Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000285.1 Hibiscus syriacus cultivar Beakdansim tig00000527_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: 105593
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:846 original size:33 final size:32
Alignment explanation
Indices: 728--854 Score: 132
Period size: 32 Copynumber: 3.9 Consensus size: 32
718 TAATCACTAA
** * **
728 CTTACTAACATTTTAACATTTATTTTATCATT
1 CTTACTAACATACTAACTTTTATTTTATTGTT
** *
760 CGAACTAACATTCTAACTTTTA-TTTATTGGTT
1 CTTACTAACATACTAACTTTTATTTTATT-GTT
792 CTTACTAACATACTAACTTTTATTTTTATTGTT
1 CTTACTAACATACTAACTTTTA-TTTTATTGTT
*
825 CTTAC-AACTTACTAACATTTTATTTTATTG
1 CTTACTAACATACTAAC-TTTTATTTTATTG
855 CACAAACTAA
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
31 5 0.06
32 57 0.70
33 13 0.16
34 6 0.07
ACGTcount: A:0.29, C:0.16, G:0.04, T:0.51
Consensus pattern (32 bp):
CTTACTAACATACTAACTTTTATTTTATTGTT
Found at i:1577 original size:5 final size:5
Alignment explanation
Indices: 1569--1638 Score: 61
Period size: 5 Copynumber: 13.8 Consensus size: 5
1559 TGTTTTACAT
* * * * *
1569 TTTTA TTTTA TTATT- TTTTA TCTCA TTCTA TTTTTA TTTTG TTTTG TTTTA
1 TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA
*
1620 TTTTG TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
1639 TATCTTTGAT
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
4 2 0.04
5 44 0.85
6 6 0.12
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:12587 original size:21 final size:20
Alignment explanation
Indices: 12562--12600 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
12552 CATCAAGGTC
12562 TTTGTAGAAGCCATGAAATCT
1 TTTGTAGAAGCCAT-AAATCT
* *
12583 TTTGTCGAGGCCATAAAT
1 TTTGTAGAAGCCATAAAT
12601 TCCTGCAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (20 bp):
TTTGTAGAAGCCATAAATCT
Found at i:15674 original size:2 final size:2
Alignment explanation
Indices: 15667--15702 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15657 TGTGTATTTA
15667 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
15703 CAAAGTGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24160 original size:26 final size:27
Alignment explanation
Indices: 24101--24164 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
24091 TATAAACTCT
24101 TATTTATAAAATTAAAAGTTAATAAAA
1 TATTTATAAAATTAAAAGTTAATAAAA
* *
24128 TATTTATAAAGTTAAAAGTT-TTAAAA
1 TATTTATAAAATTAAAAGTTAATAAAA
24154 -ATATTATAAAA
1 TAT-TTATAAAA
24165 CCAAAAGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.06
26 12 0.36
27 19 0.58
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (27 bp):
TATTTATAAAATTAAAAGTTAATAAAA
Found at i:29061 original size:20 final size:20
Alignment explanation
Indices: 29024--29062 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
29014 TCTAGTTTTG
*
29024 AGTATCGATATTGGATGAAT
1 AGTATCGATAATGGATGAAT
*
29044 AGTATCGATAATGTATGAA
1 AGTATCGATAATGGATGAA
29063 CTAAGACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.33
Consensus pattern (20 bp):
AGTATCGATAATGGATGAAT
Found at i:31599 original size:17 final size:18
Alignment explanation
Indices: 31579--31621 Score: 63
Period size: 16 Copynumber: 2.4 Consensus size: 18
31569 TAGTGAGTAA
31579 TTAAAATAATATTT-ATT
1 TTAAAATAATATTTAATT
31596 TT-AAATAATATTTAATT
1 TTAAAATAATATTTAATT
31613 TTATAAATA
1 TTA-AAATA
31622 TCAATTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 11 0.48
17 7 0.30
19 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAAATAATATTTAATT
Found at i:32865 original size:35 final size:35
Alignment explanation
Indices: 32819--32893 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 35
32809 CGTCACGAAC
*
32819 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTGCA
1 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTCCA
32854 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTCCA
1 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTCCA
32889 AGTAA
1 AGTAA
32894 TCTTCCTCCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.33, C:0.28, G:0.29, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTCCA
Found at i:33003 original size:24 final size:23
Alignment explanation
Indices: 32975--33061 Score: 93
Period size: 24 Copynumber: 3.7 Consensus size: 23
32965 ATTCAAGTCA
* *
32975 AGTATCATATCAGAATCCATATC
1 AGTATCAGATCAGAATCCATGTC
*
32998 ATGTATCAGATTAGAATCCATGTC
1 A-GTATCAGATCAGAATCCATGTC
* *
33022 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCATGTC
* *
33045 AGGTATCATAACAGAAT
1 A-GTATCAGATCAGAAT
33062 TCAAATTTGA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
23 21 0.40
24 32 0.60
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCATGTC
Found at i:33061 original size:47 final size:48
Alignment explanation
Indices: 32971--33061 Score: 112
Period size: 47 Copynumber: 1.9 Consensus size: 48
32961 CATAATTCAA
* * * **
32971 GTCAAGTATCATATCAGAATCCATATCATGTATCAGATTAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAGATCAGGTATCAGAACAGAATCCAT
* *
33019 GTCAA-TATCAGATCAGAATCCAGGTCAGGTATCATAACAGAAT
1 GTCAAGTATCAGATCAGAATCCAGATCAGGTATCAGAACAGAAT
33062 TCAAATTTGA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
47 31 0.86
48 5 0.14
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (48 bp):
GTCAAGTATCAGATCAGAATCCAGATCAGGTATCAGAACAGAATCCAT
Found at i:35619 original size:45 final size:45
Alignment explanation
Indices: 35552--35641 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
35542 CAAATGCAAC
*
35552 AATTGAAAATGCATTGGACCCCACGACAATTTCAGCACCGAAAGT
1 AATTGAAAATGCATTGGACCCCACGACAATTGCAGCACCGAAAGT
* * * * *
35597 AATTGATAATTCATTGGCCCCCACGGCAATTGCAGGACCGAAAGT
1 AATTGAAAATGCATTGGACCCCACGACAATTGCAGCACCGAAAGT
35642 CACATTGGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.21
Consensus pattern (45 bp):
AATTGAAAATGCATTGGACCCCACGACAATTGCAGCACCGAAAGT
Found at i:36356 original size:28 final size:28
Alignment explanation
Indices: 36316--36370 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
36306 TGCATTCGAT
36316 GAAGAAGAAGAGAGACATGGAGGAGGAG
1 GAAGAAGAAGAGAGACATGGAGGAGGAG
* *
36344 GAAGAAGAAGAGAGATATGTAGGAGGA
1 GAAGAAGAAGAGAGACATGGAGGAGGA
36371 AGATGAGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.44, T:0.07
Consensus pattern (28 bp):
GAAGAAGAAGAGAGACATGGAGGAGGAG
Found at i:37862 original size:35 final size:35
Alignment explanation
Indices: 37816--37890 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 35
37806 CGTCACGAAC
*
37816 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTGCA
1 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTCCA
37851 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTCCA
1 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTCCA
37886 AGTAA
1 AGTAA
37891 TCTTCCTCCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.33, C:0.28, G:0.29, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTCCA
Found at i:37999 original size:24 final size:23
Alignment explanation
Indices: 37971--38057 Score: 93
Period size: 24 Copynumber: 3.7 Consensus size: 23
37961 ATTCAAGTCA
* *
37971 AGTATCATATCAGAATCCATATC
1 AGTATCAGATCAGAATCCATGTC
*
37994 ATGTATCAGATTAGAATCCATGTC
1 A-GTATCAGATCAGAATCCATGTC
* *
38018 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCATGTC
* *
38041 AGGTATCATAACAGAAT
1 A-GTATCAGATCAGAAT
38058 TCAAATTTGA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
23 21 0.40
24 32 0.60
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCATGTC
Found at i:38057 original size:47 final size:48
Alignment explanation
Indices: 37967--38057 Score: 112
Period size: 47 Copynumber: 1.9 Consensus size: 48
37957 CATAATTCAA
* * * **
37967 GTCAAGTATCATATCAGAATCCATATCATGTATCAGATTAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAGATCAGGTATCAGAACAGAATCCAT
* *
38015 GTCAA-TATCAGATCAGAATCCAGGTCAGGTATCATAACAGAAT
1 GTCAAGTATCAGATCAGAATCCAGATCAGGTATCAGAACAGAAT
38058 TCAAATTTGA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
47 31 0.86
48 5 0.14
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (48 bp):
GTCAAGTATCAGATCAGAATCCAGATCAGGTATCAGAACAGAATCCAT
Found at i:40597 original size:45 final size:45
Alignment explanation
Indices: 40547--40636 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
40537 CAAATGCAAC
*
40547 AATTGAAAATGCATTGGACCCCACGACAATTTCAGCACCGAAAGT
1 AATTGAAAATGCATTGGACCCCACGACAATTGCAGCACCGAAAGT
* * * * *
40592 AATTGATAATTCATTGGCCCCCACGGCAATTGCAGGACCGAAAGT
1 AATTGAAAATGCATTGGACCCCACGACAATTGCAGCACCGAAAGT
40637 CACATTGGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.21
Consensus pattern (45 bp):
AATTGAAAATGCATTGGACCCCACGACAATTGCAGCACCGAAAGT
Found at i:41351 original size:28 final size:28
Alignment explanation
Indices: 41311--41365 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
41301 TGCATTCGAT
41311 GAAGAAGAAGAGAGACATGGAGGAGGAG
1 GAAGAAGAAGAGAGACATGGAGGAGGAG
* *
41339 GAAGAAGAAGAGAGATATGTAGGAGGA
1 GAAGAAGAAGAGAGACATGGAGGAGGA
41366 AGATGAGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.44, T:0.07
Consensus pattern (28 bp):
GAAGAAGAAGAGAGACATGGAGGAGGAG
Found at i:45554 original size:130 final size:130
Alignment explanation
Indices: 45244--45569 Score: 336
Period size: 131 Copynumber: 2.5 Consensus size: 130
45234 TTAAAATGAT
* * * *
45244 AATATCTAATTATTTCATATCGAGAATAAATGACATTTCCTGCATTAAAGCAGTCATTCATTACT
1 AATATCTAATTATTTCA-ATCGAGAATAAATGACATTTCATGCATTAAAACAGTCATTTATTACC
* * * * * * *
45309 CCAATTGAAATAAAAAGGTATTACTATTTCATCTTAAAATTCAATATCGATTCAAGTGAAAATAA
65 CCAATTGAAATAAAAAGATATTAATATTCCATCTTAAAAGTCAATATCAATTCAAGAGAAAACAA
*
45374 T
130 C
* * * *
45375 AATATCTAATGATTTCTAATCGAGAATAAACT-TCATTTCGTGCGTTAAAACAGTCATTTATTAC
1 AATATCTAATTATTTC-AATCGAGAATAAA-TGACATTTCATGCATTAAAACAGTCATTTATTAC
* *
45439 CCCAATTGAAATAAAAAGATATTAATATTCCGTC-TAAAAGT-AGATATTAATTCAAGAGAAAAC
64 CCCAATTGAAATAAAAAGATATTAATATTCCATCTTAAAAGTCA-ATATCAATTCAAGAGAAAAC
45502 AAC
128 AAC
* * * * * * *
45505 AATATCAAATTATTTTCAATCAAAAATAAATGACCTCTT-ATGCCTTAAAAGCAATTATTTATTA
1 AATATCTAATTA-TTTCAATCGAGAATAAATGACAT-TTCATGCATTAAAA-CAGTCATTTATTA
45569 C
63 C
45570 TCCGACCGAA
Statistics
Matches: 161, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
129 2 0.01
130 56 0.35
131 101 0.63
132 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (130 bp):
AATATCTAATTATTTCAATCGAGAATAAATGACATTTCATGCATTAAAACAGTCATTTATTACCC
CAATTGAAATAAAAAGATATTAATATTCCATCTTAAAAGTCAATATCAATTCAAGAGAAAACAAC
Found at i:48014 original size:112 final size:112
Alignment explanation
Indices: 47758--48665 Score: 1166
Period size: 112 Copynumber: 8.2 Consensus size: 112
47748 ACTGTCACTC
* * *
47758 AGGGAATATCAGATCT-GGGGATGTTGATCCATTGAATCGGGGTAGACTTGTTCTGTTGTCACTT
1 AGGGAATATCAGATCTGGGGGA-GTTGATCCATTGAATCGGGGCAGACTTGTTCTGCTGTCACTC
*
47822 AGGGAATATCAAATCTT-GAA-AGAGGGATATGTTCCGCTTTTTCTAA
65 AGGGAATATCAAATCTTAGAAGAGAGGGATATGTTCCGCTTCTTCTAA
* * * * * * *
47868 ATGGAATATTAGATCTAGGGGAGTTGATCCATTGAATCGGAGCAGACTTGTTCTGCTATCAATAA
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCTGCTGTCACTCA
* * *
47933 GAGAATATCAAATCTTAGAAGAGAGGAATATGTTTCGCTTCTTCTAA
66 GGGAATATCAAATCTTAGAAGAGAGGGATATGTTCCGCTTCTTCTAA
* * *
47980 AGGGAATATCAAATCTGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCGCTGTCAGTCA
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCTGCTGTCACTCA
* * * *
48045 GGGAATATCAAATCTTAAAAGATATGGATCTGTTCCGCTTCTTCTAA
66 GGGAATATCAAATCTTAGAAGAGAGGGATATGTTCCGCTTCTTCTAA
* ** * * *
48092 AGGGAATATCAGATATATGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCGCTATCACTTA
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCTGCTGTCACTCA
* * *
48157 GGGAATATTAAATCTTTGAAGAGAGGGATCTGTTCCGCTTCTTCTAA
66 GGGAATATCAAATCTTAGAAGAGAGGGATATGTTCCGCTTCTTCTAA
* * *
48204 AGGGAATATCAGATCT-GGGGAGTTGATTCATTGAATCGGGACAGACTTGTTCTGCTCTCACTCA
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCTGCTGTCACTCA
* *
48268 GGGAATATCAAATCTTGGAAGAGAGGGATCTGTTCCGCTTCTTCTAA
66 GGGAATATCAAATCTTAGAAGAGAGGGATATGTTCCGCTTCTTCTAA
* * * * *
48315 AGGGAACATCAGAGCTTGGGGAGTTGATCCATTG-ATCGGGGCAGACTTGTTCCGCTATCACTCA
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCTGCTGTCACTCA
** * *
48379 GGGAATATCAAATCTT-GAAAGAGAATGATTTGTTCCGCTTTTTCTAA
66 GGGAATATCAAATCTTAG-AAGAGAGGGATATGTTCCGCTTCTTCTAA
* * * * *
48426 AGGGAATATCATATATGGGGGAGTTGATCCATTGAATCGTGGTAGACTTATTCTGCTGTCACTCA
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCTGCTGTCACTCA
***
48491 GGGAATATCAAATCTTTA-AAGAGAGGGATAT-TTCAATTTCTTCTAA
66 GGGAATATCAAATC-TTAGAAGAGAGGGATATGTTCCGCTTCTTCTAA
* * *
48537 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGTCAGACTTGTTCTGTTGTCAGTCA
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCTGCTGTCACTCA
* * * * * * *
48602 GGGAATATCAAATCTTGGAATAGAGGTATTTGTTTCACTTTTTCTAA
66 GGGAATATCAAATCTTAGAAGAGAGGGATATGTTCCGCTTCTTCTAA
*
48649 AGGGAATATCATATCTG
1 AGGGAATATCAGATCTG
48666 TAAATTAAAC
Statistics
Matches: 695, Mismatches: 93, Indels: 18
0.86 0.12 0.02
Matches are distributed among these distances:
110 69 0.10
111 298 0.43
112 326 0.47
113 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (112 bp):
AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCTGCTGTCACTCA
GGGAATATCAAATCTTAGAAGAGAGGGATATGTTCCGCTTCTTCTAA
Found at i:48383 original size:334 final size:335
Alignment explanation
Indices: 47758--48659 Score: 1280
Period size: 334 Copynumber: 2.7 Consensus size: 335
47748 ACTGTCACTC
* *
47758 AGGGAATATCAGATCTGGGGATGTTGATCCATTGAATCGGGGTAGACTTGTTCTGTTGTCACTTA
1 AGGGAATATCAGATATGGGGA-GTTGATCCATTGAATCGGGGTAGACTTGTTCTGCTGTCACTTA
* * *
47823 GGGAATATCAAATC-TTGAA-AGAGGGATATGTTCCGCTTTTTCTAAATGGAATATTAGATCTAG
65 GGGAATATCAAATCTTTGAAGAGAGGGATATGTTCCGCTTCTTCTAAAGGGAATATCAGATCTAG
* * *
47886 GGGAGTTGATCCATTGAATC-GGAGCAGACTTGTTCTGCTATCAATAAGAGAATATCAAATCTTA
130 GGGAGTTGATCCATTGAATCGGGA-CAGACTTGTTCTGCTATCAATCAGGGAATATCAAATCTTG
*
47950 GAAGAGAGGAATATGTTTCGCTTCTTCTAAAGGGAATATCAAATCTGGGGGAGTTGATCCATTGA
194 GAAGAGAGGAATATGTTTCGCTTCTTCTAAAGGGAATATCAAAGCTGGGGGAGTTGATCCATTGA
* *
48015 ATCGGGGCAGACTTGTTCCGCTGTCAGTCAGGGAATATCAAATCTT-AAA-AGATATGGATCTGT
259 ATCGGGGCAGACTTGTTCCGCTATCACTCAGGGAATATCAAATCTTGAAAGAGA-AT-GATCTGT
48078 TCCGCTTCTTCTAA
322 TCCGCTTCTTCTAA
* * * *
48092 AGGGAATATCAGATATATGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCGCTATCACTTA
1 AGGGAATATCAGATAT-GGGGAGTTGATCCATTGAATCGGGGTAGACTTGTTCTGCTGTCACTTA
* *
48157 GGGAATATTAAATCTTTGAAGAGAGGGATCTGTTCCGCTTCTTCTAAAGGGAATATCAGATCT-G
65 GGGAATATCAAATCTTTGAAGAGAGGGATATGTTCCGCTTCTTCTAAAGGGAATATCAGATCTAG
* * *
48221 GGGAGTTGATTCATTGAATCGGGACAGACTTGTTCTGCTCTCACTCAGGGAATATCAAATCTTGG
130 GGGAGTTGATCCATTGAATCGGGACAGACTTGTTCTGCTATCAATCAGGGAATATCAAATCTTGG
* * * * * *
48286 AAGAGAGGGATCTGTTCCGCTTCTTCTAAAGGGAACATCAGAGCTTGGGGAGTTGATCCATTG-A
195 AAGAGAGGAATATGTTTCGCTTCTTCTAAAGGGAATATCAAAGCTGGGGGAGTTGATCCATTGAA
*
48350 TCGGGGCAGACTTGTTCCGCTATCACTCAGGGAATATCAAATCTTGAAAGAGAATGATTTGTTCC
260 TCGGGGCAGACTTGTTCCGCTATCACTCAGGGAATATCAAATCTTGAAAGAGAATGATCTGTTCC
*
48415 GCTTTTTCTAA
325 GCTTCTTCTAA
* * * *
48426 AGGGAATATCATATATGGGGGAGTTGATCCATTGAATCGTGGTAGACTTATTCTGCTGTCACTCA
1 AGGGAATATCAGATAT-GGGGAGTTGATCCATTGAATCGGGGTAGACTTGTTCTGCTGTCACTTA
* *** *
48491 GGGAATATCAAATCTTTAAAGAGAGGGATAT-TTCAATTTCTTCTAAAGGGAATATCAGATCTGG
65 GGGAATATCAAATCTTTGAAGAGAGGGATATGTTCCGCTTCTTCTAAAGGGAATATCAGATCTAG
* * * *
48555 GGGAGTTGATCCATTGAATCGGGTCAGACTTGTTCTGTTGTCAGTCAGGGAATATCAAATCTTGG
130 GGGAGTTGATCCATTGAATCGGGACAGACTTGTTCTGCTATCAATCAGGGAATATCAAATCTTGG
* * * * *
48620 AATAGAGGTATTTGTTTCACTTTTTCTAAAGGGAATATCA
195 AAGAGAGGAATATGTTTCGCTTCTTCTAAAGGGAATATCA
48660 TATCTGTAAA
Statistics
Matches: 506, Mismatches: 55, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
333 28 0.06
334 308 0.61
335 126 0.25
336 44 0.09
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (335 bp):
AGGGAATATCAGATATGGGGAGTTGATCCATTGAATCGGGGTAGACTTGTTCTGCTGTCACTTAG
GGAATATCAAATCTTTGAAGAGAGGGATATGTTCCGCTTCTTCTAAAGGGAATATCAGATCTAGG
GGAGTTGATCCATTGAATCGGGACAGACTTGTTCTGCTATCAATCAGGGAATATCAAATCTTGGA
AGAGAGGAATATGTTTCGCTTCTTCTAAAGGGAATATCAAAGCTGGGGGAGTTGATCCATTGAAT
CGGGGCAGACTTGTTCCGCTATCACTCAGGGAATATCAAATCTTGAAAGAGAATGATCTGTTCCG
CTTCTTCTAA
Found at i:51850 original size:112 final size:112
Alignment explanation
Indices: 51651--52669 Score: 1200
Period size: 112 Copynumber: 9.1 Consensus size: 112
51641 ACTATCACTC
* ** * *
51651 AGGGAATATCAGATCT-AGGGATGTTGATCCATTGAATCATGGTAGACTTG-TCCTGTTATCACT
1 AGGGAATATCAGATCTGGGGGA-GTTGATCCATTGAATCGGGGCAGACTTGTTCC-GCTATCACT
* *
51714 CAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCGCTTTTTCTAA
64 CAGGGAATATCAAATCTTGGAAGAGAGGGATATGTTCCGCTTCTTCTAA
* * * * ** *
51763 ATGGAATATCAAATCTGGGGGAGTTGATCCATCGAATCGGGGTAGACTTGTTATGCTGTCACTCA
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCGCTATCACTCA
* * * * **
51828 GGAAATATCAAATCTTAGAAGAGATGAATATGTTCTACTTCTTCTAA
66 GGGAATATCAAATCTTGGAAGAGAGGGATATGTTCCGCTTCTTCTAA
*
51875 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCGCTGTCACTCA
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCGCTATCACTCA
* * *
51940 GGGAATATCAAATTTTGGAAGAGAGGGATCTGTTTCGCTTCTTCTAA
66 GGGAATATCAAATCTTGGAAGAGAGGGATATGTTCCGCTTCTTCTAA
* ** ** *
51987 AGGGAATATCAGATCTAGCAGAGTTGATCCATTGAATCATGGCAGACTTGTTCCACTATCACTCA
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCGCTATCACTCA
* * * * **
52052 AGGAATATCAAATCTTGGAAGAGATGGATCTATTTTGCTTCTTCT-A
66 GGGAATATCAAATCTTGGAAGAGAGGGATATGTTCCGCTTCTTCTAA
* * * * * * *
52098 AGAGGAATATCAGATCTGGGGGAGATT-ATCCATTGATTAGGGACAAAATTGTTCCACTTTCACT
1 AG-GGAATATCAGATCTGGGGGAG-TTGATCCATTGAATCGGGGCAGACTTGTTCCGCTATCACT
* * *
52162 TAGGGAATATCAAATCTTGGAAGAGAGGGATTTATTCCGCTTCTTCTAA
64 CAGGGAATATCAAATCTTGGAAGAGAGGGATATGTTCCGCTTCTTCTAA
* * * * * * *
52211 ATGGAATATCATATATGGGGGTGTTGATCTATTGAATCAGGGCAGACTTGTTCCACTATCACTCA
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCGCTATCACTCA
* * * *
52276 GGGAATATCAAATCTTGGAATAGAGGGATCTATTTCGCTTCTTCTAA
66 GGGAATATCAAATCTTGGAAGAGAGGGATATGTTCCGCTTCTTCTAA
* * *
52323 AGGGAATATCAGATATGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCTGCTATTACTCA
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCGCTATCACTCA
* * * * *
52388 GGGAATATAAAATCTTAGAAGAGATGAATATGTTCCACTTCTTCTAA
66 GGGAATATCAAATCTTGGAAGAGAGGGATATGTTCCGCTTCTTCTAA
* *
52435 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCGTTGTCACTCA
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCGCTATCACTCA
* * * * *
52500 AGGAATATCAAATCTTGAAAGAGATGGATATGTTCCACTTCTTCTAT
66 GGGAATATCAAATCTTGGAAGAGAGGGATATGTTCCGCTTCTTCTAA
* * * * * * * *
52547 AGGAAATATTAGATATGGGGGAGTTGATACATTGAATCGGGTCAGACTTGTTCTGTTGTCACTCA
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCGCTATCACTCA
* * * * **
52612 GGGAATATCAAATCTTGGAATAAAGGGATTTGTTTCTATTCTTCTAA
66 GGGAATATCAAATCTTGGAAGAGAGGGATATGTTCCGCTTCTTCTAA
52659 AGGGAATATCA
1 AGGGAATATCA
52670 TATTTACAAA
Statistics
Matches: 777, Mismatches: 124, Indels: 12
0.85 0.14 0.01
Matches are distributed among these distances:
111 5 0.01
112 763 0.98
113 9 0.01
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (112 bp):
AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCGCTATCACTCA
GGGAATATCAAATCTTGGAAGAGAGGGATATGTTCCGCTTCTTCTAA
Found at i:55297 original size:112 final size:111
Alignment explanation
Indices: 55040--55501 Score: 579
Period size: 112 Copynumber: 4.1 Consensus size: 111
55030 ACTGTCACTC
* *
55040 AGGGAATATCAGATCT-GGGGATGTTGATCCATTGAATCGGGATAGACTTGTTCTGCTGTCAGTC
1 AGGGAATATCAGATCTGGGGGA-GTTGATCCATTGAATCGGGACAGACTTGTTCTGCTGTCACTC
* * *
55104 AGGGAATATCAAATCTTGAA-AGGGGGATATGTTCCGCTTTTTCTAA
65 AGGGAATATCAAATCTTGAATAGAGGGATATGTTCCACTTCTTCTAA
** * * * * *
55150 ATAGAATATTAGATCTAGGGGAGTTGATCCATTGAATC-GGAGCAGACTTGTTCTACTATTACTC
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGA-CAGACTTGTTCTGCTGTCACTC
* * * *
55214 AGGGAATATAAAATCTTAGAAGAGATGAATATGTTCCACTTCTTCTAA
65 AGGGAATATCAAATCTT-GAATAGAGGGATATGTTCCACTTCTTCTAA
* *
55262 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGGCAGACTTGTTCCGCTGTCACTCA
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGACAGACTTGTTCTGCTGTCACTCA
* *
55327 GGGAATATCAAATCTTGAATTAGAGGGATATGTTCTACTTCTTCTAT
66 GGGAATATCAAATCTTGAA-TAGAGGGATATGTTCCACTTCTTCTAA
* * * * * *
55374 AGGGAATATTAGATATGGGGGAGTTGATACATTGAATCGGGTCAGACTTGTTCTGTTGTCACTTA
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGACAGACTTGTTCTGCTGTCACTCA
* * * *
55439 GGGAATATCAAATCTTGGAATAAAGGGATTTGTTTCTCTTCTTCTAA
66 GGGAATATCAAATCTT-GAATAGAGGGATATGTTCCACTTCTTCTAA
*
55486 AGGGAATATCATATCT
1 AGGGAATATCAGATCT
55502 ACAAATTAAA
Statistics
Matches: 300, Mismatches: 45, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
109 3 0.01
110 62 0.21
111 11 0.04
112 219 0.73
113 5 0.02
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (111 bp):
AGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATCGGGACAGACTTGTTCTGCTGTCACTCA
GGGAATATCAAATCTTGAATAGAGGGATATGTTCCACTTCTTCTAA
Found at i:61839 original size:131 final size:131
Alignment explanation
Indices: 61573--61931 Score: 355
Period size: 131 Copynumber: 2.7 Consensus size: 131
61563 TTTTAAGAGT
* * * * *
61573 GAAAACGATAATATCTAATTATTTCCTATCGAAAATAATTGACCTTTCGTGCATTAAAACATTCA
1 GAAAACAATAATATCTAATTATTTCCAATCGAAAATAAATGACCTTTCATGCATTAAAACAGTCA
* * * * * * * * *
61638 ATCATTACTCCAATTGAAATAAAGAGGTATTACTATTTCATCTTAAAATTCAATATCGATTCAAG
66 TTTATTACCCCAATTGAAATAAAGAGATATTAATATTCCATCTAAAAAATCAATATCAATTCAAG
*
61703 T
131 A
* * * * * * *
61704 GAAAATAATAACATCTAATGATTTCCAATCGAGAATAAACGACATTTCATGCGTTAAAACAGTCA
1 GAAAACAATAATATCTAATTATTTCCAATCGAAAATAAATGACCTTTCATGCATTAAAACAGTCA
* * * *
61769 TTTATTACCCCAATTGAAATAAAGATATATTAATATTCCGTCTAAAAAAT-ATATATTAATTCGA
66 TTTATTACCCCAATTGAAATAAAGAGATATTAATATTCCATCTAAAAAATCA-ATATCAATTCAA
61833 GA
130 GA
* * * * **
61835 GAAAACGACAATATCAAATTATTTCCAATCGAAAATAAATGACCTCTT-ATGCCTTAAAGTAGTC
1 GAAAACAATAATATCTAATTATTTCCAATCGAAAATAAATGACCT-TTCATGCATTAAAACAGTC
* * *
61899 ATTTATTACTCCGATCGAAATGAAAG-GATATTA
65 ATTTATTACCCCAATTGAAAT-AAAGAGATATTA
61932 CCATTCTCAT
Statistics
Matches: 183, Mismatches: 42, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
130 1 0.01
131 176 0.96
132 6 0.03
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (131 bp):
GAAAACAATAATATCTAATTATTTCCAATCGAAAATAAATGACCTTTCATGCATTAAAACAGTCA
TTTATTACCCCAATTGAAATAAAGAGATATTAATATTCCATCTAAAAAATCAATATCAATTCAAG
A
Found at i:83629 original size:27 final size:26
Alignment explanation
Indices: 83586--83640 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
83576 ACAAGAAGTC
* *
83586 AAAAGTAAAACAAATGACCAAAAATGA
1 AAAAGTAAAAAAAATGA-AAAAAATGA
83613 AAAAG-AAAAAAATATGAAAAAAATGA
1 AAAAGTAAAAAAA-ATGAAAAAAATGA
83639 AA
1 AA
83641 GGAAGTATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.73, C:0.05, G:0.11, T:0.11
Consensus pattern (26 bp):
AAAAGTAAAAAAAATGAAAAAAATGA
Found at i:83739 original size:3 final size:3
Alignment explanation
Indices: 83718--83839 Score: 99
Period size: 3 Copynumber: 40.7 Consensus size: 3
83708 CATTTGTTAT
* *
83718 TTA TTT TTA TTA ATA TTA TTA TTA TTA TT- TTA TT- TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
** *
83762 AAA TTA TTA TT- TTA TAA TTA -TA TTA TTA TTA TTTA TTA TTTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA -TTA
* * * *
83808 TTC TTA TTC TTA TTA TAA ATA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
83840 TACATTACAG
Statistics
Matches: 94, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
2 8 0.09
3 73 0.78
4 13 0.14
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:83768 original size:32 final size:31
Alignment explanation
Indices: 83717--83839 Score: 105
Period size: 32 Copynumber: 3.9 Consensus size: 31
83707 CCATTTGTTA
*
83717 TTTA-TTT-TTATTAATATTATTATTATTAT
1 TTTATTTTATTATTAAAATTATTATTATTAT
83746 TTTATTTTATTTATTAAAATTATTATT-TTAT
1 TTTATTTTA-TTATTAAAATTATTATTATTAT
* * *
83777 AATTATATTATTATT--ATTTATTATTTATTTAT
1 -TTTATTTTATTATTAAAATTATTA-TTA-TTAT
83809 TCTTATTCTTATTA-TAAATATTATTATTATT
1 T-TTATT-TTATTATTAAA-ATTATTATTATT
83840 TACATTACAG
Statistics
Matches: 75, Mismatches: 7, Indels: 20
0.74 0.07 0.20
Matches are distributed among these distances:
29 11 0.15
30 5 0.07
31 9 0.12
32 32 0.43
33 8 0.11
34 4 0.05
35 6 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (31 bp):
TTTATTTTATTATTAAAATTATTATTATTAT
Found at i:83801 original size:45 final size:46
Alignment explanation
Indices: 83734--83841 Score: 123
Period size: 45 Copynumber: 2.3 Consensus size: 46
83724 TTATTAATAT
*
83734 TATTATTATTATTTTATTTTATTTATTAAAATTATTATT-TTATAAT-TA
1 TATTATTATTA-TTTA-TTTATTTATT--AATTATTATTCTTATAATAAA
* * *
83782 TATTATTATTATTTA-TTATTTATTTATTCTTATTCTTATTATAAA
1 TATTATTATTATTTATTTATTTATTAATTATTATTCTTATAATAAA
83827 TATTATTATTATTTA
1 TATTATTATTATTTA
83842 CATTACAGGC
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
43 8 0.15
44 6 0.11
45 25 0.46
47 4 0.07
48 11 0.20
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (46 bp):
TATTATTATTATTTATTTATTTATTAATTATTATTCTTATAATAAA
Found at i:85510 original size:140 final size:136
Alignment explanation
Indices: 85349--85619 Score: 375
Period size: 136 Copynumber: 2.0 Consensus size: 136
85339 TTATAAATTT
* *
85349 AATTTTATATAAATTACTTTTAAGAAAAATAATCATATT-TTAATATTTATTTATTTTTTAATAT
1 AATTATATATAAATTACTTTT-AGAAAAAT-AT--T-TTATTAATATTCATTTATTTTTTAATAT
* *
85413 TAAGAAATGGGATGTCTTAAAGCACATAGAAGTCATTTTCTGATA-TTCTTAAATAAATAAATAT
61 TAAGAAATGGGATGTCTTAAAGAACATAGAAGTCATTTTATGATATTTC-TAAATAAATAAATAT
85477 CCTATTTTTATA
125 CCTATTTTTATA
* * *
85489 AATTATATATTAATTATTTTTAGAGAAATATTTTATTAATATTCATTTATTTTTTAATATTAAGA
1 AATTATATATAAATTACTTTTAGAAAAATATTTTATTAATATTCATTTATTTTTTAATATTAAGA
* * * *
85554 AATGGGTTGTCTTAAAGAACCTAGAAGTCATTTTATGATATTTCTAAGTAAATAAATATCTTATT
66 AATGGGATGTCTTAAAGAACATAGAAGTCATTTTATGATATTTCTAAATAAATAAATATCCTATT
85619 T
131 T
85620 ATAAAAATAA
Statistics
Matches: 118, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
135 2 0.02
136 86 0.73
137 3 0.03
138 2 0.02
139 7 0.06
140 18 0.15
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.46
Consensus pattern (136 bp):
AATTATATATAAATTACTTTTAGAAAAATATTTTATTAATATTCATTTATTTTTTAATATTAAGA
AATGGGATGTCTTAAAGAACATAGAAGTCATTTTATGATATTTCTAAATAAATAAATATCCTATT
TTTATA
Found at i:86219 original size:28 final size:28
Alignment explanation
Indices: 86149--86205 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
86139 AATTCTTTCC
*
86149 TTTCAAAATTTTTATATATACTTATTAT
1 TTTCATAATTTTTATATATACTTATTAT
*
86177 TTTCATAATATTTATATATA-TTATT-T
1 TTTCATAATTTTTATATATACTTATTAT
86203 TTT
1 TTT
86206 ATTAATGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 4 0.15
27 5 0.19
28 18 0.67
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTCATAATTTTTATATATACTTATTAT
Found at i:96606 original size:20 final size:20
Alignment explanation
Indices: 96581--96628 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
96571 CAAATGTTTT
96581 ATGAACCAGTAAGTATGGTG
1 ATGAACCAGTAAGTATGGTG
*
96601 ATGAACCAGTAATTATGGTG
1 ATGAACCAGTAAGTATGGTG
*
96621 CTGAACCA
1 ATGAACCA
96629 ATGTTGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (20 bp):
ATGAACCAGTAAGTATGGTG
Found at i:97000 original size:22 final size:22
Alignment explanation
Indices: 96970--97021 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
96960 ACATATACAT
* *
96970 TCTTTAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTATC
96992 TCTTCAAAGATGATAGATTATC
1 TCTTCAAAGATGATAGATTATC
*
97014 TTTTCAAA
1 TCTTCAAA
97022 TAAGAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTATC
Found at i:97484 original size:118 final size:119
Alignment explanation
Indices: 97221--97669 Score: 578
Period size: 117 Copynumber: 3.8 Consensus size: 119
97211 CACTCAATGG
*
97221 ATCAACATTTCC-G-GAAGAGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 ATCAACATTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* *
97284 TAATGAGGAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATTGATCAGC
65 TAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATGGATCAGC
*
97339 ATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTCAT
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
* *
97402 AATGAGAAGAACTTGATCAACCTTTTGCTCGAATTCATCACTCGATGGATCAAC
66 AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATGGATCAGC
* * *
97456 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAATAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
*
97521 AATGAGAAGAACTTGTTCAACCTTTT-CT-G-ATTCTATC-C-CAGAAAGAGATAAATCAGC
66 AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTC-ATCACTC-G-ATG-G----ATCAGC
* * * *
97578 ATCAA-ATTTTCTATAGAAAGTTCATAATGAGAAGAACTTATTTGAAG-AGGAAGAAGAAGTTCA
1 ATCAACA-TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* * *
97641 TAATGAGAAGAGCCTGTTCAGCCTTTTGC
65 TAATGAGAAGAACTTGTTCAACCTTTTGC
97670 ATGACACTAT
Statistics
Matches: 296, Mismatches: 21, Indels: 24
0.87 0.06 0.07
Matches are distributed among these distances:
115 1 0.00
116 6 0.02
117 83 0.28
118 79 0.27
119 40 0.14
121 40 0.14
122 47 0.16
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (119 bp):
ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATGGATCAGC
Found at i:97616 original size:122 final size:121
Alignment explanation
Indices: 97221--97740 Score: 593
Period size: 118 Copynumber: 4.3 Consensus size: 121
97211 CACTCAATGG
* * *
97221 ATCAACATTTCCGGAAGAGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATA
* *** *
97286 ATGAGGAGAACTTGTTCAACCTTTTGCTCGAATTCAT--C-ACTCGATTGATCAGC
66 ATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCCCGAAGAGATAGATCAGC
*
97339 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATA
* *** * *
97403 ATGAGAAGAACTTGATCAACCTTTTGCTCGAATTCAT--C-ACTCGATGGATCAAC
66 ATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCCCGAAGAGATAGATCAGC
* * *
97456 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAATAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
*
97521 AATGAGAAGAACTTGTTCAACCTTTT-CT-G-ATTCTATCCCAGAAAGAGATAAATCAGC
65 AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTC-ATCCC-G-AAGAGATAGATCAGC
* *
97578 ATCAA-ATTTTCTATAGAA-AGTTCATAATGAGAAGAACTTATTTGAAG-AGGAAGAAGAAGTTC
1 ATCAACA-TTTC--CAGAAGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTC
* * * * *
97640 ATAATGAGAAGAGCCTGTTCAGCCTTTTGCAT-GACACT-ATCACAGAAGGAGATAGATCAGC
63 ATAATGAGAAGAACTTGTTCAACCTTTTGC-TCGA-ATTCATC-CCGAA-GAGATAGATCAGC
*
97701 ATCAACATTTCCAGAAGTGTTCATAATGAGAAGAACTTAT
1 ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTTAT
97741 TCAACCTTGC
Statistics
Matches: 354, Mismatches: 29, Indels: 34
0.85 0.07 0.08
Matches are distributed among these distances:
116 4 0.01
117 80 0.23
118 82 0.23
119 39 0.11
121 44 0.12
122 70 0.20
123 28 0.08
124 5 0.01
125 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (121 bp):
ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCCCGAAGAGATAGATCAGC
Found at i:98144 original size:3 final size:3
Alignment explanation
Indices: 98107--98221 Score: 109
Period size: 3 Copynumber: 39.7 Consensus size: 3
98097 TATCCATTTG
* * * *
98107 TTA TATA TTT TTA TTA ATA TTA ATA TTA ATA TTA TTA TT- TTA TT-
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
98151 TTA TT- TTA TTTA TTA CTA TTA TTTA TT- TTA -TA TTA -TA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
98194 TTA TTA TTA TTA TTA TTA TT- TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
98222 TACATTACAA
Statistics
Matches: 92, Mismatches: 10, Indels: 20
0.75 0.08 0.16
Matches are distributed among these distances:
2 14 0.15
3 69 0.75
4 9 0.10
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:99852 original size:134 final size:128
Alignment explanation
Indices: 99697--99934 Score: 309
Period size: 129 Copynumber: 1.8 Consensus size: 128
99687 TTTATAATTT
* *
99697 AATTTTATATAAATTACTTTTAAGAAAAATAATCATATT-TTAATATTTATTTATTTTTAATATT
1 AATTATATATAAATTACTTTT-AGAAAAAT-AT--T-TTATTAATATTCATTTA-TTTTAATATT
* * *
99761 AAGAAATGTG-ATGTCTTAAAGCACCTAGAAGTCCTTTTCTGATATTCTTAAATAATATCCTATT
60 AAGAAATGGGCA-GTCTTAAAACACCTAGAAGT-CATTTCTGATATTCTTAAATAATATCCTATT
99825 TTTATA
123 TTTATA
* * * *
99831 AATTATATATTAATTATTTTTAGAGAAATGTTTTATTAATATTCATTTATTTTAATATTAAGAAA
1 AATTATATATAAATTACTTTTAGAAAAATATTTTATTAATATTCATTTATTTTAATATTAAGAAA
99896 TGGGCAGTCTTAAAACACCTAGAAGTCATTTCTGATATT
66 TGGGCAGTCTTAAAACACCTAGAAGTCATTTCTGATATT
99935 TCTAAGTAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
128 12 0.13
129 40 0.43
130 15 0.16
132 1 0.01
133 7 0.08
134 18 0.19
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.45
Consensus pattern (128 bp):
AATTATATATAAATTACTTTTAGAAAAATATTTTATTAATATTCATTTATTTTAATATTAAGAAA
TGGGCAGTCTTAAAACACCTAGAAGTCATTTCTGATATTCTTAAATAATATCCTATTTTTATA
Found at i:101572 original size:30 final size:31
Alignment explanation
Indices: 101488--101574 Score: 99
Period size: 30 Copynumber: 2.8 Consensus size: 31
101478 TTACAAAGTC
* *
101488 TAATTATTTTTAATATGTATTA-TAAGGATT
1 TAATTTTTTTTAATATTTATTATTAAGGATT
*
101518 TAATTTTTTTCTAATACTTATTATTATAGG-TT
1 TAATTTTTTT-TAATATTTATTATTA-AGGATT
*
101550 TTA-TTTTTTTAATATTTATTATTAA
1 TAATTTTTTTTAATATTTATTATTAA
101575 TCATAATCTT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
29 1 0.02
30 23 0.47
31 16 0.33
32 6 0.12
33 3 0.06
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (31 bp):
TAATTTTTTTTAATATTTATTATTAAGGATT
Found at i:102331 original size:22 final size:23
Alignment explanation
Indices: 102292--102339 Score: 89
Period size: 22 Copynumber: 2.1 Consensus size: 23
102282 ATTTTCTACT
102292 AATAATTTAATTTTATTTCTTAA
1 AATAATTTAATTTTATTTCTTAA
102315 AATAATTTAA-TTTATTTCTTAA
1 AATAATTTAATTTTATTTCTTAA
102337 AAT
1 AAT
102340 TTTATAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (23 bp):
AATAATTTAATTTTATTTCTTAA
Found at i:102449 original size:62 final size:61
Alignment explanation
Indices: 102357--102476 Score: 213
Period size: 62 Copynumber: 2.0 Consensus size: 61
102347 TTCTCAATGA
*
102357 CATTGGGTCATTTCTTCCATAATCCTGTGGATGGATAGTAGGATTAAAGGTAGGGATGGAC
1 CATTGGGTCATTTCTTCCATAATCCTGTGGATGGATAGTAGGATTAAAGATAGGGATGGAC
*
102418 CATTGGGTCATTTCTATCCATGATCCTGTGGATGGATAGTAGGATTAAAGATAGGGATG
1 CATTGGGTCATTTCT-TCCATAATCCTGTGGATGGATAGTAGGATTAAAGATAGGGATG
102477 ACATGAGTCA
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 15 0.27
62 41 0.73
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.32
Consensus pattern (61 bp):
CATTGGGTCATTTCTTCCATAATCCTGTGGATGGATAGTAGGATTAAAGATAGGGATGGAC
Done.