Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004698.1 Hibiscus syriacus cultivar Beakdansim tig00010550_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: 126692
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:6051 original size:26 final size:23
Alignment explanation
Indices: 5991--6056 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
5981 CGGGTACCTG
*
5991 AAATTCAAAAATAAAAATAAAAT
1 AAATACAAAAATAAAAATAAAAT
** *
6014 AAATACTCAAATAATAATAATAAT
1 AAATACAAAAATAAAAATAA-AAT
6038 AAATAAACAAAAATAAAAA
1 AAAT--ACAAAAATAAAAA
6057 GAAAGCAAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
23 16 0.48
24 7 0.21
26 10 0.30
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (23 bp):
AAATACAAAAATAAAAATAAAAT
Found at i:9880 original size:23 final size:22
Alignment explanation
Indices: 9865--9943 Score: 79
Period size: 24 Copynumber: 3.5 Consensus size: 22
9855 AAATCCTAAG
9865 AGATAATTCCTAAAAAATTACAA
1 AGATAATTCCT-AAAAATTACAA
*
9888 AGATAATTCCT-AAAATAACAAA
1 AGATAATTCCTAAAAATTAC-AA
* * *
9910 AGGTAATTCATAATAAATTGCAAA
1 AGATAATTCCTAA-AAATTAC-AA
9934 AGATAATTCC
1 AGATAATTCC
9944 CATAATTGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
21 7 0.15
22 11 0.24
23 12 0.26
24 16 0.35
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.27
Consensus pattern (22 bp):
AGATAATTCCTAAAAATTACAA
Found at i:12603 original size:22 final size:23
Alignment explanation
Indices: 12575--12636 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 23
12565 ATTGTTATGA
*
12575 CACTTTTTTATCAGTG-TGAATG
1 CACTTTTGTATCAGTGCTGAATG
*
12597 CACTTTTGTATCAGTGCTGAA-A
1 CACTTTTGTATCAGTGCTGAATG
* *
12619 CACTTTAGTATTAGTGCT
1 CACTTTTGTATCAGTGCT
12637 AAGACATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 31 0.89
23 4 0.11
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (23 bp):
CACTTTTGTATCAGTGCTGAATG
Found at i:13529 original size:58 final size:57
Alignment explanation
Indices: 13463--13663 Score: 194
Period size: 58 Copynumber: 3.5 Consensus size: 57
13453 ATAAACTTTG
* *
13463 AAAAGGAAATAAATCGTTGAATTTATGTTCCTATGAATCTTATATGATTTTGTTTGGT
1 AAAAGGAAATAAATCATTAAATTTAT-TTCCTATGAATCTTATATGATTTTGTTTGGT
* * * * * ** *
13521 AAAAGGAAATAAAACGTTAAATTTATTTTCTTTGAAATCTTGA-ACGATTTCATTTTGT
1 AAAAGGAAATAAATCATTAAATTTATTTCCTATG-AATCTT-ATATGATTTTGTTTGGT
* * * *
13579 AAAAGGAAATAAATTATTAAATTTATTTTC-ATAGAATCTTGTATGATTCTGTTTTGG-
1 AAAAGGAAATAAATCATTAAATTTATTTCCTAT-GAATCTTATATGATTTTG-TTTGGT
*
13636 AAAA-GAAATAAATCATTGAATTTATTTC
1 AAAAGGAAATAAATCATTAAATTTATTTC
13664 TTGAAAATTT
Statistics
Matches: 117, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
56 21 0.18
57 22 0.19
58 73 0.62
59 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (57 bp):
AAAAGGAAATAAATCATTAAATTTATTTCCTATGAATCTTATATGATTTTGTTTGGT
Found at i:17610 original size:19 final size:18
Alignment explanation
Indices: 17571--17606 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17561 GAAGAAGAAG
*
17571 GTGGGTTTAAGGGGGTTA
1 GTGGGGTTAAGGGGGTTA
17589 GTGGGGTTAAGGGGGTTA
1 GTGGGGTTAAGGGGGTTA
17607 AGTGTCTAGT
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:0.00, G:0.53, T:0.31
Consensus pattern (18 bp):
GTGGGGTTAAGGGGGTTA
Found at i:17874 original size:2 final size:2
Alignment explanation
Indices: 17867--17908 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
17857 ATACTAAAAC
17867 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17908 A
1 A
17909 ATTCTTTATG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19749 original size:64 final size:64
Alignment explanation
Indices: 19641--19847 Score: 276
Period size: 64 Copynumber: 3.2 Consensus size: 64
19631 TAATGAAGGT
* * ** * * *
19641 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGTATTCGATGTTGT-ATTATTACTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTT-TCATTATTAATGGG
19705 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTTTCATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTTTCATTATTAATGGG
* **
19769 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT-TTCATTATTAATGGG
19832 AGTGCATCGATGCACT
1 A-TGCATCGATGCACT
19848 TCCTGTTGCA
Statistics
Matches: 130, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
63 3 0.02
64 122 0.94
65 5 0.04
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTTTCATTATTAATGGG
Found at i:23056 original size:31 final size:31
Alignment explanation
Indices: 23018--23078 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
23008 CCGAAGGACC
*
23018 AGTCCATA-GATCCCGAAGAACCTAGGTAAAT
1 AGTCCATATG-TCCCGAAGAACATAGGTAAAT
*
23049 AGTCCATATGTTCCGAAGAACATAGGTAAA
1 AGTCCATATGTCCCGAAGAACATAGGTAAA
23079 CCCTCGACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (31 bp):
AGTCCATATGTCCCGAAGAACATAGGTAAAT
Found at i:23845 original size:64 final size:64
Alignment explanation
Indices: 23732--23952 Score: 259
Period size: 64 Copynumber: 3.5 Consensus size: 64
23722 TAATGAAGGT
* * ** * * *
23732 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGTATTCGATGTTGT-ATTATTACTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTT-TAATTATTAATGGG
*
23796 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCAATGTTTAATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTTTAATTATTAATGGG
* * **
23860 ATACATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTATTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT-TTAATTATTAATGGG
* * *
23923 AGTGCATCGATGCACTTCCTGTGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
23953 ACACCTTCAA
Statistics
Matches: 137, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
63 3 0.02
64 129 0.94
65 5 0.04
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTTTAATTATTAATGGG
Found at i:26679 original size:13 final size:13
Alignment explanation
Indices: 26661--26685 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26651 TAGTCGTAAT
26661 CCTCCACTTTAGC
1 CCTCCACTTTAGC
26674 CCTCCACTTTAG
1 CCTCCACTTTAG
26686 TCATCCCGTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.44, G:0.08, T:0.32
Consensus pattern (13 bp):
CCTCCACTTTAGC
Found at i:31704 original size:26 final size:26
Alignment explanation
Indices: 31675--31729 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
31665 TGCTCAACTT
31675 GACTAGAAAAGTGTAAAACTGAGCTC
1 GACTAGAAAAGTGTAAAACTGAGCTC
*
31701 GACTGGAAAAGTGTAAAACTGAGCTC
1 GACTAGAAAAGTGTAAAACTGAGCTC
31727 GAC
1 GAC
31730 CTGACTCGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.18
Consensus pattern (26 bp):
GACTAGAAAAGTGTAAAACTGAGCTC
Found at i:33956 original size:17 final size:19
Alignment explanation
Indices: 33934--33968 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
33924 GCTTTTATTC
33934 AGTTTG-AGAGGG-AATCT
1 AGTTTGAAGAGGGCAATCT
33951 AGTTTGAAGAGGGCAATC
1 AGTTTGAAGAGGGCAATC
33969 GAGGTGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (19 bp):
AGTTTGAAGAGGGCAATCT
Found at i:60589 original size:11 final size:11
Alignment explanation
Indices: 60573--60603 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
60563 TTAATAAAAA
60573 ATTATAATTTT
1 ATTATAATTTT
60584 ATTATAATTTT
1 ATTATAATTTT
*
60595 ATTAAAATT
1 ATTATAATT
60604 AAAAGTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
ATTATAATTTT
Found at i:60636 original size:90 final size:90
Alignment explanation
Indices: 60494--60658 Score: 330
Period size: 90 Copynumber: 1.8 Consensus size: 90
60484 TTAATAAAAA
60494 ATTATAATTTTATTAAAATTAAAAGTAAAATTTAATAAATGATTAATTTTAAATAATTCCTTATA
1 ATTATAATTTTATTAAAATTAAAAGTAAAATTTAATAAATGATTAATTTTAAATAATTCCTTATA
60559 CTTTTTAATAAAAAATTATAATTTT
66 CTTTTTAATAAAAAATTATAATTTT
60584 ATTATAATTTTATTAAAATTAAAAGTAAAATTTAATAAATGATTAATTTTAAATAATTCCTTATA
1 ATTATAATTTTATTAAAATTAAAAGTAAAATTTAATAAATGATTAATTTTAAATAATTCCTTATA
60649 CTTTTTAATA
66 CTTTTTAATA
60659 TTTACATAAT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 75 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (90 bp):
ATTATAATTTTATTAAAATTAAAAGTAAAATTTAATAAATGATTAATTTTAAATAATTCCTTATA
CTTTTTAATAAAAAATTATAATTTT
Found at i:63466 original size:24 final size:24
Alignment explanation
Indices: 63443--63561 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
63433 AAACATAAAT
*
63443 CATGTCAAGTATCATATCAGAAAT-
1 CATGTCAAGTATCAGATCAG-AATC
* *
63467 CA-GTTCAAGTAACATATCAGAATC
1 CATG-TCAAGTATCAGATCAGAATC
*
63491 CAAGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCAGATCAGAATC
63515 CATGTC-AGATATCAGATCAGAATC
1 CATGTCAAG-TATCAGATCAGAATC
63539 CATGTCAAGTATCAGATCAGAAT
1 CATGTCAAGTATCAGATCAGAAT
63562 TCAAATCGAA
Statistics
Matches: 86, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
23 6 0.07
24 77 0.90
25 3 0.03
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.25
Consensus pattern (24 bp):
CATGTCAAGTATCAGATCAGAATC
Found at i:63577 original size:48 final size:47
Alignment explanation
Indices: 63443--63579 Score: 141
Period size: 48 Copynumber: 2.9 Consensus size: 47
63433 AAACATAAAT
* * ** *
63443 CATGTCAAGTATCATATCAGAAATCAGTTCAAGTAA-CATATCAGAATC
1 CATGTCAAGTATCAGATCAGAATTCAAATCAA--AATCAGATCAGAATC
* * ** *
63491 CAAGTCAAGTATCAGATCAGAATCCATGTCAGATATCAGATCAGAATC
1 CATGTCAAGTATCAGATCAGAATTCAAATCA-AAATCAGATCAGAATC
63539 CATGTCAAGTATCAGATCAGAATTCAAATCGAAAATCAGAT
1 CATGTCAAGTATCAGATCAGAATTCAAATC-AAAATCAGAT
63580 AAAATATTCA
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
47 1 0.01
48 70 0.96
49 2 0.03
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.25
Consensus pattern (47 bp):
CATGTCAAGTATCAGATCAGAATTCAAATCAAAATCAGATCAGAATC
Found at i:68121 original size:24 final size:24
Alignment explanation
Indices: 68094--68145 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
68084 AACGGATATA
*
68094 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
68118 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
68142 TCAA
1 TCAA
68146 GTAACATATC
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:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:68146 original size:24 final size:24
Alignment explanation
Indices: 68114--68232 Score: 143
Period size: 24 Copynumber: 5.0 Consensus size: 24
68104 AAACATAAAT
68114 CAGGTCAAGTATCATATCAGAAAT-
1 CAGGTCAAGTATCATATCAG-AATC
*
68138 CAGGTCAAGTAACATATCAGAATC
1 CAGGTCAAGTATCATATCAGAATC
* *
68162 CAAGTCAAGTATTATATCAGAATC
1 CAGGTCAAGTATCATATCAGAATC
*
68186 CATGTC-AGATATCATATCAGAATC
1 CAGGTCAAG-TATCATATCAGAATC
* * *
68210 CATGTCAAGTATCAGATTAGAAT
1 CAGGTCAAGTATCATATCAGAAT
68233 TCAAATCAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
23 5 0.06
24 77 0.92
25 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (24 bp):
CAGGTCAAGTATCATATCAGAATC
Found at i:68205 original size:12 final size:12
Alignment explanation
Indices: 68175--68212 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
68165 GTCAAGTATT
68175 ATATCAGAATCC
1 ATATCAGAATCC
*
68187 ATGTCAGATAT-C
1 ATATCAGA-ATCC
68199 ATATCAGAATCC
1 ATATCAGAATCC
68211 AT
1 AT
68213 GTCAAGTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 2 0.09
12 18 0.82
13 2 0.09
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (12 bp):
ATATCAGAATCC
Found at i:70729 original size:8 final size:7
Alignment explanation
Indices: 70695--70746 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
70685 TGGTCAACGC
70695 CGGTCAA
1 CGGTCAA
70702 CGGTCAA
1 CGGTCAA
*
70709 TGGGTCAA
1 -CGGTCAA
70717 CGGTCAA
1 CGGTCAA
70724 CAGGTC--
1 C-GGTCAA
*
70730 GGGTCAA
1 CGGTCAA
70737 CGGTCAA
1 CGGTCAA
70744 CGG
1 CGG
70747 GTCGGGTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 4 0.11
7 23 0.62
8 10 0.27
ACGTcount: A:0.25, C:0.25, G:0.35, T:0.15
Consensus pattern (7 bp):
CGGTCAA
Found at i:70735 original size:20 final size:20
Alignment explanation
Indices: 70710--70754 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
70700 AACGGTCAAT
70710 GGGTCAACGGTCAACAGGTC
1 GGGTCAACGGTCAACAGGTC
*
70730 GGGTCAACGGTCAACGGGTC
1 GGGTCAACGGTCAACAGGTC
70750 GGGTC
1 GGGTC
70755 GGGTTGTGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.24, G:0.40, T:0.16
Consensus pattern (20 bp):
GGGTCAACGGTCAACAGGTC
Found at i:70749 original size:15 final size:15
Alignment explanation
Indices: 70686--70746 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
70676 GGTCAACAGT
70686 GGTCAACGCCGGTCAAC
1 GGTCAACG--GGTCAAC
*
70703 GGTCAATGGGTCAAC
1 GGTCAACGGGTCAAC
* *
70718 GGTCAACAGGTC--G
1 GGTCAACGGGTCAAC
70731 GGTCAAC-GGTCAAC
1 GGTCAACGGGTCAAC
70745 GG
1 GG
70747 GTCGGGTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
12 4 0.11
13 7 0.19
14 2 0.05
15 17 0.46
17 7 0.19
ACGTcount: A:0.25, C:0.26, G:0.34, T:0.15
Consensus pattern (15 bp):
GGTCAACGGGTCAAC
Found at i:77798 original size:28 final size:28
Alignment explanation
Indices: 77766--77823 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
77756 GAATCATTTA
77766 TGCCCTGAACACCTCTCTTAACCAGAGC
1 TGCCCTGAACACCTCTCTTAACCAGAGC
77794 TGCCCTGAACACCTCTCTTAACCAGAGC
1 TGCCCTGAACACCTCTCTTAACCAGAGC
77822 TG
1 TG
77824 TCTTCACTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.24, C:0.38, G:0.16, T:0.22
Consensus pattern (28 bp):
TGCCCTGAACACCTCTCTTAACCAGAGC
Found at i:87076 original size:2 final size:2
Alignment explanation
Indices: 87071--87096 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
87061 TCACAAAAAA
87071 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
87097 CAAATACCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:91935 original size:4 final size:4
Alignment explanation
Indices: 91926--94133 Score: 4374
Period size: 4 Copynumber: 553.5 Consensus size: 4
91916 ATTAATTTAC
91926 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
91974 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92022 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92070 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92118 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92166 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92214 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92262 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92310 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92358 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92406 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92454 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92502 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92550 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92598 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92646 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92694 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92742 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92790 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92838 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92886 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92934 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
92982 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93030 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93078 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93126 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93174 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93222 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93270 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93318 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93366 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93414 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93462 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT A--T ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93508 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93556 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93604 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93652 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93700 ATCT ATCT ATCT ATCT ATC- -TCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93746 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93794 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93842 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93890 ATCT ATCT ATCT ATCT ATCT ATC- -TCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93936 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
93984 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
94032 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
94080 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
94128 ATCT AT
1 ATCT AT
94134 ATATATATAT
Statistics
Matches: 2198, Mismatches: 0, Indels: 12
0.99 0.00 0.01
Matches are distributed among these distances:
2 6 0.00
4 2192 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
ATCT
Found at i:95358 original size:21 final size:21
Alignment explanation
Indices: 95332--95375 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
95322 TAAGGTCCCT
95332 TAAAATTCATGCCTATAAACA
1 TAAAATTCATGCCTATAAACA
95353 TAAAATTCATGCCTATAAACA
1 TAAAATTCATGCCTATAAACA
95374 TA
1 TA
95376 CTCTGGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.30
Consensus pattern (21 bp):
TAAAATTCATGCCTATAAACA
Found at i:100426 original size:2 final size:2
Alignment explanation
Indices: 100419--100452 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
100409 TTTAAGATAA
100419 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100453 TAATAATAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:100958 original size:32 final size:31
Alignment explanation
Indices: 100922--101011 Score: 98
Period size: 31 Copynumber: 2.9 Consensus size: 31
100912 CCCGATTATA
100922 TATATATATATATATATATATATATAATATTT
1 TATATAT-TATATATATATATATATAATATTT
*
100954 TATAT-TTTTATAT-TAATTATATATAATATTT
1 TATATATTATATATAT-A-TATATATAATATTT
*
100985 TATATATTTTATAT-TA-ATTATATAATA
1 TATATATTATATATATATA-TATATAATA
101012 CAAACCTTAA
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
29 2 0.04
30 16 0.30
31 21 0.40
32 14 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (31 bp):
TATATATTATATATATATATATATAATATTT
Found at i:101008 original size:2 final size:2
Alignment explanation
Indices: 100918--100991 Score: 63
Period size: 2 Copynumber: 40.5 Consensus size: 2
100908 CCTCCCCGAT
*
100918 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T- TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
100958 TT TT TA TA T- TA -A T- TA TA TA TA -A TA T- TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
100992 TTTATATTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
1 7 0.11
2 54 0.89
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (2 bp):
TA
Found at i:102474 original size:21 final size:21
Alignment explanation
Indices: 102450--102491 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
102440 GAAAAAACTT
102450 AATAAAAA-AATTAATAATAAA
1 AATAAAAATAA-TAATAATAAA
*
102471 AATAAAAATAATAATCATAAA
1 AATAAAAATAATAATAATAAA
102492 TAAATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (21 bp):
AATAAAAATAATAATAATAAA
Found at i:102482 original size:18 final size:20
Alignment explanation
Indices: 102455--102495 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
102445 AACTTAATAA
102455 AAAAATTAATAAT-AAAAAT
1 AAAAATTAATAATCAAAAAT
*
102474 AAAAA-TAATAATCATAAAT
1 AAAAATTAATAATCAAAAAT
102493 AAA
1 AAA
102496 TAAATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAATTAATAATCAAAAAT
Found at i:102500 original size:21 final size:19
Alignment explanation
Indices: 102454--102501 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
102444 AAACTTAATA
102454 AAAAAATTAATAATAAAAAT
1 AAAAAA-TAATAATAAAAAT
*
102474 -AAAAATAATAATCATAAAT
1 AAAAAATAATAAT-AAAAAT
102493 AAATAAATA
1 AAA-AAATA
102502 TTTTTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 7 0.29
19 10 0.42
20 2 0.08
21 5 0.21
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAAAATAATAATAAAAAT
Found at i:103086 original size:104 final size:104
Alignment explanation
Indices: 102892--103133 Score: 301
Period size: 102 Copynumber: 2.3 Consensus size: 104
102882 GTTCTTGTGT
* *
102892 TTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTTTGTTTCAAGAAAAATATATTCAAAGATTGGT
1 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAAAAACATATTCAAAGATTGGT
*
102957 GTTTCAAGAGAAGCTGTCTCAAGAGAGATAAAACTTTGC
66 GTTTCAAGAGAAACTGTCTCAAGAGAGATAAAACTTTGC
* * * *
102996 TTCAAGGGAAATTGTCTCAAGGGAGACAAAA-TTTGTTT-AATGTAAAACATATTCAAAGATT-T
1 TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAA-GAAAAACATATTCAAAGATTGG
* * *
103058 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGACAAAATTTGT
65 TGTTTCAAGAGAAACTGTCTCAAGAGAGATAAA-AC----TTTGC
* *
103103 TTCAAGAGAAACTATCTCAAGAGAGACAAAA
1 TTCAAGAGAAACTGTCTCAAGGGAGACAAAA
103134 CTTAGTTCCA
Statistics
Matches: 118, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
102 32 0.27
103 27 0.23
104 28 0.24
107 31 0.26
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (104 bp):
TTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAAAAACATATTCAAAGATTGGT
GTTTCAAGAGAAACTGTCTCAAGAGAGATAAAACTTTGC
Found at i:103133 original size:36 final size:36
Alignment explanation
Indices: 103090--103185 Score: 113
Period size: 37 Copynumber: 2.7 Consensus size: 36
103080 AGAGAGACAA
103090 AGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAG
1 AGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAG
* * * * *
103126 AGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGG
1 AGACAAAA-TTTGTTTCAAGAGAAACTATCTCAAGAG
* *
103163 AGACGAAGTTTGTTTCAAG-GAAA
1 AGACAAAATTTGTTTCAAGAGAAA
103186 ACATATTTAA
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
35 4 0.08
36 16 0.33
37 29 0.59
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.23
Consensus pattern (36 bp):
AGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAG
Found at i:103158 original size:37 final size:39
Alignment explanation
Indices: 103068--103166 Score: 112
Period size: 37 Copynumber: 2.5 Consensus size: 39
103058 TGTTTCAAGG
* * *
103068 GAAACTGTCTCAAGAGAGACAAAGACAAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAGAC---ATTAGTTCCAAAA
*
103110 GAAACTATCTCAAGAGAGACAAA-AC-TTAGTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAGACATTAGTTCCAAAA
*
103147 GAAACTGTCTCAAGGGAGAC
1 GAAACTGTCTCAAGAGAGAC
103167 GAAGTTTGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
37 27 0.53
41 2 0.04
42 22 0.43
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.19
Consensus pattern (39 bp):
GAAACTGTCTCAAGAGAGACAAAGACATTAGTTCCAAAA
Found at i:103528 original size:124 final size:124
Alignment explanation
Indices: 103308--103531 Score: 349
Period size: 124 Copynumber: 1.8 Consensus size: 124
103298 TTGCTGGTGA
* * ** * *
103308 GCACGATTCCCTTCGTCGTGAAGTTGAAAGCGTGGATAGCCCCTTTGTTGTGAAGTTGAGCCTTG
1 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGCGGATAGCCCCTTCATCGTGAAGTTGAGCCTGG
103373 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAGAGATGGATGCTTCTTGTGT
66 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAGAGATGGATGCTTCTTGTGT
* * * *
103432 GCACGATTCCCTTCGTCTTGAAGTTGAAACCGCGGGTGGCCTCTTCATCGTGAAGTTGAGCCTGG
1 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGCGGATAGCCCCTTCATCGTGAAGTTGAGCCTGG
*
103497 AATTGGATATCCTTCTTCGTGAAGTTGAAATCCAA
66 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAA
103532 GTAAGTTGTA
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
124 89 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (124 bp):
GCACGATTCCCTTCGTCGTGAAGTTGAAACCGCGGATAGCCCCTTCATCGTGAAGTTGAGCCTGG
AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAGAGATGGATGCTTCTTGTGT
Found at i:103879 original size:110 final size:105
Alignment explanation
Indices: 103745--104046 Score: 352
Period size: 101 Copynumber: 2.9 Consensus size: 105
103735 TATTGTTTCA
*
103745 AGTCCAATATCCTTCGATGTGAAGTTGAAATTGGTTCTGAATGAAACTAGGAAGTTGTTTGTTGA
1 AGTCCAATATCCTTC-ATGTGAAGTTGAAATTGG-TCTGAATGAAACTA-GAAGTTATTTGTTGA
103810 CAGTCAACCGCCCCTTCGCTGTGAAGTTGAGCTTGCGTTGTCTCG
63 CAGTC-A-CGCCCCTTCGCTGTGAAGTTGAGCTTGCGTTGTCTCG
* *
103855 AGTCCAATATCCTTCACTGTGAAGTTGAAATT-GACT--CTG-AA--A-AAGTTATTTGTTGACA
1 AGTCCAATATCCTTCA-TGTGAAGTTGAAATTGGTCTGAATGAAACTAGAAGTTATTTGTTGACA
* * *
103913 GTCAGTCGACCCTTCGCAGTGAAGTTGAGCTTGTGTTGTCTCG
65 GTCA--CGCCCCTTCGCTGTGAAGTTGAGCTTGCGTTGTCTCG
* * *
103956 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTATTTGTTGA
1 AGTCCAATATCCTTC-ATGTGAAGTTGAAATTG-GTCTGAATGAAACT-AGAAGTTATTTGTTGA
*
104021 CAGT--CGCCCCTTCGTTGTGAAGTTGA
63 CAGTCACGCCCCTTCGCTGTGAAGTTGA
104047 TCAACCACCA
Statistics
Matches: 166, Mismatches: 14, Indels: 28
0.80 0.07 0.13
Matches are distributed among these distances:
100 1 0.01
101 82 0.49
103 3 0.02
105 4 0.02
106 23 0.14
108 2 0.01
109 3 0.02
110 48 0.29
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (105 bp):
AGTCCAATATCCTTCATGTGAAGTTGAAATTGGTCTGAATGAAACTAGAAGTTATTTGTTGACAG
TCACGCCCCTTCGCTGTGAAGTTGAGCTTGCGTTGTCTCG
Found at i:108142 original size:10 final size:10
Alignment explanation
Indices: 108124--108175 Score: 54
Period size: 9 Copynumber: 5.2 Consensus size: 10
108114 TGAAAAAAGG
108124 AAAAATTAAT
1 AAAAATTAAT
*
108134 AAAAGTTAAT
1 AAAAATTAAT
108144 AAAAATATTAAT
1 -AAAA-ATTAAT
*
108156 AATAA-TAAT
1 AAAAATTAAT
108165 AAAAA-TAAT
1 AAAAATTAAT
108174 AA
1 AA
108176 TCATAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 14 0.39
10 10 0.28
11 7 0.19
12 5 0.14
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (10 bp):
AAAAATTAAT
Found at i:108164 original size:21 final size:21
Alignment explanation
Indices: 108124--108194 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
108114 TGAAAAAAGG
108124 AAAA-ATTAATAA-AAGTTAATA
1 AAAATATTAATAATAA--TAATA
108145 AAAATATTAATAATAATAATA
1 AAAATATTAATAATAATAATA
* *
108166 AAAATAATAATCATAAATAA-A
1 AAAATATTAATAAT-AATAATA
*
108187 TAAATATT
1 AAAATATT
108195 TTTTTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
21 28 0.65
22 13 0.30
23 2 0.05
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (21 bp):
AAAATATTAATAATAATAATA
Found at i:108192 original size:18 final size:18
Alignment explanation
Indices: 108140--108182 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
108130 TAATAAAAGT
*
108140 TAATAAAAATATTAATAA
1 TAATAAAAATAATAATAA
108158 TAATAATAAA-AATAATAA
1 TAATAA-AAATAATAATAA
*
108176 TCATAAA
1 TAATAAA
108183 TAAATAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 18 0.82
19 3 0.14
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
TAATAAAAATAATAATAA
Found at i:110538 original size:27 final size:28
Alignment explanation
Indices: 110492--110582 Score: 89
Period size: 27 Copynumber: 3.3 Consensus size: 28
110482 ATTACTAGAG
*
110492 TATTATATTAATATTAAATACGTAAATAA
1 TATTAT-TTAATATTAAATAAGTAAATAA
* * *
110521 TATTATTTATTATT-AATAATTTAATAA
1 TATTATTTAATATTAAATAAGTAAATAA
*
110548 TATTATTT-CTATTAAATTAA-TAAATAA
1 TATTATTTAATATTAAA-TAAGTAAATAA
*
110575 TATAATTT
1 TATTATTT
110583 TATTAATATT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.08
27 33 0.62
28 10 0.19
29 6 0.11
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (28 bp):
TATTATTTAATATTAAATAAGTAAATAA
Found at i:110593 original size:27 final size:27
Alignment explanation
Indices: 110514--110598 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 27
110504 ATTAAATACG
* *
110514 TAAATAATATTA-TTTATTATTAATAA
1 TAAATAATATTATTTTATTAATATTAA
*
110540 TTTAATAATATTATTTCTATTAA-ATTAA
1 -TAAATAATATTATTT-TATTAATATTAA
* *
110568 TAAATAATATAATTTTATTAATATTAT
1 TAAATAATATTATTTTATTAATATTAA
110595 TAAA
1 TAAA
110599 ATAAAAAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
26 6 0.12
27 32 0.65
28 6 0.12
29 5 0.10
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (27 bp):
TAAATAATATTATTTTATTAATATTAA
Found at i:112143 original size:351 final size:351
Alignment explanation
Indices: 111500--112203 Score: 1318
Period size: 351 Copynumber: 2.0 Consensus size: 351
111490 CATTATTCAG
*
111500 TAGAATAAACAAAGTATGAACCTAAGAAATCACTTAAGATGCTTCCATGAAACAACAAAATGATG
1 TAGAATAAACAAAGTATGAACCTAAGAAATCACTTAAGATACTTCCATGAAACAACAAAATGATG
* * *
111565 AATCCACCATGCACTTGAGATGCTTCGTGTCAGCTTTTGAATAAGATTATCCACCATGTGCTTTC
66 AATCCACCATGCACTTGAGATGCTTCGTGTCAGCTGTTGAATAAGATAACCCACCATGTGCTTTC
*
111630 ATGCTGCCTAGATACGAACCAACTTTGTACCTAAGACACAATAATGAAATTAGTGATCATAGTAG
131 ATGCTGCCTAGATACGAACCAACTTTATACCTAAGACACAATAATGAAATTAGTGATCATAGTAG
111695 ATATCCAAAAGTATTCAACACAAACAACAAAATCAAAATCGAAAGAAAAGAGGAGAAATAATAAA
196 ATATCCAAAAGTATTCAACACAAACAACAAAATCAAAATCGAAAGAAAAGAGGAGAAATAATAAA
*
111760 GACCAACCTCAGTCCATTTAACAATAGATTTGCCAACCCGAGCCGAGGATGGATTGCAAAGATAA
261 GACCAACCTCAGTCCATTTAACAATAGATTTGCCAACCCGAGCCGAGGATGGACTGCAAAGATAA
111825 TATTGCATCTCAGTCCAAACTATAAT
326 TATTGCATCTCAGTCCAAACTATAAT
111851 TAGAATAAACAAAGTATGAACCTAAGAAATCACTTAAGATACTTCCATGAAACAACAAAATGATG
1 TAGAATAAACAAAGTATGAACCTAAGAAATCACTTAAGATACTTCCATGAAACAACAAAATGATG
*
111916 AATCCACCATGCACTTGAGATGCTTTGTGTCAGCTGTTGAATAAGATAACCCACCATGTGCTTTC
66 AATCCACCATGCACTTGAGATGCTTCGTGTCAGCTGTTGAATAAGATAACCCACCATGTGCTTTC
* *
111981 ATGCTTCCTATATACGAACCAACTTTATACCTAAGACACAATAATGAAATTAGTGATCATAGTAG
131 ATGCTGCCTAGATACGAACCAACTTTATACCTAAGACACAATAATGAAATTAGTGATCATAGTAG
112046 ATATCCAAAAGTATTCAACACAAACAACAAAATCAAAATCGAAAGAAAAGAGGAGAAATAATAAA
196 ATATCCAAAAGTATTCAACACAAACAACAAAATCAAAATCGAAAGAAAAGAGGAGAAATAATAAA
112111 GACCAACCTCAGTCCATTTAACAATAGATTTGCCAACCCGAGCCGAGGATGGACTGCAAAGATAA
261 GACCAACCTCAGTCCATTTAACAATAGATTTGCCAACCCGAGCCGAGGATGGACTGCAAAGATAA
*
112176 TATTGCATCTCAGTCCAAACTGTAAT
326 TATTGCATCTCAGTCCAAACTATAAT
112202 TA
1 TA
112204 TTAAACAAAC
Statistics
Matches: 343, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
351 343 1.00
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.24
Consensus pattern (351 bp):
TAGAATAAACAAAGTATGAACCTAAGAAATCACTTAAGATACTTCCATGAAACAACAAAATGATG
AATCCACCATGCACTTGAGATGCTTCGTGTCAGCTGTTGAATAAGATAACCCACCATGTGCTTTC
ATGCTGCCTAGATACGAACCAACTTTATACCTAAGACACAATAATGAAATTAGTGATCATAGTAG
ATATCCAAAAGTATTCAACACAAACAACAAAATCAAAATCGAAAGAAAAGAGGAGAAATAATAAA
GACCAACCTCAGTCCATTTAACAATAGATTTGCCAACCCGAGCCGAGGATGGACTGCAAAGATAA
TATTGCATCTCAGTCCAAACTATAAT
Found at i:112214 original size:18 final size:17
Alignment explanation
Indices: 112191--112225 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
112181 CATCTCAGTC
*
112191 CAAACTGTAATTATTAAA
1 CAAACTGAAATT-TTAAA
112209 CAAACTGAAATTTTAAA
1 CAAACTGAAATTTTAAA
112226 TGAAAAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.31
Consensus pattern (17 bp):
CAAACTGAAATTTTAAA
Found at i:119629 original size:27 final size:27
Alignment explanation
Indices: 119599--119661 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
119589 ATCAAATATT
* *
119599 TATTTTTTAAAAGGACA-AGAATTAGAA
1 TATTTTTTAAAAAGACACAG-ATTAAAA
* *
119626 TATTTTTAAAAAATACACAGATTAAAA
1 TATTTTTTAAAAAGACACAGATTAAAA
119653 TATTTTTTA
1 TATTTTTTA
119662 GAATATTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 28 0.93
28 2 0.07
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.40
Consensus pattern (27 bp):
TATTTTTTAAAAAGACACAGATTAAAA
Found at i:122631 original size:10 final size:10
Alignment explanation
Indices: 122616--122668 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 10
122606 CATTTAATAA
122616 ATAAACGAAC
1 ATAAACGAAC
122626 ATAAACGAAC
1 ATAAACGAAC
122636 ----ACGAAC
1 ATAAACGAAC
122642 ATAAACGAAC
1 ATAAACGAAC
122652 ----ACGAAC
1 ATAAACGAAC
122658 ATAAACGAAC
1 ATAAACGAAC
122668 A
1 A
122669 AAATTTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 16
0.69 0.00 0.31
Matches are distributed among these distances:
6 12 0.34
10 23 0.66
ACGTcount: A:0.58, C:0.23, G:0.11, T:0.08
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:122641 original size:16 final size:16
Alignment explanation
Indices: 122620--122668 Score: 98
Period size: 16 Copynumber: 3.1 Consensus size: 16
122610 TAATAAATAA
122620 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
122636 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
122652 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
122668 A
1 A
122669 AAATTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.57, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:122755 original size:16 final size:16
Alignment explanation
Indices: 122734--122788 Score: 101
Period size: 16 Copynumber: 3.4 Consensus size: 16
122724 CATTTAATAA
122734 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
122750 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
*
122766 ATAAATGAACACGAAC
1 ATAAACGAACACGAAC
122782 ATAAACG
1 ATAAACG
122789 TTGGAGACCC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.56, C:0.22, G:0.13, T:0.09
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:123516 original size:14 final size:13
Alignment explanation
Indices: 123499--123574 Score: 65
Period size: 14 Copynumber: 6.0 Consensus size: 13
123489 GATTGGGTTA
123499 AACATAATCGAACG
1 AACATAA-CGAACG
123513 AACAT-A--AACG
1 AACATAACGAACG
123523 AACATAATCGAACG
1 AACATAA-CGAACG
123537 AACAT-A--AACG
1 AACATAACGAACG
*
123547 AACATAACCAAACG
1 AACATAA-CGAACG
123561 AACATAACCGAACG
1 AACATAA-CGAACG
123575 TTCACGAACC
Statistics
Matches: 53, Mismatches: 1, Indels: 16
0.76 0.01 0.23
Matches are distributed among these distances:
10 18 0.34
11 2 0.04
13 2 0.04
14 31 0.58
ACGTcount: A:0.54, C:0.24, G:0.12, T:0.11
Consensus pattern (13 bp):
AACATAACGAACG
Found at i:123526 original size:24 final size:24
Alignment explanation
Indices: 123499--123573 Score: 123
Period size: 24 Copynumber: 3.1 Consensus size: 24
123489 GATTGGGTTA
123499 AACATAATCGAACGAACATAAACG
1 AACATAATCGAACGAACATAAACG
123523 AACATAATCGAACGAACATAAACG
1 AACATAATCGAACGAACATAAACG
* * *
123547 AACATAACCAAACGAACATAACCG
1 AACATAATCGAACGAACATAAACG
123571 AAC
1 AAC
123574 GTTCACGAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.55, C:0.24, G:0.11, T:0.11
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:123572 original size:10 final size:10
Alignment explanation
Indices: 123509--123553 Score: 54
Period size: 10 Copynumber: 4.1 Consensus size: 10
123499 AACATAATCG
123509 AACGAACATA
1 AACGAACATA
123519 AACGAACATAA
1 AACGAACAT-A
123530 TCGAACGAACATA
1 ---AACGAACATA
123543 AACGAACATA
1 AACGAACATA
123553 A
1 A
123554 CCAAACGAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 20 0.65
11 1 0.03
13 1 0.03
14 9 0.29
ACGTcount: A:0.58, C:0.20, G:0.11, T:0.11
Consensus pattern (10 bp):
AACGAACATA
Done.