Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007568.1 Hibiscus syriacus cultivar Beakdansim tig00021537_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: 110398
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:375 original size:86 final size:86
Alignment explanation
Indices: 273--435 Score: 240
Period size: 86 Copynumber: 1.9 Consensus size: 86
263 AATTAATAAG
* *
273 GGTTAAAGTAATTATTTATTCAAATATTAGG-GCTCTTTTACCCTAAAATAAAAAATTGA-GGTC
1 GGTTAAAGTAACTATTTATTCAAATATTAGGATC-CTTTTACCCT-AAATAAAAAATTGATGGTC
336 AAAATATTCCAAAATAAATAATA
64 AAAATATTCCAAAATAAATAATA
* * *
359 GGTTAAAGTAACTATTTGTTCAAATATTAGGATCCTTTTACCCTAAATGAAATATTGATGGTCAA
1 GGTTAAAGTAACTATTTATTCAAATATTAGGATCCTTTTACCCTAAATAAAAAATTGATGGTCAA
*
424 AATATTCTAAAA
66 AATATTCCAAAA
436 AATAGGCTTA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
85 12 0.17
86 56 0.81
87 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (86 bp):
GGTTAAAGTAACTATTTATTCAAATATTAGGATCCTTTTACCCTAAATAAAAAATTGATGGTCAA
AATATTCCAAAATAAATAATA
Found at i:1802 original size:18 final size:16
Alignment explanation
Indices: 1781--1811 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1771 GCTTCTAATT
1781 TTTTTTGAGTTCAAGC
1 TTTTTTGAGTTCAAGC
1797 TTTTTTGAGTTCAAG
1 TTTTTTGAGTTCAAG
1812 TTTCAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (16 bp):
TTTTTTGAGTTCAAGC
Found at i:3737 original size:2 final size:2
Alignment explanation
Indices: 3730--3756 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3720 ATATACTAAT
3730 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
3757 CCATAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19749 original size:2 final size:2
Alignment explanation
Indices: 19740--19768 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19730 ACACATAAAT
19740 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19769 GAGAGAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:19773 original size:2 final size:2
Alignment explanation
Indices: 19768--19794 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19758 ATATATATAT
19768 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
19795 TTAAGTACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:28399 original size:22 final size:23
Alignment explanation
Indices: 28364--28410 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
28354 AACCCTAAAC
28364 AAGCCCAAAAATCGTATCTGCTA
1 AAGCCCAAAAATCGTATCTGCTA
*
28387 AAGCCC-AAAATCGTATCTTCTA
1 AAGCCCAAAAATCGTATCTGCTA
28409 AA
1 AA
28411 CTCGCGATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (23 bp):
AAGCCCAAAAATCGTATCTGCTA
Found at i:30791 original size:15 final size:15
Alignment explanation
Indices: 30771--30803 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
30761 AGTGACAGCT
30771 AAACGAAAAGGAGAG
1 AAACGAAAAGGAGAG
30786 AAACGAAAAGGAGAG
1 AAACGAAAAGGAGAG
30801 AAA
1 AAA
30804 AAAAGCCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.30, T:0.00
Consensus pattern (15 bp):
AAACGAAAAGGAGAG
Found at i:30807 original size:13 final size:14
Alignment explanation
Indices: 30771--30808 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
30761 AGTGACAGCT
30771 AAACGAAAAGGAGAG
1 AAAC-AAAAGGAGAG
30786 AAACGAAAAGGAGAG
1 AAAC-AAAAGGAGAG
30801 AAA-AAAAG
1 AAACAAAAG
30809 CCCCAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 5 0.22
15 18 0.78
ACGTcount: A:0.66, C:0.05, G:0.29, T:0.00
Consensus pattern (14 bp):
AAACAAAAGGAGAG
Found at i:33257 original size:18 final size:18
Alignment explanation
Indices: 33234--33279 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
33224 ATGAGGCGGT
*
33234 ATTTTTTTTTTAATTTTA
1 ATTTTTTTTATAATTTTA
*
33252 ATTTTTTATATAATTTTA
1 ATTTTTTTTATAATTTTA
*
33270 ATTTATTTTA
1 ATTTTTTTTA
33280 ACTTTTTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTTTTTTATAATTTTA
Found at i:35988 original size:11 final size:11
Alignment explanation
Indices: 35972--36004 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
35962 AAACAATAAG
35972 ATAAAGGAATT
1 ATAAAGGAATT
35983 ATAAAGGAATT
1 ATAAAGGAATT
*
35994 ATGAAGGAATT
1 ATAAAGGAATT
36005 TGCAATATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.27
Consensus pattern (11 bp):
ATAAAGGAATT
Found at i:36336 original size:21 final size:21
Alignment explanation
Indices: 36310--36354 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
36300 GATTTCTGGG
* *
36310 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
36331 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
36352 CAA
1 CAA
36355 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:37847 original size:25 final size:26
Alignment explanation
Indices: 37813--37861 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
37803 GTAGAGGGTT
37813 TACGCGGTCCTTCGGGATA-ATATTC
1 TACGCGGTCCTTCGGGATATATATTC
37838 TACGCGGTCCTTCGGGATATATAT
1 TACGCGGTCCTTCGGGATATATAT
37862 ATATTCTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.33
Consensus pattern (26 bp):
TACGCGGTCCTTCGGGATATATATTC
Found at i:38013 original size:23 final size:23
Alignment explanation
Indices: 37968--38013 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
37958 CATCATTATA
*
37968 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTATACG
* *
37991 TGGCACTTCGGTGCATTTATACG
1 TGGCACTACGGTGCAATTATACG
38014 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:41325 original size:21 final size:21
Alignment explanation
Indices: 41299--41343 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
41289 GATTTCTGGG
* *
41299 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
41320 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
41341 CAA
1 CAA
41344 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:43003 original size:23 final size:23
Alignment explanation
Indices: 42959--43003 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
42949 ATCATTATAT
*
42959 GGCACTACGGTACAATTCTACGC
1 GGCACTACGGTACAATTATACGC
* * *
42982 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTACAATTATACG
43004 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTACAATTATACGC
Found at i:45416 original size:21 final size:22
Alignment explanation
Indices: 45380--45420 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
45370 ATTTTAAATT
*
45380 AATTTAAATTATATATTTTATA
1 AATTTAAATAATATATTTTATA
45402 AATTTAAA-AATATATTTTA
1 AATTTAAATAATATATTTTA
45421 CTTAGAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATTTAAATAATATATTTTATA
Found at i:45488 original size:14 final size:13
Alignment explanation
Indices: 45471--45516 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
45461 ATTAGTGATT
45471 TTAATTTTATATTA
1 TTAATTTTA-ATTA
*
45485 TTAATTTTAATTT
1 TTAATTTTAATTA
*
45498 TTAATTCTTAACTA
1 TTAATT-TTAATTA
45512 TTAAT
1 TTAAT
45517 ATTTTTATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 9 0.32
14 19 0.68
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (13 bp):
TTAATTTTAATTA
Found at i:45508 original size:20 final size:20
Alignment explanation
Indices: 45455--45498 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
45445 TATTTTAATT
* *
45455 TTTTATATTAGTGATTTTAA
1 TTTTATATTATTAATTTTAA
45475 TTTTATATTATTAATTTTAA
1 TTTTATATTATTAATTTTAA
45495 TTTT
1 TTTT
45499 TAATTCTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTATATTATTAATTTTAA
Found at i:48676 original size:30 final size:30
Alignment explanation
Indices: 48640--48704 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
48630 GGCATTATAA
48640 GGGGTTTGAATCTTTTCTTTGATTCTCAAT
1 GGGGTTTGAATCTTTTCTTTGATTCTCAAT
*
48670 GGGGTTTGAATCTTTTCTTTGATTCTCAGT
1 GGGGTTTGAATCTTTTCTTTGATTCTCAAT
48700 GGGGT
1 GGGGT
48705 GGCAAAGGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.14, C:0.12, G:0.26, T:0.48
Consensus pattern (30 bp):
GGGGTTTGAATCTTTTCTTTGATTCTCAAT
Found at i:52909 original size:2 final size:2
Alignment explanation
Indices: 52902--52943 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
52892 TAAGCCTAAT
52902 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
52944 ATAGTTATGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:53731 original size:2 final size:2
Alignment explanation
Indices: 53726--53771 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
53716 ACACACACAC
53726 AT AT AT AT 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 AT AT AT AT
53768 AT AT
1 AT AT
53772 CACATTCACT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53852 original size:2 final size:2
Alignment explanation
Indices: 53836--53868 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
53826 CAAGTAATAT
53836 AC AC A- AC ATC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC A-C AC AC AC AC AC AC AC AC AC AC AC A
53869 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 26 0.90
3 2 0.07
ACGTcount: A:0.52, C:0.45, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:53873 original size:2 final size:2
Alignment explanation
Indices: 53868--53909 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
53858 ACACACACAC
53868 AT AT AT AT 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 AT AT AT AT
53910 CACATTCAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53891 original size:140 final size:138
Alignment explanation
Indices: 53639--53917 Score: 531
Period size: 140 Copynumber: 2.0 Consensus size: 138
53629 AAAATTATAT
53639 ACTCTTATACATAACATTCGTACGTAATCATCATATTATACAGTAACCAAGTAATATACACAACA
1 ACTCTTATACATAACATTCGTACGTAATCATCATATTATACAGTAACCAAGTAATATACACAACA
*
53704 TCACACACACACACACACACACATATATATATATATATATATATATATATATATATATATATATA
66 TCACACACACACACACACACAC--ACATATATATATATATATATATATATATATATATATATATA
53769 TATCACATTC
129 TATCACATTC
53779 ACTCTTATACATAACATTCGTACGTAATCATCATATTATACAGTAACCAAGTAATATACACAACA
1 ACTCTTATACATAACATTCGTACGTAATCATCATATTATACAGTAACCAAGTAATATACACAACA
53844 TCACACACACACACACACACACACATATATATATATATATATATATATATATATATATATATATA
66 TCACACACACACACACACACACACATATATATATATATATATATATATATATATATATATATATA
53909 TCACATTC
131 TCACATTC
53917 A
1 A
53918 GTGTATTTAT
Statistics
Matches: 138, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
138 51 0.37
140 87 0.63
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (138 bp):
ACTCTTATACATAACATTCGTACGTAATCATCATATTATACAGTAACCAAGTAATATACACAACA
TCACACACACACACACACACACACATATATATATATATATATATATATATATATATATATATATA
TCACATTC
Found at i:54076 original size:23 final size:23
Alignment explanation
Indices: 54050--54130 Score: 85
Period size: 23 Copynumber: 3.6 Consensus size: 23
54040 ATAGATTTTG
* * *
54050 TCCCGAAGGACCACGTAGAAATT
1 TCCCGAATGACCACGTAAAAATA
54073 TCCCGAATGACCACGTAAAAATA
1 TCCCGAATGACCACGTAAAAATA
* * * *
54096 TCCTGAATGACCAC--ATATATG
1 TCCCGAATGACCACGTAAAAATA
54117 TCCCGAATGACCAC
1 TCCCGAATGACCAC
54131 TCTTTAAGGA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
21 17 0.34
23 33 0.66
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.20
Consensus pattern (23 bp):
TCCCGAATGACCACGTAAAAATA
Found at i:56263 original size:187 final size:184
Alignment explanation
Indices: 55940--56487 Score: 603
Period size: 187 Copynumber: 2.9 Consensus size: 184
55930 ATATGTTGAC
* * * * * * *
55940 AAATAAGTTGAAAGCTCAAAATGTTATCAATCGTGGTGAGAAATCCAGTTGCGCCAATAATTGTT
1 AAATAAATTGAAAGCTGAAAATGTTATCAATCGTGGTAAGAAATCCGGTTGCACCCATGATTGTT
* * * * *
56005 AGTGTTTGATAAGAAAGTAAATTGAGATTGGGTTTATCATAAGTTGCTTTAACAAATCTGATTTC
66 AG-CTTT-ATAAGAAAGTAAGTTGAGATCGGGTTTATTATAAGTTGCTTTAACAAATCAG-TTTC
* **
56070 GACCGAAAATGTTACCAGAGTTTAGCAAATGAGTTCATCAAAATTCGGACGATAACA
128 GACCGAAAATGTTACCAGAGTTTAACAAATGAGTTCATCAAAATAAGGACGATAACA
*
56127 AAATAAATTGAAAGCTGAAAATGTTATCAATCGTGGTAAGAAATCCGGTTGCTCCCATGATTGTT
1 AAATAAATTGAAAGCTGAAAATGTTATCAATCGTGGTAAGAAATCCGGTTGCACCCATGATTGTT
* *
56192 AGCTTTCAGTAAGAAAGTAAGTTGAGATCGGGTTTGTTATAAGTTGCTTTAACAAATCCAGTTTG
66 AGCTTT-A-TAAGAAAGTAAGTTGAGATCGGGTTTATTATAAGTTGCTTTAACAAAT-CAGTTTC
* * * * * * * *
56257 GACCGAAGATGATACCAGACTTTACCAAATGGGTTCATCAAAACAAGGATGGTAACA
128 GACCGAAAATGTTACCAGAGTTTAACAAATGAGTTCATCAAAATAAGGACGATAACA
* * * * * * * * *
56314 AAATAAATTGAAAGATGGAAATGTTATCAAACATGGTAAGAAATTCGATTACACTCATGATTATT
1 AAATAAATTGAAAGCTGAAAATGTTATCAATCGTGGTAAGAAATCCGGTTGCACCCATGATTGTT
* * * * *
56379 AGCGTTTAATAAGAAATTAAGTTGAGATCGTGTTTATTATAAGTTGCTTTATCAACTTCAGTTTT
66 AGC-TTT-ATAAGAAAGTAAGTTGAGATCGGGTTTATTATAAGTTGCTTTAACAA-ATCAGTTTC
* * * *
56444 GACTGAAAATATTA-CATAAGTTTAACAAACGAGTTCATCAAAAT
128 GACCGAAAATGTTACCA-GAGTTTAACAAATGAGTTCATCAAAAT
56488 CAGTTGAAAA
Statistics
Matches: 304, Mismatches: 52, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
186 6 0.02
187 291 0.96
188 7 0.02
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (184 bp):
AAATAAATTGAAAGCTGAAAATGTTATCAATCGTGGTAAGAAATCCGGTTGCACCCATGATTGTT
AGCTTTATAAGAAAGTAAGTTGAGATCGGGTTTATTATAAGTTGCTTTAACAAATCAGTTTCGAC
CGAAAATGTTACCAGAGTTTAACAAATGAGTTCATCAAAATAAGGACGATAACA
Found at i:57013 original size:135 final size:135
Alignment explanation
Indices: 56823--57122 Score: 375
Period size: 135 Copynumber: 2.2 Consensus size: 135
56813 ATAATTATCG
* ** * *
56823 TTTCACGATAAGTATCGGTACTTGTAACTAAATATTGATACTTACTTATAACCTAAAATGTAATC
1 TTTCACGACAAGTATCAATACTTGTAACTAAATATCGATACTTACTTACAACCTAAAATGTAATC
* * * *
56888 GAGTCCAACATAAAATGTTATATATTTGGTAACATTTTCGATTGCAACGTTAAATGTTATATAAT
66 CAGTCCAACATAAAATGTTATATATTTGGTAACATTTTCAATTGCAACCTAAAATGTTATATAAT
56953 ACTTA
131 ACTTA
* * * ** *
56958 TTTCACGACAAGTATTAATACTTGTAACTAAGTATCGATACTTAGTTACGTCCTAAAATGTTATC
1 TTTCACGACAAGTATCAATACTTGTAACTAAATATCGATACTTACTTACAACCTAAAATGTAATC
*
57023 CAGTCCAACATAAAATGTTATATTTTTGGTAACATTTTCAATTGCAACCTAAAATGTTTAATGTA
66 CAGTCCAACATAAAATGTTATATATTTGGTAACATTTTCAATTGCAACCTAAAATG-TT-A--TA
*
57088 GTTCAGTACTTA
127 --T-AATACTTA
*
57100 TTTCACGATAAGTATCAATACTT
1 TTTCACGACAAGTATCAATACTT
57123 AGTTACAACC
Statistics
Matches: 139, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
135 105 0.76
136 2 0.01
137 1 0.01
139 2 0.01
141 1 0.01
142 28 0.20
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (135 bp):
TTTCACGACAAGTATCAATACTTGTAACTAAATATCGATACTTACTTACAACCTAAAATGTAATC
CAGTCCAACATAAAATGTTATATATTTGGTAACATTTTCAATTGCAACCTAAAATGTTATATAAT
ACTTA
Found at i:57153 original size:22 final size:23
Alignment explanation
Indices: 57123--57165 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
57113 ATCAATACTT
57123 AGTTACAACCTAAAATGTTATTC
1 AGTTACAACCTAAAATGTTATTC
57146 AGTT-CAACCTAAAATGTTAT
1 AGTTACAACCTAAAATGTTAT
57166 ATATTTGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (23 bp):
AGTTACAACCTAAAATGTTATTC
Found at i:57578 original size:65 final size:64
Alignment explanation
Indices: 57501--57638 Score: 181
Period size: 65 Copynumber: 2.1 Consensus size: 64
57491 CATACCTATT
* * *
57501 TCGAATGCATTTTGTGTACCGA-AGCACA-AGCCATGCATCGATGCACTCTTGAATATTTTGAAA
1 TCGAATGCATTTTGGGTACCGATA-CACAGA-CCATGCATCGATGCACTCCTGAAT-CTTTGAAA
57564 CA
63 CA
* **
57566 TCGAATGTATTTTGGGTACCGATACACAGACCATGCATCGATGCACTCCTGGCTCTTTGAAACA
1 TCGAATGCATTTTGGGTACCGATACACAGACCATGCATCGATGCACTCCTGAATCTTTGAAACA
57630 TCGAATGCA
1 TCGAATGCA
57639 ATTAGTGTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
64 17 0.27
65 45 0.70
66 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (64 bp):
TCGAATGCATTTTGGGTACCGATACACAGACCATGCATCGATGCACTCCTGAATCTTTGAAACA
Found at i:66115 original size:65 final size:64
Alignment explanation
Indices: 66040--66195 Score: 215
Period size: 65 Copynumber: 2.4 Consensus size: 64
66030 CACACCCATT
* *
66040 TCGAATGCATTTTGTGTACCGATGCACA-AGCCATGCATCGATGCACTCTTGAATATTTTGAAAC
1 TCGAATGCATTTTGTGTACCGATGCACAGA-CCATGCATCGATGCACTCCTGAAT-CTTTGAAAC
66104 A
64 A
**
66105 TCGAATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCCTGGCTCTTTGAAACA
1 TCGAATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCCTGAATCTTTGAAACA
* * * *
66169 TCGAATGTAATTAGTGTATCGATGCAC
1 TCGAATGCATTTTGTGTACCGATGCAC
66196 CCCTAGTGTA
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
64 32 0.39
65 49 0.60
66 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (64 bp):
TCGAATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCCTGAATCTTTGAAACA
Found at i:72517 original size:16 final size:16
Alignment explanation
Indices: 72496--72526 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
72486 GACACAATAA
*
72496 TATTTTTTATTTTTTT
1 TATTTTGTATTTTTTT
72512 TATTTTGTATTTTTT
1 TATTTTGTATTTTTT
72527 GATAAGAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (16 bp):
TATTTTGTATTTTTTT
Found at i:76911 original size:28 final size:28
Alignment explanation
Indices: 76874--76931 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
76864 TAAACTTATC
**
76874 TTTTTGGTCAAAATATGTACCTAAAATA
1 TTTTTGGTCAAAATAAATACCTAAAATA
*
76902 TTTTTGGTCAAAATAAATACCTAAAGTA
1 TTTTTGGTCAAAATAAATACCTAAAATA
76930 TT
1 TT
76932 CAATTTTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (28 bp):
TTTTTGGTCAAAATAAATACCTAAAATA
Found at i:77072 original size:31 final size:31
Alignment explanation
Indices: 77014--77074 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
77004 AAAAAGATTG
*
77014 AATACTTTAAATACCTATTTTGACCAAAAAA
1 AATACTTTAAATACCTAGTTTGACCAAAAAA
** * *
77045 AATACTTTAGGTATCTAGTTTGGCCAAAAA
1 AATACTTTAAATACCTAGTTTGACCAAAAA
77075 GATAGGCTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (31 bp):
AATACTTTAAATACCTAGTTTGACCAAAAAA
Found at i:77188 original size:27 final size:27
Alignment explanation
Indices: 77129--77182 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
77119 AATAGATGAA
77129 AAAATAATATACTTTAGGTGCTAATTT
1 AAAATAATATACTTTAGGTGCTAATTT
77156 AAAATAATATACTTTAGGTGCTAATTT
1 AAAATAATATACTTTAGGTGCTAATTT
77183 GTAATATTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (27 bp):
AAAATAATATACTTTAGGTGCTAATTT
Found at i:77769 original size:12 final size:12
Alignment explanation
Indices: 77754--77808 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
77744 GTTATTTAAA
77754 CGGGTATTGGGC
1 CGGGTATTGGGC
*
77766 CGGGTATTGGGT
1 CGGGTATTGGGC
77778 CGGGTATTGGGC
1 CGGGTATTGGGC
* * *
77790 CGAGAATCGGGC
1 CGGGTATTGGGC
77802 CGGGTAT
1 CGGGTAT
77809 ATATATATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.13, C:0.16, G:0.47, T:0.24
Consensus pattern (12 bp):
CGGGTATTGGGC
Found at i:77943 original size:13 final size:13
Alignment explanation
Indices: 77913--77961 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
77903 TTTAATATTT
*
77913 ATCGGGTCGGGT-
1 ATCGGGGCGGGTA
77925 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
*
77938 ATCGGGGTGGGTA
1 ATCGGGGCGGGTA
77951 ATCGGGGCGGG
1 ATCGGGGCGGG
77962 GATTATCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
12 11 0.33
13 22 0.67
ACGTcount: A:0.12, C:0.14, G:0.55, T:0.18
Consensus pattern (13 bp):
ATCGGGGCGGGTA
Found at i:82750 original size:15 final size:15
Alignment explanation
Indices: 82728--82809 Score: 103
Period size: 15 Copynumber: 5.5 Consensus size: 15
82718 TTCCAGAAAA
82728 TGAATTACTGGAATT
1 TGAATTACTGGAATT
*
82743 TAAATTACTGGAATT
1 TGAATTACTGGAATT
**
82758 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
*
82773 TGAATTACTGAAATT
1 TGAATTACTGGAATT
**
82788 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
82802 TGAATTAC
1 TGAATTAC
82810 ATTTCTGTAA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
14 11 0.20
15 45 0.80
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.35
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:82788 original size:45 final size:44
Alignment explanation
Indices: 82723--82809 Score: 129
Period size: 45 Copynumber: 2.0 Consensus size: 44
82713 TGGTTTTCCA
* **
82723 GAAAATGAATTACTGGAATTTAAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTGAAATTTAAATT-CTGGAAAATGAATTACTG
*
82768 GAAAATGAATTACTGAAATTTGAATTCTGGAAAATGAATTAC
1 GAAAATGAATTACTGAAATTTAAATTCTGGAAAATGAATTAC
82810 ATTTCTGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
44 14 0.37
45 24 0.63
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (44 bp):
GAAAATGAATTACTGAAATTTAAATTCTGGAAAATGAATTACTG
Found at i:82807 original size:29 final size:30
Alignment explanation
Indices: 82728--82809 Score: 121
Period size: 30 Copynumber: 2.8 Consensus size: 30
82718 TTCCAGAAAA
** * *
82728 TGAATTACTGGAATTTAAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGAAATT
82758 TGAATTACTGGAAAATGAATTACTGAAATT
1 TGAATTACTGGAAAATGAATTACTGAAATT
82788 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
82810 ATTTCTGTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 16 0.33
30 32 0.67
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGAAATT
Found at i:82815 original size:20 final size:20
Alignment explanation
Indices: 82792--82861 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
82782 GAAATTTGAA
82792 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
82812 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
82832 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
82852 TTCTGGAAAA
1 TTCTGGAAAA
82862 CATCTGGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:83084 original size:28 final size:27
Alignment explanation
Indices: 83029--83093 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
83019 TTTACTAAAA
*
83029 TATTATTGAAATATATAAATAATATTAT
1 TATTATT-AAATATATAAAAAATATTAT
83057 TCATTATTAAATATATAAAAAA-ATTTAT
1 T-ATTATTAAATATATAAAAAATA-TTAT
83085 TATATATTA
1 TAT-TATTA
83094 TTAAAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 3 0.09
28 24 0.73
29 6 0.18
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (27 bp):
TATTATTAAATATATAAAAAATATTAT
Found at i:83119 original size:31 final size:32
Alignment explanation
Indices: 83029--83126 Score: 84
Period size: 31 Copynumber: 3.2 Consensus size: 32
83019 TTTACTAAAA
*
83029 TATTATTGAAATATAT--AAATA-ATATTAT-T
1 TATTATT-AAATATATAAAAAAATATATTATAT
* *
83058 CATTATTAAATATATAAAAAAATTTATTATA-
1 TATTATTAAATATATAAAAAAATATATTATAT
*
83089 TATTATTAAA-ATA-AAAATATAATATCTTATAT
1 TATTATTAAATATATAAAA-A-AATATATTATAT
83121 TATTAT
1 TATTAT
83127 AATATAATTG
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
28 8 0.14
29 10 0.18
30 8 0.14
31 24 0.43
32 6 0.11
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (32 bp):
TATTATTAAATATATAAAAAAATATATTATAT
Found at i:83176 original size:34 final size:33
Alignment explanation
Indices: 83117--83214 Score: 91
Period size: 31 Copynumber: 3.1 Consensus size: 33
83107 ATAATATCTT
* *
83117 ATATTATTATAATATA-ATTGATTATTTTATATA
1 ATATTAATA-AATATATATTAATTATTTTATATA
83150 ATATTAA-AAATATTATATT-A-TATTATTATA-A
1 ATATTAATAAATA-TATATTAATTATT-TTATATA
* *
83181 ATATTAATAAATATATTTTAAATATTTTA-ATA
1 ATATTAATAAATATATATTAATTATTTTATATA
83213 AT
1 AT
83215 TAATATTTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 15
0.77 0.03 0.21
Matches are distributed among these distances:
31 22 0.39
32 21 0.38
33 13 0.23
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (33 bp):
ATATTAATAAATATATATTAATTATTTTATATA
Found at i:83194 original size:22 final size:21
Alignment explanation
Indices: 83117--83206 Score: 62
Period size: 22 Copynumber: 4.2 Consensus size: 21
83107 ATAATATCTT
*
83117 ATATTATTATAATATAATTGAT-T
1 ATATTA-TATAATAT-ATT-ATAA
* *
83140 ATTTTATAT-A-ATATTAAAA
1 ATATTATATAATATATTATAA
*
83159 ATATTATATTATATTATTATAA
1 ATATTATATAATA-TATTATAA
*
83181 ATATTA-ATAAATATATTTTAA
1 ATATTATAT-AATATATTATAA
83202 ATATT
1 ATATT
83207 TTAATAATTA
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
18 1 0.02
19 11 0.20
20 3 0.05
21 16 0.29
22 19 0.35
23 5 0.09
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (21 bp):
ATATTATATAATATATTATAA
Found at i:83205 original size:52 final size:51
Alignment explanation
Indices: 83086--83206 Score: 124
Period size: 52 Copynumber: 2.3 Consensus size: 51
83076 AAAATTTATT
* **
83086 ATATATTATTAAA-A-TAAAAATATAATATCTTATATTATTATAATATAATTG
1 ATATATT-TTAAATATTAAAAATAT-ATATATTATATTATTATAATATAATAA
83137 AT-TATTTTATATAATATTAAAAATAT-TATATTATATTATTATAAATATTAATAA
1 ATATA-TTT-TA-AATATTAAAAATATATATATTATATTATTAT-AATA-TAATAA
83191 ATATATTTTAAATATT
1 ATATATTTTAAATATT
83207 TTAATAATTA
Statistics
Matches: 59, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 23 0.39
53 7 0.12
54 18 0.31
55 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (51 bp):
ATATATTTTAAATATTAAAAATATATATATTATATTATTATAATATAATAA
Found at i:83454 original size:42 final size:42
Alignment explanation
Indices: 83395--83514 Score: 213
Period size: 42 Copynumber: 2.9 Consensus size: 42
83385 ATGAATTACA
*
83395 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
83437 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
* *
83479 TTCCGTAAAACGAATTACGTGAAACAAACACTGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
83515 TTCGGGGAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:85286 original size:64 final size:64
Alignment explanation
Indices: 85140--85294 Score: 145
Period size: 64 Copynumber: 2.4 Consensus size: 64
85130 GAAGGTGTAT
* *** * * *
85140 CGATGCACAAGTAGTGCATCGATACACTCTTTTAATCTAAAAACATCGAATGCAATTGGTGCAT
1 CGATGCACAAGTAGTGCATCGATGCACTCCAGTAATCAAAAAACATCGAATGCAATTGATGCAC
* * * * *
85204 CGATGCATAAGGCA-TGCATCGATGCA-TCCCAGTAAT-AAACAAACATCGAATGTATTTTATGC
1 CGATGCACAA-GTAGTGCATCGATGCACT-CCAGTAATCAAA-AAACATCGAATGCAATTGATGC
85266 AC
63 AC
*
85268 CGATGCACAAGTAGTGCATTGATGCAC
1 CGATGCACAAGTAGTGCATCGATGCAC
85295 CGATAGGGAA
Statistics
Matches: 71, Mismatches: 15, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
63 5 0.07
64 64 0.90
65 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (64 bp):
CGATGCACAAGTAGTGCATCGATGCACTCCAGTAATCAAAAAACATCGAATGCAATTGATGCAC
Found at i:86182 original size:103 final size:103
Alignment explanation
Indices: 85998--86223 Score: 364
Period size: 103 Copynumber: 2.2 Consensus size: 103
85988 GTCGAGGGTC
* * *
85998 TATGTGGTCCTTCGGGACATATATGTATTTTTTGGAACATGTGTGAAATCTGGTGAGATACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAATCTGGTGAGACACATAC
* * *
86063 TTGATCCTTGGCATATGTATATTATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
86101 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAATCTGGTGAGACACATAC
*
86166 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
86204 TATGTGGTCCTT-ATGGACAT
1 TATGTGGTCCTTCA-GGACAT
86224 TATTATATGG
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 1 0.01
103 113 0.99
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAATCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:86265 original size:23 final size:23
Alignment explanation
Indices: 86232--86297 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
86222 ATTATTATAT
*
86232 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
86255 GGCACTCCGGTGCAATTATACGT
1 GGCACTACGGTGCAATTATACGC
*
86278 GGCACTTCGGTGCAATTATA
1 GGCACTACGGTGCAATTATA
86298 TGAGCTGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:88840 original size:21 final size:22
Alignment explanation
Indices: 88816--88870 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
88806 AGACTCTATC
88816 AATCCTACCA-CCACTACTGAA
1 AATCCTACCAGCCACTACTGAA
*
88837 AATCCTA-CAGCCACTGCTGAA
1 AATCCTACCAGCCACTACTGAA
*
88858 AGTCCTA-CAGCCA
1 AATCCTACCAGCCA
88871 TTGTTATTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.35, C:0.36, G:0.11, T:0.18
Consensus pattern (22 bp):
AATCCTACCAGCCACTACTGAA
Found at i:99477 original size:23 final size:23
Alignment explanation
Indices: 99459--99519 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
99449 CTCGTATAAA
*
99459 TGCACCGAAGTGCCACGTAGAAT
1 TGCATCGAAGTGCCACGTAGAAT
*
99482 TGCATCGAAGTGCCGCGTAGAAT
1 TGCATCGAAGTGCCACGTAGAAT
99505 TGCATCGAAGTGCCA
1 TGCATCGAAGTGCCA
99520 TATAAAATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.20
Consensus pattern (23 bp):
TGCATCGAAGTGCCACGTAGAAT
Found at i:102149 original size:2 final size:2
Alignment explanation
Indices: 102144--102170 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
102134 AATATTTTAG
102144 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
102171 TTACTTTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:102765 original size:22 final size:22
Alignment explanation
Indices: 102714--102765 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
102704 TCTTATAACT
*
102714 TAATATTTAAATATTTAAAATA
1 TAATATTAAAATATTTAAAATA
* *
102736 CATTTATTAAAAT-TTTAATAATA
1 TA-ATATTAAAATATTTAA-AATA
102759 TAATATT
1 TAATATT
102766 TTGTTTTAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATATTAAAATATTTAAAATA
Found at i:106354 original size:45 final size:47
Alignment explanation
Indices: 106302--106390 Score: 137
Period size: 45 Copynumber: 1.9 Consensus size: 47
106292 TCGAATAAAT
* *
106302 GCATGCGAACTAGATATCATGCGGTTA-GGTTTATTTTT-TGAACAA
1 GCATGCGAACTAGATATCATGCAGTTATGATTTATTTTTGTGAACAA
*
106347 GCATGCGAATTAGATATCATGCAGTTATGATTTATTTTTGTGAA
1 GCATGCGAACTAGATATCATGCAGTTATGATTTATTTTTGTGAA
106391 TAACAGCATG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
45 25 0.64
46 10 0.26
47 4 0.10
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.38
Consensus pattern (47 bp):
GCATGCGAACTAGATATCATGCAGTTATGATTTATTTTTGTGAACAA
Done.