Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 67 of 125
Found at i:20758530 original size:11 final size:11
Alignment explanation
Indices: 20758514--20758538 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
20758504 AAATAGAGGT
20758514 TTTTATTTTTC
1 TTTTATTTTTC
20758525 TTTTATTTTTC
1 TTTTATTTTTC
20758536 TTT
1 TTT
20758539 CCTTTTTGGG
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:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTTTC
Found at i:20759127 original size:99 final size:98
Alignment explanation
Indices: 20759003--20759210 Score: 262
Period size: 99 Copynumber: 2.1 Consensus size: 98
20758993 AAAATAGCTT
* * *
20759003 AATTTTGAA-AAATGTTTTGCTTTTTTTTAAACAATTTCGAAATAAAAGCTTT-GATTTTTTTAA
1 AATTTTTAACAAA-GTTTTGATTTTTTCT-AACAATTTCGAAATAAAAG-TTTAGA--TTTTTAA
*
20759066 GTAAAATAGTGA-TTTTCTTTAAAAAAGA-AAAGGTTTA
61 GCAAAATAGTGATTTTTCTTTAAAAAAGAGAAA-GTTTA
*
20759103 AATTTTTAACAAAGTTTTGATTTTTTCTAACTATTTCGAAATAAAAGTTTAGATTTTTAAGCAAA
1 AATTTTTAACAAAGTTTTGATTTTTTCTAACAATTTCGAAATAAAAGTTTAGATTTTTAAGCAAA
*
20759168 ATAGTGATTTTTTTTTTAAAAAAGAGAAAGTTTA
66 ATAGTGA-TTTTTCTTTAAAAAAGAGAAAGTTTA
*
20759202 GATTTTTAA
1 AATTTTTAA
20759211 AAAAATAAAA
Statistics
Matches: 96, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
97 18 0.19
98 3 0.03
99 48 0.50
100 24 0.25
101 3 0.03
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.45
Consensus pattern (98 bp):
AATTTTTAACAAAGTTTTGATTTTTTCTAACAATTTCGAAATAAAAGTTTAGATTTTTAAGCAAA
ATAGTGATTTTTCTTTAAAAAAGAGAAAGTTTA
Found at i:20759159 original size:51 final size:51
Alignment explanation
Indices: 20759093--20759482 Score: 166
Period size: 51 Copynumber: 7.7 Consensus size: 51
20759083 TTTAAAAAAG
* * *
20759093 AAAAGGTTTAAATTTTTAACAAAGTTTTGATTTTTTCTAACTATTTCGAAAT
1 AAAA-GTTTAGATTTTTAACAAAATATTGATTTTTTCTAACTATTTCGAAAT
* *** *
20759145 AAAAGTTTAGATTTTTAAGCAAAATAGTGATTTTTT-T---T-TTAAAAAAG
1 AAAAGTTTAGATTTTTAA-CAAAATATTGATTTTTTCTAACTATTTCGAAAT
* *** * ** * *
20759192 AGAAAGTTTAGATTTTTAAAAAAATAAAAATCTGTTTTTTAGTTATTT-TAAAGA
1 A-AAAGTTTAGATTTTTAACAAAATATTGAT-T-TTTTCTAACTATTTCGAAA-T
* * * *
20759246 AAAAATTTAAATTTTTAACAAACTTTTGATTTTTTCTAACTATTTCGAAAT
1 AAAAGTTTAGATTTTTAACAAAATATTGATTTTTTCTAACTATTTCGAAAT
* * * *
20759297 AAAAGTTTGGATTTTTAAGCAAAATAGTGATTTTCTT-TAA--A----AAAAG
1 AAAAGTTTAGATTTTTAA-CAAAATATTGATTTT-TTCTAACTATTTCGAAAT
* * *** ** * *
20759343 AGAATGTTTAGATTTTTTAAAAAAAATAAAAATCTGATTTT-TAGTTATTT-TAAAGA
1 A-AAAGTTTAGA-TTTTT-AACAAAATATTGAT-T--TTTTCTAACTATTTCGAAA-T
* * *
20759399 AAAAGTTTAAATTTTTAACAAAATTTTGA-TTTTT-TAACTATTTTGAAAT
1 AAAAGTTTAGATTTTTAACAAAATATTGATTTTTTCTAACTATTTCGAAAT
* *
20759448 AAAAGTTTAGATTTTTAACTAAAGTAATGATTTTT
1 AAAAGTTTAGATTTTTAAC-AAAATATTGATTTTT
20759483 GTTTAATCAA
Statistics
Matches: 250, Mismatches: 60, Indels: 57
0.68 0.16 0.16
Matches are distributed among these distances:
46 4 0.02
47 22 0.09
48 32 0.13
49 36 0.14
50 16 0.06
51 47 0.19
52 38 0.15
53 35 0.14
54 8 0.03
55 11 0.04
56 1 0.00
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (51 bp):
AAAAGTTTAGATTTTTAACAAAATATTGATTTTTTCTAACTATTTCGAAAT
Found at i:20759248 original size:152 final size:154
Alignment explanation
Indices: 20759089--20759488 Score: 632
Period size: 152 Copynumber: 2.6 Consensus size: 154
20759079 TTTCTTTAAA
* *
20759089 AAAGAAAAGGTTTAAATTTTTAACAAAGTTTTGATTTTTTCTAACTATTTCGAAATAAAAGTTTA
1 AAAGAAAAAGTTTAAATTTTTAACAAAATTTTGATTTTTTCTAACTATTTCGAAATAAAAGTTTA
* *
20759154 GATTTTTAAGCAAAATAGTGATTTTTTTTTTAAAAAAGAGAAAGTTTAGA-TTTTT-AAAAAAAT
66 GATTTTTAAGCAAAATAGTGATTTTTCTTTAAAAAAAGAGAAAGTTTAGATTTTTTAAAAAAAAT
*
20759217 AAAAATCTGTTTTTTAGTTATTTT
131 AAAAATCTGATTTTTAGTTATTTT
* * *
20759241 AAAGAAAAAATTTAAATTTTTAACAAACTTTTGATTTTTTCTAACTATTTCGAAATAAAAGTTTG
1 AAAGAAAAAGTTTAAATTTTTAACAAAATTTTGATTTTTTCTAACTATTTCGAAATAAAAGTTTA
*
20759306 GATTTTTAAGCAAAATAGTGA-TTTTCTTTAAAAAAAGAGAATGTTTAGATTTTTTAAAAAAAAT
66 GATTTTTAAGCAAAATAGTGATTTTTCTTTAAAAAAAGAGAAAGTTTAGATTTTTTAAAAAAAAT
20759370 AAAAATCTGATTTTTAGTTATTTT
131 AAAAATCTGATTTTTAGTTATTTT
*
20759394 AAAGAAAAAGTTTAAATTTTTAACAAAATTTTGA-TTTTT-TAACTATTTTGAAATAAAAGTTTA
1 AAAGAAAAAGTTTAAATTTTTAACAAAATTTTGATTTTTTCTAACTATTTCGAAATAAAAGTTTA
* * *
20759457 GATTTTTAA-CTAAAGTAATGATTTTTGTTTAA
66 GATTTTTAAGC-AAAATAGTGATTTTTCTTTAA
20759489 TCAAATGAAA
Statistics
Matches: 229, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
150 1 0.00
151 64 0.28
152 101 0.44
153 63 0.28
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (154 bp):
AAAGAAAAAGTTTAAATTTTTAACAAAATTTTGATTTTTTCTAACTATTTCGAAATAAAAGTTTA
GATTTTTAAGCAAAATAGTGATTTTTCTTTAAAAAAAGAGAAAGTTTAGATTTTTTAAAAAAAAT
AAAAATCTGATTTTTAGTTATTTT
Found at i:20759482 original size:49 final size:48
Alignment explanation
Indices: 20759377--20759482 Score: 115
Period size: 49 Copynumber: 2.2 Consensus size: 48
20759367 AATAAAAATC
** **
20759377 TGATTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAACAAAATTT
1 TGATTTTTAACTATTTTAAAGAAAAAGTTTAAATTTTTAACAAAATAA
* * *
20759425 TGATTTTTTAACTATTTTGAAA-TAAAAGTTTAGATTTTTAACTAAAGTAA
1 TGA-TTTTTAACTATTTT-AAAGAAAAAGTTTAAATTTTTAAC-AAAATAA
20759475 TGATTTTT
1 TGATTTTT
20759483 GTTTAATCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
48 3 0.06
49 35 0.73
50 10 0.21
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.49
Consensus pattern (48 bp):
TGATTTTTAACTATTTTAAAGAAAAAGTTTAAATTTTTAACAAAATAA
Found at i:20760095 original size:23 final size:23
Alignment explanation
Indices: 20760052--20760095 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
20760042 TTTCATGTTT
* **
20760052 ATTTATATTTATGTTTTTTTTAC
1 ATTTATATTTAGGTTAGTTTTAC
20760075 ATTTATATTTAGGTTAGTTTT
1 ATTTATATTTAGGTTAGTTTT
20760096 TAAGAGTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (23 bp):
ATTTATATTTAGGTTAGTTTTAC
Found at i:20760895 original size:243 final size:238
Alignment explanation
Indices: 20760472--20760947 Score: 774
Period size: 243 Copynumber: 2.0 Consensus size: 238
20760462 AAAATCATAA
* *
20760472 TAATGATAAAAGATCTAATAAGTTGTAAATGAATTTTAATATTTCTCTAAATTCATTAGTAACTT
1 TAATGATAAAAGATCGAATAAGTTGTAAATGAATTTTAATATTTCTCTAAATGCATTAGTAACTT
* *
20760537 TTAGGCTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAGATATTTTACTAGAATT
66 TTAGGCTTTTTTTAGAATTCTAAAATAAAATTAATTTTAAGAATTGAAGATATTTTACTAGAATT
20760602 ATTTAGGTATCCTTTAGGGTTCTTATTAGGAATAAAAATCTTTAATTTAAGTTTTAAATTAGATA
131 ATTTAGGTATCCTTTAGGGTTCTTATTAGGAATAAAAATCTTTAATTTAAGTTTTAAATTAGATA
20760667 AGTTTGATGAACACGTTTTAATCAAGTTACAAGTAAATCGAAT
196 AGTTTGATGAACACGTTTTAATCAAGTTACAAGTAAATCGAAT
* * *
20760710 TAATGATAAAAGATCGAATAAGTTTTAGATGAATTTTAATATTTCTCTTAATGCATTAGTAAATT
1 TAATGATAAAAGATCGAATAAGTTGTAAATGAATTTTAATATTTCTCTAAATGCATTAGT-AA--
* * *
20760775 TTTTTTTAGGTTTTTTTTATAATTCTAAAATAAAATTAATTTTAAGAATTGAA-AGTATTTTACT
63 --CTTTTAGGCTTTTTTTAGAATTCTAAAATAAAATTAATTTTAAGAATTGAAGA-TATTTTACT
*
20760839 AGAATTATTTAGGTATCCTTTAGGGTTCTTATTAGGAGTAAAAATCTTTAATTTAAGTTTTAAAT
125 AGAATTATTTAGGTATCCTTTAGGGTTCTTATTAGGAATAAAAATCTTTAATTTAAGTTTTAAAT
* *
20760904 TAGATAAGTTTGGTGAACACGTTTTAGTCAAGTTACAAGTAAAT
190 TAGATAAGTTTGATGAACACGTTTTAATCAAGTTACAAGTAAAT
20760948 TAGAGGCATT
Statistics
Matches: 219, Mismatches: 13, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
238 55 0.25
239 2 0.01
242 1 0.00
243 161 0.74
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (238 bp):
TAATGATAAAAGATCGAATAAGTTGTAAATGAATTTTAATATTTCTCTAAATGCATTAGTAACTT
TTAGGCTTTTTTTAGAATTCTAAAATAAAATTAATTTTAAGAATTGAAGATATTTTACTAGAATT
ATTTAGGTATCCTTTAGGGTTCTTATTAGGAATAAAAATCTTTAATTTAAGTTTTAAATTAGATA
AGTTTGATGAACACGTTTTAATCAAGTTACAAGTAAATCGAAT
Found at i:20763081 original size:22 final size:22
Alignment explanation
Indices: 20763039--20763081 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
20763029 GATACGATTT
* *
20763039 TTGTTTTTTTATTTTGTTTATC
1 TTGTTTTATTATTTTGATTATC
20763061 TTGTTTTATTATTATT-ATTAT
1 TTGTTTTATTATT-TTGATTAT
20763082 TATTTAGGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.74
Consensus pattern (22 bp):
TTGTTTTATTATTTTGATTATC
Found at i:20764589 original size:17 final size:17
Alignment explanation
Indices: 20764559--20764601 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
20764549 TTTTATTAGT
*
20764559 TTTTAATTATTTGTTTTA
1 TTTT-ATTACTTGTTTTA
20764577 TTTTATTACTTGTTTTA
1 TTTTATTACTTGTTTTA
20764594 TTTTATTA
1 TTTTATTA
20764602 ATTTTAATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (17 bp):
TTTTATTACTTGTTTTA
Found at i:20766898 original size:20 final size:20
Alignment explanation
Indices: 20766873--20766912 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
20766863 TGTGACTACA
*
20766873 AGGTAACTGTTAGATAAATT
1 AGGTAACTGGTAGATAAATT
20766893 AGGTAACTGGTAGATAAATT
1 AGGTAACTGGTAGATAAATT
20766913 GTCACCGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.33
Consensus pattern (20 bp):
AGGTAACTGGTAGATAAATT
Found at i:20768277 original size:2 final size:2
Alignment explanation
Indices: 20768270--20768313 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
20768260 ATTTATTGTC
20768270 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20768312 AT
1 AT
20768314 CTTTTTTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20768933 original size:17 final size:17
Alignment explanation
Indices: 20768911--20768952 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
20768901 ACTACAATGC
**
20768911 AAAATGCATTAACAAAT
1 AAAATGCAGAAACAAAT
*
20768928 AAAATGCAGAAACAAGT
1 AAAATGCAGAAACAAAT
20768945 AAAATGCA
1 AAAATGCA
20768953 ATGACAACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.17
Consensus pattern (17 bp):
AAAATGCAGAAACAAAT
Found at i:20768959 original size:17 final size:17
Alignment explanation
Indices: 20768911--20768959 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
20768901 ACTACAATGC
*
20768911 AAAATGCATTAACAAAT
1 AAAATGCAATAACAAAT
*
20768928 AAAATGCAGA-AACAAGT
1 AAAATGCA-ATAACAAAT
*
20768945 AAAATGCAATGACAA
1 AAAATGCAATAACAA
20768960 CTATATGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 26 0.96
ACGTcount: A:0.59, C:0.12, G:0.12, T:0.16
Consensus pattern (17 bp):
AAAATGCAATAACAAAT
Found at i:20783834 original size:16 final size:17
Alignment explanation
Indices: 20783797--20783835 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
20783787 ACTAACGATG
20783797 AAAATGCAACGACAACT
1 AAAATGCAACGACAACT
*
20783814 AAAATGCAATGACAA-T
1 AAAATGCAACGACAACT
20783830 AAAATG
1 AAAATG
20783836 AGATGCATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (17 bp):
AAAATGCAACGACAACT
Found at i:20797886 original size:20 final size:21
Alignment explanation
Indices: 20797849--20797902 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
20797839 TTATTCCTGC
*
20797849 ATAAAACTAAAAAGGAAACAA
1 ATAAAACTAAAAAGGAAAAAA
20797870 ATGAAAA-TAAAAA-GAAAAAA
1 AT-AAAACTAAAAAGGAAAAAA
*
20797890 ATAAAAGTAAAAA
1 ATAAAACTAAAAA
20797903 TTGCAATGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.13
20 14 0.47
21 8 0.27
22 4 0.13
ACGTcount: A:0.76, C:0.04, G:0.09, T:0.11
Consensus pattern (21 bp):
ATAAAACTAAAAAGGAAAAAA
Found at i:20802261 original size:18 final size:18
Alignment explanation
Indices: 20802240--20802279 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20802230 TTATATGAAT
**
20802240 GCATCTGATTTTGTGATC
1 GCATCTGATCATGTGATC
*
20802258 GCATCTGGTCATGTGATC
1 GCATCTGATCATGTGATC
20802276 GCAT
1 GCAT
20802280 ATTATTTGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (18 bp):
GCATCTGATCATGTGATC
Found at i:20811083 original size:21 final size:21
Alignment explanation
Indices: 20811059--20811100 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
20811049 CTTACTAAAA
20811059 TATTCATAACAA-ATAAATATT
1 TATT-ATAACAATATAAATATT
* *
20811080 TATTATTACAATATTAATATT
1 TATTATAACAATATAAATATT
20811101 AAATATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (21 bp):
TATTATAACAATATAAATATT
Found at i:20816228 original size:26 final size:27
Alignment explanation
Indices: 20816167--20816236 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 27
20816157 AATAAAATTG
20816167 AAATATTAAATAATTTATTAAAATGATA
1 AAATATT-AATAATTTATTAAAATGATA
** *
20816195 AATTATATTAATAATTTATT-TTATGATT
1 AA--ATATTAATAATTTATTAAAATGATA
*
20816223 AAATATAAATAATT
1 AAATATTAATAATT
20816237 AAAAATGTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 11 0.31
28 9 0.25
29 11 0.31
30 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (27 bp):
AAATATTAATAATTTATTAAAATGATA
Found at i:20829160 original size:15 final size:15
Alignment explanation
Indices: 20829136--20829177 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
20829126 TTGGAATCAA
20829136 AAGA-GAAGAAGATG
1 AAGATGAAGAAGATG
*
20829150 AAGATGAAGAAAATG
1 AAGATGAAGAAGATG
20829165 AAGATGAAGAAGA
1 AAGATGAAGAAGA
20829178 GAGGCATGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.60, C:0.00, G:0.31, T:0.10
Consensus pattern (15 bp):
AAGATGAAGAAGATG
Found at i:20829609 original size:34 final size:34
Alignment explanation
Indices: 20829545--20829610 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
20829535 TTTTTAAACC
* *
20829545 TTTTTATTTTTTAATTATTTATATATTACATATT
1 TTTTTATTTTTTAATAATATATATATTACATATT
20829579 TTTTTATATTTTTAATCAATATA-ATA-TACATA
1 TTTTTAT-TTTTTAAT-AATATATATATTACATA
20829611 ATATTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 13 0.46
35 11 0.39
36 4 0.14
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.61
Consensus pattern (34 bp):
TTTTTATTTTTTAATAATATATATATTACATATT
Found at i:20832036 original size:20 final size:21
Alignment explanation
Indices: 20832008--20832046 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
20831998 GGAAAAAACT
20832008 AAAACCTAAATTAA-AGAAAG
1 AAAACCTAAATTAATAGAAAG
* *
20832028 AAAATCTAAGTTAATAGAA
1 AAAACCTAAATTAATAGAA
20832047 TGGTAAGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.21
Consensus pattern (21 bp):
AAAACCTAAATTAATAGAAAG
Found at i:20835222 original size:27 final size:28
Alignment explanation
Indices: 20835192--20835250 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 28
20835182 AAAAAGTCTG
20835192 CCAATTAACAAATAGTGCGAT-AAATCA
1 CCAATTAACAAATAGTGCGATAAAATCA
* * *
20835219 CCAA-TATCATATAGTGCGATAAAATCG
1 CCAATTAACAAATAGTGCGATAAAATCA
20835246 CCAAT
1 CCAAT
20835251 CCCCTCGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (28 bp):
CCAATTAACAAATAGTGCGATAAAATCA
Found at i:20839238 original size:28 final size:27
Alignment explanation
Indices: 20839206--20839304 Score: 90
Period size: 28 Copynumber: 3.5 Consensus size: 27
20839196 TTGATCGAAA
20839206 GGAAGCCTTTGTGGTTGTTCTGATATGT
1 GGAAGCCTTTGTGGTTGTTCT-ATATGT
* *
20839234 GGAAGCCTTTTTGGTTGTTCTAGTATGC
1 GGAAGCCTTTGTGGTTGTTCTA-TATGT
* *** *
20839262 GGAAGCATTTTGTGGCCATTCTAATATAT
1 GGAAGC-CTTTGTGGTTGTTCT-ATATGT
*
20839291 GGAAACCTTTGTGG
1 GGAAGCCTTTGTGG
20839305 CTATTTCCGT
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
27 1 0.02
28 37 0.65
29 18 0.32
30 1 0.02
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.39
Consensus pattern (27 bp):
GGAAGCCTTTGTGGTTGTTCTATATGT
Found at i:20839515 original size:25 final size:25
Alignment explanation
Indices: 20839482--20839537 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
20839472 GAAAGTGCCT
* *
20839482 TTGTGGCAATACTATGATAAGGCCC
1 TTGTGGCAACACTATGATAAGGCCA
20839507 TTGTGGCAACACTATGATAAGGCCA
1 TTGTGGCAACACTATGATAAGGCCA
20839532 TTGTGG
1 TTGTGG
20839538 TGAATTCTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (25 bp):
TTGTGGCAACACTATGATAAGGCCA
Found at i:20841498 original size:35 final size:35
Alignment explanation
Indices: 20841459--20841574 Score: 187
Period size: 35 Copynumber: 3.3 Consensus size: 35
20841449 ATATATATAT
* *
20841459 ATATATATACAATAAAAATATAATACGTATTAGAA
1 ATATATATAGAATAAAAATATAATAAGTATTAGAA
*
20841494 ATATATATAAAGAATAAAAATATAATAAGTACTAGAA
1 ATATATAT--AGAATAAAAATATAATAAGTATTAGAA
20841531 ATATATATAGAATAAAAATATAATAAGTATTAGAA
1 ATATATATAGAATAAAAATATAATAAGTATTAGAA
20841566 ATATATATA
1 ATATATATA
20841575 TATATATGTG
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
35 43 0.57
37 32 0.43
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (35 bp):
ATATATATAGAATAAAAATATAATAAGTATTAGAA
Found at i:20841575 original size:37 final size:37
Alignment explanation
Indices: 20841457--20841576 Score: 190
Period size: 37 Copynumber: 3.3 Consensus size: 37
20841447 TAATATATAT
* *
20841457 ATATATATATACAATAAAAATATAATACGTATTAGAA
1 ATATATATATAGAATAAAAATATAATAAGTATTAGAA
* *
20841494 ATATATATAAAGAATAAAAATATAATAAGTACTAG-A
1 ATATATATATAGAATAAAAATATAATAAGTATTAGAA
20841530 A-ATATATATAGAATAAAAATATAATAAGTATTAGAA
1 ATATATATATAGAATAAAAATATAATAAGTATTAGAA
20841566 ATATATATATA
1 ATATATATATA
20841577 TATATGTGCT
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
35 31 0.41
36 4 0.05
37 40 0.53
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.32
Consensus pattern (37 bp):
ATATATATATAGAATAAAAATATAATAAGTATTAGAA
Found at i:20845866 original size:3 final size:3
Alignment explanation
Indices: 20845852--20845899 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
20845842 TATTTTGTTG
*
20845852 ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
20845900 TAGGCTATAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:20846759 original size:18 final size:17
Alignment explanation
Indices: 20846738--20846794 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
20846728 TTTTCAAAAG
20846738 ATATATTAATTAATAATA
1 ATAT-TTAATTAATAATA
*
20846756 ATATTATAATAAATAATA
1 ATATT-TAATTAATAATA
* *
20846774 ATATTTTATTATTAATA
1 ATATTTAATTAATAATA
20846791 ATAT
1 ATAT
20846795 AAAATATAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
17 14 0.41
18 20 0.59
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATTTAATTAATAATA
Found at i:20846772 original size:21 final size:20
Alignment explanation
Indices: 20846748--20846793 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
20846738 ATATATTAAT
20846748 TAATAATAATATTATAATAAA
1 TAATAAT-ATATTATAATAAA
* * *
20846769 TAATAATATTTTATTATTAA
1 TAATAATATATTATAATAAA
20846789 TAATA
1 TAATA
20846794 TAAAATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TAATAATATATTATAATAAA
Found at i:20853952 original size:18 final size:17
Alignment explanation
Indices: 20853931--20853987 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
20853921 TTATCAAAAG
20853931 ATATATTAATTAATAATA
1 ATAT-TTAATTAATAATA
* *
20853949 ATATTACAATAAATAATA
1 ATATT-TAATTAATAATA
* * *
20853967 ATATTTTATCATTAATA
1 ATATTTAATTAATAATA
20853984 ATAT
1 ATAT
20853988 AAAATATAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 13 0.41
18 19 0.59
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATTTAATTAATAATA
Found at i:20867196 original size:16 final size:16
Alignment explanation
Indices: 20867175--20867207 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20867165 GCTCAAACAA
20867175 AAGAAA-AAGAAGAAAG
1 AAGAAAGAAG-AGAAAG
20867191 AAGAAAGAAGAGAAAG
1 AAGAAAGAAGAGAAAG
20867207 A
1 A
20867208 CATGATGTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
AAGAAAGAAGAGAAAG
Found at i:20877001 original size:3 final size:3
Alignment explanation
Indices: 20876993--20877052 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
20876983 CGTGGTAACA
* * * *
20876993 TCT TCT TCT TTT TCT TCT TTT TCT TCT TTT TTT TCTT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC-T TCT TCT TCT
20877039 T-T TCTT TCT TCT TC
1 TCT TC-T TCT TCT TC
20877053 CTCTACCTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 40 0.83
4 6 0.12
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (3 bp):
TCT
Found at i:20877009 original size:9 final size:9
Alignment explanation
Indices: 20876995--20877041 Score: 76
Period size: 9 Copynumber: 5.1 Consensus size: 9
20876985 TGGTAACATC
20876995 TTCTTCTTT
1 TTCTTCTTT
20877004 TTCTTCTTT
1 TTCTTCTTT
20877013 TTCTTCTTT
1 TTCTTCTTT
*
20877022 TTTTTCTTT
1 TTCTTCTTT
20877031 CTTCTTCTTT
1 -TTCTTCTTT
20877041 T
1 T
20877042 CTTTCTTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
9 27 0.77
10 8 0.23
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTCTTCTTT
Found at i:20877047 original size:9 final size:10
Alignment explanation
Indices: 20876993--20877051 Score: 70
Period size: 9 Copynumber: 6.0 Consensus size: 10
20876983 CGTGGTAACA
20876993 TCTTCTTCTT
1 TCTTCTTCTT
20877003 T-TTCTTCTT
1 TCTTCTTCTT
20877012 T-TTCTTCTT
1 TCTTCTTCTT
*
20877021 T-TTTTTCTT
1 TCTTCTTCTT
20877030 TCTTCTTCTTT
1 TCTTCTTC-TT
20877041 TCTTTCTTCTT
1 TC-TTCTTCTT
20877052 CCTCTACCTC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
9 26 0.59
10 6 0.14
11 6 0.14
12 6 0.14
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (10 bp):
TCTTCTTCTT
Found at i:20880549 original size:39 final size:39
Alignment explanation
Indices: 20880506--20880583 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
20880496 TGCTTCAGTT
20880506 AGAGTTTTACTAGCATAATATATTGAATGAAATACCTTA
1 AGAGTTTTACTAGCATAATATATTGAATGAAATACCTTA
20880545 AGAGTTTTACTAGCATAATATATTGAATGAAATACCTTA
1 AGAGTTTTACTAGCATAATATATTGAATGAAATACCTTA
20880584 TCTTTCCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (39 bp):
AGAGTTTTACTAGCATAATATATTGAATGAAATACCTTA
Found at i:20896671 original size:222 final size:222
Alignment explanation
Indices: 20896285--20896731 Score: 831
Period size: 222 Copynumber: 2.0 Consensus size: 222
20896275 GTTACGTTAA
* *
20896285 CAAGTAAGTTAGGCGAGAGCTACTTGGGATTAGATGAAATTCTAATCACTTGTTCTTGGGTACAC
1 CAAGTAAGTTAGGCGAAAGCTACTTGGGATTAGACGAAATTCTAATCACTTGTTCTTGGGTACAC
* *
20896350 AATGTTGTTCACACCGAGAGGTGGAGTAATTGCGGGTACTTGAGTCGTGACTAAACAGAGAATTA
66 AATGTTGTTCACACCGAGAGGTGGAGTAATTGCGGGTACTGGAGTCATGACTAAACAGAGAATTA
20896415 TTTTTGGTAAGATTTCATTGGAACTTCATTGCTACGACAGTTTATCTATTCAAAACCTTGTCGAC
131 TTTTTGGTAAGATTTCATTGGAACTTCATTGCTACGACAGTTTATCTATTCAAAACCTTGTCGAC
20896480 GTATCCTGTGTTGCGATTTAGCAAAAT
196 GTATCCTGTGTTGCGATTTAGCAAAAT
20896507 CAAGTAAGTTAGGCGAAAGCTACTTGGGATTAGACGAAATTCTAATCACTTGTTCTTGGGTACAC
1 CAAGTAAGTTAGGCGAAAGCTACTTGGGATTAGACGAAATTCTAATCACTTGTTCTTGGGTACAC
* *
20896572 AATGTTGTTCACACCGAGAGGTGGAGTAATTGCGGGTACTGGAGTCATGACTAAATAGGGAATTA
66 AATGTTGTTCACACCGAGAGGTGGAGTAATTGCGGGTACTGGAGTCATGACTAAACAGAGAATTA
*
20896637 TTTTTGGTAAGATTTCATTGGAACTTCATTGCTACTACAGTTTATCTATTCAAAACCTTGTCGAC
131 TTTTTGGTAAGATTTCATTGGAACTTCATTGCTACGACAGTTTATCTATTCAAAACCTTGTCGAC
20896702 GTATCCTGTGTTGCGATTTAGCAAAAT
196 GTATCCTGTGTTGCGATTTAGCAAAAT
20896729 CAA
1 CAA
20896732 TGATCCACTC
Statistics
Matches: 218, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
222 218 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (222 bp):
CAAGTAAGTTAGGCGAAAGCTACTTGGGATTAGACGAAATTCTAATCACTTGTTCTTGGGTACAC
AATGTTGTTCACACCGAGAGGTGGAGTAATTGCGGGTACTGGAGTCATGACTAAACAGAGAATTA
TTTTTGGTAAGATTTCATTGGAACTTCATTGCTACGACAGTTTATCTATTCAAAACCTTGTCGAC
GTATCCTGTGTTGCGATTTAGCAAAAT
Found at i:20897196 original size:14 final size:14
Alignment explanation
Indices: 20897176--20897224 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
20897166 ACTAATCTGT
*
20897176 TTAATTTTCTTTTG
1 TTAATTTTCTTTTA
*
20897190 TTGATTTTCTTTTA
1 TTAATTTTCTTTTA
20897204 TTAATTTTCTTTTA
1 TTAATTTTCTTTTA
*
20897218 TTTATTT
1 TTAATTT
20897225 AGAAGTTGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.73
Consensus pattern (14 bp):
TTAATTTTCTTTTA
Found at i:20904826 original size:6 final size:6
Alignment explanation
Indices: 20904815--20904841 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
20904805 GTGAGCACCC
20904815 AAAGAA AAAGAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAA
20904842 AAGGCAGCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:20912743 original size:20 final size:20
Alignment explanation
Indices: 20912718--20912757 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
20912708 AGTTTGATTT
20912718 GTTAAAAGAC-TTTTAACTTG
1 GTTAAAA-ACATTTTAACTTG
*
20912738 GTTAAAATCATTTTAACTTG
1 GTTAAAAACATTTTAACTTG
20912758 ATTTTAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (20 bp):
GTTAAAAACATTTTAACTTG
Found at i:20915847 original size:9 final size:9
Alignment explanation
Indices: 20915829--20915862 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
20915819 AATTTATTCC
20915829 TCTTTTTCT
1 TCTTTTTCT
20915838 T-TTCTTTCT
1 TCTT-TTTCT
20915847 TCTTTTTCT
1 TCTTTTTCT
20915856 TCTTTTT
1 TCTTTTT
20915863 TTTCAAGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.09
9 19 0.83
10 2 0.09
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TCTTTTTCT
Found at i:20930425 original size:17 final size:17
Alignment explanation
Indices: 20930381--20930433 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
20930371 TATAATGATA
*
20930381 AATGGAAATGCAATGAC
1 AATGAAAATGCAATGAC
* * *
20930398 AATGCACATGCAGTGAC
1 AATGAAAATGCAATGAC
* *
20930415 AATTAAAATGCAAAGAC
1 AATGAAAATGCAATGAC
20930432 AA
1 AA
20930434 AGGGAATGTG
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.17
Consensus pattern (17 bp):
AATGAAAATGCAATGAC
Found at i:20936251 original size:17 final size:16
Alignment explanation
Indices: 20936231--20936278 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 16
20936221 AAAAAAATTA
20936231 ACAAAAGAAATGTAATG
1 ACAAAA-AAATGTAATG
*
20936248 ACAAATAAAATGTGATG
1 ACAAA-AAAATGTAATG
20936265 ACAATAAAAATGTA
1 ACAA-AAAAATGTA
20936279 TGCAATTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 25 0.93
18 2 0.07
ACGTcount: A:0.58, C:0.06, G:0.15, T:0.21
Consensus pattern (16 bp):
ACAAAAAAATGTAATG
Found at i:20941894 original size:12 final size:11
Alignment explanation
Indices: 20941878--20941919 Score: 59
Period size: 12 Copynumber: 3.7 Consensus size: 11
20941868 TAAAGCAATA
20941878 TTTTTCTCTTT
1 TTTTTCTCTTT
20941889 TCTTTTCTCTTT
1 T-TTTTCTCTTT
20941901 TTTTT-TCTTT
1 TTTTTCTCTTT
20941911 TTTATTCTC
1 TTT-TTCTC
20941920 ATTCATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 8 0.29
11 7 0.25
12 13 0.46
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTCTCTTT
Found at i:20941904 original size:22 final size:22
Alignment explanation
Indices: 20941878--20941919 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
20941868 TAAAGCAATA
20941878 TTTTTCTCTTTTCTT-TTCTCTT
1 TTTTTCTCTTTT-TTATTCTCTT
*
20941900 TTTTTTTCTTTTTTATTCTC
1 TTTTTCTCTTTTTTATTCTC
20941920 ATTCATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTTCTCTTTTTTATTCTCTT
Found at i:20951771 original size:16 final size:16
Alignment explanation
Indices: 20951742--20951809 Score: 50
Period size: 16 Copynumber: 4.0 Consensus size: 16
20951732 TTCTTAGATC
20951742 ACTA-GCACAAAGCCT
1 ACTAGGCACAAAGCCT
*
20951757 ACTAGGCACATAGCCCGAAT
1 ACTAGGCACAAAG-CC---T
20951777 AC-ACCGGCACAAAGCCT
1 ACTA--GGCACAAAGCCT
*
20951794 ACTAGGCACATAGCCT
1 ACTAGGCACAAAGCCT
20951810 GAAAACACCG
Statistics
Matches: 42, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
15 4 0.10
16 18 0.43
17 5 0.12
18 1 0.02
19 1 0.02
20 5 0.12
21 8 0.19
ACGTcount: A:0.35, C:0.34, G:0.18, T:0.13
Consensus pattern (16 bp):
ACTAGGCACAAAGCCT
Found at i:20951796 original size:37 final size:37
Alignment explanation
Indices: 20951746--20952073 Score: 451
Period size: 37 Copynumber: 8.9 Consensus size: 37
20951736 TAGATCACTA
* *
20951746 GCACAAAGCCTACTAGGCACATAGCCCGAATACACCG
1 GCACAAAGCCTACTAGGCACATAGCCTGAAAACACCG
20951783 GCACAAAGCCTACTAGGCACATAGCCTGAAAACACCG
1 GCACAAAGCCTACTAGGCACATAGCCTGAAAACACCG
** * *
20951820 GCATGAAGCCAACTAGGCACATAGCCTAAAAACACCG
1 GCACAAAGCCTACTAGGCACATAGCCTGAAAACACCG
20951857 GCACAAAGCCTACTAGGCACATAGCCTGAAAACACCG
1 GCACAAAGCCTACTAGGCACATAGCCTGAAAACACCG
** * * *
20951894 GCATGAAGCCAACTAGGCACATAGCCTAAAAACACCA
1 GCACAAAGCCTACTAGGCACATAGCCTGAAAACACCG
* * *
20951931 GCACGAAGCCTACTAGGCACAAAGCCTGAAAACACCA
1 GCACAAAGCCTACTAGGCACATAGCCTGAAAACACCG
* * * *
20951968 GCACGAAGCCTACTAGGCACAAAGCCTGAAAACGCCA
1 GCACAAAGCCTACTAGGCACATAGCCTGAAAACACCG
* *
20952005 GCACAAAGCCTACTAGGCACAAAGCCTGAAAATACCG
1 GCACAAAGCCTACTAGGCACATAGCCTGAAAACACCG
*
20952042 GCA-AGAAGCCTACTAGGCACAAAGCCTGAAAA
1 GCACA-AAGCCTACTAGGCACATAGCCTGAAAA
20952074 TTATGTAAGC
Statistics
Matches: 266, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
36 1 0.00
37 265 1.00
ACGTcount: A:0.40, C:0.31, G:0.19, T:0.10
Consensus pattern (37 bp):
GCACAAAGCCTACTAGGCACATAGCCTGAAAACACCG
Found at i:20951992 original size:16 final size:16
Alignment explanation
Indices: 20951968--20952068 Score: 60
Period size: 16 Copynumber: 5.7 Consensus size: 16
20951958 GAAAACACCA
*
20951968 GCACGAAGCCTACTAG
1 GCACAAAGCCTACTAG
**
20951984 GCACAAAGCCTGAAAACG
1 GCACAAAGCCT-ACTA-G
20952002 CCAGCACAAAGCCTACTAG
1 ---GCACAAAGCCTACTAG
*
20952021 GCACAAAGCCTGAAAATACCG
1 GCACAAAGCCT---ACTA--G
20952042 GCA-AGAAGCCTACTAG
1 GCACA-AAGCCTACTAG
20952058 GCACAAAGCCT
1 GCACAAAGCCT
20952069 GAAAATTATG
Statistics
Matches: 66, Mismatches: 7, Indels: 24
0.68 0.07 0.25
Matches are distributed among these distances:
16 31 0.47
17 3 0.05
18 4 0.06
19 4 0.06
20 3 0.05
21 21 0.32
ACGTcount: A:0.39, C:0.31, G:0.21, T:0.10
Consensus pattern (16 bp):
GCACAAAGCCTACTAG
Found at i:20952010 original size:21 final size:21
Alignment explanation
Indices: 20951947--20952015 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
20951937 AGCCTACTAG
*
20951947 GCACAAAGCCTGAAAACACCA
1 GCACAAAGCCTGAAAACGCCA
* **
20951968 GCACGAAGCCT-ACTA-G---
1 GCACAAAGCCTGAAAACGCCA
20951984 GCACAAAGCCTGAAAACGCCA
1 GCACAAAGCCTGAAAACGCCA
20952005 GCACAAAGCCT
1 GCACAAAGCCT
20952016 ACTAGGCACA
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
16 10 0.28
17 2 0.06
18 1 0.03
20 2 0.06
21 21 0.58
ACGTcount: A:0.41, C:0.33, G:0.19, T:0.07
Consensus pattern (21 bp):
GCACAAAGCCTGAAAACGCCA
Found at i:20959236 original size:37 final size:36
Alignment explanation
Indices: 20959164--20959285 Score: 145
Period size: 37 Copynumber: 3.3 Consensus size: 36
20959154 TAGATTACTG
** *
20959164 GCACAAAGCCTGCTAGGCACATAGCCCGAATACACC
1 GCACAAAGCCTGCTAGGCACATAGCCTAAAAACACC
20959200 AGCACAAAGCCTGCTAGGCACATAGCCTAAAAACACC
1 -GCACAAAGCCTGCTAGGCACATAGCCTAAAAACACC
* ** * *
20959237 GACACGAAGCCAACTAGGCAAATAACCTAAAAACACC
1 G-CACAAAGCCTGCTAGGCACATAGCCTAAAAACACC
20959274 GGCACAAAGCCT
1 -GCACAAAGCCT
20959286 AAAAACACCG
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
36 1 0.01
37 71 0.97
38 1 0.01
ACGTcount: A:0.40, C:0.33, G:0.17, T:0.10
Consensus pattern (36 bp):
GCACAAAGCCTGCTAGGCACATAGCCTAAAAACACC
Found at i:20959281 original size:23 final size:22
Alignment explanation
Indices: 20959255--20959302 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
20959245 GCCAACTAGG
20959255 CAAATAACCTAAAAACACCGGCA
1 CAAA-AACCTAAAAACACCGGCA
*
20959278 C-AAAGCCTAAAAACACCGGCA
1 CAAAAACCTAAAAACACCGGCA
20959299 CAAA
1 CAAA
20959303 GCCTACTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 18 0.78
22 4 0.17
23 1 0.04
ACGTcount: A:0.52, C:0.31, G:0.10, T:0.06
Consensus pattern (22 bp):
CAAAAACCTAAAAACACCGGCA
Found at i:20959286 original size:21 final size:21
Alignment explanation
Indices: 20959262--20959307 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
20959252 AGGCAAATAA
20959262 CCTAAAAACACCGGCACAAAG
1 CCTAAAAACACCGGCACAAAG
20959283 CCTAAAAACACCGGCACAAAG
1 CCTAAAAACACCGGCACAAAG
20959304 CCTA
1 CCTA
20959308 CTAGGCACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.46, C:0.35, G:0.13, T:0.07
Consensus pattern (21 bp):
CCTAAAAACACCGGCACAAAG
Found at i:20959315 original size:37 final size:37
Alignment explanation
Indices: 20959274--20959364 Score: 146
Period size: 37 Copynumber: 2.5 Consensus size: 37
20959264 TAAAAACACC
* *
20959274 GGCACAAAGCCTAAAAACACCGGCACAAAGCCTACTA
1 GGCACAAAGCCTGAAAACACCGACACAAAGCCTACTA
* *
20959311 GGCACAAAGCTTGAAAACATCGACACAAAGCCTACTA
1 GGCACAAAGCCTGAAAACACCGACACAAAGCCTACTA
20959348 GGCACAAAGCCTGAAAA
1 GGCACAAAGCCTGAAAA
20959365 TTGTGTAAGC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.44, C:0.29, G:0.18, T:0.10
Consensus pattern (37 bp):
GGCACAAAGCCTGAAAACACCGACACAAAGCCTACTA
Found at i:20959316 original size:16 final size:16
Alignment explanation
Indices: 20959295--20959359 Score: 58
Period size: 16 Copynumber: 3.8 Consensus size: 16
20959285 TAAAAACACC
20959295 GGCACAAAGCCTACTA
1 GGCACAAAGCCTACTA
* *
20959311 GGCACAAAGCTTGAAAACATC
1 GGCACAAAGCCT----AC-TA
*
20959332 GACACAAAGCCTACTA
1 GGCACAAAGCCTACTA
20959348 GGCACAAAGCCT
1 GGCACAAAGCCT
20959360 GAAAATTGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
16 23 0.61
17 2 0.05
20 2 0.05
21 11 0.29
ACGTcount: A:0.40, C:0.29, G:0.18, T:0.12
Consensus pattern (16 bp):
GGCACAAAGCCTACTA
Found at i:20959338 original size:58 final size:58
Alignment explanation
Indices: 20959218--20959344 Score: 157
Period size: 58 Copynumber: 2.2 Consensus size: 58
20959208 GCCTGCTAGG
* * *
20959218 CACATAGCCTAAAAACACCGACACGAAGCCAACTAGGCAAATAACCTAAAAACACCGG
1 CACAAAGCCTAAAAACACCGACACAAAGCCAACTAGGCAAATAACCTAAAAACACCGA
* * * * * *
20959276 CACAAAGCCTAAAAACACCGGCACAAAGCCTACTAGGCACAA-AGCTTGAAAACATCGA
1 CACAAAGCCTAAAAACACCGACACAAAGCCAACTAGGCA-AATAACCTAAAAACACCGA
20959334 CACAAAGCCTA
1 CACAAAGCCTA
20959345 CTAGGCACAA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 57 0.97
59 2 0.03
ACGTcount: A:0.46, C:0.31, G:0.14, T:0.09
Consensus pattern (58 bp):
CACAAAGCCTAAAAACACCGACACAAAGCCAACTAGGCAAATAACCTAAAAACACCGA
Found at i:20976230 original size:47 final size:46
Alignment explanation
Indices: 20976179--20976297 Score: 139
Period size: 46 Copynumber: 2.5 Consensus size: 46
20976169 ACTGTTTACA
*
20976179 ATTTGATTATGTGGCAGTTTATCTACAAATGTGGTGCCTTGTCCATG
1 ATTTGATTAT-TGGCAGTTTATCTACAAATGTGGTGCCTTGTCCACG
* * * * * *
20976226 ATTTGATTATTGGTAGTTTATCTGCGATTTTGGTGGCTTGTCCACG
1 ATTTGATTATTGGCAGTTTATCTACAAATGTGGTGCCTTGTCCACG
* *
20976272 ATATTGGTTATTGGCAATTTATCTAC
1 AT-TTGATTATTGGCAGTTTATCTAC
20976298 GATTTTGGTG
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 31 0.52
47 29 0.48
ACGTcount: A:0.20, C:0.13, G:0.23, T:0.44
Consensus pattern (46 bp):
ATTTGATTATTGGCAGTTTATCTACAAATGTGGTGCCTTGTCCACG
Found at i:20976301 original size:47 final size:46
Alignment explanation
Indices: 20976179--20976307 Score: 159
Period size: 47 Copynumber: 2.8 Consensus size: 46
20976169 ACTGTTTACA
* * * *
20976179 ATTTGATTATGTGGCAGTTTATCTACAAATGTGGTGCCTTGTCCATG
1 ATTTGATTAT-TGGCAGTTTATCTACGATTTTGGTGCCTTGTCCACG
* * *
20976226 ATTTGATTATTGGTAGTTTATCTGCGATTTTGGTGGCTTGTCCACG
1 ATTTGATTATTGGCAGTTTATCTACGATTTTGGTGCCTTGTCCACG
* *
20976272 ATATTGGTTATTGGCAATTTATCTACGATTTTGGTG
1 AT-TTGATTATTGGCAGTTTATCTACGATTTTGGTG
20976308 ACACTGTTCA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
46 31 0.44
47 39 0.56
ACGTcount: A:0.19, C:0.12, G:0.24, T:0.44
Consensus pattern (46 bp):
ATTTGATTATTGGCAGTTTATCTACGATTTTGGTGCCTTGTCCACG
Found at i:20976326 original size:47 final size:46
Alignment explanation
Indices: 20976176--20976324 Score: 138
Period size: 47 Copynumber: 3.2 Consensus size: 46
20976166 AACACTGTTT
* * *
20976176 ACAATTTGATTATGTGGCAGTTTATCTACAAATGTGGTG-CCTTGTCC
1 ACAATTTGATTAT-TGGCAGTTTATCTACGATTTTGGTGACC-TGTCC
** * * * *
20976223 ATGATTTGATTATTGGTAGTTTATCTGCGATTTTGGTGGCTTGTCC
1 ACAATTTGATTATTGGCAGTTTATCTACGATTTTGGTGACCTGTCC
* * * *
20976269 ACGATATTGGTTATTGGCAATTTATCTACGATTTTGGTGACACTGTTC
1 ACAAT-TTGATTATTGGCAGTTTATCTACGATTTTGGTGAC-CTGTCC
20976317 ACAATTTG
1 ACAATTTG
20976325 GTGTGTTGGA
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
46 29 0.35
47 45 0.55
48 8 0.10
ACGTcount: A:0.21, C:0.14, G:0.22, T:0.42
Consensus pattern (46 bp):
ACAATTTGATTATTGGCAGTTTATCTACGATTTTGGTGACCTGTCC
Found at i:20977785 original size:15 final size:15
Alignment explanation
Indices: 20977747--20977787 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
20977737 ACTAAAGAAA
**
20977747 GTGGTATGAAAACTT
1 GTGGTATGTGAACTT
*
20977762 GAGGTATGTGAACTT
1 GTGGTATGTGAACTT
20977777 GTGGTATGTGA
1 GTGGTATGTGA
20977788 TTTCGAGGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.27, C:0.05, G:0.34, T:0.34
Consensus pattern (15 bp):
GTGGTATGTGAACTT
Found at i:20983818 original size:33 final size:33
Alignment explanation
Indices: 20983774--20983846 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
20983764 ATGAGGAGCA
*
20983774 TGATGAAGAAGAACCAAAAATAGGGAATCATAG
1 TGATGATGAAGAACCAAAAATAGGGAATCATAG
* * *
20983807 TGATGATGAAGAACTAGAAATAGGGAATGATAG
1 TGATGATGAAGAACCAAAAATAGGGAATCATAG
20983840 TGATGAT
1 TGATGAT
20983847 AAGGAAGATG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.47, C:0.05, G:0.27, T:0.21
Consensus pattern (33 bp):
TGATGATGAAGAACCAAAAATAGGGAATCATAG
Found at i:20983854 original size:36 final size:35
Alignment explanation
Indices: 20983773--20983854 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 35
20983763 GATGAGGAGC
20983773 ATGATGAAGAAGAACCAAAAATAGGGAATCATAGTG
1 ATGAT-AAGAAGAACCAAAAATAGGGAATCATAGTG
* * *
20983809 ATGAT--GAAGAACTAGAAATAGGGAATGATAGTG
1 ATGATAAGAAGAACCAAAAATAGGGAATCATAGTG
20983842 ATGATAAGGAAGA
1 ATGATAA-GAAGA
20983855 TGAGATGGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 30 0.75
36 10 0.25
ACGTcount: A:0.49, C:0.05, G:0.28, T:0.18
Consensus pattern (35 bp):
ATGATAAGAAGAACCAAAAATAGGGAATCATAGTG
Found at i:20987216 original size:15 final size:15
Alignment explanation
Indices: 20987192--20987239 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
20987182 TAGTTACGAT
* *
20987192 GATGACATCTATGAG
1 GATGATATCTATGAA
20987207 GATGATATCTATGAA
1 GATGATATCTATGAA
*
20987222 GATGGATA-CTATGGA
1 GAT-GATATCTATGAA
20987237 GAT
1 GAT
20987240 TGGGAAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 25 0.86
16 4 0.14
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.29
Consensus pattern (15 bp):
GATGATATCTATGAA
Found at i:20993484 original size:116 final size:116
Alignment explanation
Indices: 20993351--20993611 Score: 380
Period size: 116 Copynumber: 2.2 Consensus size: 116
20993341 AGTTGAGAAG
* * *
20993351 TCCTACCCTGCAACTTCTACCAATACAAGTATTTAAACTACCAATACCACAATGTACAGAACCA-
1 TCCTACCCTG-TACTTCTACCGATACAAGTAATTAAACTACCAATACCACAATGTACAGAACCAT
*
20993415 CTGATACTTATTATACAACTACCAAAACAACTCAAGTCAAAGAACAACCTCTC
65 C-GATACCTATTATACAACTACCAAAACAACTCAAGTCAAAGAACAACCTCTC
* * ** *
20993468 TCCTACCCTGTGCTTCTACCGATACAAGTAATTAAACTACCGATACCTTAATGTACAGAACTATC
1 TCCTACCCTGTACTTCTACCGATACAAGTAATTAAACTACCAATACCACAATGTACAGAACCATC
* * *
20993533 GATACCTGTTATACAACTACCGAAACAACTCAAGTCAGAGAACAACCTCTC
66 GATACCTATTATACAACTACCAAAACAACTCAAGTCAAAGAACAACCTCTC
*
20993584 TCCTACCCTGTACTTCTATCGATACAAG
1 TCCTACCCTGTACTTCTACCGATACAAG
20993612 CATGAGTTCT
Statistics
Matches: 129, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
116 118 0.91
117 11 0.09
ACGTcount: A:0.37, C:0.30, G:0.09, T:0.25
Consensus pattern (116 bp):
TCCTACCCTGTACTTCTACCGATACAAGTAATTAAACTACCAATACCACAATGTACAGAACCATC
GATACCTATTATACAACTACCAAAACAACTCAAGTCAAAGAACAACCTCTC
Found at i:20994171 original size:36 final size:36
Alignment explanation
Indices: 20994104--20994208 Score: 156
Period size: 36 Copynumber: 2.9 Consensus size: 36
20994094 TGATCATTAT
* *
20994104 TCGTTTTACTCCTTGTTAACCCCAAAGGTCATGATGC
1 TCGTTTTACTCCCTGTTGA-CCCAAAGGTCATGATGC
*
20994141 TCGTTTTACTCCCTGTTGACCCAAAGGTCATTATGC
1 TCGTTTTACTCCCTGTTGACCCAAAGGTCATGATGC
* *
20994177 TCATTTTTCTCCCTGTTGACCCAAAGGTCATG
1 TCGTTTTACTCCCTGTTGACCCAAAGGTCATG
20994209 CTTGTTACCA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
36 45 0.73
37 17 0.27
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (36 bp):
TCGTTTTACTCCCTGTTGACCCAAAGGTCATGATGC
Found at i:21002214 original size:25 final size:21
Alignment explanation
Indices: 21002190--21002232 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
21002180 ACACCCTAAG
21002190 TAAGGAGAAATCAATGGTCTT
1 TAAGGAGAAATCAATGGTCTT
21002211 TAAGGAGAAATCAATGGTCTT
1 TAAGGAGAAATCAATGGTCTT
21002232 T
1 T
21002233 TCTAATGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.30
Consensus pattern (21 bp):
TAAGGAGAAATCAATGGTCTT
Found at i:21005445 original size:47 final size:47
Alignment explanation
Indices: 21005341--21005445 Score: 113
Period size: 47 Copynumber: 2.2 Consensus size: 47
21005331 TGTGACACCA
* * * *
21005341 TTCAAAATTTGATTATGTGTCAGTTTATTTACAAATATGGTGGCTTG
1 TTCACAATTTGATTATGTGGCAGTTTATCTACAAATATGGTGACTTG
* * * * *
21005388 TCCACGATTTGATTAT-TGGCAGTTTATCTACGATTTTGGTGACATTG
1 TTCACAATTTGATTATGTGGCAGTTTATCTACAAATATGGTGAC-TTG
21005435 TTCACAATTTG
1 TTCACAATTTG
21005446 GTGTGTTGGA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
46 21 0.46
47 25 0.54
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (47 bp):
TTCACAATTTGATTATGTGGCAGTTTATCTACAAATATGGTGACTTG
Found at i:21008144 original size:28 final size:29
Alignment explanation
Indices: 21008091--21008155 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
21008081 ATTTTCTTTT
*
21008091 TTTTTTTTCAGTTTTTAAGATGTCC-AAA
1 TTTTTTTTCAGTTTTTAAGAGGTCCAAAA
21008119 TTTTTTTTCAGTTTTTAAG-GGATCCAAAA
1 TTTTTTTTCAGTTTTTAAGAGG-TCCAAAA
*
21008148 TTCTTTTT
1 TTTTTTTT
21008156 ACCAATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 1 0.03
28 22 0.67
29 10 0.30
ACGTcount: A:0.23, C:0.11, G:0.11, T:0.55
Consensus pattern (29 bp):
TTTTTTTTCAGTTTTTAAGAGGTCCAAAA
Found at i:21026362 original size:50 final size:50
Alignment explanation
Indices: 21026281--21026953 Score: 400
Period size: 50 Copynumber: 13.6 Consensus size: 50
21026271 CTAGAGATAT
* * *
21026281 GAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAGAAAATTG
1 GAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATTG
* * * **
21026331 GATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCAT-GAAGATAC
1 GAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATTG
* ** *
21026380 AAAGGGAAAGGTTGAGGTTGCAACGACGAACCCGGTACCTTAGAAGATAT-
1 GAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGAT-TG
* * * *
21026430 GAAAGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCTAAAAAGATAT-
1 GAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGAT-TG
* * * ** **
21026480 GATGGGAAAGGTTGAGGTCGCAACAGTAAACCCGGTACC--ACGAAGATAC
1 GAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA-GAAGATTG
* * * * *
21026529 AAAGGGAAAGGTTGAGGCCGTAACGGCGAACCCGATACCTAAGAAGA-GG
1 GAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATTG
* * * * * * *
21026578 TGATGGGAAAGTTTGAGGCCGCAATGGCGAATCCGATACCATGAAAAGA-T-
1 -GAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACC-TTAGAAGATTG
** * **
21026628 GAAGGG-AAGGATTGAGGCCGTGACGGGGAATTCGGTACCTTAGAAGA-TG
1 GAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATTG
* * **
21026677 TGATA-GGAAAGGTTGAGGCTGCAACGGTGAAATCGGTACC--ACGAAGATAT-
1 -GA-AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTA-GAAGAT-TG
** * * * * * *
21026727 GAAGGGAAAGACTGAGGCTGTAACGACGAGCCCGGTACCTAAAAAGA-TG
1 GAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATTG
* * * * *
21026776 TGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCAT-GAAGAGAT-
1 -GAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGA-TTG
* ***** *
21026826 GAA-GGAAAGGATTGAGGCCGCGATAATTAATCCGGTACCTTAGAAGA-TG
1 GAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATTG
* * * * * * *
21026875 CGATGGG-AAGGATTGAGGTCGCAACAGCGAATCCGATACCAT-GAA-AATG
1 -GAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATTG
*
21026924 TGAAGGGAAAGGTTGAGGCCGCAATGGCGA
1 -GAAGGGAAAGGTTGAGGCCGCAACGGCGA
21026954 TCCTAACACC
Statistics
Matches: 486, Mismatches: 107, Indels: 61
0.74 0.16 0.09
Matches are distributed among these distances:
48 23 0.05
49 189 0.39
50 257 0.53
51 17 0.03
ACGTcount: A:0.34, C:0.17, G:0.33, T:0.16
Consensus pattern (50 bp):
GAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGAAGATTG
Found at i:21026545 original size:149 final size:149
Alignment explanation
Indices: 21026270--21026947 Score: 574
Period size: 149 Copynumber: 4.6 Consensus size: 149
21026260 AATCTAATAT
* * *
21026270 CCTAG-AGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAGAAA-AT-TGG
1 CCTAGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCATAAAAAGATAT-G
*
21026332 ATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCATGAAGATACAAAGGGAAAGGTTGAGG
65 ATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGAAGATACAAAGGGAAAGGTTGAGG
* *
21026397 TTGCAACGACGAACCCGGTA
130 CTGCAACGGCGAACCCGGTA
* * *
21026417 CCTTAGAAGATATGAAAGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACC-TAAAAAGATATG
1 CC-TAGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCATAAAAAGATATG
* * * * *
21026481 ATGGGAAAGGTTGAGGTCGCAACAGTAAACCCGGTACCACGAAGATACAAAGGGAAAGGTTGAGG
65 ATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGAAGATACAAAGGGAAAGGTTGAGG
* * *
21026546 CCGTAACGGCGAACCCGATA
130 CTGCAACGGCGAACCCGGTA
** * * * * *
21026566 CCTAAGAAGAGGTGATGGGAAAGTTTGAGGCCGCAATGGCGAATCCGATACCATGAAAAG--ATG
1 CCT-AGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCATAAAAAGATATG
* ** * ** * * ** *
21026629 AAGGG-AAGGATTGAGGCCGTGACGGGGAATTCGGTACCTTAGAAGATGTGATA-GGAAAGGTTG
65 ATGGGAAAGG-TTGAGGCCGCAACGGTGAACCCGATACCAT-GAAGAT-ACAAAGGGAAAGGTTG
* **
21026692 AGGCTGCAACGGTGAAATCGGTA
127 AGGCTGCAACGGCGAACCCGGTA
** * * * * * *
21026715 CC-ACGAAGATATGAAGGGAAAGACTGAGGCTGTAACGACGAGCCCGGTACC-TAAAAAGATGTG
1 CCTA-GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCATAAAAAGATATG
* **
21026778 ATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGAAGAGATGAA-GGAAAGGATTGAG
65 ATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGAAGATACAAAGGGAAAGG-TTGAG
* * ***** *
21026842 GCCGCGATAATTAATCCGGTA
129 GCTGCAACGGCGAACCCGGTA
** * * * * * *
21026863 CCTTAGAAGATGCGATGGG-AAGGATTGAGGTCGCAACAGCGAATCCGATACCAT-GAAA-ATGT
1 CC-TAGAAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGATACCATAAAAAGATAT
*
21026925 GAAGGGAAAGGTTGAGGCCGCAA
64 GATGGGAAAGGTTGAGGCCGCAA
21026948 TGGCGATCCT
Statistics
Matches: 419, Mismatches: 94, Indels: 35
0.76 0.17 0.06
Matches are distributed among these distances:
147 21 0.05
148 125 0.30
149 258 0.62
150 15 0.04
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.16
Consensus pattern (149 bp):
CCTAGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGATACCATAAAAAGATATGA
TGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGAAGATACAAAGGGAAAGGTTGAGGC
TGCAACGGCGAACCCGGTA
Found at i:21026645 original size:198 final size:198
Alignment explanation
Indices: 21026275--21026953 Score: 688
Period size: 198 Copynumber: 3.4 Consensus size: 198
21026265 AATATCCTAG
* * * * *
21026275 AGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTA-GAAAAT-TGGATGGGA
1 AGATATGATGGGAAAGGTTGAGGTCGCAACAGTAAACCCGATACC--ACGAAAATAT-GAAGGGA
* *** * **
21026338 AAGGTTGAGGCCGCAACGGCGAACCCGATACC-ATGAAGATACAAAGGGAAAGGTTGAGGTTGCA
63 AAGGTTGAGGCCGCAACGGCGAACCCGATACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCA
* * * * * *
21026402 ACGACGAACCCGGTACCTTAGAAGATATGAAAGGAAAGG-TTGAGGCCGCAACGGTGAACCCGGT
128 ACGGCGAACCCGATACCAT-GAAGAGATG-AAGGAAAGGATTGAGGCCGCGACGGTGAATCCGGT
* *
21026466 ACCTAAAA
191 ACCTTAGA
* * **
21026474 AGATATGATGGGAAAGGTTGAGGTCGCAACAGTAAACCCGGTACCACGAAGATACAAAGGGAAAG
1 AGATATGATGGGAAAGGTTGAGGTCGCAACAGTAAACCCGATACCACGAAAATATGAAGGGAAAG
* * * *
21026539 GTTGAGGCCGTAACGGCGAACCCGATACCTAAGAAGAGGTGATGGGAAAGTTTGAGGCCGCAATG
66 GTTGAGGCCGCAACGGCGAACCCGATACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACG
* * * * * *
21026604 GCGAATCCGATACCATGAAAAGATGAAGGGAAGGATTGAGGCCGTGACGGGGAATTCGGTACCTT
131 GCGAACCCGATACCATGAAGAGATGAAGGAAAGGATTGAGGCCGCGACGGTGAATCCGGTACCTT
21026669 AGA
196 AGA
* * * * * *
21026672 AGATGTGATAGGAAAGGTTGAGG-CTGCAACGGTGAAA-TCGGTACCACGAAGATATGAAGGGAA
1 AGATATGATGGGAAAGGTTGAGGTC-GCAACAGT-AAACCCGATACCACGAAAATATGAAGGGAA
** * * * * * *
21026735 AGACTGAGGCTGTAACGACGAGCCCGGTACCTAAAAAGATGTGATGGGAAAGGTTGAGGCCGCAA
64 AGGTTGAGGCCGCAACGGCGAACCCGATACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAA
* *** *
21026800 CGGTGAACCCGATACCATGAAGAGATGAAGGAAAGGATTGAGGCCGCGATAATTAATCCGGTACC
129 CGGCGAACCCGATACCATGAAGAGATGAAGGAAAGGATTGAGGCCGCGACGGTGAATCCGGTACC
21026865 TTAGA
194 TTAGA
** ** * * *
21026870 AGATGCGATGGG-AAGGATTGAGGTCGCAACAGCGAATCCGATACCATGAAAATGTGAAGGGAAA
1 AGATATGATGGGAAAGG-TTGAGGTCGCAACAGTAAACCCGATACCACGAAAATATGAAGGGAAA
*
21026934 GGTTGAGGCCGCAATGGCGA
65 GGTTGAGGCCGCAACGGCGA
21026954 TCCTAACACC
Statistics
Matches: 394, Mismatches: 77, Indels: 19
0.80 0.16 0.04
Matches are distributed among these distances:
197 16 0.04
198 297 0.75
199 81 0.21
ACGTcount: A:0.34, C:0.17, G:0.33, T:0.16
Consensus pattern (198 bp):
AGATATGATGGGAAAGGTTGAGGTCGCAACAGTAAACCCGATACCACGAAAATATGAAGGGAAAG
GTTGAGGCCGCAACGGCGAACCCGATACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACG
GCGAACCCGATACCATGAAGAGATGAAGGAAAGGATTGAGGCCGCGACGGTGAATCCGGTACCTT
AGA
Found at i:21026969 original size:99 final size:99
Alignment explanation
Indices: 21026275--21026953 Score: 603
Period size: 99 Copynumber: 6.8 Consensus size: 99
21026265 AATATCCTAG
* * * * *
21026275 AGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAGAAAAT-TGGATGGGAA
1 AGATGTGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCAT-GAAGATAT-GAAGGGAA
* *
21026339 AGGTTGAGGCCGCAACGGCGAACCCGATACCAT-GA
64 AGGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGA
*** * ** ** * * *
21026374 AGATACAAAGGGAAAGGTTGAGGTTGCAACGACGAACCCGGTACCTTAGAAGATATGAAAGGAAA
1 AGATGTGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCAT-GAAGATATGAAGGGAAA
* * *
21026439 GGTTGAGGCCGCAACGGTGAACCCGGTACCTAAAA
65 GGTTGAGGCCGCAACGGCGAACCCGGTACCTTAGA
* * * * * * **
21026474 AGATATGATGGGAAAGGTTGAGGTCGCAACAGTAAACCCGGTACCACGAAGATACAAAGGGAAAG
1 AGATGTGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGAAGATATGAAGGGAAAG
* * *
21026539 GTTGAGGCCGTAACGGCGAACCCGATACCTAAGA
66 GTTGAGGCCGCAACGGCGAACCCGGTACCTTAGA
* * * * * * *
21026573 AGAGGTGATGGGAAAGTTTGAGGCCGCAATGGCGAATCCGATACCATGAAAAGATGAAGGG-AAG
1 AGATGTGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGAAGATATGAAGGGAAAG
** * **
21026637 GATTGAGGCCGTGACGGGGAATTCGGTACCTTAGA
66 G-TTGAGGCCGCAACGGCGAACCCGGTACCTTAGA
* * ** * *
21026672 AGATGTGATAGGAAAGGTTGAGGCTGCAACGGTGAAATCGGTACCACGAAGATATGAAGGGAAAG
1 AGATGTGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGAAGATATGAAGGGAAAG
** * * * * * *
21026737 ACTGAGGCTGTAACGACGAGCCCGGTACCTAAAA
66 GTTGAGGCCGCAACGGCGAACCCGGTACCTTAGA
*
21026771 AGATGTGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGAAGAGATGAA-GGAAAG
1 AGATGTGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGAAGATATGAAGGGAAAG
* ***** *
21026835 GATTGAGGCCGCGATAATTAATCCGGTACCTTAGA
66 G-TTGAGGCCGCAACGGCGAACCCGGTACCTTAGA
* * * * * * *
21026870 AGATGCGATGGG-AAGGATTGAGGTCGCAACAGCGAATCCGATACCATGAAAATGTGAAGGGAAA
1 AGATGTGATGGGAAAGG-TTGAGGCCGCAACGGTGAACCCGATACCATGAAGATATGAAGGGAAA
*
21026934 GGTTGAGGCCGCAATGGCGA
65 GGTTGAGGCCGCAACGGCGA
21026954 TCCTAACACC
Statistics
Matches: 464, Mismatches: 109, Indels: 14
0.79 0.19 0.02
Matches are distributed among these distances:
98 14 0.03
99 401 0.86
100 49 0.11
ACGTcount: A:0.34, C:0.17, G:0.33, T:0.16
Consensus pattern (99 bp):
AGATGTGATGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGAAGATATGAAGGGAAAG
GTTGAGGCCGCAACGGCGAACCCGGTACCTTAGA
Found at i:21029187 original size:30 final size:30
Alignment explanation
Indices: 21029151--21029375 Score: 145
Period size: 29 Copynumber: 7.8 Consensus size: 30
21029141 CTATTTTGTT
*
21029151 TAAAAATTA-CATTTTGACCCTCGAACTTC
1 TAAAAATTACCATTTTGACCCTCGAACATC
* * * *
21029180 GTAAAAATTA-TATTTTAACCCCCGAACTTC
1 -TAAAAATTACCATTTTGACCCTCGAACATC
* *
21029210 ATAAAAATTA-TATTTTGTA-CCT-GAA-ATTT
1 -TAAAAATTACCATTTTG-ACCCTCGAACA-TC
* * *
21029239 TCCAAAATT-GCATATTT-ACCCCCGAACATC
1 T-AAAAATTACCAT-TTTGACCCTCGAACATC
*
21029269 CAAAAATTACCATTTT-ACCCTCGAACATC
1 TAAAAATTACCATTTTGACCCTCGAACATC
* * *
21029298 -CAAAATTATCA-TTTG-CCCTCAAACATC
1 TAAAAATTACCATTTTGACCCTCGAACATC
* *
21029325 CAAAAATTACCATTTTG-CCCCCGAACATC
1 TAAAAATTACCATTTTGACCCTCGAACATC
*
21029354 CAAAAATTACCATTTTG-CCCTC
1 TAAAAATTACCATTTTGACCCTC
21029376 AAATTTCCAA
Statistics
Matches: 159, Mismatches: 24, Indels: 25
0.76 0.12 0.12
Matches are distributed among these distances:
27 14 0.09
28 20 0.13
29 70 0.44
30 53 0.33
31 2 0.01
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.32
Consensus pattern (30 bp):
TAAAAATTACCATTTTGACCCTCGAACATC
Found at i:21029270 original size:28 final size:28
Alignment explanation
Indices: 21029239--21029369 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 28
21029229 CCTGAAATTT
*
21029239 TCCAAAATT-GCATATTTACCCCCGAACA
1 TCCAAAATTACCAT-TTTACCCCCGAACA
*
21029267 TCCAAAAATTACCATTTTACCCTCGAACA
1 TCC-AAAATTACCATTTTACCCCCGAACA
* * * *
21029296 TCCAAAATTATCA-TTTGCCCTCAAACA
1 TCCAAAATTACCATTTTACCCCCGAACA
*
21029323 TCCAAAAATTACCATTTTGCCCCCGAACA
1 TCC-AAAATTACCATTTTACCCCCGAACA
21029352 TCCAAAAATTACCATTTT
1 TCC-AAAATTACCATTTT
21029370 GCCCTCAAAT
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
27 15 0.16
28 21 0.23
29 52 0.57
30 3 0.03
ACGTcount: A:0.37, C:0.31, G:0.05, T:0.28
Consensus pattern (28 bp):
TCCAAAATTACCATTTTACCCCCGAACA
Found at i:21029327 original size:56 final size:58
Alignment explanation
Indices: 21029263--21029388 Score: 193
Period size: 56 Copynumber: 2.2 Consensus size: 58
21029253 TTTACCCCCG
* *
21029263 AACATCCAAAAATTACCATTTTACCCTCGAACATCC-AAAATTATCA-TTTGCCCTCA
1 AACATCCAAAAATTACCATTTTACCCCCGAACATCCAAAAATTACCATTTTGCCCTCA
*
21029319 AACATCCAAAAATTACCATTTTGCCCCCGAACATCCAAAAATTACCATTTTGCCCTCA
1 AACATCCAAAAATTACCATTTTACCCCCGAACATCCAAAAATTACCATTTTGCCCTCA
**
21029377 AATTTCCAAAAA
1 AACATCCAAAAA
21029389 ACACATTTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 34 0.54
57 9 0.14
58 20 0.32
ACGTcount: A:0.39, C:0.30, G:0.04, T:0.27
Consensus pattern (58 bp):
AACATCCAAAAATTACCATTTTACCCCCGAACATCCAAAAATTACCATTTTGCCCTCA
Found at i:21029384 original size:29 final size:29
Alignment explanation
Indices: 21029263--21029388 Score: 175
Period size: 29 Copynumber: 4.4 Consensus size: 29
21029253 TTTACCCCCG
* *
21029263 AACATCCAAAAATTACCATTTTACCCTCG
1 AACATCCAAAAATTACCATTTTGCCCTCA
*
21029292 AACATCC-AAAATTATCA-TTTGCCCTCA
1 AACATCCAAAAATTACCATTTTGCCCTCA
* *
21029319 AACATCCAAAAATTACCATTTTGCCCCCG
1 AACATCCAAAAATTACCATTTTGCCCTCA
21029348 AACATCCAAAAATTACCATTTTGCCCTCA
1 AACATCCAAAAATTACCATTTTGCCCTCA
**
21029377 AATTTCCAAAAA
1 AACATCCAAAAA
21029389 ACACATTTTC
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
27 15 0.18
28 18 0.21
29 52 0.61
ACGTcount: A:0.39, C:0.30, G:0.04, T:0.27
Consensus pattern (29 bp):
AACATCCAAAAATTACCATTTTGCCCTCA
Found at i:21031736 original size:21 final size:22
Alignment explanation
Indices: 21031710--21031831 Score: 95
Period size: 23 Copynumber: 5.3 Consensus size: 22
21031700 CGGAACAAAC
*
21031710 AGAGAGTAC-CAAAGTACTAAT
1 AGAGAGCACACAAAGTACTAAT
* * *
21031731 AGAGAGCACA-TAAGTGCTGGGCAAC
1 AGAGAGCACACAAAGTACT----AAT
* * *
21031756 AGAGAGCACACACAGTGCTAAAC
1 AGAGAGCACACAAAGTACT-AAT
*
21031779 AGAGAGTACACAAAGTACTAAT
1 AGAGAGCACACAAAGTACTAAT
21031801 CAGAGAGCACACAAAGTACTAAT
1 -AGAGAGCACACAAAGTACTAAT
21031824 CAGAGAGC
1 -AGAGAGC
21031832 GCGCTAGTGT
Statistics
Matches: 82, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
21 14 0.17
22 2 0.02
23 48 0.59
25 12 0.15
26 6 0.07
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (22 bp):
AGAGAGCACACAAAGTACTAAT
Found at i:21031779 original size:23 final size:23
Alignment explanation
Indices: 21031753--21031831 Score: 113
Period size: 23 Copynumber: 3.4 Consensus size: 23
21031743 AGTGCTGGGC
* *
21031753 AACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACAAAGTACTA
*
21031776 AACAGAGAGTACACAAAGTACTA
1 AACAGAGAGCACACAAAGTACTA
*
21031799 ATCAGAGAGCACACAAAGTACTA
1 AACAGAGAGCACACAAAGTACTA
*
21031822 ATCAGAGAGC
1 AACAGAGAGC
21031832 GCGCTAGTGT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (23 bp):
AACAGAGAGCACACAAAGTACTA
Found at i:21038939 original size:23 final size:23
Alignment explanation
Indices: 21038866--21038991 Score: 105
Period size: 23 Copynumber: 5.5 Consensus size: 23
21038856 TATACGGAAC
* * *
21038866 AAACAGAGAGTAC-CAAAGTACT
1 AAACAGAGAGCACACACAGTGCT
*
21038888 -AACAGAGAGCACATA-AGTGCT
1 AAACAGAGAGCACACACAGTGCT
* *
21038909 GGGCAACAGAGAGCATACACAGTGCT
1 ---AAACAGAGAGCACACACAGTGCT
* * *
21038935 AAACAGAGAGTACACAAAGTACT
1 AAACAGAGAGCACACACAGTGCT
*
21038958 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACACAGTGCT
*
21038981 AATCAGAGAGC
1 AAACAGAGAGC
21038992 GCGCTAGTGT
Statistics
Matches: 84, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
21 16 0.19
22 1 0.01
23 48 0.57
25 13 0.15
26 6 0.07
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.13
Consensus pattern (23 bp):
AAACAGAGAGCACACACAGTGCT
Found at i:21045646 original size:12 final size:13
Alignment explanation
Indices: 21045618--21045646 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21045608 ATTGAGTATT
21045618 ATTATATTTTATA
1 ATTATATTTTATA
21045631 ATTATATTTT-TA
1 ATTATATTTTATA
21045643 ATTA
1 ATTA
21045647 AATTAATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTATATTTTATA
Found at i:21047239 original size:12 final size:12
Alignment explanation
Indices: 21047222--21047246 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21047212 GGGGATTGTT
21047222 TGAAATTATTTG
1 TGAAATTATTTG
21047234 TGAAATTATTTG
1 TGAAATTATTTG
21047246 T
1 T
21047247 TGTACATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TGAAATTATTTG
Found at i:21067945 original size:20 final size:21
Alignment explanation
Indices: 21067909--21067947 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21067899 ATTTTTGTTA
*
21067909 TTTACTTTTATTTGTTTCACT
1 TTTACTTTTAGTTGTTTCACT
21067930 TTTACTTTT-GTTGTTTCA
1 TTTACTTTTAGTTGTTTCA
21067948 AATTCCTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.13, C:0.13, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTACTTTTAGTTGTTTCACT
Found at i:21070866 original size:31 final size:30
Alignment explanation
Indices: 21070831--21070888 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
21070821 AGTCACATAG
21070831 AAAAG-GAAAATGAGAAA-AAGAAAGAAAAAAT
1 AAAAGAGAAAA-GA-AAAGAAGAAA-AAAAAAT
21070862 AAAAGAGAAAAGAAAAGAAGAAAAAAA
1 AAAAGAGAAAAGAAAAGAAGAAAAAAA
21070889 TTATGTTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
30 7 0.28
31 13 0.52
32 5 0.20
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (30 bp):
AAAAGAGAAAAGAAAAGAAGAAAAAAAAAT
Found at i:21070869 original size:24 final size:26
Alignment explanation
Indices: 21070837--21070885 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
21070827 ATAGAAAAGG
21070837 AAAATGAGAAAA-AGAAAGAA-AAAAT
1 AAAATGAGAAAAGA-AAAGAAGAAAAT
21070862 AAAA-GAGAAAAGAAAAGAAGAAAA
1 AAAATGAGAAAAGAAAAGAAGAAAA
21070886 AAATTATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (26 bp):
AAAATGAGAAAAGAAAAGAAGAAAAT
Found at i:21075679 original size:21 final size:21
Alignment explanation
Indices: 21075632--21075680 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
21075622 AGCTGTACAG
* **
21075632 ATTTCTACCGGTACCTGTGCA
1 ATTTCTACCAGTACAAGTGCA
* *
21075653 AGTTCTACCAGTACAAGTGTA
1 ATTTCTACCAGTACAAGTGCA
21075674 ATTTCTA
1 ATTTCTA
21075681 TTGATACATG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (21 bp):
ATTTCTACCAGTACAAGTGCA
Found at i:21082919 original size:21 final size:21
Alignment explanation
Indices: 21082863--21082919 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
21082853 AGCTATGAAG
**
21082863 ATTTCTACCAATACTTGTGGA
1 ATTTCTACCAATACAGGTGGA
** *
21082884 AGTTT-TACCGGTACAGGTGTA
1 A-TTTCTACCAATACAGGTGGA
21082905 ATTTCTACCAATACA
1 ATTTCTACCAATACA
21082920 TGTCATGCAA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
20 3 0.11
21 21 0.78
22 3 0.11
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (21 bp):
ATTTCTACCAATACAGGTGGA
Found at i:21087511 original size:12 final size:12
Alignment explanation
Indices: 21087494--21087523 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21087484 GAGTTCTTGC
*
21087494 AGAATTATTATA
1 AGAATTATCATA
21087506 AGAATTATCATA
1 AGAATTATCATA
21087518 AGAATT
1 AGAATT
21087524 TCCACGGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.37
Consensus pattern (12 bp):
AGAATTATCATA
Found at i:21093276 original size:10 final size:11
Alignment explanation
Indices: 21093246--21093286 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
21093236 TTATATTTAA
21093246 AAAATAATTTT
1 AAAATAATTTT
*
21093257 AAATTAATTTT
1 AAAATAATTTT
21093268 AAAAT-ATTTT
1 AAAATAATTTT
*
21093278 AAAAAAATT
1 AAAATAATT
21093287 ATATTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:21093286 original size:21 final size:22
Alignment explanation
Indices: 21093246--21093286 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
21093236 TTATATTTAA
**
21093246 AAAATAATTTTAAATTAATTTT
1 AAAATAATTTTAAAAAAATTTT
21093268 AAAAT-ATTTTAAAAAAATT
1 AAAATAATTTTAAAAAAATT
21093287 ATATTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAATAATTTTAAAAAAATTTT
Found at i:21093290 original size:16 final size:18
Alignment explanation
Indices: 21093271--21093310 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
21093261 TAATTTTAAA
21093271 ATATTTTAAA-AA-AATT
1 ATATTTTAAATAATAATT
21093287 ATATTTTAAATAATAATT
1 ATATTTTAAATAATAATT
21093305 A-ATTTT
1 ATATTTT
21093311 TGCTGACGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.45
17 7 0.32
18 5 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATTTTAAATAATAATT
Found at i:21094339 original size:16 final size:16
Alignment explanation
Indices: 21094315--21094350 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
21094305 ATTATTTTCT
*
21094315 ATTTTTTAATTATTTA
1 ATTTGTTAATTATTTA
*
21094331 ATTTGTTAATTTTTTA
1 ATTTGTTAATTATTTA
21094347 ATTT
1 ATTT
21094351 ATTTTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
ATTTGTTAATTATTTA
Found at i:21094345 original size:26 final size:26
Alignment explanation
Indices: 21094315--21094372 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
21094305 ATTATTTTCT
*
21094315 ATTTTTTAA-TTA-TTTAATTTGTTA
1 ATTTTTTAATTTATTTTAAATTGTTA
21094339 ATTTTTTAATTTATTTTAAATTGTTA
1 ATTTTTTAATTTATTTTAAATTGTTA
*
21094365 ATATTTTA
1 ATTTTTTA
21094373 GACAAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 9 0.30
25 3 0.10
26 18 0.60
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (26 bp):
ATTTTTTAATTTATTTTAAATTGTTA
Found at i:21094387 original size:16 final size:17
Alignment explanation
Indices: 21094362--21094395 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
21094352 TTTTAAATTG
*
21094362 TTAATATTTTAGACAAA
1 TTAATATTTTAGAAAAA
21094379 TTAAT-TTTTAGAAAAA
1 TTAATATTTTAGAAAAA
21094395 T
1 T
21094396 ACTACTTGAG
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:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (17 bp):
TTAATATTTTAGAAAAA
Found at i:21097463 original size:12 final size:12
Alignment explanation
Indices: 21097448--21097478 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
21097438 AATGTCTTCG
21097448 TCATCCTTCGCT
1 TCATCCTTCGCT
*
21097460 TCATCCTTCTCT
1 TCATCCTTCGCT
21097472 TCATCCT
1 TCATCCT
21097479 CTTGTTCTTC
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:0.10, C:0.42, G:0.03, T:0.45
Consensus pattern (12 bp):
TCATCCTTCGCT
Found at i:21103675 original size:18 final size:18
Alignment explanation
Indices: 21103654--21103701 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
21103644 GTCCTTGCAT
**
21103654 TTGTGGTTGCAAGCTTGA
1 TTGTGGTTGCAAGCGCGA
* * *
21103672 TTGTGGTGGTAATCGCGA
1 TTGTGGTTGCAAGCGCGA
21103690 TTGTGGTTGCAA
1 TTGTGGTTGCAA
21103702 TTGATTATCT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.10, G:0.35, T:0.38
Consensus pattern (18 bp):
TTGTGGTTGCAAGCGCGA
Found at i:21104754 original size:24 final size:24
Alignment explanation
Indices: 21104721--21104769 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
21104711 TTGGAGTCTA
* *
21104721 TCCCAGTCCCGAGCAGCTCTCGCC
1 TCCCAATCCCAAGCAGCTCTCGCC
21104745 TCCCAATCCCAAGCAGCTCTCGCC
1 TCCCAATCCCAAGCAGCTCTCGCC
21104769 T
1 T
21104770 AACCCACTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.16, C:0.49, G:0.16, T:0.18
Consensus pattern (24 bp):
TCCCAATCCCAAGCAGCTCTCGCC
Found at i:21109922 original size:44 final size:44
Alignment explanation
Indices: 21109874--21109961 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
21109864 TATATACAAA
21109874 GATAAATTTTATTCCTACTCTTATGAATTATATAAGTATATAAT
1 GATAAATTTTATTCCTACTCTTATGAATTATATAAGTATATAAT
21109918 GATAAATTTTATTCCTACTCTTATGAATTATATAAGTATATAAT
1 GATAAATTTTATTCCTACTCTTATGAATTATATAAGTATATAAT
21109962 AAAAAGCAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (44 bp):
GATAAATTTTATTCCTACTCTTATGAATTATATAAGTATATAAT
Found at i:21113998 original size:17 final size:17
Alignment explanation
Indices: 21113973--21114010 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
21113963 ATGCATCTCA
21113973 TTTAATTGTCATTGCAT
1 TTTAATTGTCATTGCAT
* *
21113990 TTTAGTTGTCGTTGCAT
1 TTTAATTGTCATTGCAT
21114007 TTTA
1 TTTA
21114011 CTTTGTAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.11, G:0.16, T:0.55
Consensus pattern (17 bp):
TTTAATTGTCATTGCAT
Found at i:21114034 original size:16 final size:17
Alignment explanation
Indices: 21114013--21114047 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
21114003 GCATTTTACT
*
21114013 TTGTAGTT-CATTTGCA
1 TTGTAGTTACATTTCCA
21114029 TTGTAGTTACATTTCCA
1 TTGTAGTTACATTTCCA
21114046 TT
1 TT
21114048 CTTATTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.51
Consensus pattern (17 bp):
TTGTAGTTACATTTCCA
Found at i:21120783 original size:26 final size:27
Alignment explanation
Indices: 21120748--21120816 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
21120738 AACAATTAAG
21120748 AATA-AATAAAAAAAA-CCTATTCTAA
1 AATATAATAAAAAAAATCCTATTCTAA
21120773 AATATAATAAAAGAAAATCCTATTCTAA
1 AATATAATAAAA-AAAATCCTATTCTAA
*
21120801 AA-ATAAGAAAGAAAAA
1 AATATAATAAA-AAAAA
21120817 AAAGAGAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
25 4 0.10
26 7 0.18
27 15 0.38
28 13 0.33
ACGTcount: A:0.65, C:0.09, G:0.04, T:0.22
Consensus pattern (27 bp):
AATATAATAAAAAAAATCCTATTCTAA
Found at i:21120789 original size:27 final size:28
Alignment explanation
Indices: 21120748--21120815 Score: 92
Period size: 26 Copynumber: 2.6 Consensus size: 28
21120738 AACAATTAAG
21120748 AATA-AATAAAA-AAAA-CCTATTCTAA
1 AATATAATAAAAGAAAATCCTATTCTAA
21120773 AATATAATAAAAGAAAATCCTATTCTAA
1 AATATAATAAAAGAAAATCCTATTCTAA
*
21120801 AA-ATAA-GAAAGAAAA
1 AATATAATAAAAGAAAA
21120816 AAAAGAGAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
25 4 0.10
26 15 0.38
27 8 0.21
28 12 0.31
ACGTcount: A:0.65, C:0.09, G:0.04, T:0.22
Consensus pattern (28 bp):
AATATAATAAAAGAAAATCCTATTCTAA
Found at i:21120817 original size:28 final size:28
Alignment explanation
Indices: 21120755--21120818 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
21120745 AAGAATAAAT
*
21120755 AAAAAAAACCTATTCTAAAATATAATAA
1 AAAAAAAACCTATTCTAAAATATAAGAA
* *
21120783 AAGAAAATCCTATTCTAAAA-ATAAGAA
1 AAAAAAAACCTATTCTAAAATATAAGAA
21120810 AGAAAAAAA
1 A-AAAAAAA
21120819 AGAGAAAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 7 0.23
28 23 0.77
ACGTcount: A:0.66, C:0.09, G:0.05, T:0.20
Consensus pattern (28 bp):
AAAAAAAACCTATTCTAAAATATAAGAA
Found at i:21122870 original size:26 final size:26
Alignment explanation
Indices: 21122840--21122908 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 26
21122830 AGCATTGTGC
21122840 CCAGAATTGTCGTTGCAGGAACT-TGT
1 CCAGAATTGTCGTTGCAGGAA-TATGT
* * ** *
21122866 TCAGAATTATCACTGCATGAATATGT
1 CCAGAATTGTCGTTGCAGGAATATGT
*
21122892 CCAGAGTTGTCGTTGCA
1 CCAGAATTGTCGTTGCA
21122909 TAAGCAGGTC
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
25 1 0.03
26 31 0.97
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (26 bp):
CCAGAATTGTCGTTGCAGGAATATGT
Found at i:21124048 original size:22 final size:22
Alignment explanation
Indices: 21124020--21124072 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
21124010 CTAACCTTCA
21124020 TTTGTTACTAATTTGTTTTCTT
1 TTTGTTACTAATTTGTTTTCTT
*
21124042 TTTGTTAGTAATTTGTTTTCTT
1 TTTGTTACTAATTTGTTTTCTT
21124064 TTTGTTACT
1 TTTGTTACT
21124073 GCTTTTACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.13, C:0.08, G:0.11, T:0.68
Consensus pattern (22 bp):
TTTGTTACTAATTTGTTTTCTT
Found at i:21125128 original size:76 final size:76
Alignment explanation
Indices: 21124997--21125149 Score: 297
Period size: 76 Copynumber: 2.0 Consensus size: 76
21124987 TGCTATATCT
*
21124997 ACTCTAAGTGCACAAATTTCTTCGCTCATAAACATGATAAAAATATGAAGGGAACTAGTGACGTT
1 ACTCAAAGTGCACAAATTTCTTCGCTCATAAACATGATAAAAATATGAAGGGAACTAGTGACGTT
21125062 ACACCCATTCA
66 ACACCCATTCA
21125073 ACTCAAAGTGCACAAATTTCTTCGCTCATAAACATGATAAAAATATGAAGGGAACTAGTGACGTT
1 ACTCAAAGTGCACAAATTTCTTCGCTCATAAACATGATAAAAATATGAAGGGAACTAGTGACGTT
21125138 ACACCCATTCA
66 ACACCCATTCA
21125149 A
1 A
21125150 GTTGCTCAAC
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.25
Consensus pattern (76 bp):
ACTCAAAGTGCACAAATTTCTTCGCTCATAAACATGATAAAAATATGAAGGGAACTAGTGACGTT
ACACCCATTCA
Found at i:21132072 original size:17 final size:17
Alignment explanation
Indices: 21132007--21132083 Score: 57
Period size: 17 Copynumber: 4.5 Consensus size: 17
21131997 TGTTAGTAAG
*
21132007 CATTGTCA-TCACATTCC
1 CATTGTCACT-ACATTTC
* * *
21132024 CATTATCATTACATTTT
1 CATTGTCACTACATTTC
* *
21132041 AATTGTCACTACATTTG
1 CATTGTCACTACATTTC
* *
21132058 CATTGTCATTGCATTTC
1 CATTGTCACTACATTTC
21132075 CATTTGTCA
1 CA-TTGTCA
21132084 GTGTAATTTA
Statistics
Matches: 47, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
17 40 0.85
18 7 0.15
ACGTcount: A:0.25, C:0.23, G:0.08, T:0.44
Consensus pattern (17 bp):
CATTGTCACTACATTTC
Found at i:21138317 original size:13 final size:13
Alignment explanation
Indices: 21138299--21138331 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
21138289 TATATTTTAC
21138299 ATTTATTAATATA
1 ATTTATTAATATA
21138312 ATTTATTAATATA
1 ATTTATTAATATA
21138325 ATTTATT
1 ATTTATT
21138332 TAACCTACGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATTTATTAATATA
Found at i:21141003 original size:42 final size:41
Alignment explanation
Indices: 21140927--21141008 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 41
21140917 TTTTTTTTAT
*
21140927 ATATTTTAGATTTTTAAAAAATTATAATTTTTTTAAAAATAC
1 ATATTTTAGATTTTTAAAAAATTATAA-TATTTTAAAAATAC
* *
21140969 ATATTTTAGAATTTTTATAAATATTTTAA-ATTTTAAAAAT
1 ATATTTTAG-ATTTTTA-AAAAATTATAATATTTTAAAAAT
21141009 TTATTTTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 19 0.54
43 7 0.20
44 9 0.26
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (41 bp):
ATATTTTAGATTTTTAAAAAATTATAATATTTTAAAAATAC
Found at i:21142925 original size:27 final size:27
Alignment explanation
Indices: 21142884--21142941 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
21142874 TTCTCTCTCC
* *
21142884 AAAAACTTAATTTTTTAAATTTAAAAA
1 AAAAACCTAAATTTTTAAATTTAAAAA
* *
21142911 AAAAACCTAAATTTTTAAATTTTATAA
1 AAAAACCTAAATTTTTAAATTTAAAAA
21142938 AAAA
1 AAAA
21142942 CGCATATTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (27 bp):
AAAAACCTAAATTTTTAAATTTAAAAA
Found at i:21144541 original size:50 final size:50
Alignment explanation
Indices: 21144480--21144686 Score: 252
Period size: 50 Copynumber: 4.1 Consensus size: 50
21144470 TATAATTATT
* * *
21144480 AGCTTATTTATGCGTTTACGCTCGCCAGCTTGCACACGTTTACGCTTGTC
1 AGCTTATTTATGCATTTACGCTCGCCAGCTTGCACACATTTACGCTCGTC
** * *
21144530 AATTTATTTATGCATTTACGCTCGCCAGCTTGCACACATTTATGCTCATC
1 AGCTTATTTATGCATTTACGCTCGCCAGCTTGCACACATTTACGCTCGTC
* ** * * *
21144580 AGCTTATTTCTGTGTTTATGCTCACCAGCTTGCTCACATTTACGCTCGTC
1 AGCTTATTTATGCATTTACGCTCGCCAGCTTGCACACATTTACGCTCGTC
* * * * *
21144630 GGCTTAATTATGCATTTACGCTCGCTAGCTTACACACTTTTACGCTCGTC
1 AGCTTATTTATGCATTTACGCTCGCCAGCTTGCACACATTTACGCTCGTC
21144680 AGCTTAT
1 AGCTTAT
21144687 ATTAATATAT
Statistics
Matches: 127, Mismatches: 30, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 127 1.00
ACGTcount: A:0.19, C:0.27, G:0.16, T:0.38
Consensus pattern (50 bp):
AGCTTATTTATGCATTTACGCTCGCCAGCTTGCACACATTTACGCTCGTC
Found at i:21144626 original size:24 final size:24
Alignment explanation
Indices: 21144542--21144626 Score: 62
Period size: 24 Copynumber: 3.5 Consensus size: 24
21144532 TTTATTTATG
* *
21144542 CATTTACGCTCGCCAGCTTGCACA
1 CATTTACGCTCACCAGCTTGCTCA
* * ** *
21144566 CATTTATGCTCATCAGCTTATTTCTG
1 CATTTACGCTCACCAGCTT-GCTC-A
** *
21144592 TGTTTATGCTCACCAGCTTGCTCA
1 CATTTACGCTCACCAGCTTGCTCA
21144616 CATTTACGCTC
1 CATTTACGCTC
21144627 GTCGGCTTAA
Statistics
Matches: 43, Mismatches: 16, Indels: 4
0.68 0.25 0.06
Matches are distributed among these distances:
24 24 0.56
25 3 0.07
26 16 0.37
ACGTcount: A:0.19, C:0.31, G:0.14, T:0.36
Consensus pattern (24 bp):
CATTTACGCTCACCAGCTTGCTCA
Found at i:21147699 original size:49 final size:49
Alignment explanation
Indices: 21147645--21147791 Score: 188
Period size: 49 Copynumber: 3.0 Consensus size: 49
21147635 TCCGTGTAAA
* * * *
21147645 ATTACATTTTTTTTATTTTATTTTGATTAGGATAAAGTTTTTCAACCTT
1 ATTACACTTATTTTATTTTATTTTGATTAGAATAAGGTTTTTCAACCTT
*
21147694 ATTACACTTATTTTATTTTATTTTGATTAGAATATGGTTTTTCAACCTT
1 ATTACACTTATTTTATTTTATTTTGATTAGAATAAGGTTTTTCAACCTT
* * * *
21147743 ACTACACTTCA-TCTATTTGACTTTGATTAGAATAAGGTTTTTTCAACCT
1 ATTACACTT-ATTTTATTTTATTTTGATTAGAATAAGG-TTTTTCAACCT
21147792 ATAAATAGAT
Statistics
Matches: 86, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
49 74 0.86
50 12 0.14
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (49 bp):
ATTACACTTATTTTATTTTATTTTGATTAGAATAAGGTTTTTCAACCTT
Found at i:21149261 original size:21 final size:21
Alignment explanation
Indices: 21149219--21149290 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
21149209 TGCAGACTTT
* ***
21149219 TACCGATACAAGTGACAGTTC
1 TACCAATACAAGTGATTCTTC
21149240 TACCAATACAAGTGATTCTTC
1 TACCAATACAAGTGATTCTTC
* *
21149261 TACCGAA-ATAAGT-CTTACTTC
1 TACC-AATACAAGTGATT-CTTC
21149282 TACCAATAC
1 TACCAATAC
21149291 TAAAAACTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 4 0.10
21 35 0.85
22 2 0.05
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (21 bp):
TACCAATACAAGTGATTCTTC
Found at i:21152285 original size:14 final size:14
Alignment explanation
Indices: 21152244--21152277 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
21152234 TCCTTTTGTA
21152244 TCATATTCAGCA-T
1 TCATATTCAGCATT
*
21152257 ACATATTCAGCATT
1 TCATATTCAGCATT
21152271 TCATATT
1 TCATATT
21152278 TAGTATTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (14 bp):
TCATATTCAGCATT
Found at i:21159689 original size:25 final size:26
Alignment explanation
Indices: 21159655--21159705 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
21159645 GGATGTTGAA
21159655 GAAGAAGAGAAAAGAGAA-GAAAAAG
1 GAAGAAGAGAAAAGAGAAGGAAAAAG
* *
21159680 GAAGAGGAGAGAAGAGAAGGAAAAAG
1 GAAGAAGAGAAAAGAGAAGGAAAAAG
21159706 AAAAAGAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (26 bp):
GAAGAAGAGAAAAGAGAAGGAAAAAG
Found at i:21160139 original size:17 final size:17
Alignment explanation
Indices: 21160117--21160164 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
21160107 TTTCATCTAG
21160117 TTGTCATTACATTTTAA
1 TTGTCATTACATTTTAA
* * *
21160134 TTGTCACTGCATTTTAC
1 TTGTCATTACATTTTAA
* *
21160151 TTGTTATCACATTT
1 TTGTCATTACATTT
21160165 GCATTGTAGT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.23, C:0.17, G:0.08, T:0.52
Consensus pattern (17 bp):
TTGTCATTACATTTTAA
Found at i:21168444 original size:41 final size:41
Alignment explanation
Indices: 21168349--21168564 Score: 274
Period size: 41 Copynumber: 5.2 Consensus size: 41
21168339 GAGTCGGAGA
* * * *
21168349 TCTTCCTTTTAA-ACAATCTTATGCTC-TACCGAGTCATAAG
1 TCTTCC-TTTAATATAATCTCATGCTCATCCCGAGTCATGAG
**
21168389 TCTTCCTTTAAATATAATCTCATGCTCATCCCGAGTCACAAG
1 TCTTCCTTT-AATATAATCTCATGCTCATCCCGAGTCATGAG
*
21168431 TCTTCCTTTAATATAATCTCATGCTCATCCCGAGACATGAG
1 TCTTCCTTTAATATAATCTCATGCTCATCCCGAGTCATGAG
**** *
21168472 TCTTCCTTTAATATAATCTCATGCTCATTTTAAGTCACGAG
1 TCTTCCTTTAATATAATCTCATGCTCATCCCGAGTCATGAG
*
21168513 TCTTCCTTTAATATAATCTCATGCTCATCCCGAGACATGAG
1 TCTTCCTTTAATATAATCTCATGCTCATCCCGAGTCATGAG
21168554 TCTTCCATTTA
1 TCTTCC-TTTA
21168565 TACTTCAAGT
Statistics
Matches: 153, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
39 3 0.02
40 8 0.05
41 117 0.76
42 25 0.16
ACGTcount: A:0.27, C:0.26, G:0.10, T:0.37
Consensus pattern (41 bp):
TCTTCCTTTAATATAATCTCATGCTCATCCCGAGTCATGAG
Found at i:21177851 original size:17 final size:17
Alignment explanation
Indices: 21177826--21177868 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
21177816 ATGCATCTCA
21177826 TTTAATTGTCATTGCAT
1 TTTAATTGTCATTGCAT
* *
21177843 TTTAGTTGTCGTTGCAT
1 TTTAATTGTCATTGCAT
*
21177860 TTTACTTGT
1 TTTAATTGT
21177869 TAGTTCATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.56
Consensus pattern (17 bp):
TTTAATTGTCATTGCAT
Found at i:21181413 original size:192 final size:192
Alignment explanation
Indices: 21181077--21181436 Score: 483
Period size: 192 Copynumber: 1.9 Consensus size: 192
21181067 ATGAAGTGAT
* *
21181077 CGGTACCCTCACATCAGAAACAGGCTCCCTTAATCAATCGACATTCACCTAAATGGGTTCTTTTG
1 CGGTACCCCCACATCAGAAACAGGCTCCCTTAATCAATCGACATTCACCTAAATGGATTCTTTTG
* * * *
21181142 CAATGCTCACACAATAATTTTGGTGCATTACGAACACTAGCCACACTGTTAGCTGATCGATTATG
66 CAATGCTCACACAATAACTTCGGTGCATTACGAACACTAGCCACACTGTCAGCTGACCGATTATG
*
21181207 AAATCTAGACTCTGGTGGCCCTGATCGGCTCCTACTCAGATCATTAGGCAGTTCCACATAAG
131 AAATCTAAACTCTGGTGGCCCTGATCGGCTCCTACTCAGATCATTAGGCAGTTCCACATAAG
* * *
21181269 CGGTACCCCCACATC-GAAAACATGCTCCCTTAATCAATCGACATTTACCTGAATGGATTCTTTT
1 CGGTACCCCCACATCAG-AAACAGGCTCCCTTAATCAATCGACATTCACCTAAATGGATTCTTTT
* * * ** * * * * *
21181333 TCAATGCTCACATATTGGCTTCGGTGCGTTACGAACACTAGTCATATTGTCAGCT-AGCCGATTC
65 GCAATGCTCACACAATAACTTCGGTGCATTACGAACACTAGCCACACTGTCAGCTGA-CCGATTA
*
21181397 TGAAAT-TCAAACTCTGGTGGCCCTGGTCGGCTCCTACTCA
129 TGAAATCT-AAACTCTGGTGGCCCTGATCGGCTCCTACTCA
21181437 AAAATCTGAA
Statistics
Matches: 144, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
191 3 0.02
192 141 0.98
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (192 bp):
CGGTACCCCCACATCAGAAACAGGCTCCCTTAATCAATCGACATTCACCTAAATGGATTCTTTTG
CAATGCTCACACAATAACTTCGGTGCATTACGAACACTAGCCACACTGTCAGCTGACCGATTATG
AAATCTAAACTCTGGTGGCCCTGATCGGCTCCTACTCAGATCATTAGGCAGTTCCACATAAG
Found at i:21194276 original size:16 final size:16
Alignment explanation
Indices: 21194233--21194283 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
21194223 GGAACTTGTG
21194233 AAGACAGAAG-AGGAAA
1 AAGA-AGAAGAAGGAAA
*
21194249 AAGAAGAGGAAGGAAA
1 AAGAAGAAGAAGGAAA
21194265 AA-AAGTAAGAAGAGAAA
1 AAGAAG-AAGAAG-GAAA
21194282 AA
1 AA
21194284 CCTGATGTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 7 0.23
16 17 0.57
17 6 0.20
ACGTcount: A:0.67, C:0.02, G:0.29, T:0.02
Consensus pattern (16 bp):
AAGAAGAAGAAGGAAA
Found at i:21195309 original size:2 final size:2
Alignment explanation
Indices: 21195296--21195478 Score: 138
Period size: 2 Copynumber: 93.0 Consensus size: 2
21195286 CCTCAATCAC
* * *
21195296 AT AT AT AA AT AT AT AT AT GT AT AT AT AC AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * **
21195337 AT AC AT AC AT AT AT AT AT A- AT AT AT AC AT AT AT AT AT AT GC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * *
21195378 AT AT AT AC AC AT AT AC AT AA AA AT AT AT AT AT GT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* ** * * * *
21195420 AT AT AT AT AT GT AT GC AT AT AC AC AT AT AC AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
21195462 CT AT AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
21195479 GTATTATACA
Statistics
Matches: 139, Mismatches: 39, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
1 3 0.02
2 136 0.98
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.42
Consensus pattern (2 bp):
AT
Found at i:21195350 original size:23 final size:23
Alignment explanation
Indices: 21195294--21195375 Score: 96
Period size: 23 Copynumber: 3.6 Consensus size: 23
21195284 TCCCTCAATC
* * *
21195294 ACATATATAAATATATATATGTAT
1 ACATACATATATATATA-ATATAT
*
21195318 ATATAC--ATATATATAATATAT
1 ACATACATATATATATAATATAT
21195339 ACATACATATATATATAATATAT
1 ACATACATATATATATAATATAT
*
21195362 ACATATATATATAT
1 ACATACATATATAT
21195376 GCATATATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
21 10 0.20
22 8 0.16
23 28 0.56
24 4 0.08
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.41
Consensus pattern (23 bp):
ACATACATATATATATAATATAT
Done.