Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006394.1 Hibiscus syriacus cultivar Beakdansim tig00015405_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: 114262
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:3821 original size:20 final size:20
Alignment explanation
Indices: 3685--3821 Score: 89
Period size: 20 Copynumber: 6.8 Consensus size: 20
3675 AAATGACCAA
**
3685 CAAAATCGCAACGCGAAAT-
1 CAAAATCGCAACGCGATTTC
* **
3704 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTC
* **
3724 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTC
*
3744 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TC
* * * *
3765 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTC
* **
3786 CAAATTCGCATTGCGATTTC
1 CAAAATCGCAACGCGATTTC
3806 CAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
3822 ATATGAAATC
Statistics
Matches: 87, Mismatches: 26, Indels: 9
0.71 0.21 0.07
Matches are distributed among these distances:
19 16 0.18
20 39 0.45
21 32 0.37
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTC
Found at i:3852 original size:20 final size:19
Alignment explanation
Indices: 3808--3857 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
3798 GCGATTTCCA
*
3808 AAATCGCAACGCGAATATG
1 AAATCGCAACGCGAACATG
3827 AAATCGCAACGCGAACACAT-
1 AAATCGCAACGCG-A-ACATG
3847 AAATCGCAACG
1 AAATCGCAACG
3858 TGTATCCGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.46
20 12 0.43
21 3 0.11
ACGTcount: A:0.44, C:0.26, G:0.18, T:0.12
Consensus pattern (19 bp):
AAATCGCAACGCGAACATG
Found at i:3872 original size:20 final size:20
Alignment explanation
Indices: 3808--4076 Score: 253
Period size: 20 Copynumber: 13.5 Consensus size: 20
3798 GCGATTTCCA
* **
3808 AAATCGCAACGCGAATATG-
1 AAATCGCAACGTGAATCCGT
* *
3827 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGTGAATC-CGT
*
3847 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
3867 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
3887 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
3907 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
3927 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
3947 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
3967 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
3987 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
4007 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
4027 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* * *
4047 AAATCGCAATGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
*
4067 AAATCACAAC
1 AAATCGCAAC
4077 ACTGAAATTT
Statistics
Matches: 209, Mismatches: 30, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
19 15 0.07
20 193 0.92
21 1 0.00
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGTGAATCCGT
Found at i:3879 original size:40 final size:40
Alignment explanation
Indices: 3846--4076 Score: 320
Period size: 40 Copynumber: 5.8 Consensus size: 40
3836 CGCGAACACA
* * *
3846 TAAATCGCAACGTGTATCCGTATATCGCAACGCGT-ATCCG
1 TAAATCGCAACGAGTATCCGTAAATCGCAACG-ATAATCCG
* *
3886 TAAATCGCAATGCGTATCCGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGTATCCGTAAATCGCAACGATAATCCG
*
3926 TAAATCGCAACGCGTATCCGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGTATCCGTAAATCGCAACGATAATCCG
* *
3966 TAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGTATCCGTAAATCGCAACGATAATCCG
* *
4006 TAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGTATCCGTAAATCGCAACGATAATCCG
* * * *
4046 TAAATCGCAATGAGAATCTGTAAATCACAAC
1 TAAATCGCAACGAGTATCCGTAAATCGCAAC
4077 ACTGAAATTT
Statistics
Matches: 180, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 1 0.01
40 179 0.99
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (40 bp):
TAAATCGCAACGAGTATCCGTAAATCGCAACGATAATCCG
Found at i:4069 original size:60 final size:60
Alignment explanation
Indices: 3808--4076 Score: 301
Period size: 60 Copynumber: 4.5 Consensus size: 60
3798 GCGATTTCCA
* ** * * *
3808 AAATCGCAACGCGAATATG-AAATCGCAACGCGAA-CACATAAATCGCAACG-TGTATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATC-CGTAAATCGCAACGAT-AATCCGT
* * * * * *
3867 ATATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* * * * *
3927 AAATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
3987 AAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* * *
4047 AAATCGCAATGAGAATCTGTAAATCACAAC
1 AAATCGCAACGAGAATCCGTAAATCGCAAC
4077 ACTGAAATTT
Statistics
Matches: 181, Mismatches: 26, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
59 15 0.08
60 164 0.91
61 2 0.01
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
Found at i:4795 original size:24 final size:24
Alignment explanation
Indices: 4756--4802 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4746 AAATTTGGTC
4756 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
4780 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
4803 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:7337 original size:14 final size:14
Alignment explanation
Indices: 7318--7371 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
7308 GAAAATCGCA
7318 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
* *
7332 TTGCGATTTTATTTCG
1 TTGCGA--TTCTCTCG
7348 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
7364 TTGCGATT
1 TTGCGATT
7372 TTCATTTCGC
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 14 0.44
16 12 0.38
18 6 0.19
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.46
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:7350 original size:32 final size:33
Alignment explanation
Indices: 7313--7390 Score: 149
Period size: 32 Copynumber: 2.4 Consensus size: 33
7303 GAAATGAAAA
7313 TCGCATTGCGATTCTCTCGTTGCGATTTT-ATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
7345 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
7378 TCGCATTGCGATT
1 TCGCATTGCGATT
7391 TTCATTTCGC
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 29 0.64
33 16 0.36
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (33 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:7388 original size:19 final size:19
Alignment explanation
Indices: 7332--7408 Score: 103
Period size: 19 Copynumber: 4.4 Consensus size: 19
7322 GATTCTCTCG
7332 TTGCGATTTT-ATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
7350 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
7364 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7383 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
7402 TTGCGAT
1 TTGCGAT
7409 AGTCAATTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.12
16 9 0.18
17 4 0.08
18 6 0.12
19 26 0.51
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:7523 original size:19 final size:19
Alignment explanation
Indices: 7467--7633 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
7457 CCATTACATT
7467 TCGCAATGCGGAAATGAAAA
1 TCGCAATGC-GAAATGAAAA
*
7487 TCGCAA--CG--A-GATAA
1 TCGCAATGCGAAATGAAAA
7501 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
7520 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
7539 TCGCAA--CG--A-G-AGA
1 TCGCAATGCGAAATGAAAA
*
7552 TCGCAATGTGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
7571 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
7590 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
*
7604 TCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAA
*
7623 TCGCATTGCGA
1 TCGCAATGCGA
7634 TTCTCCCATT
Statistics
Matches: 121, Mismatches: 10, Indels: 33
0.74 0.06 0.20
Matches are distributed among these distances:
13 8 0.07
14 21 0.17
15 4 0.03
16 4 0.03
17 6 0.05
18 4 0.03
19 68 0.56
20 6 0.05
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (19 bp):
TCGCAATGCGAAATGAAAA
Found at i:7572 original size:51 final size:51
Alignment explanation
Indices: 7467--7633 Score: 271
Period size: 51 Copynumber: 3.2 Consensus size: 51
7457 CCATTACATT
*
7467 TCGCAATGCGGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATGAAAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGA-GATCGCAATGCGAAATGAAAA
*
7520 TCGCAATGCGAAATGAAAATCGCAACGAGAGATCGCAATGTGAAATGAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGATCGCAATGCGAAATGAAAA
*
7571 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAG-ATCGCAATGCGAAATGAAAA
*
7623 TCGCATTGCGA
1 TCGCAATGCGA
7634 TTCTCCCATT
Statistics
Matches: 108, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
51 50 0.46
52 49 0.45
53 9 0.08
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (51 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGATCGCAATGCGAAATGAAAA
Found at i:7682 original size:19 final size:19
Alignment explanation
Indices: 7640--7739 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
7630 GCGATTCTCC
7640 CATTGCGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
7660 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
7679 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
7695 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
7712 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
7731 CATTGCGAT
1 CATTGCGAT
7740 AGTCAATTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.49
20 17 0.23
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:7736 original size:52 final size:53
Alignment explanation
Indices: 7623--7739 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
7613 GAAATTAAAA
7623 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
* *
7676 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
7728 TCGCATTGCGAT
1 TCGCATTGCGAT
7740 AGTCAATTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 30 0.48
53 32 0.52
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:7864 original size:14 final size:14
Alignment explanation
Indices: 7845--7881 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
7835 CATCAATTAC
7845 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
7859 ACAAATCATCTTTT
1 ACAAATCAACTTTT
7873 ACAAATCAA
1 ACAAATCAA
7882 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:9881 original size:14 final size:14
Alignment explanation
Indices: 9862--9918 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
9852 GCGAAATGAA
*
9862 AATCGCAACGACAG
1 AATCGCAACGAAAG
9876 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
9893 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
9909 AATCGCAACG
1 AATCGCAACG
9919 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:9889 original size:33 final size:33
Alignment explanation
Indices: 9843--9935 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
9833 GCGAAACCAA
*
9843 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
9876 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
9909 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
9936 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:9900 original size:19 final size:19
Alignment explanation
Indices: 9806--9940 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
9796 TAGTTTACTT
* *
9806 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
9826 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
9845 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
9864 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
9878 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
9897 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
9911 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
9930 TCGCAATGCGA
1 TCGCAACGCGA
9941 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:9958 original size:19 final size:19
Alignment explanation
Indices: 9936--10064 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
9926 AAAATCGCAA
9936 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
9955 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
9969 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
9988 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
10002 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
10021 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
10040 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
10060 TGCGA
1 TGCGA
10065 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:9978 original size:33 final size:33
Alignment explanation
Indices: 9936--10027 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
9926 AAAATCGCAA
9936 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
9969 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
10002 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
10028 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:10267 original size:93 final size:93
Alignment explanation
Indices: 10108--10393 Score: 540
Period size: 93 Copynumber: 3.1 Consensus size: 93
10098 TTGAATGGAT
10108 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
10173 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
10201 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
10266 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
10294 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT--CAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
10357 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
10385 AAATTTACT
1 AAATTTACT
10394 AAGCAATCTA
Statistics
Matches: 190, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
91 53 0.28
93 137 0.72
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:12118 original size:14 final size:14
Alignment explanation
Indices: 12099--12188 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
12089 TTGAAATGAA
12099 AATCGCAACGAGAG
1 AATCGCAACGAGAG
12113 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
*
12130 ACAATCACAACGAGAG
1 --AATCGCAACGAGAG
*
12146 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
12165 AATCGCAACGAGAG
1 AATCGCAACGAGAG
12179 AATCGCAACG
1 AATCGCAACG
12189 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 27 0.44
15 1 0.02
16 8 0.13
17 8 0.13
18 1 0.02
19 17 0.27
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:12141 original size:33 final size:33
Alignment explanation
Indices: 12091--12205 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
12081 TCTTTTGGTT
12091 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* * *
12124 GAGATGACAATCACAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
12157 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
12190 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
12206 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:12170 original size:19 final size:19
Alignment explanation
Indices: 12146--12210 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
12136 ACAACGAGAG
12146 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
12165 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
12179 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
12198 AATCGCAATGCGA
1 AATCGCAACGCGA
12211 TTTTGGTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 22 0.58
ACGTcount: A:0.45, C:0.22, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:12241 original size:14 final size:14
Alignment explanation
Indices: 12222--12275 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
12212 TTTGGTTTCG
12222 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
12236 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
12255 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
12269 CGTTGCG
1 CGTTGCG
12276 CTTTTCATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
16 3 0.09
17 3 0.09
19 10 0.30
ACGTcount: A:0.07, C:0.26, G:0.24, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:12254 original size:33 final size:33
Alignment explanation
Indices: 12206--12286 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
12196 AAAATCGCAA
**
12206 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
12239 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
12272 TGCGCTTTTCATTTC
1 TGCGATTTTCATTTC
12287 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.07, C:0.23, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:12322 original size:41 final size:41
Alignment explanation
Indices: 12262--12339 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
12252 TCGCGTTGCG
* *
12262 ATTCTCTCGTTGCGCTTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
12303 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
12340 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.12, C:0.27, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:12338 original size:21 final size:21
Alignment explanation
Indices: 12263--12338 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
12253 CGCGTTGCGA
*
12263 TTCTCTCGTTGCGCTTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
12284 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
12304 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
12325 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
12339 CTCTTCTGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.37
21 29 0.63
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:12465 original size:33 final size:33
Alignment explanation
Indices: 12418--12488 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
12408 AATACTAACT
* *
12418 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
12451 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
12484 TGAAA
1 TGAAA
12489 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:12722 original size:22 final size:22
Alignment explanation
Indices: 12670--12724 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
12660 TGGTTGTGAG
**
12670 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
12692 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
12714 GGATTTCTTCG
1 GGATTTCTTCG
12725 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:12895 original size:20 final size:20
Alignment explanation
Indices: 12870--13063 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
12860 CTTTAAATAT
12870 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
12890 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
12912 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
12931 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
12951 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
12971 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
12991 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
13011 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
13031 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
13051 CGCGTTGCGATTT
1 CGCGTTGCGATTT
13064 TCATATTCGC
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:13057 original size:60 final size:60
Alignment explanation
Indices: 12870--13081 Score: 253
Period size: 60 Copynumber: 3.5 Consensus size: 60
12860 CTTTAAATAT
**
12870 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
12931 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
12991 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* ** *
13051 CGCGTTGCGATTTTCATATTCGCGTTGCGAT
1 CGCGTTGCGATTTACGGATACGCGTTGCGAT
13082 GGAAAATCGC
Statistics
Matches: 126, Mismatches: 25, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 98 0.78
61 28 0.22
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:13064 original size:20 final size:20
Alignment explanation
Indices: 13011--13081 Score: 108
Period size: 20 Copynumber: 3.5 Consensus size: 20
13001 TTTACGGATA
* *
13011 CGCGTTGCGATTTAT-GTGTT
1 CGCGTTGCGATTT-TCATATT
13031 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTTCATATT
13051 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTTCATATT
13071 CGCGTTGCGAT
1 CGCGTTGCGAT
13082 GGAAAATCGC
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 1 0.02
20 47 0.98
ACGTcount: A:0.13, C:0.20, G:0.25, T:0.42
Consensus pattern (20 bp):
CGCGTTGCGATTTTCATATT
Found at i:17017 original size:14 final size:14
Alignment explanation
Indices: 17000--17030 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
16990 TAAATACGAA
17000 TAATTAATTTAATT
1 TAATTAATTTAATT
*
17014 TAATTAATTTGATT
1 TAATTAATTTAATT
17028 TAA
1 TAA
17031 AATCAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (14 bp):
TAATTAATTTAATT
Found at i:24116 original size:19 final size:19
Alignment explanation
Indices: 24092--24131 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
24082 TGTACATGTG
24092 ATTTTAATAAAATATTTAT
1 ATTTTAATAAAATATTTAT
*
24111 ATTTTAATAAAATGTTTAT
1 ATTTTAATAAAATATTTAT
24130 AT
1 AT
24132 AATATTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTTTAATAAAATATTTAT
Found at i:24198 original size:13 final size:13
Alignment explanation
Indices: 24179--24214 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
24169 TACACTTTTC
24179 AAATATTTTAATA
1 AAATATTTTAATA
* *
24192 TAATATTTTGATA
1 AAATATTTTAATA
24205 AAATATTTTA
1 AAATATTTTA
24215 TTTTTATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
AAATATTTTAATA
Found at i:25200 original size:20 final size:19
Alignment explanation
Indices: 25175--25228 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
25165 GCGAAATAAA
25175 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATC-CCAG
** *
25195 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGC-GATCCCAG
25215 AATCGCAACGCGAT
1 AATCGCAACGCGAT
25229 TATGAATAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (19 bp):
AATCGCAACGCGATCCCAG
Found at i:25289 original size:20 final size:20
Alignment explanation
Indices: 25215--25310 Score: 63
Period size: 21 Copynumber: 4.7 Consensus size: 20
25205 CAGTTCCCAG
*
25215 AATCGCAACGCGATTATGA-A
1 AATCGCAACGCGATAAT-ACA
* *
25235 TAATCGCAATGCGATAGTACA
1 -AATCGCAACGCGATAATACA
***
25256 AATTCGCGTTGCGATAATGA-A
1 AA-TCGCAACGCGATAAT-ACA
*
25277 AATCGCAACGCGA-ACATATA
1 AATCGCAACGCGATA-ATACA
25297 AATCGCAACGCGAT
1 AATCGCAACGCGAT
25311 TCTAACTATC
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
19 2 0.03
20 27 0.45
21 30 0.50
22 1 0.02
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGATAATACA
Found at i:25362 original size:20 final size:20
Alignment explanation
Indices: 25276--25532 Score: 218
Period size: 20 Copynumber: 12.7 Consensus size: 20
25266 GCGATAATGA
**
25276 AAATCGCAACGCGAA-CATAT
1 AAATCGCAACGCGAATC-CGT
*
25296 AAATCGCAACGCG-ATTC-T
1 AAATCGCAACGCGAATCCGT
* *
25314 AACTATCGCAACGAGTATCCGT
1 AA--ATCGCAACGCGAATCCGT
*
25336 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGAATCCGT
* *
25357 AAATCGCAATGAC-AATACGT
1 AAATCGCAACG-CGAATCCGT
*
25377 AAAATCACAACGCGAATCCGT
1 -AAATCGCAACGCGAATCCGT
* *
25398 AAATCGCAACGAGAATACGT
1 AAATCGCAACGCGAATCCGT
* *
25418 AAATCGCAACGCGTATCTGT
1 AAATCGCAACGCGAATCCGT
* *
25438 AAATCGCAACGAGAATACGT
1 AAATCGCAACGCGAATCCGT
* *
25458 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
25478 AAATTGCAACGAC-AATACGT
1 AAATCGCAACG-CGAATCCGT
* *
25498 AAAATCGCAACGGGTATCCGT
1 -AAATCGCAACGCGAATCCGT
25519 AAATCGCAACGCGA
1 AAATCGCAACGCGA
25533 TTTTTAAAGC
Statistics
Matches: 189, Mismatches: 36, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
18 3 0.02
19 1 0.01
20 130 0.69
21 52 0.28
22 1 0.01
23 2 0.01
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Found at i:25440 original size:40 final size:41
Alignment explanation
Indices: 25296--25529 Score: 314
Period size: 41 Copynumber: 5.8 Consensus size: 41
25286 GCGAACATAT
* * *
25296 AAATCGCAACGCG-ATTC-TAACTATCGCAACGAGTATCCGTA
1 AAATCGCAACGCGTATCCGTAA--ATCGCAACGAGAATACGTA
* *
25337 AAATCGCAACGCGTATCCGTAAATCGCAATGACAATACGTA
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* *
25378 AAATCACAACGCGAATCCGTAAATCGCAACGAGAATACGT-
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
*
25418 AAATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGT-
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
* * *
25458 AAATCGCAATGCGTATCCGTAAATTGCAACGACAATACGTA
1 AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
*
25499 AAATCGCAACGGGTATCCGTAAATCGCAACG
1 AAATCGCAACGCGTATCCGTAAATCGCAACG
25530 CGATTTTTAA
Statistics
Matches: 171, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
40 73 0.43
41 92 0.54
42 3 0.02
43 3 0.02
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.19
Consensus pattern (41 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
Found at i:25528 original size:81 final size:82
Alignment explanation
Indices: 25318--25529 Score: 302
Period size: 81 Copynumber: 2.6 Consensus size: 82
25308 GATTCTAACT
** * *
25318 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAAATCGCAATGACAATACGTAAAATC
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAATC
25383 ACAACGCGAATCCGTAA
66 ACAACGCGAATCCGTAA
* * *
25400 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGT-AAATC
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAATC
* * *
25463 GCAATGCGTATCCGTAA
66 ACAACGCGAATCCGTAA
* *
25480 ATTGCAACGACAATACGTAAAATCGCAACGGGTATCCGTAAATCGCAACG
1 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACG
25530 CGATTTTTAA
Statistics
Matches: 117, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
80 35 0.30
81 66 0.56
82 16 0.14
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (82 bp):
ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAATC
ACAACGCGAATCCGTAA
Found at i:26117 original size:20 final size:20
Alignment explanation
Indices: 26088--26197 Score: 89
Period size: 20 Copynumber: 5.5 Consensus size: 20
26078 TTCTAAACTT
*
26088 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
*
26108 AAAATTGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
26128 ACTATCGCAACGA-GAGAATG
1 AAAATCGCAAC-ACGAAAATG
** * *
26148 ACTATCGCAACGCGGAAATG
1 AAAATCGCAACACGAAAATG
** *
26168 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
26187 AAAATCGCAAC
1 AAAATCGCAAC
26198 GAGATAATCG
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
19 14 0.18
20 62 0.81
21 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.19, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:26148 original size:40 final size:39
Alignment explanation
Indices: 26103--26197 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 39
26093 CGCAACATGA
*
26103 AAATGAAAATTGCAACACGAAAATGACTATCGCAACGAG
1 AAATGAAAATCGCAACACGAAAATGACTATCGCAACGAG
** * * *
26142 AGAATGACTATCGCAACGCGGAAATGACTATCGCAACGCG
1 A-AATGAAAATCGCAACACGAAAATGACTATCGCAACGAG
26182 AAATGAAAATCGCAAC
1 AAATGAAAATCGCAAC
26198 GAGATAATCG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 14 0.30
40 33 0.70
ACGTcount: A:0.44, C:0.21, G:0.20, T:0.15
Consensus pattern (39 bp):
AAATGAAAATCGCAACACGAAAATGACTATCGCAACGAG
Found at i:26246 original size:19 final size:19
Alignment explanation
Indices: 26224--26322 Score: 117
Period size: 19 Copynumber: 5.1 Consensus size: 19
26214 GAAACCAAAA
*
26224 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
26243 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
26262 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
26281 TCCGCGTTGCGATAGTCATT
1 T-CGCGTTGCGATTTTCATT
* *
26301 CTCTCGTTGCGATTTTTATT
1 -TCGCGTTGCGATTTTCATT
26321 TC
1 TC
26323 AACCAAAAGA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
19 38 0.54
20 32 0.45
21 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:27230 original size:15 final size:16
Alignment explanation
Indices: 27205--27234 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27195 TTATTTAACA
27205 ATTACTATTGTTTGTT
1 ATTACTATTGTTTGTT
27221 ATTA-TATTGTTTGT
1 ATTACTATTGTTTGT
27235 AGATTTGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.20, C:0.03, G:0.13, T:0.63
Consensus pattern (16 bp):
ATTACTATTGTTTGTT
Found at i:28183 original size:94 final size:95
Alignment explanation
Indices: 28014--28404 Score: 538
Period size: 94 Copynumber: 4.0 Consensus size: 95
28004 GATTGCTTAT
* * *
28014 TAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAATTAGTAT
1 TAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTAT
28079 TTGTCTTTTGTTTTGTCTTTTGGTTG-AAG
66 TTGTCTTTTGTTTTGTCTTTTGGTTGAAAG
*
28108 TAAATTTATTCGGTTGCTGTCAATTCTGCTAAACTGTGTATTCTTTTAACACTGTGAAGTTAGTA
1 TAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTC-TTTAACACTGTGAAGTTAGTA
*
28173 TTTGTC-TTTGTTTTGTCTTTTAGTTGAAAG
65 TTTGTCTTTTGTTTTGTCTTTTGGTTGAAAG
* *
28203 TAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTAAAGTTAGTAT
1 TAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTA-
*
28268 TTGTCTTTGTTTTGTCTTTTGTTTTGTCTTTTGGTTGAAAA
65 ----------TTTGTCTTTTGTTTTGTCTTTTGGTTGAAAG
* * * *
28309 TAAATTTGTTCGGTTGCTGCCAATTATGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGTAT
1 TAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTAT
28374 TTGTC-TTTGTTTTGTCTTTTGGTTG-AAG
66 TTGTCTTTTGTTTTGTCTTTTGGTTGAAAG
28402 TAA
1 TAA
28405 TGCAATCCAT
Statistics
Matches: 268, Mismatches: 15, Indels: 29
0.86 0.05 0.09
Matches are distributed among these distances:
93 5 0.02
94 99 0.37
95 76 0.28
105 6 0.02
106 82 0.31
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.49
Consensus pattern (95 bp):
TAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTAT
TTGTCTTTTGTTTTGTCTTTTGGTTGAAAG
Found at i:28290 original size:12 final size:12
Alignment explanation
Indices: 28267--28300 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
28257 AAAGTTAGTA
28267 TTTGTC-TTTGT
1 TTTGTCTTTTGT
28278 TTTGTCTTTTGT
1 TTTGTCTTTTGT
28290 TTTGTCTTTTG
1 TTTGTCTTTTG
28301 GTTGAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.00, C:0.09, G:0.18, T:0.74
Consensus pattern (12 bp):
TTTGTCTTTTGT
Found at i:28291 original size:106 final size:106
Alignment explanation
Indices: 28173--28394 Score: 383
Period size: 106 Copynumber: 2.1 Consensus size: 106
28163 GAAGTTAGTA
* *
28173 TTTGTC-TTTGTTTTGTCTTTTAGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAC
1 TTTGTCTTTTGTTTTGTCTTTTAGTTGAAAATAAATTTGTTCGGTTGCTGCCAATTATGCTAAAC
*
28237 TGTGTATTCTTTAACACTGTAAAGTTAGTATTTGTCTTTGT
66 TGTGTATTCTTTAACACTCTAAAGTTAGTATTTGTCTTTGT
*
28278 TTTGTCTTTTGTTTTGTCTTTTGGTTGAAAATAAATTTGTTCGGTTGCTGCCAATTATGCTAAAC
1 TTTGTCTTTTGTTTTGTCTTTTAGTTGAAAATAAATTTGTTCGGTTGCTGCCAATTATGCTAAAC
* *
28343 TGTGTATTCTTTAATACTCTGAAGTTAGTATTTGTCTTTGT
66 TGTGTATTCTTTAACACTCTAAAGTTAGTATTTGTCTTTGT
28384 TTTGTCTTTTG
1 TTTGTCTTTTG
28395 GTTGAAGTAA
Statistics
Matches: 110, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
105 6 0.05
106 104 0.95
ACGTcount: A:0.19, C:0.12, G:0.18, T:0.51
Consensus pattern (106 bp):
TTTGTCTTTTGTTTTGTCTTTTAGTTGAAAATAAATTTGTTCGGTTGCTGCCAATTATGCTAAAC
TGTGTATTCTTTAACACTCTAAAGTTAGTATTTGTCTTTGT
Found at i:28532 original size:19 final size:19
Alignment explanation
Indices: 28492--28607 Score: 103
Period size: 19 Copynumber: 6.7 Consensus size: 19
28482 AAAAATTACT
28492 ATCGCAACGCGAAATG--A
1 ATCGCAACGCGAAATGAAA
*
28509 ATCGCAACGAGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
28528 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
*
28542 ATTGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
28561 ATCGCAA--CG--A-CAAA
1 ATCGCAACGCGAAATGAAA
*
28575 ATCGCAACGCGAAATCAAA
1 ATCGCAACGCGAAATGAAA
28594 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
28608 CTATAATCGC
Statistics
Matches: 80, Mismatches: 7, Indels: 22
0.73 0.06 0.20
Matches are distributed among these distances:
14 19 0.24
15 2 0.03
16 4 0.05
17 18 0.22
18 2 0.03
19 35 0.44
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.10
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:28556 original size:33 final size:33
Alignment explanation
Indices: 28507--28602 Score: 147
Period size: 33 Copynumber: 2.9 Consensus size: 33
28497 AACGCGAAAT
* *
28507 GAATCGCAACGAGAAATGAAAATCGCAACGAGA
1 GAATCGCAACGCGAAATGAAAATCGCAACGACA
*
28540 GAATTGCAACGCGAAATGAAAATCGCAACGACA
1 GAATCGCAACGCGAAATGAAAATCGCAACGACA
* *
28573 AAATCGCAACGCGAAATCAAAATCGCAACG
1 GAATCGCAACGCGAAATGAAAATCGCAACG
28603 CGAAACTATA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.10
Consensus pattern (33 bp):
GAATCGCAACGCGAAATGAAAATCGCAACGACA
Found at i:29205 original size:21 final size:21
Alignment explanation
Indices: 29179--29259 Score: 63
Period size: 21 Copynumber: 3.9 Consensus size: 21
29169 CTCGACTCAC
*
29179 CTATCATCGTTCAAGAGGCCT
1 CTATCATCGTTCAAGAGGCCA
** * *
29200 CTATCATCCCTCAAGAGTCCC
1 CTATCATCGTTCAAGAGGCCA
** *
29221 CTCCCACCGTTCAAGAGGCCA
1 CTATCATCGTTCAAGAGGCCA
* * *
29242 CTGTCATCATTGAAGAGG
1 CTATCATCGTTCAAGAGG
29260 TCCCTCCTAA
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (21 bp):
CTATCATCGTTCAAGAGGCCA
Found at i:30641 original size:14 final size:14
Alignment explanation
Indices: 30622--30657 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
30612 ATTGTTTAAT
30622 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
30636 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
30650 TGATTTGT
1 TGATTTGT
30658 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:30847 original size:34 final size:33
Alignment explanation
Indices: 30759--30854 Score: 120
Period size: 33 Copynumber: 2.8 Consensus size: 33
30749 AAAACAGACT
* **
30759 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
* *
30793 ATCGCAATGCGAAATGAAAATCGCAACGAGTGG
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
30826 ATCGCAATGCGAAAATGAAAATTGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
30855 CAAAACTAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 30 0.55
34 25 0.45
ACGTcount: A:0.41, C:0.20, G:0.25, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:30889 original size:20 final size:20
Alignment explanation
Indices: 30864--31063 Score: 95
Period size: 20 Copynumber: 10.7 Consensus size: 20
30854 GCAAAACTAA
*
30864 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATATTCAT
*
30884 TTTCGCATTGCG--ATTCA-
1 TTTCGCGTTGCGATATTCAT
* *
30901 ---CTCGTTGCGATTTTCA-
1 TTTCGCGTTGCGATATTCAT
* *
30917 TTTCGCATTGCGATTTTCA-
1 TTTCGCGTTGCGATATTCAT
* *
30936 TTTCGCATTGTG--ATTC-T
1 TTTCGCGTTGCGATATTCAT
* *
30953 CTT---GTTGCGATAGTCAT
1 TTTCGCGTTGCGATATTCAT
* * *
30970 TTCCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATATTCAT
* * *
30990 TTCCGCATTGCGATAGTCAT
1 TTTCGCGTTGCGATATTCAT
* * *
31010 TTCCGTGTTGCGATAGTCAT
1 TTTCGCGTTGCGATATTCAT
* *
31030 ATTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATATTCAT
* *
31050 ATTCGCGTTACGAT
1 TTTCGCGTTGCGAT
31064 TTCCGCGTTG
Statistics
Matches: 144, Mismatches: 24, Indels: 24
0.75 0.12 0.12
Matches are distributed among these distances:
14 11 0.08
16 7 0.05
17 7 0.05
18 4 0.03
19 25 0.17
20 90 0.62
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (20 bp):
TTTCGCGTTGCGATATTCAT
Found at i:30929 original size:19 final size:19
Alignment explanation
Indices: 30863--30950 Score: 105
Period size: 19 Copynumber: 4.8 Consensus size: 19
30853 CGCAAAACTA
*
30863 ATTTCGCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
30882 ATTTTCGCATTGCGA--TTC
1 A-TTTCGCATTGCGATTTTC
*
30900 A-CTCG--TTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
30916 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
*
30935 ATTTCGCATTGTGATT
1 ATTTCGCATTGCGATT
30951 CTCTTGTTGC
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
14 6 0.10
16 7 0.12
17 3 0.05
18 4 0.07
19 27 0.46
20 12 0.20
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
ATTTCGCATTGCGATTTTC
Found at i:30981 original size:53 final size:53
Alignment explanation
Indices: 30863--31082 Score: 192
Period size: 60 Copynumber: 4.0 Consensus size: 53
30853 CGCAAAACTA
**
30863 ATTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATAGTC
* * * *
30916 ATTTCGCATTGCGATTTTCA-TTTCGCATTGTGATTCTCTTGTTGCGATAGTC
1 ATTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATAGTC
** * * *
30968 ATTTCCGCGTTGCGATAGTCAATTCCGCATTGCGATAGTCATTTCCGTGTTGCGATAGTC
1 ATTT-CGCGTTGCGATTTTCATTTTCGCATTGCGAT--TCA-CT-C--GTTGCGATAGTC
** * * * *
31028 ATATTCGCGTTGCGATAGTCATATTCGCGTTACGATTTC-CGCGTTGCGATAGTC
1 AT-TTCGCGTTGCGATTTTCATTTTCGCATTGCGA-TTCACTCGTTGCGATAGTC
31082 A
1 A
31083 AATGAATGTC
Statistics
Matches: 136, Mismatches: 21, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
52 31 0.23
53 32 0.24
54 25 0.18
56 3 0.02
57 1 0.01
59 2 0.01
60 39 0.29
61 3 0.02
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.40
Consensus pattern (53 bp):
ATTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATAGTC
Found at i:31012 original size:40 final size:40
Alignment explanation
Indices: 30957--31063 Score: 155
Period size: 40 Copynumber: 2.7 Consensus size: 40
30947 GATTCTCTTG
30957 TTGCGATAGTCATTTCCGCGTTGCGATAGTCA-ATTCCGCA
1 TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATT-CGCA
* *
30997 TTGCGATAGTCATTTCCGTGTTGCGATAGTCATATTCGCG
1 TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCGCA
*
31037 TTGCGATAGTCATATT-CGCGTTACGAT
1 TTGCGATAGTCAT-TTCCGCGTTGCGAT
31064 TTCCGCGTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
40 56 0.92
41 5 0.08
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (40 bp):
TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCGCA
Found at i:33563 original size:24 final size:24
Alignment explanation
Indices: 33512--33563 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
33502 ATCTGAGTAT
** *
33512 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGACTAC
* *
33536 TGACCAAGATCAAATTTCGACTAC
1 TGACCAAGATCAAAGTCCGACTAC
33560 TGAC
1 TGAC
33564 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGACTAC
Found at i:34434 original size:20 final size:21
Alignment explanation
Indices: 34411--34516 Score: 114
Period size: 20 Copynumber: 5.3 Consensus size: 21
34401 CAGAATCTCG
*
34411 TTGCGATTTAAAG-ATTTGCA
1 TTGCGATTTAAAGTATTCGCA
*
34431 TTGCGATTT-ACGTATTCGCA
1 TTGCGATTTAAAGTATTCGCA
* * *
34451 TTGCGATTT-ACGTAATCGTA
1 TTGCGATTTAAAGTATTCGCA
*
34471 TTGCGATTT-ACGTATTCGCA
1 TTGCGATTTAAAGTATTCGCA
*
34491 TTGCGATTT-ACGTATTCGCA
1 TTGCGATTTAAAGTATTCGCA
34511 TTGCGA
1 TTGCGA
34517 ATTAGGAAAA
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
19 2 0.03
20 77 0.97
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (21 bp):
TTGCGATTTAAAGTATTCGCA
Found at i:34455 original size:40 final size:41
Alignment explanation
Indices: 34411--34516 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 41
34401 CAGAATCTCG
* *
34411 TTGCGATTTAAAG-ATTTGCATTGCGATTTACGTATTCGCA
1 TTGCGATTTAAAGTAATCGCATTGCGATTTACGTATTCGCA
* *
34451 TTGCGATTT-ACGTAATCGTATTGCGATTTACGTATTCGCA
1 TTGCGATTTAAAGTAATCGCATTGCGATTTACGTATTCGCA
* *
34491 TTGCGATTT-ACGTATTCGCATTGCGA
1 TTGCGATTTAAAGTAATCGCATTGCGA
34517 ATTAGGAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 2 0.03
40 57 0.97
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (41 bp):
TTGCGATTTAAAGTAATCGCATTGCGATTTACGTATTCGCA
Found at i:34632 original size:20 final size:20
Alignment explanation
Indices: 34589--34860 Score: 291
Period size: 20 Copynumber: 13.5 Consensus size: 20
34579 ACCGGAGATT
*
34589 GCGTTGCGAATTATC-GAT-C
1 GCGTTGCGATTTA-CGGATAC
34608 GCGTTGCGATTTACGGATAC
1 GCGTTGCGATTTACGGATAC
* *
34628 GCGTTGCGATTTTACGTAT-T
1 GCGTTGCGA-TTTACGGATAC
*
34648 GTCGTTGCGATTTATGGATAC
1 G-CGTTGCGATTTACGGATAC
* * * * *
34669 GCATTGCGGTATACGTATTC
1 GCGTTGCGATTTACGGATAC
* *
34689 TCGTTGCGATTTACAGATAC
1 GCGTTGCGATTTACGGATAC
*
34709 GCGTTGCGATTTACAGATAC
1 GCGTTGCGATTTACGGATAC
* *
34729 GCGTTGCGATTTACGTATTC
1 GCGTTGCGATTTACGGATAC
*
34749 TCGTTGCGATTTACGGATAC
1 GCGTTGCGATTTACGGATAC
* *
34769 GCGTTGCGATTTTACGTAT-T
1 GCGTTGCGA-TTTACGGATAC
34789 GTCGTTGCGATTTACGGATAC
1 G-CGTTGCGATTTACGGATAC
34810 GCGTTGCGATTTACGGATAC
1 GCGTTGCGATTTACGGATAC
*
34830 GTGTTGCGATTTTACGGATAC
1 GCGTTGCGA-TTTACGGATAC
*
34851 TCGTTGCGAT
1 GCGTTGCGAT
34861 AGTCAGAATC
Statistics
Matches: 210, Mismatches: 34, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
18 1 0.00
19 15 0.07
20 142 0.68
21 52 0.25
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.36
Consensus pattern (20 bp):
GCGTTGCGATTTACGGATAC
Found at i:34714 original size:60 final size:60
Alignment explanation
Indices: 34650--34941 Score: 225
Period size: 60 Copynumber: 4.8 Consensus size: 60
34640 TACGTATTGT
** *
34650 CGTTGCGATTTATGGATACGCATTGCGGTATACGTATTCTCGTTGCGATTTACAGATACG
1 CGTTGCGATTTACAGATACGCATTGCGATATACGTATTCTCGTTGCGATTTACAGATACG
* * *
34710 CGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACAGATACGCATTGCGATATACGTATTCTCGTTGCGATTTACAGATACG
* * * * * * *
34770 CGTTGCGATTTTAC-G-TATTGTCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACG
1 CGTTGCGA-TTTACAGATA-CG-CATTGCGATATACGTATTCTCGTTGCGATTTACAGATACG
* * * * * * * *
34831 TGTTGCGATTTTACGGATACTCGTTGCGATAGT-CAG-AATCGCGTTGCGATTTATATG-TTCG
1 CGTTGCGA-TTTACAGATACGCATTGCGATA-TAC-GTATTCTCGTTGCGATTTACA-GATACG
* * * * * * * *
34892 CGTTGCGATTTTCATATTCGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 CGTTGCGATTTACAGATACGCATTGCGATATACGTATTCTCGTTGCGATT
34942 CTGGAAAATT
Statistics
Matches: 194, Mismatches: 28, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
59 3 0.02
60 95 0.49
61 90 0.46
62 4 0.02
63 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.37
Consensus pattern (60 bp):
CGTTGCGATTTACAGATACGCATTGCGATATACGTATTCTCGTTGCGATTTACAGATACG
Found at i:34729 original size:101 final size:101
Alignment explanation
Indices: 34590--34860 Score: 395
Period size: 101 Copynumber: 2.7 Consensus size: 101
34580 CCGGAGATTG
* *
34590 CGTTGCGAATTATCGAT-CGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTT
1 CGTTGCGATTTA-CGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTT
*
34654 GCGATTTATGGATACGCATTGCG-GTATACGTATTCT
65 GCGATTTACGGATACGCATTGCGAGTATACGTATTCT
*
34690 CGTTGCGATTTACAGATACGCGTTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCTCGTT
1 CGTTGCGATTTAC-GATACGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTT
* * * *
34754 GCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
65 GCGATTTACGGATACGCATTGCGAGTATACGTATTCT
* * *
34791 CGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGTGTTGCGATTTTACGGATACTCGTT
1 CGTTGCGATTTAC-GATACGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTT
34856 GCGAT
65 GCGAT
34861 AGTCAGAATC
Statistics
Matches: 154, Mismatches: 13, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
99 1 0.01
100 50 0.32
101 84 0.55
102 19 0.12
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.36
Consensus pattern (101 bp):
CGTTGCGATTTACGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTTG
CGATTTACGGATACGCATTGCGAGTATACGTATTCT
Found at i:34892 original size:20 final size:20
Alignment explanation
Indices: 34869--34941 Score: 121
Period size: 20 Copynumber: 3.6 Consensus size: 20
34859 ATAGTCAGAA
*
34869 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
34889 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
34909 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
34929 TCGCGTTGCGATT
1 TCGCGTTGCGATT
34942 CTGGAAAATT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
19 1 0.02
20 50 0.98
ACGTcount: A:0.14, C:0.19, G:0.23, T:0.44
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:34896 original size:101 final size:101
Alignment explanation
Indices: 34589--34941 Score: 385
Period size: 101 Copynumber: 3.5 Consensus size: 101
34579 ACCGGAGATT
* *
34589 GCGTTGCGAATTATC-GAT-CGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCG
1 GCGTTGCGATTTA-CAGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCG
* * * * ** *
34652 TTGCGATTTATGGATACGCATTGCGGTATACGTATTC
65 TTGCGATTTACGGATACGCGTTGCGATTTATATGTTC
* *
34689 TCGTTGCGATTTACAGATACGCGTTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCTCGT
1 GCGTTGCGATTTACAGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGT
* *
34753 TGCGATTTACGGATACGCGTTGCGATTT-TACGTATT
66 TGCGATTTACGGATACGCGTTGCGATTTATATGT-TC
* * * *
34789 GTCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGTGTTGCGATTTTACGGATACTCG
1 G-CGTTGCGATTTACAGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCG
* *
34854 TTGCGATAGT-CAGA-ATCGCGTTGCGATTTATATGTTC
65 TTGCGAT-TTACGGATA-CGCGTTGCGATTTATATGTTC
* * * * ** *
34891 GCGTTGCGATTTTCATATTCGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 GCGTTGCGATTTACAGATACGCGTTGCGATTTACGGATACGCGTTGCGATT
34942 CTGGAAAATT
Statistics
Matches: 213, Mismatches: 32, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
99 2 0.01
100 53 0.25
101 116 0.54
102 37 0.17
103 5 0.02
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (101 bp):
GCGTTGCGATTTACAGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCTCGT
TGCGATTTACGGATACGCGTTGCGATTTATATGTTC
Found at i:34932 original size:40 final size:40
Alignment explanation
Indices: 34589--34941 Score: 274
Period size: 40 Copynumber: 8.8 Consensus size: 40
34579 ACCGGAGATT
* *
34589 GCGTTGCGAATTATC-GA-TCGCGTTGCGATTTACGGATAC
1 GCGTTGCGATTTA-CGGATTCGCGTTGCGATTTACAGATAC
* **
34628 GCGTTGCGATTTTACGTATT-GTCGTTGCGATTTATGGATAC
1 GCGTTGCGA-TTTACGGATTCG-CGTTGCGATTTACAGATAC
* * * * *
34669 GCATTGCGGTATACGTATTCTCGTTGCGATTTACAGATAC
1 GCGTTGCGATTTACGGATTCGCGTTGCGATTTACAGATAC
* * *
34709 GCGTTGCGATTTACAGATACGCGTTGCGATTTAC-GTATTC
1 GCGTTGCGATTTACGGATTCGCGTTGCGATTTACAG-ATAC
* * *
34749 TCGTTGCGATTTACGGATACGCGTTGCGATTTTAC-G-TATT
1 GCGTTGCGATTTACGGATTCGCGTTGCGA-TTTACAGATA-C
* *
34789 GTCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATAC
1 G-CGTTGCGATTTACGGATTCGCGTTGCGATTTACAGATAC
* * * *
34830 GTGTTGCGATTTTACGGATACTCGTTGCGATAGT-CAGA-ATC
1 GCGTTGCGA-TTTACGGATTCGCGTTGCGAT-TTACAGATA-C
** * * *
34871 GCGTTGCGATTTATATG-TTCGCGTTGCGATTTTCATATTC
1 GCGTTGCGATTTA-CGGATTCGCGTTGCGATTTACAGATAC
* **
34911 GCGTTGCGATTTTCATATTCGCGTTGCGATT
1 GCGTTGCGATTTACGGATTCGCGTTGCGATT
34942 CTGGAAAATT
Statistics
Matches: 257, Mismatches: 39, Indels: 35
0.78 0.12 0.11
Matches are distributed among these distances:
39 13 0.05
40 146 0.57
41 95 0.37
42 3 0.01
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (40 bp):
GCGTTGCGATTTACGGATTCGCGTTGCGATTTACAGATAC
Found at i:35411 original size:12 final size:12
Alignment explanation
Indices: 35396--35421 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35386 CAATATAACC
35396 ATTAATATTTTA
1 ATTAATATTTTA
35408 ATTAATATTTTA
1 ATTAATATTTTA
35420 AT
1 AT
35422 AGATGCTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTAATATTTTA
Found at i:49635 original size:3 final size:3
Alignment explanation
Indices: 49627--49657 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
49617 TACTATTCAA
49627 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
49658 TTATTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:50842 original size:16 final size:17
Alignment explanation
Indices: 50817--50849 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
50807 TCATATGAAT
*
50817 AAAATGAAAAG-AATAA
1 AAAATAAAAAGCAATAA
50833 AAAATAAAAAGCAATAA
1 AAAATAAAAAGCAATAA
50850 TTAAAGGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAATAAAAAGCAATAA
Found at i:50966 original size:26 final size:25
Alignment explanation
Indices: 50930--50982 Score: 88
Period size: 26 Copynumber: 2.1 Consensus size: 25
50920 ATTAAAGAGC
*
50930 TAAAAAATAAATAACATAAATTAAAA
1 TAAAAAATAAATAAC-TAAAATAAAA
50956 TAAAAAATAAATAACTAAAATAAAA
1 TAAAAAATAAATAACTAAAATAAAA
50981 TA
1 TA
50983 TATCAGAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.23
Consensus pattern (25 bp):
TAAAAAATAAATAACTAAAATAAAA
Found at i:53116 original size:3 final size:3
Alignment explanation
Indices: 53110--53137 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
53100 ATTATTTTTT
53110 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
53138 ATGAGACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:57938 original size:12 final size:14
Alignment explanation
Indices: 57911--57943 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
57901 TAAAAATACA
57911 CATATATATTTATT
1 CATATATATTTATT
57925 CATAT-TATTT-TT
1 CATATATATTTATT
57937 CATATAT
1 CATATAT
57944 GTAAGTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.39
13 6 0.33
14 5 0.28
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (14 bp):
CATATATATTTATT
Found at i:64933 original size:37 final size:37
Alignment explanation
Indices: 64882--64959 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
64872 TTCGTTTGAA
* *
64882 TTGG-TTGTAGTAGATCTCTTGTACTAGTAATTCATT
1 TTGGTTTGTACTAGATCTCTTGTACTAGCAATTCATT
64918 TTGGTTTGTACTAGATCTCTTGTACTAGCAATTCATT
1 TTGGTTTGTACTAGATCTCTTGTACTAGCAATTCATT
64955 TTGGT
1 TTGGT
64960 CAAAGCGATC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 4 0.10
37 35 0.90
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.47
Consensus pattern (37 bp):
TTGGTTTGTACTAGATCTCTTGTACTAGCAATTCATT
Found at i:76052 original size:20 final size:20
Alignment explanation
Indices: 75958--76326 Score: 449
Period size: 20 Copynumber: 18.4 Consensus size: 20
75948 GATTTTCCAT
* ** *
75958 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
75978 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
75998 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
76018 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
76038 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
76058 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
76078 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
76098 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
76118 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
76138 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
76158 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
76178 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
76198 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
76218 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
76238 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
76258 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
* *
76278 AATCGCAACG-ATAATCCGAA
1 AATCGCAACGCGT-ATCCGTA
* * *
76298 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
76318 AATCACAAC
1 AATCGCAAC
76327 ACTGAAATTT
Statistics
Matches: 303, Mismatches: 38, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
19 3 0.01
20 297 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:77037 original size:24 final size:24
Alignment explanation
Indices: 76998--77044 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
76988 AAATTTGGTC
76998 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
77022 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
77045 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:79586 original size:33 final size:31
Alignment explanation
Indices: 79535--79619 Score: 109
Period size: 32 Copynumber: 2.6 Consensus size: 31
79525 CGGAAAATAC
*
79535 AATCGCAACGCGAAATGAAATCCCAACATGAA-
1 AATCGCAATGCGAAATGAAATCCCAAC--GAAG
*
79567 AATCGCAATGCGGAAATGAAAATCGCAACGAAG
1 AATCGCAATGC-GAAATG-AAATCCCAACGAAG
79600 AATCGCAATGCGAAATGAAA
1 AATCGCAATGCGAAATGAAA
79620 ATCGCAATGC
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
31 3 0.06
32 19 0.40
33 17 0.35
34 9 0.19
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (31 bp):
AATCGCAATGCGAAATGAAATCCCAACGAAG
Found at i:79594 original size:52 final size:52
Alignment explanation
Indices: 79535--80054 Score: 545
Period size: 52 Copynumber: 9.8 Consensus size: 52
79525 CGGAAAATAC
* *
79535 AATCGCAACGCGA-AAT-GAAATCCCAACATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGCGAGAATCGAAATGCGAA-ATGAAAATCGCAATGC-GAAATGAA
* *
79587 AATCGCAACG-AAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGCGAGAATCGAAATGCGAAATGAAAATCGCAATGCGAAATGAA
* ** *
79638 AATCGCAACGCGAGAATCGCAATGCGAAATGAAAATCGCAACACGGAAAAT-AC
1 AATCGCAACGCGAGAATCGAAATGCGAAATGAAAATCGCAATGC-G-AAATGAA
* *
79691 AATCGCAACGCGA-AAT-GAAAATCCCAACATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGCGAGAATCG-AAATGCGAA-ATGAAAATCGCAATGC-GAAATGAA
* *
79744 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGCGAGAATCGAAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
79796 AATCGCAACGCGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGCGAGAATCGAAATGCGAAATGAAAATCGCAATGCGAAATGAA
* * *
79848 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGC-A-ACG---CGAGAATCGAAATGCGAAATGAAAATCGCAATGCGAAATGAA
* * * *
79905 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAGAATCG-C
1 AATCGCAACGCGAGAATCGAAATGCGAAATGAAAATCGCAATGCGA-AAT-GAA
** * * * *
79958 AAT-GCGAA-ATGAAAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAA
1 AATCGC-AACGCGAGAATCGAAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
80009 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAACGCG--A-G--AATCGAAATGCGAAATGAAAATCGCAA
80055 CGAAAGAATC
Statistics
Matches: 406, Mismatches: 36, Indels: 47
0.83 0.07 0.10
Matches are distributed among these distances:
50 1 0.00
51 28 0.07
52 206 0.51
53 76 0.19
54 18 0.04
55 4 0.01
56 1 0.00
57 72 0.18
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.14
Consensus pattern (52 bp):
AATCGCAACGCGAGAATCGAAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:79624 original size:19 final size:19
Alignment explanation
Indices: 79562--80104 Score: 625
Period size: 19 Copynumber: 30.7 Consensus size: 19
79552 AAATCCCAAC
79562 ATGAAAATCGCAATGCGGAA
1 ATGAAAATCGCAATGC-GAA
79582 ATGAAAATCGCAA--CG-A
1 ATGAAAATCGCAATGCGAA
79598 A-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
79614 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
*
79633 ATGAAAATCGCAACGCG--
1 ATGAAAATCGCAATGCGAA
79650 A-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
**
79666 ATGAAAATCGCAACACGGAAA
1 ATGAAAATCGCAATGC-G-AA
* *
79687 AT-ACAATCGCAACGCGAA
1 ATGAAAATCGCAATGCGAA
*
79705 ATGAAAATCCCAA--C---
1 ATGAAAATCGCAATGCGAA
79719 ATGAAAATCGCAATGCGGAA
1 ATGAAAATCGCAATGC-GAA
79739 ATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
*
79754 A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
79772 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
*
79791 ATGAAAATCGCAACGCG--
1 ATGAAAATCGCAATGCGAA
79808 A-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
79824 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
*
79843 ATGAAAATCGCAATACGAA
1 ATGAAAATCGCAATGCGAA
79862 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
79881 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
79900 ATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
*
79915 A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
*
79933 ATGAAAATCGCAACGCG--
1 ATGAAAATCGCAATGCGAA
79950 A-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
79966 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
* *
79985 ATTAAAATCGCAATACGAA
1 ATGAAAATCGCAATGCGAA
80004 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
80023 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
80042 ATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAA
80059 A-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
80075 ATGAAAATCGCAATGCG-A
1 ATGAAAATCGCAATGCGAA
80093 ATG-AAATCGCAA
1 ATGAAAATCGCAA
80105 CGAGATAATC
Statistics
Matches: 455, Mismatches: 23, Indels: 93
0.80 0.04 0.16
Matches are distributed among these distances:
13 8 0.02
14 73 0.16
15 5 0.01
16 21 0.05
17 27 0.06
18 12 0.03
19 267 0.59
20 38 0.08
21 4 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
ATGAAAATCGCAATGCGAA
Found at i:79661 original size:33 final size:33
Alignment explanation
Indices: 79616--80126 Score: 240
Period size: 33 Copynumber: 14.6 Consensus size: 33
79606 AATGCGAAAT
79616 GAAAATCGCAATGCGAAATGAAAATCGCAACGC
1 GAAAATCGCAATGCGAAATGAAAATCGCAACGC
* *
79649 GAGAATCGCAATGCGAAATGAAAATCGCAACAC
1 GAAAATCGCAATGCGAAATGAAAATCGCAACGC
* * **
79682 GGAAAATACAATCGCAACGCGAAATGAAAATCCCAACAT
1 -G---A-A-AATCGCAATGCGAAATGAAAATCGCAACGC
*
79721 GAAAATCGCAATGCGGAAATGAAAATCGCAACGA
1 GAAAATCGCAATGC-GAAATGAAAATCGCAACGC
* *
79755 GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAATGAAAATCGCAA--CG---C
* * **
79793 GAAAATCGCAACGCGAGAATCG-CAAT-GCGAA-AT
1 GAAAATCGCAATGCGA-AAT-GAAAATCGC-AACGC
*
79826 GAAAATCGCAATGCGAAATGAAAATCGCAATACGAAAT
1 GAAAATCGCAATGCGAAATGAAAATCGC-A-ACG---C
*
79864 GAAAATCGCAATGCGAAATGAAAATCGCAATGC
1 GAAAATCGCAATGCGAAATGAAAATCGCAACGC
* * * *
79897 G-AAAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAAT
1 GAAAATCG-CAATGCGAAATGA-A-AATCGCAA--CG---C
* * **
79935 GAAAATCGCAACGCGAGAATCG-CAAT-GCGAA-AT
1 GAAAATCGCAATGCGA-AAT-GAAAATCGC-AACGC
* *
79968 GAAAATCGCAATGCGAAATTAAAATCGCAATACGAAAT
1 GAAAATCGCAATGCGAAATGAAAATCGC-A-ACG---C
*
80006 GAAAATCGCAATGCGAAATGAAAATCGCAATGC
1 GAAAATCGCAATGCGAAATGAAAATCGCAACGC
* * * *
80039 G-AAAT-GAAAAT-CGCAACGAAAGAATCGCAATGCGAAAT
1 GAAAATCG-CAATGCGAAATG-AA-AATCGCAA--CG---C
*
80077 GAAAATCGCAATGCG-AATG-AAATCGCAACGA
1 GAAAATCGCAATGCGAAATGAAAATCGCAACGC
*
80108 GATAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
80127 TATAAACGCA
Statistics
Matches: 373, Mismatches: 50, Indels: 111
0.70 0.09 0.21
Matches are distributed among these distances:
31 28 0.08
32 32 0.09
33 113 0.30
34 35 0.09
35 5 0.01
36 12 0.03
37 4 0.01
38 78 0.21
39 56 0.15
40 7 0.02
41 2 0.01
42 1 0.00
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (33 bp):
GAAAATCGCAATGCGAAATGAAAATCGCAACGC
Found at i:79925 original size:142 final size:141
Alignment explanation
Indices: 79691--80092 Score: 620
Period size: 142 Copynumber: 2.9 Consensus size: 141
79681 CGGAAAATAC
* *
79691 AATCGCAACGCGAAATGAAAATC-CCA-AC---ATGAAAATCGCAATGCGGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCAATACGAAATGAAAATCGCAATGC-GAAATGAAAATCGCA
* * * * *
79751 ACGAGAGAATCG-CAATGCGAAATGAA-AATCGCAATGCGAAATGAAAATCGCAACGCGAGAATC
65 ATGCGA-AAT-GAAAAT-CGCAACGAAGAATCGCAATGCGAAATGAAAATCGCAACGCGAGAATC
79814 GCAATGCGAAATGAA
127 GCAATGCGAAATGAA
79829 AATCGCAATGCGAAATGAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
79894 TGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAGAATCGCA
66 TGCGAAATGAAAATCGCAACGA-AGAATCGCAATGCGAAATGAAAATCGCAACGCGAGAATCGCA
79959 ATGCGAAATGAA
130 ATGCGAAATGAA
*
79971 AATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
*
80036 TGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
66 TGCGAAATGAAAATCGCAACG-AAGAATCGCAATGCGAAATGAAAATCGCAACGCGA
80093 ATGAAATCGC
Statistics
Matches: 246, Mismatches: 9, Indels: 14
0.91 0.03 0.05
Matches are distributed among these distances:
138 22 0.09
139 2 0.01
140 9 0.04
141 7 0.03
142 189 0.77
143 17 0.07
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (141 bp):
AATCGCAATGCGAAATGAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
TGCGAAATGAAAATCGCAACGAAGAATCGCAATGCGAAATGAAAATCGCAACGCGAGAATCGCAA
TGCGAAATGAA
Found at i:80087 original size:52 final size:55
Alignment explanation
Indices: 79562--80126 Score: 534
Period size: 52 Copynumber: 10.7 Consensus size: 55
79552 AAATCCCAAC
79562 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA--CG-AA-G--AATCGCAATGCGAA
1 ATGAAAATCGCAA-GC-GAAATG-AAATCGCAATGCGAAATGAAAATCGCAATGCGAA
*
79614 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGCG--A-G--AATCGCAATGCGAA
1 ATGAAAATCGCAA-GCGAAATG-AAATCGCAATGCGAAATGAAAATCGCAATGCGAA
* * *
79666 ATGAAAATCGCAACACGGAAAAT-ACAATCGCAACGCGAAATGAAAATCCCAA--C---
1 ATGAAAATCGCAA-GC-G-AAATGA-AATCGCAATGCGAAATGAAAATCGCAATGCGAA
*
79719 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAA-GC-GAAATG-AAATCGCAATGCGAAATGAAAATCGCAATGCGAA
*
79772 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGCG--A-G--AATCGCAATGCGAA
1 ATGAAAATCGCAA-GCGAAATG-AAATCGCAATGCGAAATGAAAATCGCAATGCGAA
*
79824 ATGAAAATCGCAATGCGAAATGAAAATCGCAATACGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAA-GCGAAATG-AAATCGCAATGCGAAATGAAAATCGCAATGCGAA
*
79881 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAA-GCGAAATG-AAATCGCAATGCGAAATGAAAATCGCAATGCGAA
79933 ATGAAAATCGCAACGCG--A-G-AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAA-GCGAAATGAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
* *
79985 ATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAA-GCGAAATG-AAATCGCAATGCGAAATGAAAATCGCAATGCGAA
80042 ATGAAAATCGCAA-CGAAA-G-AATCGCAATGCGAAATGAAAATCGCAATGCG-A
1 ATGAAAATCGCAAGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
*
80093 ATG-AAATCGCAA-CGAGAT--AATCGCAATGCGAAAT
1 ATGAAAATCGCAAGCGAAATGAAATCGCAATGCGAAAT
80127 TATAAACGCA
Statistics
Matches: 461, Mismatches: 17, Indels: 72
0.84 0.03 0.13
Matches are distributed among these distances:
47 8 0.02
48 9 0.02
49 4 0.01
50 31 0.07
51 23 0.05
52 208 0.45
53 56 0.12
54 12 0.03
55 10 0.02
56 2 0.00
57 91 0.20
58 7 0.02
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (55 bp):
ATGAAAATCGCAAGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
Found at i:80242 original size:19 final size:19
Alignment explanation
Indices: 80133--80234 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
80123 AAATTATAAA
80133 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
80152 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
80172 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
80188 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
80205 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
80224 CGCATTGCGAT
1 CGCATTGCGAT
80235 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:80360 original size:14 final size:14
Alignment explanation
Indices: 80341--80377 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
80331 CATCAATTAC
80341 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
80355 ACAAATCATCTTTT
1 ACAAATCAACTTTT
80369 ACAAATCAA
1 ACAAATCAA
80378 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:80430 original size:38 final size:38
Alignment explanation
Indices: 80358--80429 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
80348 AACTTTTACA
*
80358 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
80396 AATCAACTTTTACAAATC-ATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
80430 ACAATCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 16 0.48
38 17 0.52
ACGTcount: A:0.53, C:0.17, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:82276 original size:19 final size:19
Alignment explanation
Indices: 82236--82334 Score: 91
Period size: 19 Copynumber: 5.4 Consensus size: 19
82226 TAGTTTACTT
* *
82236 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
82256 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
82275 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
82294 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
**
82308 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
82327 TCGCAACG
1 TCGCAACG
82335 AAAGAATCGC
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
14 9 0.14
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 38 0.58
20 13 0.20
ACGTcount: A:0.45, C:0.26, G:0.18, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:82311 original size:14 final size:14
Alignment explanation
Indices: 82292--82348 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
82282 GCGAAATGAA
*
82292 AATCGCAACGACAG
1 AATCGCAACGAAAG
82306 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
82323 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
82339 AATCGCAACG
1 AATCGCAACG
82349 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:82315 original size:33 final size:33
Alignment explanation
Indices: 82273--82364 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
82263 GCGAAACCAA
*
82273 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
82306 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
82339 AATCGCAACGCGAAATG-AAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
82365 TGCGATTTTG
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 9 0.16
33 49 0.84
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:82387 original size:19 final size:19
Alignment explanation
Indices: 82365--82493 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
82355 GAAATCGCAA
82365 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
82384 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
82398 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
82417 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
82431 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
82450 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* * *
82469 TGCAATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
82489 TGCGA
1 TGCGA
82494 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 22 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 47 0.53
20 12 0.14
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:82407 original size:33 final size:33
Alignment explanation
Indices: 82365--82456 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
82355 GAAATCGCAA
82365 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
82398 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
82431 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
82457 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:82696 original size:93 final size:93
Alignment explanation
Indices: 82537--82914 Score: 726
Period size: 93 Copynumber: 4.1 Consensus size: 93
82527 TTGAATGGAT
82537 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
82602 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
82630 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
82695 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
82723 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AA-A-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
82785 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
82813 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
82878 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
82906 AAATTTACT
1 AAATTTACT
82915 AAGCAATCTA
Statistics
Matches: 281, Mismatches: 1, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
90 87 0.31
91 3 0.01
92 3 0.01
93 188 0.67
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:82848 original size:183 final size:186
Alignment explanation
Indices: 82537--82914 Score: 726
Period size: 183 Copynumber: 2.0 Consensus size: 186
82527 TTGAATGGAT
82537 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
82602 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
82667 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
82723 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AA-A-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
82785 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
82850 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
82906 AAATTTACT
1 AAATTTACT
82915 AAGCAATCTA
Statistics
Matches: 191, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
183 154 0.81
184 1 0.01
185 2 0.01
186 34 0.18
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:84638 original size:14 final size:14
Alignment explanation
Indices: 84619--84708 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
84609 TTGAAATGAA
84619 AATCGCAACGAGAG
1 AATCGCAACGAGAG
84633 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
84650 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
84666 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
84685 AATCGCAACGAGAG
1 AATCGCAACGAGAG
84699 AATCGCAACG
1 AATCGCAACG
84709 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:84656 original size:33 final size:33
Alignment explanation
Indices: 84611--84725 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
84601 TCTTTTGGTT
84611 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
84644 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
84677 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
84710 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
84726 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:84657 original size:19 final size:18
Alignment explanation
Indices: 84618--84730 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
84608 GTTGAAATGA
84618 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
84633 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
84650 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
84666 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
84683 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
84699 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
84716 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
84731 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:84761 original size:14 final size:14
Alignment explanation
Indices: 84742--84796 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
84732 TTTGGTTTCG
84742 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
84756 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
84775 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
84789 CGTTGCGA
1 CGTTGCGA
84797 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:84774 original size:33 final size:33
Alignment explanation
Indices: 84726--84796 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
84716 AAAATCGCAA
**
84726 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
84759 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
84792 TGCGA
1 TGCGA
84797 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:84804 original size:33 final size:33
Alignment explanation
Indices: 84737--84818 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
84727 GCGATTTTGG
***
84737 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
84770 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
84803 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
84819 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:84823 original size:20 final size:20
Alignment explanation
Indices: 84749--84837 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
84739 TCGCGTTGCG
84749 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
84769 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
84782 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
84802 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
84822 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
84838 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:84953 original size:33 final size:33
Alignment explanation
Indices: 84911--84981 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
84901 AATACTAACT
84911 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
84944 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
84977 TGAAA
1 TGAAA
84982 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:85214 original size:22 final size:22
Alignment explanation
Indices: 85162--85216 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
85152 TGGTTGTGAG
**
85162 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
85184 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
85206 GGATTTCTTCG
1 GGATTTCTTCG
85217 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:85387 original size:20 final size:20
Alignment explanation
Indices: 85362--85555 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
85352 CTTTAAATAT
85362 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
85382 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
85404 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
85423 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
85443 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
85463 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
85483 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
85503 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
85523 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
85543 CGCGTTGCGATTT
1 CGCGTTGCGATTT
85556 TTGGAAAATC
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:85549 original size:60 final size:60
Alignment explanation
Indices: 85362--85555 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
85352 CTTTAAATAT
**
85362 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
85423 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
85483 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
85543 CGCGTTGCGATTT
1 CGCGTTGCGATTT
85556 TTGGAAAATC
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:85636 original size:20 final size:20
Alignment explanation
Indices: 85611--85662 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
85601 AAGAATCGCG
*
85611 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
85631 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
85651 TTGCGATTCTGG
1 TTGCGATTCTGG
85663 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:86061 original size:29 final size:29
Alignment explanation
Indices: 86019--86075 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
86009 AACACTCTAC
86019 GATATTGAGTCGATTATATTATTGTCTTT
1 GATATTGAGTCGATTATATTATTGTCTTT
86048 GATATTGAGTCGATTATATTATTGTCTT
1 GATATTGAGTCGATTATATTATTGTCTT
86076 ATCAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.18, T:0.51
Consensus pattern (29 bp):
GATATTGAGTCGATTATATTATTGTCTTT
Found at i:93955 original size:52 final size:51
Alignment explanation
Indices: 93883--93981 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 51
93873 ACCCTTTTTA
*
93883 TATAATAAAGAGAATAAAATAAATTTTTAAATATAATGAAAAATAATATATT
1 TATAATAAAGAGAATAAAATAAATTTTTAAATATAAT-AAAAAAAATATATT
* *
93935 TATAGTAAAGAGACTAAAATAAATTTTTAAATATAATAAAAAAAATA
1 TATAATAAAGAGAATAAAATAAATTTTTAAATATAATAAAAAAAATA
93982 ACATTTTTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 9 0.20
52 35 0.80
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (51 bp):
TATAATAAAGAGAATAAAATAAATTTTTAAATATAATAAAAAAAATATATT
Found at i:94006 original size:53 final size:51
Alignment explanation
Indices: 93883--94017 Score: 155
Period size: 52 Copynumber: 2.6 Consensus size: 51
93873 ACCCTTTTTA
* * *
93883 TATAATAAAGAGAATAAAATAAATTTTTAAATATAATGAAAAATAATATATT
1 TATAGTAAAG-GAATAAAATAAATTTTTAAATATAATAAAAAATAACATATT
*
93935 TATAGTAAAGAGACTAAAATAAATTTTTAAATATAATAAAAAAAATAACAT-TT
1 TATAGTAAAG-GAATAAAATAAATTTTTAAATATAAT--AAAAAATAACATATT
* * *
93988 TTTGGTAAAGGAATTAAAATAAACTTTTAA
1 TATAGTAAAGGAA-TAAAATAAATTTTTAA
94018 TCCTTGAAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
52 37 0.51
53 25 0.35
54 10 0.14
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.34
Consensus pattern (51 bp):
TATAGTAAAGGAATAAAATAAATTTTTAAATATAATAAAAAATAACATATT
Found at i:103611 original size:24 final size:24
Alignment explanation
Indices: 103582--103629 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
103572 GATTAAATTT
*
103582 TATCATACTTCAATTAATAGATTA
1 TATCATACTTCAATCAATAGATTA
*
103606 TATCATACTTCAATCAGTAGATTA
1 TATCATACTTCAATCAATAGATTA
103630 ACGTCCAGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.40
Consensus pattern (24 bp):
TATCATACTTCAATCAATAGATTA
Found at i:107662 original size:25 final size:26
Alignment explanation
Indices: 107612--107673 Score: 85
Period size: 27 Copynumber: 2.5 Consensus size: 26
107602 TTTATATAGA
*
107612 TTATAAAAAAATATAATTCTTAAAAT
1 TTATAAAAATATATAATTCTTAAAAT
107638 TTATGAAAAATATATAATT-TT-AAAT
1 TTAT-AAAAATATATAATTCTTAAAAT
107663 TT-TAAAAATAT
1 TTATAAAAATAT
107674 TCCAAAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
23 8 0.24
24 1 0.03
25 6 0.18
26 6 0.18
27 13 0.38
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (26 bp):
TTATAAAAATATATAATTCTTAAAAT
Done.