Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 289 of 318
Found at i:92170571 original size:35 final size:35
Alignment explanation
Indices: 92170521--92170773 Score: 208
Period size: 35 Copynumber: 7.3 Consensus size: 35
92170511 TCCATGGCAA
*
92170521 AGTTATGACAC-TAGGTATGGTATTGTCCATACTG
1 AGTTATGAAACGTAGGTATGGTATTGTCCATACTG
* * * *
92170555 AGCTATGACATGTAGGTATGGTATT-TCCCATACCG
1 AGTTATGAAACGTAGGTATGGTATTGT-CCATACTG
* * ** *
92170590 AGTTGTGAAACATAGGTATGACATTGTCCATATTG
1 AGTTATGAAACGTAGGTATGGTATTGTCCATACTG
* * * *
92170625 AGTTATAAAACATAGGTATGGTATTATCCATACCG
1 AGTTATGAAACGTAGGTATGGTATTGTCCATACTG
* * * * * *
92170660 AGCTAT-AATACGCAGATATGGCATT-TCTTATACCG
1 AGTTATGAA-ACGTAGGTATGGTATTGTC-CATACTG
* * *
92170695 AGTTTTGAAACGTAGGCATGGTATTGTCCATATTG
1 AGTTATGAAACGTAGGTATGGTATTGTCCATACTG
* * **
92170730 AGCTATGAAACGTAGATATGGTATTAACCATACTG
1 AGTTATGAAACGTAGGTATGGTATTGTCCATACTG
92170765 AGTTATGAA
1 AGTTATGAA
92170774 TTGTGGCACT
Statistics
Matches: 170, Mismatches: 42, Indels: 13
0.76 0.19 0.06
Matches are distributed among these distances:
34 14 0.08
35 151 0.89
36 5 0.03
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (35 bp):
AGTTATGAAACGTAGGTATGGTATTGTCCATACTG
Found at i:92170693 original size:105 final size:105
Alignment explanation
Indices: 92170532--92170762 Score: 282
Period size: 105 Copynumber: 2.2 Consensus size: 105
92170522 GTTATGACAC
* * * * * * *
92170532 TAGGTATGGTATTGTCCATACTGAGCTATGACATGTAGGTATGGTATTTCCCATACCGAGTTGTG
1 TAGGTATGGTATTATCCATACCGAGCTATAACACGCAGATATGGCATTTCCCATACCGAGTTGTG
* *
92170597 AAACATAGGTATGACATTGTCCATATTGAGTTATAAAACA
66 AAACATAGGCATGACATTGTCCATATTGAGCTATAAAACA
* ** *
92170637 TAGGTATGGTATTATCCATACCGAGCTATAATACGCAGATATGGCATTTCTTATACCGAGTTTTG
1 TAGGTATGGTATTATCCATACCGAGCTATAACACGCAGATATGGCATTTCCCATACCGAGTTGTG
* ** * *
92170702 AAACGTAGGCATGGTATTGTCCATATTGAGCTATGAAACG
66 AAACATAGGCATGACATTGTCCATATTGAGCTATAAAACA
* *
92170742 TAGATATGGTATTAACCATAC
1 TAGGTATGGTATTATCCATAC
92170763 TGAGTTATGA
Statistics
Matches: 106, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
105 106 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (105 bp):
TAGGTATGGTATTATCCATACCGAGCTATAACACGCAGATATGGCATTTCCCATACCGAGTTGTG
AAACATAGGCATGACATTGTCCATATTGAGCTATAAAACA
Found at i:92175438 original size:35 final size:35
Alignment explanation
Indices: 92175399--92175677 Score: 269
Period size: 35 Copynumber: 8.0 Consensus size: 35
92175389 ATGGCAAAGT
* * * *
92175399 TATGACACATAGGTATAGTATTGTCCATAGTGAGC
1 TATGAAACGTAGGTATGGTATTGTCCATACTGAGC
* * * *
92175434 TATGACACGTAGGTATAGTATTATCCATACCGAGC
1 TATGAAACGTAGGTATGGTATTGTCCATACTGAGC
* * *
92175469 TAT-AATACGTAGGTATGATATT-TCCCATATTGAGT
1 TATGAA-ACGTAGGTATGGTATTGT-CCATACTGAGC
* **
92175504 TGTGAAACGTAGGTATAATATTGTCCATACTGAGC
1 TATGAAACGTAGGTATGGTATTGTCCATACTGAGC
* * * * *
92175539 TATGAAACATATGTATGGTATTATCCATACCGAGG
1 TATGAAACGTAGGTATGGTATTGTCCATACTGAGC
* ** *
92175574 TAT-AATACGTAGTTATGGTATT-TCTCATACCAAGT
1 TATGAA-ACGTAGGTATGGTATTGTC-CATACTGAGC
92175609 TATGAAACGTAGGTATGGTATTGTCCATACTGAGC
1 TATGAAACGTAGGTATGGTATTGTCCATACTGAGC
**
92175644 TATGAAACGTAGGTATGGTATTAACCATACTGAG
1 TATGAAACGTAGGTATGGTATTGTCCATACTGAG
92175678 TTGTGAATCG
Statistics
Matches: 203, Mismatches: 33, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
34 6 0.03
35 190 0.94
36 7 0.03
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (35 bp):
TATGAAACGTAGGTATGGTATTGTCCATACTGAGC
Found at i:92175596 original size:105 final size:105
Alignment explanation
Indices: 92175395--92175673 Score: 396
Period size: 105 Copynumber: 2.7 Consensus size: 105
92175385 ATCCATGGCA
* * * * *
92175395 AAGTTATGACACATAGGTATAGTATTGTCCATAGTGAGCTATGACACGTAGGTATAGTATTATCC
1 AAGTTATGAAACGTAGGTATAGTATTGTCCATACTGAGCTATGAAACGTAGGTATGGTATTATCC
**
92175460 ATACCGAGCTATAATACGTAGGTATGATATTTCCCATATT
66 ATACCGAGCTATAATACGTAGGTATGATATTTCCCATACC
* * * * *
92175500 GAGTTGTGAAACGTAGGTATAATATTGTCCATACTGAGCTATGAAACATATGTATGGTATTATCC
1 AAGTTATGAAACGTAGGTATAGTATTGTCCATACTGAGCTATGAAACGTAGGTATGGTATTATCC
* * * *
92175565 ATACCGAGGTATAATACGTAGTTATGGTATTTCTCATACC
66 ATACCGAGCTATAATACGTAGGTATGATATTTCCCATACC
* *
92175605 AAGTTATGAAACGTAGGTATGGTATTGTCCATACTGAGCTATGAAACGTAGGTATGGTATTAACC
1 AAGTTATGAAACGTAGGTATAGTATTGTCCATACTGAGCTATGAAACGTAGGTATGGTATTATCC
92175670 ATAC
66 ATAC
92175674 TGAGTTGTGA
Statistics
Matches: 151, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
105 151 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.33
Consensus pattern (105 bp):
AAGTTATGAAACGTAGGTATAGTATTGTCCATACTGAGCTATGAAACGTAGGTATGGTATTATCC
ATACCGAGCTATAATACGTAGGTATGATATTTCCCATACC
Found at i:92176595 original size:46 final size:46
Alignment explanation
Indices: 92176370--92176597 Score: 305
Period size: 46 Copynumber: 5.0 Consensus size: 46
92176360 TTATCTTTGA
* * * * *
92176370 CATGATGCCATAGTGTCTTTCAACTATAGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* * *
92176416 CATGTTGCCATGGAATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
92176462 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
92176508 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
*
92176554 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
92176598 TTCAGAGAGC
Statistics
Matches: 166, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 162 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:92178485 original size:31 final size:31
Alignment explanation
Indices: 92178430--92178510 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 31
92178420 TTATATACTA
*
92178430 ATAAAATAATAAAATATCTTATTAAA-ATATT
1 ATAAAATAATAAAATATCTAATTAAATA-ATT
**
92178461 GATAAAATAAT-ATTTATCTAATTAAATAATT
1 -ATAAAATAATAAAATATCTAATTAAATAATT
92178492 ATAAAAT-ATCAAAATATCT
1 ATAAAATAAT-AAAATATCT
92178511 CTAGCATCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
29 2 0.05
30 7 0.17
31 21 0.51
32 11 0.27
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (31 bp):
ATAAAATAATAAAATATCTAATTAAATAATT
Found at i:92183838 original size:21 final size:22
Alignment explanation
Indices: 92183799--92183839 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
92183789 CCGAATTGGT
92183799 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
92183821 CACACGGGCGTG-TGCCCCT
1 CACACGGGCGTGTTGCCCCT
92183840 GTGTCTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.10, C:0.44, G:0.29, T:0.17
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTCC
Found at i:92184427 original size:30 final size:30
Alignment explanation
Indices: 92184360--92184429 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
92184350 TTTAATAGTC
*
92184360 TATAATTTT-ATAATTTTTAAAGGATTAAA
1 TATAATTTTAATAATTTTTAAAGGACTAAA
* *
92184389 TCAAAATTTTAAT-ATTTTTAAAGGGCTAAA
1 T-ATAATTTTAATAATTTTTAAAGGACTAAA
92184419 GTATAATTTTA
1 -TATAATTTTA
92184430 CTTTTACTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
29 1 0.03
30 30 0.88
31 3 0.09
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.46
Consensus pattern (30 bp):
TATAATTTTAATAATTTTTAAAGGACTAAA
Found at i:92203945 original size:18 final size:18
Alignment explanation
Indices: 92203922--92203962 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
92203912 TTAACCAGAC
* *
92203922 TTTATTAGATGTTTATGT
1 TTTATTAGATATTTATAT
*
92203940 TTTATTAGCTATTTATAT
1 TTTATTAGATATTTATAT
92203958 TTTAT
1 TTTAT
92203963 ATAAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.63
Consensus pattern (18 bp):
TTTATTAGATATTTATAT
Found at i:92208432 original size:27 final size:26
Alignment explanation
Indices: 92208384--92208542 Score: 187
Period size: 27 Copynumber: 5.9 Consensus size: 26
92208374 GTGAAGCTGC
* *
92208384 CAGATATTGTGAC-GAAGTCACCAGAAA
1 CAGATATTGTGGCAG-AGCCACCAG-AA
92208411 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
92208437 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAA
* *
92208464 CAGATAATCGTGGCATAGCCACCAGAA
1 CAGAT-ATTGTGGCAGAGCCACCAGAA
*
92208491 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAA
92208518 CAGATAATTGTGGC-GTAGCCACCAG
1 CAGAT-ATTGTGGCAG-AGCCACCAG
92208543 GACGCTTCCT
Statistics
Matches: 117, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
26 12 0.10
27 100 0.85
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:92208478 original size:54 final size:54
Alignment explanation
Indices: 92208402--92208542 Score: 223
Period size: 54 Copynumber: 2.6 Consensus size: 54
92208392 GTGACGAAGT
*
92208402 CACCAGAAACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAG-ATCAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
* *
92208456 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
92208510 CACCAGATCAGATAATTGTGGC-GTAGCCACCAG
1 CACCAGATCAGATAATTGTGGCAG-AGCCACCAG
92208543 GACGCTTCCT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
53 6 0.08
54 74 0.93
ACGTcount: A:0.35, C:0.24, G:0.25, T:0.16
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:92210192 original size:26 final size:26
Alignment explanation
Indices: 92210161--92210268 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
92210151 TGAAATGTCC
*
92210161 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
92210187 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
92210213 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
92210239 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
92210265 ATCA
1 ATCA
92210269 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:92211195 original size:15 final size:15
Alignment explanation
Indices: 92211174--92211210 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
92211164 AACTATTTTA
92211174 AGGTTTAGGGATTAT
1 AGGTTTAGGGATTAT
*
92211189 GGGTTTAGGGATTAT
1 AGGTTTAGGGATTAT
92211204 AGGTTTA
1 AGGTTTA
92211211 AAGGTTAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (15 bp):
AGGTTTAGGGATTAT
Found at i:92211708 original size:21 final size:21
Alignment explanation
Indices: 92211684--92211757 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
92211674 GCAAATCTCT
*
92211684 AACCGTAAACCCTAAACTATA
1 AACCTTAAACCCTAAACTATA
*
92211705 AACCTTAAACCATAAA-TATTA
1 AACCTTAAACCCTAAACTA-TA
* * *
92211726 AACCTTGAATCCTAAACCATAA
1 AACCTTAAACCCTAAACTAT-A
*
92211748 AACCCTAAAC
1 AACCTTAAAC
92211758 TATAGATAGT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
20 2 0.05
21 30 0.73
22 9 0.22
ACGTcount: A:0.49, C:0.27, G:0.03, T:0.22
Consensus pattern (21 bp):
AACCTTAAACCCTAAACTATA
Found at i:92211900 original size:21 final size:21
Alignment explanation
Indices: 92211851--92211903 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
92211841 TATAAAACTT
* * *
92211851 AAAACTATGAACCCTAAATCT
1 AAAACCATAAACCCTAAATCC
* *
92211872 TAATCCATAAACCCTAAATCC
1 AAAACCATAAACCCTAAATCC
92211893 AAAACCATAAA
1 AAAACCATAAA
92211904 ACCTTAAACT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.51, C:0.26, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAACCATAAACCCTAAATCC
Found at i:92212264 original size:3 final size:3
Alignment explanation
Indices: 92212256--92212296 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
92212246 ATTAATAGTA
92212256 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
92212297 AAGAGAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:92212653 original size:74 final size:74
Alignment explanation
Indices: 92212551--92212696 Score: 181
Period size: 75 Copynumber: 1.9 Consensus size: 74
92212541 TTTTCACTAG
*
92212551 AAAACGCCACAAACATCTATTAATAGATTGCAAAACGA-CGTC-GTTATAACCTTGTTATTAGTG
1 AAAACGCCACAAACATCTA-TAAGAGATTGCAAAAC-ATCGTCAGTTATAACCTT-TTATTAGTG
92212614 GCGCTTTTTAGA
63 GCGCTTTTTAGA
* * * *
92212626 AAAATGCCACAAAACATCTA-AAGAGATTTCAAAACATCGTCATTTTATAGCCTTTTATTAGTGG
1 AAAACGCCAC-AAACATCTATAAGAGATTGCAAAACATCGTCA-GTTATAACCTTTTATTAGTGG
92212690 CGCTTTT
64 CGCTTTT
92212697 ATAAACACCA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
73 1 0.02
74 17 0.27
75 26 0.42
76 18 0.29
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.32
Consensus pattern (74 bp):
AAAACGCCACAAACATCTATAAGAGATTGCAAAACATCGTCAGTTATAACCTTTTATTAGTGGCG
CTTTTTAGA
Found at i:92212686 original size:188 final size:187
Alignment explanation
Indices: 92212413--92212825 Score: 453
Period size: 188 Copynumber: 2.2 Consensus size: 187
92212403 TTTTGAAGCT
**
92212413 TTGTTATTAGTGGCGCTTTTCAAAAAACGCCACAAAACATCTATTAAGAAAATGTAAAATGGCGT
1 TTGTTATTAGTGGCGCTTTTCAAAAAACGCCACAAAACATCTA-TAAGAAAATGTAAAACAGCGT
* * * * *
92212478 CGTTTACATCCTTGTTATTAGTGGCGCTTCTATAAACGCCGCAACAGGTGTGAATTA-TCGGCGT
65 CGTTTACAGCCTTGTTATTAGTGGCGCTTCTATAAACACCACAAAAGGTGTGAAATACT-GGCGT
* * *
92212542 TTTCACTAGAAAACGCCACAAACATCTATTAATAGATTGCAAAACGACGTCGTTATAACC
129 TTTCACCAG-AAACACCACAAAAATCTATTAATAGATTGCAAAACGACGTCGTTATAACC
* * * * *
92212602 TTGTTATTAGTGGCGCTTTTTAGAAAAATGCCACAAAACATCTA-AAG-AGATTTCAAAACATCG
1 TTGTTATTAGTGGCGCTTTTCA-AAAAACGCCACAAAACATCTATAAGAAAATGT-AAAACAGCG
* * *
92212665 TCATTTTATAGCCTT-TTATTAGTGGCGCTTTTATAAACACCACAAAAGGTGTGAAATACTGGCG
64 TC-GTTTACAGCCTTGTTATTAGTGGCGCTTCTATAAACACCACAAAAGGTGTGAAATACTGGCG
** * * *
92212729 TTTTCACCAGAAACACCACAAAAATCTATTACCAGATTGTAAAAACTG-CGTCGTTTGTATCC
128 TTTTCACCAGAAACACCACAAAAATCTATTAATAGATTG-CAAAAC-GACGTCG-TTATAACC
* * *
92212791 TTCTAATTAGTGGC-ATTTT-ATAAAAACGCCACAAA
1 TTGTTATTAGTGGCGCTTTTCA-AAAAACGCCACAAA
92212826 TATTTATTAA
Statistics
Matches: 189, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
187 43 0.23
188 76 0.40
189 50 0.26
190 20 0.11
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (187 bp):
TTGTTATTAGTGGCGCTTTTCAAAAAACGCCACAAAACATCTATAAGAAAATGTAAAACAGCGTC
GTTTACAGCCTTGTTATTAGTGGCGCTTCTATAAACACCACAAAAGGTGTGAAATACTGGCGTTT
TCACCAGAAACACCACAAAAATCTATTAATAGATTGCAAAACGACGTCGTTATAACC
Found at i:92214947 original size:24 final size:24
Alignment explanation
Indices: 92214920--92214966 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
92214910 ATTATTATTG
*
92214920 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
92214944 AAATATTATCGTCCGTTTTATCA
1 AAATATTATCGTCCGTTTTATCA
92214967 TTTAAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:92215203 original size:15 final size:14
Alignment explanation
Indices: 92215181--92215305 Score: 68
Period size: 15 Copynumber: 9.2 Consensus size: 14
92215171 TCAATCTTAT
92215181 TTTAATTAATATAA
1 TTTAATTAATATAA
*
92215195 TTTAGATTAAT-TTA
1 TTTA-ATTAATATAA
*
92215209 TTT-A--AATATTA
1 TTTAATTAATATAA
92215220 TTTAATTAATATAA
1 TTTAATTAATATAA
* * *
92215234 TTTGGATTGAT-TTA
1 TTT-AATTAATATAA
* *
92215248 TCT-A--AATATTA
1 TTTAATTAATATAA
92215259 TTTAATTAATATAA
1 TTTAATTAATATAA
* *
92215273 TTTTTATAAATATAA
1 -TTTAATTAATATAA
*
92215288 TTTAAATTAAAATAA
1 TTT-AATTAATATAA
92215303 TTT
1 TTT
92215306 TTTTCCATGT
Statistics
Matches: 85, Mismatches: 14, Indels: 23
0.70 0.11 0.19
Matches are distributed among these distances:
10 5 0.06
11 11 0.13
12 4 0.05
14 31 0.36
15 34 0.40
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (14 bp):
TTTAATTAATATAA
Found at i:92215206 original size:19 final size:18
Alignment explanation
Indices: 92215182--92215297 Score: 67
Period size: 19 Copynumber: 6.2 Consensus size: 18
92215172 CAATCTTATT
92215182 TTAATTAATATAATTTAGA
1 TTAATTAATATAATTTA-A
* * *
92215201 TTAATTTATTTAAATATTAT
1 TTAATTAATAT-AAT-TTAA
*
92215221 TTAATTAATATAATTTGGA
1 TTAATTAATATAATTT-AA
* * * *
92215240 TTGATTTATCTAAATATTAT
1 TTAATTAATAT-AAT-TTAA
92215260 TTAATTAATATAATTT--
1 TTAATTAATATAATTTAA
*
92215276 TT-ATAAATATAATTTAAA
1 TTAATTAATATAATTT-AA
92215294 TTAA
1 TTAA
92215298 AATAATTTTT
Statistics
Matches: 72, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
15 12 0.17
16 2 0.03
18 6 0.08
19 24 0.33
20 23 0.32
21 5 0.07
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (18 bp):
TTAATTAATATAATTTAA
Found at i:92215213 original size:24 final size:24
Alignment explanation
Indices: 92215181--92215235 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
92215171 TCAATCTTAT
92215181 TTTAATT-AATATAATTTAGATTAA
1 TTTAATTAAATATAATTTA-ATTAA
* *
92215205 TTTATTTAAATATTATTTAATTAA
1 TTTAATTAAATATAATTTAATTAA
*
92215229 TATAATT
1 TTTAATT
92215236 TGGATTGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTAATTAAATATAATTTAATTAA
Found at i:92215225 original size:39 final size:39
Alignment explanation
Indices: 92215181--92215275 Score: 163
Period size: 39 Copynumber: 2.4 Consensus size: 39
92215171 TCAATCTTAT
*
92215181 TTTAATTAATATAATTTAGATTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTAGATTAATTTATCTAAATATTA
* *
92215220 TTTAATTAATATAATTTGGATTGATTTATCTAAATATTA
1 TTTAATTAATATAATTTAGATTAATTTATCTAAATATTA
92215259 TTTAATTAATATAATTT
1 TTTAATTAATATAATTT
92215276 TTATAAATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (39 bp):
TTTAATTAATATAATTTAGATTAATTTATCTAAATATTA
Found at i:92215226 original size:20 final size:20
Alignment explanation
Indices: 92215201--92215272 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
92215191 ATAATTTAGA
*
92215201 TTAATTTATTTAAATATTAT
1 TTAATTTATATAAATATTAT
*
92215221 TTAATTAATAT-AAT-TTGGA-
1 TTAATTTATATAAATATT--AT
* *
92215240 TTGATTTATCTAAATATTAT
1 TTAATTTATATAAATATTAT
*
92215260 TTAATTAATATAA
1 TTAATTTATATAA
92215273 TTTTTATAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
18 2 0.05
19 12 0.31
20 23 0.59
21 2 0.05
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (20 bp):
TTAATTTATATAAATATTAT
Found at i:92215236 original size:25 final size:25
Alignment explanation
Indices: 92215188--92215236 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
92215178 TATTTTAATT
*
92215188 AATATAATTTAGATTAATTTATTTA
1 AATATAATTTAGATTAATTAATTTA
*
92215213 AATATTATTTA-ATTAATATAATTT
1 AATATAATTTAGATTAAT-TAATTT
92215237 GGATTGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
AATATAATTTAGATTAATTAATTTA
Found at i:92215282 original size:29 final size:30
Alignment explanation
Indices: 92215250--92215307 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
92215240 TTGATTTATC
* *
92215250 TAAATATTATTT-AATTAATATAATTTTTA
1 TAAATATAATTTAAATTAAAATAATTTTTA
92215279 TAAATATAATTTAAATTAAAATAATTTTT
1 TAAATATAATTTAAATTAAAATAATTTTT
92215308 TTCCATGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
TAAATATAATTTAAATTAAAATAATTTTTA
Found at i:92215595 original size:9 final size:9
Alignment explanation
Indices: 92215578--92215610 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
92215568 TATATACTTG
92215578 AACTTACAT
1 AACTTACAT
*
92215587 AACTCACAT
1 AACTTACAT
92215596 AACTTACAT
1 AACTTACAT
92215605 AACTTA
1 AACTTA
92215611 ATTATACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (9 bp):
AACTTACAT
Found at i:92217129 original size:13 final size:14
Alignment explanation
Indices: 92217113--92217141 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
92217103 TTATAAATAT
92217113 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
92217126 TTATAATGGTTTAA
1 TTATAATGGTTTAA
92217140 TT
1 TT
92217142 TGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:92217582 original size:21 final size:21
Alignment explanation
Indices: 92217554--92217616 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
92217544 TAGAGCGGAT
92217554 GCAGCAGCGAGGGAGGCAGCA-
1 GCAGCAGCGAGGGAGGCAG-AG
** *
92217575 TTAGCAGCGAGAGAGGCAGAG
1 GCAGCAGCGAGGGAGGCAGAG
92217596 GCAGCAGCGAGGGAGGCAGAG
1 GCAGCAGCGAGGGAGGCAGAG
92217617 CAAAGCAGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 1 0.03
21 34 0.97
ACGTcount: A:0.30, C:0.19, G:0.48, T:0.03
Consensus pattern (21 bp):
GCAGCAGCGAGGGAGGCAGAG
Found at i:92217900 original size:31 final size:31
Alignment explanation
Indices: 92217858--92217918 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
92217848 TTTAATTTTT
*
92217858 ATGCTACATTTGCTGTTTTTGGTTGGATTTC
1 ATGCTACATTTGCTGTTATTGGTTGGATTTC
*
92217889 ATGCTATATTTGCTGTTATTGGTTGGATTT
1 ATGCTACATTTGCTGTTATTGGTTGGATTT
92217919 AATGTAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.15, C:0.10, G:0.23, T:0.52
Consensus pattern (31 bp):
ATGCTACATTTGCTGTTATTGGTTGGATTTC
Found at i:92218047 original size:43 final size:43
Alignment explanation
Indices: 92217999--92218281 Score: 386
Period size: 43 Copynumber: 6.6 Consensus size: 43
92217989 AAAAAGCGCT
*
92217999 GCTAAAAGCCATGACTATTAGCGGCGCCTCTCCCACAAACGCC
1 GCTAAAGGCCATGACTATTAGCGGCGCCTCTCCCACAAACGCC
* *
92218042 GCTAAAAGCCATGACTTTTAGCGGCGCCTCTCCCACAAACGCC
1 GCTAAAGGCCATGACTATTAGCGGCGCCTCTCCCACAAACGCC
** *
92218085 GCTAAAATCCATGACTATTAGCGGCACCTCTCCCACAAACGCC
1 GCTAAAGGCCATGACTATTAGCGGCGCCTCTCCCACAAACGCC
* * * *
92218128 GCTAAAGGCCATGCCTAGTAGCGGCGCTTCTCTCACAAACGCC
1 GCTAAAGGCCATGACTATTAGCGGCGCCTCTCCCACAAACGCC
** * *
92218171 GCTAAAGGCCATGACTATTAGCGGCGTTTCTCCCGCAAAAGCC
1 GCTAAAGGCCATGACTATTAGCGGCGCCTCTCCCACAAACGCC
* * * * *
92218214 GCTAAAGGACATGACTTTTAGCAGCGCTTCTCTCACAAACGCC
1 GCTAAAGGCCATGACTATTAGCGGCGCCTCTCCCACAAACGCC
*
92218257 GCTAAAGGCCATGACTTTTAGCGGC
1 GCTAAAGGCCATGACTATTAGCGGC
92218282 ATTTTTTTAA
Statistics
Matches: 214, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 214 1.00
ACGTcount: A:0.27, C:0.34, G:0.20, T:0.20
Consensus pattern (43 bp):
GCTAAAGGCCATGACTATTAGCGGCGCCTCTCCCACAAACGCC
Found at i:92219988 original size:18 final size:18
Alignment explanation
Indices: 92219962--92219998 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
92219952 CCAGACTTTG
92219962 TTAGATATTTATATTTTA
1 TTAGATATTTATATTTTA
*
92219980 TTAGCTATTTATATTTTA
1 TTAGATATTTATATTTTA
92219998 T
1 T
92219999 ATAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (18 bp):
TTAGATATTTATATTTTA
Found at i:92232083 original size:44 final size:44
Alignment explanation
Indices: 92232033--92232123 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
92232023 GTATGTCAAA
* *
92232033 TAATATTAAAATAACCTATACTAATCAGAGTTTAAGT-AGGAAAC
1 TAATATTAAAATAACCTACACTAATAAGAGTTTAAGTGA-GAAAC
*
92232077 TAATATTAAAATAACTTACACTAATAAGAGTTTAAGTGAGAAAC
1 TAATATTAAAATAACCTACACTAATAAGAGTTTAAGTGAGAAAC
92232121 TAA
1 TAA
92232124 AAACAGAGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 42 0.98
45 1 0.02
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.30
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATAAGAGTTTAAGTGAGAAAC
Found at i:92235226 original size:17 final size:18
Alignment explanation
Indices: 92235184--92235233 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
92235174 CTTTTGGTAA
92235184 CATATTATATATTGTATAGT
1 CATATTATAT-TT-TATAGT
*
92235204 TA-ATTATATTTTATA-T
1 CATATTATATTTTATAGT
92235220 CATATTAT-TTTTAT
1 CATATTATATTTTAT
92235234 GTCGCATGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 8 0.30
17 9 0.33
18 2 0.07
19 7 0.26
20 1 0.04
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (18 bp):
CATATTATATTTTATAGT
Found at i:92238576 original size:54 final size:54
Alignment explanation
Indices: 92238496--92238604 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
92238486 ACACGCCTAA
92238496 TATTATCAAAGAACAATACGCCCAAGCATTCATCCTGAGGTTAATCGAGGACAT
1 TATTATCAAAGAACAATACGCCCAAGCATTCATCCTGAGGTTAATCGAGGACAT
*
92238550 TATTATCAAAGAACAATACGCCCAAGCATTCATCCTGAGGTTAATTGAGGACAT
1 TATTATCAAAGAACAATACGCCCAAGCATTCATCCTGAGGTTAATCGAGGACAT
92238604 T
1 T
92238605 CTAATGCTAG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (54 bp):
TATTATCAAAGAACAATACGCCCAAGCATTCATCCTGAGGTTAATCGAGGACAT
Found at i:92239571 original size:9 final size:9
Alignment explanation
Indices: 92239551--92239581 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
92239541 AAAATATCTT
92239551 ATTAATTTTA
1 ATTAA-TTTA
92239561 ATTAATTTA
1 ATTAATTTA
92239570 ATTAATTTA
1 ATTAATTTA
92239579 ATT
1 ATT
92239582 TTACTTAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTAATTTA
Found at i:92239601 original size:24 final size:24
Alignment explanation
Indices: 92239552--92239598 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
92239542 AAATATCTTA
**
92239552 TTAATTTTAATTAATTTAATTAAT
1 TTAATTTTAATTAATAAAATTAAT
*
92239576 TTAATTTTACTTAATCAAAATTA
1 TTAATTTTAATTAAT-AAAATTA
92239599 TTTTTTCCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
TTAATTTTAATTAATAAAATTAAT
Found at i:92243358 original size:6 final size:6
Alignment explanation
Indices: 92243347--92243371 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
92243337 AAAAAAAGAG
92243347 AAATAA AAATAA AAATAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA A
92243372 GAACACACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:92243647 original size:16 final size:17
Alignment explanation
Indices: 92243626--92243663 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
92243616 TTCTATATGG
*
92243626 ATTTTACT-TTTATTTT
1 ATTTTACTCTGTATTTT
92243642 ATTTTACTGCTGTATTTT
1 ATTTTACT-CTGTATTTT
92243660 ATTT
1 ATTT
92243664 AAATAAGGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.18, C:0.08, G:0.05, T:0.68
Consensus pattern (17 bp):
ATTTTACTCTGTATTTT
Found at i:92244849 original size:64 final size:64
Alignment explanation
Indices: 92244748--92244877 Score: 251
Period size: 64 Copynumber: 2.0 Consensus size: 64
92244738 TTCTTCTCAT
92244748 TCATATGCAATTCGATCGAGCTTTTGTTGAGCTATATAATTAGGCTCTATTGATTGCAATTATG
1 TCATATGCAATTCGATCGAGCTTTTGTTGAGCTATATAATTAGGCTCTATTGATTGCAATTATG
*
92244812 TCATATGCAATTCGATCGAGGTTTTGTTGAGCTATATAATTAGGCTCTATTGATTGCAATTATG
1 TCATATGCAATTCGATCGAGCTTTTGTTGAGCTATATAATTAGGCTCTATTGATTGCAATTATG
92244876 TC
1 TC
92244878 TTCTGATAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (64 bp):
TCATATGCAATTCGATCGAGCTTTTGTTGAGCTATATAATTAGGCTCTATTGATTGCAATTATG
Found at i:92245257 original size:64 final size:64
Alignment explanation
Indices: 92245156--92245285 Score: 260
Period size: 64 Copynumber: 2.0 Consensus size: 64
92245146 TTCTTCTCAT
92245156 TCATATGCAATTCGATCGAGCTTTTGTTGAGCTATATAATTAGGCTCTATTGATTGCAATTATG
1 TCATATGCAATTCGATCGAGCTTTTGTTGAGCTATATAATTAGGCTCTATTGATTGCAATTATG
92245220 TCATATGCAATTCGATCGAGCTTTTGTTGAGCTATATAATTAGGCTCTATTGATTGCAATTATG
1 TCATATGCAATTCGATCGAGCTTTTGTTGAGCTATATAATTAGGCTCTATTGATTGCAATTATG
92245284 TC
1 TC
92245286 TTCTGATAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (64 bp):
TCATATGCAATTCGATCGAGCTTTTGTTGAGCTATATAATTAGGCTCTATTGATTGCAATTATG
Found at i:92245483 original size:408 final size:408
Alignment explanation
Indices: 92244728--92245544 Score: 1589
Period size: 408 Copynumber: 2.0 Consensus size: 408
92244718 ATTCCCAAAA
92244728 TCGTAGAATTTTCTTCTCATTCATATGCAATTCGATCGAGCTTTTGTTGAGCTATATAATTAGGC
1 TCGTAGAATTTTCTTCTCATTCATATGCAATTCGATCGAGCTTTTGTTGAGCTATATAATTAGGC
*
92244793 TCTATTGATTGCAATTATGTCATATGCAATTCGATCGAGGTTTTGTTGAGCTATATAATTAGGCT
66 TCTATTGATTGCAATTATGTCATATGCAATTCGATCGAGCTTTTGTTGAGCTATATAATTAGGCT
92244858 CTATTGATTGCAATTATGTCTTCTGATAATTCGCAATTACTTAATCATGGAGTCAGTTCATAATA
131 CTATTGATTGCAATTATGTCTTCTGATAATTCGCAATTACTTAATCATGGAGTCAGTTCATAATA
92244923 AGTACCATCATTGTAATTATACTATTTACGAAAGTAATTTATCCATTGCTTTGTCCAATGACCTC
196 AGTACCATCATTGTAATTATACTATTTACGAAAGTAATTTATCCATTGCTTTGTCCAATGACCTC
* *
92244988 GTCATGTGTGTGTTACCCTCATATGATATCATTAATTCCTTTGAGTTAAATCTGTCCACTAAATA
261 GCCATGTATGTGTTACCCTCATATGATATCATTAATTCCTTTGAGTTAAATCTGTCCACTAAATA
92245053 CAATCCTATTTTATCTTATTGTCACCATTGTGTCTTCTTAATGATTATTATGATCACTGTCAACA
326 CAATCCTATTTTATCTTATTGTCACCATTGTGTCTTCTTAATGATTATTATGATCACTGTCAACA
*
92245118 AATGTAACAGCCCGATTT
391 AATATAACAGCCCGATTT
92245136 TCGTAGAATTTTCTTCTCATTCATATGCAATTCGATCGAGCTTTTGTTGAGCTATATAATTAGGC
1 TCGTAGAATTTTCTTCTCATTCATATGCAATTCGATCGAGCTTTTGTTGAGCTATATAATTAGGC
92245201 TCTATTGATTGCAATTATGTCATATGCAATTCGATCGAGCTTTTGTTGAGCTATATAATTAGGCT
66 TCTATTGATTGCAATTATGTCATATGCAATTCGATCGAGCTTTTGTTGAGCTATATAATTAGGCT
*
92245266 CTATTGATTGCAATTATGTCTTCTGATAATTCTCAATTACTTAATCATGGAGTCAGTTCATAATA
131 CTATTGATTGCAATTATGTCTTCTGATAATTCGCAATTACTTAATCATGGAGTCAGTTCATAATA
92245331 AGTACCATCATTGTAATTATACTATTTACGAAAGTAATTTATCCATTGCTTTGTCCAATGACCTC
196 AGTACCATCATTGTAATTATACTATTTACGAAAGTAATTTATCCATTGCTTTGTCCAATGACCTC
92245396 GCCATGTATGTGTTACCCTCATATGATATCATTAATTCCTTTGAGTTAAATCTGTCCACTAAATA
261 GCCATGTATGTGTTACCCTCATATGATATCATTAATTCCTTTGAGTTAAATCTGTCCACTAAATA
92245461 CAATCCTATTTTATCTTATTGTCACCATTGTGTCTTCTTAATGATTATTATGATCACTGTCAACA
326 CAATCCTATTTTATCTTATTGTCACCATTGTGTCTTCTTAATGATTATTATGATCACTGTCAACA
92245526 AATATAACAGCCCGATTT
391 AATATAACAGCCCGATTT
92245544 T
1 T
92245545 GGGCCTAGTA
Statistics
Matches: 404, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
408 404 1.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.41
Consensus pattern (408 bp):
TCGTAGAATTTTCTTCTCATTCATATGCAATTCGATCGAGCTTTTGTTGAGCTATATAATTAGGC
TCTATTGATTGCAATTATGTCATATGCAATTCGATCGAGCTTTTGTTGAGCTATATAATTAGGCT
CTATTGATTGCAATTATGTCTTCTGATAATTCGCAATTACTTAATCATGGAGTCAGTTCATAATA
AGTACCATCATTGTAATTATACTATTTACGAAAGTAATTTATCCATTGCTTTGTCCAATGACCTC
GCCATGTATGTGTTACCCTCATATGATATCATTAATTCCTTTGAGTTAAATCTGTCCACTAAATA
CAATCCTATTTTATCTTATTGTCACCATTGTGTCTTCTTAATGATTATTATGATCACTGTCAACA
AATATAACAGCCCGATTT
Found at i:92247991 original size:52 final size:52
Alignment explanation
Indices: 92247934--92248079 Score: 170
Period size: 52 Copynumber: 2.8 Consensus size: 52
92247924 GACGGAAAAG
* *
92247934 ATGTGATATGTGCTTCCGTATAAAACCATAGCTGGGCTATGGAATCGGTACA
1 ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGAATCGGTACA
* * ***
92247986 ATGTGAT-TCGT-ATTCTCGTATAAGACCATAGCTAGGCTATGGCATCGGTGTG
1 ATGTGATAT-GTGATTC-CGTATAAGACCATAGCTGGGCTATGGAATCGGTACA
* *
92248038 ATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATG
1 ATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGCTATG
92248080 ACATTGGTAT
Statistics
Matches: 79, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
51 4 0.05
52 46 0.58
53 24 0.30
54 5 0.06
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (52 bp):
ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGAATCGGTACA
Found at i:92255466 original size:53 final size:51
Alignment explanation
Indices: 92255317--92255471 Score: 179
Period size: 52 Copynumber: 3.0 Consensus size: 51
92255307 TGACGAAAAA
*
92255317 GATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCATTAGTGC
1 GATGTGATATGTG-TTCCGTATAAGACCATAGCTGGGCTATGGCATCAGTGC
* * * *
92255369 AATGTGAT-TCGTGTTCCCGTATAAGACTATAGCTGGGCTATGGCATCGGTGT
1 GATGTGATAT-GTGTT-CCGTATAAGACCATAGCTGGGCTATGGCATCAGTGC
* *
92255421 GATGTGATAATGTGATTCCATATAAGACCATATG-TGGGATATGGCATCAGT
1 GATGTGAT-ATGTG-TTCCGTATAAGACCATA-GCTGGGCTATGGCATCAGT
92255472 ATGATATGTG
Statistics
Matches: 87, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
51 3 0.03
52 49 0.56
53 31 0.36
54 4 0.05
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (51 bp):
GATGTGATATGTGTTCCGTATAAGACCATAGCTGGGCTATGGCATCAGTGC
Found at i:92256286 original size:20 final size:20
Alignment explanation
Indices: 92256261--92256298 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
92256251 ACCCCATGGG
92256261 CAGGCCACACGGGCATGTCC
1 CAGGCCACACGGGCATGTCC
92256281 CAGGCCACACGGGCATGT
1 CAGGCCACACGGGCATGT
92256299 GCCCCTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.37, G:0.32, T:0.11
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTCC
Found at i:92259888 original size:30 final size:30
Alignment explanation
Indices: 92259853--92259912 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
92259843 AATTTGAGTT
*
92259853 TAAAAATATTAAAGCAAAATTTCGAATTTA
1 TAAAAATATTAAAGAAAAATTTCGAATTTA
* *
92259883 TAAAAATATTAGAGAAAAATTTTGAATTTA
1 TAAAAATATTAAAGAAAAATTTCGAATTTA
92259913 AATGAAGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.35
Consensus pattern (30 bp):
TAAAAATATTAAAGAAAAATTTCGAATTTA
Found at i:92260920 original size:26 final size:27
Alignment explanation
Indices: 92260890--92260944 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
92260880 AATCACGTAA
*
92260890 TATTTTAATTGAA-AAATTAATGATAT
1 TATTTTAATTGAATAAATTAATAATAT
* *
92260916 TA-TTTATTTGAATTAATTAATAATAT
1 TATTTTAATTGAATAAATTAATAATAT
92260942 TAT
1 TAT
92260945 AAAAATATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (27 bp):
TATTTTAATTGAATAAATTAATAATAT
Found at i:92263508 original size:18 final size:18
Alignment explanation
Indices: 92263485--92263522 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
92263475 AGCATGAAAG
*
92263485 AGGCATAGTTCGAGTATA
1 AGGCATAGTTCGAGAATA
92263503 AGGCATAGTTCGAGAATA
1 AGGCATAGTTCGAGAATA
92263521 AG
1 AG
92263523 AAAAAAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (18 bp):
AGGCATAGTTCGAGAATA
Found at i:92263986 original size:47 final size:48
Alignment explanation
Indices: 92263917--92264040 Score: 162
Period size: 47 Copynumber: 2.6 Consensus size: 48
92263907 GGTATAATGC
* * *
92263917 CAATGCCATATCCCAGACATGGTCTTACACTGGCTCATC-CATC-AAGT
1 CAATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAATCGAAGT
*
92263964 CAATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCGAGGT
1 CAATGCCATGTCCCAGACATGGTCTTACACTGACTATC-AAATCGAAGT
* *
92264013 CGACGCCATGTCCCAGACATGGTCTTAC
1 CAATGCCATGTCCCAGACATGGTCTTAC
92264041 TGTAACACCC
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
46 3 0.04
47 33 0.49
48 3 0.04
49 29 0.43
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.24
Consensus pattern (48 bp):
CAATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAATCGAAGT
Found at i:92265619 original size:68 final size:65
Alignment explanation
Indices: 92265413--92265634 Score: 220
Period size: 68 Copynumber: 3.4 Consensus size: 65
92265403 CATAATTTTG
* *
92265413 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTAACCTAGC--CGCTTTA-TCTCGT
1 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCAACCTAGCTAC-CTCTATTCTCGT
92265475 A
65 A
** * * * * * * *
92265476 GCTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGCTACATCTA-TCTC
1 GCTCTCTTGTACACATGGTG---TACACATAGTATCACCCATGCAACCTAGCTACCTCTATTCTC
92265540 GTA
63 GTA
*
92265543 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGCAACCTAGCTACCTC-T-AT-TCT
92265607 CGTA
62 CGTA
*
92265611 GCTCTCTTGTACACATGGTATACA
1 GCTCTCTTGTACACATGGTGTACA
92265635 TCCCATATTA
Statistics
Matches: 127, Mismatches: 21, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
63 18 0.14
64 27 0.21
65 1 0.01
66 23 0.18
67 28 0.22
68 29 0.23
69 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (65 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCAACCTAGCTACCTCTATTCTCGTA
Found at i:92271351 original size:18 final size:17
Alignment explanation
Indices: 92271304--92271341 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
92271294 TTTTAAAAGG
*
92271304 AAAACAAATGAATCTTA
1 AAAACAAATGAAACTTA
92271321 AAAACAAATGAAACTTA
1 AAAACAAATGAAACTTA
92271338 AAAA
1 AAAA
92271342 ATTAATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.66, C:0.11, G:0.05, T:0.18
Consensus pattern (17 bp):
AAAACAAATGAAACTTA
Found at i:92273304 original size:29 final size:29
Alignment explanation
Indices: 92273272--92273360 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 29
92273262 CATAATTTGC
92273272 ATATTACTCAATAATAACCACAAAGCATA
1 ATATTACTCAATAATAACCACAAAGCATA
* * **
92273301 ATATT--TCATGATATTAATCATC-TTGC---
1 ATATTACTCA--ATAATAACCA-CAAAGCATA
92273327 ATATTACTCAATAATAACCACAAAGCATA
1 ATATTACTCAATAATAACCACAAAGCATA
92273356 ATATT
1 ATATT
92273361 TCATGATATT
Statistics
Matches: 43, Mismatches: 8, Indels: 18
0.62 0.12 0.26
Matches are distributed among these distances:
25 1 0.02
26 15 0.35
27 3 0.07
28 3 0.07
29 20 0.47
30 1 0.02
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.33
Consensus pattern (29 bp):
ATATTACTCAATAATAACCACAAAGCATA
Found at i:92273333 original size:55 final size:55
Alignment explanation
Indices: 92273268--92273377 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
92273258 CACACATAAT
92273268 TTGCATATTACTCAATAATAACCACAAAGCATAATATTTCATGATATTAATCATC
1 TTGCATATTACTCAATAATAACCACAAAGCATAATATTTCATGATATTAATCATC
92273323 TTGCATATTACTCAATAATAACCACAAAGCATAATATTTCATGATATTAATCATC
1 TTGCATATTACTCAATAATAACCACAAAGCATAATATTTCATGATATTAATCATC
92273378 ATATCATATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.35
Consensus pattern (55 bp):
TTGCATATTACTCAATAATAACCACAAAGCATAATATTTCATGATATTAATCATC
Found at i:92273354 original size:26 final size:26
Alignment explanation
Indices: 92273270--92273355 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
92273260 CACATAATTT
92273270 GCATATTACTCAATAATAACCACAAA
1 GCATATTACTCAATAATAACCACAAA
* * * * **
92273296 GCATAATATTTCATGATATTAATCATC-TT
1 GCATATTA-CTCA--ATAATAACCA-CAAA
92273325 GCATATTACTCAATAATAACCACAAA
1 GCATATTACTCAATAATAACCACAAA
92273351 GCATA
1 GCATA
92273356 ATATTTCATG
Statistics
Matches: 43, Mismatches: 12, Indels: 10
0.66 0.18 0.15
Matches are distributed among these distances:
25 1 0.02
26 20 0.47
27 3 0.07
28 3 0.07
29 15 0.35
30 1 0.02
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.30
Consensus pattern (26 bp):
GCATATTACTCAATAATAACCACAAA
Found at i:92292962 original size:14 final size:14
Alignment explanation
Indices: 92292943--92292971 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
92292933 GTTTCCCCTT
92292943 TCTTAATCAAACAA
1 TCTTAATCAAACAA
92292957 TCTTAATCAAACAA
1 TCTTAATCAAACAA
92292971 T
1 T
92292972 ATATAGTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (14 bp):
TCTTAATCAAACAA
Found at i:92295160 original size:27 final size:27
Alignment explanation
Indices: 92295130--92295412 Score: 138
Period size: 27 Copynumber: 10.4 Consensus size: 27
92295120 ATTACCAAAG
* * * *
92295130 TACCCCCGATTTACAGAATTTCCGTTC
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
92295157 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
* *
92295184 TACCTTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*****
92295211 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCGTTT
* ** *****
92295238 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTACAAAATTACCGTTT
* ** * ***
92295265 TACCCCCTGATTTGTAAAATTACTGAAA
1 TACCCTC-GATTTACAAAATTACCGTTT
****
92295293 TACCCTCGACTTGTA-AAAATTACCAAAG
1 TACCCTCGA-TT-TACAAAATTACCGTTT
* * * *
92295321 TACCCTCGATTTATAGAATCACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* **
92295348 TACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* *
92295375 TACCCTTGATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
92295402 TACCCTCGATT
1 TACCCTCGATT
92295413 GTGAAATTAT
Statistics
Matches: 210, Mismatches: 41, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
26 3 0.01
27 159 0.76
28 47 0.22
29 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:92295280 original size:28 final size:28
Alignment explanation
Indices: 92295225--92295325 Score: 125
Period size: 28 Copynumber: 3.6 Consensus size: 28
92295215 CTCGATTTAC
*
92295225 AAAATTACTAAAATA-CCCCTGGTTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
92295252 AAAATTACTAAAATACCCCCTGATTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
* * *
92295280 AAAATTACTGAAATACCCTC-GACTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
* *
92295307 AAAAATTACCAAAGTACCC
1 -AAAATTACTAAAATACCC
92295326 TCGATTTATA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
27 21 0.32
28 44 0.68
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCCTGATTTGT
Found at i:92295547 original size:27 final size:27
Alignment explanation
Indices: 92295225--92295649 Score: 143
Period size: 27 Copynumber: 15.7 Consensus size: 27
92295215 CTCGATTTAC
*
92295225 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCCTGATTTGT
92295252 AAAATTACTAAAATACCCCCTGATTTGT
1 AAAATTACTAAAATA-CCCCTGATTTGT
* *
92295280 AAAATTACTGAAATA-CCCTCGACTTGT
1 AAAATTACTAAAATACCCCT-GATTTGT
* * *
92295307 AAAAATTACCAAAGTA-CCCTCGATTTAT
1 -AAAATTACTAAAATACCCCT-GATTTGT
* * **** **
92295335 AGAATCACTGTTTTA-CCCTCGATTTAC
1 AAAATTACTAAAATACCCCT-GATTTGT
* * **** * *
92295362 AGAATTATTGTTTTACCCTTGATTTAT
1 AAAATTACTAAAATACCCCTGATTTGT
*****
92295389 AAAATTACCGTTTTA-CCCTCGA-TTGT
1 AAAATTACTAAAATACCCCT-GATTTGT
* * * **
92295415 GAAATTATTGAAATACCCCT-ATAGGGT
1 AAAATTACTAAAATACCCCTGAT-TTGT
* * *
92295442 AGAATTACCAAAACACCCCT-AGTTTGT
1 AAAATTACTAAAATACCCCTGA-TTTGT
* * *
92295469 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACTAAAATACCCCTGATTTGT
* *
92295496 AAAATTACTGAAATA-CCCTCAATTTGT
1 AAAATTACTAAAATACCCCT-GATTTGT
* **
92295523 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTAAAATACCCCTGATTTGT
* * *
92295550 AAAGTTAC-AGAAATA-CCTTGACTTTCT
1 AAAATTACTA-AAATACCCCTGA-TTTGT
* ** * **
92295577 AAAAATTA-TGGAAATACCATTGGTTTAC
1 -AAAATTACT-AAAATACCCCTGATTTGT
* *
92295605 AAAATTACTGAAATACCCTTGATTTGT
1 AAAATTACTAAAATACCCCTGATTTGT
* * *
92295632 AGATTTACCAAAATACCC
1 AAAATTACTAAAATACCC
92295650 TTATAAGATG
Statistics
Matches: 306, Mismatches: 73, Indels: 38
0.73 0.18 0.09
Matches are distributed among these distances:
25 1 0.00
26 28 0.09
27 203 0.66
28 70 0.23
29 4 0.01
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGATTTGT
Found at i:92295563 original size:54 final size:54
Alignment explanation
Indices: 92295464--92295648 Score: 199
Period size: 54 Copynumber: 3.4 Consensus size: 54
92295454 ACACCCCTAG
**
92295464 TTTGTAAAATTACCAAAATACCACTGGTTTGTAAAATTACTGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTACTGAAATACCCTCAA
* * * * * * *
92295518 TTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAATACCTTGAC
1 TTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTACTGAAATACCCTCAA
* *** * **
92295572 TTTCTAAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGA
1 TTTGT-AAAATTACCAAAATACCACTGGTTTACAAAATTACTGAAATACCCTCAA
* *
92295627 TTTGTAGATTTACCAAAATACC
1 TTTGTAAAATTACCAAAATACC
92295649 CTTATAAGAT
Statistics
Matches: 102, Mismatches: 28, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
54 61 0.60
55 41 0.40
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTGGTTTACAAAATTACTGAAATACCCTCAA
Found at i:92295704 original size:27 final size:27
Alignment explanation
Indices: 92295670--92295742 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
92295660 AAATGACTAA
*
92295670 AATACCCCTATAGGGTAAAGAGACAGT
1 AATACCCCTGTAGGGTAAAGAGACAGT
* * *
92295697 AA-AGCCCCTGTAGGATAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAGAGACAGT
*
92295724 AATACCCCTGTATGGTAAA
1 AATACCCCTGTAGGGTAAA
92295743 ATGACGAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
26 1 0.03
27 36 0.95
28 1 0.03
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAGAGACAGT
Found at i:92296479 original size:20 final size:20
Alignment explanation
Indices: 92296454--92296520 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
92296444 GATATGATAT
*
92296454 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
* *
92296474 ACATGATATGTATAAAATAC
1 ACATGATATGTATGAAATGC
92296494 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
92296514 ACATGAT
1 ACATGAT
92296521 GTATTCATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
20 39 0.95
21 2 0.05
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:92296599 original size:26 final size:26
Alignment explanation
Indices: 92296570--92296700 Score: 180
Period size: 26 Copynumber: 5.2 Consensus size: 26
92296560 GAGGAAGTGC
92296570 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
92296596 AAAAGGGCATATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
92296622 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
92296648 AAAAGGGCTT-TGCCCAAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
92296673 AAAAGGGCTT-TTCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
92296696 AAAAG
1 AAAAG
92296701 ATGCTAGGCC
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
23 5 0.05
24 4 0.04
25 29 0.31
26 56 0.60
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:92296897 original size:42 final size:42
Alignment explanation
Indices: 92296838--92296929 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
92296828 TAGTCTCCCC
* ** *
92296838 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
92296880 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
92296922 AAATGGGC
1 AAATGGGC
92296930 CTATGGGTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:92296991 original size:31 final size:31
Alignment explanation
Indices: 92296953--92297031 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
92296943 CGTTTACAGT
92296953 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
92296984 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
92297015 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
92297032 AACCGTTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:92305690 original size:25 final size:23
Alignment explanation
Indices: 92305638--92305693 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 23
92305628 AATTATAAAG
92305638 ATTTTTTA-AAAAATTATTTTCA
1 ATTTTTTAGAAAAATTATTTTCA
92305660 ATTTTTTAGAAAATATTTATTTT-A
1 ATTTTTTAGAAAA-A-TTATTTTCA
92305684 ATGTTTTTAG
1 AT-TTTTTAG
92305694 TGTTTTTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.27
23 4 0.13
24 4 0.13
25 14 0.47
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (23 bp):
ATTTTTTAGAAAAATTATTTTCA
Found at i:92306578 original size:22 final size:22
Alignment explanation
Indices: 92306550--92306592 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
92306540 CTAATAAATA
*
92306550 ATTAAAATTTTATTTTATTTAT
1 ATTAAAATTTTATTGTATTTAT
92306572 ATTAAAATTTTATTGTATTTA
1 ATTAAAATTTTATTGTATTTA
92306593 AATATTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTAAAATTTTATTGTATTTAT
Found at i:92306583 original size:17 final size:18
Alignment explanation
Indices: 92306560--92306599 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
92306550 ATTAAAATTT
92306560 TATTTTATT-TATATTAAA
1 TATTTTATTGTAT-TTAAA
92306578 -ATTTTATTGTATTTAAA
1 TATTTTATTGTATTTAAA
92306595 TATTT
1 TATTT
92306600 ATAATTAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TATTTTATTGTATTTAAA
Found at i:92309204 original size:21 final size:21
Alignment explanation
Indices: 92309180--92309220 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
92309170 TTTTTTCCTG
92309180 TAAAAATTCAAGTTCTTCTCA
1 TAAAAATTCAAGTTCTTCTCA
* *
92309201 TAAAAGTTCAAGTTTTTCTC
1 TAAAAATTCAAGTTCTTCTC
92309221 TTGGGAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (21 bp):
TAAAAATTCAAGTTCTTCTCA
Found at i:92310133 original size:29 final size:29
Alignment explanation
Indices: 92310078--92310135 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
92310068 CATTCAATTA
*
92310078 ATTTTTAATTTTTACAAATTTTAAAAAAT
1 ATTTTTAATTATTACAAATTTTAAAAAAT
*
92310107 ATTTTTAATTATTA-AAATTATTTAAAAAT
1 ATTTTTAATTATTACAAATT-TTAAAAAAT
92310136 TATATTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
ATTTTTAATTATTACAAATTTTAAAAAAT
Found at i:92310152 original size:29 final size:29
Alignment explanation
Indices: 92310093--92310157 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
92310083 TAATTTTTAC
* *
92310093 AAAT-TTTAAAAAATATTTTTAATTATTAA
1 AAATATTTAAAAAATATTATTAATTA-GAA
* *
92310122 AATTATTTAAAAATTA-TATTAATTAGAA
1 AAATATTTAAAAAATATTATTAATTAGAA
92310150 AAATATTT
1 AAATATTT
92310158 TTTAACATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 9 0.30
29 11 0.37
30 10 0.33
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (29 bp):
AAATATTTAAAAAATATTATTAATTAGAA
Found at i:92310747 original size:30 final size:32
Alignment explanation
Indices: 92310711--92310778 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 32
92310701 ACACTTTATA
*
92310711 TTTAAAAATAATAATAAT-T-TAATTTAATTT
1 TTTAAAAATAATAAAAATATATAATTTAATTT
*
92310741 TTTAAAAATTATAAAAATATAAATAATTTAATTT
1 TTTAAAAATAATAAAAATAT--ATAATTTAATTT
92310775 TTTA
1 TTTA
92310779 CCACTAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 16 0.50
31 1 0.03
34 15 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
TTTAAAAATAATAAAAATATATAATTTAATTT
Found at i:92317629 original size:20 final size:21
Alignment explanation
Indices: 92317580--92317630 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
92317570 TCTCCTCTTG
* * *
92317580 AATTATGTTATTTAAGTTTTT
1 AATTATATTATTTAAGATTTA
92317601 AATTATATTATTTAA-ATTTA
1 AATTATATTATTTAAGATTTA
*
92317621 AATTTTATTA
1 AATTATATTA
92317631 ATTATGAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (21 bp):
AATTATATTATTTAAGATTTA
Found at i:92327846 original size:20 final size:20
Alignment explanation
Indices: 92327805--92327846 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
92327795 TTTTAAAAAA
* *
92327805 TTAAAAACTATAAAAGTTAT
1 TTAAAAACTATAAAAATAAT
*
92327825 TTAAAAATTATAAAAATAAT
1 TTAAAAACTATAAAAATAAT
92327845 TT
1 TT
92327847 TTAGTATACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
TTAAAAACTATAAAAATAAT
Found at i:92332172 original size:122 final size:124
Alignment explanation
Indices: 92332040--92332291 Score: 364
Period size: 122 Copynumber: 2.0 Consensus size: 124
92332030 TGTAAAAAAA
*
92332040 TTAAATTACAAATGTGTAAATGTTGAAAGTTAAATTTTTTAAAATCAAAAATAAATTAACACCAT
1 TTAAATTACAAATGTGTAAATGTTGAAAGTTAAATTTTTTAAAATCAAAAATAAATTAACACAAT
* * * *
92332105 GTATAAA-TAGTGCTAAAGTTGCTATTATGCTAATTTTAAAAGTTACCATGTCA-ACAT
66 ATATAAATTAATGCTAAAGTTGCTATTATGCCAATTTTAAAAATTACCATGTCAGACAT
* * * * *
92332162 TTAAATTACAAATGTGTAAATGTTGAAGGTTAGATTTTTTTAAATCAAGAATAATTTAACACAAT
1 TTAAATTACAAATGTGTAAATGTTGAAAGTTAAATTTTTTAAAATCAAAAATAAATTAACACAAT
* *
92332227 ATATAAATGTTAATGTTAAAGTTGCTATTATGCCAATTTTAAAAATTACCATGTCAGTCAT
66 ATATAAA--TTAATGCTAAAGTTGCTATTATGCCAATTTTAAAAATTACCATGTCAGACAT
92332288 TTAA
1 TTAA
92332292 TGGCGGGATG
Statistics
Matches: 114, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
122 65 0.57
125 42 0.37
126 7 0.06
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (124 bp):
TTAAATTACAAATGTGTAAATGTTGAAAGTTAAATTTTTTAAAATCAAAAATAAATTAACACAAT
ATATAAATTAATGCTAAAGTTGCTATTATGCCAATTTTAAAAATTACCATGTCAGACAT
Found at i:92341596 original size:23 final size:24
Alignment explanation
Indices: 92341566--92341616 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
92341556 TAATTAGATT
**
92341566 AAAAAAATTAAATTTTA-AAAATA
1 AAAAAAATTAAATTCCACAAAATA
*
92341589 AAAAAAATTAGATTCCACAAAATA
1 AAAAAAATTAAATTCCACAAAATA
92341613 AAAA
1 AAAA
92341617 TAAAAGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAAAAATTAAATTCCACAAAATA
Found at i:92349447 original size:47 final size:46
Alignment explanation
Indices: 92349368--92349462 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 46
92349358 CAAAACTTTG
92349368 AAGAGAAATATTCAATTTGTATTTCAACCTTATCTCATCTGTGTAC
1 AAGAGAAATATTCAATTTGTATTTCAACCTTATCTCATCTGTGTAC
92349414 AAGAGAAATATTCAATTTTGTATTTCAACCTTATCTCATCTGTGTAC
1 AAGAGAAATATTCAA-TTTGTATTTCAACCTTATCTCATCTGTGTAC
92349461 AA
1 AA
92349463 TGACTTGATA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 15 0.31
47 33 0.69
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.39
Consensus pattern (46 bp):
AAGAGAAATATTCAATTTGTATTTCAACCTTATCTCATCTGTGTAC
Found at i:92349618 original size:16 final size:16
Alignment explanation
Indices: 92349597--92349627 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92349587 TTTTAAATGT
92349597 TTTTAAAAATAATATA
1 TTTTAAAAATAATATA
*
92349613 TTTTAAAAATTATAT
1 TTTTAAAAATAATAT
92349628 TAATATTGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTTAAAAATAATATA
Found at i:92352470 original size:18 final size:18
Alignment explanation
Indices: 92352436--92352472 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
92352426 GGAAACTGGG
* *
92352436 AATGAAGAGGGAGCTGAA
1 AATGAAGAGGAACCTGAA
92352454 AATGAAGAGGAACCTGAA
1 AATGAAGAGGAACCTGAA
92352472 A
1 A
92352473 CTGATGATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.08, G:0.32, T:0.11
Consensus pattern (18 bp):
AATGAAGAGGAACCTGAA
Found at i:92359314 original size:20 final size:20
Alignment explanation
Indices: 92359291--92359329 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
92359281 AAATGGGTCA
*
92359291 TAGATATGTATGCTAGAAAT
1 TAGAAATGTATGCTAGAAAT
* *
92359311 TAGAAATTTATGTTAGAAA
1 TAGAAATGTATGCTAGAAA
92359330 ATGAAAGATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.36
Consensus pattern (20 bp):
TAGAAATGTATGCTAGAAAT
Found at i:92370420 original size:13 final size:13
Alignment explanation
Indices: 92370402--92370433 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
92370392 AAATATTTTT
92370402 CTATAAAAAATTA
1 CTATAAAAAATTA
92370415 CTAT--AAAATTA
1 CTATAAAAAATTA
92370426 CTATAAAA
1 CTATAAAA
92370434 TTTCTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.65
13 6 0.35
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (13 bp):
CTATAAAAAATTA
Found at i:92370424 original size:11 final size:11
Alignment explanation
Indices: 92370408--92370435 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
92370398 TTTTCTATAA
92370408 AAAATTACTAT
1 AAAATTACTAT
92370419 AAAATTACTAT
1 AAAATTACTAT
92370430 AAAATT
1 AAAATT
92370436 TCTTTATAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATTACTAT
Found at i:92372785 original size:40 final size:40
Alignment explanation
Indices: 92372730--92372893 Score: 190
Period size: 40 Copynumber: 4.1 Consensus size: 40
92372720 TGAGCGTTAC
* *
92372730 CTACTGAAATGTATGCACTATTGAGCCATACCTACTAAAT
1 CTACTAAAATGTATGCACTATTGAGCCATACCTACTGAAT
*
92372770 CTACTAAAATGTATGCACTATTGAGCCATACCTACTGATT
1 CTACTAAAATGTATGCACTATTGAGCCATACCTACTGAAT
* * ** *
92372810 CTGCTGAAA-GTATGTTCTATCGAGCCATACCTA-TCGAAT
1 CTACTAAAATGTATGCACTATTGAGCCATACCTACT-GAAT
* * *
92372849 TTACTAAAATGTATGCGCT-TTCGAGCCATACCTACTGATT
1 CTACTAAAATGTATGCACTATT-GAGCCATACCTACTGAAT
92372889 CTACT
1 CTACT
92372894 GAAAGTTGCT
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
38 1 0.01
39 31 0.30
40 70 0.68
41 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (40 bp):
CTACTAAAATGTATGCACTATTGAGCCATACCTACTGAAT
Found at i:92372842 original size:79 final size:79
Alignment explanation
Indices: 92372730--92372899 Score: 236
Period size: 79 Copynumber: 2.1 Consensus size: 79
92372720 TGAGCGTTAC
*
92372730 CTACTGAAATGTATGCACTATTGAGCCATACCTA-CTAAATCTACTAAAATGTATGCACTATT-G
1 CTACTGAAA-GTATGCACTATCGAGCCATACCTATC-AAATCTACTAAAATGTATGCACT-TTCG
92372793 AGCCATACCTACTGATT
63 AGCCATACCTACTGATT
* ** * * *
92372810 CTGCTGAAAGTATGTTCTATCGAGCCATACCTATCGAATTTACTAAAATGTATGCGCTTTCGAGC
1 CTACTGAAAGTATGCACTATCGAGCCATACCTATCAAATCTACTAAAATGTATGCACTTTCGAGC
92372875 CATACCTACTGATT
66 CATACCTACTGATT
92372889 CTACTGAAAGT
1 CTACTGAAAGT
92372900 TGCTCAAACT
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
78 2 0.03
79 69 0.86
80 9 0.11
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (79 bp):
CTACTGAAAGTATGCACTATCGAGCCATACCTATCAAATCTACTAAAATGTATGCACTTTCGAGC
CATACCTACTGATT
Found at i:92374799 original size:27 final size:27
Alignment explanation
Indices: 92374764--92374886 Score: 167
Period size: 27 Copynumber: 4.6 Consensus size: 27
92374754 ACATAGGGAT
* * *
92374764 AAAACAGTCATCTTACCATAAAAGGGC
1 AAAATAGTCATTTTACCACAAAAGGGC
92374791 AAAATAGTCATTTTACCACAAAAGGGC
1 AAAATAGTCATTTTACCACAAAAGGGC
*
92374818 AAAATAGTCATTTTACC-CTATAAGGGC
1 AAAATAGTCATTTTACCAC-AAAAGGGC
* *
92374845 AAAATAGTCATTTTACCCCATAAGGGC
1 AAAATAGTCATTTTACCACAAAAGGGC
*
92374872 GAAATAGTCATTTTA
1 AAAATAGTCATTTTA
92374887 TTAATTAGGG
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
26 1 0.01
27 87 0.98
28 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (27 bp):
AAAATAGTCATTTTACCACAAAAGGGC
Found at i:92380352 original size:13 final size:13
Alignment explanation
Indices: 92380334--92380361 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
92380324 TGGTCCAATG
92380334 GAAAATTGGACTT
1 GAAAATTGGACTT
92380347 GAAAATTGGACTT
1 GAAAATTGGACTT
92380360 GA
1 GA
92380362 GATTGTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (13 bp):
GAAAATTGGACTT
Found at i:92380719 original size:19 final size:19
Alignment explanation
Indices: 92380695--92380759 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
92380685 GTTTCAAAAA
*
92380695 TAATATTATTTTAATAGTT
1 TAATATTAATTTAATAGTT
92380714 TAATATTAATTTAA-A-TT
1 TAATATTAATTTAATAGTT
**
92380731 TAATACTTAGCTTAATAGTT
1 TAATA-TTAATTTAATAGTT
92380751 TAATATTAA
1 TAATATTAA
92380760 AATGATTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 7 0.18
18 8 0.21
19 17 0.44
20 7 0.18
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAATATTAATTTAATAGTT
Found at i:92380847 original size:12 final size:12
Alignment explanation
Indices: 92380830--92380854 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92380820 TTTTAATAAG
92380830 ATTTAATATTAA
1 ATTTAATATTAA
92380842 ATTTAATATTAA
1 ATTTAATATTAA
92380854 A
1 A
92380855 GTGGTTAAGT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:92383536 original size:19 final size:20
Alignment explanation
Indices: 92383491--92383541 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
92383481 TAAAATTATA
92383491 AAAAATTAT-AAAATACTAT
1 AAAAATTATAAAAATACTAT
** *
92383510 AATTATTATAAAAATA-TTT
1 AAAAATTATAAAAATACTAT
92383529 AAAAATTAATAAA
1 AAAAATT-ATAAA
92383542 GTCTAATAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTATAAAAATACTAT
Found at i:92383551 original size:39 final size:39
Alignment explanation
Indices: 92383482--92383581 Score: 109
Period size: 39 Copynumber: 2.6 Consensus size: 39
92383472 TAAACTTTTT
*
92383482 AAAATTATAAAAAATT-ATAAAATACTATAA-TTATTATAAA
1 AAAATT-TGAAAAATTAATAAAATACTATAATTTA-TA-AAA
* *
92383522 AATATTT-AAAAATTAATAAAGT-CTAATAATTTATAAAA
1 AAAATTTGAAAAATTAATAAAATACT-ATAATTTATAAAA
92383560 AAAATTTGAAAAATTAATAAAA
1 AAAATTTGAAAAATTAATAAAA
92383582 CTTATTTAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
38 18 0.35
39 26 0.50
40 8 0.15
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (39 bp):
AAAATTTGAAAAATTAATAAAATACTATAATTTATAAAA
Found at i:92383965 original size:8 final size:9
Alignment explanation
Indices: 92383943--92384039 Score: 52
Period size: 10 Copynumber: 10.0 Consensus size: 9
92383933 CCAGTTCAAG
*
92383943 TTTTTATGAT
1 TTTTTAT-AA
92383953 TTTTTATAA
1 TTTTTATAA
92383962 TTTTTATAA
1 TTTTTATAA
* *
92383971 GTTTATATTAG
1 -TTTTTA-TAA
* *
92383982 TTTTAATAC
1 TTTTTATAA
92383991 TTTTT-TGATA
1 TTTTTAT-A-A
*
92384001 TTTTTATGA
1 TTTTTATAA
92384010 TTTTTATAGAA
1 TTTTTAT--AA
*
92384021 TTTTAATACA
1 TTTTTATA-A
92384031 TTTTTATAA
1 TTTTTATAA
92384040 AATTTTAAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
8 1 0.01
9 27 0.40
10 29 0.43
11 10 0.15
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:92383995 original size:39 final size:38
Alignment explanation
Indices: 92383952--92384039 Score: 99
Period size: 39 Copynumber: 2.3 Consensus size: 38
92383942 GTTTTTATGA
92383952 TTTTTTATAATTTTTATAAGTTTATATTAG-TTTTAATAC
1 TTTTTTATAATTTTTATAA-TTTATA-TAGATTTTAATAC
* *
92383991 TTTTTTGAT-ATTTTTATGATTTTTATAGAATTTTAATAC
1 TTTTTT-ATAATTTTTATAATTTATATAG-ATTTTAATAC
*
92384030 ATTTTTATAA
1 TTTTTTATAA
92384040 AATTTTAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
37 3 0.07
38 7 0.17
39 30 0.71
40 2 0.05
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (38 bp):
TTTTTTATAATTTTTATAATTTATATAGATTTTAATAC
Found at i:92384312 original size:28 final size:26
Alignment explanation
Indices: 92384278--92384352 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 26
92384268 ATTAAGAGAG
*
92384278 AAACTTACTTAATTATTTTAATTAACA
1 AAACTTAATTAATTATTTTAATTAA-A
*
92384305 AAGACTTAATTAATGTAAATTTAATTAAA
1 AA-ACTTAATTAAT-T-ATTTTAATTAAA
*
92384334 AAACTTAATTATTTATTTT
1 AAACTTAATTAATTATTTT
92384353 TATATTTTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
26 4 0.10
27 3 0.07
28 20 0.49
29 4 0.10
30 10 0.24
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (26 bp):
AAACTTAATTAATTATTTTAATTAAA
Found at i:92384817 original size:24 final size:24
Alignment explanation
Indices: 92384776--92384845 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 24
92384766 TGATTATTAA
92384776 TATTTAAATTTAGT-TTTAATTTTT
1 TATTT-AATTTAGTATTTAATTTTT
*
92384800 TATTTAATTTAGTATTTAA-GTTT
1 TATTTAATTTAGTATTTAATTTTT
*
92384823 AATTTTAATGTT-GTATTTAATTT
1 TA-TTTAAT-TTAGTATTTAATTT
92384846 ATCCTAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 12 0.31
24 24 0.62
25 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (24 bp):
TATTTAATTTAGTATTTAATTTTT
Found at i:92384829 original size:36 final size:36
Alignment explanation
Indices: 92384776--92384846 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
92384766 TGATTATTAA
* * *
92384776 TATTTAAATTTAGTTTTAATTTTTTATTTAATTTAG
1 TATTTAAATTTAATTTTAATGTTGTATTTAATTTAG
*
92384812 TATTTAAGTTTAATTTTAATGTTGTATTTAATTTA
1 TATTTAAATTTAATTTTAATGTTGTATTTAATTTA
92384847 TCCTAATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (36 bp):
TATTTAAATTTAATTTTAATGTTGTATTTAATTTAG
Found at i:92401813 original size:12 final size:13
Alignment explanation
Indices: 92401796--92401832 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
92401786 GAACCGGACA
92401796 CGAACCGAA-CTC
1 CGAACCGAAGCTC
92401808 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
92401820 CGAACCGTAGCTC
1 CGAACCGAAGCTC
92401833 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:92403908 original size:20 final size:20
Alignment explanation
Indices: 92403880--92403936 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
92403870 TGATTTTTAA
*
92403880 ATTAGAAATTATATAAAATT
1 ATTAGAAATTATATAAAACT
* * *
92403900 ATTAAAAATAATTTAAAACT
1 ATTAGAAATTATATAAAACT
*
92403920 CTT-GAAATTATATAAAA
1 ATTAGAAATTATATAAAA
92403937 AAGTATTAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (20 bp):
ATTAGAAATTATATAAAACT
Found at i:92403948 original size:21 final size:22
Alignment explanation
Indices: 92403924--92403981 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 22
92403914 AAAACTCTTG
92403924 AAATTATATAAAAAAGTAT-TA
1 AAATTATATAAAAAAGTATATA
* *
92403945 AAATGATA-AAAAAA-TTTATA
1 AAATTATATAAAAAAGTATATA
92403965 AAATT-TATAAAAAAGTA
1 AAATTATATAAAAAAGTA
92403982 GTAATTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 4 0.13
20 18 0.60
21 8 0.27
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (22 bp):
AAATTATATAAAAAAGTATATA
Found at i:92423306 original size:206 final size:206
Alignment explanation
Indices: 92422939--92423329 Score: 590
Period size: 206 Copynumber: 1.9 Consensus size: 206
92422929 TAAAACCTAC
* * * * * *
92422939 AATCTAAAAGTCCTAAAATCTAATTTCTAGAAATTTAATCGAAAAATGCCTACTATTTAGATTCA
1 AATCTAAAAGTACTAAAATCTAATTTCTAGAAATTTAACCAAAAAATGCATACTATTTAAATCCA
* * * *
92423004 AAATCCTAAAATGAACTAATTTAAAACCTAATATAAAAAAAATTAAAGTATGAAATTCAAAAATA
66 AAATCCTAAAATGAACTAATTTAAAACCGAAGATAAAAAAAATTAAAGGATGAAATTCAAAAAGA
* * *
92423069 TGCTAACATACTATAAAGTACACAGTCCTAAAGAGAAAACCTT-AAATAATCCTAATACTTAATT
131 AGCTAACATACTATAAAATACACAATCCTAAAGAGAAAA-CTTCAAATAATCCTAATACTTAATT
92423133 TTTTTAAAAAAT
195 TTTTTAAAAAAT
* *
92423145 AATCTAAAAGTATTAAAATCTAATTTCTAGAAATTTAACCAAAAGAAT-CATAGTATTTAAATCC
1 AATCTAAAAGTACTAAAATCTAATTTCTAGAAATTTAACCAAAA-AATGCATACTATTTAAATCC
*
92423209 AAGATCCTAAAATGAACTAATTTAAAACCGAAGATAAAAAAAATTAAAGGATGAAATTCAAAAAG
65 AAAATCCTAAAATGAACTAATTTAAAACCGAAGATAAAAAAAATTAAAGGATGAAATTCAAAAAG
92423274 AAGCTAACCA-ACTATAAAATACACAATCCTAAAGAGAAAACTTCAAATAATCCTAA
130 AAGCTAA-CATACTATAAAATACACAATCCTAAAGAGAAAACTTCAAATAATCCTAA
92423330 GACATAAAAA
Statistics
Matches: 166, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
205 3 0.02
206 158 0.95
207 5 0.03
ACGTcount: A:0.51, C:0.14, G:0.07, T:0.28
Consensus pattern (206 bp):
AATCTAAAAGTACTAAAATCTAATTTCTAGAAATTTAACCAAAAAATGCATACTATTTAAATCCA
AAATCCTAAAATGAACTAATTTAAAACCGAAGATAAAAAAAATTAAAGGATGAAATTCAAAAAGA
AGCTAACATACTATAAAATACACAATCCTAAAGAGAAAACTTCAAATAATCCTAATACTTAATTT
TTTTAAAAAAT
Found at i:92424216 original size:67 final size:67
Alignment explanation
Indices: 92424124--92424258 Score: 218
Period size: 67 Copynumber: 2.0 Consensus size: 67
92424114 AAACAACAAA
* * * *
92424124 TTCTAAAATAGTAAGTAGAAATAAAATATGAG-AATTACCATGGGATATAATACAAATCTAACAT
1 TTCTAAAATAGAAAGTAAAAATAAAATATGAGAAATTACCATGGAATAAAATAC-AATCTAACAT
92424188 TAC
65 TAC
92424191 TTCTAAAATAGAAAGTAAAAATAAAATATGAGAAATTACCATGGAATAAAATACAATCTAACATT
1 TTCTAAAATAGAAAGTAAAAATAAAATATGAGAAATTACCATGGAATAAAATACAATCTAACATT
92424256 AC
66 AC
92424258 T
1 T
92424259 CAAACAAAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
67 44 0.70
68 19 0.30
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.27
Consensus pattern (67 bp):
TTCTAAAATAGAAAGTAAAAATAAAATATGAGAAATTACCATGGAATAAAATACAATCTAACATT
AC
Found at i:92425122 original size:282 final size:281
Alignment explanation
Indices: 92424417--92425195 Score: 1066
Period size: 280 Copynumber: 2.8 Consensus size: 281
92424407 TAAAACGGAG
* * *
92424417 AAATCTAAATAAAAAATGAAATTAAAAAAGGATTTAAAATCGAAAT-AAAAAACGTACGAAGCAA
1 AAATCAAAATAAAAAATGAAATTAAAAAAGGATTTAAAATCGAAATAAAAAAATGTAAGAAGCAA
* * * ** *
92424481 AGGACCTATTTGGCACTTAATTTGCCTGAAATTTCAAAATCTGGGAGAAACCAAAACCAAAGGGA
66 AGTACCTATTTGGCAATTAATTTGCCTGAAATTTCAAAATCGGGGAGAATTCAAAAGCAAAGGGA
* * * ** * * *
92424546 CGAGAACTACAATTAGCCCATGCGGCGATCCTTTTCTGCT-GATGGCAGGATTTAGAAGGAATTA
131 CAAGAACTGCAATTAGTCCATGCGGCGATCCTTTT-TTATAAAAGGCAGGATGTAGAAGGAATTA
92424610 TGTAGAAAATATCCCTTTATATAACCCTATAAATAACCCTAAAACACCAAAAAAAAAAGAGAGAA
195 TGTAGAAAATATCCCTTTATATAACCCTATAAATAACCCTAAAACACCAAAAAAAAAAGAGAGAA
**
92424675 ATGTAAATCAATAGGATAAAAT
260 ATCAAAATCAATAGGATAAAAT
* * * *
92424697 AAATTAAAATAAAAAATGAGATTAAAAAAAGATTTAAAATC-AAA-ACAAAAAATGTAAGAAGCT
1 AAATCAAAATAAAAAATGAAATTAAAAAAGGATTTAAAATCGAAATA-AAAAAATGTAAGAAGCA
* * * * * *
92424760 GAGTACCTATGTGGCAATTAATTTGCCTGAAATTTCAAAATTGAGGAGAATTTAAAAGCAAACGG
65 AAGTACCTATTTGGCAATTAATTTGCCTGAAATTTCAAAATCGGGGAGAATTCAAAAGCAAAGGG
* * *
92424825 ACAAGAGCTGCAATTAGTCCATGCGACGATCCTTTTTTATAAAAGGCAGGAGGTAGAAGGAATTA
130 ACAAGAACTGCAATTAGTCCATGCGGCGATCCTTTTTTATAAAAGGCAGGATGTAGAAGGAATTA
* * *
92424890 TGTAGAAAATATCTCTTTATATAACCTTATAAATAACCTTAAAACACCAAAAAAAAAAG-GAGAA
195 TGTAGAAAATATCCCTTTATATAACCCTATAAATAACCCTAAAACACCAAAAAAAAAAGAGAGAA
92424954 ATCAAAATCAATAGGATAAAAT
260 ATCAAAATCAATAGGATAAAAT
* *
92424976 AAATCAAAATAAAAAATGATATTAAAAAAGGATTTAAAATCGAAATTAAAAAAAATGTAAGAAGA
1 AAATCAAAATAAAAAATGAAATTAAAAAAGGATTTAAAATCGAAA-T-AAAAAAATGTAAGAAGC
* *
92425041 AAAGTACCTATTTGGCAATTAATTTGCATGAAATTTCAAAATCGGGGAGAATTCAAAAGC-AGGG
64 AAAGTACCTATTTGGCAATTAATTTGCCTGAAATTTCAAAATCGGGGAGAATTCAAAAGCAAAGG
* ** * *
92425105 AGACAAGAACTGCAATTAGTCCATGCGGCGATCCTTTTCTGCAAAAGGCGGGATGTAGAAAGAAT
129 -GACAAGAACTGCAATTAGTCCATGCGGCGATCCTTTTTTATAAAAGGCAGGATGTAGAAGGAAT
*
92425170 TATGTAGAAAATATCCCTTTACATAA
193 TATGTAGAAAATATCCCTTTATATAA
92425196 TGTTATGGAA
Statistics
Matches: 433, Mismatches: 58, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
279 68 0.16
280 214 0.49
281 2 0.00
282 148 0.34
283 1 0.00
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (281 bp):
AAATCAAAATAAAAAATGAAATTAAAAAAGGATTTAAAATCGAAATAAAAAAATGTAAGAAGCAA
AGTACCTATTTGGCAATTAATTTGCCTGAAATTTCAAAATCGGGGAGAATTCAAAAGCAAAGGGA
CAAGAACTGCAATTAGTCCATGCGGCGATCCTTTTTTATAAAAGGCAGGATGTAGAAGGAATTAT
GTAGAAAATATCCCTTTATATAACCCTATAAATAACCCTAAAACACCAAAAAAAAAAGAGAGAAA
TCAAAATCAATAGGATAAAAT
Found at i:92427145 original size:178 final size:178
Alignment explanation
Indices: 92426846--92427202 Score: 705
Period size: 178 Copynumber: 2.0 Consensus size: 178
92426836 CAGTTATTGA
92426846 TAACACTGAGTGACTGCATTGGTGGACTCAGGTAGCACATACAATTTTATCGATCTTAAGGTGGC
1 TAACACTGAGTGACTGCATTGGTGGACTCAGGTAGCACATACAATTTTATCGATCTTAAGGTGGC
92426911 TAAAAGGTTGAATTTGGTAAGAAGTATATTGTGAGTGATGGTAGCAAATGGGGTTCGGTTATCTA
66 TAAAAGGTTGAATTTGGTAAGAAGTATATTGTGAGTGATGGTAGCAAATGGGGTTCGGTTATCTA
*
92426976 CTCAGGGTATATGTAGAGCAGTTTCCTGGGAAGCACAAGGATACAAAT
131 CTCAGAGTATATGTAGAGCAGTTTCCTGGGAAGCACAAGGATACAAAT
92427024 TAACACTGAGTGACTGCATTGGTGGACTCAGGTAGCACATACAATTTTATCGATCTTAAGGTGGC
1 TAACACTGAGTGACTGCATTGGTGGACTCAGGTAGCACATACAATTTTATCGATCTTAAGGTGGC
92427089 TAAAAGGTTGAATTTGGTAAGAAGTATATTGTGAGTGATGGTAGCAAATGGGGTTCGGTTATCTA
66 TAAAAGGTTGAATTTGGTAAGAAGTATATTGTGAGTGATGGTAGCAAATGGGGTTCGGTTATCTA
92427154 CTCAGAGTATATGTAGAGCAGTTTCCTGGGAAGCACAAGGATACAAAT
131 CTCAGAGTATATGTAGAGCAGTTTCCTGGGAAGCACAAGGATACAAAT
92427202 T
1 T
92427203 CACCTCTGAT
Statistics
Matches: 178, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
178 178 1.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (178 bp):
TAACACTGAGTGACTGCATTGGTGGACTCAGGTAGCACATACAATTTTATCGATCTTAAGGTGGC
TAAAAGGTTGAATTTGGTAAGAAGTATATTGTGAGTGATGGTAGCAAATGGGGTTCGGTTATCTA
CTCAGAGTATATGTAGAGCAGTTTCCTGGGAAGCACAAGGATACAAAT
Found at i:92432590 original size:43 final size:43
Alignment explanation
Indices: 92432516--92432605 Score: 108
Period size: 43 Copynumber: 2.1 Consensus size: 43
92432506 CTTTGAAACA
* * * * * *
92432516 AAAATACAGTAGAAATGAAAATGGACTTCACAACTAAGTCACT
1 AAAACACAATAGAAATGAAAACGAACCTCACAACTAAGCCACT
* *
92432559 AAAACACAATAGAAATGTAAACGAACCTCACAACTAAGCCTCT
1 AAAACACAATAGAAATGAAAACGAACCTCACAACTAAGCCACT
92432602 AAAA
1 AAAA
92432606 TGCAAGAAGC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.51, C:0.20, G:0.11, T:0.18
Consensus pattern (43 bp):
AAAACACAATAGAAATGAAAACGAACCTCACAACTAAGCCACT
Found at i:92432816 original size:86 final size:86
Alignment explanation
Indices: 92432724--92432887 Score: 231
Period size: 87 Copynumber: 1.9 Consensus size: 86
92432714 AATGCAACAA
* * * *
92432724 AAACAT-AAATAGATCACACAACTAGGCCTCTAAAATGCAATAGAATGTAAGATGGACATCACAA
1 AAACATAAAATAGATCACACAACTAAGCCTCTAAAATGAAATAAAATGTAA-ATGAACATCACAA
*
92432788 CTAGGCCTCTAAAATATAATGG
65 CTAAGCCTCTAAAATATAATGG
* * * *
92432810 AAACATAAAATGGATCTCACAACTAAGCCTTTAAAATGAAATAAAATGTAAATGAACCTCACAAC
1 AAACATAAAATAGATCACACAACTAAGCCTCTAAAATGAAATAAAATGTAAATGAACATCACAAC
92432875 TAAGCCTCTAAAA
66 TAAGCCTCTAAAA
92432888 AGAAAACTGA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
86 30 0.44
87 38 0.56
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (86 bp):
AAACATAAAATAGATCACACAACTAAGCCTCTAAAATGAAATAAAATGTAAATGAACATCACAAC
TAAGCCTCTAAAATATAATGG
Found at i:92432876 original size:42 final size:42
Alignment explanation
Indices: 92432740--92432892 Score: 157
Period size: 42 Copynumber: 3.6 Consensus size: 42
92432730 AAATAGATCA
* * * *
92432740 CACAACTAGGCCTCTAAAATGCAATAGAATGTAAGATGGACAT
1 CACAACTAAGCCTCTAAAATGAAATAAAATGTAA-ATGGACCT
* * *
92432783 CACAACTAGGCCTCTAAAAT-ATAATGGAAACAT-AAAATGGATCT
1 CACAACTAAGCCTCTAAAATGA-AAT--AAA-ATGTAAATGGACCT
* *
92432827 CACAACTAAGCCTTTAAAATGAAATAAAATGTAAATGAACCT
1 CACAACTAAGCCTCTAAAATGAAATAAAATGTAAATGGACCT
*
92432869 CACAACTAAGCCTCTAAAAAGAAA
1 CACAACTAAGCCTCTAAAATGAAA
92432893 ACTGAACTCC
Statistics
Matches: 92, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
41 2 0.02
42 33 0.36
43 23 0.25
44 27 0.29
45 5 0.05
46 2 0.02
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.21
Consensus pattern (42 bp):
CACAACTAAGCCTCTAAAATGAAATAAAATGTAAATGGACCT
Found at i:92434443 original size:26 final size:25
Alignment explanation
Indices: 92434414--92434463 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
92434404 ATTTCTCCTA
* *
92434414 TTTTTTCCTCTTTCTTTTTTTTTCTT
1 TTTTTTCCT-TTTCCTTTTATTTCTT
92434440 TTTTTTCCTTTTCCTTTTATTTCT
1 TTTTTTCCTTTTCCTTTTATTTCT
92434464 CTCTCCCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTTTCCTTTTCCTTTTATTTCTT
Found at i:92435024 original size:7 final size:7
Alignment explanation
Indices: 92435012--92435037 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
92435002 CAGAAATATA
92435012 ACAAAAT
1 ACAAAAT
92435019 ACAAAAT
1 ACAAAAT
92435026 ACAAAAT
1 ACAAAAT
92435033 ACAAA
1 ACAAA
92435038 TAGAACAAAA
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:0.73, C:0.15, G:0.00, T:0.12
Consensus pattern (7 bp):
ACAAAAT
Found at i:92435538 original size:12 final size:12
Alignment explanation
Indices: 92435521--92435553 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
92435511 TTGAAGAACC
92435521 ATTAATCATGTT
1 ATTAATCATGTT
92435533 ATTAATCATGTT
1 ATTAATCATGTT
92435545 ATTAATCAT
1 ATTAATCAT
92435554 ATATGCAAGA
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:0.36, C:0.09, G:0.06, T:0.48
Consensus pattern (12 bp):
ATTAATCATGTT
Found at i:92441428 original size:15 final size:15
Alignment explanation
Indices: 92441381--92441429 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
92441371 CCCCTATCAC
*
92441381 CACCTCTTCCACCAC
1 CACCTCTTCCACCAT
* *
92441396 CTCCTCTTCC-TC-T
1 CACCTCTTCCACCAT
92441409 C-CCTCTTCCACCAT
1 CACCTCTTCCACCAT
92441423 CACCTCT
1 CACCTCT
92441430 GCCCCTAAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
12 8 0.30
13 2 0.07
14 3 0.11
15 14 0.52
ACGTcount: A:0.12, C:0.57, G:0.00, T:0.31
Consensus pattern (15 bp):
CACCTCTTCCACCAT
Found at i:92442712 original size:21 final size:21
Alignment explanation
Indices: 92442686--92442770 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
92442676 ACTCCTAAAC
*
92442686 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* *
92442707 CTTAAACCATAGTTAACTCATAAAC
1 CTTAAACCATA---AAC-CATATAT
*
92442732 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
*
92442753 CTTAAACAATAAACCATA
1 CTTAAACCATAAACCATA
92442771 AACTATAATG
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
21 31 0.60
22 3 0.06
24 3 0.06
25 15 0.29
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.27
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:92442723 original size:46 final size:46
Alignment explanation
Indices: 92442670--92442759 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
92442660 CTTCAAACAC
*
92442670 TAGTTAACTCCTAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
92442716 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
92442760 AATAAACCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.29
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:92443127 original size:81 final size:81
Alignment explanation
Indices: 92442935--92443111 Score: 277
Period size: 81 Copynumber: 2.2 Consensus size: 81
92442925 GTTATATGAC
*
92442935 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGC
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
92443000 GCCGCTAATGCTCTGT
66 GCCGCTAATGCTCTGT
* *
92443016 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCT-GTTTTTTGCGGCGTTTTTTACTAAAA
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCG--TTTTACCAAAA
*
92443080 -CGCCGCTATTGCTCTGT
64 GCGCCGCTAATGCTCTGT
*
92443097 TTTTAGTGGCGTTTT
1 TTTTAGCGGCGTTTT
92443112 TGGTAAAACG
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
80 12 0.13
81 68 0.76
82 9 0.10
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.37
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAAGC
GCCGCTAATGCTCTGT
Found at i:92443142 original size:41 final size:40
Alignment explanation
Indices: 92442935--92443111 Score: 275
Period size: 41 Copynumber: 4.4 Consensus size: 40
92442925 GTTATATGAC
92442935 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCT-GT
92442976 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGT
92443016 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGT
* * * *
92443056 TTTTTGCGGCGTTTTTTACTAAAA-CGCCGCTATTGCTCTGT
1 TTTTAGCGGCG--TTTTGCCAAAAGCGCCGCTAATGCTCTGT
*
92443097 TTTTAGTGGCGTTTT
1 TTTTAGCGGCGTTTT
92443112 TGGTAAAACG
Statistics
Matches: 128, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
39 4 0.03
40 52 0.41
41 63 0.49
42 9 0.07
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.37
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGT
Found at i:92444684 original size:21 final size:20
Alignment explanation
Indices: 92444654--92444692 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
92444644 CAGGCCTAGA
*
92444654 AATAAGTCCAAAAACAAAAAT
1 AATAAATCCAAAAA-AAAAAT
92444675 AATAAATCCAAAAAAAAA
1 AATAAATCCAAAAAAAAA
92444693 GTCCAAGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.72, C:0.13, G:0.03, T:0.13
Consensus pattern (20 bp):
AATAAATCCAAAAAAAAAAT
Found at i:92444882 original size:35 final size:37
Alignment explanation
Indices: 92444809--92444897 Score: 128
Period size: 35 Copynumber: 2.4 Consensus size: 37
92444799 AATCTTCAAC
92444809 GATATGCAATCTTAGATATAATATGCAATCTTAAATAT
1 GATA-GCAATCTTAGATATAATATGCAATCTTAAATAT
* *
92444847 GATA-CAATCTTAGATATGAT-TGCAATCTTAGATAT
1 GATAGCAATCTTAGATATAATATGCAATCTTAAATAT
92444882 GATATGCAATCTTAGA
1 GATA-GCAATCTTAGA
92444898 AGATATGATT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
35 18 0.38
36 15 0.32
37 10 0.21
38 4 0.09
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.36
Consensus pattern (37 bp):
GATAGCAATCTTAGATATAATATGCAATCTTAAATAT
Found at i:92444904 original size:17 final size:19
Alignment explanation
Indices: 92444809--92444897 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
92444799 AATCTTCAAC
92444809 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
92444828 AATATGCAATCTTAAATAT
1 GATATGCAATCTTAGATAT
92444847 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
92444864 GAT-TGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
92444882 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
92444898 AGATATGATT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
17 15 0.24
18 16 0.25
19 32 0.51
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:92444923 original size:22 final size:22
Alignment explanation
Indices: 92444809--92444920 Score: 83
Period size: 19 Copynumber: 5.7 Consensus size: 22
92444799 AATCTTCAAC
92444809 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
92444828 AATATGCAATCTT--AA-ATAT
1 GATATGCAATCTTAGAAGATAT
92444847 GATA--CAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
92444864 GAT-TGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
92444882 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
92444904 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
92444921 GATTTAATTT
Statistics
Matches: 80, Mismatches: 4, Indels: 14
0.82 0.04 0.14
Matches are distributed among these distances:
16 1 0.01
17 14 0.17
18 16 0.20
19 28 0.35
20 1 0.01
22 8 0.10
23 12 0.15
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:92445210 original size:18 final size:19
Alignment explanation
Indices: 92445187--92445222 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
92445177 TTTCCCTAAT
*
92445187 TTTTTTTATAT-ATTTTAA
1 TTTTTTTAAATAATTTTAA
92445205 TTTTTTTAAATAATTTTA
1 TTTTTTTAAATAATTTTA
92445223 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTTAAATAATTTTAA
Found at i:92453462 original size:89 final size:87
Alignment explanation
Indices: 92453333--92453493 Score: 207
Period size: 89 Copynumber: 1.8 Consensus size: 87
92453323 AGTCGACGGA
* *
92453333 GAGCAGATCGAAGACATAGTAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATG-TTT-ACATCGAAGAAGATCCAAGATG
92453398 ATTTGGCATCCTTGCGTTTACAAT
64 ATTTGGCATCCTTGCGTTTACAAT
* ** * * * *
92453422 GAGCAGATCGAAGACATAGCAGATTTGGCTTTCATG-TGTTTACGTTGAAGAAGATCTAAGATGA
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCA-GATGTTTACATCGAAGAAGATCCAAGATGA
92453486 TTTGGCAT
65 TTTGGCAT
92453494 ATCTGTACTG
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
87 27 0.44
88 3 0.05
89 31 0.50
90 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (87 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATGTTTACATCGAAGAAGATCCAAGATGAT
TTGGCATCCTTGCGTTTACAAT
Found at i:92453598 original size:220 final size:220
Alignment explanation
Indices: 92453216--92453780 Score: 882
Period size: 220 Copynumber: 2.6 Consensus size: 220
92453206 CAGGCTAAAG
* * * * * **
92453216 CATAGCAGATTTGACCTTCAGGTGTTTACGCTGAA-ACAGATCCAAGATAATTTAACATCTCTGT
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGA-AGATCTAAGATGATTTGGCATCTCTGT
* * * * **
92453280 ATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATAGTCGACGGAGAGCAGATCGAA
65 ACTGTTAGAGAACAAATTGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATAAAA
* *
92453345 GACATAGTAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCT
130 AACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCT
*
92453410 TGCGTTTACAATGAGCAGATCGAAGA
195 TGCGTTTACAAGGAGCAGATCGAAGA
* * *
92453436 CATAGCAGATTTGGCTTTCATGTGTTTACGTTGAAGAAGATCTAAGATGATTTGGCATATCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGAAGATCTAAGATGATTTGGCATCTCTGTA
*
92453501 CTGTTAGAGAACAAATTGAAGAAACATATTTGGCATCTCCATATTCGACGGAGAGCAGATAAAAA
66 CTGTTAGAGAACAAATTGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATAAAAA
* *
92453566 ACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGTATCCTT
131 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
92453631 GCGTTTACAAGGAGCAGATCGAAGA
196 GCGTTTACAAGGAGCAGATCGAAGA
* *
92453656 CATAGCAGATTTTGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGAAGATCTAAGATGATTTGGCATCTCTGTA
92453721 CTGTTAGAGAACAAATCT-AAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGAT
66 CTGTTAGAGAACAAAT-TGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGAT
92453781 CGAAGACACA
Statistics
Matches: 316, Mismatches: 27, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
220 314 0.99
221 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (220 bp):
CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGAAGATCTAAGATGATTTGGCATCTCTGTA
CTGTTAGAGAACAAATTGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATAAAAA
ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
GCGTTTACAAGGAGCAGATCGAAGA
Found at i:92453857 original size:78 final size:78
Alignment explanation
Indices: 92453747--92454041 Score: 412
Period size: 78 Copynumber: 3.8 Consensus size: 78
92453737 CTAAGAAACA
** * * **
92453747 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACACAGTAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
92453812 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
92453825 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACACAACAGATTTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
*
92453890 GTAGATCCAAGAT
66 GCAGATCCAAGAT
* * * * * *
92453903 GATTTGGCATATCTTTATTAAACGGGGAGAAGATCGAAGACATAATAGAT-TAGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCT-GACCTTCATTGA
92453967 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * *
92453981 TATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCAT
92454042 GTGTTTACAT
Statistics
Matches: 191, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
77 1 0.01
78 189 0.99
79 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Done.