Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006883.1 Hibiscus syriacus cultivar Beakdansim tig00017546_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: 44916
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Found at i:13139 original size:33 final size:33
Alignment explanation
Indices: 13093--13157 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
13083 TATACTACAC
* *
13093 CACTCAAATGGTCATCTTGATGATCGCTCAAAA
1 CACTCAAACGGTCATCTTAATGATCGCTCAAAA
13126 CACTCAAACGGTCATCTTAATGATCGCTCAAA
1 CACTCAAACGGTCATCTTAATGATCGCTCAAA
13158 CTACTGTGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (33 bp):
CACTCAAACGGTCATCTTAATGATCGCTCAAAA
Found at i:14782 original size:17 final size:18
Alignment explanation
Indices: 14757--14793 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
14747 TACTTTTTGA
*
14757 AATTTAATTTT-TATATT
1 AATTAAATTTTGTATATT
14774 AATTAAATTTTGTATATT
1 AATTAAATTTTGTATATT
14792 AA
1 AA
14794 AAATTTAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
AATTAAATTTTGTATATT
Found at i:14797 original size:16 final size:16
Alignment explanation
Indices: 14762--14799 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
14752 TTTGAAATTT
14762 AATTTTTATATTAATTA
1 AATTTTTATATTAA-TA
14779 AATTTTGTATATTAA-A
1 AATTTT-TATATTAATA
14795 AATTT
1 AATTT
14800 AGTTTTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 6 0.30
18 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
AATTTTTATATTAATA
Found at i:15453 original size:23 final size:23
Alignment explanation
Indices: 15423--15472 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
15413 ACAACAACCG
* *
15423 GCAAGCATTAATGTACCAATTCA
1 GCAAGCATCAATGCACCAATTCA
* *
15446 GCAAGCATCATTGCATCAATTCA
1 GCAAGCATCAATGCACCAATTCA
15469 GCAA
1 GCAA
15473 ATATCCTGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (23 bp):
GCAAGCATCAATGCACCAATTCA
Found at i:17762 original size:76 final size:76
Alignment explanation
Indices: 17599--17748 Score: 248
Period size: 76 Copynumber: 2.0 Consensus size: 76
17589 GGAAAACGAG
* * *
17599 AGAAAAGGAAGAGATTTTGGATGCTGAGCGGGGAAAAAGATAGACCGAAAATAAAGGATGGAGGG
1 AGAAAAGGGAGAGATTTTGGATGCTGAGCGGGGAAAAAGAGAGACCGAAAATAAAGGAGGGAGGG
17664 TTTGGCCGGCA
66 TTTGGCCGGCA
*
17675 AGAAAAGGGAGAGCTTTTGGATGCTGAGC-GGGAAAGAAGAGAGACCGAAAATAAAGGAGGGAGG
1 AGAAAAGGGAGAGATTTTGGATGCTGAGCGGGGAAA-AAGAGAGACCGAAAATAAAGGAGGGAGG
17739 GTTTGGCCGG
65 GTTTGGCCGG
17749 GAATAGGCGG
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
75 6 0.09
76 63 0.91
ACGTcount: A:0.37, C:0.09, G:0.39, T:0.15
Consensus pattern (76 bp):
AGAAAAGGGAGAGATTTTGGATGCTGAGCGGGGAAAAAGAGAGACCGAAAATAAAGGAGGGAGGG
TTTGGCCGGCA
Found at i:17855 original size:15 final size:17
Alignment explanation
Indices: 17835--17875 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 17
17825 CTATTTAAAA
17835 TTAATATTAATA-TAT-
1 TTAATATTAATACTATC
17850 TTAATATTAATACTATC
1 TTAATATTAATACTATC
17867 TT-ATATTAA
1 TTAATATTAA
17876 GATAATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.50
16 10 0.42
17 2 0.08
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAATATTAATACTATC
Found at i:17957 original size:31 final size:31
Alignment explanation
Indices: 17905--17964 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
17895 TGTAATTAAT
*
17905 ATTAATACTAATATAAAATATAGTCTATAAA
1 ATTAATACTAATATAAAATATAGTATATAAA
* *
17936 ATTAATATTAATA-AATTATATAGTATATA
1 ATTAATACTAATATAA-AATATAGTATATA
17965 TTATAAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (31 bp):
ATTAATACTAATATAAAATATAGTATATAAA
Found at i:17965 original size:22 final size:22
Alignment explanation
Indices: 17940--17998 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
17930 TATAAAATTA
*
17940 ATATTAATAAATTATATAGTAT
1 ATATTAATAAATTATATACTAT
*
17962 ATATT-ATAAACTATATACTAT
1 ATATTAATAAATTATATACTAT
*
17983 AT-TAATATAAATTATA
1 ATATTA-ATAAATTATA
17999 GTTAAGATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 16 0.52
22 14 0.45
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (22 bp):
ATATTAATAAATTATATACTAT
Found at i:18079 original size:21 final size:21
Alignment explanation
Indices: 18055--18095 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18045 AACTATAATT
* *
18055 TATAATTTATAAATTATATAC
1 TATAAGTTATAAAGTATATAC
*
18076 TATAGGTTATAAAGTATATA
1 TATAAGTTATAAAGTATATA
18096 GTACACTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (21 bp):
TATAAGTTATAAAGTATATAC
Found at i:18251 original size:67 final size:69
Alignment explanation
Indices: 18136--18266 Score: 169
Period size: 67 Copynumber: 1.9 Consensus size: 69
18126 TATAGGTTAC
* * *
18136 ATATATAGTTTATATAACGTATAAATAGATTGTATATATACATATACTATAGGTTATATATATAT
1 ATATATAGTTTATATAACGTATAAATAGATTGTATACATACATATACTATAAGTTACATATATAT
18201 ATAT
66 ATAT
* ** *
18205 ATATATAGTTTGTATATAC-TATGCATA-ATT-TATACATACATGTACTATAAGTTACATATATA
1 ATATATAGTTTATATA-ACGTATAAATAGATTGTATACATACATATACTATAAGTTACATATATA
18267 GTTTACATGT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
67 28 0.52
68 3 0.06
69 21 0.39
70 2 0.04
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (69 bp):
ATATATAGTTTATATAACGTATAAATAGATTGTATACATACATATACTATAAGTTACATATATAT
ATAT
Found at i:18499 original size:25 final size:25
Alignment explanation
Indices: 18471--18540 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 25
18461 TAATATAAAT
18471 TATAATTTACAAACTATATATTTTA
1 TATAATTTACAAACTATATATTTTA
* * * *
18496 TATAGTTTATACA-TATATAGTTTA
1 TATAATTTACAAACTATATATTTTA
* *
18520 TAT-ATATACATACATATATAT
1 TATAATTTACAAAC-TATATAT
18541 ATACTATATT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
23 5 0.15
24 13 0.38
25 16 0.47
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (25 bp):
TATAATTTACAAACTATATATTTTA
Found at i:18512 original size:15 final size:15
Alignment explanation
Indices: 18494--18527 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
18484 CTATATATTT
18494 TATATAGTTTATACA
1 TATATAGTTTATACA
*
18509 TATATAGTTTATATA
1 TATATAGTTTATACA
18524 TATA
1 TATA
18528 CATACATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:18626 original size:89 final size:88
Alignment explanation
Indices: 18433--18626 Score: 248
Period size: 89 Copynumber: 2.2 Consensus size: 88
18423 TTATATTAGT
18433 TATACATACATATATATATATACTATATTAATATAAATTATAATTTACAAACTATATATTTTATA
1 TATACATA-A-ATATATATATACTATATTAATATAAATTATAATTTACAAACTATATATTTTATA
* * *
18498 TAGTTTATACATATATAGTTTATATA
64 TAGTTTATA-ATAAATAGTTAAAATA
* * *
18524 TATACATACATATATATATACTATATTAATATAAATTATATTTTATAAACTATATACTTTT-TAT
1 TATACATAAATATATATATACTATATTAATATAAATTATAATTTACAAACTATATA-TTTTATAT
*
18588 AGTTTAT-ATAAATTGTATAAAATA
65 AGTTTATAATAAATAGT-TAAAATA
*
18612 TAGTATATAAATATA
1 TA-TACATAAATATA
18627 AACTATAGTA
Statistics
Matches: 91, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
87 7 0.08
88 7 0.08
89 65 0.71
90 4 0.04
91 8 0.09
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (88 bp):
TATACATAAATATATATATACTATATTAATATAAATTATAATTTACAAACTATATATTTTATATA
GTTTATAATAAATAGTTAAAATA
Found at i:18653 original size:20 final size:20
Alignment explanation
Indices: 18602--18691 Score: 78
Period size: 20 Copynumber: 4.5 Consensus size: 20
18592 TATATAAATT
18602 GTATA-AAATATAGTATATA
1 GTATATAAATATAGTATATA
* *
18621 -AATATAAACTATAGTATGTA
1 GTATATAAA-TATAGTATATA
*
18641 GTATATAAATATA-AACTATA
1 GTATATAAATATAGTA-TATA
* * *
18661 ATTTATATATATAGTATATA
1 GTATATAAATATAGTATATA
*
18681 CTATATAAATA
1 GTATATAAATA
18692 GTTTATATAG
Statistics
Matches: 54, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
18 3 0.06
19 4 0.07
20 39 0.72
21 8 0.15
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (20 bp):
GTATATAAATATAGTATATA
Found at i:18679 original size:27 final size:27
Alignment explanation
Indices: 18603--18698 Score: 99
Period size: 27 Copynumber: 3.7 Consensus size: 27
18593 ATATAAATTG
*
18603 TATAAAATATAGTATATAAATATAAAC
1 TATAATATATAGTATATAAATATAAAC
* *
18630 TATAGTATGTAGTATATAAATATAAAC
1 TATAATATATAGTATATAAATATAAAC
* * *
18657 TATAATTTATA-TATAT-AGTATATAC
1 TATAATATATAGTATATAAATATAAAC
* *
18682 TAT-ATAAATAGTTTATA
1 TATAATATATAGTATATA
18699 TAGTTTACTA
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
24 5 0.09
25 14 0.25
26 5 0.09
27 32 0.57
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (27 bp):
TATAATATATAGTATATAAATATAAAC
Found at i:18685 original size:18 final size:18
Alignment explanation
Indices: 18664--18698 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18654 AACTATAATT
*
18664 TATATATATAGTATATAC
1 TATATAAATAGTATATAC
*
18682 TATATAAATAGTTTATA
1 TATATAAATAGTATATA
18699 TAGTTTACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (18 bp):
TATATAAATAGTATATAC
Found at i:18772 original size:20 final size:20
Alignment explanation
Indices: 18719--18765 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
18709 ATAAATTATA
18719 TATATAGGTCATATGTAAAC
1 TATATAGGTCATATGTAAAC
18739 TATATAGGTCATATGTAAAC
1 TATATAGGTCATATGTAAAC
18759 TATATAG
1 TATATAG
18766 TATATATAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (20 bp):
TATATAGGTCATATGTAAAC
Found at i:19038 original size:13 final size:13
Alignment explanation
Indices: 19004--19032 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
18994 AATTGAAGTT
19004 TATATATAATTTA
1 TATATATAATTTA
19017 TATATATAATTTA
1 TATATATAATTTA
19030 TAT
1 TAT
19033 TAATAAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATATATAATTTA
Found at i:19113 original size:2 final size:2
Alignment explanation
Indices: 19106--19280 Score: 105
Period size: 2 Copynumber: 87.0 Consensus size: 2
19096 TTATACATGT
* * *
19106 TA TA TA TA GTT TA TA CA TA -A TA TA TA TA -A TA TA TA TA GTT TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* *
19148 TA CA TA -A TA TA TA TA -A TA TA TA GTT TA TA TA TA GTA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA
* * * *
19189 TA -A TA TA AA TA TA AA CTA TA TA GTT TA TA TA TA TA -A TA CA TA
1 TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * *
19231 TA CTT TA TA TA TA AA CTA TA TA GTT TA TA T- 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
19273 TA TA TA TA
1 TA TA TA TA
19281 ATAGTTGTTT
Statistics
Matches: 132, Mismatches: 24, Indels: 34
0.69 0.13 0.18
Matches are distributed among these distances:
1 8 0.06
2 114 0.86
3 10 0.08
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:19115 original size:20 final size:20
Alignment explanation
Indices: 19090--19133 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
19080 TATTTAGTAT
**
19090 TATAGTTTATACATGTTATA
1 TATAGTTTATACATAATATA
19110 TATAGTTTATACATAATATA
1 TATAGTTTATACATAATATA
19130 TATA
1 TATA
19134 ATATATATAG
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:0.41, C:0.05, G:0.07, T:0.48
Consensus pattern (20 bp):
TATAGTTTATACATAATATA
Found at i:19139 original size:29 final size:29
Alignment explanation
Indices: 19106--19195 Score: 139
Period size: 29 Copynumber: 3.1 Consensus size: 29
19096 TTATACATGT
19106 TATATATAGTTTATACATAATATATATAA
1 TATATATAGTTTATACATAATATATATAA
19135 TATATATAGTTTATACATAATATATAT-A
1 TATATATAGTTTATACATAATATATATAA
* *
19163 -ATATATAGTTTATATATAGTATATAATAA
1 TATATATAGTTTATACATAATATAT-ATAA
19192 TATA
1 TATA
19196 AATATAAACT
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
27 22 0.39
28 3 0.05
29 28 0.50
30 3 0.05
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (29 bp):
TATATATAGTTTATACATAATATATATAA
Found at i:19158 original size:9 final size:9
Alignment explanation
Indices: 19117--19283 Score: 98
Period size: 9 Copynumber: 18.2 Consensus size: 9
19107 ATATATAGTT
*
19117 TATACATAA
1 TATATATAA
19126 TATATATAA
1 TATATATAA
*
19135 TATATATAGTT
1 TATATATA--A
*
19146 TATACATAA
1 TATATATAA
19155 TATATATAA
1 TATATATAA
19164 TATATAGT--
1 TATATA-TAA
19172 T-TATAT-A
1 TATATATAA
19179 TAGTATATAA
1 TA-TATATAA
19189 TA-ATATAA
1 TATATATAA
19197 -ATATA-AA
1 TATATATAA
*
19204 CTATATAGTTTA
1 -TATATA--TAA
19216 TATATATAA
1 TATATATAA
* *
19225 TACATATACTT
1 TATATATA--A
19236 TATATATAA
1 TATATATAA
*
19245 -ACTATATAG
1 TA-TATATAA
* *
19254 TTTATATTA
1 TATATATAA
19263 TATATATATA
1 TATATATA-A
19273 TATATATAA
1 TATATATAA
19282 TA
1 TA
19284 GTTGTTTCAG
Statistics
Matches: 123, Mismatches: 17, Indels: 36
0.70 0.10 0.20
Matches are distributed among these distances:
6 1 0.01
7 8 0.07
8 11 0.09
9 69 0.56
10 13 0.11
11 20 0.16
12 1 0.01
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (9 bp):
TATATATAA
Found at i:19755 original size:215 final size:213
Alignment explanation
Indices: 19381--20091 Score: 1091
Period size: 215 Copynumber: 3.3 Consensus size: 213
19371 TTTGATCATT
* *
19381 TTGTGTTGTTTAATTTATTTAAATTTTAATTTATAATTTCATATTTATTCAATTTAGTCCTTAAA
1 TTGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGT-CTTAAA
* * *
19446 ATTATATTTACATCTGAAATTGACCAATACTTATTACTTATTTTTATTTTTTAATTGGCCTATAA
65 ATTATATTTGCATCTGAAATTGACCAATACTTATTACTTATTTATA-TTTTTAATTGGCCCATAA
* * *
19511 ATTTTTAAATGGGTATAATTTATTACTTTTTTGTATTAATTTAAACATCACAATTTAAAATTATT
129 CTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATT
19576 TTGATTTGATCCCTCATCAA
194 TTGATTTGATCCCTCATCAA
* *
19596 TGTGTGTTGTTTAATTTATTTATATTTTAATTTGTAATTTCACATTTGTTCAATTTAGTCATTAA
1 T-TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTC-TTAA
19661 AATTATATTTGCATCT-AAATTGA-CACATACTTATTACTTATTTATAGTTTTTAATTGGCCCAT
64 AATTATATTTGCATCTGAAATTGACCA-ATACTTATTACTTATTTATA-TTTTTAATTGGCCCAT
*
19724 AACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCTCACAGTTTAAAATTA
127 AACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCTCACAATTTAAAATTA
*
19789 TTTCGATTTGAT-CC-C-T---
192 TTTTGATTTGATCCCTCATCAA
* * *
19805 TTGTGTT-TTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTTAATTTAGTCCTATAA
1 TTGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCTTA-AA
19869 ATTATATTTGCATCTGAAATTGACCAATACTTATTACTT-TTTATATTTTTAATTGGCCCATAAC
65 ATTATATTTGCATCTGAAATTGACCAATACTTATTACTTATTTATATTTTTAATTGGCCCATAAC
*
19933 TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTT
130 TTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTT
19998 TGATTTGATCCCTCATCAA
195 TGATTTGATCCCTCATCAA
* *
20017 TATGTGTTGTTTAATTTATTTAAATTTAAATTTGTAATTTCATATTTGTTCAATTTAATTCTTAA
1 T-TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTT-AGTCTTAA
* *
20082 ATTTGTATTT
64 AATTATATTT
20092 TTCATAAAAT
Statistics
Matches: 453, Mismatches: 28, Indels: 31
0.88 0.05 0.06
Matches are distributed among these distances:
206 92 0.20
207 72 0.16
208 27 0.06
209 4 0.01
212 2 0.00
213 7 0.02
214 57 0.13
215 120 0.26
216 72 0.16
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (213 bp):
TTGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCTTAAAA
TTATATTTGCATCTGAAATTGACCAATACTTATTACTTATTTATATTTTTAATTGGCCCATAACT
TTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTT
GATTTGATCCCTCATCAA
Found at i:20470 original size:21 final size:21
Alignment explanation
Indices: 20444--20496 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
20434 CTGAAAATGT
20444 CCCGACCTGATTTGACCTGAA
1 CCCGACCTGATTTGACCTGAA
*
20465 CCCGACCTGATTTGACCTGGA
1 CCCGACCTGATTTGACCTGAA
20486 CCCGACCTGAT
1 CCCGACCTGAT
20497 CCGAGTCGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.23
Consensus pattern (21 bp):
CCCGACCTGATTTGACCTGAA
Found at i:23492 original size:71 final size:71
Alignment explanation
Indices: 23376--23519 Score: 288
Period size: 71 Copynumber: 2.0 Consensus size: 71
23366 AAAAACATAT
23376 CAACAAAGAGCATAGGTGGGTAATATCATCAGTGCAATCAAATCACATTGTGACACACACACACA
1 CAACAAAGAGCATAGGTGGGTAATATCATCAGTGCAATCAAATCACATTGTGACACACACACACA
23441 CAGACA
66 CAGACA
23447 CAACAAAGAGCATAGGTGGGTAATATCATCAGTGCAATCAAATCACATTGTGACACACACACACA
1 CAACAAAGAGCATAGGTGGGTAATATCATCAGTGCAATCAAATCACATTGTGACACACACACACA
23512 CAGACA
66 CAGACA
23518 CA
1 CA
23520 CACACACACA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.42, C:0.24, G:0.17, T:0.17
Consensus pattern (71 bp):
CAACAAAGAGCATAGGTGGGTAATATCATCAGTGCAATCAAATCACATTGTGACACACACACACA
CAGACA
Found at i:23506 original size:2 final size:2
Alignment explanation
Indices: 23499--23529 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
23489 TCACATTGTG
*
23499 AC AC AC AC AC AC AC AG AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
23530 TATGTATGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.45, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:24419 original size:162 final size:162
Alignment explanation
Indices: 24227--24736 Score: 619
Period size: 162 Copynumber: 3.0 Consensus size: 162
24217 ACGAAAAGAT
* *
24227 AAAATCGGTAAAGCGCTACTGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTT
1 AAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTT
* * * *
24292 TGTGAATTTAAAAGAGAAGCAGTTTTAGCGACC-GTAAAGTGTCGATACTTTATAAAAATATATC
66 TGTGAATTTAAAAGAGAAGCAGTTTTAACG-CCTATAAAGTGTCGATACTTTATAACAATGTATC
* *
24356 GATCCATAACGATATAACAGGAAAAAATATGAC
130 GATCCACAACGATATAACAGGTAAAAATATGAC
* *
24389 AAAACCGGTAAAGCGCTACCGGATATATTGAAAGTCTCGATACTTTAATATAAGTATCGACATTT
1 AAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTT
* * * *
24454 TATGAATTTAAAAGAAAAGCAGTTTTATCGCCTATAAAGTGTCGATTCTTTATAACAATGTATCG
66 TGTGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCGATACTTTATAACAATGTATCG
* *
24519 ATCTACACCGATATAACAGGTAAAAATATGAC
131 ATCCACAACGATATAACAGGTAAAAATATGAC
* *
24551 -AAACCTGGTCTCTAAAGAACAAAACCAGTATAGAACGACCGAATATATTGAAAGTGTCGATACT
1 AAAACC-GG----TAAAG--------C------G--CTACCGGATATATTGAAAGTGTCGATACT
* *
24615 TTAATATAAATATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAACTGTCG
45 TTAATATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCG
*
24680 ATACTTTATAACAATGTATTGATCCACAACGATATAACAGGTAAAAATATGAC
110 ATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGAC
24733 AAAA
1 AAAA
24737 TCAGTCTCAA
Statistics
Matches: 297, Mismatches: 28, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
161 7 0.02
162 146 0.49
166 5 0.02
174 1 0.00
180 1 0.00
182 134 0.45
183 3 0.01
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (162 bp):
AAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTT
TGTGAATTTAAAAGAGAAGCAGTTTTAACGCCTATAAAGTGTCGATACTTTATAACAATGTATCG
ATCCACAACGATATAACAGGTAAAAATATGAC
Found at i:24694 original size:182 final size:182
Alignment explanation
Indices: 24406--24735 Score: 552
Period size: 182 Copynumber: 1.8 Consensus size: 182
24396 GTAAAGCGCT
* * *
24406 ACCGGATATATTGAAAGTCTCGATACTTTAATATAAGTATCGACATTTTATGAATTTAAAAGAAA
1 ACCGAATATATTGAAAGTCTCGATACTTTAATATAAATATCGACACTTTATGAATTTAAAAGAAA
* * * * *
24471 AGCAGTTTTATCGCCTATAAAGTGTCGATTCTTTATAACAATGTATCGATCTACACCGATATAAC
66 AGCAGTTTTAACGCCTATAAACTGTCGATACTTTATAACAATGTATCGATCCACAACGATATAAC
24536 AGGTAAAAATATGACAAACCTGGTCTCTAAAGAACAAAACCAGTATAGAACG
131 AGGTAAAAATATGACAAACCTGGTCTCTAAAGAACAAAACCAGTATAGAACG
* * *
24588 ACCGAATATATTGAAAGTGTCGATACTTTAATATAAATATCGACACTTTGTGAATTTAAAAGAGA
1 ACCGAATATATTGAAAGTCTCGATACTTTAATATAAATATCGACACTTTATGAATTTAAAAGAAA
*
24653 AGCAGTTTTAACGCCTATAAACTGTCGATACTTTATAACAATGTATTGATCCACAACGATATAAC
66 AGCAGTTTTAACGCCTATAAACTGTCGATACTTTATAACAATGTATCGATCCACAACGATATAAC
24718 AGGTAAAAATATGACAAA
131 AGGTAAAAATATGACAAA
24736 ATCAGTCTCA
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
182 136 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (182 bp):
ACCGAATATATTGAAAGTCTCGATACTTTAATATAAATATCGACACTTTATGAATTTAAAAGAAA
AGCAGTTTTAACGCCTATAAACTGTCGATACTTTATAACAATGTATCGATCCACAACGATATAAC
AGGTAAAAATATGACAAACCTGGTCTCTAAAGAACAAAACCAGTATAGAACG
Found at i:24757 original size:182 final size:181
Alignment explanation
Indices: 24406--24801 Score: 542
Period size: 182 Copynumber: 2.2 Consensus size: 181
24396 GTAAAGCGCT
* * * *
24406 ACCGGATATATTGAAAGTCTCGATACTTTAATATAAGTATCGACATTTTATGAATTTAAAAGAAA
1 ACCGAATATATTGAAAGTGTCGATACTTTAATATAAATATCGACACTTTATGAATTTAAAAGAAA
* * * * *
24471 AGCAGTTTTATCGCCTATAAAGTGTCGATTCTTTATAACAATGTATCGATCTACACCGATATAAC
66 AGCAGTTTTAACGCCTATAAACTGTCGATACTTTATAACAATGTATCGATCCACAACGATATAAC
* * *
24536 AGGTAAAAATATGACAAACCTGGTCTCTAAAGAACAAAACCAGTATAGAACG
131 AGGTAAAAATATGACAAACCTAGTCTCAAAAGAACAAAA-CAGTAAAGAACG
* *
24588 ACCGAATATATTGAAAGTGTCGATACTTTAATATAAATATCGACACTTTGTGAATTTAAAAGAGA
1 ACCGAATATATTGAAAGTGTCGATACTTTAATATAAATATCGACACTTTATGAATTTAAAAGAAA
*
24653 AGCAGTTTTAACGCCTATAAACTGTCGATACTTTATAACAATGTATTGATCCACAACGATATAAC
66 AGCAGTTTTAACGCCTATAAACTGTCGATACTTTATAACAATGTATCGATCCACAACGATATAAC
* * * ** *
24718 AGGTAAAAATATGACAAA-ATCAGTCTCAAAAGGACAAAACGGTAAAGCCCT
131 AGGTAAAAATATGACAAACCT-AGTCTCAAAAGAACAAAACAGTAAAGAACG
* * * *
24769 ACCAAATATATTAAAAGTGTTGATATTTTAATA
1 ACCGAATATATTGAAAGTGTCGATACTTTAATA
24802 AGTACGTGTA
Statistics
Matches: 188, Mismatches: 25, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
181 37 0.20
182 151 0.80
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.29
Consensus pattern (181 bp):
ACCGAATATATTGAAAGTGTCGATACTTTAATATAAATATCGACACTTTATGAATTTAAAAGAAA
AGCAGTTTTAACGCCTATAAACTGTCGATACTTTATAACAATGTATCGATCCACAACGATATAAC
AGGTAAAAATATGACAAACCTAGTCTCAAAAGAACAAAACAGTAAAGAACG
Found at i:25268 original size:6 final size:6
Alignment explanation
Indices: 25257--25292 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
25247 GACACGTATT
25257 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
25293 GCGACGGCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.50, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:25920 original size:12 final size:12
Alignment explanation
Indices: 25903--25927 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25893 TTTTTAACTA
25903 TCGCAACGAATT
1 TCGCAACGAATT
25915 TCGCAACGAATT
1 TCGCAACGAATT
25927 T
1 T
25928 GGAAAATCGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (12 bp):
TCGCAACGAATT
Found at i:26015 original size:21 final size:21
Alignment explanation
Indices: 25952--26015 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
25942 ACAACTGTAG
* *
25952 ACTATCGCAATGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
25973 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
25993 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
26014 AC
1 AC
26016 GCGAATTTGC
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:28108 original size:21 final size:21
Alignment explanation
Indices: 28082--28124 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
28072 CAAAGACAAT
*
28082 AAAGAGTTGAAGAGAAACTTG
1 AAAGAGTCGAAGAGAAACTTG
* *
28103 AAAGAGTCGATGAGACACTTG
1 AAAGAGTCGAAGAGAAACTTG
28124 A
1 A
28125 GAGGCATAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (21 bp):
AAAGAGTCGAAGAGAAACTTG
Found at i:28217 original size:25 final size:25
Alignment explanation
Indices: 28166--28219 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
28156 GATGGAGTGA
*
28166 TGAAAGGAGTTGAGGGGTAAAGTGG
1 TGAAAGGAGTTGAGGGGTAAAGGGG
* **
28191 TGAAAGGAGTTGAGGTGTTGAGGGG
1 TGAAAGGAGTTGAGGGGTAAAGGGG
28216 TGAA
1 TGAA
28220 GTGGTGAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.48, T:0.22
Consensus pattern (25 bp):
TGAAAGGAGTTGAGGGGTAAAGGGG
Found at i:28250 original size:33 final size:33
Alignment explanation
Indices: 28174--28252 Score: 140
Period size: 33 Copynumber: 2.4 Consensus size: 33
28164 GATGAAAGGA
* *
28174 GTTGAGGGGTAAAGTGGTGAAAGGAGTTGAGGT
1 GTTGAGGGGTGAAGTGGTGAAAGAAGTTGAGGT
28207 GTTGAGGGGTGAAGTGGTGAAAGAAGTTGAGGT
1 GTTGAGGGGTGAAGTGGTGAAAGAAGTTGAGGT
28240 GTTGAGGGGTGAA
1 GTTGAGGGGTGAA
28253 CTTAAGATGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.27, C:0.00, G:0.49, T:0.24
Consensus pattern (33 bp):
GTTGAGGGGTGAAGTGGTGAAAGAAGTTGAGGT
Found at i:28460 original size:18 final size:18
Alignment explanation
Indices: 28437--28471 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
28427 AAAAAATATG
28437 AAGAAGAAAAGAGGGAGA
1 AAGAAGAAAAGAGGGAGA
*
28455 AAGAAGAAAAGATGGAG
1 AAGAAGAAAAGAGGGAG
28472 GAAATGATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.37, T:0.03
Consensus pattern (18 bp):
AAGAAGAAAAGAGGGAGA
Found at i:30049 original size:19 final size:19
Alignment explanation
Indices: 30025--30073 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
30015 AATGTAGGGT
30025 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
* *
30044 TAATTTTGTATACGGTTTA
1 TAATTTTGTATAAGATTTA
30063 TAATTTTGTAT
1 TAATTTTGTAT
30074 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:30833 original size:199 final size:199
Alignment explanation
Indices: 30423--31578 Score: 1480
Period size: 199 Copynumber: 5.8 Consensus size: 199
30413 GTAAACATAT
* *** * *
30423 GTGTCGATACATTTATAAAAAATATCGATAAAAAAAACATCGAAACCCATAATTATAATATAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* ** * * * * * *
30488 GGTAATTTTGTAATATAACCGGTATAAATATACTGGATTTATGTGAGAATAGGTTTACATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGTACATAATGT
* * * *
30553 ATCGACACTTTCTCATTTTATGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACGC
131 ATCGACACTTT-TGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGC
**
30618 AT-TT
195 ATAAA
* *
30622 GTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACTC-ATAAATATAATGTAAT
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAAC-CGATAATTATAATGTAAT
* * *
30686 AGGTAAATTTACAATGTAACCGGTATAACTATA-CGGTTTTATGAGAAAATATGTCTACATAATG
65 AGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGTACATAATG
* * * * *
30750 TATCGAAACGTATGGAATTTGTGTCGATACTGTTTGTCCAGAATGAATGCCCAAAA-GAGTGCAC
130 TATCGACAC-TTTTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATG-GTGAAC
*
30814 CCATAAA
193 GCATAAA
* * *
30821 GTGTCAATACATTTAATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAAT
1 GTGTCGATACATTT-ATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* ** * * * * * *
30886 AGGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGTGAGAATATGTATACATAATG
65 AGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGTACATAATG
* * * *
30951 TGTCGACATTTTTTAATTTTGTGTCGATACTTTTT-TCCAAAATGAATGCCCAAAATGGTGAACG
130 TATCGACACTTTTGAA-TTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACG
*
31015 CGTAAA
194 CATAAA
* * *
31021 GTGTCTATACATTTATAAAAAATATCGATCCCAAAAATATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * *
31086 GGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTGTACATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGTACATAATGT
* *
31151 GTCGATACTTTTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCA
131 ATCGACACTTTTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCA
31216 TAAA
196 TAAA
* * * * *
31220 GTGTCGATACATTTATAAAAAGTTTTGATCCAAAAAATATCGAAACCAATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * *
31285 GGTAAATTTACAATGTAACCAGTATAAATATACTGGTTTTATGAGAAAATAAAG-GAACATAATG
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAAT-AGGTGTACATAATG
* * * *
31349 TGTCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATAAATGCCCAAAATGGTGAACA
130 TATCGACAC-TTTTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACG
31414 CATAAA
194 CATAAA
**
31420 GTGTCGATACATACATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * *
31485 GGTAAATTTACATTGTAACCGATATAAATTTACCGGTTTTATGAGAAAATAGGTGAACATAATGT
66 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGTACATAATGT
*
31550 ATCGACACGTTTT-AGATTTGTATCGATAC
131 ATCGACAC-TTTTGA-ATTTGTGTCGATAC
31579 AATTTTAAAT
Statistics
Matches: 838, Mismatches: 105, Indels: 27
0.86 0.11 0.03
Matches are distributed among these distances:
197 1 0.00
198 96 0.11
199 372 0.44
200 318 0.38
201 51 0.06
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (199 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGTACATAATGT
ATCGACACTTTTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCA
TAAA
Found at i:31175 original size:399 final size:400
Alignment explanation
Indices: 30423--31578 Score: 1635
Period size: 399 Copynumber: 2.9 Consensus size: 400
30413 GTAAACATAT
* ** *
30423 GTGTCGATACATTTATAAAAAATATCGATAAAAAAAACATCGAAACCCATAATTATAATATAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
30488 GGTAATTTTGTAATATAACCGGTATAAATATACTGGATTTATGTGAGAATAGGTTTACATAATGT
66 GGTAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGTGAGAATAAGTATACATAATGT
* * * * *
30553 ATCGACACTTTCTCATTTTATGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACGC
131 GTCGACACTTTTTAATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGC
** * *
30618 AT-TTGTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACTC-ATAAATATAAT
196 ATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAAC-CGATAATTATAAT
* * *
30681 GTAATAGGTAAATTTACAATGTAACCGGTATAACTATA-CGGTTTTATGAGAAAATATGTCTACA
260 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGTACA
* *
30745 TAATGTATCGAAACGTATGGAATTTGTGTCGATACTGTTTGTCCAGAATGAATGCCCAAAA-GAG
325 TAATGTATCGAAACGTTTTGAATTTGTGTCGATACTGTTTGTCCAGAATGAATGCCCAAAATG-G
*
30809 TGCACCCATAAA
389 TGAACCCATAAA
* * *
30821 GTGTCAATACATTTAATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAAT
1 GTGTCGATACATTT-ATAAAAAGTATCGATCCAAAAAACATCGAAACCCATAATTATAATGTAAT
** *
30886 AGGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGTGAGAATATGTATACATAATG
65 AGGTAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGTGAGAATAAGTATACATAATG
* *
30951 TGTCGACATTTTTTAATTTTGTGTCGATACTTTTT-TCCAAAATGAATGCCCAAAATGGTGAACG
130 TGTCGACACTTTTTAATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACG
* * * *
31015 CGTAAAGTGTCTATACATTTATAAAAAATATCGATCCCAAAAATATCGAAACCGATAATTATAAT
195 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * *
31080 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTTATGTGAGAATAGGTGTACA
260 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGTACA
* * *
31145 TAATGTGTCGATAC-TTTTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGT
325 TAATGTATCGAAACGTTTTGAATTTGTGTCGATACTGTTTGTCCAGAATGAATGCCCAAAATGGT
*
31209 GAACGCATAAA
390 GAACCCATAAA
* * * *
31220 GTGTCGATACATTTATAAAAAGTTTTGATCCAAAAAATATCGAAACCAATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCCATAATTATAATGTAATA
* ** * * * * *
31285 GGTAAATTTACAATGTAACCAGTATAAATATACTGGTTTTATGAGAAAATAAAGGA-ACATAATG
66 GGTAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGTGAGAAT-AAGTATACATAATG
* * *
31349 TGTCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATAAATGCCCAAAATGGTGAACA
130 TGTCGACACTTTTTAATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACG
**
31414 CATAAAGTGTCGATACATACATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
195 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * * *
31479 GTAATAGGTAAATTTACATTGTAACCGATATAAATTTACCGGTTTTATGAGAAAATAGGTGAACA
260 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGTACA
* *
31544 TAATGTATCGACACGTTTT-AGATTTGTATCGATAC
325 TAATGTATCGAAACGTTTTGA-ATTTGTGTCGATAC
31579 AATTTTAAAT
Statistics
Matches: 671, Mismatches: 78, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
398 171 0.25
399 449 0.67
400 51 0.08
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (400 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGTGAGAATAAGTATACATAATGT
GTCGACACTTTTTAATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGC
ATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTGTACAT
AATGTATCGAAACGTTTTGAATTTGTGTCGATACTGTTTGTCCAGAATGAATGCCCAAAATGGTG
AACCCATAAA
Found at i:31513 original size:598 final size:597
Alignment explanation
Indices: 30423--31578 Score: 1626
Period size: 598 Copynumber: 1.9 Consensus size: 597
30413 GTAAACATAT
30423 GTGTCGATACATTTATAAAAAATATCGATAAAAAAAACATCGAAACCCATAATTATAATATAATA
1 GTGTCGATACATTTATAAAAAATATCGATAAAAAAAACATCGAAACCCATAATTATAATATAATA
* ** * *
30488 GGTAATTTTGTAATATAACCGGTATAAATATACTGGATTTATGTGAGAATAGGTTTACATAATGT
66 GGTAAATTTACAATATAACCGGTATAAATATACTCGATTTATGTGAGAATAGGTGTACATAATGT
*
30553 ATCGACACTTTCTCATTTTATGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACGC
131 ATCGACACTTTCTCAATTTATGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACGC
** * *
30618 ATTTGTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACATCGAAACTCATAAATATAATGT
196 ATAAGTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACTCATAAATATAATGT
* * * *
30683 AATAGGTAAATTTACAATGTAACCGGTATAACTATACGGTTTTATGAGAAAATATGTCTACATAA
261 AATAGGTAAATTTACAATGTAACCAGTATAAATATACGGTTTTATGAGAAAATAAGTCAACATAA
* * *
30748 TGTATCGAAACGTATGGAATTTGTGTCGATACTGTTTGTCCAGAATGAATGCCCAAAAGAGTGCA
326 TGTATCGAAACGTATGAAATTTGTGTCGATACTGTTTGTCCAGAATAAATGCCCAAAAGAGTGAA
* *
30813 CCCATAAAGTGTCAATACATTTAATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT
391 CACATAAAGTGTCAATACA-TTAATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTAT
* ** * * * *
30878 AATGTAATAGGTAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGTGAGAATATGT-A
455 AATGTAATAGGTAAATTTACAATATAACCGATATAAATATACCAGTTTTATGAGAAAATAGGTGA
* ** *
30942 TACATAATGTGTCGACATTTTTTA-ATTTTGTGTCGATACTTTTTTCCAAAATGAATGCCCAAAA
520 -ACATAATGTATCGACACGTTTTAGA-TTTGTATCGATACTTTTTTCCAAAATGAATGCCCAAAA
31006 TGGTGAACGCGTAAA
583 TGGTGAACGCGTAAA
* *** * * *
31021 GTGTCTATACATTTATAAAAAATATCGATCCCAAAAATATCGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAATATCGATAAAAAAAACATCGAAACCCATAATTATAATATAATA
*
31086 GGTAAATTTACAATGTAACCGGTATAAATATAC-CGATTTTATGTGAGAATAGGTGTACATAATG
66 GGTAAATTTACAATATAACCGGTATAAATATACTCGA-TTTATGTGAGAATAGGTGTACATAATG
* * * * *
31150 TGTCGATACTTT-TGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACG
130 TATCGACACTTTCTCAATTTATGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACG
* * * *
31214 CATAAAGTGTCGATACATTTATAAAAAGTTTTGATCCAAAAAATATCGAAAC-CAATAATTATAA
195 CAT-AAGTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACTC-ATAAATATAA
*
31278 TGTAATAGGTAAATTTACAATGTAACCAGTATAAATATACTGGTTTTATGAGAAAATAAAG-GAA
258 TGTAATAGGTAAATTTACAATGTAACCAGTATAAATATAC-GGTTTTATGAGAAAAT-AAGTCAA
* * * * * *
31342 CATAATGTGTCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATAAATGCCCAAAATG
321 CATAATGTATCGAAACGTATGAAATTTGTGTCGATACTGTTTGTCCAGAATAAATGCCCAAAA-G
* *
31407 -GTGAACACATAAAGTGTCGATACA-TACATAAAAAGTATCGATCCCAAAAACATCGAAACCGAT
385 AGTGAACACATAAAGTGTCAATACATTA-ATAAAAAGTATCGATCCCAAAAACATCGAAACCCAT
* * * *
31470 AATTATAATGTAATAGGTAAATTTACATTGTAACCGATATAAATTTACCGGTTTTATGAGAAAAT
449 AATTATAATGTAATAGGTAAATTTACAATATAACCGATATAAATATACCAGTTTTATGAGAAAAT
31535 AGGTGAACATAATGTATCGACACGTTTTAGATTTGTATCGATAC
514 AGGTGAACATAATGTATCGACACGTTTTAGATTTGTATCGATAC
31579 AATTTTAAAT
Statistics
Matches: 489, Mismatches: 60, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
597 56 0.11
598 335 0.69
599 95 0.19
600 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (597 bp):
GTGTCGATACATTTATAAAAAATATCGATAAAAAAAACATCGAAACCCATAATTATAATATAATA
GGTAAATTTACAATATAACCGGTATAAATATACTCGATTTATGTGAGAATAGGTGTACATAATGT
ATCGACACTTTCTCAATTTATGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACGC
ATAAGTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACTCATAAATATAATGT
AATAGGTAAATTTACAATGTAACCAGTATAAATATACGGTTTTATGAGAAAATAAGTCAACATAA
TGTATCGAAACGTATGAAATTTGTGTCGATACTGTTTGTCCAGAATAAATGCCCAAAAGAGTGAA
CACATAAAGTGTCAATACATTAATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATA
ATGTAATAGGTAAATTTACAATATAACCGATATAAATATACCAGTTTTATGAGAAAATAGGTGAA
CATAATGTATCGACACGTTTTAGATTTGTATCGATACTTTTTTCCAAAATGAATGCCCAAAATGG
TGAACGCGTAAA
Found at i:32246 original size:2 final size:2
Alignment explanation
Indices: 32239--32270 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
32229 ATGGGGAAGG
32239 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
32271 CTCCTGAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34460 original size:24 final size:24
Alignment explanation
Indices: 34409--34461 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
34399 TTTCATATGT
* * *
34409 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
* *
34433 AATTTGAGTTTGAGTTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
34457 AATTT
1 AATTT
34462 CGGATTCACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:35180 original size:193 final size:194
Alignment explanation
Indices: 34829--35300 Score: 640
Period size: 193 Copynumber: 2.5 Consensus size: 194
34819 AAGTTTCTCA
* * * * *
34829 GTCGATACATTTTTAAAAGTATCGATCCCAAAAATATCGAAACAAAAAATTATAA--T-ATAAGT
1 GTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGT
* * * * * *
34891 AAATTTAC-ATGTAACCAATATAAATATACCGGTTTTATGTGAGAATATGTGTACATAATGTGTC
66 AAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATATGGGAACATAATATGTC
34955 GACACTTTTAAATTTTGTATCATACTTTTTGTCCAAAATGAATGCCCAAA-ATGAACGCATAAAG
131 GACACTTTTAAATTTTGTATCATACTTTTTGT-C-AAATGAATGCCCAAAGATGAACGCATAAAG
35019 T
194 T
* *
35020 G-CGATACATTTATAAAAGTATCGATCCTAAAAACATTGAAACCAATAATTATAATGTAATAGGT
1 GTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGT
*
35084 AAA-TTACAATGTAACCAGTATTAATATACCGGTTTTATGAGAAAATA-GGGAAACATAATATGT
66 AAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATATGGG-AACATAATATGT
* * *
35147 CGACACTTTTTAAA-TTTGTGTCGATAC-TTTTGTCGAATGAATGCCCAAATGGTGAACGCATAA
130 CGACAC-TTTTAAATTTTGTATC-ATACTTTTTGTCAAATGAATGCCCAAA-GATGAACGCATAA
35210 AGT
192 AGT
*
35213 GTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAATCAATAATTATAATGTAATAGGT
1 GTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGT
* *
35278 AAATTTATAATGTAATCAGTATA
66 AAATTTACAATGTAACCAGTATA
35301 TCAATAATTA
Statistics
Matches: 247, Mismatches: 23, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
190 47 0.19
191 15 0.06
192 8 0.03
193 87 0.35
194 74 0.30
195 16 0.06
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (194 bp):
GTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGT
AAATTTACAATGTAACCAGTATAAATATACCGGTTTTATGAGAAAATATGGGAACATAATATGTC
GACACTTTTAAATTTTGTATCATACTTTTTGTCAAATGAATGCCCAAAGATGAACGCATAAAGT
Found at i:35287 original size:20 final size:20
Alignment explanation
Indices: 35262--35339 Score: 84
Period size: 20 Copynumber: 3.6 Consensus size: 20
35252 AAATCAATAA
35262 TTATAATGTAATAGGTAAAT
1 TTATAATGTAATAGGTAAAT
*
35282 TTATAATGTAATCAGTATATCAAT
1 TTATAATGTAAT-AG-GTA--AAT
35306 AATTATAATGTAATAGGTAAAT
1 --TTATAATGTAATAGGTAAAT
*
35328 TTACAATGTAAT
1 TTATAATGTAAT
35340 CAGTATAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
20 23 0.47
21 2 0.04
22 5 0.10
24 5 0.10
25 2 0.04
26 12 0.24
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.40
Consensus pattern (20 bp):
TTATAATGTAATAGGTAAAT
Found at i:35311 original size:26 final size:24
Alignment explanation
Indices: 35254--35321 Score: 81
Period size: 20 Copynumber: 2.9 Consensus size: 24
35244 AAACATCGAA
*
35254 ATCAATAATTATAATGTAATAGGT
1 ATCAATAATTATAATGTAATAGAT
35278 A--AAT--TTATAATGTAATCAGTAT
1 ATCAATAATTATAATGTAAT-AG-AT
35300 ATCAATAATTATAATGTAATAG
1 ATCAATAATTATAATGTAATAG
35322 GTAAATTTAC
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 12 0.32
21 2 0.05
22 5 0.14
24 4 0.11
25 2 0.05
26 12 0.32
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.38
Consensus pattern (24 bp):
ATCAATAATTATAATGTAATAGAT
Found at i:35321 original size:46 final size:46
Alignment explanation
Indices: 35254--35346 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
35244 AAACATCGAA
*
35254 ATCAATAATTATAATGTAATAGGTAAATTTATAATGTAATCAGTAT
1 ATCAATAATTATAATGTAATAGGTAAATTTACAATGTAATCAGTAT
35300 ATCAATAATTATAATGTAATAGGTAAATTTACAATGTAATCAGTAT
1 ATCAATAATTATAATGTAATAGGTAAATTTACAATGTAATCAGTAT
35346 A
1 A
35347 AATGTACCGG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (46 bp):
ATCAATAATTATAATGTAATAGGTAAATTTACAATGTAATCAGTAT
Found at i:40170 original size:199 final size:197
Alignment explanation
Indices: 39726--40435 Score: 801
Period size: 199 Copynumber: 3.6 Consensus size: 197
39716 ATATTCGTCA
*
39726 ATACATTT-TCTAAAAGTATCGA-CCCAAAAAACATCGAAACCAATAATTATAATGTAATAGGTA
1 ATACATTTAT-TAAAAGTATCGATCCC-AAAAACATCGAAACCGATAATTATAATGTAATAGGTA
* * * * * * *
39789 AATTAACAATGTAACCGGTATAAATATACTGGTTAATTAGAAAACAGGTAAACATAATGTATCGA
64 AATTTACAATGTAACCGGTATAAATATAC-GTTTTATGAGAAAATAGGTCATCATAATGTATCGA
* *
39854 CACTTGTGT-AATTTGTGTCGATACTTATTGTCCAGAATGAATGCTCAAACGAGGTACACGCATA
128 CACTTGT-TAAATTTGTGTCGATACTT-TTGTCCAAAATGAATGC-CAAACGAGGTGCACGCATA
39918 AAGTGTCG
190 AAGTGTCG
* * * * *
39926 ATACAATTATTAAAAGTATCGATCCCAATAAA-ATTGAATCCGATAATTATAATGTAACATGTAA
1 ATACATTTATTAAAAGTATCGATCCCAA-AAACATCGAAACCGATAATTATAATGTAATAGGTAA
*
39990 ATTTACAATGTAACCGGTATAAATATATCGATTTTATGAGAAAATAGGTCATCATAAAGTATCGA
65 ATTTACAATGTAACCGGTATAAATATA-CG-TTTTATGAGAAAATAGGTCATCATAATGTATCGA
* *
40055 CACTTGTTAAATTTTTGTCGATACATTTTGTCCATAATGAATGCCAAACG-GGTGCACGCATAAA
128 CACTTGTTAAATTTGTGTCGATAC-TTTTGTCCAAAATGAATGCCAAACGAGGTGCACGCATAAA
40119 GTGTCG
192 GTGTCG
* * *
40125 ATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAAATACAATGTGATAGGTAAA
1 ATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAA
* * * ** * * *
40190 TTTACAATGTACCCGATAGAAATACCCGTTTTATGAAAAAAATATGTC-TAAATAATGTATCGAC
66 TTTACAATGTAACCGGTATAAATATACGTTTTATG-AGAAAATAGGTCAT-CATAATGTATCGAC
* * * * *
40254 ACTCT-TTAAGTTTGTGTCGATACTTTTTTCCAAAATGAGTGCCCAACGAGGTGCACACATAAAG
129 ACT-TGTTAAATTTGTGTCGATACTTTTGTCCAAAATGAATGCCAAACGAGGTGCACGCATAAAG
40318 TGTCG
193 TGTCG
* ** * *
40323 ATACATTTA--AAATTGTATTAAT-CCAAAAACATTGAAACCGATAATTATAATGTAATAGATAA
1 ATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAA
* * * * * *
40385 ATTTGCAATATTACCGGTATAAATATACCGGTTTACTTATAAAATAGGTCA
65 ATTTACAATGTAACCGGTATAAATATA-CGTTTTA-TGAGAAAATAGGTCA
40436 ATATAAGCGC
Statistics
Matches: 433, Mismatches: 61, Indels: 34
0.82 0.12 0.06
Matches are distributed among these distances:
196 57 0.13
197 51 0.12
198 75 0.17
199 94 0.22
200 82 0.19
201 72 0.17
202 2 0.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (197 bp):
ATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAA
TTTACAATGTAACCGGTATAAATATACGTTTTATGAGAAAATAGGTCATCATAATGTATCGACAC
TTGTTAAATTTGTGTCGATACTTTTGTCCAAAATGAATGCCAAACGAGGTGCACGCATAAAGTGT
CG
Found at i:40465 original size:23 final size:23
Alignment explanation
Indices: 40436--40483 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
40426 AAATAGGTCA
* *
40436 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGATACCTAATACATT
*
40459 ATATAAGCGATACCTAATATATT
1 ATATAAGCGATACCTAATACATT
40482 AT
1 AT
40484 TGTACTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (23 bp):
ATATAAGCGATACCTAATACATT
Found at i:40570 original size:23 final size:23
Alignment explanation
Indices: 40520--40564 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
40510 TGCCTATTTT
* * *
40520 ATTATATAATCGCTACCTATTAC
1 ATTATATAAGCGATACCTAATAC
40543 ATTATATAAGCGATACCTAATA
1 ATTATATAAGCGATACCTAATA
40565 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGATACCTAATAC
Found at i:40657 original size:23 final size:23
Alignment explanation
Indices: 40607--40651 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
40597 TGTCTATTTT
*
40607 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
40630 ATTATATAAGCGCTATCTAATA
1 ATTATATAAGCGCTACCTAATA
40652 TGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:40685 original size:87 final size:87
Alignment explanation
Indices: 40436--40674 Score: 424
Period size: 87 Copynumber: 2.7 Consensus size: 87
40426 AAATAGGTCA
*
40436 ATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATATTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTT
40501 CTGGTTAAATGCCTATTTTATT
66 CTGGTTAAATGCCTATTTTATT
*
40523 ATATAATCGCTACCTATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTT
*
40588 CTGGTTAAATGTCTATTTTATT
66 CTGGTTAAATGCCTATTTTATT
* * *
40610 ATATAAGCGCTACCTATTACATTATATAAGCGCTATCTAATATGTTATTGTACTTAATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTT
40675 TCGATTAAAT
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 145 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTT
CTGGTTAAATGCCTATTTTATT
Done.