Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006641.1 Hibiscus syriacus cultivar Beakdansim tig00016354_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: 78101
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:545 original size:35 final size:35
Alignment explanation
Indices: 484--569 Score: 109
Period size: 35 Copynumber: 2.5 Consensus size: 35
474 CTTAGGTCCG
* * *
484 TAAGGAATTACCAGCTTATCAATGTTGTACTTATA
1 TAAGGAATTACCAGCTAATCAATGTTGAACCTATA
* **
519 TAAGAAATTACCAGCTAATCGGTGTTGAACCTATA
1 TAAGGAATTACCAGCTAATCAATGTTGAACCTATA
*
554 TAAGGTATTACCAGCT
1 TAAGGAATTACCAGCT
570 TGATCAAAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (35 bp):
TAAGGAATTACCAGCTAATCAATGTTGAACCTATA
Found at i:5221 original size:35 final size:35
Alignment explanation
Indices: 5174--5261 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 35
5164 GGTCTGTAAG
** *
5174 GAATTACCAGCTGATCGGTGTTGAACCTATATAAA
1 GAATTACCAGCTGATCAATGTTAAACCTATATAAA
* * *
5209 GAATTACTAGCTGATCAATTTTAAACCTATATAAG
1 GAATTACCAGCTGATCAATGTTAAACCTATATAAA
**
5244 GTGTTACCAGCTTGATCA
1 GAATTACCAGC-TGATCA
5262 GAGCTGAACC
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
35 37 0.86
36 6 0.14
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (35 bp):
GAATTACCAGCTGATCAATGTTAAACCTATATAAA
Found at i:7186 original size:11 final size:11
Alignment explanation
Indices: 7170--7219 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
7160 GCAGAAAAAA
7170 TCAATGGTCGG
1 TCAATGGTCGG
*
7181 TCAATGG-CAG
1 TCAATGGTCGG
*
7191 TGAATGGTCGG
1 TCAATGGTCGG
7202 TCAACT-GTCGG
1 TCAA-TGGTCGG
7213 TCAATGG
1 TCAATGG
7220 CCAACGGTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
10 9 0.28
11 22 0.69
12 1 0.03
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.26
Consensus pattern (11 bp):
TCAATGGTCGG
Found at i:15668 original size:55 final size:55
Alignment explanation
Indices: 15589--16010 Score: 569
Period size: 55 Copynumber: 7.7 Consensus size: 55
15579 TGCAAAAAGT
* ** * ** *
15589 TAAGAAATTCATAATTTGTTTATGAATTTCCGTATAAGCACTTTGTATGCAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
* * *
15644 TAATAAATTCATACTAAGTGTATGAATTTCCGTATGAGCACTTTGTGTGGAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
* * *
15699 TAAGAAATTCATACTAAGTGTATGTATTTCCATATGGGCACTTTGTATGCAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
* * *
15754 TAAGAAATTCATACTAAGTGTAT-AGATTTTCGTATAGGAACTTTGTGTGCAAAAC
1 TAAGAAATTCATACTAAGTGTATGA-ATTTCCGTATGGGCACTTTGTGTGCAAAAC
* * * **
15809 TAAGAAATTCATACTACGCGTATGAATTTCCATATGGATACTTTGTGTGCAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
* * *
15864 TAAGAAATTCATACTACGCGTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
* * *
15919 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTATGTGTGC-GAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
*
15973 TAAGAAATCCATACTAAGTGTATGAATTTCCGTATGGG
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
16011 AAATATATGT
Statistics
Matches: 328, Mismatches: 37, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
54 39 0.12
55 288 0.88
56 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (55 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
Found at i:16054 original size:109 final size:110
Alignment explanation
Indices: 15589--16062 Score: 368
Period size: 110 Copynumber: 4.3 Consensus size: 110
15579 TGCAAAAAGT
** ** ** * * * *
15589 TAAGAAATTCATAATTTGTTTATGAATT-TCCGTATAAGCACTTTGTATGCAAAACTAATAAATT
1 TAAGAAATTCATAATAAGAGTATGAATTGT-CGTATGGGCACTATGTGTGCAAAACTAAGAAATC
* * * * * * *
15653 CATACTAAGTGTATGAATTTCCGTATGAGCACTTTGTGTGGAAAAC
65 CATACTAAGCGTATGAATTTCCGTATGGGAAATATATGTGCAAAAC
* * * * * * *
15699 TAAGAAATTCATACTAAGTGTATGTATT-TCCATATGGGCACTTTGTATGCAAAACTAAGAAATT
1 TAAGAAATTCATAATAAGAGTATGAATTGT-CGTATGGGCACTATGTGTGCAAAACTAAGAAATC
* * * * * *
15763 CATACTAAGTGTAT-AGATTTTCGTATAGGAACTTTGTGTGCAAAAC
65 CATACTAAGCGTATGA-ATTTCCGTATGGGAAATATATGTGCAAAAC
* * * * ** * *
15809 TAAGAAATTCATACTACGCGTATGAATT-TCCATATGGATACTTTGTGTGCAAAACTAAGAAATT
1 TAAGAAATTCATAATAAGAGTATGAATTGT-CGTATGGGCACTATGTGTGCAAAACTAAGAAATC
* * * * * *
15873 CATACTACGCGTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAC
65 CATACTAAGCGTATGAATTTCCGTATGGGAAATATATGTGCAAAAC
* * * *
15919 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTATGTGTGC-GAACTAAGAAATCC
1 TAAGAAATTCATAATAAGAGTATGAATTGTCGTATGGGCACTATGTGTGCAAAACTAAGAAATCC
* *
15983 ATACTAAGTGTATGAATTTCCGTATGGGAAATATATGTGCAATTA-
66 ATACTAAGCGTATGAATTTCCGTATGGGAAATATATGTGCAA-AAC
* * *
16028 TCAGAAGTTCATAATAAGAAG-GTGAATTGTCGTAT
1 TAAGAAATTCATAATAAG-AGTATGAATTGTCGTAT
16063 TGGTAGCGGG
Statistics
Matches: 313, Mismatches: 46, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
109 75 0.24
110 236 0.75
111 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (110 bp):
TAAGAAATTCATAATAAGAGTATGAATTGTCGTATGGGCACTATGTGTGCAAAACTAAGAAATCC
ATACTAAGCGTATGAATTTCCGTATGGGAAATATATGTGCAAAAC
Found at i:19548 original size:29 final size:29
Alignment explanation
Indices: 19456--19542 Score: 156
Period size: 29 Copynumber: 3.0 Consensus size: 29
19446 TTGACCCGAC
19456 CCGAACAGCTGACCCGACCCGTATCCGGT
1 CCGAACAGCTGACCCGACCCGTATCCGGT
*
19485 CCGAACAGCTGACCCGACCCGTATCCGAT
1 CCGAACAGCTGACCCGACCCGTATCCGGT
*
19514 CCGAACAGCTGACCCGACCCATATCCGGT
1 CCGAACAGCTGACCCGACCCGTATCCGGT
19543 TTGAACTATT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.23, C:0.41, G:0.22, T:0.14
Consensus pattern (29 bp):
CCGAACAGCTGACCCGACCCGTATCCGGT
Found at i:20376 original size:44 final size:44
Alignment explanation
Indices: 20322--20535 Score: 295
Period size: 44 Copynumber: 4.8 Consensus size: 44
20312 GGAAGTATTT
20322 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTATCG
1 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTATCG
* *
20366 CAGACTCCTCTGCTATGTGCAAGGGTAAGTCCTTATCGTTA-CTG
1 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTATC-G
* * *
20410 CAGGCTACTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTTTCC
1 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTATCG
* *
20454 CAGGCTCCTCTGCTATGTGCAATGGTAAGTTCTTACCGTTTATCG
1 CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCG-TTATCG
* * * *
20499 CAGGCTCCTCTACTTTGTGCACAGGATAAGACCTTAC
1 CAGGCTCCTCTGCTATGTGCA-AGGGTAAGTCCTTAC
20536 TGCAGGCTCC
Statistics
Matches: 148, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
43 1 0.01
44 112 0.76
45 24 0.16
46 11 0.07
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (44 bp):
CAGGCTCCTCTGCTATGTGCAAGGGTAAGTCCTTACCGTTATCG
Found at i:26985 original size:21 final size:21
Alignment explanation
Indices: 26961--27015 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
26951 CAAGAGTTCA
*
26961 TGATGATCATCAAAAGAAACT
1 TGATGATCATAAAAAGAAACT
*
26982 TGATGATCTTAAAAAGAAACT
1 TGATGATCATAAAAAGAAACT
*
27003 TGATGATCTTAAA
1 TGATGATCATAAA
27016 GCTTCTTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (21 bp):
TGATGATCATAAAAAGAAACT
Found at i:37519 original size:21 final size:19
Alignment explanation
Indices: 37486--37526 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
37476 TTCATCAAGG
*
37486 TCTTTGTGGAGGCCATGAAA
1 TCTTTGTCGAGGCCAT-AAA
37506 TCTTTCGTCGAGGCCATAAA
1 TCTTT-GTCGAGGCCATAAA
37526 T
1 T
37527 TACTGCAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (19 bp):
TCTTTGTCGAGGCCATAAA
Found at i:42750 original size:18 final size:19
Alignment explanation
Indices: 42727--42764 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
42717 TCAAAACATG
*
42727 CCTTGA-AGTATCGATACT
1 CCTTGAGAGTACCGATACT
42745 CCTTGATGAGTACCGATACT
1 CCTTGA-GAGTACCGATACT
42765 ACTATACGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (19 bp):
CCTTGAGAGTACCGATACT
Found at i:48099 original size:21 final size:21
Alignment explanation
Indices: 48075--48114 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
48065 GTTAGAAGTA
48075 TAATTAGATGAGTTACAAAAG
1 TAATTAGATGAGTTACAAAAG
*
48096 TAATTATATGAGTTACAAA
1 TAATTAGATGAGTTACAAA
48115 CTGCTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.33
Consensus pattern (21 bp):
TAATTAGATGAGTTACAAAAG
Found at i:51054 original size:25 final size:25
Alignment explanation
Indices: 51002--51055 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
50992 ATATGCCACT
* *
51002 GTAT-ATATATATACTTATGCATAT
1 GTATAATATATATACTTATACATAA
*
51026 GTATAATATATATACTTATATATAA
1 GTATAATATATATACTTATACATAA
51051 GTATA
1 GTATA
51056 TATGCCTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (25 bp):
GTATAATATATATACTTATACATAA
Found at i:53015 original size:2 final size:2
Alignment explanation
Indices: 53008--53041 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
52998 AAGTATAGTA
53008 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
53042 TGTGTACTTT
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:53726 original size:21 final size:22
Alignment explanation
Indices: 53692--53733 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
53682 ACATAGAAAA
53692 TAAATTAAACTTATA-AATATT
1 TAAATTAAACTTATATAATATT
**
53713 TAAATTAATTTTATATAATAT
1 TAAATTAAACTTATATAATAT
53734 AATAAAGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TAAATTAAACTTATATAATATT
Found at i:53953 original size:20 final size:20
Alignment explanation
Indices: 53925--53977 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
53915 GATTTTCCAT
*
53925 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACAT-ATA
*
53945 AATCACAACGCGAACATATA
1 AATCGCAACGCGAACATATA
53965 AATCGCAACGCGA
1 AATCGCAACGCGA
53978 TTCTGACTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.45, C:0.25, G:0.17, T:0.13
Consensus pattern (20 bp):
AATCGCAACGCGAACATATA
Found at i:54029 original size:81 final size:80
Alignment explanation
Indices: 53925--54156 Score: 225
Period size: 81 Copynumber: 2.9 Consensus size: 80
53915 GATTTTCCAT
* ** * * * *
53925 AATCGCAACGCGAATATGAAAATCACAACGCGAACATATAAATCGCAACGCG-ATTCTG-ACTAT
1 AATCGCAACGCGTATCCGTAAATCACAACGAGAACACATAAATCGCAACGCGTA-TCTGTA-AAT
* * *
53988 CGCAACGAGTATCCGTAA
64 CGCAACGAGAATACAT-A
* * *
54006 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATCGCAACGCGTATCTGTAAATCG
1 AATCGCAACGCGTATCCGTAAATCACAACGAGAACACATAAATCGCAACGCGTATCTGTAAATCG
54071 CAACGAGAATACATA
66 CAACGAGAATACATA
* * * * * ** *
54086 AATCGCAATGTGTATCCGTAAATCACAACGACAATACGTAAAATCGCAACTTGTATCCGTAAATC
1 AATCGCAACGCGTATCCGTAAATCACAACGAGAACACAT-AAATCGCAACGCGTATCTGTAAATC
54151 GCAACG
65 GCAACG
54157 CGATTTTTAA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
80 36 0.28
81 90 0.70
82 2 0.02
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (80 bp):
AATCGCAACGCGTATCCGTAAATCACAACGAGAACACATAAATCGCAACGCGTATCTGTAAATCG
CAACGAGAATACATA
Found at i:54030 original size:20 final size:20
Alignment explanation
Indices: 53986--54158 Score: 168
Period size: 20 Copynumber: 8.6 Consensus size: 20
53976 GATTCTGACT
*
53986 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGTATCCGT-AA
54007 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
54027 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
*
54047 ATCGCAACGCGTATCTGTAA
1 ATCGCAACGCGTATCCGTAA
* * * *
54067 ATCGCAACGAGAATACATAA
1 ATCGCAACGCGTATCCGTAA
* *
54087 ATCGCAATGTGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
54107 ATCACAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
**
54128 ATCGCAACTTGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
54148 ATCGCAACGCG
1 ATCGCAACGCG
54159 ATTTTTAAAG
Statistics
Matches: 119, Mismatches: 30, Indels: 7
0.76 0.19 0.04
Matches are distributed among these distances:
20 88 0.74
21 31 0.26
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:54060 original size:40 final size:41
Alignment explanation
Indices: 53986--54156 Score: 238
Period size: 40 Copynumber: 4.2 Consensus size: 41
53976 GATTCTGACT
* *
53986 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
54027 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * *
54067 ATCGCAACGAGAATACAT-AAATCGCAATGTGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * **
54107 ATCACAACGACAATACGTAAAATCGCAACTTGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
54148 ATCGCAACG
1 ATCGCAACG
54157 CGATTTTTAA
Statistics
Matches: 116, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
40 72 0.62
41 44 0.38
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:54767 original size:20 final size:20
Alignment explanation
Indices: 54718--54758 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
54708 TTCTAAACTT
*
54718 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
54738 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
54758 A
1 A
54759 CTATCGCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.56, C:0.17, G:0.15, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:54819 original size:19 final size:19
Alignment explanation
Indices: 54795--54839 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
54785 GGAATGAGAG
**
54795 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAACCAA
54814 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
54833 AATCGCA
1 AATCGCA
54840 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.47, C:0.27, G:0.18, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:54857 original size:19 final size:19
Alignment explanation
Indices: 54835--54966 Score: 139
Period size: 19 Copynumber: 7.1 Consensus size: 19
54825 GAAACCAAAA
*
54835 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
54854 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
54873 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
54892 TCGTGTTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
**
54908 T--CGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
54925 TCCGCGTTTCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
*
54945 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
54965 TC
1 TC
54967 AACCAAAAGA
Statistics
Matches: 93, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
14 7 0.08
16 4 0.04
17 5 0.05
19 47 0.51
20 29 0.31
21 1 0.01
ACGTcount: A:0.12, C:0.21, G:0.20, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:54943 original size:20 final size:21
Alignment explanation
Indices: 54909--54966 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
54899 GCGATTCTGT
**
54909 CGTTGCGATAGTCATTTC-CG
1 CGTTGCGATTTTCATTTCTCG
* *
54929 CGTTTCGATTTTCA-TTCTCT
1 CGTTGCGATTTTCATTTCTCG
54949 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
54967 AACCAAAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 3 0.10
20 25 0.81
21 3 0.10
ACGTcount: A:0.12, C:0.24, G:0.17, T:0.47
Consensus pattern (21 bp):
CGTTGCGATTTTCATTTCTCG
Found at i:56970 original size:21 final size:21
Alignment explanation
Indices: 56946--57012 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
56936 TCATTCCTCG
56946 AGAGTCCCCTCTCACCGTTCA
1 AGAGTCCCCTCTCACCGTTCA
* * * * *
56967 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCTCACCGTTCA
* *
56988 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCTCACCGTTCA
57009 AGAG
1 AGAG
57013 CCCGATTCAC
Statistics
Matches: 33, Mismatches: 12, Indels: 3
0.69 0.25 0.06
Matches are distributed among these distances:
20 1 0.03
21 31 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (21 bp):
AGAGTCCCCTCTCACCGTTCA
Found at i:58357 original size:14 final size:14
Alignment explanation
Indices: 58338--58370 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
58328 GTTTAATTGT
58338 TTTGTAAAAGATGA
1 TTTGTAAAAGATGA
*
58352 TTTGTAAAAGTTGA
1 TTTGTAAAAGATGA
58366 TTTGT
1 TTTGT
58371 TTAATTGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (14 bp):
TTTGTAAAAGATGA
Found at i:58499 original size:19 final size:17
Alignment explanation
Indices: 58477--58568 Score: 61
Period size: 19 Copynumber: 5.4 Consensus size: 17
58467 AAAAATGATT
58477 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAAT-AAA
* *
58496 ATCGCAA-CG--AGAGA
1 ATCGCAAGCGAAATAAA
*
58510 ATCGCAATGCAAAATTAAA
1 ATCGCAA-GCGAAA-TAAA
58529 ATCGCAA-CG-AA-AAA
1 ATCGCAAGCGAAATAAA
58543 ATCGCAACGCGAAACTAAA
1 ATCGCAA-GCGAAA-TAAA
58562 ATCGCAA
1 ATCGCAA
58569 CGTGAAACTA
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 19 0.33
15 1 0.02
16 5 0.09
17 5 0.09
18 1 0.02
19 26 0.46
ACGTcount: A:0.49, C:0.21, G:0.17, T:0.13
Consensus pattern (17 bp):
ATCGCAAGCGAAATAAA
Found at i:58519 original size:33 final size:32
Alignment explanation
Indices: 58477--58570 Score: 125
Period size: 33 Copynumber: 2.8 Consensus size: 32
58467 AAAAATGATT
* *
58477 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAAT-AAAATCGCAACGAAAAA
*
58510 ATCGCAATGCAAAATTAAAATCGCAACGAAAAA
1 ATCGCAATGCGAAA-TAAAATCGCAACGAAAAA
*
58543 ATCGCAACGCGAAACTAAAATCGCAACG
1 ATCGCAATGCGAAA-TAAAATCGCAACG
58571 TGAAACTAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 53 0.98
34 1 0.02
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.13
Consensus pattern (32 bp):
ATCGCAATGCGAAATAAAATCGCAACGAAAAA
Found at i:58569 original size:19 final size:19
Alignment explanation
Indices: 58540--58580 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
58530 TCGCAACGAA
58540 AAAATCGCAACGCGAAACT
1 AAAATCGCAACGCGAAACT
*
58559 AAAATCGCAACGTGAAACT
1 AAAATCGCAACGCGAAACT
58578 AAA
1 AAA
58581 TTCGAGTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.51, C:0.22, G:0.15, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACT
Found at i:58697 original size:20 final size:19
Alignment explanation
Indices: 58651--58758 Score: 82
Period size: 20 Copynumber: 5.8 Consensus size: 19
58641 GCGATTCTCT
**
58651 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
58670 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
**
58690 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
58709 CATTGCGAT--TC---TCT
1 CGTTGCGATAGTCATTTCG
*
58723 CGTTGCGATAGTAATTTCCG
1 CGTTGCGATAGTCATTT-CG
*
58743 CGTTGCGATAGACATT
1 CGTTGCGATAGTCATT
58759 AAGATGATTG
Statistics
Matches: 69, Mismatches: 13, Indels: 13
0.73 0.14 0.14
Matches are distributed among these distances:
14 10 0.14
16 1 0.01
17 2 0.03
19 25 0.36
20 31 0.45
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.40
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:58717 original size:72 final size:71
Alignment explanation
Indices: 58586--58758 Score: 230
Period size: 72 Copynumber: 2.5 Consensus size: 71
58576 CTAAATTCGA
*
58586 GTTGCGATTTTCATTTCGCATTGCGAT--TC---CCTCGTTGCAATTTTCATTTCGCATTGCGAT
1 GTTGCGATTTTCATTTCGCATTGCGATAGTCATTCCGCGTTGCAATTTTCATTTCGCATTGCGAT
58646 TCTCTC
66 TCTCTC
*
58652 GTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCGCGTTGCGATTTTCATTTCGCATTGCGA
1 GTTGCGATTTTCATTTCGCATTGCGATAGTCA-TTCCGCGTTGCAATTTTCATTTCGCATTGCGA
58717 TTCTCTC
65 TTCTCTC
** * * *
58724 GTTGCGATAGTAATTTCCGCGTTGCGATAGACATT
1 GTTGCGATTTTCATTT-CGCATTGCGATAGTCATT
58759 AAGATGATTG
Statistics
Matches: 93, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
66 27 0.29
68 2 0.02
72 50 0.54
73 14 0.15
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.42
Consensus pattern (71 bp):
GTTGCGATTTTCATTTCGCATTGCGATAGTCATTCCGCGTTGCAATTTTCATTTCGCATTGCGAT
TCTCTC
Found at i:58740 original size:33 final size:33
Alignment explanation
Indices: 58586--58731 Score: 211
Period size: 33 Copynumber: 4.2 Consensus size: 33
58576 CTAAATTCGA
*
58586 GTTGCGATTTTCATTTCGCATTGCGATTCCCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
*
58619 GTTGCAATTTTCATTTCGCATTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
*
58652 GTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCGC
1 GTTGCGATTTTCATTTCGCATTGCGAT--TC---T-CTC
58691 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
58724 GTTGCGAT
1 GTTGCGAT
58732 AGTAATTTCC
Statistics
Matches: 102, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
33 67 0.66
34 1 0.01
35 2 0.02
37 2 0.02
38 1 0.01
39 29 0.28
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (33 bp):
GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
Found at i:62196 original size:20 final size:19
Alignment explanation
Indices: 62175--62434 Score: 139
Period size: 20 Copynumber: 12.9 Consensus size: 19
62165 GCAATAGTCA
*
62175 GAATCTCGTTGCGATTTAC
1 GAATCGCGTTGCGATTTAC
* * *
62194 AGATTCGCATTGTGATTTAC
1 -GAATCGCGTTGCGATTTAC
* *
62214 GTATTCGCATTGCGATTTAC
1 G-AATCGCGTTGCGATTTAC
* * *
62234 GGATACGCATTGCGATTTAT
1 GAAT-CGCGTTGCGATTTAC
* *
62254 GTATTCTCGTTGCGATTTA-
1 G-AATCGCGTTGCGATTTAC
*
62273 TAGATACGCGTTGCGATTTAC
1 GA-AT-CGCGTTGCGATTTAC
62294 -AGATACGCGTTGCGATTTAC
1 GA-AT-CGCGTTGCGATTTAC
* *
62314 GTATTCTCGTTGCGATTTAC
1 G-AATCGCGTTGCGATTTAC
*
62334 GGATACGCGTTGCGATTTTAC
1 GAAT-CGCGTTGCGA-TTTAC
* **
62355 GTATTTTCGTTGCGATTTAC
1 G-AATCGCGTTGCGATTTAC
* *
62375 GGATACGCGTTACGATTTTAC
1 GAAT-CGCGTTGCGA-TTTAC
* * *
62396 GGATGCTCGTTGCGATAGT-C
1 GAAT-CGCGTTGCGAT-TTAC
62416 AGAATCGCGTTGCGATTTA
1 -GAATCGCGTTGCGATTTA
62435 TATGTTCGTG
Statistics
Matches: 188, Mismatches: 36, Indels: 32
0.73 0.14 0.12
Matches are distributed among these distances:
18 1 0.01
19 6 0.03
20 142 0.76
21 37 0.20
22 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (19 bp):
GAATCGCGTTGCGATTTAC
Found at i:62271 original size:60 final size:59
Alignment explanation
Indices: 62183--62351 Score: 214
Period size: 60 Copynumber: 2.8 Consensus size: 59
62173 CAGAATCTCG
* * * * * *
62183 TTGCGATTTACAG-ATTCGCATTGTGATTTACGTATTCGCATTGCGATTTACGGATACGCA
1 TTGCGATTTAC-GTATTCTCGTTGCGATTTACG-ATACGCGTTGCGATTTACAGATACGCA
* * *
62243 TTGCGATTTATGTATTCTCGTTGCGATTTATAGATACGCGTTGCGATTTACAGATACGCG
1 TTGCGATTTACGTATTCTCGTTGCGATTTA-CGATACGCGTTGCGATTTACAGATACGCA
62303 TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCGTTGCGATTT
1 TTGCGATTTACGTATTCTCGTTGCGATTTAC-GATACGCGTTGCGATTT
62352 TACGTATTTT
Statistics
Matches: 95, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
59 1 0.01
60 93 0.98
61 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (59 bp):
TTGCGATTTACGTATTCTCGTTGCGATTTACGATACGCGTTGCGATTTACAGATACGCA
Found at i:62366 original size:41 final size:41
Alignment explanation
Indices: 62181--62411 Score: 213
Period size: 40 Copynumber: 5.7 Consensus size: 41
62171 GTCAGAATCT
* * * * *
62181 CGTTGCGA-TTTACAG-ATTCGCATTGTGATTTACGTATTCG
1 CGTTGCGATTTTAC-GTATTCTCGTTGCGATTTACGGATACG
* * * * * * * * *
62221 CATTGCGA-TTTACGGATACGCATTGCGATTTATGTATTCT
1 CGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACG
* * *
62261 CGTTGCGATTTATA-G-ATACGCGTTGCGATTTACAGATACG
1 CGTTGCGATTT-TACGTATTCTCGTTGCGATTTACGGATACG
62301 CGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATACG
1 CGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACG
*
62341 CGTTGCGATTTTACGTATTTTCGTTGCGATTTACGGATACG
1 CGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACG
* * *
62382 CGTTACGATTTTACGGATGCTCGTTGCGAT
1 CGTTGCGATTTTACGTATTCTCGTTGCGAT
62412 AGTCAGAATC
Statistics
Matches: 165, Mismatches: 20, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 4 0.02
40 97 0.59
41 60 0.36
42 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACG
Found at i:62447 original size:20 final size:20
Alignment explanation
Indices: 62420--62472 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
62410 ATAGTCAGAA
*
62420 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
*
62440 TCGTGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
62460 TCGCGTTGCGATT
1 TCGCGTTGCGATT
62473 CTGGAAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:62575 original size:20 final size:19
Alignment explanation
Indices: 62522--62575 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
62512 ATTCTTCATA
62522 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* ** *
62541 AACTGATTTGTGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
62562 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
62576 TTTATTTCGC
Statistics
Matches: 25, Mismatches: 8, Indels: 3
0.69 0.22 0.08
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.35
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:63544 original size:13 final size:13
Alignment explanation
Indices: 63526--63556 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
63516 GTGCTCGAGA
63526 TGTCTTCGTCATC
1 TGTCTTCGTCATC
63539 TGTCTTCGTCATC
1 TGTCTTCGTCATC
63552 TGTCT
1 TGTCT
63557 CCGAGGATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.29, G:0.16, T:0.48
Consensus pattern (13 bp):
TGTCTTCGTCATC
Found at i:64663 original size:45 final size:45
Alignment explanation
Indices: 64581--64800 Score: 372
Period size: 45 Copynumber: 4.9 Consensus size: 45
64571 CATTTATCCC
*
64581 ATATACTTACCATTTATTACCATAAGCTTGTAAGCTTATTTTACCA
1 ATATACTTACCATTTATT-CCATAAGCTCGTAAGCTTATTTTACCA
64627 ATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCA
1 ATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCA
*
64672 ATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACAA
1 ATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCA
64717 ATATACTTACCATTTATTCCATAAGC-CTGTAAGCTTATTTTACCA
1 ATATACTTACCATTTATTCCATAAGCTC-GTAAGCTTATTTTACCA
* *
64762 ATATACTTGCCA-TTATTCTATAAGCTCGTAAGCTTATTT
1 ATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
64801 GCTAGTTTTT
Statistics
Matches: 167, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
44 25 0.15
45 124 0.74
46 18 0.11
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.41
Consensus pattern (45 bp):
ATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCA
Found at i:64961 original size:40 final size:40
Alignment explanation
Indices: 64882--64962 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
64872 ATAGGAGTCA
* * * *
64882 AATATTGCACCGAAGTGCTGAGGTCGAGCTTTGCTCACCT
1 AATAATGCACCGAAGTGCTGAGGTCGAGATTTACCCACCT
* * *
64922 AATAATGCACCGTAGTGCTGAGGTTGGGATTTACCCACCT
1 AATAATGCACCGAAGTGCTGAGGTCGAGATTTACCCACCT
64962 A
1 A
64963 GTACACCGTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (40 bp):
AATAATGCACCGAAGTGCTGAGGTCGAGATTTACCCACCT
Found at i:74245 original size:45 final size:46
Alignment explanation
Indices: 74177--74279 Score: 163
Period size: 46 Copynumber: 2.3 Consensus size: 46
74167 TTAATCAAGG
* * *
74177 CTTTTGATTATTGGGTTGTCAAAAG-TAAAATCAAAGGATTAGTTC
1 CTTTTGATTATTAGGTTGGCAAAAGTTAAAACCAAAGGATTAGTTC
*
74222 CTTTTGATTATTATGTTGGCAAAAGTTAAAACCAAAGGATTAGTTC
1 CTTTTGATTATTAGGTTGGCAAAAGTTAAAACCAAAGGATTAGTTC
74268 CTTTTGATTATT
1 CTTTTGATTATT
74280 GGGCTGCGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 22 0.42
46 31 0.58
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (46 bp):
CTTTTGATTATTAGGTTGGCAAAAGTTAAAACCAAAGGATTAGTTC
Found at i:74704 original size:57 final size:58
Alignment explanation
Indices: 74494--74997 Score: 438
Period size: 58 Copynumber: 8.8 Consensus size: 58
74484 TATCTTGCGT
* * * *
74494 TGATTCTAAATTTGTAAGGGAAATAAATTATTAAATTTTATTTTCTTAAGAATCTTAAA
1 TGATTCTAACTTTGTAAGGAAAATAAATTATTGAA-TTTATTTTCTTGAGAATCTTAAA
* *
74553 TGATTCTAACTTTGTAA-GTAAATAAATCATTGAA-TTATTTTCTTGAGAATC-TAGAA
1 TGATTCTAACTTTGTAAGGAAAATAAATTATTGAATTTATTTTCTTGAGAATCTTA-AA
* * * * *
74609 TGATTC-AACTTTGTTAGGGAAATAAATTATTGGA-TTATTTCCTTGATAATCTTAAA
1 TGATTCTAACTTTGTAAGGAAAATAAATTATTGAATTTATTTTCTTGAGAATCTTAAA
* ** * *
74665 TGATTCTAACTTTGTAAGCAAAAT-AATCGTTGAATTTATTTCCTTGAGAAT-GTAGAA
1 TGATTCTAACTTTGTAAGGAAAATAAATTATTGAATTTATTTTCTTGAGAATCTTA-AA
* * * * * *
74722 TGATTCTAACCTTGTTAGGGAAATAAATTATTAAATTTATTTCCTTGAGAATCATAAA
1 TGATTCTAACTTTGTAAGGAAAATAAATTATTGAATTTATTTTCTTGAGAATCTTAAA
* * * * * *
74780 TGATTCTAACTTAGTAAGGAAAATAAATTGTCGAATTT-TTTTCTTGAGAACCGTGAA
1 TGATTCTAACTTTGTAAGGAAAATAAATTATTGAATTTATTTTCTTGAGAATCTTAAA
* ** * * *
74837 TGATTCTATCTTT-TAAAAAGAAATAAATTGTTAAATTTATTTTCTTTAGAATCTTAAA
1 TGATTCTAACTTTGTAAGGA-AAATAAATTATTGAATTTATTTTCTTGAGAATCTTAAA
* * * ** * * *
74895 TGATTCT-ATTTTATAAAAGTTAATAAATTGTTAAATTTATTTTCTTCAGAATCTTAAA
1 TGATTCTAACTTTGT-AAGGAAAATAAATTATTGAATTTATTTTCTTGAGAATCTTAAA
* * * * *
74953 TGATTAT-ATTTTCTTAAAGG-AAATAAATTGTTAAATTTATTTTCT
1 TGATTCTAACTTT-GT-AAGGAAAATAAATTATTGAATTTATTTTCT
74998 CGGTGATCTT
Statistics
Matches: 374, Mismatches: 58, Indels: 27
0.81 0.13 0.06
Matches are distributed among these distances:
55 11 0.03
56 74 0.20
57 98 0.26
58 165 0.44
59 26 0.07
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (58 bp):
TGATTCTAACTTTGTAAGGAAAATAAATTATTGAATTTATTTTCTTGAGAATCTTAAA
Found at i:74797 original size:115 final size:115
Alignment explanation
Indices: 74494--74994 Score: 495
Period size: 115 Copynumber: 4.4 Consensus size: 115
74484 TATCTTGCGT
** * * *
74494 TGATTCTAAATTTGTAAGGGAAATAAATTATTAAATTTTATTTTCTTAAGAATCTTAAATGATTC
1 TGATTCTAACCTTGTTAGGGAAATAAATTATTAAA-TTTATTTCCTTGAGAATCTTAAATGATTC
* * *
74559 TAACTTTGTAAGTAAATAAATCATTGAA-TTATTTTCTTGAGAATCTAGAA
65 TAACTTTGTAAGAAAATAAATCGTTGAATTTATTTTCTTGAGAATGTAGAA
* ** *
74609 TGATTC-AACTTTGTTAGGGAAATAAATTATTGGA-TTATTTCCTTGATAATCTTAAATGATTCT
1 TGATTCTAACCTTGTTAGGGAAATAAATTATTAAATTTATTTCCTTGAGAATCTTAAATGATTCT
*
74672 AACTTTGTAAGCAAAAT-AATCGTTGAATTTATTTCCTTGAGAATGTAGAA
66 AACTTTGTAAG-AAAATAAATCGTTGAATTTATTTTCTTGAGAATGTAGAA
*
74722 TGATTCTAACCTTGTTAGGGAAATAAATTATTAAATTTATTTCCTTGAGAATCATAAATGATTCT
1 TGATTCTAACCTTGTTAGGGAAATAAATTATTAAATTTATTTCCTTGAGAATCTTAAATGATTCT
* * * *
74787 AACTTAGTAAGGAAAATAAATTGTCGAATTT-TTTTCTTGAGAACCGT-GAA
66 AACTTTGTAA-GAAAATAAATCGTTGAATTTATTTTCTTGAGAA-TGTAGAA
* ** * * *
74837 TGATTCT-ATCTT-TTAAAAAGAAATAAATTGTTAAATTTATTTTCTTTAGAATCTTAAATGATT
1 TGATTCTAACCTTGTT--AGGGAAATAAATTATTAAATTTATTTCCTTGAGAATCTTAAATGATT
* * * * * *
74900 CT-ATTTTATAA-AAGTTAATAAATTGTTAAATTTATTTTCTTCAGAATCTTA-AA
64 CTAACTTTGTAAGAA---AATAAATCGTTGAATTTATTTTCTTGAGAAT-GTAGAA
* ** * * *
74953 TGATTAT-ATTTTCTTAAAGGAAATAAATTGTTAAATTTATTT
1 TGATTCTAACCTTGTT-AGGGAAATAAATTATTAAATTTATTT
74995 TCTCGGTGAT
Statistics
Matches: 331, Mismatches: 39, Indels: 31
0.83 0.10 0.08
Matches are distributed among these distances:
112 48 0.15
113 32 0.10
114 59 0.18
115 126 0.38
116 64 0.19
117 2 0.01
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (115 bp):
TGATTCTAACCTTGTTAGGGAAATAAATTATTAAATTTATTTCCTTGAGAATCTTAAATGATTCT
AACTTTGTAAGAAAATAAATCGTTGAATTTATTTTCTTGAGAATGTAGAA
Found at i:75221 original size:37 final size:38
Alignment explanation
Indices: 75153--75251 Score: 96
Period size: 37 Copynumber: 2.6 Consensus size: 38
75143 TTATTTTATG
* *
75153 TTTTGTGAAAGGAAATAAATCATTGATTTATTTCT-TA
1 TTTTATGAAAGGAAATAAATCATTGACTTATTTCTCTA
*
75190 TTTTATGAAAGG-AATAAAT-AGTTGAGCTTATTTTTCTA
1 TTTTATGAAAGGAAATAAATCA-TTGA-CTTATTTCTCTA
* * * *
75228 TTTTGTAAAATGCAATAAATCATT
1 TTTTATGAAAGGAAATAAATCATT
75252 AAATTAATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
35 1 0.02
36 11 0.22
37 18 0.35
38 11 0.22
39 9 0.18
40 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.44
Consensus pattern (38 bp):
TTTTATGAAAGGAAATAAATCATTGACTTATTTCTCTA
Done.