Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 286 of 320
Found at i:91790658 original size:72 final size:72
Alignment explanation
Indices: 91790508--91790702 Score: 241
Period size: 72 Copynumber: 2.7 Consensus size: 72
91790498 ATTAAAAGGT
* * * * * * * * *
91790508 TCAACCCACCTCTTGCAATATGAGTTGATTCTTGACAAACAGAAATTGAGATTACCTCATCGTGT
1 TCAACTCACCTCTAGCAATATGAGTTGA-TATTGAAAAACAAAAATTGAAAATACCTCAGCGTGC
*
91790573 CCTGAGGC
65 CCCGAGGC
* *
91790581 TCAACTCACCTCTCGCAATATGAGTTGAAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGC
1 TCAACTCACCTCTAGCAATATGAGTTGATATTGAAAA-ACAAAAATTGAAAATACCTCAGCGTGC
91790645 CCCGAGGC
65 CCCGAGGC
*
91790653 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT-AAAA
1 TCAACTCACCTCTAGCAATATGAGTTGATATTGAAAAACAAAAATTGAAAA
91790703 GGCTTAACTC
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
71 7 0.07
72 69 0.65
73 30 0.28
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (72 bp):
TCAACTCACCTCTAGCAATATGAGTTGATATTGAAAAACAAAAATTGAAAATACCTCAGCGTGCC
CCGAGGC
Found at i:91799101 original size:12 final size:12
Alignment explanation
Indices: 91799081--91799116 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
91799071 TGGGATATGC
*
91799081 AATGTATGAATG
1 AATGCATGAATG
91799093 AATGCATGAATG
1 AATGCATGAATG
91799105 AATGCATGAATG
1 AATGCATGAATG
91799117 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:91801575 original size:24 final size:25
Alignment explanation
Indices: 91801539--91801590 Score: 97
Period size: 24 Copynumber: 2.1 Consensus size: 25
91801529 TTTTTTTGGG
91801539 GGGTTAGGTTTTTCTCTTTTTTTTT
1 GGGTTAGGTTTTTCTCTTTTTTTTT
91801564 GGGTTAGGTTTTT-TCTTTTTTTTT
1 GGGTTAGGTTTTTCTCTTTTTTTTT
91801588 GGG
1 GGG
91801591 AGGGCTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.04, C:0.06, G:0.25, T:0.65
Consensus pattern (25 bp):
GGGTTAGGTTTTTCTCTTTTTTTTT
Found at i:91804207 original size:30 final size:30
Alignment explanation
Indices: 91804173--91804232 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
91804163 TCTTTCCTTC
91804173 TTTGTATATTATTGTCTGGTATGAACTTTA
1 TTTGTATATTATTGTCTGGTATGAACTTTA
91804203 TTTGTATATTATTGTCTGGTATGAACTTTA
1 TTTGTATATTATTGTCTGGTATGAACTTTA
91804233 GTCCAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.07, G:0.17, T:0.53
Consensus pattern (30 bp):
TTTGTATATTATTGTCTGGTATGAACTTTA
Found at i:91804305 original size:23 final size:23
Alignment explanation
Indices: 91804274--91804319 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
91804264 GTAATATTAA
*
91804274 TTGAGGTTTATCTGAAAAAGTGT
1 TTGACGTTTATCTGAAAAAGTGT
91804297 TTGACGTTTATCTGAAAAAGTGT
1 TTGACGTTTATCTGAAAAAGTGT
91804320 AAATAGACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.07, G:0.24, T:0.39
Consensus pattern (23 bp):
TTGACGTTTATCTGAAAAAGTGT
Found at i:91804473 original size:18 final size:18
Alignment explanation
Indices: 91804450--91804491 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
91804440 TAATTTAAAG
91804450 TATAAATTTATTAATATA
1 TATAAATTTATTAATATA
91804468 TATAAATTTATTAATATA
1 TATAAATTTATTAATATA
*
91804486 TGTAAA
1 TATAAA
91804492 AACAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
TATAAATTTATTAATATA
Found at i:91814248 original size:39 final size:37
Alignment explanation
Indices: 91814157--91814230 Score: 98
Period size: 35 Copynumber: 2.0 Consensus size: 37
91814147 ATATATTTAA
* *
91814157 TAAAAAATGTTATT-TTTTT-ATTTTTATTAAAATTT
1 TAAAAATTGATATTATTTTTAATTTTTATTAAAATTT
91814192 TAAAAATTGATATTATTTTTAATTTTTAATTATAAATTT
1 TAAAAATTGATATTATTTTTAATTTTT-ATTA-AAATTT
91814231 ATAATATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 12 0.36
36 5 0.15
37 6 0.18
38 4 0.12
39 6 0.18
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (37 bp):
TAAAAATTGATATTATTTTTAATTTTTATTAAAATTT
Found at i:91821211 original size:15 final size:15
Alignment explanation
Indices: 91821193--91821223 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
91821183 GAAAAAAGAG
91821193 AAAGTTTTGTGATTA
1 AAAGTTTTGTGATTA
91821208 AAAGTTTTGTGATTA
1 AAAGTTTTGTGATTA
91821223 A
1 A
91821224 TAGTAGGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.45
Consensus pattern (15 bp):
AAAGTTTTGTGATTA
Found at i:91822992 original size:20 final size:20
Alignment explanation
Indices: 91822967--91823007 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
91822957 GTGATCCCTA
91822967 TGAGAATGAATGATTAAATT
1 TGAGAATGAATGATTAAATT
91822987 TGAGAATGAATGATTAAATT
1 TGAGAATGAATGATTAAATT
91823007 T
1 T
91823008 AAGTGAACTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.37
Consensus pattern (20 bp):
TGAGAATGAATGATTAAATT
Found at i:91830542 original size:15 final size:15
Alignment explanation
Indices: 91830522--91830556 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
91830512 ATGTAGCAAC
91830522 ATTCATAATAAAGGA
1 ATTCATAATAAAGGA
91830537 ATTCATAATAAAGGA
1 ATTCATAATAAAGGA
91830552 ATTCA
1 ATTCA
91830557 GAGCCTAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (15 bp):
ATTCATAATAAAGGA
Found at i:91831287 original size:67 final size:67
Alignment explanation
Indices: 91831179--91831317 Score: 251
Period size: 67 Copynumber: 2.1 Consensus size: 67
91831169 AAATTAATTA
*
91831179 GTCATTATGAACAAGTTGAATGGGGAAATTAAATATATTTCTTCATAGGTTCTTTTACAGTAAAG
1 GTCATTATGAACAAGTTAAATGGGGAAATTAAATATATTTCTTCATAGGTTCTTTTACAGTAAAG
91831244 TT
66 TT
* *
91831246 GTCATTATGAATAAGTTAAATGTGGAAATTAAATATATTTCTTCATAGGTTCTTTTACAGTAAAG
1 GTCATTATGAACAAGTTAAATGGGGAAATTAAATATATTTCTTCATAGGTTCTTTTACAGTAAAG
91831311 TT
66 TT
91831313 GTCAT
1 GTCAT
91831318 GACTTTAACG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.40
Consensus pattern (67 bp):
GTCATTATGAACAAGTTAAATGGGGAAATTAAATATATTTCTTCATAGGTTCTTTTACAGTAAAG
TT
Found at i:91841870 original size:17 final size:17
Alignment explanation
Indices: 91841841--91841882 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
91841831 GTCCTCAAAT
91841841 GGTTTTCGCACACAAGGG
1 GGTTTT-GCACACAAGGG
*
91841859 GGTTTTGCACACTAGGG
1 GGTTTTGCACACAAGGG
*
91841876 GTTTTTG
1 GGTTTTG
91841883 TTAAGGGTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (17 bp):
GGTTTTGCACACAAGGG
Found at i:91843660 original size:20 final size:21
Alignment explanation
Indices: 91843615--91843661 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
91843605 AACGGTATAT
*
91843615 AAATATATACATATATGTATTA
1 AAATATATACATATA-GTAATA
91843637 AAATATATACATA-A-TAATA
1 AAATATATACATATAGTAATA
91843656 GAAATA
1 -AAATA
91843662 AAAATGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 4 0.17
20 5 0.22
21 1 0.04
22 13 0.57
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (21 bp):
AAATATATACATATAGTAATA
Found at i:91844184 original size:23 final size:23
Alignment explanation
Indices: 91844139--91844184 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
91844129 AATACTTCAT
* *
91844139 AAATATATACATATATATGTTAA
1 AAATAAATACATATATATATTAA
91844162 AAATAAATACATAT-TAATATTAA
1 AAATAAATACATATAT-ATATTAA
91844185 GATGATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATAAATACATATATATATTAA
Found at i:91844267 original size:12 final size:11
Alignment explanation
Indices: 91844250--91844341 Score: 67
Period size: 12 Copynumber: 7.7 Consensus size: 11
91844240 TATAAGTGTA
*
91844250 ATAATAGTAATT
1 ATAATAATAA-T
*
91844262 ATAATACTAAT
1 ATAATAATAAT
91844273 ACTAATAATAAAT
1 A-TAATAAT-AAT
*
91844286 ATAATAATAGT
1 ATAATAATAAT
*
91844297 AGTAAAAATAAAT
1 A-TAATAAT-AAT
*
91844310 ACAATAATAAT
1 ATAATAATAAT
*
91844321 CATAAAAATAAT
1 -ATAATAATAAT
91844333 ATAAATAAT
1 AT-AATAAT
91844342 GTGTACATGA
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
11 10 0.16
12 47 0.73
13 7 0.11
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:91844306 original size:24 final size:23
Alignment explanation
Indices: 91844261--91844341 Score: 83
Period size: 24 Copynumber: 3.4 Consensus size: 23
91844251 TAATAGTAAT
* *
91844261 TATAATACTAATACTAATAATAAA
1 TATAATAATAATA-TAAAAATAAA
*
91844285 TATAATAATAGTAGTAAAAATAAA
1 TATAATAATAATA-TAAAAATAAA
*
91844309 TACAATAATAATCATAAAAAT-AA
1 TATAATAATAAT-ATAAAAATAAA
91844332 TATAAATAAT
1 TAT-AATAAT
91844342 GTGTACATGA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
23 4 0.08
24 43 0.90
25 1 0.02
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (23 bp):
TATAATAATAATATAAAAATAAA
Found at i:91846164 original size:22 final size:22
Alignment explanation
Indices: 91846133--91846174 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
91846123 ATTTTAAAAA
*
91846133 TATTTTTAAA-ATGATTTTATGT
1 TATTTATAAATAT-ATTTTATGT
91846155 TATTTATAAATATATTTTAT
1 TATTTATAAATATATTTTAT
91846175 TTAAAAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (22 bp):
TATTTATAAATATATTTTATGT
Found at i:91854219 original size:14 final size:13
Alignment explanation
Indices: 91854200--91854241 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
91854190 TAATTGATAA
91854200 AATTTTCTTATCAT
1 AATTTTC-TATCAT
91854214 AATTTTC-AT-AT
1 AATTTTCTATCAT
91854225 AATATTTCTATCAT
1 AAT-TTTCTATCAT
91854239 AAT
1 AAT
91854242 ACGGACCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 5 0.20
12 6 0.24
13 2 0.08
14 12 0.48
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTTTCTATCAT
Found at i:91859327 original size:21 final size:21
Alignment explanation
Indices: 91859281--91859328 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
91859271 ATATAGGGCA
* * *
91859281 CACATGCCCGTGTGGCCAAGG
1 CACACGCCCGTGTGACCAAAG
91859302 CACACGCCCGTGTGACCATAAG
1 CACACGCCCGTGTGACCA-AAG
91859324 -ACACG
1 CACACG
91859329 TCTGTGCTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.25, C:0.35, G:0.27, T:0.12
Consensus pattern (21 bp):
CACACGCCCGTGTGACCAAAG
Found at i:91871254 original size:26 final size:26
Alignment explanation
Indices: 91871210--91871268 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
91871200 TCTAATTTGA
* *
91871210 TGTTTCTCTGTTACTTTTTCTGCTGT
1 TGTTTCTCTGTTACCTTTTCTGCTCT
* * * *
91871236 TGTTTCTTTGTTGCCTTTTTTGTTCT
1 TGTTTCTCTGTTACCTTTTCTGCTCT
91871262 TGTTTCT
1 TGTTTCT
91871269 GTTTCTTCCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.02, C:0.17, G:0.15, T:0.66
Consensus pattern (26 bp):
TGTTTCTCTGTTACCTTTTCTGCTCT
Found at i:91872785 original size:8 final size:8
Alignment explanation
Indices: 91872772--91872811 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
91872762 AACCCAAAAT
91872772 AAAAATAA
1 AAAAATAA
91872780 AAAAATAA
1 AAAAATAA
91872788 AAAAATGAA
1 AAAAAT-AA
*
91872797 GAAAAAGAA
1 -AAAAATAA
91872806 AAAAAT
1 AAAAAT
91872812 CTAACCTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 19 0.68
9 4 0.14
10 5 0.18
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.10
Consensus pattern (8 bp):
AAAAATAA
Found at i:91872847 original size:12 final size:12
Alignment explanation
Indices: 91872832--91872864 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
91872822 CAGCCTATGT
91872832 GCCGCCCTAAGC
1 GCCGCCCTAAGC
91872844 GCCGCCCTAAGC
1 GCCGCCCTAAGC
91872856 GCCGCCCTA
1 GCCGCCCTA
91872865 TTCCTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.15, C:0.52, G:0.24, T:0.09
Consensus pattern (12 bp):
GCCGCCCTAAGC
Found at i:91874011 original size:19 final size:19
Alignment explanation
Indices: 91873987--91874024 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
91873977 TTGAGATTGC
*
91873987 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
91874006 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
91874025 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:91882158 original size:64 final size:64
Alignment explanation
Indices: 91882077--91882260 Score: 176
Period size: 67 Copynumber: 2.8 Consensus size: 64
91882067 AGACATTATG
* *
91882077 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
91882141 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATATAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
91882206 AA
63 AA
** * * *
91882208 ACTG--GCTAGGTTACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
91882261 CGAACTATAT
Statistics
Matches: 95, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 15 0.16
67 30 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:91889834 original size:44 final size:44
Alignment explanation
Indices: 91889780--91890667 Score: 1269
Period size: 44 Copynumber: 20.4 Consensus size: 44
91889770 AATCGAAGAT
* * *
91889780 GATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
91889824 GATTTGGCGTCTCTATAGCGGCAGAGAGCAGATCAAAAATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
** *
91889868 GATTTGGCGTCTCTGTAGCAACGGAGAGCAGGTCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
91889912 GATTTGGCGTCTCTGTAGTGGCAGAGAGCAGGTCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
91889956 GCTTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
91889996 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* **
91890040 GATTTGGCATCTCTAG-AGCAACGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCT-GTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
91890084 GATTAGGCATCTCTATAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
91890128 GATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
91890172 GATTTGGCGTCTCTGTAGTGGCGAAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
91890216 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
91890260 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
91890304 GATTTGGCGTCTCTGTAGCGGCGGAGAAG-AGATAGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAG-AGCAGATCGAAGATAACA
* * *
91890348 GATTTGGCGTCTCTGTAACGGTGAAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
91890388 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
91890432 GATTTGGCGT-TCTGTAGCGGCGGAGAGTAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * **
91890475 GATTTGGCGTATCTGTAGCGGCGGAGAGCAAATCGAAGATAATT
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
91890519 GATTTGGCGTCTCTGTAGCAGCGAAGAGCTGATCGAAGATAAAA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
91890563 GATTTGGCGTCTCTGTAGCGGCGGAGAGTAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
91890607 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAAC-
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
91890650 GAATTTGGCGTCTCTGTA
1 G-ATTTGGCGTCTCTGTA
91890668 TTAGACGGGG
Statistics
Matches: 759, Mismatches: 71, Indels: 28
0.88 0.08 0.03
Matches are distributed among these distances:
40 73 0.10
43 45 0.06
44 638 0.84
45 3 0.00
ACGTcount: A:0.30, C:0.17, G:0.32, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:91890970 original size:7 final size:7
Alignment explanation
Indices: 91890958--91890983 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
91890948 AATACAACCC
91890958 AAAATAA
1 AAAATAA
91890965 AAAATAA
1 AAAATAA
91890972 AAAATAA
1 AAAATAA
91890979 AAAAT
1 AAAAT
91890984 GAAGAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:91892180 original size:19 final size:19
Alignment explanation
Indices: 91892156--91892193 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
91892146 TTGAGATTGC
*
91892156 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
91892175 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
91892194 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:91893391 original size:31 final size:31
Alignment explanation
Indices: 91893341--91893402 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
91893331 GTTACAATTT
*
91893341 GTCACTGAATTATTCAAAAGTTT-TCATTTAA
1 GTCACTGAACTATTCAAAAGTTTGT-ATTTAA
* *
91893372 GTCATTGAACTATTTAAAAGTTTGTATTTAA
1 GTCACTGAACTATTCAAAAGTTTGTATTTAA
91893403 ATTATTGGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (31 bp):
GTCACTGAACTATTCAAAAGTTTGTATTTAA
Found at i:91897816 original size:30 final size:30
Alignment explanation
Indices: 91897780--91897853 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
91897770 TTTTTGTAAT
* * *
91897780 ATTTATTTTACACTTTCATATTTATATATC
1 ATTTATTTTAAAATTTCATATATATATATC
* *
91897810 ATTTATTTTAAAATTTTATATATATATATA
1 ATTTATTTTAAAATTTCATATATATATATC
* *
91897840 ATCTGTTTTAAAAT
1 ATTTATTTTAAAAT
91897854 CGTTTTATAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.55
Consensus pattern (30 bp):
ATTTATTTTAAAATTTCATATATATATATC
Found at i:91898089 original size:19 final size:19
Alignment explanation
Indices: 91898061--91898099 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
91898051 CCATTGGATA
* *
91898061 TTTTAATTTGTTGATTTCG
1 TTTTAATTTGCTCATTTCG
*
91898080 TTTTATTTTGCTCATTTCG
1 TTTTAATTTGCTCATTTCG
91898099 T
1 T
91898100 ATTAGTGTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.64
Consensus pattern (19 bp):
TTTTAATTTGCTCATTTCG
Found at i:91901715 original size:19 final size:19
Alignment explanation
Indices: 91901688--91901731 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
91901678 TCTTTTTGCA
* *
91901688 TTCATTCATTTGCATTACAT
1 TTCA-TCATATGCATTAAAT
91901708 TTCATCATATGCATTAAAT
1 TTCATCATATGCATTAAAT
91901727 TTCAT
1 TTCAT
91901732 GAAAAGACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.48
Consensus pattern (19 bp):
TTCATCATATGCATTAAAT
Found at i:91909292 original size:48 final size:50
Alignment explanation
Indices: 91909198--91909297 Score: 123
Period size: 48 Copynumber: 2.0 Consensus size: 50
91909188 CTTATCTCAT
* ** *
91909198 TCATTTTGTATTTTTTGGCAGAATGTGCTATCTTGATTAATTTATTAGTTC
1 TCATTTTGTA-TTTTTAGCAGAATGTGCTATCTTGATTAACCTATTAATTC
* *
91909249 TCATTTTGTA-TTTTAGCA-AATTTGCTATCTTGATTACCCTATTAATTC
1 TCATTTTGTATTTTTAGCAGAATGTGCTATCTTGATTAACCTATTAATTC
91909297 T
1 T
91909298 GAGCTTTGCT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
48 26 0.60
49 7 0.16
51 10 0.23
ACGTcount: A:0.23, C:0.13, G:0.12, T:0.52
Consensus pattern (50 bp):
TCATTTTGTATTTTTAGCAGAATGTGCTATCTTGATTAACCTATTAATTC
Found at i:91909910 original size:44 final size:44
Alignment explanation
Indices: 91909841--91909966 Score: 162
Period size: 44 Copynumber: 2.9 Consensus size: 44
91909831 AATCACCATG
* *
91909841 GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTC
1 GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAATA
* * *
91909885 GCGAGTCTTATCTCCCTGAAATTGCAGTGGAGTAGACTGAAATA
1 GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAATA
* * * * *
91909929 GCAAATCTTATCTCTCTGGAGTTGCAGTAGAGCAGATT
1 GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT
91909967 AAGGCTATAA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 69 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (44 bp):
GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAATA
Found at i:91910122 original size:44 final size:45
Alignment explanation
Indices: 91910074--91910190 Score: 130
Period size: 44 Copynumber: 2.6 Consensus size: 45
91910064 GCCATGAACA
** *
91910074 TTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAAAT-ACAAGTC
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAAATAACAAATC
* * ** *
91910118 TTATCTCCCTGAAGTTGTAGTGGAATAGACTGAAGATAACAAATC
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAAATAACAAATC
* *
91910163 TTCT-TCTCTGAAGTTGCAGTAGAGCAGA
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGA
91910191 TTAAGGCTAT
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
44 49 0.84
45 9 0.16
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (45 bp):
TTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAAATAACAAATC
Found at i:91910248 original size:226 final size:226
Alignment explanation
Indices: 91909848--91910350 Score: 731
Period size: 226 Copynumber: 2.2 Consensus size: 226
91909838 ATGGCGAATC
* * * * *
91909848 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTG-AAGTCGCGAGTCTTATCTCCCTGAAATTGCAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAAAT-ACAAGTCTTATCTCCCTGAAATTGCAG
* * *
91909912 TGGAGTAGACTGAAATAGCAAATCTTATCTCTCTGGAGTTGCAGTAGAGCAGATTAAGGCTATAA
65 TGGAATAGACTGAAATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAGGCTATAA
* * * * *
91909977 GTCCTATACTTTTGAAGTTGCAGTGGGTCGGATCAAATCTATCATGGTAAATCTTATCTCTCTAA
130 GTCCTATACCTCTAAAGTTGCAGTGGGTCGGACCAAATCTATCATGGCAAATCTTATCTCTCTAA
*
91910042 AGTTGCAGTAGAACAGATTAAAGCCATGAACA
195 AGTTGCAGTAGAACAGATTAAAGCCATCAACA
* * *
91910074 TTATCTCCCTGAAGTTGCAGTAGAGCAGGTTGAAAATACAAGTCTTATCTCCCTGAAGTTGTAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAAATACAAGTCTTATCTCCCTGAAATTGCAGT
*
91910139 GGAATAGACTGAAGATAACAAATCTTCT-TCTCTGAAGTTGCAGTAGAGCAGATTAAGGCTATAA
66 GGAATAGACTGAA-ATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAGGCTATAA
* * *
91910203 GTCCTATACCTCTAAAGTTGCAGTGGGTCGGACCAAATTTATCATGGCAAATCTTATCTCTTTGA
130 GTCCTATACCTCTAAAGTTGCAGTGGGTCGGACCAAATCTATCATGGCAAATCTTATCTCTCTAA
* *
91910268 AGTTGCAGTAGAGCAGATTAAAGCCATCAACC
195 AGTTGCAGTAGAACAGATTAAAGCCATCAACA
* * *
91910300 TTATTTCCCTGAAGATGCAGTGGAGCAGGTTGAAATTACCAAGTCTTATCT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAAATA-CAAGTCTTATCT
91910351 TTTTGAAGTT
Statistics
Matches: 247, Mismatches: 27, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
226 220 0.89
227 27 0.11
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (226 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAAATACAAGTCTTATCTCCCTGAAATTGCAGT
GGAATAGACTGAAATAACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAGGCTATAAG
TCCTATACCTCTAAAGTTGCAGTGGGTCGGACCAAATCTATCATGGCAAATCTTATCTCTCTAAA
GTTGCAGTAGAACAGATTAAAGCCATCAACA
Found at i:91911086 original size:16 final size:16
Alignment explanation
Indices: 91911067--91911101 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
91911057 TCTATTTTCG
*
91911067 TTTTTTGCTTTTTTTA
1 TTTTTTACTTTTTTTA
*
91911083 TTTTTTATTTTTTTTA
1 TTTTTTACTTTTTTTA
91911099 TTT
1 TTT
91911102 CATAACTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.86
Consensus pattern (16 bp):
TTTTTTACTTTTTTTA
Found at i:91912349 original size:28 final size:29
Alignment explanation
Indices: 91912318--91912383 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 29
91912308 TTTAATAGTT
* *
91912318 TTTATAAT-ATTTATTTTACACTTTCATA
1 TTTATAATCATTTATTTTAAAATTTCATA
*
91912346 TTTATATATCATTTATTTTAAAATTTTATA
1 TTTATA-ATCATTTATTTTAAAATTTCATA
*
91912376 TATATAAT
1 TTTATAAT
91912384 TTGTTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 6 0.19
29 4 0.12
30 22 0.69
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (29 bp):
TTTATAATCATTTATTTTAAAATTTCATA
Found at i:91912377 original size:26 final size:25
Alignment explanation
Indices: 91912278--91912420 Score: 78
Period size: 26 Copynumber: 5.4 Consensus size: 25
91912268 ACTCTTTTCG
* *
91912278 TTTATTTTAAATTGTTTTACTAT-TA
1 TTTATTTTAAAATCTTTTA-TATATA
* *
91912303 TTTACTTTAATAGT-TTTTATA-ATA
1 TTTATTTTAA-AATCTTTTATATATA
**
91912327 TTTATTTTACACTTTCATATTTATATATCA
1 TTTATTTTA-A-AATC-T-TTTATATAT-A
91912357 TTTATTTTAAAAT-TTTATATATATAA
1 TTTATTTTAAAATCTTT-TATATAT-A
* * *
91912383 TTTGTTTTTAAATCGTTTTATACATA
1 TTTATTTTAAAATC-TTTTATATATA
91912409 GTTTATTTTAAA
1 -TTTATTTTAAA
91912421 TTTGTTATTT
Statistics
Matches: 92, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
24 12 0.13
25 18 0.20
26 23 0.25
27 16 0.17
28 10 0.11
29 3 0.03
30 10 0.11
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (25 bp):
TTTATTTTAAAATCTTTTATATATA
Found at i:91914943 original size:27 final size:27
Alignment explanation
Indices: 91914912--91914963 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
91914902 ATATTTTAAT
*
91914912 CAAATTCAATACCTATTT-TTTATTTCC
1 CAAATTAAATA-CTATTTATTTATTTCC
*
91914939 CAAATTAAATATTATTTATTTATTT
1 CAAATTAAATACTATTTATTTATTT
91914964 AATTAACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (27 bp):
CAAATTAAATACTATTTATTTATTTCC
Found at i:91914997 original size:16 final size:18
Alignment explanation
Indices: 91914971--91915003 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
91914961 TTTAATTAAC
91914971 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
91914988 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
91915004 CTTGTCACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:91918184 original size:27 final size:27
Alignment explanation
Indices: 91918154--91918220 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
91918144 TTGTCACATT
91918154 TCACTTTGCCATATTTGGCACACTTTA
1 TCACTTTGCCATATTTGGCACACTTTA
* *
91918181 TCACTTTGCCATGTTTGGCATACTTTA
1 TCACTTTGCCATATTTGGCACACTTTA
91918208 TCACTTTGCCATA
1 TCACTTTGCCATA
91918221 GTTCAACTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (27 bp):
TCACTTTGCCATATTTGGCACACTTTA
Found at i:91926853 original size:21 final size:21
Alignment explanation
Indices: 91926815--91926854 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
91926805 AATTCTCGAA
*
91926815 TTTAAGATTTTAAGTTTAAGG
1 TTTAAGATTTGAAGTTTAAGG
91926836 TTTAAGATATTGAA-TTTAA
1 TTTAAGAT-TTGAAGTTTAA
91926855 AGATATAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (21 bp):
TTTAAGATTTGAAGTTTAAGG
Found at i:91928625 original size:24 final size:24
Alignment explanation
Indices: 91928580--91928625 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
91928570 ATTTTTCGAT
* *
91928580 AAAAATACATAAGATTTCATAATA
1 AAAAATACATAAAAATTCATAATA
91928604 AAAAATACATATAAAATT-ATAA
1 AAAAATACATA-AAAATTCATAA
91928626 AATTTTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAAATACATAAAAATTCATAATA
Found at i:91930427 original size:35 final size:35
Alignment explanation
Indices: 91930388--91930463 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
91930378 ATGTTATGTA
* *
91930388 AACCCTAGGTACTATGCGAGCCTATATATAAAGCG
1 AACCCTAAGTACTATACGAGCCTATATATAAAGCG
* * *
91930423 AACCCTAAGTACTATATGAGCCTATATATTATGCG
1 AACCCTAAGTACTATACGAGCCTATATATAAAGCG
91930458 AACCCT
1 AACCCT
91930464 GTGTATGTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (35 bp):
AACCCTAAGTACTATACGAGCCTATATATAAAGCG
Found at i:91931312 original size:21 final size:21
Alignment explanation
Indices: 91931287--91931355 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
91931277 TATAATGATT
91931287 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
91931308 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
91931328 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
91931348 ATTATTAT
1 ATTATTAT
91931356 TAGCATTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:91931764 original size:12 final size:12
Alignment explanation
Indices: 91931747--91931777 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
91931737 GAAGCAGGGG
91931747 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
91931759 AGAAAAAGGGAA
1 AGAAAAAGAGAA
91931771 AGAAAAA
1 AGAAAAA
91931778 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:91938851 original size:21 final size:21
Alignment explanation
Indices: 91938826--91938894 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
91938816 TATAATGATT
91938826 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
91938847 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
91938867 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
91938887 ATTATTAT
1 ATTATTAT
91938895 TAGCATTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:91941553 original size:6 final size:6
Alignment explanation
Indices: 91941542--91941570 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
91941532 TGTTGTCTTT
91941542 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
91941571 TTTGCGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:91950260 original size:23 final size:23
Alignment explanation
Indices: 91950233--91950280 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
91950223 ATTTTTTGAG
91950233 ATAAAATATATTTAACATTAATT
1 ATAAAATATATTTAACATTAATT
91950256 ATAAAATATATTTAACATTAATT
1 ATAAAATATATTTAACATTAATT
91950279 AT
1 AT
91950281 CTTTTACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
ATAAAATATATTTAACATTAATT
Found at i:91950334 original size:35 final size:35
Alignment explanation
Indices: 91950295--91950362 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
91950285 TACTTTCAAT
*
91950295 AATCATAA-ATCTATTAAAATTATAATT-TAAATTTG
1 AATCACAATATCT-TTAAAATT-TAATTATAAATTTG
91950330 AATCACAATTATCTTTAAAATTTAATTATAAAT
1 AATCACAA-TATCTTTAAAATTTAATTATAAAT
91950363 ACTTCCATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
35 12 0.41
36 13 0.45
37 4 0.14
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (35 bp):
AATCACAATATCTTTAAAATTTAATTATAAATTTG
Found at i:91950603 original size:28 final size:28
Alignment explanation
Indices: 91950552--91950623 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
91950542 ATGGCTTTTT
* * *
91950552 TATAAAAATAATTTAAAATTTTTAATTAAT
1 TATAAAAATAACTT--ATTTTTTAATTAAA
* * *
91950582 TATCAAAATGACTTATTTTTTATTTAAA
1 TATAAAAATAACTTATTTTTTAATTAAA
91950610 TATAAAAATAACTT
1 TATAAAAATAACTT
91950624 GAAATTTACA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
28 23 0.68
30 11 0.32
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (28 bp):
TATAAAAATAACTTATTTTTTAATTAAA
Found at i:91950876 original size:10 final size:10
Alignment explanation
Indices: 91950861--91950885 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
91950851 CACGTGTTAC
91950861 TTTTTTTATT
1 TTTTTTTATT
91950871 TTTTTTTATT
1 TTTTTTTATT
91950881 TTTTT
1 TTTTT
91950886 CTTTCGTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:91950932 original size:14 final size:14
Alignment explanation
Indices: 91950905--91950935 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
91950895 TTTTTTTTAC
*
91950905 TTTATTTTATTTAT
1 TTTATTTTACTTAT
91950919 TTTATTTTACTTAT
1 TTTATTTTACTTAT
91950933 TTT
1 TTT
91950936 TTATTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTACTTAT
Found at i:91950936 original size:35 final size:34
Alignment explanation
Indices: 91950861--91950938 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 34
91950851 CACGTGTTAC
* * * *
91950861 TTTTTTTATTTTTTTTTATTTTTTTCTTTCGTCCT
1 TTTTTTTACTTTATTTTATTTTTTTATTTC-TACT
91950896 TTTTTTTACTTTATTTTATTTATTTTATTT-TACT
1 TTTTTTTACTTTATTTTATTT-TTTTATTTCTACT
91950930 TATTTTTTA
1 T-TTTTTTA
91950939 TTATTAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
34 4 0.11
35 26 0.70
36 7 0.19
ACGTcount: A:0.13, C:0.08, G:0.01, T:0.78
Consensus pattern (34 bp):
TTTTTTTACTTTATTTTATTTTTTTATTTCTACT
Found at i:91951034 original size:13 final size:15
Alignment explanation
Indices: 91951004--91951035 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
91950994 TTTTTTAAAA
91951004 TTTAAATATATATTT
1 TTTAAATATATATTT
91951019 TTTAAAT-TAT-TTT
1 TTTAAATATATATTT
91951032 TTTA
1 TTTA
91951036 GATTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 3 0.18
15 7 0.41
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTAAATATATATTT
Found at i:91951060 original size:34 final size:37
Alignment explanation
Indices: 91950975--91951097 Score: 101
Period size: 35 Copynumber: 3.2 Consensus size: 37
91950965 TATATTTGAA
* *
91950975 ATATTTTATAATATATATATTTTTTAAAATTTAAATAT
1 ATATTTTTTAAAAT-TATATTTTTTAAAATTTAAATAT
* *
91951013 ATATTTTTT-AAATTAT-TTTTTTAGATTTTAAA-AT
1 ATATTTTTTAAAATTATATTTTTTAAAATTTAAATAT
*
91951047 -TATTTTTTAAAATTTTGAATATTATTTTTTAAATGTTAAATAT
1 ATATTTTTTAAAA--TT--ATA-T-TTTTTAAAAT-TTAAATAT
91951090 ATATTTTT
1 ATATTTTT
91951098 AATAGTATAA
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
33 8 0.12
34 5 0.07
35 14 0.21
36 5 0.07
37 3 0.04
38 10 0.15
40 1 0.01
41 7 0.10
42 5 0.07
43 2 0.03
44 7 0.10
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.59
Consensus pattern (37 bp):
ATATTTTTTAAAATTATATTTTTTAAAATTTAAATAT
Found at i:91951096 original size:55 final size:55
Alignment explanation
Indices: 91950992--91951096 Score: 124
Period size: 55 Copynumber: 1.9 Consensus size: 55
91950982 ATAATATATA
*** *
91950992 TATTTTTTAAAATTTAAATATATATTTTTTAAATTATTTTTTTAGATTTTAAAAT
1 TATTTTTTAAAATTTAAATATATATTTTTTAAATTATAAATATAGATTTTAAAAT
* *
91951047 TATTTTTTAAAATTTTGAATAT-TATTTTTTAAATGT-TAAATATATATTTT
1 TATTTTTTAAAA-TTTAAATATATATTTTTTAAAT-TATAAATATAGATTTT
91951097 TAATAGTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
55 33 0.79
56 9 0.21
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (55 bp):
TATTTTTTAAAATTTAAATATATATTTTTTAAATTATAAATATAGATTTTAAAAT
Found at i:91951099 original size:21 final size:21
Alignment explanation
Indices: 91951024--91951097 Score: 87
Period size: 21 Copynumber: 3.4 Consensus size: 21
91951014 TATTTTTTAA
*
91951024 ATTATTTTTTTAGATTTTAAA-
1 ATTA-TTTTTTAAATTTTAAAT
*
91951045 ATTATTTTTTAAAATTTTGAAT
1 ATTATTTTTT-AAATTTTAAAT
*
91951067 ATTATTTTTTAAATGTTAAAT
1 ATTATTTTTTAAATTTTAAAT
91951088 ATATATTTTT
1 AT-TATTTTT
91951098 AATAGTATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
20 6 0.13
21 23 0.50
22 17 0.37
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
ATTATTTTTTAAATTTTAAAT
Found at i:91951397 original size:16 final size:16
Alignment explanation
Indices: 91951372--91951420 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
91951362 AATATAAAAC
*
91951372 AAATTAAAAATATTTA
1 AAATTTAAAATATTTA
91951388 AAATTTAAAATA--T-
1 AAATTTAAAATATTTA
*
91951401 ACATTTAAAATATTATA
1 AAATTTAAAATATT-TA
91951418 AAA
1 AAA
91951421 CTAATAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
13 11 0.42
14 1 0.04
16 12 0.46
17 2 0.08
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATTTAAAATATTTA
Found at i:91951496 original size:23 final size:21
Alignment explanation
Indices: 91951462--91951512 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
91951452 AAATATTTAA
*
91951462 ATAT-TTTATATTATTAAAAAT
1 ATATATTTATATT-TCAAAAAT
91951483 ATATATTTAGTATTTCAAAAAT
1 ATATATTTA-TATTTCAAAAAT
91951505 A-ATATTTA
1 ATATATTTA
91951513 AAATTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 11 0.41
22 12 0.44
23 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
ATATATTTATATTTCAAAAAT
Found at i:91951518 original size:21 final size:22
Alignment explanation
Indices: 91951477--91951529 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
91951467 TTATATTATT
** *
91951477 AAAAATATATATTTAGTA-TTTC
1 AAAAATA-ATATTTAAAATTTTA
91951499 AAAAATAATATTTAAAATTTTA
1 AAAAATAATATTTAAAATTTTA
91951521 AAAAATAAT
1 AAAAATAAT
91951530 TTCAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AAAAATAATATTTAAAATTTTA
Found at i:91951574 original size:34 final size:34
Alignment explanation
Indices: 91951494--91951571 Score: 97
Period size: 34 Copynumber: 2.2 Consensus size: 34
91951484 TATATTTAGT
91951494 ATTTCAAAAATA-ATATTTAAAATTTTAAAAAATA
1 ATTT-AAAAATATATATTTAAAATTTTAAAAAATA
*
91951528 ATTTCAAAAATATATATTTAAAA-TTTAAAATATA
1 ATTT-AAAAATATATATTTAAAATTTTAAAAAATA
91951562 TATTATAAAA
1 -ATT-TAAAA
91951572 TATTTCAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
34 22 0.55
35 17 0.43
36 1 0.03
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.40
Consensus pattern (34 bp):
ATTTAAAAATATATATTTAAAATTTTAAAAAATA
Found at i:91951584 original size:23 final size:20
Alignment explanation
Indices: 91951381--91951572 Score: 75
Period size: 20 Copynumber: 9.6 Consensus size: 20
91951371 CAAATTAAAA
91951381 ATATTTAAAATTTAAAATAT
1 ATATTTAAAATTTAAAATAT
*
91951401 ACATTTAAAATATTATAAA-ACT
1 ATATTTAAAAT-TTA-AAATA-T
* *
91951423 A-A-TAATAAATTTGAAATGTCAT
1 ATATTTA-AAATTT-AAA-AT-AT
* *
91951445 ATCTTTAAAATATTTAAATAT
1 ATATTTAAAAT-TTAAAATAT
** *
91951466 -T-TTATATTATTAAAAATAT
1 ATATT-TAAAATTTAAAATAT
**
91951485 ATATTTAGTATTTCAAAA-AT
1 ATATTTAAAATTT-AAAATAT
*
91951505 AATATTTAAAATTTTAAAAAAT
1 -ATATTTAAAA-TTTAAAATAT
*
91951527 A-ATTT--CA---AAAATAT
1 ATATTTAAAATTTAAAATAT
91951541 ATATTTAAAATTTAAAATAT
1 ATATTTAAAATTTAAAATAT
91951561 ATATTATAAAAT
1 ATATT-TAAAAT
91951573 ATTTCAAATA
Statistics
Matches: 129, Mismatches: 18, Indels: 49
0.66 0.09 0.25
Matches are distributed among these distances:
14 7 0.05
15 4 0.03
17 1 0.01
18 1 0.01
19 9 0.07
20 46 0.36
21 37 0.29
22 13 0.10
23 7 0.05
24 4 0.03
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.43
Consensus pattern (20 bp):
ATATTTAAAATTTAAAATAT
Found at i:91951639 original size:18 final size:19
Alignment explanation
Indices: 91951616--91951655 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
91951606 TAATAATAAA
*
91951616 AAATAAGTAAAATAAA-AT
1 AAATAAATAAAATAAAGAT
91951634 AAATAAATAAAATAAAGAT
1 AAATAAATAAAATAAAGAT
91951653 AAA
1 AAA
91951656 AACAAAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (19 bp):
AAATAAATAAAATAAAGAT
Found at i:91951643 original size:13 final size:13
Alignment explanation
Indices: 91951600--91951649 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 13
91951590 TAATTTTTTT
*
91951600 TAAAATTAATAATA
1 TAAAATAAATAA-A
* *
91951614 AAAAATAAGTAAAA
1 TAAAATAAAT-AAA
91951628 TAAAATAAATAAA
1 TAAAATAAATAAA
91951641 TAAAATAAA
1 TAAAATAAA
91951650 GATAAAAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 12 0.40
14 16 0.53
15 2 0.07
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (13 bp):
TAAAATAAATAAA
Found at i:91952322 original size:10 final size:11
Alignment explanation
Indices: 91952305--91952329 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
91952295 ATATATACAT
91952305 ATATTTTTAAA
1 ATATTTTTAAA
91952316 ATATTTTTAAA
1 ATATTTTTAAA
91952327 ATA
1 ATA
91952330 AAATATTCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATATTTTTAAA
Found at i:91954152 original size:19 final size:20
Alignment explanation
Indices: 91954120--91954163 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
91954110 AAAGTAAAGT
*
91954120 TTTG-TTTACAAATATATTA
1 TTTGATTTACAAATAAATTA
*
91954139 TTTGATTTAC-AATAAATTT
1 TTTGATTTACAAATAAATTA
91954158 TTTGAT
1 TTTGAT
91954164 ATTATAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTGATTTACAAATAAATTA
Found at i:91956223 original size:21 final size:21
Alignment explanation
Indices: 91956198--91956239 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
91956188 AATTAATAAT
*
91956198 AATTTTATTTAAATATAATTA
1 AATTTTAATTAAATATAATTA
* *
91956219 AATTTTAATTAATTTTAATTA
1 AATTTTAATTAAATATAATTA
91956240 TTCATTTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTTTAATTAAATATAATTA
Found at i:91956232 original size:10 final size:10
Alignment explanation
Indices: 91956197--91956239 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
91956187 TAATTAATAA
*
91956197 TAATTTTATT
1 TAATTTTAAT
* *
91956207 TAAATATAAT
1 TAATTTTAAT
91956217 TAAATTTTAAT
1 T-AATTTTAAT
91956228 TAATTTTAAT
1 TAATTTTAAT
91956238 TA
1 TA
91956240 TTCATTTCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 19 0.70
11 8 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TAATTTTAAT
Found at i:91956861 original size:30 final size:29
Alignment explanation
Indices: 91956801--91956883 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 29
91956791 GGTCCACCCC
* *
91956801 ATATTATTTTTTTAATTTTTTTAAATATTT
1 ATATTATTTTTTTAA-TTATTTAAAAATTT
91956831 ATATTATATTTTTTAA-TATTTAATAAATTT
1 ATATTAT-TTTTTTAATTATTTAA-AAATTT
* * *
91956861 ATA-CATTCTTTTATTTATTTAAA
1 ATATTATTTTTTTAATTATTTAAA
91956884 TTTTTTCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
28 7 0.16
29 15 0.33
30 15 0.33
31 8 0.18
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (29 bp):
ATATTATTTTTTTAATTATTTAAAAATTT
Found at i:91959284 original size:84 final size:84
Alignment explanation
Indices: 91959164--91959502 Score: 563
Period size: 84 Copynumber: 4.0 Consensus size: 84
91959154 TTTAATATAA
* * * *
91959164 GAAAATTTATTTTAATTTCACAAATGTGATTAACTATGTGATATGGATTATAGTTTCATACAATC
1 GAAAAGTTATTTTAATTTCACAAATGTGATTAACTATGTGATAGGGATTACAATTTCATACAATC
* *
91959229 CATTTTCGTTAAATAATTT
66 CCTTCTCGTTAAATAATTT
* * *
91959248 AAAAAGTTATTTTAATTTCACAAATGTAATTAACTATGTGATAGGGATTATAATTTCATACAATC
1 GAAAAGTTATTTTAATTTCACAAATGTGATTAACTATGTGATAGGGATTACAATTTCATACAATC
*
91959313 TCTTCTCGTTAAATAATTT
66 CCTTCTCGTTAAATAATTT
*
91959332 GAAAAGTTATTGTAATTTCACAAATGTGATTAACTATGTGATA-GGAGTTACAATTTCATACAAT
1 GAAAAGTTATTTTAATTTCACAAATGTGATTAACTATGTGATAGGGA-TTACAATTTCATACAAT
91959396 CCCTTCTCGTTAAATAATTT
65 CCCTTCTCGTTAAATAATTT
91959416 GAAAAGTTATTTTAATTTCACAAATGTGATTAACTATGTGATAGGGATTACAATTTCATACAATC
1 GAAAAGTTATTTTAATTTCACAAATGTGATTAACTATGTGATAGGGATTACAATTTCATACAATC
91959481 CCTTCTCGTTAAATAATTT
66 CCTTCTCGTTAAATAATTT
91959500 GAA
1 GAA
91959503 TGTTTGTGTA
Statistics
Matches: 239, Mismatches: 14, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
83 3 0.01
84 233 0.97
85 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (84 bp):
GAAAAGTTATTTTAATTTCACAAATGTGATTAACTATGTGATAGGGATTACAATTTCATACAATC
CCTTCTCGTTAAATAATTT
Found at i:91961621 original size:17 final size:17
Alignment explanation
Indices: 91961596--91961631 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
91961586 TATTCGGTGA
* *
91961596 TTTTGTTATTTTACGAT
1 TTTTATTATTTTAAGAT
91961613 TTTTATTATTTTAAGAT
1 TTTTATTATTTTAAGAT
91961630 TT
1 TT
91961632 CATCATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.67
Consensus pattern (17 bp):
TTTTATTATTTTAAGAT
Found at i:91962058 original size:41 final size:41
Alignment explanation
Indices: 91962013--91962155 Score: 173
Period size: 41 Copynumber: 3.5 Consensus size: 41
91962003 GTAATAATGA
* *
91962013 CGTTTTTGGTCCAACCGCCGCTAAAAATTGAGCAATAGTGG
1 CGTTTTTAGTCCAAACGCCGCTAAAAATTGAGCAATAGTGG
* ** * *
91962054 CGTTTTTAGTCCAAACGCTGCTAAAAGCTGAACAATAGTGA
1 CGTTTTTAGTCCAAACGCCGCTAAAAATTGAGCAATAGTGG
* * *
91962095 CGTTTTTAGTCCAAATGCAGC-AAAAAGTTGAGCTATAGTGG
1 CGTTTTTAGTCCAAACGCCGCTAAAAA-TTGAGCAATAGTGG
91962136 CGTTTTTA-TCCAAACGCCGC
1 CGTTTTTAGTCCAAACGCCGC
91962156 GAATATGTTT
Statistics
Matches: 85, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
40 14 0.16
41 71 0.84
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
CGTTTTTAGTCCAAACGCCGCTAAAAATTGAGCAATAGTGG
Found at i:91963504 original size:15 final size:15
Alignment explanation
Indices: 91963484--91963515 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
91963474 GACAATTTAC
91963484 ATACAATGAAAGAGA
1 ATACAATGAAAGAGA
91963499 ATACAATGAAAGAGA
1 ATACAATGAAAGAGA
91963514 AT
1 AT
91963516 TTTATTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.19, T:0.16
Consensus pattern (15 bp):
ATACAATGAAAGAGA
Found at i:91965843 original size:14 final size:14
Alignment explanation
Indices: 91965810--91965907 Score: 63
Period size: 14 Copynumber: 7.0 Consensus size: 14
91965800 ATATGTTTAT
*
91965810 CCCTAAACCCTAAA
1 CCCTAAACCATAAA
** *
91965824 ATCTAAACCTTAAA
1 CCCTAAACCATAAA
**
91965838 CCCTAAATAATAAA
1 CCCTAAACCATAAA
* * *
91965852 CTCTAAACCTTCAA
1 CCCTAAACCATAAA
* *
91965866 CCCTCAACCACAAA
1 CCCTAAACCATAAA
*
91965880 CCCTAAATCCA-AAG
1 CCCTAAA-CCATAAA
*
91965894 CCTTAAACCATAAA
1 CCCTAAACCATAAA
91965908 ACCTTAAACT
Statistics
Matches: 60, Mismatches: 22, Indels: 4
0.70 0.26 0.05
Matches are distributed among these distances:
13 3 0.05
14 54 0.90
15 3 0.05
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.19
Consensus pattern (14 bp):
CCCTAAACCATAAA
Found at i:91965844 original size:28 final size:28
Alignment explanation
Indices: 91965810--91965875 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
91965800 ATATGTTTAT
*
91965810 CCCTAAACCCTAAAATCTAAACCTTAAA
1 CCCTAAACCATAAAATCTAAACCTTAAA
** * *
91965838 CCCTAAATAATAAACTCTAAACCTTCAA
1 CCCTAAACCATAAAATCTAAACCTTAAA
*
91965866 CCCTCAACCA
1 CCCTAAACCA
91965876 CAAACCCTAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (28 bp):
CCCTAAACCATAAAATCTAAACCTTAAA
Found at i:91965851 original size:21 final size:21
Alignment explanation
Indices: 91965812--91965860 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
91965802 ATGTTTATCC
*
91965812 CTAAACCCTAAAATCTAAAC-
1 CTAAACCCTAAAATATAAACT
91965832 CTTAAACCCT-AAATAATAAACT
1 C-TAAACCCTAAAAT-ATAAACT
91965854 CTAAACC
1 CTAAACC
91965861 TTCAACCCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 5 0.20
21 19 0.76
22 1 0.04
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (21 bp):
CTAAACCCTAAAATATAAACT
Found at i:91965880 original size:28 final size:28
Alignment explanation
Indices: 91965825--91965886 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
91965815 AACCCTAAAA
* *
91965825 TCTAAACCTTAAACCCTAAATAATAAAC
1 TCTAAACCTTAAACCCTAAACAACAAAC
* * *
91965853 TCTAAACCTTCAACCCTCAACCACAAAC
1 TCTAAACCTTAAACCCTAAACAACAAAC
*
91965881 CCTAAA
1 TCTAAA
91965887 TCCAAAGCCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (28 bp):
TCTAAACCTTAAACCCTAAACAACAAAC
Found at i:91967391 original size:25 final size:25
Alignment explanation
Indices: 91967359--91967418 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
91967349 TAGATTGTTA
* *
91967359 TTTTTGGTTGGATTTGTATTTGCTG
1 TTTTTGGTTGAAGTTGTATTTGCTG
*
91967384 TTTTTGGTTGAAGTTGTATTTGTTG
1 TTTTTGGTTGAAGTTGTATTTGCTG
91967409 TTTTTGGTTG
1 TTTTTGGTTG
91967419 TTACAGGAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.08, C:0.02, G:0.28, T:0.62
Consensus pattern (25 bp):
TTTTTGGTTGAAGTTGTATTTGCTG
Found at i:91967599 original size:43 final size:42
Alignment explanation
Indices: 91967552--91967655 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
91967542 TAAAGCGCTG
* * * *
91967552 CTAAAAGTCACATTCTATAACGGCGTTTGTGGGAGAAGCGTCA
1 CTAAAGGTCATATTCTATAACGACATTTGT-GGAGAAGCGTCA
* * * *
91967595 CTAAAGGTCATATTCTTTAGCGACATTTGTGTAGAAGCGTCG
1 CTAAAGGTCATATTCTATAACGACATTTGTGGAGAAGCGTCA
*
91967637 CTAAAGGTCATGTTCTATA
1 CTAAAGGTCATATTCTATA
91967656 GTGGTGTTTT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 27 0.53
43 24 0.47
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (42 bp):
CTAAAGGTCATATTCTATAACGACATTTGTGGAGAAGCGTCA
Found at i:91971550 original size:5 final size:5
Alignment explanation
Indices: 91971542--91971566 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
91971532 TATGAAAAAT
91971542 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
91971567 TAAGTGATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:91971599 original size:21 final size:22
Alignment explanation
Indices: 91971560--91971600 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
91971550 AAAATAAAAT
91971560 AAAATAATAAGTGATAATAACG
1 AAAATAATAAGTGATAATAACG
*
91971582 AAAATAATAGGT-ATAATAA
1 AAAATAATAAGTGATAATAA
91971601 ATAATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.61, C:0.02, G:0.12, T:0.24
Consensus pattern (22 bp):
AAAATAATAAGTGATAATAACG
Found at i:91971609 original size:21 final size:22
Alignment explanation
Indices: 91971556--91971610 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
91971546 AAATAAAATA
91971556 AAATAAAATAATAAGTGATAAT
1 AAATAAAATAATAAGTGATAAT
** *
91971578 AACGAAAATAATAGGT-ATAAT
1 AAATAAAATAATAAGTGATAAT
*
91971599 AAATAATATAAT
1 AAATAAAATAAT
91971611 GATATATGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (22 bp):
AAATAAAATAATAAGTGATAAT
Found at i:91972475 original size:55 final size:55
Alignment explanation
Indices: 91972392--91972509 Score: 211
Period size: 55 Copynumber: 2.2 Consensus size: 55
91972382 TGAAATCAAG
* *
91972392 AAGAAACT-TCGGGGCAAATGTAGAAATATGAAAAAAATTTAATTGCGAAGATAA
1 AAGAAAATGTCGGGGCAAATGTAGAAATATGAAAAAAAATTAATTGCGAAGATAA
91972446 AAGAAAATGTCGGGGCAAATGTAGAAATATGAAAAAAAATTAATTGCGAAGATAA
1 AAGAAAATGTCGGGGCAAATGTAGAAATATGAAAAAAAATTAATTGCGAAGATAA
91972501 AAGAAAATG
1 AAGAAAATG
91972510 GAGGGACTCG
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
54 7 0.11
55 54 0.89
ACGTcount: A:0.53, C:0.06, G:0.21, T:0.20
Consensus pattern (55 bp):
AAGAAAATGTCGGGGCAAATGTAGAAATATGAAAAAAAATTAATTGCGAAGATAA
Found at i:91972931 original size:15 final size:14
Alignment explanation
Indices: 91972897--91972929 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
91972887 ATATGTATAT
91972897 AAAAAGAAAGAGAA
1 AAAAAGAAAGAGAA
91972911 AAAAAGAAAGAGAA
1 AAAAAGAAAGAGAA
91972925 AAAAA
1 AAAAA
91972930 AGGATTCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAGAGAA
Found at i:91975501 original size:38 final size:38
Alignment explanation
Indices: 91975381--91975506 Score: 103
Period size: 38 Copynumber: 3.2 Consensus size: 38
91975371 ACCACCGCAG
* * *
91975381 ATTTACAGTAACTGTCACTTGTTGT-AGGTGCACAATAT
1 ATTTACAGTTACTGCCACTTGTTGTGA-GTGCACAACAT
* * * * * *
91975419 ATTTGCAAATTAACTACCACTTGGTTCATGA-TCGAACCACAT
1 ATTTAC-AGTT-ACTGCCACTT-GTT-GTGAGT-GCACAACAT
91975461 ATTTACAGTTACTGCCACTTGTTGTGAGTGCACAACAT
1 ATTTACAGTTACTGCCACTTGTTGTGAGTGCACAACAT
91975499 ATTTACAG
1 ATTTACAG
91975507 ATTAAACAAA
Statistics
Matches: 66, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
38 23 0.35
39 6 0.09
40 17 0.26
41 7 0.11
42 12 0.18
43 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (38 bp):
ATTTACAGTTACTGCCACTTGTTGTGAGTGCACAACAT
Found at i:91975571 original size:86 final size:86
Alignment explanation
Indices: 91975430--91975640 Score: 343
Period size: 86 Copynumber: 2.5 Consensus size: 86
91975420 TTTGCAAATT
* *
91975430 AACTACCACTTGGTTCATGATCGAACCACA-TATTTACAGTTACTGCCACTTGTTGTGAGTGCAC
1 AACTACCACTTGGTTCATAATCGAACCACACTATTTACAGTTACTGCCACTTGTTGTGAGTACAC
91975494 AACATATTTACAGATTAAACA
66 AACATATTTACAGATTAAACA
* * *
91975515 AACTACCACTTGGTTCATTATCAAACCACACTATTTGCAGTTACTGCCACTTGTTGTGAGTACAC
1 AACTACCACTTGGTTCATAATCGAACCACACTATTTACAGTTACTGCCACTTGTTGTGAGTACAC
* *
91975580 AACATGTTTGCAGATTAAACA
66 AACATATTTACAGATTAAACA
*
91975601 AACTAACACTTGGTTCATAATCGAACCACACTATTTACAG
1 AACTACCACTTGGTTCATAATCGAACCACACTATTTACAG
91975641 ATTAAACTAT
Statistics
Matches: 115, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
85 28 0.24
86 87 0.76
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (86 bp):
AACTACCACTTGGTTCATAATCGAACCACACTATTTACAGTTACTGCCACTTGTTGTGAGTACAC
AACATATTTACAGATTAAACA
Found at i:91977091 original size:83 final size:83
Alignment explanation
Indices: 91976952--91977160 Score: 217
Period size: 90 Copynumber: 2.4 Consensus size: 83
91976942 GCCAAAGCTT
* * * *
91976952 AACTCACCTCTCGCAATATGAGTTGGTCTTTGTGAAACTTAAAAGCAAAT-TTTA-AAAATACCT
1 AACTCACCTCTCGCAATATGAGTTGAT-TTTG-AAAACTTAAAAGCAAATAATAACAAAATACCT
*
91977015 CGACATGTGACCTGAGGCTC
64 CGACATGTGACCCGAGGCTC
* *
91977035 AACTCACCTCTCGCAATATGAGTTGATTTTGAAAAGTATAAATTG-AAATAAATAAAAACTGAAA
1 AACTCACCTCTCGCAATATGAGTTGATTTTGAAAACT-TAAA-AGCAAAT-AAT---AAC--AAA
*
91977099 ATACCTCGTCATGTGACCCGAGGCTC
58 ATACCTCGACATGTGACCCGAGGCTC
*
91977125 AACTCACCTCTTGCAATATGAGTTGATTTTTGAAAA
1 AACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAA
91977161 ACAGAAATTA
Statistics
Matches: 106, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
81 4 0.04
82 12 0.11
83 27 0.25
84 1 0.01
87 1 0.01
90 52 0.49
91 9 0.08
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (83 bp):
AACTCACCTCTCGCAATATGAGTTGATTTTGAAAACTTAAAAGCAAATAATAACAAAATACCTCG
ACATGTGACCCGAGGCTC
Found at i:91977311 original size:139 final size:141
Alignment explanation
Indices: 91977031--91977299 Score: 375
Period size: 139 Copynumber: 1.9 Consensus size: 141
91977021 GTGACCTGAG
* * *
91977031 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAGTATAAATTGAAATAAATAAAAACTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAGCATAAACT--AATAAACAAAAACTG
*
91977096 AAAATACCTCGTCATGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAA
64 AAAATACCTCGTCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
91977161 ACAGAAATTAAAA
129 ACAGAAATTAAAA
* * *
91977174 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-CATGAACT-A-AAACAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAGCATAAACTAATAAACAAAAACTGA
* * * *
91977236 AAATTCCTCAG-CATGTGAGCCGAGGCTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAAA
65 AAATACCTC-GTCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
91977300 GTATAAATTA
Statistics
Matches: 113, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
139 67 0.59
140 2 0.02
143 35 0.31
144 9 0.08
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (141 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAGCATAAACTAATAAACAAAAACTGAA
AATACCTCGTCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
AGAAATTAAAA
Found at i:91977331 original size:86 final size:85
Alignment explanation
Indices: 91977174--91977468 Score: 346
Period size: 86 Copynumber: 3.4 Consensus size: 85
91977164 GAAATTAAAA
* * * *
91977174 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-CATGAACTAAAACAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTAT-AAATTAAACAGAAATTGGAA
*
91977238 ATTCCTCAGCATGTGAGCC-GAG
65 ATACCTCAGC-TGTGA-CCTGAG
* * *
91977260 GCTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAAAGTATAAATTAAACAGAATTTGGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTATAAATTAAACAGAAATTGGAAA
91977325 TACCTCAGCGTGTGACCTGAG
66 TACCTCAGC-TGTGACCTGAG
* *
91977346 GTTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGTAGAAATTGAGAAACAGAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAGTATAAATT---AAACAGAAATT
* *
91977411 -GAAATTACCTCAGC-GTGTCCTAAG
61 GGAAA-TACCTCAGCTGTGACCTGAG
* *
91977435 GCTTAACTCATCTCTCGCAATATGAGTTGATTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTT
91977469 CAAAAAGCAG
Statistics
Matches: 182, Mismatches: 19, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
85 2 0.01
86 98 0.54
87 6 0.03
88 18 0.10
89 35 0.19
90 4 0.02
91 19 0.10
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (85 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTATAAATTAAACAGAAATTGGAAA
TACCTCAGCTGTGACCTGAG
Found at i:91977368 original size:225 final size:222
Alignment explanation
Indices: 91976945--91977379 Score: 537
Period size: 225 Copynumber: 1.9 Consensus size: 222
91976935 CACGTGAGCC
* * *
91976945 AAAGCTTAACTCACCTCTCGCAATATGAGTTGGTCTTTGTGAAACTTAAAAGCAAATTTTAAAAA
1 AAAGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGTGAAACTTAAAAGCAAATATTAAAAA
91977010 TACCTCGACATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAGTATA
66 TACCTCGACATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAGTATA
* *
91977075 AATTGAAATAAATAAAAACTGAAAATACCTCGTCATGTGACCCGAGGCTCAACTCACCTCTTGCA
131 AATTGAAACAAAT----ACTGAAAATACCTCGTCATGTGACCCGAGGCTCAACTCACCTCTCGCA
91977140 ATATGAGTTGATTTTTGAAAAACAGAAATTA
192 ATATGAGTTGATTTTTGAAAAACAGAAATTA
91977171 AAAGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTT-TGAAAACATGAACTAAAA-CAGAA-A
1 AAAGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGTG-AAAC-T----TAAAAGCA-AATA
* * * *
91977232 TTGAAAATTCCTC-AGCATGTGAGCC-GAGGCTCAACTCACTTCTCGCGATATGAGTTGATTTTT
59 TTAAAAATACCTCGA-CATGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
* * * * *
91977295 GAAAAGTATAAATT-AAACAGAAT-TTGGAAATACCTCAG-CGTGTGACCTGAGGTTCAACTCAC
121 GAAAAGTATAAATTGAAACA-AATACTGAAAATACCTC-GTCATGTGACCCGAGGCTCAACTCAC
91977357 CTCTCGCAATATGAGTTGATTTT
184 CTCTCGCAATATGAGTTGATTTT
91977380 CTTGAAAAGT
Statistics
Matches: 183, Mismatches: 14, Indels: 25
0.82 0.06 0.11
Matches are distributed among these distances:
224 2 0.01
225 61 0.33
226 34 0.19
228 1 0.01
229 55 0.30
230 30 0.16
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (222 bp):
AAAGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGTGAAACTTAAAAGCAAATATTAAAAA
TACCTCGACATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAGTATA
AATTGAAACAAATACTGAAAATACCTCGTCATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTGAAAAACAGAAATTA
Found at i:92003064 original size:27 final size:27
Alignment explanation
Indices: 92003034--92003090 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
92003024 TATTACCTTA
92003034 TTTTATTTTTTAAAAAA-TATATAAATT
1 TTTTATTTTTTAAAAAATTA-ATAAATT
* **
92003061 TTTTTTTTTTTTGAAAATTAATAAATT
1 TTTTATTTTTTAAAAAATTAATAAATT
92003088 TTT
1 TTT
92003091 ATGCCCTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTTATTTTTTAAAAAATTAATAAATT
Found at i:92003209 original size:15 final size:16
Alignment explanation
Indices: 92003174--92003211 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
92003164 ATGCATAAAA
92003174 AAATTCAAATGCAACAT
1 AAATT-AAATGCAACAT
*
92003191 AAATTAAATG-AATAT
1 AAATTAAATGCAACAT
92003206 AAATTA
1 AAATTA
92003212 TACCAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 5 0.25
17 5 0.25
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (16 bp):
AAATTAAATGCAACAT
Found at i:92005813 original size:18 final size:17
Alignment explanation
Indices: 92005780--92005818 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
92005770 TTGTATAAAT
92005780 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
92005798 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
92005815 TGTG
1 TGTG
92005819 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:92006071 original size:23 final size:23
Alignment explanation
Indices: 92006044--92006141 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
92006034 AGTGTTATTG
92006044 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
92006067 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
92006090 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
92006112 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
92006135 ATCAGTG
1 ATCAGTG
92006142 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:92006110 original size:45 final size:45
Alignment explanation
Indices: 92006046--92006134 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
92006036 TGTTATTGAT
* *
92006046 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
92006091 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
92006135 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:92009701 original size:24 final size:25
Alignment explanation
Indices: 92009674--92009726 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
92009664 AAATCGAGTT
*
92009674 TCTTCTCCCAATTAAACTCT-ATTA
1 TCTTCTCACAATTAAACTCTCATTA
*
92009698 TCTTTTCACAATTAAACTCTCATTA
1 TCTTCTCACAATTAAACTCTCATTA
92009723 -CTTC
1 TCTTC
92009727 AGGGATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.43
Consensus pattern (25 bp):
TCTTCTCACAATTAAACTCTCATTA
Found at i:92009960 original size:34 final size:34
Alignment explanation
Indices: 92009922--92009992 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 34
92009912 TTTATACCCC
*
92009922 TTTTGAGAGAACTCTATGAAAGTTAGGGTTTTGT
1 TTTTGAGAGAACTCTATGAAAGTTAGGGCTTTGT
* **** *
92009956 TTTTGGGTTTGCTCTATGAGAGTTAGGGCTTTGT
1 TTTTGAGAGAACTCTATGAAAGTTAGGGCTTTGT
92009990 TTT
1 TTT
92009993 CAAGGTTTTG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.18, C:0.07, G:0.28, T:0.46
Consensus pattern (34 bp):
TTTTGAGAGAACTCTATGAAAGTTAGGGCTTTGT
Found at i:92011027 original size:34 final size:35
Alignment explanation
Indices: 92010971--92011038 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 35
92010961 TTTGGGAGAA
* * *
92010971 CTCTGTGAAAGTTAGGATTTTGTTTTCG-GGTTTG
1 CTCTATGAAAGTTAGGACTTTGTTATCGAGGTTTG
* *
92011005 CTCTATGAGAGTTAGGGCTTTGTTATCGAGGTTT
1 CTCTATGAAAGTTAGGACTTTGTTATCGAGGTTT
92011039 TGGGTTTGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 23 0.82
35 5 0.18
ACGTcount: A:0.16, C:0.10, G:0.29, T:0.44
Consensus pattern (35 bp):
CTCTATGAAAGTTAGGACTTTGTTATCGAGGTTTG
Found at i:92012357 original size:93 final size:94
Alignment explanation
Indices: 92012249--92012613 Score: 350
Period size: 93 Copynumber: 3.9 Consensus size: 94
92012239 ATTATGTGAG
* *
92012249 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCATTGAGACGAG-GCTAGCGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-TTGAGACGAGTGCTAGTGTAAGACATG
*
92012313 TTTGGGACATGCATCAGCCAC-ATTATGAA
65 TCTGGGACATGCATCAGCCACTATTATGAA
* * * * * *
92012342 AACCAGTGTAAGACCACGTCTGAGACATGGCATCGGCTTAGAGACGAGTACCAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCTT-GAGACGAGTGCTAGTGTAAGACATG
* * * * *
92012407 TCTGGGACATGCATCGGCCCCGATGATGAT
65 TCTGGGACATGCATCAGCCACTATTATGAA
* * *
92012437 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TAAGA-GTTGTGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGAGACG-AGTGCTAGTGTAAGACATG
* * *
92012498 TCTGGGACATGCATCA-ACACTTATATACGAG
65 TCTGGGACATGCATCAGCCAC-TAT-TATGAA
* * ** * *
92012529 AGCTAGTGTAAGACCATTTCTGGGACATGGCATCAGCCCCGATGACGA-TAGCCAGTATAAGACC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CTTGA-GACGAGT-GCTAGTGTAAGA-C
92012593 ATGTCTGGGACATGGCATCAG
62 ATGTCTGGGACAT-GCATCAG
92012614 TAACTTAACC
Statistics
Matches: 221, Mismatches: 35, Indels: 25
0.79 0.12 0.09
Matches are distributed among these distances:
90 3 0.01
91 36 0.16
92 18 0.08
93 61 0.28
94 49 0.22
95 19 0.09
96 2 0.01
97 12 0.05
98 15 0.07
99 6 0.03
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGAGACGAGTGCTAGTGTAAGACATGT
CTGGGACATGCATCAGCCACTATTATGAA
Found at i:92012416 original size:47 final size:47
Alignment explanation
Indices: 92012251--92012613 Score: 221
Period size: 47 Copynumber: 7.7 Consensus size: 47
92012241 TATGTGAGAG
* *
92012251 CCAGTGTAAGACCATGTCTAGGACATGGCATCAGCATT-GAGACGAG-G
1 CCAGTGTAAGACCATGTCTGGGACAT-GCATCAGC-TTAGAGACGAGTA
* * * * * * * **
92012298 CTAGCGTAAGA-CATGTTTGGGACATGCATCAGC-CACATTATGAAAA
1 CCAGTGTAAGACCATGTCTGGGACATGCATCAGCTTAGA-GACGAGTA
* * *
92012344 CCAGTGTAAGACCACGTCTGAGACATGGCATCGGCTTAGAGACGAGTA
1 CCAGTGTAAGACCATGTCTGGGACAT-GCATCAGCTTAGAGACGAGTA
* *** *
92012392 CCAGTGTAAGA-CATGTCTGGGACATGCATCGGCCCCGATGATGA-TA
1 CCAGTGTAAGACCATGTCTGGGACATGCATCAGCTTAGA-GACGAGTA
* * *
92012438 GCCAGTGTAAGA-CATGTCTGGGACATGCATCGGC-TA-AGA-GTTGTG
1 -CCAGTGTAAGACCATGTCTGGGACATGCATCAGCTTAGAGACG-AGTA
* * * *
92012483 CTAGTGTAAGA-CATGTCTGGGACATGCATCAACACTTATATACGAG-A
1 CCAGTGTAAGACCATGTCTGGGACATGCATC-A-GCTTAGAGACGAGTA
* * ***
92012530 GCTAGTGTAAGACCATTTCTGGGACATGGCATCAGCCCCGATGACGA-TA
1 -CCAGTGTAAGACCATGTCTGGGACAT-GCATCAGCTTAGA-GACGAGTA
*
92012579 GCCAGTATAAGACCATGTCTGGGACATGGCATCAG
1 -CCAGTGTAAGACCATGTCTGGGACAT-GCATCAG
92012614 TAACTTAACC
Statistics
Matches: 248, Mismatches: 48, Indels: 38
0.74 0.14 0.11
Matches are distributed among these distances:
43 1 0.00
44 32 0.13
45 13 0.05
46 34 0.14
47 71 0.29
48 38 0.15
49 54 0.22
50 5 0.02
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (47 bp):
CCAGTGTAAGACCATGTCTGGGACATGCATCAGCTTAGAGACGAGTA
Found at i:92012504 original size:44 final size:47
Alignment explanation
Indices: 92012303--92012611 Score: 227
Period size: 47 Copynumber: 6.5 Consensus size: 47
92012293 CGAGGCTAGC
* * * * * *
92012303 GTAAGACATGTTTGGGACATGCATCAGCC-ACATTATGAAAACCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCAAGATGATGATAGCCAGT
* * ** *
92012349 GTAAGACCACGTCTGAGACATGGCATCGGCTTAGA-GACGAGTA-CCAGT
1 GTAAGA-CATGTCTGGGACAT-GCATCGGCCAAGATGATGA-TAGCCAGT
**
92012397 GTAAGACATGTCTGGGACATGCATCGGCCCCGATGATGATAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCAAGATGATGATAGCCAGT
* * *
92012444 GTAAGACATGTCTGGGACATGCATCGGCTAAGA-GTTG-T-GCTAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCAAGATGATGATAGCCAGT
** * * * * *
92012488 GTAAGACATGTCTGGGACATGCATCAACACTTATAT-ACGAGAGCTAGT
1 GTAAGACATGTCTGGGACATGCATCGGC-C-AAGATGATGATAGCCAGT
* * ** *
92012536 GTAAGACCATTTCTGGGACATGGCATCAGCCCCGATGACGATAGCCAGT
1 GTAAGA-CATGTCTGGGACAT-GCATCGGCCAAGATGATGATAGCCAGT
*
92012585 ATAAGACCATGTCTGGGACATGGCATC
1 GTAAGA-CATGTCTGGGACAT-GCATC
92012612 AGTAACTTAA
Statistics
Matches: 212, Mismatches: 37, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
44 31 0.15
45 1 0.00
46 24 0.11
47 62 0.29
48 35 0.17
49 52 0.25
50 7 0.03
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (47 bp):
GTAAGACATGTCTGGGACATGCATCGGCCAAGATGATGATAGCCAGT
Found at i:92013471 original size:55 final size:56
Alignment explanation
Indices: 92013375--92013481 Score: 162
Period size: 55 Copynumber: 1.9 Consensus size: 56
92013365 CTTAAACTTT
*
92013375 TAAGTCAGTATTGTCCAAAGGGTAGGCCACACGGGCGTGTGCCATAGCCGTGTCTG
1 TAAGTCAGTATTGTCCAAAGGATAGGCCACACGGGCGTGTGCCATAGCCGTGTCTG
* * * *
92013431 TAAGTCAGTATTGTCC-ACGGATAGGCCATATGGGCGTGTGCCATGGCCGTG
1 TAAGTCAGTATTGTCCAAAGGATAGGCCACACGGGCGTGTGCCATAGCCGTG
92013482 CCCTAAAGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
55 30 0.65
56 16 0.35
ACGTcount: A:0.21, C:0.22, G:0.33, T:0.24
Consensus pattern (56 bp):
TAAGTCAGTATTGTCCAAAGGATAGGCCACACGGGCGTGTGCCATAGCCGTGTCTG
Found at i:92013491 original size:55 final size:56
Alignment explanation
Indices: 92013376--92013494 Score: 152
Period size: 55 Copynumber: 2.1 Consensus size: 56
92013366 TTAAACTTTT
* * *
92013376 AAGTCAGTATTGTCCAAAGGGTAGGCCACACGGGCGTGTGCCATAGCCGTGTCTGT
1 AAGTCAGTATTGTCCAAAGGATAGGCCACACGGGCGTGTGCCATAGCCGTGCCTGA
* * * *
92013432 AAGTCAGTATTGTCC-ACGGATAGGCCATATGGGCGTGTGCCATGGCCGTGCCCT-A
1 AAGTCAGTATTGTCCAAAGGATAGGCCACACGGGCGTGTGCCATAGCCGTG-CCTGA
92013487 AAGTCAGT
1 AAGTCAGT
92013495 GTTGCACACG
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
55 38 0.69
56 17 0.31
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.24
Consensus pattern (56 bp):
AAGTCAGTATTGTCCAAAGGATAGGCCACACGGGCGTGTGCCATAGCCGTGCCTGA
Found at i:92015703 original size:23 final size:21
Alignment explanation
Indices: 92015672--92015714 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
92015662 ATAAACGTAA
92015672 AACACAAATAATTTAATATAAAT
1 AACACAAATAA--TAATATAAAT
*
92015695 AACATAAATAATAATATAAA
1 AACACAAATAATAATATAAA
92015715 GTACAAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
23 10 0.53
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (21 bp):
AACACAAATAATAATATAAAT
Found at i:92015966 original size:17 final size:17
Alignment explanation
Indices: 92015955--92015995 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
92015945 CAAAAATATA
92015955 AATTA-AATAAAAACTT
1 AATTAGAATAAAAACTT
**
92015971 AATTAGAATAAAAACAA
1 AATTAGAATAAAAACTT
92015988 AATTAGAA
1 AATTAGAA
92015996 GAATAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (17 bp):
AATTAGAATAAAAACTT
Found at i:92018082 original size:56 final size:53
Alignment explanation
Indices: 92018012--92018150 Score: 179
Period size: 53 Copynumber: 2.6 Consensus size: 53
92018002 AAAAAAAAAA
* *
92018012 TTGGTGCTGACCTGTCAATGGCCGGCACCAGTATTAAGAAAAAATTTTAATTTTTT
1 TTGGTGCTGACCTGTCAATGGCCGGCACCAGTATTAA-AAAAAA--TCAAATTTTT
* * * *
92018068 TTGGTGCTGTCCTGTCCATGGCCGACACTAGTATTAAAAAAAATCAAATTTTT
1 TTGGTGCTGACCTGTCAATGGCCGGCACCAGTATTAAAAAAAATCAAATTTTT
* *
92018121 TTGGTGTTGGCCTGTCAATGGCCGGCACCA
1 TTGGTGCTGACCTGTCAATGGCCGGCACCA
92018151 CAATACAATT
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
53 33 0.46
55 6 0.08
56 33 0.46
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (53 bp):
TTGGTGCTGACCTGTCAATGGCCGGCACCAGTATTAAAAAAAATCAAATTTTT
Found at i:92022841 original size:54 final size:54
Alignment explanation
Indices: 92022773--92022983 Score: 242
Period size: 54 Copynumber: 3.9 Consensus size: 54
92022763 TCATCATTGA
* * * * *
92022773 GATCATCATGATCCAGCTGCTACTGCCCCGTTGGCGGGTCATCATGCACTAAGG
1 GATCATCATGATCCATCTGCTGCTGCCCCGTGGGCGGGTCATCACGCACCAAGG
* * *
92022827 GATCATCATAATCCATTTGCTGCTACCCCGTGGGCGGGTCATCACGCACCAAGG
1 GATCATCATGATCCATCTGCTGCTGCCCCGTGGGCGGGTCATCACGCACCAAGG
* * * **
92022881 GCTCATCATGATCCATCTACTGCTGCTCTATGGGCGGGTCATCACGCACCAAGG
1 GATCATCATGATCCATCTGCTGCTGCCCCGTGGGCGGGTCATCACGCACCAAGG
* * * * ** *
92022935 GTTCATCATGATCTATCTGTTGCTGCTCTATGGGCGGGTCATCAAGCAC
1 GATCATCATGATCCATCTGCTGCTGCCCCGTGGGCGGGTCATCACGCAC
92022984 ATCCATCTGT
Statistics
Matches: 136, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 136 1.00
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.26
Consensus pattern (54 bp):
GATCATCATGATCCATCTGCTGCTGCCCCGTGGGCGGGTCATCACGCACCAAGG
Found at i:92022993 original size:39 final size:39
Alignment explanation
Indices: 92022949--92023061 Score: 181
Period size: 39 Copynumber: 2.9 Consensus size: 39
92022939 ATCATGATCT
* *
92022949 ATCTGTTGCTGCTCTATGGGCGGGTCATCAAGCACATCC
1 ATCTGTTGCTGCCCTGTGGGCGGGTCATCAAGCACATCC
92022988 ATCTGTTGCTGCCCTGTGGGCGGGTCATCAAGCACATCC
1 ATCTGTTGCTGCCCTGTGGGCGGGTCATCAAGCACATCC
* * *
92023027 ATCTGCTGCTGCCCCGTGGGCGGGTAATCAAGCAC
1 ATCTGTTGCTGCCCTGTGGGCGGGTCATCAAGCAC
92023062 CAACTGATGA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.17, C:0.30, G:0.28, T:0.25
Consensus pattern (39 bp):
ATCTGTTGCTGCCCTGTGGGCGGGTCATCAAGCACATCC
Found at i:92025508 original size:129 final size:129
Alignment explanation
Indices: 92025281--92025540 Score: 475
Period size: 129 Copynumber: 2.0 Consensus size: 129
92025271 CTGAAGTATA
* *
92025281 ATATAATTATATGAGTGAATCTACTAATACCTACCTCATCCGGATAAAGTATGCATTATTAAAAT
1 ATATAATCATATGAGTGAATCTACTAATACATACCTCATCCGGATAAAGTATGCATTATTAAAAT
92025346 TAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATT
66 TAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATT
* * *
92025410 ATATAATCATATTAGTGAATCTACTAATACATACTTCATCCGGCTAAAGTATGCATTATTAAAAT
1 ATATAATCATATGAGTGAATCTACTAATACATACCTCATCCGGATAAAGTATGCATTATTAAAAT
92025475 TAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATT
66 TAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATT
92025539 AT
1 AT
92025541 TGTAATGAGA
Statistics
Matches: 126, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 126 1.00
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.35
Consensus pattern (129 bp):
ATATAATCATATGAGTGAATCTACTAATACATACCTCATCCGGATAAAGTATGCATTATTAAAAT
TAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATT
Found at i:92025763 original size:206 final size:206
Alignment explanation
Indices: 92025409--92025786 Score: 711
Period size: 206 Copynumber: 1.8 Consensus size: 206
92025399 AAATAACTAT
*
92025409 TATATAATCATATTAGTGAATCTACTAATACATACTTCATCCGGCTAAAGTATGCATTATTAAAA
1 TATATAATCATATTAGTGAATCTACTAATACATACTCCATCCGGCTAAAGTATGCATTATTAAAA
92025474 TTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATT
66 TTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATT
92025539 ATTGTAATGAGATACATGTTTTATTAGGTATAAGTATTTAAATTTTTGTTTTTGTAATGCGATAC
131 ATTGTAATGAGATACATGTTTTATTAGGTATAAGTATTTAAATTTTTGTTTTTGTAATGCGATAC
92025604 ATGCGTAAATA
196 ATGCGTAAATA
* * * *
92025615 TATATAATCATATTTGTGAATTTGCTAATACATACTCCATCCGGCTAAAGTATGCATTATTAAAG
1 TATATAATCATATTAGTGAATCTACTAATACATACTCCATCCGGCTAAAGTATGCATTATTAAAA
92025680 TTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATT
66 TTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATT
92025745 ATTGTAATGAGATACATGTTTTATTAGGTATAAGTATTTAAA
131 ATTGTAATGAGATACATGTTTTATTAGGTATAAGTATTTAAA
92025787 AACTCAAAGC
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
206 167 1.00
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (206 bp):
TATATAATCATATTAGTGAATCTACTAATACATACTCCATCCGGCTAAAGTATGCATTATTAAAA
TTAAATTAAAATATTAAATAAGAAATAAAATTATAAAACAATATGTTATTTGGAAAATAACTATT
ATTGTAATGAGATACATGTTTTATTAGGTATAAGTATTTAAATTTTTGTTTTTGTAATGCGATAC
ATGCGTAAATA
Found at i:92028341 original size:874 final size:873
Alignment explanation
Indices: 92026649--92028394 Score: 2981
Period size: 874 Copynumber: 2.0 Consensus size: 873
92026639 ATGCATCTTT
*
92026649 CCATTGTACTAAATAGCTGCTGGGTTTGGGTGGGAAACAGAAAAAAGTAGACTACTATTACAAGC
1 CCATTGCACTAAATAGCTGCTGGGTTTGGGTGGGAAACAGAAAAAAGTAGACTACTATTACAAGC
* ** *
92026714 TCATTCTTGATGTGTCAACAAGACTTCAACCCCAAAATGTATGTAAGAGAAAGGTGGACGAGTAT
66 TCATCCTTGATGTGTCAACAAGACTTCAACCCCAAAATACATGCAAGAGAAAGGTGGACGAGTAT
* * * *
92026779 TTACTGCATGAGCAACACCTACTTTCTAAGAAAAGGAGAGCACAAAAATAGAGCCCGAAAACAAG
131 TTACCGCATGAGCAACACCTACCTTCTAAGAAAAGGAGAGCACAAAAATAGAGCCCAAAAAAAAG
92026844 TAATAAGTTTGCCATTACTTATGATCTTTCCATTGCACTAACACCCTGTTTAGTTCAATTTAATG
196 TAATAAGTTTGCCATTACTTATGATCTTTCCATTGCACTAACACCCTGTTTAGTTCAATTTAATG
* *
92026909 GTTGAAGTTTGTCACAACTGTGTTTCATTGCAATGTGCTGATCTGTGGTGTTGTAGATTGTTGCC
261 GTTGAAGTTTGTCACAACTGTGTTTCATTGCAATGTGCTGATCTGTGGTGTTATAGATTGTTACC
* * * *
92026974 CTTAGAAGAGCCAAGAGAAGAAATATGGAAAGGCTTGTTTTGGCTTGTAGAGGAGAAGCTATAAA
326 CTTAAAAGAGCAAAGAGAAGAAATATAGAAAGGCTTGTTTTGGCTTGTAGAAGAGAAGCTATAAA
* *
92027039 TTCTGTTGATGATTAACCCCAGATTGTCTTGGCTGGGCGGGACTTGTCTATGAGCATGTCCTTGG
391 TTCTGTTGATGATTAACCCCAGATTGTCTTGGCTGGGCAGGACTTGTCTACGAGCATGTCCTTGG
92027104 GGAAGATAAGTATACATTTGTGGAAAATGTGAGGCATCCCCATTCATGTACAATTTTGATCAAAT
456 GGAAGATAAGTATACATTTGTGGAAAATGTGAGGCATCCCCATTCATGTACAATTTTGATCAAAT
* *
92027169 GTATATAGAACTGGTTGATATTCCATATAATTTATGTAAATTTAATATCAATATTGTTAGTGTTG
521 GTATATAGAACTGGTTGATATTCCATATAATTTATGTAAATTTAATATCAATATTGTCAGTGCTG
* *
92027234 CTTGTGCAATATTTTAATTGCTATTTATATAATACTAATGTTATTATCAATAACATAGGGCCTAA
586 CTTGTGCAACATTTTAATTGCTATTTATATAATACTAATGCTATTATCAATAACATAGGGCCTAA
*
92027299 TGACCACACAATTGCCCAAATTAAGGATACTGTTCATGATGGACTGCGGGCTTGTTGAAGTTGGC
651 TGACCACACAATTGCCCAAATTAAGGATACTGTTCATGATGGACTGCAGGCTTGTTGAAGTTGGC
*
92027364 CTGGATGCAGCACACCATGCAGCACAAGTCATGCAGATGAAGTGCATGCAACCTATATCAAGATC
716 CTGGATGCAGCACACCATGCAGCACAAGTCATGCAGATGAAGTGCATACAACCTATATCAAGATC
* * *
92027429 AAGCTGCTGTAATATACTCGGATGAAATACAGCAGCATACAACTGTACCGGATGAAGTACATTTC
781 AAGCTGCTGTAATATACCCGGATGAAATACAACAGCATACAACTGTACCGGATGAAATACATTTC
* *
92027494 TATTTTTGTAAGACCTGTATTTGATTTA
846 TATTTTTGTAAGAACAGTATTTGATTTA
* * *
92027522 CCATTGCACTAAATAGCTGCTGGGTTTGGGTGGGAAATAGGAAAAAGTAGACTACTGTTACAAGC
1 CCATTGCACTAAATAGCTGCTGGGTTTGGGTGGGAAACAGAAAAAAGTAGACTACTATTACAAGC
* *
92027587 TCATCCTTGATGTGTCAACAAGACTTCAACCCCAAAATACATGCAAGAGAAAGGTGGAGGAGTCT
66 TCATCCTTGATGTGTCAACAAGACTTCAACCCCAAAATACATGCAAGAGAAAGGTGGACGAGTAT
* *
92027652 TTACCGTATGAGCAACACCTACCTTCTAAGAAAAGGAGAGCACAAAAATAGAGCTCAAAAAAAAG
131 TTACCGCATGAGCAACACCTACCTTCTAAGAAAAGGAGAGCACAAAAATAGAGCCCAAAAAAAAG
* * *
92027717 TAATAAGTTTGTCATTACTTATGCATCTTTCTATTGCACT-ACACCCTGTTTGGTTCAATTTAAT
196 TAATAAGTTTGCCATTACTTATG-ATCTTTCCATTGCACTAACACCCTGTTTAGTTCAATTTAAT
*
92027781 GGTTGAAGTTTGTCACAACTGTGTTTCATTGCAATGTGTTGATCTGTGGTGTTATAGATTGTTAC
260 GGTTGAAGTTTGTCACAACTGTGTTTCATTGCAATGTGCTGATCTGTGGTGTTATAGATTGTTAC
* *
92027846 CCTTAAAAGAGCAAAGAGAAGAAATATAGAAAGGCTTGTTTTGGCTTGTGGAAGAGAAGCTGTAA
325 CCTTAAAAGAGCAAAGAGAAGAAATATAGAAAGGCTTGTTTTGGCTTGTAGAAGAGAAGCTATAA
92027911 ATTCTGTTGATGATTTAACCCCAGATTGTCTTGGCTGGGCAGGACTTGTCTACGAGCATGTCCTT
390 ATTCTGTTGATGA-TTAACCCCAGATTGTCTTGGCTGGGCAGGACTTGTCTACGAGCATGTCCTT
*
92027976 GGGGAAGATAAGTATACATTTGTGGAAAATGTGAGGCATCCCCATTCATGTATAATTTTGATCAA
454 GGGGAAGATAAGTATACATTTGTGGAAAATGTGAGGCATCCCCATTCATGTACAATTTTGATCAA
* *
92028041 ATGTATGTAGAACTGGTTGATGTTCCATATAATTTATGTAAATTTAATATCAATATTGTCAGTGC
519 ATGTATATAGAACTGGTTGATATTCCATATAATTTATGTAAATTTAATATCAATATTGTCAGTGC
* *
92028106 TGCTTGTGCAACATTTTAATTGCTATTTATTTAATACTAATGCTATTGTCAATAACATAGGGCCT
584 TGCTTGTGCAACATTTTAATTGCTATTTATATAATACTAATGCTATTATCAATAACATAGGGCCT
** *
92028171 AATGACCACACAATTGCCCAAATTAAGGATGTTGTTCGTGATGGACTGCAGGCTTGTTGAAGTTG
649 AATGACCACACAATTGCCCAAATTAAGGATACTGTTCATGATGGACTGCAGGCTTGTTGAAGTTG
* * *
92028236 GCCTGGATGCAGCACACCATGTAGCACAAGTCATGCGGATGAAGTGCATACAACTTATATCAAGA
714 GCCTGGATGCAGCACACCATGCAGCACAAGTCATGCAGATGAAGTGCATACAACCTATATCAAGA
*
92028301 TCAAGCTGCTGTAATATACCCGGATGAAATACAACAGCATACAACTGTTCCGGATGAAATACATT
779 TCAAGCTGCTGTAATATACCCGGATGAAATACAACAGCATACAACTGTACCGGATGAAATACATT
*
92028366 TCTTTTTTTGTAAGAACAGTATTTGATTT
844 TCTATTTTTGTAAGAACAGTATTTGATTT
92028395 GACAGCAACA
Statistics
Matches: 817, Mismatches: 54, Indels: 3
0.93 0.06 0.00
Matches are distributed among these distances:
873 358 0.44
874 459 0.56
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (873 bp):
CCATTGCACTAAATAGCTGCTGGGTTTGGGTGGGAAACAGAAAAAAGTAGACTACTATTACAAGC
TCATCCTTGATGTGTCAACAAGACTTCAACCCCAAAATACATGCAAGAGAAAGGTGGACGAGTAT
TTACCGCATGAGCAACACCTACCTTCTAAGAAAAGGAGAGCACAAAAATAGAGCCCAAAAAAAAG
TAATAAGTTTGCCATTACTTATGATCTTTCCATTGCACTAACACCCTGTTTAGTTCAATTTAATG
GTTGAAGTTTGTCACAACTGTGTTTCATTGCAATGTGCTGATCTGTGGTGTTATAGATTGTTACC
CTTAAAAGAGCAAAGAGAAGAAATATAGAAAGGCTTGTTTTGGCTTGTAGAAGAGAAGCTATAAA
TTCTGTTGATGATTAACCCCAGATTGTCTTGGCTGGGCAGGACTTGTCTACGAGCATGTCCTTGG
GGAAGATAAGTATACATTTGTGGAAAATGTGAGGCATCCCCATTCATGTACAATTTTGATCAAAT
GTATATAGAACTGGTTGATATTCCATATAATTTATGTAAATTTAATATCAATATTGTCAGTGCTG
CTTGTGCAACATTTTAATTGCTATTTATATAATACTAATGCTATTATCAATAACATAGGGCCTAA
TGACCACACAATTGCCCAAATTAAGGATACTGTTCATGATGGACTGCAGGCTTGTTGAAGTTGGC
CTGGATGCAGCACACCATGCAGCACAAGTCATGCAGATGAAGTGCATACAACCTATATCAAGATC
AAGCTGCTGTAATATACCCGGATGAAATACAACAGCATACAACTGTACCGGATGAAATACATTTC
TATTTTTGTAAGAACAGTATTTGATTTA
Found at i:92034828 original size:57 final size:54
Alignment explanation
Indices: 92034730--92034907 Score: 218
Period size: 53 Copynumber: 3.3 Consensus size: 54
92034720 AATTTTTTTA
* * * *
92034730 ACAGGCCAGCACC-AATTTTTTTTT-AAAACTCGTATTTTGGTGTCGACCATTA
1 ACAGGCCAGCACCAAATTTTTTTTTAAAAACTCGTATTATGGTGCCGGCCATTG
* * *
92034782 ACAAGCCAGCACCAAATTTTTTTTTTTTAAAAACTCGTATTATGGTGCCGGCTAGTG
1 ACAGGCCAGCACCAAA---TTTTTTTTTAAAAACTCGTATTATGGTGCCGGCCATTG
* * *
92034839 ACAGGCCAGCACC-AATTTTTTTTTAAAAACTCGTATTCTGGTACCGGTCATTG
1 ACAGGCCAGCACCAAATTTTTTTTTAAAAACTCGTATTATGGTGCCGGCCATTG
92034892 ACAGGCCAGCACCAAA
1 ACAGGCCAGCACCAAA
92034908 AAAATTTGAA
Statistics
Matches: 107, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
52 12 0.11
53 48 0.45
54 2 0.02
56 11 0.10
57 34 0.32
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (54 bp):
ACAGGCCAGCACCAAATTTTTTTTTAAAAACTCGTATTATGGTGCCGGCCATTG
Found at i:92036817 original size:46 final size:45
Alignment explanation
Indices: 92036764--92036939 Score: 230
Period size: 46 Copynumber: 3.8 Consensus size: 45
92036754 CCATATCATA
*
92036764 GCCGATGCATGTCCCAAACATGTCTTACACTGGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTC-AG
* * *
92036810 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTC-AG
*
92036856 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-ATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCA-G
92036904 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTC
92036940 ACACAAGTGA
Statistics
Matches: 116, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
46 61 0.53
47 30 0.26
48 24 0.21
49 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAG
Found at i:92036892 original size:94 final size:92
Alignment explanation
Indices: 92036764--92036939 Score: 259
Period size: 94 Copynumber: 1.9 Consensus size: 92
92036754 CCATATCATA
*
92036764 GCCGATGCATGTCCCAAACATGTCTTACACTGGCT-TACAT-CTCGA-GGCCGATGCATGTCCCA
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATAAT--ATGGCCGATGCATGTCCCA
92036826 GACATGTCTTACACTAGCTCTCGTCTCAAT
63 GACATGTCTTACACTAGCTCTCGTCTCAAT
*
92036856 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCATGTCCCAG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCATAATATGGCCGATGCATGTCCCAG
*
92036921 ACATGTCTTACACTGGCTC
64 ACATGTCTTACACTAGCTC
92036940 ACACAAGTGA
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
92 7 0.09
93 14 0.18
94 53 0.70
95 2 0.03
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (92 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATATGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCTCTCGTCTCAAT
Found at i:92038158 original size:13 final size:13
Alignment explanation
Indices: 92038140--92038164 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92038130 AACAATGTTC
92038140 TCTTATAAATTTA
1 TCTTATAAATTTA
92038153 TCTTATAAATTT
1 TCTTATAAATTT
92038165 TTAATTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
TCTTATAAATTTA
Found at i:92038172 original size:7 final size:7
Alignment explanation
Indices: 92038160--92038188 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
92038150 TTATCTTATA
92038160 AATTTTT
1 AATTTTT
92038167 AATTTTT
1 AATTTTT
92038174 AA-TTTT
1 AATTTTT
92038180 AATTTTT
1 AATTTTT
92038187 AA
1 AA
92038189 CAGCAGTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (7 bp):
AATTTTT
Found at i:92038179 original size:13 final size:13
Alignment explanation
Indices: 92038163--92038188 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
92038153 TCTTATAAAT
92038163 TTTTAATTTTTAA
1 TTTTAATTTTTAA
92038176 TTTTAATTTTTAA
1 TTTTAATTTTTAA
92038189 CAGCAGTTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAATTTTTAA
Found at i:92039204 original size:108 final size:108
Alignment explanation
Indices: 92039015--92039232 Score: 418
Period size: 108 Copynumber: 2.0 Consensus size: 108
92039005 CTATAAGTTG
92039015 TGATTCATAGAAGCATGTCACAATGAAACCAATGTACAAGAGGCAGAACAGTACCAAAGCAAACT
1 TGATTCATAGAAGCATGTCACAATGAAACCAATGTACAAGAGGCAGAACAGTACCAAAGCAAACT
92039080 GTTTTGAGCATAAATTGCAAGCAAAAACAGCTTTTAGTTAGCC
66 GTTTTGAGCATAAATTGCAAGCAAAAACAGCTTTTAGTTAGCC
92039123 TGATTCATAGAAGCATGTCACAATGAAACCAATGTACAAGAGGCAGAACAGTACCAAAGCAAACT
1 TGATTCATAGAAGCATGTCACAATGAAACCAATGTACAAGAGGCAGAACAGTACCAAAGCAAACT
* *
92039188 GTTTTGGGCATAAATTGCAAGCAAAACCAGCTTTTAGTTAGCC
66 GTTTTGAGCATAAATTGCAAGCAAAAACAGCTTTTAGTTAGCC
92039231 TG
1 TG
92039233 TAACAACACC
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 108 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.22
Consensus pattern (108 bp):
TGATTCATAGAAGCATGTCACAATGAAACCAATGTACAAGAGGCAGAACAGTACCAAAGCAAACT
GTTTTGAGCATAAATTGCAAGCAAAAACAGCTTTTAGTTAGCC
Found at i:92050224 original size:16 final size:16
Alignment explanation
Indices: 92050203--92050237 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
92050193 ACGCATTTCC
* *
92050203 ATTATTTTTATTATTA
1 ATTATTTGTATAATTA
92050219 ATTATTTGTATAATTA
1 ATTATTTGTATAATTA
92050235 ATT
1 ATT
92050238 CTCGCAGGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
ATTATTTGTATAATTA
Done.