Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000737.1 Hibiscus syriacus cultivar Beakdansim tig00001427_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: 278038
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:440 original size:73 final size:73
Alignment explanation
Indices: 320--489 Score: 295
Period size: 73 Copynumber: 2.3 Consensus size: 73
310 CGAAAATGAA
* **
320 AATCGCAACACGAAAATGACTATCGCAACACGAAAATGACTACCGCAACGCGAATTTGACTATCG
1 AATCGCAACGCG-AAATGAAAATCGCAACACGAAAATGACTACCGCAACGCGAATTTGACTATCG
385 CAACGCAAG
65 CAACGCAAG
*
394 AATCGCAACGCGAAATGAAAATCGCAACACGAAAATGACTATCGCAACGCGAATTTGACTATCGC
1 AATCGCAACGCGAAATGAAAATCGCAACACGAAAATGACTACCGCAACGCGAATTTGACTATCGC
459 AACGCAAG
66 AACGCAAG
467 AATCGCAACGCGAAATGAAAATC
1 AATCGCAACGCGAAATGAAAATC
490 ACAATGACAA
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
73 81 0.88
74 11 0.12
ACGTcount: A:0.42, C:0.25, G:0.18, T:0.15
Consensus pattern (73 bp):
AATCGCAACGCGAAATGAAAATCGCAACACGAAAATGACTACCGCAACGCGAATTTGACTATCGC
AACGCAAG
Found at i:462 original size:20 final size:20
Alignment explanation
Indices: 301--463 Score: 160
Period size: 20 Copynumber: 8.5 Consensus size: 20
291 GAAACTTAAA
* **
301 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAAAATGACT
*
321 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
341 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
361 ACCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
381 ATCGCAACGC---AA-GA--
1 ATCGCAACGCGAAAATGACT
**
395 ATCGCAACGCG-AAATGAAA
1 ATCGCAACGCGAAAATGACT
*
414 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
434 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
454 ATCGCAACGC
1 ATCGCAACGC
464 AAGAATCGCA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
14 10 0.08
16 4 0.03
17 2 0.02
19 10 0.08
20 96 0.79
ACGTcount: A:0.42, C:0.26, G:0.18, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:477 original size:34 final size:34
Alignment explanation
Indices: 363--480 Score: 139
Period size: 34 Copynumber: 3.3 Consensus size: 34
353 AAATGACTAC
363 CGCAACGCGAATTTGACTATCGCAACGCAAGAAT
1 CGCAACGCGAATTTGACTATCGCAACGCAAGAAT
* ** *
397 CGCAACGCGAA-ATGAAAATCGCAACACGAAAATGACTAT
1 CGCAACGCGAATTTGACTATCGC-A-ACG-CAA-GA--AT
436 CGCAACGCGAATTTGACTATCGCAACGCAAGAAT
1 CGCAACGCGAATTTGACTATCGCAACGCAAGAAT
470 CGCAACGCGAA
1 CGCAACGCGAA
481 ATGAAAATCA
Statistics
Matches: 69, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
33 8 0.12
34 25 0.36
35 3 0.04
36 4 0.06
37 4 0.06
38 3 0.04
39 14 0.20
40 8 0.12
ACGTcount: A:0.39, C:0.26, G:0.20, T:0.14
Consensus pattern (34 bp):
CGCAACGCGAATTTGACTATCGCAACGCAAGAAT
Found at i:887 original size:22 final size:22
Alignment explanation
Indices: 825--890 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
815 TGACCGTGAA
* *
825 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
*
847 TGATATCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
869 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
891 GGATGTCGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.21, C:0.15, G:0.39, T:0.24
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:1101 original size:20 final size:20
Alignment explanation
Indices: 1078--1130 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
1068 CGATAGTCAG
*
1078 ATTCACATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
1098 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
1118 ATTCGCATTGCGA
1 ATTCGCATTGCGA
1131 ATTAGGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:1151 original size:21 final size:21
Alignment explanation
Indices: 1127--1172 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
1117 TATTCGCATT
1127 GCGAA-TTAGGAAAATCGCAAC
1 GCGAATTTA-GAAAATCGCAAC
*
1148 GCGAATTTAGAAAATCGCAAT
1 GCGAATTTAGAAAATCGCAAC
1169 GCGA
1 GCGA
1173 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTTAGAAAATCGCAAC
Found at i:4430 original size:21 final size:21
Alignment explanation
Indices: 4406--4456 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
4396 ACAATATAAA
4406 TAGATGGAATCAAAGTGGAAG
1 TAGATGGAATCAAAGTGGAAG
*
4427 TAGATGGAATCGAAGTGGAAG
1 TAGATGGAATCAAAGTGGAAG
4448 TAGATGGAA
1 TAGATGGAA
4457 CGTGACCCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.41, C:0.04, G:0.35, T:0.20
Consensus pattern (21 bp):
TAGATGGAATCAAAGTGGAAG
Found at i:5036 original size:25 final size:26
Alignment explanation
Indices: 4985--5045 Score: 97
Period size: 25 Copynumber: 2.4 Consensus size: 26
4975 TGGCTTGTCA
*
4985 CTTGGCTCAAGTTGAAAAGACTCTCC
1 CTTGGCTCAAGTTGAAAAGACTATCC
5011 CTTGGCTCAAGTTG-AAAGACTATCC
1 CTTGGCTCAAGTTGAAAAGACTATCC
*
5036 CTTGGTTCAA
1 CTTGGCTCAA
5046 ACTCATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.30
Consensus pattern (26 bp):
CTTGGCTCAAGTTGAAAAGACTATCC
Found at i:18199 original size:40 final size:40
Alignment explanation
Indices: 18127--18237 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 40
18117 TCAGTTTCTA
* * * * *
18127 AATTCGCAACACTAAATTTCAAATTCGTAACTCGA-TTTCTG
1 AATTTGCAACAC-GAATTTTAATTTCGCAACTCGATTTTC-G
**
18168 AATTTGCAACACGAATTTTGTTTTCGCAACTCGATTTTCG
1 AATTTGCAACACGAATTTTAATTTCGCAACTCGATTTTCG
*
18208 AATTTGCAACATGAATTTTAATTTCGCAAC
1 AATTTGCAACACGAATTTTAATTTCGCAAC
18238 AGGTTTTAGT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
40 44 0.75
41 15 0.25
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (40 bp):
AATTTGCAACACGAATTTTAATTTCGCAACTCGATTTTCG
Found at i:18216 original size:20 final size:20
Alignment explanation
Indices: 18155--18217 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
18145 TCAAATTCGT
18155 AACTCGA-TTTCTGAATTTGC
1 AACTCGATTTTC-GAATTTGC
* *
18175 AACACGAATTTT-G-TTTTCGC
1 AACTCG-ATTTTCGAATTT-GC
18195 AACTCGATTTTCGAATTTGC
1 AACTCGATTTTCGAATTTGC
18215 AAC
1 AAC
18218 ATGAATTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
19 8 0.24
20 19 0.56
21 4 0.12
22 3 0.09
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (20 bp):
AACTCGATTTTCGAATTTGC
Found at i:18236 original size:20 final size:19
Alignment explanation
Indices: 18168--18238 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 19
18158 TCGATTTCTG
*
18168 AATTTGCAACACGAATTTT
1 AATTTGCAACATGAATTTT
**
18187 GTTTTCGCAAC-TCG-ATTTT
1 AATTT-GCAACAT-GAATTTT
18206 CGAATTTGCAACATGAATTTT
1 --AATTTGCAACATGAATTTT
18227 AATTTCGCAACA
1 AATTT-GCAACA
18239 GGTTTTAGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 13
0.69 0.09 0.22
Matches are distributed among these distances:
19 13 0.32
20 18 0.45
21 9 0.22
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (19 bp):
AATTTGCAACATGAATTTT
Found at i:19202 original size:24 final size:24
Alignment explanation
Indices: 19175--19228 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
19165 GTATTCGAAA
19175 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
19199 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
19223 TTTGAT
1 TTTGAT
19229 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:21521 original size:18 final size:18
Alignment explanation
Indices: 21498--21533 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
21488 AAGCAAAAGG
21498 AAATCAAAATCGCAATCA
1 AAATCAAAATCGCAATCA
*
21516 AAATCAAAATCTCAATCA
1 AAATCAAAATCGCAATCA
21534 CAACCAGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCGCAATCA
Found at i:22063 original size:64 final size:64
Alignment explanation
Indices: 21995--22162 Score: 291
Period size: 64 Copynumber: 2.6 Consensus size: 64
21985 AATTTAAAAC
21995 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATAATTATTTACACATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATAATTATTTACACATCAATTA
** * *
22059 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATAATTATTTACACATCAATTA
*
22123 AACAAATCAACTTTTACAAATCAATTAAACAAGAAAAAAA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAA
22163 AGTGTACCCC
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 99 1.00
ACGTcount: A:0.54, C:0.17, G:0.02, T:0.27
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATAATTATTTACACATCAATTA
Found at i:23534 original size:21 final size:21
Alignment explanation
Indices: 23504--23601 Score: 106
Period size: 21 Copynumber: 4.7 Consensus size: 21
23494 GTGAATCGGG
* * * *
23504 CTCTTAAACGGTGGGAGGGAC
1 CTCTTGAACGATGAGAGGGGC
*
23525 CTCTTGAACGATGACAGGGGC
1 CTCTTGAACGATGAGAGGGGC
* * *
23546 CTCTTGAATGGTGGGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
* *
23567 CTCTTGAAAGATGATAGGGGC
1 CTCTTGAACGATGAGAGGGGC
23588 CTCTTGAACGATGA
1 CTCTTGAACGATGA
23602 CATGTGAATT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 63 1.00
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:23563 original size:42 final size:42
Alignment explanation
Indices: 23504--23597 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
23494 GTGAATCGGG
* *
23504 CTCTTAAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAAAGATGACAGGGGC
* * *
23546 CTCTTGAATGGTGGGAGGGGCCTCTTGAAAGATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAAAGATGACAGGGGC
23588 CTCTTGAACG
1 CTCTTGAACG
23598 ATGACATGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGACCTCTTGAAAGATGACAGGGGC
Found at i:23961 original size:63 final size:63
Alignment explanation
Indices: 23894--24016 Score: 158
Period size: 63 Copynumber: 2.0 Consensus size: 63
23884 CGTAGAGCGG
* * *
23894 CTACCTCATCACGTAAAG-TAGATACCTCACCACGTAAAGCACCATTGTCATCGCGTAAAGCCT
1 CTACCTCACCACGTAAAGATAG-TACCTCACCACGCAAAGCACCATTGTCATCACGTAAAGCCT
* * * * *
23957 CTACCTCACCACGTAAAGATCGTACCTCATCACGCCATGCACCATTGTCGTCACGTAAAG
1 CTACCTCACCACGTAAAGATAGTACCTCACCACGCAAAGCACCATTGTCATCACGTAAAG
24017 TACTGACCTC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
63 49 0.96
64 2 0.04
ACGTcount: A:0.30, C:0.33, G:0.15, T:0.22
Consensus pattern (63 bp):
CTACCTCACCACGTAAAGATAGTACCTCACCACGCAAAGCACCATTGTCATCACGTAAAGCCT
Found at i:24026 original size:63 final size:62
Alignment explanation
Indices: 23894--24053 Score: 155
Period size: 63 Copynumber: 2.5 Consensus size: 62
23884 CGTAGAGCGG
* * *
23894 CTACCTCATCACGTAAAG-TAGATACCTCACCACGTAAAGCACCATTGTCATCGCGTAAAGCCT
1 CTACCTCATCACGTAAAGATAG-TACCTCATCACGCAAAGCACCATTGTCATCACGTAAAG-CT
* * * * *
23957 CTACCTCACCACGTAAAGATCGTACCTCATCACGCCATGCACCATTGTCGTCACGTAAAG-T
1 CTACCTCATCACGTAAAGATAGTACCTCATCACGCAAAGCACCATTGTCATCACGTAAAGCT
* * *
24018 ACTGACCTCTTCACGCAAAGCATTG-ACCTCATCACG
1 -CT-ACCTCATCACGTAAAG-ATAGTACCTCATCACG
24054 TAACTCCCCT
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
61 1 0.01
62 2 0.02
63 73 0.90
64 5 0.06
ACGTcount: A:0.29, C:0.34, G:0.14, T:0.23
Consensus pattern (62 bp):
CTACCTCATCACGTAAAGATAGTACCTCATCACGCAAAGCACCATTGTCATCACGTAAAGCT
Found at i:24031 original size:21 final size:21
Alignment explanation
Indices: 24007--24056 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
23997 ACCATTGTCG
* *
24007 TCACGTAAAGTACTGACCTCT
1 TCACGTAAAGCACTGACCTCA
* *
24028 TCACGCAAAGCATTGACCTCA
1 TCACGTAAAGCACTGACCTCA
24049 TCACGTAA
1 TCACGTAA
24057 CTCCCCTAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (21 bp):
TCACGTAAAGCACTGACCTCA
Found at i:25697 original size:20 final size:19
Alignment explanation
Indices: 25658--25700 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
25648 AAATCGCAAC
*
25658 GCGATTTCATTTTCGCGTT
1 GCGATTTCATTTTCACGTT
*
25677 GCGATTTTCATTTTCATGTT
1 GCGA-TTTCATTTTCACGTT
25697 GCGA
1 GCGA
25701 ATTTAAGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.47
Consensus pattern (19 bp):
GCGATTTCATTTTCACGTT
Found at i:25711 original size:20 final size:20
Alignment explanation
Indices: 25674--25712 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25664 TCATTTTCGC
* * *
25674 GTTGCGATTTTCATTTTCAT
1 GTTGCGAATTTAAGTTTCAT
25694 GTTGCGAATTTAAGTTTCA
1 GTTGCGAATTTAAGTTTCA
25713 AATAGTCTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.49
Consensus pattern (20 bp):
GTTGCGAATTTAAGTTTCAT
Found at i:26223 original size:19 final size:20
Alignment explanation
Indices: 26201--26238 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26191 AATATTGTGT
26201 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
**
26220 TTCGCGTTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
26239 CGCGCTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:26301 original size:20 final size:20
Alignment explanation
Indices: 26272--26310 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
26262 GTGTTACGAA
26272 TTACAAATTCGCGTTGCGAT
1 TTACAAATTCGCGTTGCGAT
*
26292 TTACAGATTCGCGTTGCGA
1 TTACAAATTCGCGTTGCGA
26311 AATCGGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (20 bp):
TTACAAATTCGCGTTGCGAT
Found at i:26355 original size:20 final size:21
Alignment explanation
Indices: 26316--26356 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
26306 TGCGAAATCG
26316 GAAAATCGCAACGCGAATTTA
1 GAAAATCGCAACGCGAATTTA
* *
26337 GAAATTCGCAATGCG-ATTTA
1 GAAAATCGCAACGCGAATTTA
26357 CATATTCGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (21 bp):
GAAAATCGCAACGCGAATTTA
Found at i:26363 original size:20 final size:21
Alignment explanation
Indices: 26321--26364 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
26311 AATCGGAAAA
*
26321 TCGCAACGCGAATTTAGAAAT
1 TCGCAACGCGAATTTACAAAT
* *
26342 TCGCAATGCG-ATTTACATAT
1 TCGCAACGCGAATTTACAAAT
26362 TCG
1 TCG
26365 AGTTGCGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (21 bp):
TCGCAACGCGAATTTACAAAT
Found at i:30672 original size:15 final size:15
Alignment explanation
Indices: 30652--30682 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30642 AATGCGGGCT
*
30652 TTTAAGCCCGCTCCG
1 TTTAAGCCCGCACCG
30667 TTTAAGCCCGCACCG
1 TTTAAGCCCGCACCG
30682 T
1 T
30683 CAAAACCCGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.39, G:0.19, T:0.26
Consensus pattern (15 bp):
TTTAAGCCCGCACCG
Found at i:35188 original size:21 final size:21
Alignment explanation
Indices: 35158--35406 Score: 185
Period size: 21 Copynumber: 12.0 Consensus size: 21
35148 GATTTACATA
* *
35158 TTCGCATTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
35179 TTCGAGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
35200 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
35221 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
35240 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
35263 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
35282 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
35305 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
35324 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
* **
35347 TT--TGTTGCGATAGTTGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
35366 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
35389 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
35407 AATCGCAACG
Statistics
Matches: 179, Mismatches: 33, Indels: 34
0.73 0.13 0.14
Matches are distributed among these distances:
19 47 0.26
21 99 0.55
23 33 0.18
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:35210 original size:42 final size:41
Alignment explanation
Indices: 35184--35403 Score: 361
Period size: 42 Copynumber: 5.3 Consensus size: 41
35174 CGAAGTTCGA
35184 GTTGCGATAGTCGAAGTTCGCGTTGCGATT-TTCCAAATTC
1 GTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAATTC
35224 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTC
1 GTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATTC
*
35266 GTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTC
1 GTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATTC
* *
35308 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTT
1 GTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATTC
*
35350 GTTGCGATAGTTGAAGTTCGCGTTGCGATTTATTCCAAATTC
1 GTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATTC
35392 GTTGCGATAGTC
1 GTTGCGATAGTC
35404 CAAAATCGCA
Statistics
Matches: 170, Mismatches: 8, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
40 28 0.16
41 2 0.01
42 140 0.82
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (41 bp):
GTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAATTC
Found at i:36161 original size:83 final size:82
Alignment explanation
Indices: 36022--36199 Score: 322
Period size: 83 Copynumber: 2.2 Consensus size: 82
36012 TTACGATTTG
36022 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAA-TTGGAAT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGG-A-
36086 AAATCGCAACACGAACTTC
64 AAATCGCAACACGAACTTC
36105 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAA
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAA
*
36170 ATCGCAACGCGAACTTC
66 ATCGCAACACGAACTTC
36187 GACTATCGCAACG
1 GACTATCGCAACG
36200 CGAACTTGGA
Statistics
Matches: 93, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
82 31 0.33
83 58 0.62
84 4 0.04
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (82 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAA
ATCGCAACACGAACTTC
Found at i:36194 original size:21 final size:21
Alignment explanation
Indices: 36047--36224 Score: 163
Period size: 21 Copynumber: 8.6 Consensus size: 21
36037 TTTGGAATAA
36047 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* *
36068 ATCGCAA--CGAA-TTGGAAT
1 ATCGCAACGCGAACTTCGACT
*
36086 AAATCGCAACACGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
* * *
36109 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTCGACT
36128 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
* * **
36151 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
36170 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
*
36191 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
*
36212 ATCGCAATGCGAA
1 ATCGCAACGCGAA
36225 TATGTAAATC
Statistics
Matches: 126, Mismatches: 20, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
18 5 0.04
19 28 0.22
20 7 0.06
21 68 0.54
22 4 0.03
23 14 0.11
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:36209 original size:42 final size:42
Alignment explanation
Indices: 36022--36199 Score: 326
Period size: 42 Copynumber: 4.3 Consensus size: 42
36012 TTACGATTTG
36022 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
36064 GACTATCGCAACGAA-TTGGAATAAATCGCAACACGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
36105 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
36147 GACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
36187 GACTATCGCAACG
1 GACTATCGCAACG
36200 CGAACTTGGA
Statistics
Matches: 133, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
40 32 0.24
41 41 0.31
42 60 0.45
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:36262 original size:21 final size:21
Alignment explanation
Indices: 36233--36285 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
36223 AATATGTAAA
*
36233 TCGCATTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
36254 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
36275 TCGCGTTGCGA
1 TCGCGTTGCGA
36286 ATCTGGAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAGT
Found at i:39385 original size:254 final size:258
Alignment explanation
Indices: 38920--39530 Score: 691
Period size: 262 Copynumber: 2.4 Consensus size: 258
38910 TTCATTCATA
* * * *
38920 TATTAAATAAAAAT-ATTTTTTTATTATTTCGGTTTGGATC-GAGTTCTAATTCATATATTTGAG
1 TATTGAATAAAAATAATTTTTTTATTATTTCGG-TTGGGTCGGATTTCTAATTCATATATTCG-G
* * * * * *
38983 TTGGGTAGGTGAAATTTTATTTTGGTCGGATCGGGTTATTTTTTTCAAATGTGATATTCGAGTCA
64 GT-CG--GGTGAAATTTTATTTTGATCGGGTCGAGTCATTTTTTTCAAATGTGATATTCGAGTCA
* * *
39048 GGTTGAATTCGGATTTAGGGTGAAAAATACTCGACCCGAAAATATATATAATTTTATATTATATA
126 GG-TG-ATTCGGATTTAGGGTAAAAAATACTCGACCCAAAAAAATATATAATTTTATATTATATA
* *
39113 TTTAGAAATAATTACAATAATA-CC-T-TCTATATATA-AT-T-T-T-TTTTCAATTAAGTCACT
189 TTTAGAAATAATTACAATAATACCCATATATATATATATATATATATATATTCAATTAAGTCACT
39170 GTTTT
254 GTTTT
39175 TATTGAATAAAAATAATTTTTTTATTATTTCGGGTTGGGTCGGATTTCTAATTCATATATTCGGG
1 TATTGAATAAAAATAATTTTTTTATTATTTC-GGTTGGGTCGGATTTCTAATTCATATATTCGGG
* *
39240 TCGGGTGAAATTTTATTTTAATCGGGTCGAGTCAGTTTTTTT-AAAGTGTGATATTCGGGTC-GG
65 TCGGGTGAAATTTTATTTTGATCGGGTCGAGTCA-TTTTTTTCAAA-TGTGATATTCGAGTCAGG
* * *
39303 -G-TTCGGATTTAGGGTAAAAAATGCTCGATCCGACCCAAAAAAATATATAGTTTTATCTTATAT
128 TGATTCGGATTTAGGGTAAAAAAT--AC--T-CGACCCAAAAAAATATATAATTTTATATTATAT
*
39366 ATTTAGGAATAATTACAATAATACCCATATATATATATATATATATATATATTCAATTAAGTCAC
188 ATTTAGAAATAATTACAATAATACCCATATATATATATATATATATATATATTCAATTAAGTCAC
39431 TGTTTT
253 TGTTTT
* * *
39437 CATTGAATAAAAATAAATTTTTTATTATTTC----GGGTCGGGTTTCTAATTCATATATTCAGGT
1 TATTGAATAAAAATAATTTTTTTATTATTTCGGTTGGGTCGGATTTCTAATTCATATA-T----T
*
39498 CGGGTCGGGTGAAACTTTATTTTGATCGGGTCG
61 CGGGTCGGGTGAAATTTTATTTTGATCGGGTCG
39531 GGTAGACAAA
Statistics
Matches: 307, Mismatches: 26, Indels: 39
0.83 0.07 0.10
Matches are distributed among these distances:
249 20 0.07
251 2 0.01
253 32 0.10
254 72 0.23
255 16 0.05
256 25 0.08
257 52 0.17
258 3 0.01
259 1 0.00
260 1 0.00
261 1 0.00
262 82 0.27
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (258 bp):
TATTGAATAAAAATAATTTTTTTATTATTTCGGTTGGGTCGGATTTCTAATTCATATATTCGGGT
CGGGTGAAATTTTATTTTGATCGGGTCGAGTCATTTTTTTCAAATGTGATATTCGAGTCAGGTGA
TTCGGATTTAGGGTAAAAAATACTCGACCCAAAAAAATATATAATTTTATATTATATATTTAGAA
ATAATTACAATAATACCCATATATATATATATATATATATATATTCAATTAAGTCACTGTTTT
Found at i:39399 original size:2 final size:2
Alignment explanation
Indices: 39392--39417 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
39382 AATAATACCC
39392 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
39418 TCAATTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39885 original size:18 final size:17
Alignment explanation
Indices: 39840--39887 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
39830 ATATGTAATT
*
39840 AGATTCCAATTCCTGAC
1 AGATTCCAATTCCTCAC
* * *
39857 ATATTCTAATTCTTTCAC
1 AGATTCCAATTC-CTCAC
39875 AGATTCCAATTCC
1 AGATTCCAATTCC
39888 CTCATAAACA
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.38
Consensus pattern (17 bp):
AGATTCCAATTCCTCAC
Found at i:42552 original size:35 final size:35
Alignment explanation
Indices: 42506--42583 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 35
42496 GAAGCCTGGT
*
42506 ATGATTTTGTAACAAATATCTTGTTTGATAATTGA
1 ATGATTTTGTAACAAATATCTTGTTTAATAATTGA
* *
42541 ATGATTTTGTAACGAATATCTTGTTTAATAATTGG
1 ATGATTTTGTAACAAATATCTTGTTTAATAATTGA
*
42576 AGGATTTT
1 ATGATTTT
42584 AATGCCACCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.46
Consensus pattern (35 bp):
ATGATTTTGTAACAAATATCTTGTTTAATAATTGA
Found at i:43296 original size:14 final size:14
Alignment explanation
Indices: 43277--43304 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43267 GTGTAAGTTC
43277 ACCTTAATGAATGG
1 ACCTTAATGAATGG
43291 ACCTTAATGAATGG
1 ACCTTAATGAATGG
43305 TCCTAGGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (14 bp):
ACCTTAATGAATGG
Found at i:49111 original size:22 final size:22
Alignment explanation
Indices: 49081--49124 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
49071 ATTGACTTTT
*
49081 TGGTTAAAGTCAAAATCAACGA
1 TGGTCAAAGTCAAAATCAACGA
* *
49103 TGGTCAAAGTTAAAGTCAACGA
1 TGGTCAAAGTCAAAATCAACGA
49125 GTTGACTCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (22 bp):
TGGTCAAAGTCAAAATCAACGA
Found at i:52711 original size:29 final size:29
Alignment explanation
Indices: 52669--52726 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
52659 CTTTGGAGAA
52669 TGAGACCAAGACACAATTTTAATGATAGG
1 TGAGACCAAGACACAATTTTAATGATAGG
52698 TGAGACCAAGACACAATTTTAATGATAGG
1 TGAGACCAAGACACAATTTTAATGATAGG
52727 AGAGCTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (29 bp):
TGAGACCAAGACACAATTTTAATGATAGG
Found at i:56814 original size:18 final size:18
Alignment explanation
Indices: 56791--56825 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
56781 GTGATACCTC
56791 CTTACAATCCTGCACATT
1 CTTACAATCCTGCACATT
56809 CTTACAATCCTGCACAT
1 CTTACAATCCTGCACAT
56826 GGTAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.06, T:0.31
Consensus pattern (18 bp):
CTTACAATCCTGCACATT
Found at i:58957 original size:57 final size:57
Alignment explanation
Indices: 58845--58964 Score: 143
Period size: 57 Copynumber: 2.1 Consensus size: 57
58835 TGATTAATTT
* * ** * *
58845 AATCGTTTTTTTAATGCACAGAAGTGCCAGTTCAAAGATTGATGCACAGATGTGCTC
1 AATCATTTTTTTAATGCACAGAAGTGCCAGATCAAAGATTGAAACAAAGAGGTGCTC
* **
58902 AATCATTTCTTTT-ATGCACAGAGGTGCCAGATCCTAGATTGAAACAAAGAGGTGCTC
1 AATCATTT-TTTTAATGCACAGAAGTGCCAGATCAAAGATTGAAACAAAGAGGTGCTC
58959 AATCAT
1 AATCAT
58965 CCCAAAGCAC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
57 49 0.92
58 4 0.08
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (57 bp):
AATCATTTTTTTAATGCACAGAAGTGCCAGATCAAAGATTGAAACAAAGAGGTGCTC
Found at i:59058 original size:28 final size:28
Alignment explanation
Indices: 59024--59094 Score: 124
Period size: 28 Copynumber: 2.5 Consensus size: 28
59014 TTGTCGATCG
*
59024 AAGCACAGATGTGCTCCATCTTTAATTC
1 AAGCACAGAGGTGCTCCATCTTTAATTC
*
59052 AAGCACAAAGGTGCTCCATCTTTAATTC
1 AAGCACAGAGGTGCTCCATCTTTAATTC
59080 AAGCACAGAGGTGCT
1 AAGCACAGAGGTGCT
59095 ATGAATTTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (28 bp):
AAGCACAGAGGTGCTCCATCTTTAATTC
Found at i:61196 original size:20 final size:18
Alignment explanation
Indices: 61168--61206 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
61158 TTAAATAAAT
61168 AAATATATTAGATTTAATTA
1 AAATATATTA-ATTT-ATTA
*
61188 AAATTTATTAATTTATTA
1 AAATATATTAATTTATTA
61206 A
1 A
61207 TCAATCAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
AAATATATTAATTTATTA
Found at i:63433 original size:22 final size:22
Alignment explanation
Indices: 63408--63485 Score: 85
Period size: 21 Copynumber: 3.7 Consensus size: 22
63398 TTTTATAAAA
63408 TATATATTTTAATTATTATATT
1 TATATATTTTAATTATTATATT
*
63430 TATATATTAT-ATTATTATATT
1 TATATATTTTAATTATTATATT
63451 TA-ATA-TTTAA-TATTATTATT
1 TATATATTTTAATTATTA-TATT
* *
63471 AAT-TATTTTTATTAT
1 TATATATTTTAATTAT
63486 ATTCATTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
19 7 0.15
20 11 0.23
21 17 0.36
22 12 0.26
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TATATATTTTAATTATTATATT
Found at i:63437 original size:13 final size:13
Alignment explanation
Indices: 63421--63466 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
63411 ATATTTTAAT
63421 TATTATATTTATA
1 TATTATATTTATA
63434 TATTATA-TTATTA
1 TATTATATTTA-TA
63447 TATTTAATATTTA-A
1 TA-TT-ATATTTATA
63461 TATTAT
1 TATTAT
63467 TATTAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
12 5 0.17
13 13 0.45
14 5 0.17
15 3 0.10
16 3 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTATATTTATA
Found at i:63440 original size:27 final size:27
Alignment explanation
Indices: 63383--63477 Score: 83
Period size: 27 Copynumber: 3.6 Consensus size: 27
63373 ATTTACAAAA
* *
63383 TATATTATAATTATT-T-TTTATAAAAT
1 TATATTTTAATTATTATATTTAT-ATAT
63409 ATATATTTTAATTATTATATTTATATAT
1 -TATATTTTAATTATTATATTTATATAT
*
63437 TATATTATTATATT-TAATATTTA-ATAT
1 TATATT-TTA-ATTATTATATTTATATAT
*
63464 TAT-TATTAATTATT
1 TATATTTTAATTATT
63478 TTTATTATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
24 3 0.05
25 4 0.07
26 1 0.02
27 27 0.47
28 15 0.26
29 8 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TATATTTTAATTATTATATTTATATAT
Found at i:69945 original size:19 final size:20
Alignment explanation
Indices: 69921--69971 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
69911 AATGACCAAT
69921 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
69940 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
69960 AAAATCGCAACG
1 AAAATCGCAACG
69972 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:69965 original size:20 final size:20
Alignment explanation
Indices: 69921--70239 Score: 140
Period size: 20 Copynumber: 15.6 Consensus size: 20
69911 AATGACCAAT
* *
69921 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
69940 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
69960 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
69980 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* * **
70000 AAAATCGCAACGTGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
70021 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
70044 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
** * *
70064 TGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
70084 AGAATCGCAATTGCGATTTAT
1 AAAATCGCAA-CGCGATTTAG
* * *
70105 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
70125 AGAGTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
70148 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * * *
70168 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * * *
70188 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
*
70208 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
*
70228 AGAATCGCAACG
1 AAAATCGCAACG
70240 TTAAAAAGGA
Statistics
Matches: 244, Mismatches: 43, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
19 17 0.07
20 165 0.68
21 33 0.14
23 29 0.12
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:70133 original size:104 final size:103
Alignment explanation
Indices: 70025--70239 Score: 313
Period size: 104 Copynumber: 2.1 Consensus size: 103
70015 GCTTCCAAGT
* ** * * *
70025 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATTGAATCGCAATGCGATTTATAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
* * * * *
70090 GCAATTGCGATTTATAGAATCGCAATGCGATTGAGAGAG
66 GCAA-TGCGACTGAGAGAATCGCAACGCGATTGAGAGAA
70129 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
*
70194 GCAATGCGACTGAGAGAATCGCAACGCGATTTAGAGAA
66 GCAATGCGACTGAGAGAATCGCAACGCGATTGAGAGAA
70232 TCGCAACG
1 TCGCAACG
70240 TTAAAAAGGA
Statistics
Matches: 99, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
103 36 0.36
104 63 0.64
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (103 bp):
TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
GCAATGCGACTGAGAGAATCGCAACGCGATTGAGAGAA
Found at i:70205 original size:40 final size:40
Alignment explanation
Indices: 70046--70237 Score: 222
Period size: 40 Copynumber: 4.7 Consensus size: 40
70036 TTTAGAAGAA
** * * *
70046 AATCGCAATGCGATTGATTGAATCGCAATGCGATTTATAG
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGACTGAGAG
* * *
70086 AATCGCAATTGCGATTTATAGAATCGCAATGCGATTGAGAG
1 AATCGCAA-TGCGATTGAGAGAATCGCAATGCGACTGAGAG
* * *
70127 AGTCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAG
1 AATCGCAATGCGA-TT-G-AGAGAATCGCAATGCGACTGAGAG
*
70170 AATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAG
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGACTGAGAG
* *
70210 AATCGCAACGCGATTTAGAGAATCGCAA
1 AATCGCAATGCGATTGAGAGAATCGCAA
70238 CGTTAAAAAG
Statistics
Matches: 131, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
40 60 0.46
41 38 0.29
42 1 0.01
43 32 0.24
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (40 bp):
AATCGCAATGCGATTGAGAGAATCGCAATGCGACTGAGAG
Found at i:70208 original size:83 final size:84
Alignment explanation
Indices: 70066--70228 Score: 247
Period size: 83 Copynumber: 2.0 Consensus size: 84
70056 CGATTGATTG
* * * * * * * *
70066 AATCGCAATGCGATTTATAGAATCGCAATTGCGATTTATAGAATCGCAATGCGATTGAGAGAGTC
1 AATCGCAATGCGACTGAGAGAATCGCAATTGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
70131 GCAACGCGATTTAGAAGAA
66 GCAACGCGATTTAGAAGAA
70150 AATCGCAATGCGACTGAGAGAATCGCAA-TGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
1 AATCGCAATGCGACTGAGAGAATCGCAATTGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
70214 GCAACGCGATTTAGA
66 GCAACGCGATTTAGA
70229 GAATCGCAAC
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
83 46 0.65
84 25 0.35
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.21
Consensus pattern (84 bp):
AATCGCAATGCGACTGAGAGAATCGCAATTGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
GCAACGCGATTTAGAAGAA
Found at i:70266 original size:20 final size:20
Alignment explanation
Indices: 70230--70267 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
70220 CGATTTAGAG
*
70230 AATCGCAACGTTAAAAAGGA
1 AATCGCAACGGTAAAAAGGA
*
70250 AATCGCAACGGTCAAAAG
1 AATCGCAACGGTAAAAAG
70268 AATAGTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.13
Consensus pattern (20 bp):
AATCGCAACGGTAAAAAGGA
Found at i:70356 original size:6 final size:6
Alignment explanation
Indices: 70345--70382 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
70335 GACACTTATT
70345 ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
70383 CGAGACGACG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.32, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:70655 original size:21 final size:20
Alignment explanation
Indices: 70631--70669 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
70621 TAAATACATG
70631 AAATAATTCTATTATTAAATA
1 AAATAATTCTA-TATTAAATA
* *
70652 AAATATTTTTATATTAAA
1 AAATAATTCTATATTAAA
70670 ATTATTGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
AAATAATTCTATATTAAATA
Found at i:71072 original size:6 final size:6
Alignment explanation
Indices: 71061--71121 Score: 108
Period size: 6 Copynumber: 10.5 Consensus size: 6
71051 TCTCGTCTCG
71061 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
71109 GGTC-- GGTCGT GGT
1 GGTCGT GGTCGT GGT
71122 AATACGTGCT
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.08
6 49 0.92
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:71221 original size:20 final size:20
Alignment explanation
Indices: 71196--71239 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
71186 TTTTTAACTA
*
71196 TTCTTTTGACCGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
*
71216 TTCTTTTTAACGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
71236 TTCT
1 TTCT
71240 AAATCGCGTT
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:0.11, C:0.18, G:0.16, T:0.55
Consensus pattern (20 bp):
TTCTTTTGAACGTTGCGATT
Found at i:71249 original size:20 final size:20
Alignment explanation
Indices: 71226--71523 Score: 134
Period size: 20 Copynumber: 14.6 Consensus size: 20
71216 TTCTTTTTAA
71226 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
71246 CGTTGCGATTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * * * *
71266 CATTGCGATTCTCTCAGTCA
1 CGTTGCGATTTTCTAAATCG
* * * * *
71286 CATTGCGATTCTCTCAGTCT
1 CGTTGCGATTTTCTAAATCG
* * * *
71306 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
*
71326 CATTGCGATTCTCTTCTAAATCG
1 CGTTGCGA-T-T-TTCTAAATCG
* * *
71349 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* *** *
71369 CATTGCGATTCAATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
71389 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
** ** *
71412 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
* *
71433 CGTTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
*** **
71451 ACCGTTGCGATTTTCTTTTTAA
1 --CGTTGCGATTTTCTAAATCG
71473 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
71493 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
71512 CGTTGCGATTTT
1 CGTTGCGATTTT
71524 ATTGGTCATT
Statistics
Matches: 224, Mismatches: 43, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
18 2 0.01
19 17 0.08
20 158 0.71
21 15 0.07
22 5 0.02
23 27 0.12
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:71272 original size:40 final size:40
Alignment explanation
Indices: 71228--71398 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
71218 CTTTTTAACG
* * *
71228 TTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCA
1 TTGCGATTCTCTCAATCGCATTGCGATTCTCTCAATCGCA
* * * *
71268 TTGCGATTCTCTCAGTCACATTGCGATTCTCTCAGTCTCA
1 TTGCGATTCTCTCAATCGCATTGCGATTCTCTCAATCGCA
* *
71308 TTGCGATTCTCTCAGTCGCATTGCGATTCTCTTCTAAATCGCG
1 TTGCGATTCTCTCAATCGCATTGCGATTCTC-TC--AATCGCA
* **
71351 TTGCGACTCTCTCAATCGCATTGCGATTCAATCAATCGCA
1 TTGCGATTCTCTCAATCGCATTGCGATTCTCTCAATCGCA
71391 TTGCGATT
1 TTGCGATT
71399 TTCTTCTAAA
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
40 76 0.68
41 2 0.02
42 2 0.02
43 31 0.28
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.36
Consensus pattern (40 bp):
TTGCGATTCTCTCAATCGCATTGCGATTCTCTCAATCGCA
Found at i:71390 original size:63 final size:63
Alignment explanation
Indices: 71226--71419 Score: 250
Period size: 63 Copynumber: 3.1 Consensus size: 63
71216 TTCTTTTTAA
* * * * *
71226 CGTTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCATTGCGATTCTC-TC--AGTCA
1 CGTTGCGATTCTCTCAATCGCATTGCGATTCTCTCAATCGCATTGCGATTCTCTTCTAAATCG
* * * *
71286 CATTGCGATTCTCTCAGTCTCATTGCGATTCTCTCAGTCGCATTGCGATTCTCTTCTAAATCG
1 CGTTGCGATTCTCTCAATCGCATTGCGATTCTCTCAATCGCATTGCGATTCTCTTCTAAATCG
* ** *
71349 CGTTGCGACTCTCTCAATCGCATTGCGATTCAATCAATCGCATTGCGATTTTCTTCTAAATCG
1 CGTTGCGATTCTCTCAATCGCATTGCGATTCTCTCAATCGCATTGCGATTCTCTTCTAAATCG
71412 CGTTGCGA
1 CGTTGCGA
71420 ACTTGGAAGC
Statistics
Matches: 114, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
60 46 0.40
61 2 0.02
63 66 0.58
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (63 bp):
CGTTGCGATTCTCTCAATCGCATTGCGATTCTCTCAATCGCATTGCGATTCTCTTCTAAATCG
Found at i:71513 original size:19 final size:20
Alignment explanation
Indices: 71473--71523 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
71463 TTCTTTTTAA
*
71473 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
71493 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
71512 CGTTGCGATTTT
1 CGTTGCGATTTT
71524 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:72753 original size:19 final size:19
Alignment explanation
Indices: 72729--72769 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
72719 CAAACCGATC
72729 TGTATTGCATATATGATTT
1 TGTATTGCATATATGATTT
72748 TGTATTGCATATATGATTT
1 TGTATTGCATATATGATTT
72767 TGT
1 TGT
72770 TGGATAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.24, C:0.05, G:0.17, T:0.54
Consensus pattern (19 bp):
TGTATTGCATATATGATTT
Found at i:73636 original size:29 final size:29
Alignment explanation
Indices: 73593--73674 Score: 121
Period size: 29 Copynumber: 2.8 Consensus size: 29
73583 CTCACCTAAC
*
73593 TAAATTGATGTAAGCAATGACAT-TATTACT
1 TAAA-TGATGTAAGCAATGACATCT-TTAAT
73623 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCTTTAAT
*
73652 TAAATGATGTAAGTAATGACATC
1 TAAATGATGTAAGCAATGACATC
73675 AATTTAGTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCTTTAAT
Found at i:76634 original size:57 final size:58
Alignment explanation
Indices: 76546--76667 Score: 219
Period size: 57 Copynumber: 2.1 Consensus size: 58
76536 TGTTATGATA
* *
76546 TTCATATGAATAATTATAATCTTTCTCTACCAGTTGCCCTAAACTTAAAATGTTACTT
1 TTCATATGAATAATCATAACCTTTCTCTACCAGTTGCCCTAAACTTAAAATGTTACTT
76604 TTCATATGAAT-ATCATAACCTTTCTCTACCAGTTGCCCTAAACTTAAAATGTTACTT
1 TTCATATGAATAATCATAACCTTTCTCTACCAGTTGCCCTAAACTTAAAATGTTACTT
76661 TTCATAT
1 TTCATAT
76668 TGGGCACATA
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
57 51 0.82
58 11 0.18
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (58 bp):
TTCATATGAATAATCATAACCTTTCTCTACCAGTTGCCCTAAACTTAAAATGTTACTT
Found at i:78452 original size:29 final size:29
Alignment explanation
Indices: 78409--78491 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
78399 CTCACCTAAC
*
78409 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
78439 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
78468 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
78492 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:88982 original size:26 final size:24
Alignment explanation
Indices: 88952--89000 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
88942 TGAACTCAAA
88952 TAAAATTTAGAAGCTCGATTGAAGTC
1 TAAAA-TTAG-AGCTCGATTGAAGTC
* *
88978 TAAAATTCGAGCTTGATTGAAGT
1 TAAAATTAGAGCTCGATTGAAGT
89001 GAAAGAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.62
25 3 0.14
26 5 0.24
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (24 bp):
TAAAATTAGAGCTCGATTGAAGTC
Found at i:89264 original size:12 final size:14
Alignment explanation
Indices: 89258--89297 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
89248 TTTATTTTTT
89258 TAATTATATTTATA
1 TAATTATATTTATA
89272 TAATTATATTTAT-
1 TAATTATATTTATA
*
89285 TATTTAATATTTA
1 TAATT-ATATTTA
89298 ATATGTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TAATTATATTTATA
Found at i:89920 original size:22 final size:23
Alignment explanation
Indices: 89890--89933 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
89880 ACAATTATAA
89890 ATTAGTTTAAAATATAAA-AATAG
1 ATTAGTTTAAAATA-AAATAATAG
89913 ATTA-TTTAAAATAAAATAATA
1 ATTAGTTTAAAATAAAATAATA
89934 ATGAGATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 3 0.15
22 13 0.65
23 4 0.20
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (23 bp):
ATTAGTTTAAAATAAAATAATAG
Found at i:91521 original size:15 final size:15
Alignment explanation
Indices: 91503--91535 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
91493 AAATTCTAAA
91503 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
91518 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
91533 TAT
1 TAT
91536 ATTTGTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:93040 original size:21 final size:21
Alignment explanation
Indices: 93014--93058 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
93004 GATTTCTGGG
* *
93014 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
93035 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
93056 CAA
1 CAA
93059 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:93866 original size:31 final size:31
Alignment explanation
Indices: 93828--93983 Score: 242
Period size: 31 Copynumber: 5.0 Consensus size: 31
93818 AGGGTCGAGG
93828 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
93859 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
93890 GTTTACCTATGTTCTTCGGAACATACGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
93921 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
93952 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
93983 G
1 G
93984 GTCCTTCGGG
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 114 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:98646 original size:16 final size:17
Alignment explanation
Indices: 98625--98667 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
98615 CGGATATCCG
98625 ATCCGAAATTTT-GGAT
1 ATCCGAAATTTTCGGAT
*
98641 ATCCG-AGTTTTCGGAT
1 ATCCGAAATTTTCGGAT
98657 ATCC-AAATTTT
1 ATCCGAAATTTT
98668 TCAGATCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (17 bp):
ATCCGAAATTTTCGGAT
Found at i:98722 original size:17 final size:16
Alignment explanation
Indices: 98697--98730 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
98687 TTACTTTAGG
98697 TATCCGAAAATTTCGGA
1 TATCCG-AAATTTCGGA
*
98714 TATCTGAAATTTCGGA
1 TATCCGAAATTTCGGA
98730 T
1 T
98731 CGGATACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (16 bp):
TATCCGAAATTTCGGA
Found at i:100013 original size:21 final size:21
Alignment explanation
Indices: 99989--100028 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
99979 AACTCGAAAG
99989 TTTTAGTAATTAGTCGATTAA
1 TTTTAGTAATTAGTCGATTAA
*
100010 TTTTAGTAATTAGTGGATT
1 TTTTAGTAATTAGTCGATT
100029 TATTAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.03, G:0.17, T:0.50
Consensus pattern (21 bp):
TTTTAGTAATTAGTCGATTAA
Found at i:109567 original size:15 final size:15
Alignment explanation
Indices: 109547--109579 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
109537 TATTTAGCTA
*
109547 GGCGGGCGGATGTGG
1 GGCGGGCGGATGCGG
109562 GGCGGGCGGATGCGG
1 GGCGGGCGGATGCGG
109577 GGC
1 GGC
109580 AGATAAGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.18, G:0.67, T:0.09
Consensus pattern (15 bp):
GGCGGGCGGATGCGG
Found at i:111149 original size:22 final size:24
Alignment explanation
Indices: 111104--111158 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
111094 TCTATCATGC
* *
111104 TATAATATTATATACAAAGTAATA
1 TATAATAATATATACAAAGAAATA
111128 TATAATAATA-ATACAAA-AAATA
1 TATAATAATATATACAAAGAAATA
*
111150 CATATATAA
1 TATA-ATAA
111159 AACATAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.26
23 11 0.41
24 9 0.33
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (24 bp):
TATAATAATATATACAAAGAAATA
Found at i:115028 original size:200 final size:204
Alignment explanation
Indices: 114788--115369 Score: 671
Period size: 200 Copynumber: 2.9 Consensus size: 204
114778 AGCATGAAAG
* * ** * *
114788 GTCGACAGTAGGATAT-GAATCTGCGCAGAAATAGCCCATCAGATTTCAAGTCTGGCTCCTTAAC
1 GTCGACAGCAGGAT-TCGAACCTGCGCAGGCATAGCCCATCAGATTTCGAGTCTGACTCCTTAAC
*
114852 CACTTGGACATATCGACAACATTGAAGGCTATACAAGGACTAAATATAAACTCTGTTAAGAGTAG
65 CACTCGGACATATCGACAACATTGAAGGCTATACAAGGACTAAATATAAACTCTGTTAAGAGTAG
*
114917 AAGGACTGGTTGCACAATTAAACC-GAACTATTAGCATTACCCTATAGCAAATAAATAA-A-ATA
130 AAGGACTGGTTGCACAATTAAACCAGAACTATTAGCATTACCCTATAGCAAATAAATAAGATAAA
114979 A-ATAGAGA-C
195 ACATAGA-ACC
114988 GTCGACAGCAGGATTCGAACCTGCGCAGGCATAGCCCATCAGATTTCGAGTCTGACTCCTTAACC
1 GTCGACAGCAGGATTCGAACCTGCGCAGGCATAGCCCATCAGATTTCGAGTCTGACTCCTTAACC
* * * * *
115053 ACTCGGACATATCGACAGCACTGATGG-TAATACAAGGGCTAAATATAAACTCTGTTAAAAGTAG
66 ACTCGGACATATCGACAACATTGAAGGCT-ATACAAGGACTAAATATAAACTCTGTTAAGAGTAG
*
115117 AAGGACTGGTTGCACAATTAAACCAAAGAAGTATTAGCATTACCCTATAAGCAAATAAATAAGAT
130 AAGGACTGGTTGCACAATTAAACC--AGAACTATTAGCATTACCCTAT-AGCAAATAAATAAGAT
*
115182 AAAACATATAACC
192 AAAACATAGAACC
* * * * * *
115195 GTCAACAGCTGGATTCGATCCTGCGCAAGCGTAG-CCATTCAGA-ATCGAGTCTGACTCCTTAAC
1 GTCGACAGCAGGATTCGAACCTGCGCAGGCATAGCCCA-TCAGATTTCGAGTCTGACTCCTTAAC
* * * **
115258 CACTCGGACATATTGACAACATT--A--C--T---AGGACTAAAGATTAAA-TATGTTAAGAAAA
65 CACTCGGACATATCGACAACATTGAAGGCTATACAAGGACTAAATA-TAAACTCTGTTAAGAGTA
* * *
115313 TAAGGACTGGTTGCACAATTAAACCGAAGAACTATTAGCATTATCGTATATGCAAAT
129 GAAGGACTGGTTGCACAATTAAACC--AGAACTATTAGCATTACCCTATA-GCAAAT
115370 GATAAAAAAA
Statistics
Matches: 332, Mismatches: 36, Indels: 31
0.83 0.09 0.08
Matches are distributed among these distances:
196 1 0.00
197 68 0.20
198 4 0.01
199 2 0.01
200 138 0.42
203 20 0.06
204 13 0.04
205 1 0.00
206 46 0.14
207 39 0.12
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (204 bp):
GTCGACAGCAGGATTCGAACCTGCGCAGGCATAGCCCATCAGATTTCGAGTCTGACTCCTTAACC
ACTCGGACATATCGACAACATTGAAGGCTATACAAGGACTAAATATAAACTCTGTTAAGAGTAGA
AGGACTGGTTGCACAATTAAACCAGAACTATTAGCATTACCCTATAGCAAATAAATAAGATAAAA
CATAGAACC
Found at i:116181 original size:6 final size:6
Alignment explanation
Indices: 116170--116201 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
116160 ATAGTACTAC
116170 CCGCTT CCGCTT CCGCTT CCGCTT CCGCTT CC
1 CCGCTT CCGCTT CCGCTT CCGCTT CCGCTT CC
116202 ACTCTTATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.53, G:0.16, T:0.31
Consensus pattern (6 bp):
CCGCTT
Found at i:120878 original size:30 final size:30
Alignment explanation
Indices: 120821--120976 Score: 185
Period size: 30 Copynumber: 5.1 Consensus size: 30
120811 TATTAAAATA
* *
120821 ATTTT-AAATAATTTA--ATAAAGTTATTT
1 ATTTTAAAATAATTTATTATAAAATAATTT
120848 ATTTTAAAATAATTTATTATAAAATAATTT
1 ATTTTAAAATAATTTATTATAAAATAATTT
120878 ATTTTAAAATAATTTATTATAAAATAATTT
1 ATTTTAAAATAATTTATTATAAAATAATTT
*
120908 ATTTTAAAATAAATTATTATAAAATATAGATTGATTT
1 ATTTTAAAATAATTTATTAT-AAA-AT--A---ATTT
*
120945 ATTTTAAAATAATTTATT-TTAAATAATTT
1 ATTTTAAAATAATTTATTATAAAATAATTT
120974 ATT
1 ATT
120977 AGTATGGATT
Statistics
Matches: 114, Mismatches: 5, Indels: 18
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.04
28 10 0.09
29 7 0.06
30 59 0.52
31 3 0.03
32 3 0.03
34 3 0.03
35 2 0.02
36 1 0.01
37 21 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (30 bp):
ATTTTAAAATAATTTATTATAAAATAATTT
Found at i:120970 original size:14 final size:15
Alignment explanation
Indices: 120844--120976 Score: 160
Period size: 15 Copynumber: 8.5 Consensus size: 15
120834 TAATAAAGTT
120844 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
120859 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
120874 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
120889 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
120904 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
120919 AATTATTATAAAATATAGA
1 ATTTATT-TTAAA-AT--A
120938 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
120956 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
120970 ATTTATT
1 ATTTATT
120977 AGTATGGATT
Statistics
Matches: 103, Mismatches: 8, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
14 12 0.12
15 71 0.69
16 4 0.04
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 4 0.04
22 6 0.06
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:120989 original size:47 final size:46
Alignment explanation
Indices: 120821--121002 Score: 178
Period size: 52 Copynumber: 3.9 Consensus size: 46
120811 TATTAAAATA
*
120821 ATTTTAAATAATTTA--ATAAAG-TT-ATTTATTTTAAAATAATTT
1 ATTTTAAATAATTTATTATATAGATTGATTTATTTTAAAATAATTT
* * * * *
120863 ATTATAAAATAATTTATT-T-TAAAATAATTTATTATAAAATAATTT
1 ATT-TTAAATAATTTATTATATAGATTGATTTATTTTAAAATAATTT
*
120908 ATTTTAAAATAAATTATTATAAAATATAGATTGATTTATTTTAAAATAATTT
1 ATTTT-AAAT-AA-T-TTAT--TATATAGATTGATTTATTTTAAAATAATTT
*
120960 ATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATA
1 ATTTTAAATAATTTATTA-TATAGATTGATTTATTTTAAAATA
121003 TGGATTGATT
Statistics
Matches: 113, Mismatches: 13, Indels: 23
0.76 0.09 0.15
Matches are distributed among these distances:
42 3 0.03
43 12 0.11
44 3 0.03
45 25 0.22
46 3 0.03
47 24 0.21
48 8 0.07
49 1 0.01
50 2 0.02
51 5 0.04
52 27 0.24
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (46 bp):
ATTTTAAATAATTTATTATATAGATTGATTTATTTTAAAATAATTT
Found at i:120995 original size:22 final size:22
Alignment explanation
Indices: 120970--121042 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
120960 ATTTTAAATA
120970 ATTTATTAGTATGGATTGATTT
1 ATTTATTAGTATGGATTGATTT
* *
120992 ATTT-TAAAATATGGATTGATTT
1 ATTTAT-TAGTATGGATTGATTT
* *
121014 A-TTATT-GTAGTTGTATTGATTG
1 ATTTATTAGTA--TGGATTGATTT
121036 ATTTATT
1 ATTTATT
121043 TTAAATAATC
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
20 2 0.05
21 3 0.08
22 30 0.75
23 5 0.12
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (22 bp):
ATTTATTAGTATGGATTGATTT
Found at i:121072 original size:32 final size:32
Alignment explanation
Indices: 121026--121625 Score: 531
Period size: 32 Copynumber: 20.7 Consensus size: 32
121016 TATTGTAGTT
* *
121026 GTATTGATTGATTTATTTTAAATAATCTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
121058 GTATGGATTGATTTA-CTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
121081 -TATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
**
121112 GTATAAATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
121135 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
121166 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
** *
121198 GTATATATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
121230 GTATGGATTGATTTA--TT--AT--TGTAGTT-
1 GTATGGATTGATTTATTTTAAATAATTTA-TTA
121256 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
121288 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
** *
121320 GTATATATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
121352 GTATGGATTGATTTA--TT--AT--TGTAGTT-
1 GTATGGATTGATTTATTTTAAATAATTTA-TTA
*
121378 GTATAGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
121410 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
121433 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
121464 GTATGGATTGATTTATTTT--A-AA---A-TA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
121489 -TA--GATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
121518 GTAT-AATTTGATTTA-TTT---TAA---A--A
1 GTATGGA-TTGATTTATTTTAAATAATTTATTA
121541 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
121572 GTAT-AATTTGATTTATTTTAAATAATTTATTT
1 GTATGGA-TTGATTTATTTTAAATAATTTATTA
*
121604 GTATAGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
121626 ATATAGATTG
Statistics
Matches: 469, Mismatches: 30, Indels: 138
0.74 0.05 0.22
Matches are distributed among these distances:
22 65 0.14
23 15 0.03
24 3 0.01
25 8 0.02
26 48 0.10
27 4 0.01
28 21 0.04
29 8 0.02
30 11 0.02
31 20 0.04
32 265 0.57
33 1 0.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:121087 original size:22 final size:22
Alignment explanation
Indices: 121059--121101 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
121049 AATCTATTAG
121059 TATGGATTGATTTACTTTAAAA
1 TATGGATTGATTTACTTTAAAA
*
121081 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTACTTTAAA
121102 TAATTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (22 bp):
TATGGATTGATTTACTTTAAAA
Found at i:121105 original size:54 final size:54
Alignment explanation
Indices: 121031--121593 Score: 671
Period size: 54 Copynumber: 9.9 Consensus size: 54
121021 TAGTTGTATT
* *
121031 GATTGATTTATTTTAAATAATCTATTAGTATGGATTGATTTACTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
* **
121085 GATTGATTTATTTTAAATAATTTATTTGTATAAATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
121139 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G
* * ***
121199 TATATATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTATTGTAGTTGTATG
1 ----GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATG
121261 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G
* * *** *
121321 TATATATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTATTGTAGTTGTATA
1 ----GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATG
121383 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
*
121437 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATA
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
*
121491 GATTGATTTATTTTAAATAATTTATTAGTAT-AATTTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGA-TTGATTTATTTTAAAATATG
*
121545 GATTGATTTATTTTAAATAATTTATTAGTAT-AATTTGATTTATTTTAAA
1 GATTGATTTATTTTAAATAATTTATTAGTATGGA-TTGATTTATTTTAAA
121594 TAATTTATTT
Statistics
Matches: 447, Mismatches: 33, Indels: 58
0.83 0.06 0.11
Matches are distributed among these distances:
53 1 0.00
54 247 0.55
55 5 0.01
56 7 0.02
57 2 0.00
58 84 0.19
59 2 0.00
60 2 0.00
62 1 0.00
63 2 0.00
64 84 0.19
65 2 0.00
66 6 0.01
67 2 0.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
Found at i:121282 original size:90 final size:88
Alignment explanation
Indices: 121158--121485 Score: 395
Period size: 90 Copynumber: 3.7 Consensus size: 88
121148 ATTTTAAATA
*
121158 ATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATATATTGATTTATTTTAAATAA
1 ATTTATT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAATAA
*
121223 TTTATTTGTATGGATTGATTTATT
65 TTTATTAGTATGGATTGATTTATT
*
121247 ATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATA
1 ATT-TA-TTGTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAATA
**
121312 ATTTATTAGTATATATTGATTTATTTTAAAT
64 ATTTATTAGTATGGATTGATTTA---T---T
*
121343 AATTTATTTGTATGGATTGATTTA--TT--AT--TGTAGTT-GTATAGATTGATTTATTTTAAAT
1 -ATTTA-TTGTATGGATTGATTTATTTTAAATAATTTA-TTAGTATAGATTGATTTATTTTAAAT
121401 AATTTATTAGTATGGATTGATTTA-T
63 AATTTATTAGTATGGATTGATTTATT
*** *
121426 -TTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 ATTTATTGTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAA
121486 ATATAGATTG
Statistics
Matches: 207, Mismatches: 15, Indels: 37
0.80 0.06 0.14
Matches are distributed among these distances:
80 14 0.07
81 4 0.02
82 2 0.01
83 1 0.00
84 2 0.01
85 2 0.01
86 24 0.12
89 3 0.01
90 123 0.59
91 4 0.02
92 2 0.01
93 1 0.00
94 2 0.01
96 20 0.10
97 3 0.01
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (88 bp):
ATTTATTGTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAATAAT
TTATTAGTATGGATTGATTTATT
Found at i:121285 original size:122 final size:118
Alignment explanation
Indices: 121086--121539 Score: 633
Period size: 122 Copynumber: 3.9 Consensus size: 118
121076 TAAAATATGG
** *
121086 ATTGATTTATTTTAAATAATTTATTTGTATAAATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATAGATTGATTTATT
121151 TTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATAT
66 TTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATAT
*** *
121204 ATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTATTGTAGTTGTATGGATTGATT
1 ATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTA-T-TT-TA-AAATATAGATTGATT
121269 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATAT
62 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATAT
***
121326 ATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTATTGTAGTTGTATAGATTGATT
1 ATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTA-T-TT-TA-AAATATAGATTGATT
*
121391 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G----G
62 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATAT
*
121438 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATAGATTGATTTATT
*
121503 TTAAATAATTTATTAGTAT-AATTTGATTTATTTTAAA
66 TTAAATAATTTATTAGTATGGA-TTGATTTATTTTAAA
121540 ATATGGATTG
Statistics
Matches: 318, Mismatches: 12, Indels: 21
0.91 0.03 0.06
Matches are distributed among these distances:
107 1 0.00
108 47 0.15
109 4 0.01
110 2 0.01
111 1 0.00
112 40 0.13
116 1 0.00
117 1 0.00
118 41 0.13
119 1 0.00
120 4 0.01
121 4 0.01
122 171 0.54
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (118 bp):
ATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATAGATTGATTTATT
TTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATAT
Found at i:121436 original size:22 final size:22
Alignment explanation
Indices: 121411--121453 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
121401 AATTTATTAG
121411 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
121433 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
121454 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:121569 original size:14 final size:14
Alignment explanation
Indices: 121550--121603 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
121540 ATATGGATTG
121550 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
121564 ATTTATTAGTATAATTTG
1 ATTTATT--T-TAA-ATA
121582 ATTTATTTTAAATA
1 ATTTATTTTAAATA
121596 ATTTATTT
1 ATTTATTT
121604 GTATAGATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 16 0.50
15 3 0.09
16 2 0.06
17 3 0.09
18 8 0.25
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:121630 original size:22 final size:22
Alignment explanation
Indices: 121605--121647 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
121595 AATTTATTTG
121605 TATAGATTGATTTATTTTAAAA
1 TATAGATTGATTTATTTTAAAA
*
121627 TATAGATTGGTTTATTTTAAA
1 TATAGATTGATTTATTTTAAA
121648 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATAGATTGATTTATTTTAAAA
Found at i:121641 original size:86 final size:86
Alignment explanation
Indices: 121493--121657 Score: 287
Period size: 86 Copynumber: 1.9 Consensus size: 86
121483 AAAATATAGA
*
121493 TTGATTTATTTTAAATAATTTATTAGTATAATTTGATTTATTTTAAAATATGGATTGATTTATTT
1 TTGATTTATTTTAAATAATTTATTAGTATAATTTGATTTATTTTAAAATATAGATTGATTTATTT
121558 TAAATAATTTATTAGTATAAT
66 TAAATAATTTATTAGTATAAT
* *
121579 TTGATTTATTTTAAATAATTTATTTGTATAGA-TTGATTTATTTTAAAATATAGATTGGTTTATT
1 TTGATTTATTTTAAATAATTTATTAGTATA-ATTTGATTTATTTTAAAATATAGATTGATTTATT
121643 TTAAATAATTTATTA
65 TTAAATAATTTATTA
121658 TTTTAGTTGT
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
86 74 0.99
87 1 0.01
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.55
Consensus pattern (86 bp):
TTGATTTATTTTAAATAATTTATTAGTATAATTTGATTTATTTTAAAATATAGATTGATTTATTT
TAAATAATTTATTAGTATAAT
Found at i:121655 original size:122 final size:114
Alignment explanation
Indices: 121171--121657 Score: 251
Period size: 122 Copynumber: 4.2 Consensus size: 114
121161 TATTAGTATG
** * * *
121171 GATTGATTTATTTTAAATAATTTATTAGTATATATTGATTTATTTTAAATAATTTATTTGTATGG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGAATTG
* * *
121236 ATTGA-TTT--ATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTA
66 ATTTATTTTAAATAATT-TATTTGTATGGATTGATTTATTTT--A-AA---A-TA-TA
** * *
121291 TGGATTGATTTATTTTAAATAATTTATTAGTATATATTGATTTATTTTAAATAATTTATTTGTAT
1 --GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGAAT
* * * * *
121356 GGATTGA-TTT--ATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTA
64 TGATTTATTTTAAATAATT-TATTTGTATGGATTGATTTATTTT-AA-AA--TA-TA
* * * * * *
121410 GTATGGATTGA-TTT--AT--TTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATG
1 G-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGAATT
* *** * *
121469 GATTGA-TTT--AT--TTTA-AAATATAGATTGATTTATTTTAAATA-ATT
65 GATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAA-ATATA
* * * * * * * *
121513 TATT-AGTATAATTTGATTTATTT-TAAAATATGGATTGATTTATTTTAAATAATTTATTAGTAT
1 GATTGA-TTTATTTTAAATAATTTAT-TAGTATGGATTGATTTATTTTAAATAATTTATTAG---
*
121576 AATTTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAATATA
61 AA-TTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATA
*
121631 GATTGGTTTATTTTAAATAATTTATTA
1 GATTGATTTATTTTAAATAATTTATTA
121658 TTTTAGTTGT
Statistics
Matches: 307, Mismatches: 33, Indels: 54
0.78 0.08 0.14
Matches are distributed among these distances:
101 1 0.00
102 4 0.01
103 4 0.01
104 1 0.00
105 1 0.00
106 1 0.00
107 6 0.02
108 53 0.17
109 2 0.01
110 2 0.01
111 1 0.00
112 51 0.17
113 7 0.02
115 4 0.01
117 9 0.03
118 47 0.15
119 6 0.02
120 1 0.00
121 3 0.01
122 103 0.34
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (114 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGAATTG
ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATA
Found at i:121870 original size:20 final size:21
Alignment explanation
Indices: 121842--121895 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
121832 CAGATGCCTG
*
121842 CAGATGTGGTCCGTAA-ACTA
1 CAGACGTGGTCCGTAAGACTA
*
121862 CAGACGTGGTCCGTAAGACTG
1 CAGACGTGGTCCGTAAGACTA
121883 CAGACGTGGTCCG
1 CAGACGTGGTCCG
121896 CAGACTGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.20
Consensus pattern (21 bp):
CAGACGTGGTCCGTAAGACTA
Found at i:121888 original size:21 final size:21
Alignment explanation
Indices: 121839--121906 Score: 95
Period size: 20 Copynumber: 3.3 Consensus size: 21
121829 CTGCAGATGC
*
121839 CTGCAGATGTGGTCCGTAA-A
1 CTGCAGACGTGGTCCGTAAGA
*
121859 CTACAGACGTGGTCCGTAAGA
1 CTGCAGACGTGGTCCGTAAGA
*
121880 CTGCAGACGTGGTCCG-CAGA
1 CTGCAGACGTGGTCCGTAAGA
121900 CTGCAGA
1 CTGCAGA
121907 TCTTTTATCT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.25, C:0.25, G:0.31, T:0.19
Consensus pattern (21 bp):
CTGCAGACGTGGTCCGTAAGA
Found at i:124279 original size:23 final size:23
Alignment explanation
Indices: 124232--124281 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
124222 AATAACATAT
* **
124232 TAGGTAGCGTTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
124255 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
124278 TAGG
1 TAGG
124282 CATTTAACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:124740 original size:198 final size:198
Alignment explanation
Indices: 124375--124870 Score: 578
Period size: 198 Copynumber: 2.5 Consensus size: 198
124365 TCTCATAAAT
* * * * * * *
124375 CGGTAAATTTAAACCAGTTACATTATAAATTGACCTATTACATTAT-GTATATCGGTTTCGATGT
1 CGGTATATTTTAACCGGTTACATTGTAAATTTACCTATTACATTATAAT-TATCGGTTTCGATGA
* * *
124439 TTTCGGGATCGATACAATTTT-AAATGTATCGACACTTTATGCGTGCGACTCGTTTGTGCTTTAT
65 TTTCGGGATCGATAC-TTTTTAAAATGTATCGACACTTTATGCGTACGACTCGTTTGTCCTTTAT
* * * * *
124503 TTTGGAAAAAAGTATCGACACATATTTAAAGAGTGTCGATACATAATGTAGACCTATT-TGTTAA
129 TTTGGAAAAAAGTATCGACACAAATTAAAAAAATGTCGATACATAATGTAGACCTATTCT-CTAA
*
124567 TTAA-C
193 TGAACC
* * *
124572 CGGTATATTTTAACCGGTTACATTGTAAATTTACCTGTTACATAATAATTATCGATTTCGATG-T
1 CGGTATATTTTAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGAT
124636 TTCGAGGATCGATACTTTTTACAAATGTATCGACACTTTATGCGTAC-ACCTCGTTTG-CCATTT
66 TTCG-GGATCGATACTTTTTA-AAATGTATCGACACTTTATGCGTACGA-CTCGTTTGTCC-TTT
* * *
124699 ATTTT-GAAAAAATGTATCGACACAAATTAAAAAAATGTCGATACTTTATGTTGACCTATTCTCT
127 ATTTTGGAAAAAA-GTATCGACACAAATTAAAAAAATGTCGATACATAATGTAGACCTATTCTCT
*
124763 CATGAACC
191 AATGAACC
* * **
124771 CGGTATATTTCT-ACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTCTCTTTGA
1 CGGTATATTT-TAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGA
* *
124835 TTTTGGGATCGATACTTGTTATAAATGTATCGACAC
65 TTTCGGGATCGATACTTTTTA-AAATGTATCGACAC
124871 AAAATCTAAT
Statistics
Matches: 256, Mismatches: 32, Indels: 20
0.83 0.10 0.06
Matches are distributed among these distances:
196 9 0.04
197 71 0.28
198 86 0.34
199 85 0.33
200 5 0.02
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (198 bp):
CGGTATATTTTAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGAT
TTCGGGATCGATACTTTTTAAAATGTATCGACACTTTATGCGTACGACTCGTTTGTCCTTTATTT
TGGAAAAAAGTATCGACACAAATTAAAAAAATGTCGATACATAATGTAGACCTATTCTCTAATGA
ACC
Found at i:128549 original size:201 final size:198
Alignment explanation
Indices: 128029--128608 Score: 697
Period size: 201 Copynumber: 2.9 Consensus size: 198
128019 CGTAATTTTA
* *
128029 AAAGTATCGACACAAAT-TTAAACGTGTCGATACATTATGTAGACCTATTTTCTCAGAAAACCGA
1 AAAGTATCGACACAAATGATAAA-GTGTCGATACATTATGTAGACCTATTTTCTCAGAAAACCGG
* *
128093 TAAATTTAAACTGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGCTTTT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
* ** * **
128158 AGGATCGACAATTTTTCTAAATGTATCGACACTTTTTCGTAACTTGTTTGGAAAATTTATTATAG
130 AGGATCGACACTTGATATAAATGTATCGACACTTTTTCGTAACTTGTTTGGAAAATACATTATAG
128223 ACAT
195 ACAT
* * * * * * * *
128227 AAAGTGTCGACACGAATGTATAAATTATCGATACATTATGTATACCT-TTTTTTTA-ATAACCGG
1 AAAGTATCGACACAAATG-ATAAAGTGTCGATACATTATGTAGACCTATTTTCTCAGAAAACCGG
* * * * * * **
128290 TATATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTATGTATTTCGATGTTTTT
65 TAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTT
* * *
128355 GGGATCGACACTTGGTATAAATGTATCGACACTTTGTTCGTACACTTGGTTTGG-AAATACATTC
130 AGGATCGACACTTGATATAAATGTATCGACACTTT-TTCGTA-ACTT-GTTTGGAAAATACATTA
*
128419 TGGACA-
192 TAGACAT
* * **
128425 ACATGTATCGACACAAATGAATAAAGTGTCGATATA-TATTGTAGACCTATTTTCTCAGAAAATA
1 A-AAGTATCGACACAAATG-ATAAAGTGTCGATACATTA-TGTAGACCTATTTTCTCAGAAAACC
*
128489 GGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAGTTACGGGTTTCGATGTTT
63 GGTAAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTT
128554 TTAGGATCGACACTTGATATAAATGTATCGACACTTATTT-GTGAACTTGCTTTGG
128 TTAGGATCGACACTTGATATAAATGTATCGACACTT-TTTCGT-AACTTG-TTTGG
128609 TTGGAAAATA
Statistics
Matches: 317, Mismatches: 53, Indels: 22
0.81 0.14 0.06
Matches are distributed among these distances:
197 91 0.29
198 30 0.09
199 72 0.23
200 27 0.09
201 96 0.30
202 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (198 bp):
AAAGTATCGACACAAATGATAAAGTGTCGATACATTATGTAGACCTATTTTCTCAGAAAACCGGT
AAATTTAAACCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTCGATGTTTTTA
GGATCGACACTTGATATAAATGTATCGACACTTTTTCGTAACTTGTTTGGAAAATACATTATAGA
CAT
Found at i:129673 original size:12 final size:12
Alignment explanation
Indices: 129656--129690 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
129646 ACTTGTTTGG
*
129656 ATCATCATCATC
1 ATCATCTTCATC
129668 ATCATCTTCATC
1 ATCATCTTCATC
*
129680 GTCATCTTCAT
1 ATCATCTTCAT
129691 TGACCGCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.31, G:0.03, T:0.40
Consensus pattern (12 bp):
ATCATCTTCATC
Found at i:130850 original size:15 final size:15
Alignment explanation
Indices: 130830--130882 Score: 88
Period size: 15 Copynumber: 3.5 Consensus size: 15
130820 AGATTTCCTC
130830 AGAAGAGCTGGGTTG
1 AGAAGAGCTGGGTTG
*
130845 AGAAGAGGTGGGTTG
1 AGAAGAGCTGGGTTG
*
130860 AGAAGAGATGGGTTG
1 AGAAGAGCTGGGTTG
130875 AGAAGAGC
1 AGAAGAGC
130883 CCCGATTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.32, C:0.04, G:0.47, T:0.17
Consensus pattern (15 bp):
AGAAGAGCTGGGTTG
Found at i:131565 original size:198 final size:198
Alignment explanation
Indices: 131299--132169 Score: 1179
Period size: 198 Copynumber: 4.4 Consensus size: 198
131289 AATTTCATTG
* * * * * ** * ** **
131299 TTTTAGGATCGATACTTTTTATAAATGTATCGACACTTTTTTGTGAACTTTTTGACCATTTACAT
1 TTTTTGGATCGATACTTTTTATAAATGTATCGACACATTATGGTGACCTTGGTAAGGAAAT-CAT
* * * *
131364 TCTGGACAAAAAGTGTCGATACAAATTCAAAAAGTGTCGATACTTCATGTACACTTGTTTTCTCA
65 TCTGGACACAAAGTATCGACACAAATTCAAAAAGTGTCGATACTTCATGTACACCTGTTTTCTCA
** *
131429 TAAATTGGTGTATTTAGACCGGTTAGATTGATAATTTACCTATTACATTATAATTATGGGTCTCG
130 TAAACCGGTGTAATTAGACCGGTTAGATTGATAATTTACCTATTACATTATAATTATGGGTCTCG
131494 ATGT
195 ATGT
* *
131498 TTTTTGGATCGATA-TACTTTATAAATGTATCGACACCTTATGGTGACCTTGGTAAGGAAATCAT
1 TTTTTGGATCGATACT-TTTTATAAATGTATCGACACATTATGGTGACCTTGGTAAGGAAATCAT
* * * * *
131562 TCTGGACACAAAGTATTGACACAAATTAAAAAAATGTTGATATTTCATGTACACCTGTTTTCTCA
65 TCTGGACACAAAGTATCGACACAAATTCAAAAAGTGTCGATACTTCATGTACACCTGTTTTCTCA
* *
131627 TAAACCGGTGTAATTAGACCAGTTAGATTTATAATTTACCTATTACATTATAATTATGGGTCTCG
130 TAAACCGGTGTAATTAGACCGGTTAGATTGATAATTTACCTATTACATTATAATTATGGGTCTCG
131692 ATGT
195 ATGT
* * *
131696 TTTTCGGATCGATACTTTTTATAAATGTATCGAAACTTTATGGTGACCTTGGTAAGGAAATCATT
1 TTTTTGGATCGATACTTTTTATAAATGTATCGACACATTATGGTGACCTTGGTAAGGAAATCATT
* *
131761 CTGGACACAAAGTATCGACACAAATTCAAAAAGTGTCGATACTTAATGTACACCTATTTTCTCAT
66 CTGGACACAAAGTATCGACACAAATTCAAAAAGTGTCGATACTTCATGTACACCTGTTTTCTCAT
*
131826 AAACCGATGTAATTAGACCGGTTAGATTGATAA-TTA-C--TT--ATTATAATTATGGGTCTCGA
131 AAACCGGTGTAATTAGACCGGTTAGATTGATAATTTACCTATTACATTATAATTATGGGTCTCGA
131885 TG-
196 TGT
*
131887 TTTTTGGATCGATACTTTTTATAGATGTATCGACACATTATGGTGACCTTGGTAAGGAAATCATT
1 TTTTTGGATCGATACTTTTTATAAATGTATCGACACATTATGGTGACCTTGGTAAGGAAATCATT
* * *
131952 ATGGACACAAAGTATGGGATCGACACAAATT-AAACAAGTGTCGATACTTTATGTACACATGTTT
66 CTGGACACAAAG--T---ATCGACACAAATTCAAA-AAGTGTCGATACTTCATGTACACCTGTTT
*
132016 TCTCATAAACCGGTGTATTTAGACCGGTTAGATTGATAATTTACCTATTACATTATAATTATGGG
125 TCTCATAAACCGGTGTAATTAGACCGGTTAGATTGATAATTTACCTATTACATTATAATTATGGG
*
132081 TCTTGATGT
190 TCTCGATGT
* **
132090 TTTTGGGATCGATACTTTTTATAAATGTATCGACACATT-TCCATG-CACTTGGTAAGGAAATCA
1 TTTTTGGATCGATACTTTTTATAAATGTATCGACACATTAT-GGTGAC-CTTGGTAAGGAAATCA
*
132153 TTCTGGCCACAAAGTAT
64 TTCTGGACACAAAGTAT
132170 ACTTGGACAA
Statistics
Matches: 597, Mismatches: 58, Indels: 35
0.87 0.08 0.05
Matches are distributed among these distances:
191 72 0.12
192 22 0.04
193 1 0.00
194 2 0.00
195 3 0.01
196 77 0.13
197 6 0.01
198 274 0.46
199 47 0.08
200 2 0.00
201 1 0.00
202 23 0.04
203 67 0.11
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (198 bp):
TTTTTGGATCGATACTTTTTATAAATGTATCGACACATTATGGTGACCTTGGTAAGGAAATCATT
CTGGACACAAAGTATCGACACAAATTCAAAAAGTGTCGATACTTCATGTACACCTGTTTTCTCAT
AAACCGGTGTAATTAGACCGGTTAGATTGATAATTTACCTATTACATTATAATTATGGGTCTCGA
TGT
Found at i:132078 original size:394 final size:392
Alignment explanation
Indices: 131299--132169 Score: 1218
Period size: 394 Copynumber: 2.2 Consensus size: 392
131289 AATTTCATTG
* ** * ** **
131299 TTTTAGGATCGATACTTTTTATAAATGTATCGACACTTTTTTGTGAACTTTTTGACCATTTACAT
1 TTTTAGGATCGATACTTTTTATAAATGTATCGACAC-TTTATGTG-ACTTGGTAAGGAAAT-CAT
* * * * * *
131364 TCTGGACAAAAAGTGTCGATACAAATTCAAAAAGTGTCGATACTTCATGTACACTTGTTTTCTCA
63 TCTGGACACAAAGTATCGACACAAATTCAAAAAGTGTCGATACTTAATGTACACCTATTTTCTCA
** * *
131429 TAAATTGGTGTATTTAGACCGGTTAGATTGATAATTTACCTATTACATTATAATTATGGGTCTCG
128 TAAACCGATGTAATTAGACCGGTTAGATTGATAATTTACC-ATTA-ATTATAATTATGGGTCTCG
*
131494 ATGTTTTTTGGATCGATATACTTTATAAATGTATCGACACCTTATGGTGACCTTGGTAAGGAAAT
191 ATGTTTTTTGGATCGATATACTTTATAAATGTATCGACACATTATGGTGACCTTGGTAAGGAAAT
* * *
131559 CATTCTGGACACAAAGTATTGACACAAATTAAAAAAATGTTGATATTTCATGTACACCTGTTTTC
256 CATTATGGACACAAAGTATTGACACAAATTAAAAAAATGTCGATATTTCATGTACACATGTTTTC
*
131624 TCATAAACCGGTGTAATTAGACCAGTTAGATTTATAATTTACCTATTACATTATAATTATGGGTC
321 TCATAAACCGGTGTAATTAGACCAGTTAGATTGATAATTTACCTATTACATTATAATTATGGGTC
131689 TCGATGT
386 TCGATGT
* *
131696 TTTTCGGATCGATACTTTTTATAAATGTATCGAAACTTTATGGTGACCTTGGTAAGGAAATCATT
1 TTTTAGGATCGATACTTTTTATAAATGTATCGACACTTTAT-GTGA-CTTGGTAAGGAAATCATT
131761 CTGGACACAAAGTATCGACACAAATTCAAAAAGTGTCGATACTTAATGTACACCTATTTTCTCAT
64 CTGGACACAAAGTATCGACACAAATTCAAAAAGTGTCGATACTTAATGTACACCTATTTTCTCAT
131826 AAACCGATGTAATTAGACCGGTTAGATTGATAA-TTA-C-TT-ATTATAATTATGGGTCTCGATG
129 AAACCGATGTAATTAGACCGGTTAGATTGATAATTTACCATTAATTATAATTATGGGTCTCGATG
* *
131887 -TTTTTGGATCGATACT-TTTTATAGATGTATCGACACATTATGGTGACCTTGGTAAGGAAATCA
194 TTTTTTGGATCGATA-TACTTTATAAATGTATCGACACATTATGGTGACCTTGGTAAGGAAATCA
* *
131950 TTATGGACACAAAGTATGGGATCGACACAAATTAAACAAGTGTCGATACTTT-ATGTACACATGT
258 TTATGGACACAAAGTAT----T-GACACAAATTAAAAAAATGTCGATA-TTTCATGTACACATGT
* *
132014 TTTCTCATAAACCGGTGTATTTAGACCGGTTAGATTGATAATTTACCTATTACATTATAATTATG
317 TTTCTCATAAACCGGTGTAATTAGACCAGTTAGATTGATAATTTACCTATTACATTATAATTATG
*
132079 GGTCTTGATGT
382 GGTCTCGATGT
* *
132090 TTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATG-CACTTGGTAAGGAAATCAT
1 TTTTAGGATCGATACTTTTTATAAATGTATCGACAC-TTT--ATGTGACTTGGTAAGGAAATCAT
*
132154 TCTGGCCACAAAGTAT
63 TCTGGACACAAAGTAT
132170 ACTTGGACAA
Statistics
Matches: 426, Mismatches: 36, Indels: 27
0.87 0.07 0.06
Matches are distributed among these distances:
389 74 0.17
390 23 0.05
392 2 0.00
393 1 0.00
394 172 0.40
395 10 0.02
396 98 0.23
397 46 0.11
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (392 bp):
TTTTAGGATCGATACTTTTTATAAATGTATCGACACTTTATGTGACTTGGTAAGGAAATCATTCT
GGACACAAAGTATCGACACAAATTCAAAAAGTGTCGATACTTAATGTACACCTATTTTCTCATAA
ACCGATGTAATTAGACCGGTTAGATTGATAATTTACCATTAATTATAATTATGGGTCTCGATGTT
TTTTGGATCGATATACTTTATAAATGTATCGACACATTATGGTGACCTTGGTAAGGAAATCATTA
TGGACACAAAGTATTGACACAAATTAAAAAAATGTCGATATTTCATGTACACATGTTTTCTCATA
AACCGGTGTAATTAGACCAGTTAGATTGATAATTTACCTATTACATTATAATTATGGGTCTCGAT
GT
Found at i:133956 original size:15 final size:16
Alignment explanation
Indices: 133932--133962 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
133922 TTCATTTCCT
133932 CCATCTTTTCTTCTTC
1 CCATCTTTTCTTCTTC
133948 CCATC-TTTCTTCTTC
1 CCATCTTTTCTTCTTC
133963 AAATTTTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (16 bp):
CCATCTTTTCTTCTTC
Found at i:134318 original size:15 final size:15
Alignment explanation
Indices: 134298--134328 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
134288 CTCTTGTTTT
134298 CCTGACCGTAATCCC
1 CCTGACCGTAATCCC
*
134313 CCTGACCGTCATCCC
1 CCTGACCGTAATCCC
134328 C
1 C
134329 TCCAACCATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.52, G:0.13, T:0.19
Consensus pattern (15 bp):
CCTGACCGTAATCCC
Found at i:134930 original size:102 final size:102
Alignment explanation
Indices: 134721--134932 Score: 356
Period size: 102 Copynumber: 2.1 Consensus size: 102
134711 GTATCTCTGG
134721 CTGTCCTTTTGAAAGGTGATTATTGATTCAATCATCTCGAATGGACATATTCAACCCATTTAAGT
1 CTGTCCTTTTGAAAGGTGATTATTGATTCAATCATCTCGAATGGACATATTCAACCCATTTAAGT
* * *
134786 CACCCTTCAAGCCTTCATCGTAAATGAGGTATCTTGG
66 CACCCTTCAAGCCTTCATCGTAAATGAGCTATCATGA
134823 CTGTCCTTTTGAAAGGTGATTATTGATTCAATCAATCTCGAATGGACATATTCAACCCAATTTAA
1 CTGTCCTTTTGAAAGGTGATTATTGATTCAATC-ATCTCGAATGGACATATTCAACCC-ATTTAA
134888 GTCACCCTTCAAGCCTTCATCGTAAATGAGCT-TCAT-A
64 GTCACCCTTCAAGCCTTCATCGTAAATGAGCTATCATGA
*
134925 TTGTCCTT
1 CTGTCCTT
134933 GTTCGTTGAC
Statistics
Matches: 104, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
102 40 0.38
103 27 0.26
104 37 0.36
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (102 bp):
CTGTCCTTTTGAAAGGTGATTATTGATTCAATCATCTCGAATGGACATATTCAACCCATTTAAGT
CACCCTTCAAGCCTTCATCGTAAATGAGCTATCATGA
Found at i:137267 original size:182 final size:182
Alignment explanation
Indices: 136604--137250 Score: 875
Period size: 182 Copynumber: 3.6 Consensus size: 182
136594 ATTAAAGTAC
* * * *
136604 CGACACTTTCAACATAAT-CGGTAGCGCTTTACCGGTTTTGTCATTTCGATATCGGTTTTGTCAT
1 CGACACTTTCAATAT-ATCCGGTAGCGTTTTACCGGTTTTATCATTTCGATACCGGTTTTGTCAT
* * * * *
136668 ATTTTTACCTATTATATTGTTATGGATCGATACGTTTTTATAAAGTATCGACACTTTTTAGGCGT
65 ATTATTACCTATTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGC
* * *
136733 TATAATTTATTCTCTTTTAAATTACGAAATTGTCGATACTTATATTAATTTAT
130 TATAACTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTATATTAATTTAT
* *** * * *
136786 CGACACTTTAAATATATCTAATATCTTTTTACCGGTTTTATCATTTCGATACCTGTTTTGTCATA
1 CGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTCGATACCGGTTTTGTCATA
* * * *
136851 TTATTGCCTGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGAAACTTTTTAGGTGCT
66 TTATTACCTATTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCT
* * * *
136916 ATTACTTCTTCTCTTTTAAATTATGAAAGTGTCGATACTTATACTAATGTAT
131 ATAACTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTATATTAATTTAT
* * * * **
136968 CGACACTTTCAATATATTCGGTATCTTTTTACCGGTTTTATCATTTCGAGACATGTTTTGTCATA
1 CGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTCGATACCGGTTTTGTCATA
* *
137033 TTATTACATGTTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCT
66 TTATTACCTATTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCT
*
137098 ATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACTTATATTAATTTAT
131 ATAACTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTATATTAATTTAT
* * * * * *
137150 CGACACTTTTAATATATCCGGTAGCGATTTACCGGTTTTATAATAAT-GACACCGGTTTTATCAT
1 CGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCAT-TTCGATACCGGTTTTGTCAT
*
137214 ATTTTTACCTATTATATTGCTATGGATCGATACATTT
65 ATTATTACCTATTATATTGCTATGGATCGATACATTT
137251 TTCATTTGTA
Statistics
Matches: 406, Mismatches: 57, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
181 2 0.00
182 403 0.99
183 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.44
Consensus pattern (182 bp):
CGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTTATCATTTCGATACCGGTTTTGTCATA
TTATTACCTATTATATTGCTATGGATCGATACATTTGTATAAAGTATCGACACTTTTTAGGCGCT
ATAACTTCTTCTCTTTTAAATTACGAAAGTGTCGATACTTATATTAATTTAT
Found at i:138279 original size:2 final size:2
Alignment explanation
Indices: 138272--138299 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
138262 TTAAAAATTA
138272 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
138300 TTAATGGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:141171 original size:20 final size:19
Alignment explanation
Indices: 141142--141179 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
141132 TTGCTTTTTC
141142 GGTTCAATATGGAACAACTG
1 GGTTCAATATGGAA-AACTG
*
141162 GGTTCCATATGGAAAACT
1 GGTTCAATATGGAAAACT
141180 CGAACCGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (19 bp):
GGTTCAATATGGAAAACTG
Found at i:141368 original size:16 final size:16
Alignment explanation
Indices: 141349--141379 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
141339 CATGCACTTC
141349 TTTTTACTGGAAGCAT
1 TTTTTACTGGAAGCAT
141365 TTTTTACTGGAAGCA
1 TTTTTACTGGAAGCA
141380 ATGCAATTGC
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:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (16 bp):
TTTTTACTGGAAGCAT
Found at i:148242 original size:132 final size:132
Alignment explanation
Indices: 147907--148256 Score: 515
Period size: 131 Copynumber: 2.7 Consensus size: 132
147897 TCGCCTATCA
* *
147907 AAAGCCTGCAAACTTATTGAATGCCATAAATCATAGGCATAGAAGCATTTGAAGCAATGATAGAT
1 AAAGCCTGCAAACTTATTGAATGCCATAAATCATA-GCATAGAGGCATTTGAAGCAAAGATAGAT
* *
147972 GAATTCTAAGACTAATAGTGCATAACGGAGGCACTATAAGGGCTATTGCCTGGATAAGTAATCTA
65 GAATTCTAAGACTAATAGTGCATAACGGAGGCACCATAAGGACTATTGCCTGGATAAGTAATCTA
148037 ACG
130 ACG
* ** * * *
148040 AACGCCTGGGAA-TTATCGAATGCCTTAAATCATAGCATAGAGGCATTTGAAGCAAAGATGGATG
1 AAAGCCTGCAAACTTATTGAATGCCATAAATCATAGCATAGAGGCATTTGAAGCAAAGATAGATG
* * *
148104 AATTCTAACACTAGTAGTGCATCACGGAGGCACCATAAGGACTATTGTCC-GGATAAGTAATCTA
66 AATTCTAAGACTAATAGTGCATAACGGAGGCACCATAAGGACTATTG-CCTGGATAAGTAATCTA
**
148168 GTG
130 ACG
* *
148171 AAAGCCTGCAAACATATTGAATGCCATAAATCATAGCTTAGAGGCATTTGAAGCAAAGATAGATG
1 AAAGCCTGCAAACTTATTGAATGCCATAAATCATAGCATAGAGGCATTTGAAGCAAAGATAGATG
148236 AATTCTAAGACTAATAGTGCA
66 AATTCTAAGACTAATAGTGCA
148257 CTATGGAGTA
Statistics
Matches: 190, Mismatches: 25, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
131 93 0.49
132 88 0.46
133 9 0.05
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (132 bp):
AAAGCCTGCAAACTTATTGAATGCCATAAATCATAGCATAGAGGCATTTGAAGCAAAGATAGATG
AATTCTAAGACTAATAGTGCATAACGGAGGCACCATAAGGACTATTGCCTGGATAAGTAATCTAA
CG
Found at i:149236 original size:40 final size:40
Alignment explanation
Indices: 149181--149256 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
149171 ATAATACCTG
149181 TGTGATGAAGGATCATAGATGCATGACATAAGGGGACGGA
1 TGTGATGAAGGATCATAGATGCATGACATAAGGGGACGGA
149221 TGTGATGAAGGATCATAGATGCATGACATAAGGGGA
1 TGTGATGAAGGATCATAGATGCATGACATAAGGGGA
149257 TGGACTAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.36, C:0.09, G:0.34, T:0.21
Consensus pattern (40 bp):
TGTGATGAAGGATCATAGATGCATGACATAAGGGGACGGA
Found at i:154591 original size:32 final size:31
Alignment explanation
Indices: 154555--154631 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
154545 CGGGGCCGTG
*
154555 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAACA-ATCTCAGGGCCGCA
** *
154587 GGGCCTACCCGAGAATAATCTCAGGGCCGCA
1 GGGCCTACCTAAGAACAATCTCAGGGCCGCA
*
154618 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
154632 GTCACATTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.63
32 14 0.37
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAACAATCTCAGGGCCGCA
Found at i:154596 original size:63 final size:63
Alignment explanation
Indices: 154508--154631 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
154498 ACCTAAGGGA
* * ** *
154508 ACATCTTAGGGCCTGAGAGCCTACCCAAG-ATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGAATA-ATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
154571 ACATCTTAGGGCC-GCAGGGCCTACCCGAGAATAATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGAATAATCTCAGGGCCGCAGAGCCTACCTAAGA
154632 GTCACATTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 48 0.92
64 3 0.06
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGAATAATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:154709 original size:70 final size:71
Alignment explanation
Indices: 154594--154735 Score: 261
Period size: 70 Copynumber: 2.0 Consensus size: 71
154584 GCAGGGCCTA
154594 CCCGAGAATAATCTCAGGGCCGCAGAGCCTACCTAAGAGTCACATTAGGTCTGTAAAATTTTCCA
1 CCCGAGAATAATCTCAGGGCCGCAGAGCCTACCTAAGAGTCACATTAGGTCTGTAAAA-TTTCCA
154659 GCTTGAT
65 GCTTGAT
154666 CCCGAG-A-AATCTCAGGGCCGCAGAGCCTACCTAAGAGTCACATTAGGTCTGTAAAATTTCCAG
1 CCCGAGAATAATCTCAGGGCCGCAGAGCCTACCTAAGAGTCACATTAGGTCTGTAAAATTTCCAG
154729 CTTGAT
66 CTTGAT
154735 C
1 C
154736 AGAGCTGTAC
Statistics
Matches: 70, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
69 14 0.20
70 49 0.70
71 1 0.01
72 6 0.09
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (71 bp):
CCCGAGAATAATCTCAGGGCCGCAGAGCCTACCTAAGAGTCACATTAGGTCTGTAAAATTTCCAG
CTTGAT
Found at i:155586 original size:5 final size:5
Alignment explanation
Indices: 155576--155633 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
155566 AACGGTCAAC
* *
155576 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
155625 GGTCG GGTC
1 GGTCG GGTC
155634 AGACCGGTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 37 0.82
7 8 0.18
ACGTcount: A:0.07, C:0.22, G:0.52, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:155594 original size:22 final size:22
Alignment explanation
Indices: 155569--155633 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
155559 GAAAGTCAAC
155569 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
155591 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
155613 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
155634 AGACCGGTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:155648 original size:9 final size:9
Alignment explanation
Indices: 155630--155720 Score: 83
Period size: 9 Copynumber: 9.7 Consensus size: 9
155620 GGTCGGGTCG
*
155630 GGTCAGACC
1 GGTCAAACC
155639 GGTCAAACC
1 GGTCAAACC
*
155648 GGCTCAGACC
1 GG-TCAAACC
155658 GGTCAAACC
1 GGTCAAACC
* *
155667 GATTCAGACC
1 G-GTCAAACC
*
155677 GGTTAAACC
1 GGTCAAACC
*
155686 GGTTCGAACC
1 GG-TCAAACC
*
155696 GGTTGAAACC
1 GG-TCAAACC
155706 GGTCAAACC
1 GGTCAAACC
155715 GGTCAA
1 GGTCAA
155721 CCGTTGAAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
9 36 0.55
10 30 0.45
ACGTcount: A:0.29, C:0.30, G:0.26, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:155654 original size:19 final size:19
Alignment explanation
Indices: 155632--155720 Score: 101
Period size: 19 Copynumber: 4.7 Consensus size: 19
155622 TCGGGTCGGG
*
155632 TCAGACCGGTCAAACCGGC
1 TCAGACCGGTCAAACCGGT
*
155651 TCAGACCGGTCAAACCGAT
1 TCAGACCGGTCAAACCGGT
*
155670 TCAGACCGGTTAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
155689 TC-GAACCGGTTGAAACCGG-
1 TCAG-ACCGG-TCAAACCGGT
*
155708 TCAAACCGGTCAA
1 TCAGACCGGTCAA
155721 CCGTTGAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
18 4 0.07
19 48 0.80
20 8 0.13
ACGTcount: A:0.29, C:0.30, G:0.25, T:0.16
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:162881 original size:19 final size:19
Alignment explanation
Indices: 162859--162955 Score: 108
Period size: 19 Copynumber: 5.1 Consensus size: 19
162849 TCGGGTCGGG
*
162859 TCAGACCGGTCAAACCGGC
1 TCAGACCGGTCAAACCGGT
*
162878 TCAGACCGGTCAAACCGAT
1 TCAGACCGGTCAAACCGGT
*
162897 TCAGACCGGTTAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
162916 TC-GAACCGGTTGAAACCGG-
1 TCAG-ACCGG-TCAAACCGGT
*
162935 TCAAACCGGTCAGAACCGGT
1 TCAGACCGGTCA-AACCGGT
162955 T
1 T
162956 GAAAACCGGT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
18 3 0.05
19 54 0.82
20 9 0.14
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:162904 original size:10 final size:9
Alignment explanation
Indices: 162857--162954 Score: 63
Period size: 9 Copynumber: 10.3 Consensus size: 9
162847 GGTCGGGTCG
162857 GGTCAGACC
1 GGTCAGACC
*
162866 GGTCAAACC
1 GGTCAGACC
162875 GGCTCAGACC
1 GG-TCAGACC
*
162885 GGTCAAACC
1 GGTCAGACC
*
162894 GATTCAGACC
1 G-GTCAGACC
* *
162904 GGTTAAACC
1 GGTCAGACC
162913 GGTTC-GAACC
1 GG-TCAG-ACC
* *
162923 GGTTGAAACC
1 GG-TCAGACC
*
162933 GGTCAAACC
1 GGTCAGACC
162942 GGTCAGAACC
1 GGTCAG-ACC
162952 GGT
1 GGT
162955 TGAAAACCGG
Statistics
Matches: 69, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
9 35 0.51
10 34 0.49
ACGTcount: A:0.28, C:0.30, G:0.28, T:0.15
Consensus pattern (9 bp):
GGTCAGACC
Found at i:162933 original size:29 final size:31
Alignment explanation
Indices: 162901--162975 Score: 111
Period size: 29 Copynumber: 2.5 Consensus size: 31
162891 ACCGATTCAG
162901 ACCGGTTAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTTAAACCGGTTCAGAACCGGTTGAAA
*
162930 ACCGGTCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGGTTAAACCGGTTCAGAACCGGTTGAAA
*
162960 ACCGGTTAAATCGGTT
1 ACCGGTTAAACCGGTT
162976 TCCAGCAGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
28 2 0.05
29 23 0.57
30 14 0.35
31 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (31 bp):
ACCGGTTAAACCGGTTCAGAACCGGTTGAAA
Found at i:164608 original size:17 final size:17
Alignment explanation
Indices: 164588--164636 Score: 98
Period size: 17 Copynumber: 2.9 Consensus size: 17
164578 TCGGATCTCG
164588 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCAAC
164605 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCAAC
164622 GGTCGGGTCGGGTCA
1 GGTCGGGTCGGGTCA
164637 GACCGGTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.10, C:0.22, G:0.49, T:0.18
Consensus pattern (17 bp):
GGTCGGGTCGGGTCAAC
Done.