42
Consensus pattern (19 bp):
ATCGCGTTGCGATTTTCAT
Found at i:832 original size:20 final size:19
Alignment explanation
Indices: 782--834 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
772 ATTCTTCATA
782 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* ***
801 AACTATTTGCGATTCTGGAG
1 ATCGCGTTGCGATTCTGG-G
821 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
835 TTATTTCGCA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.17, C:0.19, G:0.30, T:0.34
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:5151 original size:15 final size:15
Alignment explanation
Indices: 5131--5169 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
5121 TAGTTGTGGA
5131 GATGGAGCACTAGTT
1 GATGGAGCACTAGTT
5146 GATGGAGCACTAGTT
1 GATGGAGCACTAGTT
5161 GATGGAGCA
1 GATGGAGCA
5170 GGTGCAAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.28, C:0.13, G:0.36, T:0.23
Consensus pattern (15 bp):
GATGGAGCACTAGTT
Found at i:9328 original size:3 final size:3
Alignment explanation
Indices: 9314--9351 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
9304 AGAGATATTC
*
9314 TCT TCA TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
9352 ATGTACGAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:10734 original size:31 final size:31
Alignment explanation
Indices: 10696--10851 Score: 269
Period size: 31 Copynumber: 5.0 Consensus size: 31
10686 AGGGTCGAGG
*
10696 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
10727 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
10758 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
10789 GTTTAACTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
10820 GTTTACCTAGGTTCTTCGGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
10851 G
1 G
10852 GTCCTTCGGG
Statistics
Matches: 120, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 119 0.99
32 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:14008 original size:16 final size:16
Alignment explanation
Indices: 13987--14017 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
13977 ACAAGCTAAC
13987 AAACTATTCTAGAACA
1 AAACTATTCTAGAACA
14003 AAACTATTCTAGAAC
1 AAACTATTCTAGAAC
14018 TCACAACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.26
Consensus pattern (16 bp):
AAACTATTCTAGAACA
Found at i:16723 original size:3 final size:3
Alignment explanation
Indices: 16715--16739 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16705 GAAGGCAGAG
16715 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
16740 AGCAAACGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:17196 original size:33 final size:33
Alignment explanation
Indices: 17159--17239 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
17149 CATTCCCATA
*
17159 TTCATCCTCATTCCCGGATTCATGCCCACGTTG
1 TTCATCCCCATTCCCGGATTCATGCCCACGTTG
* *
17192 TTCATCCCCATTCCAGGATTCATGCCCATGTTG
1 TTCATCCCCATTCCCGGATTCATGCCCACGTTG
17225 TTCATCCCCATTCCC
1 TTCATCCCCATTCCC
17240 ATGCCCATAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.16, C:0.38, G:0.12, T:0.33
Consensus pattern (33 bp):
TTCATCCCCATTCCCGGATTCATGCCCACGTTG
Found at i:17995 original size:33 final size:33
Alignment explanation
Indices: 17977--18089 Score: 192
Period size: 33 Copynumber: 3.4 Consensus size: 33
17967 ATGGTTTGGG
17977 CATATGGATTAGCATTTGGCTGTGCAGGTTGAC
1 CATATGGATTAGCATTTGGCTGTGCAGGTTGAC
18010 CATATGGATTAGCATTTGGCTGTGCAGGTTGAC
1 CATATGGATTAGCATTTGGCTGTGCAGGTTGAC
*
18043 CATATGGATTAGCATTTGGCTGTG-AGTGTTGGC
1 CATATGGATTAGCATTTGGCTGTGCAG-GTTGAC
*
18076 CATAGGGATTAGCA
1 CATATGGATTAGCA
18090 CCGGGTTGTG
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
32 2 0.03
33 75 0.97
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.33
Consensus pattern (33 bp):
CATATGGATTAGCATTTGGCTGTGCAGGTTGAC
Found at i:26053 original size:34 final size:37
Alignment explanation
Indices: 26009--26110 Score: 158
Period size: 34 Copynumber: 2.8 Consensus size: 37
25999 TTTCGTCCTA
26009 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
26044 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
*
26079 GCTATGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
26111 GTTCTACTAA
Statistics
Matches: 61, Mismatches: 1, Indels: 7
0.88 0.01 0.10
Matches are distributed among these distances:
33 1 0.02
34 29 0.48
35 3 0.05
37 27 0.44
38 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
Found at i:26134 original size:37 final size:37
Alignment explanation
Indices: 26006--26144 Score: 169
Period size: 37 Copynumber: 3.8 Consensus size: 37
25996 ATTTTTCGTC
26006 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
26043 -T--TAGGATTCAAACTCCTAAAAATAGGATA-ACATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGA-ATT
* * * *
26077 TTGCTATGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
26114 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
26145 CCACAAGCAC
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
33 1 0.01
34 31 0.35
35 1 0.01
36 1 0.01
37 54 0.61
38 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:26539 original size:18 final size:17
Alignment explanation
Indices: 26500--26542 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
26490 ATTATATGGA
26500 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
26516 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
26534 TATTATTAT
1 TATTATTAT
26543 GTATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:27041 original size:2 final size:2
Alignment explanation
Indices: 27034--27063 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
27024 TAATACTTTG
*
27034 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27064 TTATTTTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:30806 original size:9 final size:8
Alignment explanation
Indices: 30781--30839 Score: 51
Period size: 7 Copynumber: 8.1 Consensus size: 8
30771 AGATCCAATC
30781 AAGAA-AA
1 AAGAAGAA
*
30788 AAAAAGAA
1 AAGAAGAA
30796 AAGAAGCAA
1 AAGAAG-AA
30805 AAGAAG-A
1 AAGAAGAA
30812 AA-AA-AA
1 AAGAAGAA
30818 AAGAA-AA
1 AAGAAGAA
30825 AAGAA-AA
1 AAGAAGAA
30832 AAG-AGAA
1 AAGAAGAA
30839 A
1 A
30840 CAAAAGGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
6 6 0.13
7 24 0.53
8 7 0.16
9 8 0.18
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (8 bp):
AAGAAGAA
Found at i:30812 original size:27 final size:24
Alignment explanation
Indices: 30781--30878 Score: 106
Period size: 27 Copynumber: 3.8 Consensus size: 24
30771 AGATCCAATC
30781 AAGAAAAAAAAAGAAAAGAAGCAAAA
1 AAGAAAAAAAAAGAAAA-AAG-AAAA
30807 GAAGAAAAAAAAAGAAAAAAGAAAA
1 -AAGAAAAAAAAAGAAAAAAGAAAA
*
30832 AAGAGAAACAAAAGGAAAAAAGAAAGA
1 AAGA-AAA-AAAAAGAAAAAAGAAA-A
*
30859 ACAAAAATAAAAAAGAAAAA
1 A-AGAAA-AAAAAAGAAAAA
30879 GGGACAAAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
24 4 0.06
25 7 0.11
26 18 0.29
27 31 0.49
28 3 0.05
ACGTcount: A:0.81, C:0.03, G:0.15, T:0.01
Consensus pattern (24 bp):
AAGAAAAAAAAAGAAAAAAGAAAA
Found at i:30814 original size:26 final size:24
Alignment explanation
Indices: 30787--30877 Score: 58
Period size: 25 Copynumber: 3.5 Consensus size: 24
30777 AATCAAGAAA
*
30787 AAAAAAGAAAAGAAGCAAAAGAAGAAA
1 AAAAAAGAAAAGAAG-AAAA-AA-AAG
*
30814 AAAAAAGAAAA-AAGAAAAAAGAG
1 AAAAAAGAAAAGAAGAAAAAAAAG
* *
30837 AAACAAAAGGAAAAAAGAAAGAACAAAAAT
1 -AA-AAAA-G--AAAAG-AAGAAAAAAAAG
30867 AAAAAAGAAAA
1 AAAAAAGAAAA
30878 AGGGACAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
23 1 0.02
24 4 0.08
25 12 0.23
26 4 0.08
27 12 0.23
28 8 0.15
29 2 0.04
30 9 0.17
ACGTcount: A:0.80, C:0.03, G:0.15, T:0.01
Consensus pattern (24 bp):
AAAAAAGAAAAGAAGAAAAAAAAG
Found at i:30876 original size:20 final size:20
Alignment explanation
Indices: 30787--30876 Score: 89
Period size: 20 Copynumber: 4.5 Consensus size: 20
30777 AATCAAGAAA
30787 AAAAAAGAAAAGAAGCAAAAGAAG
1 AAAAAAG-AAAGAA-C-AAA-AAG
30811 AAAAAA-AAAG-A-AAAAAG
1 AAAAAAGAAAGAACAAAAAG
* *
30828 AAAAAAGAGA-AACAAAAGG
1 AAAAAAGAAAGAACAAAAAG
*
30847 AAAAAAGAAAGAACAAAAAT
1 AAAAAAGAAAGAACAAAAAG
30867 AAAAAAGAAA
1 AAAAAAGAAA
30877 AAGGGACAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
17 9 0.16
18 6 0.11
19 14 0.25
20 17 0.30
21 1 0.02
22 4 0.07
24 6 0.11
ACGTcount: A:0.80, C:0.03, G:0.16, T:0.01
Consensus pattern (20 bp):
AAAAAAGAAAGAACAAAAAG
Found at i:31512 original size:22 final size:22
Alignment explanation
Indices: 31484--31527 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
31474 AGCTACCCCA
31484 TCAAACC-TTTGAGCATCAAATG
1 TCAAACCATTT-AGCATCAAATG
31506 TCAAACCATTTAGCATCAAATG
1 TCAAACCATTTAGCATCAAATG
31528 AACAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAAACCATTTAGCATCAAATG
Found at i:31978 original size:18 final size:18
Alignment explanation
Indices: 31955--31990 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
31945 TCAACATCAA
*
31955 ATATTGGGGCATTTTTGG
1 ATATTGGGGCATCTTTGG
31973 ATATTGGGGCATCTTTGG
1 ATATTGGGGCATCTTTGG
31991 GGATTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.08, G:0.33, T:0.42
Consensus pattern (18 bp):
ATATTGGGGCATCTTTGG
Found at i:32514 original size:36 final size:36
Alignment explanation
Indices: 32464--32533 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
32454 ACTAGAAGAG
*
32464 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAA
*
32500 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA
32534 TAAACATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:32556 original size:65 final size:64
Alignment explanation
Indices: 32484--32943 Score: 242
Period size: 65 Copynumber: 6.8 Consensus size: 64
32474 CTTGAGACAG
32484 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA-AAACATTGAAAACA
* * * * * *
32549 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCTCT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAA--------C-AT
*
32614 TG-AGACA
57 TGAAAACA
* * * * * *
32621 GTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
1 -TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAACA-TTGAAAAC
*
32686 G
64 A
* * * * * * ** *
32687 TTTTCTTTGAAACAAAATTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AA-------AAC-AT
*
32752 TG-AGACA
57 TGAAAACA
* * ** * * * ***
32759 GTTTCTCTTGAAACAAATTTCGTCTATCTTGATACAGTTTCCCTTGAAACAAAATCTTTGAATTT
1 -TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAA-CATTGAAAAC
32824 A
64 A
* * * * *
32825 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAATTACTCTTGAAACACAAA-ATCTTCAAAT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA-AAACA--TTGAAA-
**
32889 TTA
62 ACA
* * * *
32892 TTTCCCTTAAAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAA
1 TTTCCCTTGAAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
32944 CAGATATCTT
Statistics
Matches: 301, Mismatches: 65, Indels: 56
0.71 0.15 0.13
Matches are distributed among these distances:
64 3 0.01
65 131 0.44
66 14 0.05
67 17 0.06
68 31 0.10
72 9 0.03
73 96 0.32
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.38
Consensus pattern (64 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAACATTGAAAACA
Found at i:32596 original size:36 final size:36
Alignment explanation
Indices: 32549--32811 Score: 263
Period size: 36 Copynumber: 7.4 Consensus size: 36
32539 ATTGAAAACA
* *
32549 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
*
32585 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
* *
32622 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * *
32658 TTTCCCTTGAAACAAA------ATAT-TTGA-ATATG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACA-G
* * * *
32687 TTTTCTTTGAAACAAAATTCGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
** * * *
32723 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
* * *
32760 TTTCTCTTGAAACAAATTTCGTCTATCTTGATACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
32796 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
32812 ATCTTTGAAT
Statistics
Matches: 188, Mismatches: 28, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
28 2 0.01
29 19 0.10
30 2 0.01
35 1 0.01
36 99 0.53
37 65 0.35
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:32668 original size:73 final size:73
Alignment explanation
Indices: 32549--32818 Score: 297
Period size: 73 Copynumber: 3.8 Consensus size: 73
32539 ATTGAAAACA
* *
32549 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCTCT
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCT
32614 TGAGACAG
66 TGAGACAG
* * *
32622 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAA-------TAT-T
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCT
*
32679 TGA-ATATG
66 TGAGACA-G
* * * * ** * * *
32687 TTTTCTTTGAAACAAAATTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCT
32752 TGAGACAG
66 TGAGACAG
* * *
32760 TTTCTCTTGAAACAAATTTCGTCTATCTTGATACAGTTTCCCTTGAAACAAAATCTTTG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAAT-TTTG
32819 AATTTATTTC
Statistics
Matches: 157, Mismatches: 29, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
64 2 0.01
65 47 0.30
66 2 0.01
72 2 0.01
73 98 0.62
74 6 0.04
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (73 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCT
TGAGACAG
Found at i:32697 original size:102 final size:102
Alignment explanation
Indices: 32591--32775 Score: 291
Period size: 102 Copynumber: 1.8 Consensus size: 102
32581 ATAGTTTCCC
* *
32591 TTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCCCTT-GAAATAAATTTTGTCTCTCTTGAGA
1 TTGAAACAAAA-TTCGTCTCCCTTGAGACAGTTTCCCTTGGAAATAAATTTTGTCTCTCTTGAGA
32655 CAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
65 CAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
** * *
32693 TTGAAACAAAATTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGAC
1 TTGAAACAAAATTCGTCTCCCTTGAGACAGTTTCCCTTGGAAATAAATTTTGTCTCTCTTGAGAC
*
32758 AGTTTCTCTTGAAACAAA
66 AGTTTCCCTTGAAACAAA
32776 TTTCGTCTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
101 23 0.31
102 52 0.69
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (102 bp):
TTGAAACAAAATTCGTCTCCCTTGAGACAGTTTCCCTTGGAAATAAATTTTGTCTCTCTTGAGAC
AGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCT
Found at i:32717 original size:138 final size:138
Alignment explanation
Indices: 32464--32874 Score: 536
Period size: 138 Copynumber: 3.0 Consensus size: 138
32454 ACTAGAAGAG
* *
32464 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* * * * * *
32529 AAACATAAACA-TTGAAAACATTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCCCTT
66 AAACA-AAATATTTGAATATATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTT
32593 GAAACAAAA
130 GAAACAAAA
*
32602 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* * * * **
32667 AAACAAAATATTTGAATATGTTTTCTTTGAAACAAAATTCGTCTCCCTTGAGACAGTTTCTTTTG
66 AAACAAAATATTTGAATATATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTG
* * *
32732 GAACTAAG
131 AAACAAAA
* * * *
32740 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGATACAGTTTCCCTTG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* * * * * * * *
32805 AAACAAAATCTTTGAATTTATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAATTACTCTTG
66 AAACAAAATATTTGAATATATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTG
32870 AAACA
131 AAACA
32875 CAAAATCTTC
Statistics
Matches: 235, Mismatches: 37, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
137 4 0.02
138 231 0.98
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.39
Consensus pattern (138 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
AAACAAAATATTTGAATATATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTG
AAACAAAA
Found at i:33778 original size:105 final size:107
Alignment explanation
Indices: 33547--34003 Score: 604
Period size: 105 Copynumber: 4.3 Consensus size: 107
33537 GCCATCCGCG
* * *
33547 ATTTCAACTCCACAACGGAGGATATCGTGGCAC-TCGAGACAACACAAGTTCAACTTCACAACGA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTTCGAGACAACACAAGTTCAACTTCACGACGA
* * **
33611 AGGGACGGCTGGTTGTCAACAAACAACTTCTTAATTTCAGAGCCA
63 AGGGACCGCTGCTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
33656 ATTTCAACTTCACAACGAAGGATATTGGACTTC-AGACAACGCAAGTTCAACTTCACGACGAAGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCGAGACAACACAAGTTCAACTTCACGACGAAGG
*
33720 GACCGCTGCTTGTCAA-AAACAACTTCCCAATTTCAAAGCCA
66 GACCGCTGCTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * **
33761 ATATCAACTTCACAACGAAGGATATTGGAC-TCCAGACAATGCAAGTTCAACTTCACGACGAAGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCGAGACAACACAAGTTCAACTTCACGACGAAGG
*
33825 GACCGCTGCTTGTCAAC-AACAACTTCCCAATCTCAGAGCCA
66 GACCGCTGCTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * *
33866 ATTTCAACTTCACGACGAAGGATATTGGAC-TCGAGACAACACAAGTTCAACTTC-GGAACAAAG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCGAGACAACACAAGTTCAACTTCACG-ACGAAG
* * * ** *
33929 GGACGGCTGATTGTCAACAAACAATTTCCCGGTTCCAGAGCCA
65 GGACCGCTGCTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
33972 ATTTCAACTTCACGACGGAGGATATTGGACTT
1 ATTTCAACTTCACAACGAAGGATATTGGACTT
34004 GGAACAATTC
Statistics
Matches: 314, Mismatches: 28, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
104 3 0.01
105 189 0.60
106 93 0.30
107 6 0.02
109 23 0.07
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.22
Consensus pattern (107 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTTCGAGACAACACAAGTTCAACTTCACGACGAAGG
GACCGCTGCTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
Found at i:33886 original size:210 final size:212
Alignment explanation
Indices: 33550--34002 Score: 617
Period size: 211 Copynumber: 2.1 Consensus size: 212
33540 ATCCGCGATT
* *
33550 TCAACTCCACAACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 TCAACTTCACAACGGAGGATAT--TGG-ACTCCAGACAACACAAGTTCAACTTCACAACGAAGGG
* * ** *
33615 ACGGCTGGTTGTCAACAAACAACTTCTTAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
63 ACCGCTGCTTGTCAACAAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATA
* * *
33680 TTGGACTTC-AGACAACGCAAGTTCAACTTCACG-ACGAAGGGACCGCTGCTTGTCAA-AAACAA
128 TTGGAC-TCGAGACAACACAAGTTCAACTTC-CGAACAAAGGGACCGCTGATTGTCAACAAACAA
*
33742 CTTCCCAATTTCAAAGCCAATA
191 CTTCCCAATTCCAAAGCCAATA
* ** *
33764 TCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACC
1 TCAACTTCACAACGGAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACC
*
33829 GCTGCTTGTCAAC-AACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACGACGAAGGATATTG
66 GCTGCTTGTCAACAAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
* * *
33893 GACTCGAGACAACACAAGTTCAACTTCGGAACAAAGGGACGGCTGATTGTCAACAAACAATTTCC
131 GACTCGAGACAACACAAGTTCAACTTCCGAACAAAGGGACCGCTGATTGTCAACAAACAACTTCC
** * *
33958 CGGTTCCAGAGCCAATT
196 CAATTCCAAAGCCAATA
*
33975 TCAACTTCACGACGGAGGATATTGGACT
1 TCAACTTCACAACGGAGGATATTGGACT
34003 TGGAACAATT
Statistics
Matches: 211, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
209 3 0.01
210 90 0.43
211 95 0.45
212 3 0.01
214 20 0.09
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (212 bp):
TCAACTTCACAACGGAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACC
GCTGCTTGTCAACAAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
GACTCGAGACAACACAAGTTCAACTTCCGAACAAAGGGACCGCTGATTGTCAACAAACAACTTCC
CAATTCCAAAGCCAATA
Found at i:34594 original size:34 final size:37
Alignment explanation
Indices: 34550--34651 Score: 167
Period size: 34 Copynumber: 2.8 Consensus size: 37
34540 TTTCATCCTA
34550 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
34585 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
34620 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
34652 GTTCTACTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
33 1 0.02
34 29 0.47
35 3 0.05
37 28 0.45
38 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
Found at i:34635 original size:37 final size:35
Alignment explanation
Indices: 34550--34685 Score: 168
Period size: 37 Copynumber: 3.8 Consensus size: 35
34540 TTTCATCCTA
34550 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
34585 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
*
34620 GCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCT
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGAATT-T
* * * *
34657 ACTAAGATTTAAATTCCTAAAGATAGGAT
1 -CTAGGATTCAAACTCCTAAAAATAGGAT
34686 CCACAAGCAC
Statistics
Matches: 89, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
33 1 0.01
34 29 0.33
35 3 0.03
36 2 0.02
37 53 0.60
38 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (35 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:35426 original size:34 final size:37
Alignment explanation
Indices: 35382--35483 Score: 167
Period size: 34 Copynumber: 2.8 Consensus size: 37
35372 TTTCATCCTA
35382 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
35417 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
35452 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
35484 GTTCTACTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
33 1 0.02
34 29 0.47
35 3 0.05
37 28 0.45
38 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
Found at i:35467 original size:37 final size:35
Alignment explanation
Indices: 35382--35517 Score: 168
Period size: 37 Copynumber: 3.8 Consensus size: 35
35372 TTTCATCCTA
35382 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
35417 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
*
35452 GCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCT
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGAATT-T
* * * *
35489 ACTAAGATTTAAATTCCTAAAGATAGGAT
1 -CTAGGATTCAAACTCCTAAAAATAGGAT
35518 CCACAAGCAC
Statistics
Matches: 89, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
33 1 0.01
34 29 0.33
35 3 0.03
36 2 0.02
37 53 0.60
38 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (35 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:35764 original size:832 final size:832
Alignment explanation
Indices: 34161--35830 Score: 3340
Period size: 832 Copynumber: 2.0 Consensus size: 832
34151 TTCAAGTCGA
34161 GAAGAGGACCTGGGTTAGCCGTGCCTTAGTGACAAACAACCATTTTCAAACAGCATAGCTTAAGT
1 GAAGAGGACCTGGGTTAGCCGTGCCTTAGTGACAAACAACCATTTTCAAACAGCATAGCTTAAGT
34226 CAAGAAAAAGCTATATGTTAATGAAGATTTCTGAGTTCGATTCCGATCCAAGGTCTTTAAACCGA
66 CAAGAAAAAGCTATATGTTAATGAAGATTTCTGAGTTCGATTCCGATCCAAGGTCTTTAAACCGA
34291 GAAGAAGACCGAAGGGTAACGGGAATCCACGTGCTGATTCAAATTCCGAACGACGGCTTTAATTT
131 GAAGAAGACCGAAGGGTAACGGGAATCCACGTGCTGATTCAAATTCCGAACGACGGCTTTAATTT
34356 CATATCATTTCAAGATGAACTCGACTTCACGATGGAGGAGTCATCCGTAACTCAATTCGAGAGGG
196 CATATCATTTCAAGATGAACTCGACTTCACGATGGAGGAGTCATCCGTAACTCAATTCGAGAGGG
34421 AGTTATTGAAACATCAGAGTTAATTTTCAACTCCACTGAACGAAAAGTGTGTCTTTTAATCTTTG
261 AGTTATTGAAACATCAGAGTTAATTTTCAACTCCACTGAACGAAAAGTGTGTCTTTTAATCTTTG
34486 CCCTATCCCTGTTACACGACTATGGGCAAAGAGGGGCAGTTGTCAACACACATTTTTCATCCTAC
326 CCCTATCCCTGTTACACGACTATGGGCAAAGAGGGGCAGTTGTCAACACACATTTTTCATCCTAC
34551 TAGGATTCAAACTCCTAAAAATAGGATAGAATTTTAGGATTCAAACTCCTAAAAATAGGATAACA
391 TAGGATTCAAACTCCTAAAAATAGGATAGAATTTTAGGATTCAAACTCCTAAAAATAGGATAACA
34616 TTTTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCTACTAAGATTTAAATTCCTAAAGAT
456 TTTTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCTACTAAGATTTAAATTCCTAAAGAT
34681 AGGATCCACAAGCACTATAAATAGCCATTGTAACTCACCATTGTAAGAGGATTTACACACAAAAA
521 AGGATCCACAAGCACTATAAATAGCCATTGTAACTCACCATTGTAAGAGGATTTACACACAAAAA
34746 CATAGAGGAAAGCACGGAAAGATACAAAGGCAAAACTATTGTAAAGGATTCGAAAAGGAAATAAA
586 CATAGAGGAAAGCACGGAAAGATACAAAGGCAAAACTATTGTAAAGGATTCGAAAAGGAAATAAA
34811 AGGTAGCATTTTCTTTTTTCTTTCTTTTGCATATGCACGTTATTTTTCTTGAAATTTGGTTCGAA
651 AGGTAGCATTTTCTTTTTTCTTTCTTTTGCATATGCACGTTATTTTTCTTGAAATTTGGTTCGAA
34876 TAACCCAAAACGTAGGTTGCGCCGATGACCAAAACGGGTGGGGTTTCGAAGTTTCGAACCTAGAT
716 TAACCCAAAACGTAGGTTGCGCCGATGACCAAAACGGGTGGGGTTTCGAAGTTTCGAACCTAGAT
34941 CTACCCCGAGGCTTATTTTTAAAAACTGGTTTGATTTTCGGTTAAAGGAGGG
781 CTACCCCGAGGCTTATTTTTAAAAACTGGTTTGATTTTCGGTTAAAGGAGGG
34993 GAAGAGGACCTGGGTTAGCCGTGCCTTAGTGACAAACAACCATTTTCAAACAGCATAGCTTAAGT
1 GAAGAGGACCTGGGTTAGCCGTGCCTTAGTGACAAACAACCATTTTCAAACAGCATAGCTTAAGT
35058 CAAGAAAAAGCTATATGTTAATGAAGATTTCTGAGTTCGATTCCGATCCAAGGTCTTTAAACCGA
66 CAAGAAAAAGCTATATGTTAATGAAGATTTCTGAGTTCGATTCCGATCCAAGGTCTTTAAACCGA
35123 GAAGAAGACCGAAGGGTAACGGGAATCCACGTGCTGATTCAAATTCCGAACGACGGCTTTAATTT
131 GAAGAAGACCGAAGGGTAACGGGAATCCACGTGCTGATTCAAATTCCGAACGACGGCTTTAATTT
35188 CATATCATTTCAAGATGAACTCGACTTCACGATGGAGGAGTCATCCGTAACTCAATTCGAGAGGG
196 CATATCATTTCAAGATGAACTCGACTTCACGATGGAGGAGTCATCCGTAACTCAATTCGAGAGGG
35253 AGTTATTGAAACATCAGAGTTAATTTTCAACTCCACTGAACGAAAAGTGTGTCTTTTAATCTTTG
261 AGTTATTGAAACATCAGAGTTAATTTTCAACTCCACTGAACGAAAAGTGTGTCTTTTAATCTTTG
35318 CCCTATCCCTGTTACACGACTATGGGCAAAGAGGGGCAGTTGTCAACACACATTTTTCATCCTAC
326 CCCTATCCCTGTTACACGACTATGGGCAAAGAGGGGCAGTTGTCAACACACATTTTTCATCCTAC
35383 TAGGATTCAAACTCCTAAAAATAGGATAGAATTTTAGGATTCAAACTCCTAAAAATAGGATAACA
391 TAGGATTCAAACTCCTAAAAATAGGATAGAATTTTAGGATTCAAACTCCTAAAAATAGGATAACA
35448 TTTTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCTACTAAGATTTAAATTCCTAAAGAT
456 TTTTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCTACTAAGATTTAAATTCCTAAAGAT
35513 AGGATCCACAAGCACTATAAATAGCCATTGTAACTCACCATTGTAAGAGGATTTACACACAAAAA
521 AGGATCCACAAGCACTATAAATAGCCATTGTAACTCACCATTGTAAGAGGATTTACACACAAAAA
35578 CATAGAGGAAAGCACGGAAAGATACAAAGGCAAAACTATTGTAAAGGATTCGAAAAGGAAATAAA
586 CATAGAGGAAAGCACGGAAAGATACAAAGGCAAAACTATTGTAAAGGATTCGAAAAGGAAATAAA
35643 AGGTAGCATTTTCTTTTTTCTTTCTTTTGCATATGCACGTTATTTTTCTTGAAATTTGGTTCGAA
651 AGGTAGCATTTTCTTTTTTCTTTCTTTTGCATATGCACGTTATTTTTCTTGAAATTTGGTTCGAA
35708 TAACCCAAAACGTAGGTTGCGCCGATGACCAAAACGGGTGGGGTTTCGAAGTTTCGAACCTAGAT
716 TAACCCAAAACGTAGGTTGCGCCGATGACCAAAACGGGTGGGGTTTCGAAGTTTCGAACCTAGAT
35773 CTACCCCGAGGCTTATTTTTAAAAACTGGTTTGATTTTCGGTTAAAGGAGGG
781 CTACCCCGAGGCTTATTTTTAAAAACTGGTTTGATTTTCGGTTAAAGGAGGG
35825 GAAGAG
1 GAAGAG
35831 CTTTTTAAAA
Statistics
Matches: 838, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
832 838 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (832 bp):
GAAGAGGACCTGGGTTAGCCGTGCCTTAGTGACAAACAACCATTTTCAAACAGCATAGCTTAAGT
CAAGAAAAAGCTATATGTTAATGAAGATTTCTGAGTTCGATTCCGATCCAAGGTCTTTAAACCGA
GAAGAAGACCGAAGGGTAACGGGAATCCACGTGCTGATTCAAATTCCGAACGACGGCTTTAATTT
CATATCATTTCAAGATGAACTCGACTTCACGATGGAGGAGTCATCCGTAACTCAATTCGAGAGGG
AGTTATTGAAACATCAGAGTTAATTTTCAACTCCACTGAACGAAAAGTGTGTCTTTTAATCTTTG
CCCTATCCCTGTTACACGACTATGGGCAAAGAGGGGCAGTTGTCAACACACATTTTTCATCCTAC
TAGGATTCAAACTCCTAAAAATAGGATAGAATTTTAGGATTCAAACTCCTAAAAATAGGATAACA
TTTTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTCTACTAAGATTTAAATTCCTAAAGAT
AGGATCCACAAGCACTATAAATAGCCATTGTAACTCACCATTGTAAGAGGATTTACACACAAAAA
CATAGAGGAAAGCACGGAAAGATACAAAGGCAAAACTATTGTAAAGGATTCGAAAAGGAAATAAA
AGGTAGCATTTTCTTTTTTCTTTCTTTTGCATATGCACGTTATTTTTCTTGAAATTTGGTTCGAA
TAACCCAAAACGTAGGTTGCGCCGATGACCAAAACGGGTGGGGTTTCGAAGTTTCGAACCTAGAT
CTACCCCGAGGCTTATTTTTAAAAACTGGTTTGATTTTCGGTTAAAGGAGGG
Found at i:35912 original size:18 final size:17
Alignment explanation
Indices: 35873--35915 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
35863 ATTATATGGA
*
35873 TATT-TTATTTATTTAT
1 TATTATTATTCATTTAT
*
35889 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
35907 TATTATTAT
1 TATTATTAT
35916 ATGTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:46400 original size:17 final size:17
Alignment explanation
Indices: 46370--46403 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
46360 TGCCACTTCC
**
46370 CTTTTATTTTTTTATTA
1 CTTTTATTAATTTATTA
46387 CTTTTATTAATTTATTA
1 CTTTTATTAATTTATTA
46404 ATTTCCACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
CTTTTATTAATTTATTA
Found at i:47744 original size:42 final size:41
Alignment explanation
Indices: 47698--47777 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 41
47688 GTGAGTGGTA
*
47698 GTAGTATGGAGGGGGTGA-GGGAGATGGTGGTGGGGGAGATTT
1 GTAGTA-GGAGGGGG-GAGGGGAGATGGTGATGGGGGAGATTT
* *
47740 GTAGTAGTAGGGGGGAGGGGGAGATGGTGATGGTGGAG
1 GTAGTAGGAGGGGGGA-GGGGAGATGGTGATGGGGGAG
47778 GAGGGGAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 2 0.06
41 7 0.21
42 24 0.73
ACGTcount: A:0.20, C:0.00, G:0.59, T:0.21
Consensus pattern (41 bp):
GTAGTAGGAGGGGGGAGGGGAGATGGTGATGGGGGAGATTT
Found at i:47849 original size:24 final size:24
Alignment explanation
Indices: 47822--47898 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
47812 CTTCACGGGA
47822 GGTGGGGGTGATTTGTAGTAGTAT
1 GGTGGGGGTGATTTGTAGTAGTAT
* ** * * *
47846 GGTGGTGGTGGAGAATGAACT-G-GT
1 GGTGGGGGT-GA-TTTGTAGTAGTAT
47870 GGTGGGGGTGATTTGTAGTAGTAT
1 GGTGGGGGTGATTTGTAGTAGTAT
47894 GGTGG
1 GGTGG
47899 AGGAGGATAT
Statistics
Matches: 37, Mismatches: 12, Indels: 8
0.65 0.21 0.14
Matches are distributed among these distances:
22 4 0.11
23 3 0.08
24 23 0.62
25 3 0.08
26 4 0.11
ACGTcount: A:0.17, C:0.01, G:0.49, T:0.32
Consensus pattern (24 bp):
GGTGGGGGTGATTTGTAGTAGTAT
Found at i:47895 original size:48 final size:47
Alignment explanation
Indices: 47722--48870 Score: 509
Period size: 48 Copynumber: 23.8 Consensus size: 47
47712 GTGAGGGAGA
* * *
47722 TGGTGGTGGGGGAGATTTGTAGTAGTAGGGGGGAGGGGGAGA-TGGTGA-
1 TGGTGGTGGGGG-GATTTGTAGTAGTATGGTGGAGGTGGAGAGT-G-GAC
* * * * * ** **
47770 TGGTGGAGGAGGGGAGTTGTAGTGGTAT-GTAGGTGCTGGAGCCTTCAC
1 TGGTGGTGG-GGGGATTTGTAGTAGTATGGT-GGAGGTGGAGAGTGGAC
* * * * *
47818 GGGAGGTGGGGGTGATTTGTAGTAGTATGGTGGTGGTGGAGAATGAAC
1 TGGTGGTGGGGG-GATTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* * *
47866 TGGTGGTGGGGGTGATTTGTAGTAGTATGGTGGAGGAGGATATGTTGA-
1 TGGTGGTGGGGG-GATTTGTAGTAGTATGGTGGAGGTGGAGA-GTGGAC
* *
47914 TGGAGGTGGTGGGGACTTGTAGTAGTATGGGGGTGGAGGT-GATG-GT-GA-
1 TGGTGGTGG-GGGGATTTGTAGTAGTAT---GGTGGAGGTGGA-GAGTGGAC
* * * * * * * * * ** **
47962 TGGTGGAGGAGGAGAGTTGTAATGGTA-GATAGGTGCTGGGGCCTTTAC
1 TGGTGGTGG-GGGGATTTGTAGTAGTATGGT-GGAGGTGGAGAGTGGAC
* * * * *
48010 TGGAGGTGGGGGTGATTTGTAGTAGTATGGTGGTGGAGGGGAGTGAAC
1 TGGTGGTGGGGG-GATTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* * * * * *
48058 TGGTGG-GGGTGGAGACTTGTAGTAGTAGGGCGGCGGAGGGGAGTGGAC
1 TGGTGGTGGG-GG-GATTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* *
48106 TGGTGGTGGTGGAGACTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
1 TGGTGGTGG-GGGGATTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* * *
48154 TGGTGGTGGTGGAGATTTGTAATAGTATGGTGGAGGAGGAGA-TGG-C
1 TGGTGGTGG-GGGGATTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* * ** ***** ***
48200 GATGGTGGTGGAGGAGATTTGTAGTAGTATGGGGGTTGTTCTTCGTGTTT
1 --TGGTGGTGG-GGGGATTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* *
48250 TGGTGGTGGTGGGGACTTGTAGTAGTATGGTAGAGGTGGAGAGTGGAC
1 TGGTGGTGG-GGGGATTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* * *
48298 TGGTGGTGGTGGGGATTTGTAATAGTATGGTGGAAGAGGAGA-TGGTGA-
1 TGGTGGTGG-GGGGATTTGTAGTAGTATGGTGGAGGTGGAGAGT-G-GAC
* * * * * * **
48346 TGGTGGTGGAGGAGATTTGTAGTAGTATGGGGGTTGCTCTTCGTGTTTTGG--
1 TGGTGGTGG-GGGGATTTGTAGTAGTATGGTGG-AG---GTGGAG-AGTGGAC
* *
48397 TGGCGGTGGTGGGGACTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
1 TGGTGGTGG-GGGGATTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* *
48445 TGGTGGTGGTGGGGATTTGTAATAGTA---TGGAGGAGGAGA-TGG-C
1 TGGTGGTGG-GGGGATTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* * * * * * **
48488 GATGGTGGTGGAGGAGATTTGTAGTAGTATGGGGGTTGCTCTTCGTGTTTTGG--
1 --TGGTGGTGG-GGGGATTTGTAGTAGTATGGTGG-AG---GTGGAG-AGTGGAC
* * *
48541 TGGCGGTGGTGGGGACTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAT
1 TGGTGGTGG-GGGGATTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* * * *
48589 TGGAGGTGGCGGGGATTTGTAATAGTATGGAGGAGGAGGAGA-TGG-C
1 TGGTGGTGG-GGGGATTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* *
48635 GATGGTGGTGGAGGAGACTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
1 --TGGTGGTGG-GGGGATTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* *
48685 TGGTGGTGGCGGGGATTTGTAATAGTATGGTGGAGGAGGAGA-TGG-C
1 TGGTGGTGG-GGGGATTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* * * ** ***** ***
48731 GATGGCGG-GGGAGGAGACTTGTAGTAGTATGGGGGTTGTTCTTCGTGTTT
1 --TGGTGGTGGG-GG-GATTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* *
48781 TGGTGGTGGTGGTGGGAACTTGTAGTAGTATGGTGGTGGTGGAGAGTGGAC
1 TGGTGGT-G-GG-GGG-ATTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* ** * *
48832 TGGTAGTGGTGGGGCCTTGTAGTAGTACGGGGGAGGTGG
1 TGGTGGTGG-GGGGATTTGTAGTAGTATGGTGGAGGTGG
48871 TGGGGACTTG
Statistics
Matches: 832, Mismatches: 205, Indels: 128
0.71 0.18 0.11
Matches are distributed among these distances:
43 1 0.00
44 5 0.01
45 40 0.05
46 11 0.01
47 31 0.04
48 594 0.71
49 32 0.04
50 10 0.01
51 98 0.12
52 5 0.01
53 1 0.00
54 4 0.00
ACGTcount: A:0.18, C:0.04, G:0.49, T:0.28
Consensus pattern (47 bp):
TGGTGGTGGGGGGATTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
Found at i:47982 original size:144 final size:143
Alignment explanation
Indices: 47722--48726 Score: 861
Period size: 144 Copynumber: 7.0 Consensus size: 143
47712 GTGAGGGAGA
* * * * * * * *
47722 TGGTGGTGG-GGGAGATTTGTAGTAGTAGGGGGGAGGGGGAGATGGTGATGGTGGAGGAGGGGAG
1 TGGTGGTGGTGGG-GATTTGTAATAGTATGGTGGAGGAGGAGATGGCGATGGTGGTGGAGGAGAC
* ** * * *** * * * *
47786 TTGTAGTGGTATGTAGGTGCTGGAGCCTTCACGGGAGGTGG-GGGTGATTTGTAGTAGTATGGTG
65 TTGTAGTAGTATGGGGGTGGTGGTGTGGTGA-TGGTGGTGGTGGG-GACTTGTAGTAGTATGGTG
* * *
47850 GTGGTGGAGAATGAAC
128 GAGGTGGAGAGTGGAC
* * ** * * *
47866 TGGTGGTGG-GGGTGATTTGTAGTAGTATGGTGGAGGAGGATATGTTGATGGAGGTGGTGGGGAC
1 TGGTGGTGGTGGG-GATTTGTAATAGTATGGTGGAGGAGGAGATGGCGATGGTGGTGGAGGAGAC
* * * * * * * *
47930 TTGTAGTAGTATGGGGGTGGAGGTGATGGTGATGGTGGAGGAGGAGAGTTGTAATGGTA-GATAG
65 TTGTAGTAGTATGGGGGTGGTGGTG-TGGTGATGGTGGTGGTGGGGACTTGTAGTAGTATGGT-G
* * * ** **
47994 GTGCTGGGGCCTTTAC
128 GAGGTGGAGAGTGGAC
* * * * * * *
48010 TGGAGGTGG-GGGTGATTTGTAGTAGTATGGTGGTGGAGGGGA-GTG-AACTGGTGGGGGTGGAG
1 TGGTGGTGGTGGG-GATTTGTAATAGTATGGTGGAGGAGGAGATG-GCGA-TGGTGGTGGAGGAG
* * *
48072 ACTTGTAGTAGTA-GGGCGGCGGAGG-G-GAGTGGACTGGTGGTGGTGGAGACTTGTAGTAGTAT
63 ACTTGTAGTAGTATGGG-GGTGGTGGTGTG-GT-GA-TGGTGGTGGTGGGGACTTGTAGTAGTAT
48134 GGTGGAGGTGGAGAGTGGAC
124 GGTGGAGGTGGAGAGTGGAC
* *
48154 TGGTGGTGGTGGAGATTTGTAATAGTATGGTGGAGGAGGAGATGGCGATGGTGGTGGAGGAGATT
1 TGGTGGTGGTGGGGATTTGTAATAGTATGGTGGAGGAGGAGATGGCGATGGTGGTGGAGGAGACT
* ** ** *
48219 TGTAGTAGTATGGGGGTTGTTCT-TCGTGTTTTGGTGGTGGTGGGGACTTGTAGTAGTATGGTAG
66 TGTAGTAGTATGGGGGTGGTGGTGT-G-GTGATGGTGGTGGTGGGGACTTGTAGTAGTATGGTGG
48283 AGGTGGAGAGTGGAC
129 AGGTGGAGAGTGGAC
* * *
48298 TGGTGGTGGTGGGGATTTGTAATAGTATGGTGGAAGAGGAGATGGTGATGGTGGTGGAGGAGATT
1 TGGTGGTGGTGGGGATTTGTAATAGTATGGTGGAGGAGGAGATGGCGATGGTGGTGGAGGAGACT
* * ** * *
48363 TGTAGTAGTATGGGGGTTGCTCTTCGTGTTTTGGTGGCGGTGGTGGGGACTTGTAGTAGTATGGT
66 TGTAGTAGTATGGGGG-TG---GTGGTGTGGTGATGGTGGTGGTGGGGACTTGTAGTAGTATGGT
48428 GGAGGTGGAGAGTGGAC
127 GGAGGTGGAGAGTGGAC
*
48445 TGGTGGTGGTGGGGATTTGTAATAGTA---TGGAGGAGGAGATGGCGATGGTGGTGGAGGAGATT
1 TGGTGGTGGTGGGGATTTGTAATAGTATGGTGGAGGAGGAGATGGCGATGGTGGTGGAGGAGACT
* * ** * *
48507 TGTAGTAGTATGGGGGTTGCTCTTCGTGTTTTGGTGGCGGTGGTGGGGACTTGTAGTAGTATGGT
66 TGTAGTAGTATGGGGG-TG---GTGGTGTGGTGATGGTGGTGGTGGGGACTTGTAGTAGTATGGT
*
48572 GGAGGTGGAGAGTGGAT
127 GGAGGTGGAGAGTGGAC
* * *
48589 TGGAGGTGGCGGGGATTTGTAATAGTATGGAGGAGGAGGAGATGGCGATGGTGGTGGAGGAGACT
1 TGGTGGTGGTGGGGATTTGTAATAGTATGGTGGAGGAGGAGATGGCGATGGTGGTGGAGGAGACT
* * * * * * *
48654 TGTAGTAGTATGGTGGAGGTGGAG-AGTGGACTGGTGGTGGCGGGGATTTGTAATAGTATGGTGG
66 TGTAGTAGTATGGGGGTGGTGGTGTGGT-GA-TGGTGGTGGTGGGGACTTGTAGTAGTATGGTGG
*
48718 AGGAGGAGA
129 AGGTGGAGA
48727 TGGCGATGGC
Statistics
Matches: 725, Mismatches: 109, Indels: 54
0.82 0.12 0.06
Matches are distributed among these distances:
141 1 0.00
142 3 0.00
143 14 0.02
144 564 0.78
145 14 0.02
146 4 0.01
147 122 0.17
148 2 0.00
149 1 0.00
ACGTcount: A:0.19, C:0.04, G:0.49, T:0.28
Consensus pattern (143 bp):
TGGTGGTGGTGGGGATTTGTAATAGTATGGTGGAGGAGGAGATGGCGATGGTGGTGGAGGAGACT
TGTAGTAGTATGGGGGTGGTGGTGTGGTGATGGTGGTGGTGGGGACTTGTAGTAGTATGGTGGAG
GTGGAGAGTGGAC
Found at i:48144 original size:27 final size:26
Alignment explanation
Indices: 48106--48196 Score: 77
Period size: 27 Copynumber: 3.6 Consensus size: 26
48096 GGGAGTGGAC
*
48106 TGGTGGTGGTGGAGACTTGTAGTAGTA
1 TGGTGGAGGTGGAGA-TTGTAGTAGTA
48133 TGGTGGAGGTGGAGA--GT-G--G-A
1 TGGTGGAGGTGGAGATTGTAGTAGTA
* *
48153 CTGGTGGTGGTGGAGATTTGTAATAGTA
1 -TGGTGGAGGTGGAGA-TTGTAGTAGTA
*
48181 TGGTGGAGGAGGAGAT
1 TGGTGGAGGTGGAGAT
48197 GGCGATGGTG
Statistics
Matches: 51, Mismatches: 5, Indels: 17
0.70 0.07 0.23
Matches are distributed among these distances:
20 1 0.02
21 15 0.29
23 1 0.02
24 4 0.08
26 1 0.02
27 28 0.55
28 1 0.02
ACGTcount: A:0.21, C:0.02, G:0.48, T:0.29
Consensus pattern (26 bp):
TGGTGGAGGTGGAGATTGTAGTAGTA
Found at i:48551 original size:291 final size:289
Alignment explanation
Indices: 48110--48666 Score: 963
Period size: 291 Copynumber: 1.9 Consensus size: 289
48100 GTGGACTGGT
48110 GGTGGTGGAGACTTGTAGTAGTATGGTGGAGGTGGAGAGTGGACTGGTGGTGGTGGAGATTTGTA
1 GGTGGTGGAGACTTGTAGTAGTATGGTGGAGGTGGAGAGTGGACTGGTGGTGGTGGAGATTTGTA
*
48175 ATAGTATGGTGGAGGAGGAGATGGCGATGGTGGTGGAGGAGATTTGTAGTAGTATGGGGGTTGTT
66 ATAGTA--GTGGAGGAGGAGATGGCGATGGTGGTGGAGGAGATTTGTAGTAGTATGGGGGTTGCT
*
48240 CTTCGTGTTTTGGTGGTGGTGGGGACTTGTAGTAGTATGGTAGAGGTGGAGAGTGGACTGGTGGT
129 CTTCGTGTTTTGGTGGTGGTGGGGACTTGTAGTAGTATGGTAGAGGTGGAGAGTGGACTGGAGGT
* * * *
48305 GGTGGGGATTTGTAATAGTATGGTGGAAGAGGAGATGGTGATGGTGGTGGAGGAGATTTGTAGTA
194 GGCGGGGATTTGTAATAGTATGGAGGAAGAGGAGATGGCGATGGTGGTGGAGGAGACTTGTAGTA
48370 GTATGGGGGTTGCTCTTCGTGTTTTGGTGGC
259 GTATGGGGGTTGCTCTTCGTGTTTTGGTGGC
* *
48401 GGTGGTGGGGACTTGTAGTAGTATGGTGGAGGTGGAGAGTGGACTGGTGGTGGTGGGGATTTGTA
1 GGTGGTGGAGACTTGTAGTAGTATGGTGGAGGTGGAGAGTGGACTGGTGGTGGTGGAGATTTGTA
48466 ATAGTA-TGGAGGAGGAGATGGCGATGGTGGTGGAGGAGATTTGTAGTAGTATGGGGGTTGCTCT
66 ATAGTAGTGGAGGAGGAGATGGCGATGGTGGTGGAGGAGATTTGTAGTAGTATGGGGGTTGCTCT
* *
48530 TCGTGTTTTGGTGGCGGTGGTGGGGACTTGTAGTAGTATGGTGGAGGTGGAGAGTGGATTGGAGG
131 TCGTGTTTTGGT---GGTGGTGGGGACTTGTAGTAGTATGGTAGAGGTGGAGAGTGGACTGGAGG
*
48595 TGGCGGGGATTTGTAATAGTATGGAGGAGGAGGAGATGGCGATGGTGGTGGAGGAGACTTGTAGT
193 TGGCGGGGATTTGTAATAGTATGGAGGAAGAGGAGATGGCGATGGTGGTGGAGGAGACTTGTAGT
48660 AGTATGG
258 AGTATGG
48667 TGGAGGTGGA
Statistics
Matches: 252, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
288 69 0.27
291 183 0.73
ACGTcount: A:0.18, C:0.04, G:0.48, T:0.30
Consensus pattern (289 bp):
GGTGGTGGAGACTTGTAGTAGTATGGTGGAGGTGGAGAGTGGACTGGTGGTGGTGGAGATTTGTA
ATAGTAGTGGAGGAGGAGATGGCGATGGTGGTGGAGGAGATTTGTAGTAGTATGGGGGTTGCTCT
TCGTGTTTTGGTGGTGGTGGGGACTTGTAGTAGTATGGTAGAGGTGGAGAGTGGACTGGAGGTGG
CGGGGATTTGTAATAGTATGGAGGAAGAGGAGATGGCGATGGTGGTGGAGGAGACTTGTAGTAGT
ATGGGGGTTGCTCTTCGTGTTTTGGTGGC
Found at i:48727 original size:96 final size:96
Alignment explanation
Indices: 47722--48762 Score: 615
Period size: 96 Copynumber: 10.8 Consensus size: 96
47712 GTGAGGGAGA
* * * * * *
47722 TGGTGGTGG-GGGAGATTTGTAGTAGTAGGGGGGAGGGGGAGATGGTGATGGTGGAGGAGGGGAG
1 TGGTGGTGGTGGG-GATTTGTAGTAGTATGGTGGAGGAGGAGATGGTGATGGTGGTGGAGGAGAC
* * * ** **
47786 TTGTAGTGGTAT-GTAGGTGCTGGAGCCTTCAC
65 TTGTAGTAGTATGGT-GGAGGTGGAGAGTGGAC
* * * * * * *
47818 GGGAGGTGG-GGGTGATTTGTAGTAGTATGGTGGTGGTGGAGAAT-G-AACTGGTGGTGGGGGTG
1 TGGTGGTGGTGGG-GATTTGTAGTAGTATGGTGGAGGAGGAG-ATGGTGA-TGGTGGTGGAGGAG
* * * *
47880 ATTTGTAGTAGTATGGTGGAGGAGGATATGTTGA-
63 ACTTGTAGTAGTATGGTGGAGGTGGAGA-GTGGAC
* * * * * * *
47914 TGGAGGTGGTGGGGACTTGTAGTAGTATGGGGGTGGAGGTGATGGTGATGGTGGAGGAGGAGAGT
1 TGGTGGTGGTGGGGATTTGTAGTAGTATGGTGGAGGAGGAGATGGTGATGGTGGTGGAGGAGACT
* * * * * * ** **
47979 TGTAATGGTA-GATAGGTGCTGGGGCCTTTAC
66 TGTAGTAGTATGGT-GGAGGTGGAGAGTGGAC
* * * * *
48010 TGGAGGTGG-GGGTGATTTGTAGTAGTATGGTGGTGGAGGGGA--GTGAACTGGTGGGGGTGGAG
1 TGGTGGTGGTGGG-GATTTGTAGTAGTATGGTGGAGGAGGAGATGGTG-A-TGGTGGTGGAGGAG
* * * * *
48072 ACTTGTAGTAGTAGGGCGGCGGAGGGGAGTGGAC
63 ACTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* * * *
48106 TGGTGGTGGTGGAGACTTGTAGTAGTATGGTGGAGGTGGAGA--GTGGACTGGTGGTGGTGGAGA
1 TGGTGGTGGTGGGGATTTGTAGTAGTATGGTGGAGGAGGAGATGGT-GA-TGGTGGTGGAGGAGA
* * *
48169 TTTGTAATAGTATGGTGGAGGAGGAGA-TGG-C
64 CTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* * ** **** ** * *
48200 GATGGTGGTGGAGGAGATTTGTAGTAGTATGG-GG-GTTGTTCTTCGTGTTTTGGTGGTGGTGGG
1 --TGGTGGTGGTGGGGATTTGTAGTAGTATGGTGGAGGAGGAGAT-G-GTGATGGTGGTGGAGGA
*
48263 GACTTGTAGTAGTATGGTAGAGGTGGAGAGTGGAC
62 GACTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* * *
48298 TGGTGGTGGTGGGGATTTGTAATAGTATGGTGGAAGAGGAGATGGTGATGGTGGTGGAGGAGATT
1 TGGTGGTGGTGGGGATTTGTAGTAGTATGGTGGAGGAGGAGATGGTGATGGTGGTGGAGGAGACT
* * * * * **
48363 TGTAGTAGTATGGGGGTTGCTCTTCGTGTTTTGG--
66 TGTAGTAGTATGGTGG-AG---GTGGAG-AGTGGAC
* * * * *
48397 TGGCGGTGGTGGGGACTTGTAGTAGTATGGTGGAGGTGGAGA--GTGGACTGGTGGTGGTGGGGA
1 TGGTGGTGGTGGGGATTTGTAGTAGTATGGTGGAGGAGGAGATGGT-GA-TGGTGGTGGAGGAGA
* * *
48460 TTTGTAATAGTA---TGGAGGAGGAGA-TGG-C
64 CTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* * ** **** * * *
48488 GATGGTGGTGGAGGAGATTTGTAGTAGTATGG-GG-GTTGCTCTTCGTGTTTTGGTGGCGGTGGT
1 --TGGTGGTGGTGGGGATTTGTAGTAGTATGGTGGAGGAGGAGAT-G-G---TGATGGTGGTGGA
* *
48551 GGGGACTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAT
59 GGAGACTTGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* * * * *
48589 TGGAGGTGGCGGGGATTTGTAATAGTATGGAGGAGGAGGAGATGGCGATGGTGGTGGAGGAGACT
1 TGGTGGTGGTGGGGATTTGTAGTAGTATGGTGGAGGAGGAGATGGTGATGGTGGTGGAGGAGACT
48654 TGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
66 TGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
* * * * *
48685 TGGTGGTGGCGGGGATTTGTAATAGTATGGTGGAGGAGGAGATGGCGATGGCGGGGGAGGAGACT
1 TGGTGGTGGTGGGGATTTGTAGTAGTATGGTGGAGGAGGAGATGGTGATGGTGGTGGAGGAGACT
48750 TGTAGTAGTATGG
66 TGTAGTAGTATGG
48763 GGGTTGTTCT
Statistics
Matches: 738, Mismatches: 158, Indels: 98
0.74 0.16 0.10
Matches are distributed among these distances:
90 3 0.00
91 3 0.00
92 4 0.01
93 26 0.04
94 7 0.01
95 19 0.03
96 529 0.72
97 25 0.03
98 8 0.01
99 99 0.13
100 9 0.01
101 6 0.01
ACGTcount: A:0.19, C:0.04, G:0.49, T:0.28
Consensus pattern (96 bp):
TGGTGGTGGTGGGGATTTGTAGTAGTATGGTGGAGGAGGAGATGGTGATGGTGGTGGAGGAGACT
TGTAGTAGTATGGTGGAGGTGGAGAGTGGAC
Found at i:48762 original size:144 final size:142
Alignment explanation
Indices: 47834--48726 Score: 870
Period size: 144 Copynumber: 6.2 Consensus size: 142
47824 TGGGGGTGAT
* * * *
47834 TTGTAGTAGTATGGTGGTGGTGGAGAATGAACTGGTGGTGG-GGGTGATTTGTAGTAGTATGGTG
1 TTGTAGTAGTATGGTGGAGGTGGAGAGTGGACTGGTGGTGGTGGG-GATTTGTAATAGTATGGTG
* ** * * * * ** *
47898 GAGGAGGATATGTTGATGGAGGTGGTGGGGACTTGTAGTAGTATGGGGGTGGAGGTGA-TGGTGA
65 GAGGAGGAGATGGCGATGGTGGTGGAGGAGATTTGTAGTAGTATGGGGGTGGTCGTGAGTGGTGG
* *
47962 TGGTGGAGGAGGAGAG
130 TGGTGG-TG-GG-GAC
* * * * * * ** ** * *
47978 TTGTAATGGTA-GATAGGTGCTGGGGCCTTTACTGGAGGTGG-GGGTGATTTGTAGTAGTATGGT
1 TTGTAGTAGTATGGT-GGAGGTGGAGAGTGGACTGGTGGTGGTGGG-GATTTGTAATAGTATGGT
* * * * * * * ** *
48041 GGTGGAGGGGA-GTG-AACTGGTGGGGGTGGAGACTTGTAGTAGTA-GGGCGGCGGAGGGGAGTG
64 GGAGGAGGAGATG-GCGA-TGGTGGTGGAGGAGATTTGTAGTAGTATGGG-GGTGGTCGTGAGTG
*
48103 GACTGGTGGTGGTGGAGAC
126 G--TGGTGGTGGTGGGGAC
*
48122 TTGTAGTAGTATGGTGGAGGTGGAGAGTGGACTGGTGGTGGTGGAGATTTGTAATAGTATGGTGG
1 TTGTAGTAGTATGGTGGAGGTGGAGAGTGGACTGGTGGTGGTGGGGATTTGTAATAGTATGGTGG
* * * **
48187 AGGAGGAGATGGCGATGGTGGTGGAGGAGATTTGTAGTAGTATGGGGGTTGTTCTTCGTGTTTTG
66 AGGAGGAGATGGCGATGGTGGTGGAGGAGATTTGTAGTAGTATGGGGG-TGGTCGT-GAGTGGTG
48252 GTGGTGGTGGGGAC
129 GTGGTGGTGGGGAC
*
48266 TTGTAGTAGTATGGTAGAGGTGGAGAGTGGACTGGTGGTGGTGGGGATTTGTAATAGTATGGTGG
1 TTGTAGTAGTATGGTGGAGGTGGAGAGTGGACTGGTGGTGGTGGGGATTTGTAATAGTATGGTGG
* * * **
48331 AAGAGGAGATGGTGATGGTGGTGGAGGAGATTTGTAGTAGTATGGGGGTTGCTCTTCGTGTTTTG
66 AGGAGGAGATGGCGATGGTGGTGGAGGAGATTTGTAGTAGTATGGGGG-TG---GTCGTG-AGTG
*
48396 GTGGCGGTGGTGGGGAC
126 GTGGTGGTGGTGGGGAC
48413 TTGTAGTAGTATGGTGGAGGTGGAGAGTGGACTGGTGGTGGTGGGGATTTGTAATAGTA---TGG
1 TTGTAGTAGTATGGTGGAGGTGGAGAGTGGACTGGTGGTGGTGGGGATTTGTAATAGTATGGTGG
* **
48475 AGGAGGAGATGGCGATGGTGGTGGAGGAGATTTGTAGTAGTATGGGGGTTGCTCTTCGTGTTTTG
66 AGGAGGAGATGGCGATGGTGGTGGAGGAGATTTGTAGTAGTATGGGGG-TG---GTCGTG-AGTG
*
48540 GTGGCGGTGGTGGGGAC
126 GTGGTGGTGGTGGGGAC
* * * *
48557 TTGTAGTAGTATGGTGGAGGTGGAGAGTGGATTGGAGGTGGCGGGGATTTGTAATAGTATGGAGG
1 TTGTAGTAGTATGGTGGAGGTGGAGAGTGGACTGGTGGTGGTGGGGATTTGTAATAGTATGGTGG
* * * * *
48622 AGGAGGAGATGGCGATGGTGGTGGAGGAGACTTGTAGTAGTATGGTGGAGGTGGAGAGTGGACTG
66 AGGAGGAGATGGCGATGGTGGTGGAGGAGATTTGTAGTAGTATGGGGGTGGTCGTGAGTGG--TG
* *
48687 GTGGTGGCGGGGAT
129 GTGGTGGTGGGGAC
* *
48701 TTGTAATAGTATGGTGGAGGAGGAGA
1 TTGTAGTAGTATGGTGGAGGTGGAGA
48727 TGGCGATGGC
Statistics
Matches: 644, Mismatches: 82, Indels: 46
0.83 0.11 0.06
Matches are distributed among these distances:
142 3 0.00
143 10 0.02
144 476 0.74
145 14 0.02
146 6 0.01
147 135 0.21
ACGTcount: A:0.19, C:0.04, G:0.49, T:0.29
Consensus pattern (142 bp):
TTGTAGTAGTATGGTGGAGGTGGAGAGTGGACTGGTGGTGGTGGGGATTTGTAATAGTATGGTGG
AGGAGGAGATGGCGATGGTGGTGGAGGAGATTTGTAGTAGTATGGGGGTGGTCGTGAGTGGTGGT
GGTGGTGGGGAC
Found at i:48972 original size:48 final size:48
Alignment explanation
Indices: 48897--49027 Score: 183
Period size: 48 Copynumber: 2.7 Consensus size: 48
48887 TAGGTAGGGC
* ** * *
48897 TTGGTGGTGGTGGAGACTTGTAGTAGTATGGTGG-TTGTTCGACGTGTT
1 TTGGTGGTGGTGGAGACTTGTAGTAGTATGGGGGATT-CACCACATGTT
*
48945 TTGGTGGTGGTGGAGACTTGTAATAGTATGGGGGATTCACCACATGTT
1 TTGGTGGTGGTGGAGACTTGTAGTAGTATGGGGGATTCACCACATGTT
*
48993 TCGGTGGTGGTGGAGACTTGTAGTAGTATGGGGGA
1 TTGGTGGTGGTGGAGACTTGTAGTAGTATGGGGGA
49028 GGAGGTGGTG
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
48 72 0.97
49 2 0.03
ACGTcount: A:0.17, C:0.08, G:0.41, T:0.34
Consensus pattern (48 bp):
TTGGTGGTGGTGGAGACTTGTAGTAGTATGGGGGATTCACCACATGTT
Found at i:49065 original size:30 final size:31
Alignment explanation
Indices: 48995--49103 Score: 80
Period size: 30 Copynumber: 3.4 Consensus size: 31
48985 CACATGTTTC
* * *
48995 GGTGGTGGTGGAGACTTGT-AGTAGTATGG-G
1 GGTGGTGGTGGTGACTTGTAAATA-TAGGGTG
* *
49025 GGAGGAGGTGGTGACTTGTAAATATAGGTGGGTGG
1 GGTGGTGGTGGTGACTTGTAAATATA---GGGT-G
* *
49060 TGGTGGTGGTGGTGACTTGTAAACATA-AGTG
1 -GGTGGTGGTGGTGACTTGTAAATATAGGGTG
49091 GGTGGTGGTGGTG
1 GGTGGTGGTGGTG
49104 GTGGTGACTT
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
30 31 0.49
31 4 0.06
32 2 0.03
33 2 0.03
35 1 0.02
36 23 0.37
ACGTcount: A:0.18, C:0.04, G:0.49, T:0.29
Consensus pattern (31 bp):
GGTGGTGGTGGTGACTTGTAAATATAGGGTG
Found at i:49071 original size:36 final size:36
Alignment explanation
Indices: 49031--49116 Score: 154
Period size: 36 Copynumber: 2.4 Consensus size: 36
49021 TGGGGGAGGA
* *
49031 GGTGGTGACTTGTAAATATAGGTGGGTGGTGGTGGT
1 GGTGGTGACTTGTAAACATAAGTGGGTGGTGGTGGT
49067 GGTGGTGACTTGTAAACATAAGTGGGTGGTGGTGGT
1 GGTGGTGACTTGTAAACATAAGTGGGTGGTGGTGGT
49103 GGTGGTGACTTGTA
1 GGTGGTGACTTGTA
49117 GTAGTATGGG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.17, C:0.05, G:0.45, T:0.33
Consensus pattern (36 bp):
GGTGGTGACTTGTAAACATAAGTGGGTGGTGGTGGT
Found at i:49116 original size:150 final size:150
Alignment explanation
Indices: 48946--49413 Score: 665
Period size: 150 Copynumber: 3.1 Consensus size: 150
48936 CGACGTGTTT
* *
48946 TGGTGGTGGTGGAGACTTGTAATAGTATGGGGGATTCACCACATGTTTCGGTGGTGGTGGAGACT
1 TGGTGGTGGTGGAGACTTGTAATAGTATGGGGGGTTCACAACATGTTTCGGTGGTGGTGGAGACT
* *
49011 TGTAGTAGTATGGGGGAGGAGGTGGTGACTTGTAAATATAGGTGGGTGGTGGTGGTGGTGGTGAC
66 TGTAGTAGTATGGGGGAGGAGGTGGTGACTTGTAAACATAGGTGGGTGTTGGTGGTGGTGGTGAC
* *
49076 TTGTAAACATAAGTGGGTGG
131 TTGTAAACATAAGTGGGAGC
* * * *
49096 TGGTGGTGGTGGTGACTTGTAGTAGTATGGGGGGTTCACAACATGCTTCGGTGGTGGTGGAGATT
1 TGGTGGTGGTGGAGACTTGTAATAGTATGGGGGGTTCACAACATGTTTCGGTGGTGGTGGAGACT
* * *
49161 TGTAGTAATATGGGGGAGGAGGTGGTGACTTGTAAACATAGGTAGGTGTTGGTGGAGGTGGTGAC
66 TGTAGTAGTATGGGGGAGGAGGTGGTGACTTGTAAACATAGGTGGGTGTTGGTGGTGGTGGTGAC
* *
49226 TTGTAAATATAGGTGGGA-C
131 TTGTAAACATAAGTGGGAGC
* * *
49245 TTGGTGGTGGCGGAGACTTGTAATAGTACGGGGGGTTCACTACATGTTTCGGTGGTGGTGGAGAC
1 -TGGTGGTGGTGGAGACTTGTAATAGTATGGGGGGTTCACAACATGTTTCGGTGGTGGTGGAGAC
* * * *
49310 TTGTAATAGTA---AGGTGGAGGTGGTGACTTGTAAACATAGGTGGGTGTTGGAGGTGGTGGTGA
65 TTGTAGTAGTATGGGGGAGGAGGTGGTGACTTGTAAACATAGGTGGGTGTTGGTGGTGGTGGTGA
*
49372 CTTGTAAACATAAGTAGGAGC
130 CTTGTAAACATAAGTGGGAGC
* * *
49393 CGGTGGAGGTGGTGACTTGTA
1 TGGTGGTGGTGGAGACTTGTA
49414 GAGGTAAACC
Statistics
Matches: 280, Mismatches: 36, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
147 79 0.28
148 1 0.00
150 200 0.71
ACGTcount: A:0.21, C:0.07, G:0.42, T:0.30
Consensus pattern (150 bp):
TGGTGGTGGTGGAGACTTGTAATAGTATGGGGGGTTCACAACATGTTTCGGTGGTGGTGGAGACT
TGTAGTAGTATGGGGGAGGAGGTGGTGACTTGTAAACATAGGTGGGTGTTGGTGGTGGTGGTGAC
TTGTAAACATAAGTGGGAGC
Found at i:49218 original size:36 final size:36
Alignment explanation
Indices: 49178--49267 Score: 117
Period size: 36 Copynumber: 2.5 Consensus size: 36
49168 ATATGGGGGA
**
49178 GGAGGTGGTGACTTGTAAACATAGGTAGGTGTTGGT
1 GGAGGTGGTGACTTGTAAACATAGGTAGGACTTGGT
* *
49214 GGAGGTGGTGACTTGTAAATATAGGTGGGACTTGGT
1 GGAGGTGGTGACTTGTAAACATAGGTAGGACTTGGT
* * *
49250 GGTGGCGGAGACTTGTAA
1 GGAGGTGGTGACTTGTAA
49268 TAGTACGGGG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.22, C:0.07, G:0.42, T:0.29
Consensus pattern (36 bp):
GGAGGTGGTGACTTGTAAACATAGGTAGGACTTGGT
Found at i:49404 original size:36 final size:36
Alignment explanation
Indices: 49322--49413 Score: 121
Period size: 36 Copynumber: 2.6 Consensus size: 36
49312 GTAATAGTAA
* * * **
49322 GGTGGAGGTGGTGACTTGTAAACATAGGTGGGTGTT
1 GGTGGAGGTGGTGACTTGTAAACATAAGTAGGAGCC
* *
49358 GGAGGTGGTGGTGACTTGTAAACATAAGTAGGAGCC
1 GGTGGAGGTGGTGACTTGTAAACATAAGTAGGAGCC
49394 GGTGGAGGTGGTGACTTGTA
1 GGTGGAGGTGGTGACTTGTA
49414 GAGGTAAACC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.22, C:0.08, G:0.43, T:0.27
Consensus pattern (36 bp):
GGTGGAGGTGGTGACTTGTAAACATAAGTAGGAGCC
Found at i:50694 original size:30 final size:30
Alignment explanation
Indices: 50658--50716 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
50648 CTCGTGTTTT
50658 GGTGGTGGTGGAGATTTGTAG-ACGTATGGA
1 GGTGGTGGTGGAGATTTGTAGTA-GTATGGA
50688 GGTGGTGGTGGAGATTTGTAGTAGTATGG
1 GGTGGTGGTGGAGATTTGTAGTAGTATGG
50717 GGGCTGCTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.19, C:0.02, G:0.47, T:0.32
Consensus pattern (30 bp):
GGTGGTGGTGGAGATTTGTAGTAGTATGGA
Found at i:50740 original size:78 final size:79
Alignment explanation
Indices: 50616--50778 Score: 238
Period size: 78 Copynumber: 2.1 Consensus size: 79
50606 GACTGGCGGG
* * * * * *
50616 GGTGGGGACTTGTAGTAGTATGGGGGTTGTTCCTCGTGTTTTGGTGGTGGTGGA-GATTTGTAGA
1 GGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCATGTTTCGGTGGTGGTGGAGGACTTGTAGA
50680 CGTATGGAGGTGGT
66 CGTATGGAGGTGGT
*
50694 GGTGGAGATTTGTAGTAGTATGGGGGCTGCTCCTCATGTTTCGGTGGTGGTGGAGGGGACTTGTA
1 GGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCATGTTTCGGTGGTGGTGGA--GGACTTGTA
50759 GACGTATGGAGGTGGT
64 GACGTATGGAGGTGGT
50775 GGTG
1 GGTG
50779 AAGGAGGTGG
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
78 48 0.64
81 27 0.36
ACGTcount: A:0.13, C:0.08, G:0.45, T:0.33
Consensus pattern (79 bp):
GGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCATGTTTCGGTGGTGGTGGAGGACTTGTAGA
CGTATGGAGGTGGT
Found at i:50800 original size:93 final size:93
Alignment explanation
Indices: 50691--50869 Score: 268
Period size: 93 Copynumber: 1.9 Consensus size: 93
50681 GTATGGAGGT
* * * * *
50691 GGTGGTGGAGATTTGTAGTAGTATGGGGGCTGCTCCTCATGTTTCGGTGGTGGTGGAGGGGACTT
1 GGTGGAGGAGACTTGTAATAGTATGGAGGCTGCTCCTCATGTTTCGGTGGTGGTGGAGGAGACTT
*
50756 GTAGACGTATGGAGGTGGTGGTGAAGGA
66 GTAGACATATGGAGGTGGTGGTGAAGGA
* * * *
50784 GGTGGAGGAGACTTGTAATAGTATGGAGGTTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGATTT
1 GGTGGAGGAGACTTGTAATAGTATGGAGGCTGCTCCTCATGTTTCGGTGGTGGTGGAGGAGACTT
50849 GTAGACATATGGAGGTGGTGG
66 GTAGACATATGGAGGTGGTGG
50870 GGATGGTGAA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.17, C:0.08, G:0.45, T:0.30
Consensus pattern (93 bp):
GGTGGAGGAGACTTGTAATAGTATGGAGGCTGCTCCTCATGTTTCGGTGGTGGTGGAGGAGACTT
GTAGACATATGGAGGTGGTGGTGAAGGA
Found at i:50902 original size:48 final size:48
Alignment explanation
Indices: 50832--51262 Score: 332
Period size: 48 Copynumber: 8.8 Consensus size: 48
50822 GTGTTTCGGT
* *
50832 GGTGGTGGTGGAGATTTGTAGACATATGGAGGTGGTGGGGATGGTGAA
1 GGTGGTGGTGGAGACTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* *
50880 GGTGGTGGTGGAGATTTGTAGACGTATGGAGGTGGTGGGGAAGGTGAA
1 GGTGGTGGTGGAGACTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* * * **** * **
50928 GGTGGTGGAGGAGACTTGTAGTA-GTAAGGAGGCTGCTCTTCATGTTTGGGT
1 GGTGGTGGTGGAGACTTGTAG-ACGTATGGAGG-TGGTGGGGATG-GT-GAA
*
50979 GGTGGTGGTGGAGATTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
1 GGTGGTGGTGGAGACTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* * * * * * * ** **
51027 GGTGGTGGAGGAGACTTGTAGTA-ATACGGGGGTTGCTCCTCGTG-TTTTGGT
1 GGTGGTGGTGGAGACTTGTAG-ACGTATGGAGG-TG---GTGGGGATGGTGAA
51078 GGTGGTGGTGGAGACTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
1 GGTGGTGGTGGAGACTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* * * * *** * **
51126 GGTGGTGGAGGAGACTTGTA-ATAGTATGGGGGTTGCTCCTCG-TGTTTCGGT
1 GGTGGTGGTGGAGACTTGTAGA-CGTATGGAGG-TGGT-GGGGATG-GT-GAA
* *
51177 GGTGGTGGTGGAGACTTGTAGACGTACGGAGGTGGTGGAGATGGTGAA
1 GGTGGTGGTGGAGACTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* * *
51225 GGTGGTGGTGGAGACTTATAAACGTATGGAGGAGGTGG
1 GGTGGTGGTGGAGACTTGTAGACGTATGGAGGTGGTGG
51263 TGGAGACTTA
Statistics
Matches: 291, Mismatches: 73, Indels: 38
0.72 0.18 0.09
Matches are distributed among these distances:
47 4 0.01
48 164 0.56
49 17 0.06
50 18 0.06
51 84 0.29
52 4 0.01
ACGTcount: A:0.19, C:0.06, G:0.47, T:0.28
Consensus pattern (48 bp):
GGTGGTGGTGGAGACTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
Found at i:50965 original size:147 final size:141
Alignment explanation
Indices: 50739--51047 Score: 465
Period size: 147 Copynumber: 2.1 Consensus size: 141
50729 ATGTTTCGGT
*
50739 GGTGGTGGAGGGGACTTGTAGACGTATGGAGGTGGTGGTGAAGGAGGTGGAGGAGACTTGTAATA
1 GGTGGTGGAGGAGACTTGTAGACGTATGGAGGTGGTGGTGAAGGAGGTGGAGGAGACTTGTAATA
* * *
50804 GTATGGAGGTTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGATTTGTAGACATATGGAGGTGGTG
66 GTAAGGAGGCTGCTCCTCATGTTTCGGTGGTGGTGGTGGAGATTTGTAGACATATGGAGGTGGTG
50869 GGGATGGTGAA
131 GGGATGGTGAA
* * *
50880 GGTGGTGGTGGAGATTTGTAGACGTATGGAGGTGGTGGGGAAGGTGAAGGTGGTGGAGGAGACTT
1 GGTGGTGGAGGAGACTTGTAGACGTATGGAGGTGGT------GGTGAAGGAGGTGGAGGAGACTT
* * * *
50945 GTAGTAGTAAGGAGGCTGCTCTTCATGTTTGGGTGGTGGTGGTGGAGATTTGTAGACGTATGGAG
60 GTAATAGTAAGGAGGCTGCTCCTCATGTTTCGGTGGTGGTGGTGGAGATTTGTAGACATATGGAG
51010 GTGGTGGGGATGGTGAA
125 GTGGTGGGGATGGTGAA
51027 GGTGGTGGAGGAGACTTGTAG
1 GGTGGTGGAGGAGACTTGTAG
51048 TAATACGGGG
Statistics
Matches: 149, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
141 33 0.22
147 116 0.78
ACGTcount: A:0.19, C:0.06, G:0.48, T:0.28
Consensus pattern (141 bp):
GGTGGTGGAGGAGACTTGTAGACGTATGGAGGTGGTGGTGAAGGAGGTGGAGGAGACTTGTAATA
GTAAGGAGGCTGCTCCTCATGTTTCGGTGGTGGTGGTGGAGATTTGTAGACATATGGAGGTGGTG
GGGATGGTGAA
Found at i:51253 original size:99 final size:99
Alignment explanation
Indices: 50880--51241 Score: 557
Period size: 99 Copynumber: 3.7 Consensus size: 99
50870 GGATGGTGAA
* *
50880 GGTGGTGGTGGAGATTTGTAGACGTATGGAGGTGGTGGGGAAGGTGAAGGTGGTGGAGGAGACTT
1 GGTGGTGGTGGAGACTTGTAGACGTATGGAGGTGGTGGGGATGGTGAAGGTGGTGGAGGAGACTT
* * * * * * *
50945 GTAGTAGTAAGGAGGCTGCTCTTCATGTTTGGGT
66 GTAGAAGTATGGGGGTTGCTCCTCGTGTTTCGGT
*
50979 GGTGGTGGTGGAGATTTGTAGACGTATGGAGGTGGTGGGGATGGTGAAGGTGGTGGAGGAGACTT
1 GGTGGTGGTGGAGACTTGTAGACGTATGGAGGTGGTGGGGATGGTGAAGGTGGTGGAGGAGACTT
* *
51044 GTAGTAA-TACGGGGGTTGCTCCTCGTGTTTTGGT
66 GTAG-AAGTATGGGGGTTGCTCCTCGTGTTTCGGT
51078 GGTGGTGGTGGAGACTTGTAGACGTATGGAGGTGGTGGGGATGGTGAAGGTGGTGGAGGAGACTT
1 GGTGGTGGTGGAGACTTGTAGACGTATGGAGGTGGTGGGGATGGTGAAGGTGGTGGAGGAGACTT
51143 GTA-ATAGTATGGGGGTTGCTCCTCGTGTTTCGGT
66 GTAGA-AGTATGGGGGTTGCTCCTCGTGTTTCGGT
* * *
51177 GGTGGTGGTGGAGACTTGTAGACGTACGGAGGTGGTGGAGATGGTGAAGGTGGTGGTGGAGACTT
1 GGTGGTGGTGGAGACTTGTAGACGTATGGAGGTGGTGGGGATGGTGAAGGTGGTGGAGGAGACTT
51242 ATAAACGTAT
Statistics
Matches: 246, Mismatches: 14, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
97 1 0.00
98 1 0.00
99 243 0.99
100 1 0.00
ACGTcount: A:0.17, C:0.07, G:0.47, T:0.28
Consensus pattern (99 bp):
GGTGGTGGTGGAGACTTGTAGACGTATGGAGGTGGTGGGGATGGTGAAGGTGGTGGAGGAGACTT
GTAGAAGTATGGGGGTTGCTCCTCGTGTTTCGGT
Found at i:51270 original size:78 final size:78
Alignment explanation
Indices: 51180--51323 Score: 207
Period size: 78 Copynumber: 1.8 Consensus size: 78
51170 TTTCGGTGGT
* * * * *
51180 GGTGGTGGAGACTTGTAGACGTACGGAGGTGGTGGAGATGGTGAAGGTGGTGGTGGAGACTTATA
1 GGTGGTGGAGACTTATAGACATAAGGAGGTGGAGGAGAAGGTGAAGGTGGTGGTGGAGACTTATA
51245 AACGTATGGAGGA
66 AACGTATGGAGGA
** * *
51258 GGTGGTGGAGACTTATATTCATAAGGAGGTGGAGGAGAAGGTGATGGTGGTGGTGGAGATTTATA
1 GGTGGTGGAGACTTATAGACATAAGGAGGTGGAGGAGAAGGTGAAGGTGGTGGTGGAGACTTATA
51323 A
66 A
51324 TAGTACGGTT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 57 1.00
ACGTcount: A:0.26, C:0.05, G:0.44, T:0.25
Consensus pattern (78 bp):
GGTGGTGGAGACTTATAGACATAAGGAGGTGGAGGAGAAGGTGAAGGTGGTGGTGGAGACTTATA
AACGTATGGAGGA
Found at i:51286 original size:30 final size:30
Alignment explanation
Indices: 51228--51286 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
51218 TGGTGAAGGT
* *
51228 GGTGGTGGAGACTTATAAACGTATGGAGGA
1 GGTGGTGGAGACTTATAAACATAAGGAGGA
**
51258 GGTGGTGGAGACTTATATTCATAAGGAGG
1 GGTGGTGGAGACTTATAAACATAAGGAGG
51287 TGGAGGAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.07, G:0.39, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGACTTATAAACATAAGGAGGA
Found at i:51312 original size:198 final size:192
Alignment explanation
Indices: 50898--51313 Score: 426
Period size: 198 Copynumber: 2.1 Consensus size: 192
50888 TGGAGATTTG
*
50898 TAGACGTATGGAGGTGGTGGGGAAGGTGAAGGTGGTGGAGGAGACTTGTAGTAGTAAGGAGGCTG
1 TAGA-GTATGGAGGTGGTGGGGAAGGTGAAGGTGGTGGAGGAGACTTGTAATAGTAAGGAGGCTG
* * * * *
50963 CTCTTCATGTTTGGGTGGTGGTGGTGGAGATTTGTAGACGTATGGAGGTGGTGGGGATGGTGAAG
65 CTCCTCATGTTTCGGTGGTGGTGGTGGAGACTTGTAGACGTACGGAGGTGGTGGAGATGGTGAAG
* * *** * * ** * *
51028 GTGGTGGAGGAGACTTGTAGTAATACGGGGGTTGCTCCTCGTGTTTTGGTGGTGGTGGTGGAGA
130 GTGGTGGAGGAGACTTATAGTAATACGGGGGTGGAGACTC-TATATTCATGGAGGTGGAGGAGA
* * *
51092 CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAAGGTGGTGGAGGAGACTTGTAATAGTATGGGG
1 ----TAGA-GTATGGAGGTGGTGGGGAAGGTGAAGGTGGTGGAGGAGACTTGTAATAGTAAGGAG
* *
51157 GTTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGACTTGTAGACGTACGGAGGTGGTGGAGATGGT
61 GCTGCTCCTCATGTTTCGGTGGTGGTGGTGGAGACTTGTAGACGTACGGAGGTGGTGGAGATGGT
* *
51222 GAAGGTGGTGGTGGAGACTTATAAACGT-ATGGAGGAGGTGGTGGAGACT-TATATTCATAAGGA
126 GAAGGTGGTGGAGGAGACTTAT--A-GTAAT--ACG-GG-GGTGGAGACTCTATATTCAT--GGA
51285 GGTGGAGGAGA
182 GGTGGAGGAGA
*
51296 -AG-GTGATGGTGGTGGTGG
1 TAGAGT-ATGGAGGTGGTGG
51314 AGATTTATAA
Statistics
Matches: 183, Mismatches: 25, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
197 2 0.01
198 147 0.80
199 2 0.01
200 3 0.02
201 2 0.01
202 7 0.04
203 2 0.01
204 18 0.10
ACGTcount: A:0.19, C:0.07, G:0.46, T:0.27
Consensus pattern (192 bp):
TAGAGTATGGAGGTGGTGGGGAAGGTGAAGGTGGTGGAGGAGACTTGTAATAGTAAGGAGGCTGC
TCCTCATGTTTCGGTGGTGGTGGTGGAGACTTGTAGACGTACGGAGGTGGTGGAGATGGTGAAGG
TGGTGGAGGAGACTTATAGTAATACGGGGGTGGAGACTCTATATTCATGGAGGTGGAGGAGA
Found at i:51379 original size:96 final size:96
Alignment explanation
Indices: 51264--51514 Score: 358
Period size: 96 Copynumber: 2.6 Consensus size: 96
51254 AGGAGGTGGT
* *
51264 GGAGACTTATATTCATAAGGAGGTGGAGGAGAAGGTGATGGTGGTGGTGGAGATTTATAATAGTA
1 GGAGACTTATACTCATAAGGAGGTGGAGGAGAAGGTGATGGTGGTGGTGGAGATTTATAATAATA
* *
51329 CGGTTTCTCTTCGTGCTTTGGTGGTGGAGGA
66 CGGCTTCTCTTCATGCTTTGGTGGTGGAGGA
* * * * * *
51360 GGAGACTTGTACTCGTAAGGAGTTGGGGGAGGAGGTGATGGTGGTGGTGGTGATTTATAATAATA
1 GGAGACTTATACTCATAAGGAGGTGGAGGAGAAGGTGATGGTGGTGGTGGAGATTTATAATAATA
* * *
51425 TGGCTTCTCTTCATGTTTTGGTGGTGGTGGA
66 CGGCTTCTCTTCATGCTTTGGTGGTGGAGGA
* * *
51456 GGGGACTTATACTCATAAGGAGGTGGAGGAGAAGGCGACGGTGGTGGTGGAGATTTATA
1 GGAGACTTATACTCATAAGGAGGTGGAGGAGAAGGTGATGGTGGTGGTGGAGATTTATA
51515 CACATAAGGC
Statistics
Matches: 133, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 133 1.00
ACGTcount: A:0.22, C:0.08, G:0.40, T:0.30
Consensus pattern (96 bp):
GGAGACTTATACTCATAAGGAGGTGGAGGAGAAGGTGATGGTGGTGGTGGAGATTTATAATAATA
CGGCTTCTCTTCATGCTTTGGTGGTGGAGGA
Found at i:51499 original size:48 final size:48
Alignment explanation
Indices: 51447--51585 Score: 161
Period size: 48 Copynumber: 2.9 Consensus size: 48
51437 ATGTTTTGGT
* * * * *
51447 GGTGGTGGAGGGGACTTATACTCATAAGGAGGTGGAGGAGAAGGCGAC
1 GGTGGTGGTGGAGATTTATACTCATAAGGAGGTGGAGGAGAAGGAGAA
* * *
51495 GGTGGTGGTGGAGATTTATACACATAAGGCGGCGGAGGAGAAGGAGAA
1 GGTGGTGGTGGAGATTTATACTCATAAGGAGGTGGAGGAGAAGGAGAA
* * * * *
51543 GGTGGTGGTGGTGATTTGTACTCGTAAGGTGGTGGAGGCGAAG
1 GGTGGTGGTGGAGATTTATACTCATAAGGAGGTGGAGGAGAAG
51586 AATAAATATA
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 76 1.00
ACGTcount: A:0.25, C:0.09, G:0.46, T:0.20
Consensus pattern (48 bp):
GGTGGTGGTGGAGATTTATACTCATAAGGAGGTGGAGGAGAAGGAGAA
Found at i:52124 original size:22 final size:24
Alignment explanation
Indices: 52075--52126 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
52065 TTCACGAAAT
* * *
52075 ATGAAATAATATTATTTTATAAAT
1 ATGAAATAATATTATGTGATAAAC
52099 ATGAAATAATA-TA-GTGATAAAC
1 ATGAAATAATATTATGTGATAAAC
52121 ATGAAA
1 ATGAAA
52127 GTTGACGGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 12 0.48
23 2 0.08
24 11 0.44
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.35
Consensus pattern (24 bp):
ATGAAATAATATTATGTGATAAAC
Found at i:53684 original size:9 final size:9
Alignment explanation
Indices: 53666--53700 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
53656 TTATTTTATA
53666 TTTT-ATAT
1 TTTTAATAT
53674 TTTTAATAT
1 TTTTAATAT
53683 TTTTAATAT
1 TTTTAATAT
53692 TTTTAATAT
1 TTTTAATAT
53701 ATTATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.15
9 22 0.85
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTAATAT
Found at i:62767 original size:16 final size:16
Alignment explanation
Indices: 62746--62777 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
62736 TACAAAATCT
62746 AATAATCCATAATATA
1 AATAATCCATAATATA
*
62762 AATAATCCATTATATA
1 AATAATCCATAATATA
62778 TATATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (16 bp):
AATAATCCATAATATA
Found at i:72801 original size:28 final size:28
Alignment explanation
Indices: 72770--72844 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 28
72760 ACATTATGTT
*
72770 ATCGAGTCAATGCTTAAAACA-TTATACC
1 ATCGAGCCAATGCTTAAAA-ATTTATACC
*
72798 ATCGAGCCAATGCTGAAAAATTTATACC
1 ATCGAGCCAATGCTTAAAAATTTATACC
72826 ATCGAGCCAATGCTTAAAA
1 ATCGAGCCAATGCTTAAAA
72845 GTAACGACAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 1 0.02
28 42 0.98
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.25
Consensus pattern (28 bp):
ATCGAGCCAATGCTTAAAAATTTATACC
Found at i:75917 original size:12 final size:12
Alignment explanation
Indices: 75900--75931 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
75890 CAGTGTCAAG
75900 TTCTACTGTTGT
1 TTCTACTGTTGT
*
75912 TTCTACTATTGT
1 TTCTACTGTTGT
75924 TTCTACTG
1 TTCTACTG
75932 ATATTCCTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.12, C:0.19, G:0.12, T:0.56
Consensus pattern (12 bp):
TTCTACTGTTGT
Found at i:90225 original size:16 final size:16
Alignment explanation
Indices: 90204--90255 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
90194 ATTTTTTTGG
90204 AATTCGGTTAACGATT
1 AATTCGGTTAACGATT
90220 AATTCGGTT--CGA--
1 AATTCGGTTAACGATT
90232 AA-TCGGTTAACGATT
1 AATTCGGTTAACGATT
90247 AATTCGGTT
1 AATTCGGTT
90256 CGAAATCGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
11 6 0.19
12 2 0.06
13 3 0.10
14 3 0.10
15 2 0.06
16 15 0.48
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (16 bp):
AATTCGGTTAACGATT
Found at i:90238 original size:27 final size:27
Alignment explanation
Indices: 90207--90268 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
90197 TTTTTGGAAT
90207 TCGGTTAACGATTAATTCGGTTCGAAA
1 TCGGTTAACGATTAATTCGGTTCGAAA
90234 TCGGTTAACGATTAATTCGGTTCGAAA
1 TCGGTTAACGATTAATTCGGTTCGAAA
90261 TCGGTTAA
1 TCGGTTAA
90269 TTAACCGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.34
Consensus pattern (27 bp):
TCGGTTAACGATTAATTCGGTTCGAAA
Found at i:90414 original size:17 final size:17
Alignment explanation
Indices: 90392--90430 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
90382 TGAATCAAAT
90392 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
90409 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
90426 -AATTA
1 TAATTA
90431 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:90430 original size:26 final size:25
Alignment explanation
Indices: 90401--90456 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
90391 TTAATTAGAT
90401 ATTATT-TATAATTAGATATTATTTAA
1 ATTATTGTA-AATTA-ATATTATTTAA
* *
90427 ATTAATTGTAAATTATTATTATTTTA
1 ATT-ATTGTAAATTAATATTATTTAA
90453 ATTA
1 ATTA
90457 AAAAATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 1 0.04
26 15 0.58
27 8 0.31
28 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (25 bp):
ATTATTGTAAATTAATATTATTTAA
Found at i:105032 original size:17 final size:16
Alignment explanation
Indices: 105001--105053 Score: 70
Period size: 17 Copynumber: 3.2 Consensus size: 16
104991 TTAACCGGTT
*
105001 CCGACTCGACCGTTGA
1 CCGACCCGACCGTTGA
105017 CCGACCCGATCCGTTGA
1 CCGACCCGA-CCGTTGA
*
105034 CCCGACCTGACCGTTGA
1 -CCGACCCGACCGTTGA
105051 CCG
1 CCG
105054 TGGACCGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 11 0.33
17 14 0.42
18 8 0.24
ACGTcount: A:0.17, C:0.42, G:0.25, T:0.17
Consensus pattern (16 bp):
CCGACCCGACCGTTGA
Found at i:105053 original size:7 final size:7
Alignment explanation
Indices: 105041--105071 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
105031 TGACCCGACC
105041 TGACCGT
1 TGACCGT
105048 TGACCGT
1 TGACCGT
*
105055 GGACCGT
1 TGACCGT
105062 TGACCGT
1 TGACCGT
105069 TGA
1 TGA
105072 TCGGGTGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.16, C:0.26, G:0.32, T:0.26
Consensus pattern (7 bp):
TGACCGT
Found at i:105151 original size:28 final size:29
Alignment explanation
Indices: 105075--105215 Score: 148
Period size: 29 Copynumber: 5.0 Consensus size: 29
105065 CCGTTGATCG
* * *
105075 GGTGATATTTTAGGAA-TAAATTCGAAAT
1 GGTGCTATTTTGGGAATTTAATTCGAAAT
105103 GGGTGCTATTTTGGGAA-TTAATTCGAAAT
1 -GGTGCTATTTTGGGAATTTAATTCGAAAT
*
105132 GGTGCTA-TTTGGGAATTTAATTC-AAAA
1 GGTGCTATTTTGGGAATTTAATTCGAAAT
* * *
105159 AGTGCTATATTGGGAATTTAATTTGAAAAT
1 GGTGCTATTTTGGGAATTTAATTCG-AAAT
* *
105189 -GTGCTATTTTGAGAATTTAATTTGAAA
1 GGTGCTATTTTGGGAATTTAATTCGAAA
105216 AAGGTGATAT
Statistics
Matches: 98, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
27 17 0.17
28 31 0.32
29 47 0.48
30 3 0.03
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.39
Consensus pattern (29 bp):
GGTGCTATTTTGGGAATTTAATTCGAAAT
Found at i:105163 original size:27 final size:28
Alignment explanation
Indices: 105105--105228 Score: 126
Period size: 29 Copynumber: 4.4 Consensus size: 28
105095 TTCGAAATGG
**
105105 GTGCTATTTTGGGAA-TTAATTCGAAATG
1 GTGCTATTTTGGGAATTTAATTC-AAAAA
105133 GTGCTA-TTTGGGAATTTAATTCAAAAA
1 GTGCTATTTTGGGAATTTAATTCAAAAA
* * *
105160 GTGCTATATTGGGAATTTAATTTGAAAAT
1 GTGCTATTTTGGGAATTTAA-TTCAAAAA
* *
105189 GTGCTATTTTGAGAATTTAATTTGAAAAA
1 GTGCTATTTTGGGAATTTAA-TTCAAAAA
*
105218 GGTGATATTTT
1 -GTGCTATTTT
105229 AGTAATTATT
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
27 17 0.20
28 25 0.30
29 32 0.39
30 9 0.11
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (28 bp):
GTGCTATTTTGGGAATTTAATTCAAAAA
Found at i:105988 original size:15 final size:15
Alignment explanation
Indices: 105968--106000 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
105958 TGATACGTGA
105968 TTCCTGAATAT-TGAT
1 TTCCTG-ATATCTGAT
105983 TTCCTGATATCTGAT
1 TTCCTGATATCTGAT
105998 TTC
1 TTC
106001 TGTATTTCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.48
Consensus pattern (15 bp):
TTCCTGATATCTGAT
Found at i:106267 original size:13 final size:13
Alignment explanation
Indices: 106237--106279 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
106227 AAGAAACATG
106237 TTTAATGAAATGAT
1 TTTAATGAAAT-AT
*
106251 TTTACTGAAATAT
1 TTTAATGAAATAT
* *
106264 TTTATTAAAATAT
1 TTTAATGAAATAT
106277 TTT
1 TTT
106280 TATACACTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (13 bp):
TTTAATGAAATAT
Done.