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 307 of 318
Found at i:97168120 original size:12 final size:12
Alignment explanation
Indices: 97168105--97168139 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
97168095 CTATATCTAT
97168105 TATTATAATATA
1 TATTATAATATA
*
97168117 TATTGTAATATA
1 TATTATAATATA
97168129 TATATATAATA
1 TAT-TATAATA
97168140 GTAGTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (12 bp):
TATTATAATATA
Found at i:97172029 original size:24 final size:24
Alignment explanation
Indices: 97171995--97172048 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
97171985 AAAGAAAAAG
97171995 AGAGAGGGAAAAAAGGAATAAGTCT
1 AGAG-GGGAAAAAAGGAATAAGTCT
97172020 AGAGGGGAAAAAAGGAATAAGTCT
1 AGAGGGGAAAAAAGGAATAAGTCT
97172044 AGAGG
1 AGAGG
97172049 TTACTATCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.50, C:0.04, G:0.35, T:0.11
Consensus pattern (24 bp):
AGAGGGGAAAAAAGGAATAAGTCT
Found at i:97177675 original size:7 final size:7
Alignment explanation
Indices: 97177606--97177863 Score: 63
Period size: 7 Copynumber: 35.9 Consensus size: 7
97177596 TTTATTTTCT
97177606 TATATTA
1 TATATTA
*
97177613 TATGTTA
1 TATATTA
97177620 TA-ATTA
1 TATATTA
*
97177626 TTTTATTA
1 -TATATTA
* *
97177634 CATGTTA
1 TATATTA
*
97177641 TTTATTTTA
1 --TATATTA
97177650 TATATTA
1 TATATTA
97177657 T-TATTA
1 TATATTA
*
97177663 CATATTA
1 TATATTA
*
97177670 TGTATTA
1 TATATTA
*
97177677 TACATTTTA
1 T--ATATTA
97177686 TATATT-
1 TATATTA
* *
97177692 TTTTTTA
1 TATATTA
*
97177699 T-TATTT
1 TATATTA
97177705 TATATTA
1 TATATTA
97177712 T-TATT-
1 TATATTA
*
97177717 TATATACA
1 TATAT-TA
97177725 TATATTA
1 TATATTA
*
97177732 TTATCCTTA
1 -TAT-ATTA
97177741 -ACTATTA
1 TA-TATTA
*
97177748 TATTTTA
1 TATATTA
97177755 T-TAATTA
1 TAT-ATTA
97177762 -ATTACTTA
1 TA-TA-TTA
*
97177770 TATACTA
1 TATATTA
*
97177777 TATATTG
1 TATATTA
*
97177784 TA-ATTT
1 TATATTA
* *
97177790 TAAACCTA
1 TATA-TTA
*
97177798 TATACTTT
1 TATA-TTA
97177806 TATATTA
1 TATATTA
97177813 TATATTA
1 TATATTA
97177820 TATAATTA
1 TAT-ATTA
*
97177828 TTTTATT-
1 -TATATTA
97177835 TACTATGTA
1 TA-TAT-TA
97177844 TATTATT-
1 TA-TATTA
*
97177851 TATTTTA
1 TATATTA
97177858 TATATT
1 TATATT
97177864 TTTTAAAAAT
Statistics
Matches: 181, Mismatches: 41, Indels: 58
0.65 0.15 0.21
Matches are distributed among these distances:
5 1 0.01
6 33 0.18
7 87 0.48
8 39 0.22
9 21 0.12
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (7 bp):
TATATTA
Found at i:97177681 original size:45 final size:44
Alignment explanation
Indices: 97177632--97177725 Score: 109
Period size: 45 Copynumber: 2.1 Consensus size: 44
97177622 ATTATTTTAT
*
97177632 TACATGTTATTTATTTTATATATTATTATTACA-TATTATGTATTA
1 TACATGTTATATATTTTATATATTATT-TTACATTATTATGTA-TA
* * * * *
97177677 TACATTTTATATATTTTTTTTATTATTTTATATTATTATTTATA
1 TACATGTTATATATTTTATATATTATTTTACATTATTATGTATA
97177721 TACAT
1 TACAT
97177726 ATATTATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
44 11 0.26
45 31 0.74
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (44 bp):
TACATGTTATATATTTTATATATTATTTTACATTATTATGTATA
Found at i:97177686 original size:16 final size:17
Alignment explanation
Indices: 97177650--97177691 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
97177640 ATTTATTTTA
97177650 TATATTATTATTACATAT
1 TATA-TATTATTACATAT
* *
97177668 TATGTATTA-TACATTT
1 TATATATTATTACATAT
97177684 TATATATT
1 TATATATT
97177692 TTTTTTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 13 0.62
17 5 0.24
18 3 0.14
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (17 bp):
TATATATTATTACATAT
Found at i:97177686 original size:29 final size:28
Alignment explanation
Indices: 97177607--97177691 Score: 73
Period size: 29 Copynumber: 2.9 Consensus size: 28
97177597 TTATTTTCTT
*
97177607 ATATTATATGTTATAATTATT-TTATTAC
1 ATATTATATATTATAATT-TTATTATTAC
* * * *
97177635 ATGTTATTTATTTTATATATTATTATTAC
1 ATATTATATATTATA-ATTTTATTATTAC
*
97177664 ATATTATGTATTATACATTTTATATATT
1 ATATTATATATTATA-ATTTTAT-TATT
97177692 TTTTTTATTA
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
28 13 0.30
29 27 0.61
30 4 0.09
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (28 bp):
ATATTATATATTATAATTTTATTATTAC
Found at i:97177712 original size:13 final size:13
Alignment explanation
Indices: 97177638--97177721 Score: 50
Period size: 13 Copynumber: 6.5 Consensus size: 13
97177628 TTATTACATG
97177638 TTAT-TTATT-TT
1 TTATATTATTATT
*
97177649 ATATATTATTATT
1 TTATATTATTATT
**
97177662 ACATATTATGTATT
1 TTATATTAT-TATT
* *
97177676 ATACATTTTATATATT
1 -T-TATATTAT-TATT
*
97177692 TT-TTTTATTATT
1 TTATATTATTATT
97177704 TTATATTATTA-T
1 TTATATTATTATT
97177716 TTATAT
1 TTATAT
97177722 ACATATATTA
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
11 3 0.05
12 18 0.30
13 23 0.38
14 4 0.07
15 1 0.02
16 11 0.18
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.65
Consensus pattern (13 bp):
TTATATTATTATT
Found at i:97177833 original size:25 final size:26
Alignment explanation
Indices: 97177803--97177860 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
97177793 ACCTATATAC
*
97177803 TTTTATATTA-TATAT-TATATAATTA
1 TTTTATATTACTATGTATAT-TAATTA
*
97177828 TTTTAT-TTACTATGTATATTATTTA
1 TTTTATATTACTATGTATATTAATTA
97177853 TTTTATAT
1 TTTTATAT
97177861 ATTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 3 0.11
25 21 0.75
26 4 0.14
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTTATATTACTATGTATATTAATTA
Found at i:97177972 original size:28 final size:30
Alignment explanation
Indices: 97177926--97177981 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
97177916 TTTTTTATGC
* *
97177926 ATTATTTTATTCTAAATT-ATT-TTTTAAA
1 ATTACTTTATTATAAATTAATTCTTTTAAA
*
97177954 ATTACTTTATTATATATTAATTCTTTTA
1 ATTACTTTATTATAAATTAATTCTTTTA
97177982 TATTTTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 15 0.65
29 3 0.13
30 5 0.22
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (30 bp):
ATTACTTTATTATAAATTAATTCTTTTAAA
Found at i:97179241 original size:26 final size:26
Alignment explanation
Indices: 97179167--97179278 Score: 143
Period size: 26 Copynumber: 4.2 Consensus size: 26
97179157 AAGAAAGCCT
* * *
97179167 AAAGAAAAGCATTTGTGGCTTAATAAG
1 AAAG-AAAGCCTTTGTGGCGTAATATG
* * * *
97179194 AAAGAAAAGTCATTGCGACGTAATATG
1 AAAG-AAAGCCTTTGTGGCGTAATATG
97179221 AAAGAAAGCCTTTGTGGCGTAATATG
1 AAAGAAAGCCTTTGTGGCGTAATATG
97179247 AAAGAAAGCCTTTGTGGCGTAATATG
1 AAAGAAAGCCTTTGTGGCGTAATATG
97179273 AAAGAA
1 AAAGAA
97179279 TGTCATTGTG
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 50 0.68
27 24 0.32
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.24
Consensus pattern (26 bp):
AAAGAAAGCCTTTGTGGCGTAATATG
Found at i:97179287 original size:26 final size:26
Alignment explanation
Indices: 97179179--97179290 Score: 134
Period size: 26 Copynumber: 4.3 Consensus size: 26
97179169 AGAAAAGCAT
* * *
97179179 TTGTGGCTTAATAAGAAAGAAAAGTCA
1 TTGTGGCGTAATATGAAAG-AAAGCCA
* * *
97179206 TTGCGACGTAATATGAAAGAAAGCCT
1 TTGTGGCGTAATATGAAAGAAAGCCA
*
97179232 TTGTGGCGTAATATGAAAGAAAGCCT
1 TTGTGGCGTAATATGAAAGAAAGCCA
* *
97179258 TTGTGGCGTAATATGAAAGAATGTCA
1 TTGTGGCGTAATATGAAAGAAAGCCA
97179284 TTGTGGC
1 TTGTGGC
97179291 AAACTTCGTA
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 59 0.80
27 15 0.20
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.28
Consensus pattern (26 bp):
TTGTGGCGTAATATGAAAGAAAGCCA
Found at i:97184220 original size:16 final size:16
Alignment explanation
Indices: 97184199--97184345 Score: 61
Period size: 16 Copynumber: 8.8 Consensus size: 16
97184189 TTTTATTTTC
97184199 AAATATATAAAATATA
1 AAATATATAAAATATA
*
97184215 AAATATATACAAT-TAA
1 AAATATATAAAATAT-A
*
97184231 AAATATATAGAAA-ACAA
1 AAATATATA-AAATA-TA
*
97184248 ATAATATTTTAAAAATATA
1 A-AATA-TAT-AAAATATA
*
97184267 AAAAAT-TACGAAATATA
1 AAATATATA--AAATATA
*
97184284 ATATATAT-AAATA-A
1 AAATATATAAAATATA
* * *
97184298 AAAAATCTAAAATTTTA
1 AAATATATAAAA-TATA
* *
97184315 TAAATCTATAAAAATGTA
1 -AAATATAT-AAAATATA
97184333 TAAATATATAAAA
1 -AAATATATAAAA
97184346 GAACTAAAAA
Statistics
Matches: 98, Mismatches: 17, Indels: 31
0.67 0.12 0.21
Matches are distributed among these distances:
14 6 0.06
15 10 0.10
16 24 0.24
17 21 0.21
18 24 0.24
19 11 0.11
20 2 0.02
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.31
Consensus pattern (16 bp):
AAATATATAAAATATA
Found at i:97184337 original size:27 final size:27
Alignment explanation
Indices: 97184298--97184372 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
97184288 ATATAAATAA
* *
97184298 AAAAATCTA-AAATTTTATAAATCTA-T
1 AAAAATCTATAAA-TTTATAAAACAACT
* * *
97184324 AAAAATGTATAAATATATAAAAGAACT
1 AAAAATCTATAAATTTATAAAACAACT
*
97184351 AAAAATTTATAAATTTATAAAA
1 AAAAATCTATAAATTTATAAAA
97184373 AAATATATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 16 0.40
27 24 0.60
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (27 bp):
AAAAATCTATAAATTTATAAAACAACT
Found at i:97184376 original size:20 final size:20
Alignment explanation
Indices: 97184351--97184392 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
97184341 TAAAAGAACT
* *
97184351 AAAAATTTATAAATTTATAA
1 AAAAATATATAAATATATAA
97184371 AAAAATATATAAATATATAA
1 AAAAATATATAAATATATAA
97184391 AA
1 AA
97184393 TAACTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATATATAAATATATAA
Found at i:97184392 original size:18 final size:18
Alignment explanation
Indices: 97184199--97184391 Score: 68
Period size: 18 Copynumber: 11.2 Consensus size: 18
97184189 TTTTATTTTC
97184199 AAATATAT-AAAATATA-
1 AAATATATAAAAATATAT
* *
97184215 AAATATAT-ACAAT-TAA
1 AAATATATAAAAATATAT
* *
97184231 AAATATATAGAAAACAAAT
1 AAATATATA-AAAATATAT
*
97184250 -AATATTTTAAAAATATA-
1 AAATA-TATAAAAATATAT
* **
97184267 AAAAAT-TACGAA-ATAT
1 AAATATATAAAAATATAT
*
97184283 -AATATATATAAATA-A-
1 AAATATATAAAAATATAT
* * * *
97184298 AAAAATCTAAAATTTTAT
1 AAATATATAAAAATATAT
* *
97184316 AAATCTATAAAAATGTAT
1 AAATATATAAAAATATAT
*
97184334 AAATATATAAAAGA-ACTAA
1 AAATATATAAAA-ATA-TAT
* ** *
97184353 AAATTTATAAATTTATAA
1 AAATATATAAAAATATAT
* *
97184371 AAAAATATATAAATATAT
1 AAATATATAAAAATATAT
97184389 AAA
1 AAA
97184392 ATAACTAAAA
Statistics
Matches: 126, Mismatches: 36, Indels: 28
0.66 0.19 0.15
Matches are distributed among these distances:
15 9 0.07
16 38 0.30
17 3 0.02
18 58 0.46
19 18 0.14
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (18 bp):
AAATATATAAAAATATAT
Found at i:97184398 original size:47 final size:44
Alignment explanation
Indices: 97184286--97184402 Score: 148
Period size: 47 Copynumber: 2.6 Consensus size: 44
97184276 GAAATATAAT
* *
97184286 ATATATAAATA-A-AAAAATCTAAAATTTTATAAATCTATAAAA
1 ATATATAAATATATAAAAAACTAAAAATTTATAAATCTATAAAA
* *
97184328 ATGTATAAATATATAAAAGAACTAAAAATTTATAAATTTATAAAAAA
1 ATATATAAATATATAAAA-AACTAAAAATTTATAAATCTAT--AAAA
97184375 ATATATAAATATATAAAATAACTAAAAA
1 ATATATAAATATATAAAA-AACTAAAAA
97184403 ATACATCTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
42 10 0.16
43 1 0.02
44 4 0.06
45 19 0.30
47 30 0.47
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (44 bp):
ATATATAAATATATAAAAAACTAAAAATTTATAAATCTATAAAA
Found at i:97185910 original size:50 final size:50
Alignment explanation
Indices: 97185835--97185937 Score: 206
Period size: 50 Copynumber: 2.1 Consensus size: 50
97185825 ATGATATTAG
97185835 GTTGTGTTTGTTCTAGGGAAATTGGTAAGAGTGGTTTTATGTTTTCACAA
1 GTTGTGTTTGTTCTAGGGAAATTGGTAAGAGTGGTTTTATGTTTTCACAA
97185885 GTTGTGTTTGTTCTAGGGAAATTGGTAAGAGTGGTTTTATGTTTTCACAA
1 GTTGTGTTTGTTCTAGGGAAATTGGTAAGAGTGGTTTTATGTTTTCACAA
97185935 GTT
1 GTT
97185938 TAAAGAGTAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.21, C:0.06, G:0.28, T:0.45
Consensus pattern (50 bp):
GTTGTGTTTGTTCTAGGGAAATTGGTAAGAGTGGTTTTATGTTTTCACAA
Found at i:97191523 original size:19 final size:20
Alignment explanation
Indices: 97191486--97191526 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
97191476 CAAATATTGA
*
97191486 TTTATATTTTATACCTTAAT
1 TTTAAATTTTATACCTTAAT
*
97191506 TTTAAATTTTA-ACTTTAAT
1 TTTAAATTTTATACCTTAAT
97191525 TT
1 TT
97191527 ACTTAAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTAAATTTTATACCTTAAT
Found at i:97201714 original size:15 final size:15
Alignment explanation
Indices: 97201694--97201725 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
97201684 TTATTATATG
97201694 TGTACTATAATAAGT
1 TGTACTATAATAAGT
97201709 TGTACTATAATAAGT
1 TGTACTATAATAAGT
97201724 TG
1 TG
97201726 AATATTTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.41
Consensus pattern (15 bp):
TGTACTATAATAAGT
Found at i:97201769 original size:3 final size:3
Alignment explanation
Indices: 97201761--97201797 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
97201751 ATAGCATGAC
97201761 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
97201798 CTAGAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:97202270 original size:3 final size:3
Alignment explanation
Indices: 97202262--97202288 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
97202252 GTAAAACACT
97202262 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
97202289 CGACACGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:97202828 original size:21 final size:21
Alignment explanation
Indices: 97202804--97202847 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
97202794 TCAATTGATT
97202804 CAACCCTTTTATTCATACTAA
1 CAACCCTTTTATTCATACTAA
*
97202825 CAACCCTTTTATTCATGCTAA
1 CAACCCTTTTATTCATACTAA
97202846 CA
1 CA
97202848 TACCAATCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.30, G:0.02, T:0.36
Consensus pattern (21 bp):
CAACCCTTTTATTCATACTAA
Found at i:97204392 original size:17 final size:17
Alignment explanation
Indices: 97204370--97204403 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
97204360 GAAAAAATTG
*
97204370 TATAAAATTTTTAAAAA
1 TATAAAAATTTTAAAAA
97204387 TATAAAAATTTTAAAAA
1 TATAAAAATTTTAAAAA
97204404 GAATATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TATAAAAATTTTAAAAA
Found at i:97212579 original size:30 final size:31
Alignment explanation
Indices: 97212545--97212613 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
97212535 TTCAATCTTC
* *
97212545 AATCTTTC-AATATTCTC-TCAATTTCTCTCA
1 AATCTTTCAAAT-TTCTCTTAAATTCCTCTCA
*
97212575 AATCTCTCAAATTTCTCTTAAATTCCTCTCA
1 AATCTTTCAAATTTCTCTTAAATTCCTCTCA
*
97212606 AAACTTTC
1 AATCTTTC
97212614 GTTAATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.29, C:0.28, G:0.00, T:0.43
Consensus pattern (31 bp):
AATCTTTCAAATTTCTCTTAAATTCCTCTCA
Found at i:97212582 original size:11 final size:10
Alignment explanation
Indices: 97212551--97212607 Score: 62
Period size: 11 Copynumber: 5.5 Consensus size: 10
97212541 CTTCAATCTT
97212551 TCAATATTCTC
1 TCAA-ATTCTC
*
97212562 TCAATTTCTC
1 TCAAATTCTC
97212572 TCAAA-TCTC
1 TCAAATTCTC
97212581 TCAAATTTCTC
1 TCAAA-TTCTC
*
97212592 TTAAATTCCTC
1 TCAAATT-CTC
97212603 TCAAA
1 TCAAA
97212608 ACTTTCGTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
9 9 0.23
10 11 0.28
11 19 0.49
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.42
Consensus pattern (10 bp):
TCAAATTCTC
Found at i:97212589 original size:20 final size:21
Alignment explanation
Indices: 97212551--97212607 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
97212541 CTTCAATCTT
97212551 TCAATATTCTCTC-AATTTCTC
1 TCAA-ATTCTCTCAAATTTCTC
97212572 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTTCTC
*
97212592 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
97212608 ACTTTCGTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 6 0.19
20 13 0.41
21 5 0.16
22 8 0.25
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.42
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTTCTC
Found at i:97212663 original size:16 final size:15
Alignment explanation
Indices: 97212634--97212664 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
97212624 TCAAAAAAGC
*
97212634 TCTAATTTTATTTTT
1 TCTAAATTTATTTTT
97212649 TCTAAATTTATTTTT
1 TCTAAATTTATTTTT
97212664 T
1 T
97212665 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTAAATTTATTTTT
Found at i:97216009 original size:126 final size:126
Alignment explanation
Indices: 97215779--97216317 Score: 792
Period size: 126 Copynumber: 4.3 Consensus size: 126
97215769 GCCCAAGTTA
* * *
97215779 TTTCAGAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
97215844 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
* * * * * *
97215905 TTTCAGAGACCACTGTAGCAAAAGAGCATCCGCGTGGGAGCTTCTTCCAGTAATTTTGCTAAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * *
97215970 TGCATCCTACTTGAAGCGTTTTT-ACCATTATTTGCGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTACGCAGACACGTCTTCTCAAAATTATTT
* * *
97216031 TTTCAGAGACTACTGTAGCAAAATAGTGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * * * *
97216096 TACATCCTGCTTGAAGCGTTTTTTACACTATTTGCACAGACACATCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
* * ** *
97216157 TTTCAGATACTACTGTAGCAAAAGAGGGTCCACGTGGGAGCTTCTTTTGGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* *
97216222 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
* *
97216283 TATCAGAGACTACCGTAGCAAAAGAGCGTCCACGT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
97216318 AGAAGCTTTT
Statistics
Matches: 370, Mismatches: 41, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
125 1 0.00
126 368 0.99
127 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTACGCAGACACGTCTTCTCAAAATTATTT
Found at i:97216421 original size:15 final size:15
Alignment explanation
Indices: 97216401--97216430 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
97216391 TTTCTTAAAT
97216401 ACCCTAAAACCCTAA
1 ACCCTAAAACCCTAA
*
97216416 ACCCTAAAATCCTAA
1 ACCCTAAAACCCTAA
97216431 TCTAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (15 bp):
ACCCTAAAACCCTAA
Found at i:97216604 original size:96 final size:97
Alignment explanation
Indices: 97216405--97216610 Score: 265
Period size: 96 Copynumber: 2.1 Consensus size: 97
97216395 TTAAATACCC
* * * **
97216405 TAAAACCCTAAACCCTAAAATCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTA
1 TAAAACCCTAAACACTAAAATCATAATCTAATTTTTTTAAAATTTATAATTAATTTAATCAACAA
* * *
97216470 ACCCTAAACCTTAATTTATTTGATTTTTTCCT
66 ACACTAAACCCTAATTTATTTAATTTTTTCCT
* * *
97216502 TAAAAACCATAAACACTAAACT-ATAATCTAA-TTTTTTAAAA-TTAGTAATTAATTTAATTAAC
1 T-AAAACCCTAAACACTAAAATCATAATCTAATTTTTTTAAAATTTA-TAATTAATTTAATCAAC
97216564 AAACACTAAACCCTAATTTATTTAATTTTTTTCCT
64 AAACACTAAACCCTAATTTATTTAA-TTTTTTCCT
97216599 TAAAACCCTAAA
1 TAAAACCCTAAA
97216611 ATTTAAAAAT
Statistics
Matches: 94, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
95 3 0.03
96 55 0.59
97 19 0.20
98 17 0.18
ACGTcount: A:0.42, C:0.17, G:0.01, T:0.40
Consensus pattern (97 bp):
TAAAACCCTAAACACTAAAATCATAATCTAATTTTTTTAAAATTTATAATTAATTTAATCAACAA
ACACTAAACCCTAATTTATTTAATTTTTTCCT
Found at i:97216761 original size:40 final size:41
Alignment explanation
Indices: 97216686--97216783 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 41
97216676 GAAAACGCTT
*
97216686 CCTCAAGGAAGCG-TTT-TGGCTACGTAGACAGAAAGCGCGC
1 CCTCAAGGAAGCGTTTTCTGGCCACGTAGACA-AAAGCGCGC
* * **
97216726 CCTCAAGGAAGCGTTTTCTGTCCACGTAGGC-AAAGCGCTT
1 CCTCAAGGAAGCGTTTTCTGGCCACGTAGACAAAAGCGCGC
**
97216766 CCTTGAGGAAGCGTTTTC
1 CCTCAAGGAAGCGTTTTC
97216784 CTGCTTTTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
40 36 0.73
41 3 0.06
42 10 0.20
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (41 bp):
CCTCAAGGAAGCGTTTTCTGGCCACGTAGACAAAAGCGCGC
Found at i:97217247 original size:28 final size:28
Alignment explanation
Indices: 97217216--97217273 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
97217206 AATTAAACAC
*
97217216 CCTATTAAACCGA-CCACTAACTCCATCA
1 CCTACTAAACC-ATCCACTAACTCCATCA
*
97217244 CCTACTAAACCATCCACTACCTCCATCA
1 CCTACTAAACCATCCACTAACTCCATCA
97217272 CC
1 CC
97217274 CCCACACCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 1 0.04
28 26 0.96
ACGTcount: A:0.33, C:0.45, G:0.02, T:0.21
Consensus pattern (28 bp):
CCTACTAAACCATCCACTAACTCCATCA
Found at i:97217265 original size:19 final size:19
Alignment explanation
Indices: 97217243--97217302 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
97217233 TAACTCCATC
97217243 ACCTACTAAACCATCCACT
1 ACCTACTAAACCATCCACT
* * *
97217262 ACCT-CCATCACC-CCCAC-
1 ACCTACTA-AACCATCCACT
97217279 ACCCTACTAAACCATCCACT
1 A-CCTACTAAACCATCCACT
97217299 ACCT
1 ACCT
97217303 TCATCACCCC
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
17 1 0.03
18 12 0.40
19 16 0.53
20 1 0.03
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (19 bp):
ACCTACTAAACCATCCACT
Found at i:97217729 original size:8 final size:8
Alignment explanation
Indices: 97217716--97217751 Score: 51
Period size: 7 Copynumber: 4.9 Consensus size: 8
97217706 GTTATGTTTC
97217716 ATATTATT
1 ATATTATT
97217724 ATATTATT
1 ATATTATT
97217732 -TATTATT
1 ATATTATT
97217739 ATA-TATT
1 ATATTATT
97217746 -TATTAT
1 ATATTAT
97217752 GTAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
6 2 0.08
7 14 0.54
8 10 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
ATATTATT
Found at i:97217746 original size:63 final size:62
Alignment explanation
Indices: 97217609--97217728 Score: 147
Period size: 62 Copynumber: 2.0 Consensus size: 62
97217599 CCTTTTTTTA
* * *
97217609 TTTTTGTTATTTTACTGTTAAATTAATCAATTTGAGCTTTATTCTCATTATTTTTATATTTGT
1 TTTTTATTATTTTACTATTAAATTAATCAATTTGAGC-TTATTCTCATTATTATTATATTTGT
* * *
97217672 TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATATT
1 TTTTTATTATTTTACTATTAAATTAATCAATTTGAGCTTAT-TCTCATTATTATTATATT
97217729 ATTTATTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
60 15 0.30
61 4 0.08
62 19 0.38
63 12 0.24
ACGTcount: A:0.26, C:0.06, G:0.07, T:0.62
Consensus pattern (62 bp):
TTTTTATTATTTTACTATTAAATTAATCAATTTGAGCTTATTCTCATTATTATTATATTTGT
Found at i:97217761 original size:17 final size:14
Alignment explanation
Indices: 97217717--97217751 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
97217707 TTATGTTTCA
97217717 TATTATTATATTATT
1 TATTATTATA-TATT
97217732 TATTATTATATATT
1 TATTATTATATATT
97217746 TATTAT
1 TATTAT
97217752 GTAAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTATATATT
Found at i:97219045 original size:11 final size:11
Alignment explanation
Indices: 97219015--97219047 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
97219005 TTGATATGTT
97219015 AATGAAGAGAA
1 AATGAAGAGAA
97219026 AAT-AAGAGAA
1 AATGAAGAGAA
*
97219036 AGTGAAGAGAA
1 AATGAAGAGAA
97219047 A
1 A
97219048 TAGTGTAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (11 bp):
AATGAAGAGAA
Found at i:97220812 original size:46 final size:46
Alignment explanation
Indices: 97220765--97221038 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
97220755 GCTCTCTGAT
** * * *
97220765 ATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
97220811 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
97220857 ATGAAACGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
97220903 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
97220949 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGAAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
97220995 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
97221039 TCAAAGATAA
Statistics
Matches: 204, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 203 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:97220918 original size:92 final size:92
Alignment explanation
Indices: 97220761--97221033 Score: 393
Period size: 92 Copynumber: 3.0 Consensus size: 92
97220751 GTGTGCTCTC
* ** * * * * *
97220761 TGATATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGCAACCTGATATGAAATGTGTAAGA
1 TGATATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
97220826 CCATGGTTGAAAGATACCATGGCAACG
66 CCATGGTTGAAAGATACCATGGCAACG
* * *
97220853 TGATATGAAACGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGA
1 TGATATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
97220918 CCATGGTTGAAAGATACCATGGCAACG
66 CCATGGTTGAAAGATACCATGGCAACG
* * *
97220945 TGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGAAACATGACAGAAAATGAGTAAGA
1 TGATATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
* * *
97221010 CCATAGTTGAAAGACACTATGGCA
66 CCATGGTTGAAAGATACCATGGCA
97221034 TCATGTCAAA
Statistics
Matches: 162, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 162 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (92 bp):
TGATATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
CCATGGTTGAAAGATACCATGGCAACG
Found at i:97222198 original size:126 final size:126
Alignment explanation
Indices: 97221973--97222216 Score: 416
Period size: 126 Copynumber: 1.9 Consensus size: 126
97221963 CATTGATCTT
* * *
97221973 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTAAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGATATTAAAAGAATTCGAAAAATCGTGCCCTA
*
97222038 ATGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
*
97222099 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGATATTTAAAGAATTCGAAAAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGATATTAAAAGAATTCGAAAAATCGTGCCCTA
* * *
97222164 ACGTACTGGGTTTCGGTTTCTTTGTTTGTTTTGAATATTTGAATATCCTCTTA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
97222217 AGGCTAAAAC
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 110 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (126 bp):
CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGATATTAAAAGAATTCGAAAAATCGTGCCCTA
ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
Found at i:97223825 original size:21 final size:21
Alignment explanation
Indices: 97223781--97223825 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
97223771 AAGGGATAAG
* *
97223781 ATGCTGGAATCCCAGAGAAGC
1 ATGCTAGAATCCCAGAGAAAC
97223802 ATGCTAGAATCCCAGA-ACAAC
1 ATGCTAGAATCCCAGAGA-AAC
97223823 ATG
1 ATG
97223826 ATAAGTCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (21 bp):
ATGCTAGAATCCCAGAGAAAC
Found at i:97226429 original size:13 final size:13
Alignment explanation
Indices: 97226413--97226461 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
97226403 TTTCAAAAAA
97226413 AAAGAGAAAAAGG
1 AAAGAGAAAAAGG
97226426 AAAGAGAAAAAAGG
1 AAAGAG-AAAAAGG
97226440 AAA-AGGAAAAA-G
1 AAAGA-GAAAAAGG
97226452 -AAGAGAAAAA
1 AAAGAGAAAAA
97226462 CAAAAAAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 8 0.24
12 2 0.06
13 12 0.36
14 11 0.33
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AAAGAGAAAAAGG
Found at i:97227873 original size:46 final size:46
Alignment explanation
Indices: 97227756--97228053 Score: 168
Period size: 46 Copynumber: 6.7 Consensus size: 46
97227746 AGCCTTATCC
* ** * * * *
97227756 CACTGAGCAGGAGTGGAACAGGCTAAATATAG-CAGATCTCATC-C
1 CACTGAGCAGGAGTGGAGCAGATTAAATTTCGACAGATCTTATCTT
** *
97227800 CACTG-GCAGGAGTGGAATAGATCAAATTTCGACAGATCTTATCTT
1 CACTGAGCAGGAGTGGAGCAGATTAAATTTCGACAGATCTTATCTT
* * * * * *
97227845 CGCTGAGCAGGAGTGGAGCAGATTAAATTTTGGCAAATCTTACCTC
1 CACTGAGCAGGAGTGGAGCAGATTAAATTTCGACAGATCTTATCTT
* * ** * * *
97227891 CA-TGTATC-GGCAATGGAGCAGATTTCA--GCCACCAG-CCTTATCTT
1 CACTG-AGCAGG-AGTGGAGCAGATTAAATTTCGA-CAGATCTTATCTT
* ** * * * *
97227935 CACTGAGCAGGAGTGAAGCAGGCTAAATATAG-CAGATCTCATC-C
1 CACTGAGCAGGAGTGGAGCAGATTAAATTTCGACAGATCTTATCTT
* * * *
97227979 CATTG-GCTGGAGTGGAACAGATCAAATTTCGACAGATCTTATCTT
1 CACTGAGCAGGAGTGGAGCAGATTAAATTTCGACAGATCTTATCTT
* *
97228024 CGCTGAGCAGGAGTGGAGCAGATCAAATTT
1 CACTGAGCAGGAGTGGAGCAGATTAAATTT
97228054 TGGCGAATCT
Statistics
Matches: 182, Mismatches: 58, Indels: 26
0.68 0.22 0.10
Matches are distributed among these distances:
43 38 0.21
44 52 0.29
45 22 0.12
46 70 0.38
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (46 bp):
CACTGAGCAGGAGTGGAGCAGATTAAATTTCGACAGATCTTATCTT
Found at i:97228044 original size:89 final size:88
Alignment explanation
Indices: 97227758--97228044 Score: 292
Period size: 89 Copynumber: 3.2 Consensus size: 88
97227748 CCTTATCCCA
* * *
97227758 CTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTGGAATAGATC
1 CTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGATCTCATCCCA-TGGCTGGAGTGGAACAGATC
97227823 AAATTTCGACAGATCTTATCTTCG
65 AAATTTCGACAGATCTTATCTTCG
** * * * * * ** * *
97227847 CTGAGCAGGAGTGGAGCAGATTAAATTTTGGCAAATCTTACCTCCATGTATCGGCAATGGAGCAG
1 CTGAGCAGGAGTGGAGCAGGCTAAA-TATAGCAGATCTCATC-CCATGGCT-GG-AGTGGAACAG
*** * * * *
97227912 ATTTCA--GCCACCAG-CCTTATCTTCA
62 ATCAAATTTCGA-CAGATCTTATCTTCG
*
97227937 CTGAGCAGGAGTGAAGCAGGCTAAATATAGCAGATCTCATCCCATTGGCTGGAGTGGAACAGATC
1 CTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGATCTCATCCCA-TGGCTGGAGTGGAACAGATC
97228002 AAATTTCGACAGATCTTATCTTCG
65 AAATTTCGACAGATCTTATCTTCG
97228026 CTGAGCAGGAGTGGAGCAG
1 CTGAGCAGGAGTGGAGCAG
97228045 ATCAAATTTT
Statistics
Matches: 148, Mismatches: 41, Indels: 18
0.71 0.20 0.09
Matches are distributed among these distances:
87 11 0.07
88 8 0.05
89 65 0.44
90 46 0.31
91 8 0.05
92 10 0.07
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (88 bp):
CTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGATCTCATCCCATGGCTGGAGTGGAACAGATCA
AATTTCGACAGATCTTATCTTCG
Found at i:97228056 original size:179 final size:178
Alignment explanation
Indices: 97227744--97228196 Score: 721
Period size: 179 Copynumber: 2.5 Consensus size: 178
97227734 CAGATTTCGG
97227744 CAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
1 CAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
* *
97227809 GAGTGGAATAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATTAAATT
66 GAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAATT
97227874 TTGGCAAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
131 TTGGCAAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
* * *
97227922 CCAGCCTTATCTTCACTGAGCAGGAGT-GAAGCAGGCTAAATATAGCAGATCTCATCCCATTGGC
1 CAAGCCTTATC-CCACTGAGCAGGAGTGGAA-CAGGCTAAATATAGCAGATCTCATCCCACTGGC
*
97227986 TGGAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAA
64 AGGAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAA
* * **
97228051 TTTTGGCGAATCTTATCTCCATGTATCGGCTCTGGAGCAGATTTCAGCCA
129 TTTTGGCAAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
* * **
97228101 GAAACCTTATCCCACTGAGCAGGAGTGGAACAGATTACAA-ATAGCAGATCTCATCCCACTGGCA
1 CAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTA-AATATAGCAGATCTCATCCCACTGGCA
* *
97228165 GGAGTGGAACAGATCAAATTTCAACGGATCTT
65 GGAGTGGAACAGATCAAATTTCGACAGATCTT
97228197 GTCTCCATGT
Statistics
Matches: 251, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
178 84 0.33
179 167 0.67
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.24
Consensus pattern (178 bp):
CAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
GAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAATT
TTGGCAAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
Found at i:97228196 original size:132 final size:131
Alignment explanation
Indices: 97228030--97228537 Score: 544
Period size: 132 Copynumber: 3.8 Consensus size: 131
97228020 TCTTCGCTGA
* *** **
97228030 GCAGGAGTGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTATCGGCTCTGGAGCAGATTT
1 GCAGGAGTGGAACAGATCAAATTTCAACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
** ** **
97228095 CAGCCAGAAACCTTATCCCACTGAGCAGGAGTGGAACAGATTACAAATAGCAGATCTCATCCCAC
66 CAGCCACCAGTCTTATCCCACTGAGCAGGAGTGGAACAGGCTA-AAATAGCAGATCTCATCCCAC
97228160 TG
130 TG
* *
97228162 GCAGGAGTGGAACAGATCAAATTTCAACGGATCTTGTCTCCATGTATCGGCAATGGAGCAGATTT
1 GCAGGAGTGGAACAGATCAAATTTCAACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
* * * * *
97228227 CAGCCACCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACT--CTAGATCTTATCTTC
66 CAGCCACCAGTCTTATC-CCACTGAGCAGGAGTGGAACAGGCTAAAATAGC-AGATCTCATC-CC
**
97228290 GTTG
128 ACTG
* * * *
97228294 AGCAGGAGTGGAGCAGATCAAAATTT-GACGAATCTTATCTCTATGTATTGGCAATGGAGCAGA-
1 -GCAGGAGTGGAACAGATC-AAATTTCAACGAATCTTATCTCCATGTATCGGCAATGGAGCAGAT
* * *
97228357 TTCAAACCATCAGTGTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCC
64 TTC-AGCCACCAGTCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAA-ATAGCAGATCTCATCC
97228422 CACTG
127 CACTG
* * *
97228427 GCAGGAGTGGAACAGATCAAATTTCAGCCG-ATCTTATCTCCATGTATTGGCAATGGAACAGA-T
1 GCAGGAGTGGAACAGATCAAATTTCA-ACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATT
* * * * *
97228490 TCAAACCACCAGTCTTAACCCCCTAAGCAGTAG-GGTAACAGGCTAAAA
65 TC-AGCCACCAGTCTTATCCCACTGAGCAGGAGTGG-AACAGGCTAAAA
97228538 ACTACAGATC
Statistics
Matches: 316, Mismatches: 48, Indels: 25
0.81 0.12 0.06
Matches are distributed among these distances:
130 1 0.00
131 18 0.06
132 191 0.60
133 90 0.28
134 15 0.05
135 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (131 bp):
GCAGGAGTGGAACAGATCAAATTTCAACGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
CAGCCACCAGTCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAAATAGCAGATCTCATCCCACT
G
Found at i:97228354 original size:265 final size:265
Alignment explanation
Indices: 97228012--97228506 Score: 753
Period size: 265 Copynumber: 1.9 Consensus size: 265
97228002 AAATTTCGAC
* *
97228012 AGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAAATTTGACGAATCTTATCTCCATGTAT
** * *
97228077 CGGCTCTGGAGCAGATTTC-AGCCAGAAACCTTATCCCACTGAGCAGGAGTGGAACAGATTACAA
66 CGGCAATGGAGCAGA-TTCAAACCAGAAACCTTATCCCACTGAGCAGGAGTGGAACAGACTA-AA
* *
97228141 -ATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAACGGATCTTGTCTCCAT
129 TATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAACCGATCTTATCTCCAT
* *
97228205 GTATCGGCAATGGAGCAGATTTC-AGCCACCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGC
194 GTATCGGCAATGGAACAGA-TTCAAACCACCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGC
97228269 TAAACTCT
258 TAAACTCT
* *
97228277 AGATCTTATCTTCGTTGAGCAGGAGTGGAGCAGATCAAAATTTGACGAATCTTATCTCTATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAAATTTGACGAATCTTATCTCCATGTAT
* ** *** *
97228342 TGGCAATGGAGCAGATTCAAACCATCAGTGTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATA
66 CGGCAATGGAGCAGATTCAAACCAGAAACCTTATCCCACTGAGCAGGAGTGGAACAGACTAAATA
*
97228407 TAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAGCCGATCTTATCTCCATGT
131 TAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAACCGATCTTATCTCCATGT
*
97228472 ATTGGCAATGGAACAGATTCAAACCACCAGTCTTA
196 ATCGGCAATGGAACAGATTCAAACCACCAGTCTTA
97228507 ACCCCCTAAG
Statistics
Matches: 206, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
264 8 0.04
265 198 0.96
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (265 bp):
AGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAAATTTGACGAATCTTATCTCCATGTAT
CGGCAATGGAGCAGATTCAAACCAGAAACCTTATCCCACTGAGCAGGAGTGGAACAGACTAAATA
TAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAACCGATCTTATCTCCATGT
ATCGGCAATGGAACAGATTCAAACCACCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
ACTCT
Found at i:97228489 original size:311 final size:306
Alignment explanation
Indices: 97227749--97228470 Score: 702
Period size: 311 Copynumber: 2.3 Consensus size: 306
97227739 TTCGGCAAGC
97227749 CTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTG
1 CTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTG
* * * **
97227814 GAATAGATCAAATTTC-GACAGATCTTATCTTCGC-TGAGCAGGAGTGGAGCAGATTAAATTTTG
66 GAACAGATCAAATTTCAG-CAGATCTTATC-TC-CAT--G-AGGAGTGGAACAGATCAAATTTCA
*
97227877 GCAAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAG
125 ACAAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAG
*
97227942 CAGGAGTGAAGCAGGCTAAATATAGCAGATCTCATCCCATTGGCTGGAGTGGAACAGATCAAATT
190 CAGGAGTGAAGCAGGCTAAATATA--AGATCTCATCCCATTGGCAGGAGTGGAACAGATCAAATT
* * ***
97228007 TCGACAGATCTTATCTTCGCTGAGCAGGAGTGGAGCAGATCAAATTTTGGCGAAT
253 TCGACAGATCTTATCTTCGATGAGCAGGAATGGAGCAGATCAAACCAT-GCGAAT
* ** * ** ** *** * * *
97228062 CTTATCTCCA-TGTATC-GGCTCTGGAGCAGATTTCAGCCAG-AAACCTTATCCCACTGAGCAGG
1 CTTATC-CCACTG-AGCAGG-AGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTG-GCAGG
*
97228124 AGTGGAACAGATTACAAA--T-AGCAGATCTCATC-CCACTGGCAGGAGTGGAACAGATCAAATT
62 AGTGGAACAGA-T-CAAATTTCAGCAGATCTTATCTCCA-T-G-AGGAGTGGAACAGATCAAATT
** ** *
97228185 TCAACGGATCTTGTCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGTCTTATCTTCACT
122 TCAACAAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACT
* * * * * *
97228250 GAGCAGGAGTGGAGCAGGCTAAACTCT-AGATCTTATCTTCGTTGAGCAGGAGTGGAGCAGATCA
187 GAGCAGGAGTGAAGCAGGCTAAA-TATAAGATCTCATC-CCATTG-GCAGGAGTGGAACAGATC-
* ** *
97228314 AAATTT-GAC-GAATCTTATC-TCTATGTA-TTGGCAATGGAGCAGATTCAAACCAT-C-AGT
248 AAATTTCGACAG-ATCTTATCTTCGATG-AGCAGG-AATGGAGCAGA-TCAAACCATGCGAAT
*
97228371 GTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTG
1 CTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTG
*
97228436 GAACAGATCAAATTTCAGCCGATCTTATCTCCATG
66 GAACAGATCAAATTTCAGCAGATCTTATCTCCATG
97228471 TATTGGCAAT
Statistics
Matches: 325, Mismatches: 60, Indels: 53
0.74 0.14 0.12
Matches are distributed among these distances:
306 4 0.01
307 1 0.00
308 34 0.10
309 45 0.14
310 16 0.05
311 139 0.43
312 15 0.05
313 33 0.10
314 33 0.10
315 1 0.00
316 4 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (306 bp):
CTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTG
GAACAGATCAAATTTCAGCAGATCTTATCTCCATGAGGAGTGGAACAGATCAAATTTCAACAAAT
CTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAG
TGAAGCAGGCTAAATATAAGATCTCATCCCATTGGCAGGAGTGGAACAGATCAAATTTCGACAGA
TCTTATCTTCGATGAGCAGGAATGGAGCAGATCAAACCATGCGAAT
Found at i:97228571 original size:265 final size:265
Alignment explanation
Indices: 97228012--97228577 Score: 725
Period size: 265 Copynumber: 2.1 Consensus size: 265
97228002 AAATTTCGAC
* * *
97228012 AGATCTTATCTTCGC-TGAGCAGGAGTGGAGCAGATCAAATTTTGGCGAATCTTATCTCCATGTA
1 AGATCTTATCTTC-CTTAAGCAGGAGTGGAGCAGATCAAAATTTGACGAATCTTATCTCCATGTA
** * *
97228076 TCGGCTCTGGAGCAGATTTCAGCCAGAAACCTTATCCCACTGAGCAGGAGTGGAACAGATTACAA
65 TCGGCAATGGAGCAGATTTCAACCAGAAACCTTATCCCACTGAGCAGGAGTGGAACAGACTACAA
* *
97228141 ATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAACGGATCTTGTCTCCATG
130 ATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAACCGATCTTATCTCCATG
* * * * * *
97228206 TATCGGCAATGGAGCAGATTTCAGCCACCAGTCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTA
195 TATCGGCAATGGAACAGATTTCAACCACCAGTCTTAACTCCACTAAGCAGGAGTGGAACAGGCTA
97228271 AACTCT
260 AACTCT
* * *
97228277 AGATCTTATCTTCGTTGAGCAGGAGTGGAGCAGATCAAAATTTGACGAATCTTATCTCTATGTAT
1 AGATCTTATCTTCCTTAAGCAGGAGTGGAGCAGATCAAAATTTGACGAATCTTATCTCCATGTAT
* ** *** *
97228342 TGGCAATGGAGCAGA-TTCAAACCATCAGTGTTATCCCACTGAGCAGGAGTGGAACAGGCTA-AA
66 CGGCAATGGAGCAGATTTC-AACCAGAAACCTTATCCCACTGAGCAGGAGTGGAACAGACTACAA
*
97228405 TATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAGCCGATCTTATCTCCAT
130 -ATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAACCGATCTTATCTCCAT
* * *
97228470 GTATTGGCAATGGAACAGA-TTCAAACCACCAGTCTTAAC-CCCCTAAGCAGTAG-GGTAACAGG
194 GTATCGGCAATGGAACAGATTTC-AACCACCAGTCTTAACTCCACTAAGCAGGAGTGG-AACAGG
97228532 CTAAAAACTAC-
257 CT--AAACT-CT
* *
97228543 AGATCTTGTC-TCCTTAAGCAGTAGTGGAGCAGATC
1 AGATCTTATCTTCCTTAAGCAGGAGTGGAGCAGATC
97228578 GAAGACAGTG
Statistics
Matches: 262, Mismatches: 31, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
263 2 0.01
264 25 0.10
265 220 0.84
266 14 0.05
267 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (265 bp):
AGATCTTATCTTCCTTAAGCAGGAGTGGAGCAGATCAAAATTTGACGAATCTTATCTCCATGTAT
CGGCAATGGAGCAGATTTCAACCAGAAACCTTATCCCACTGAGCAGGAGTGGAACAGACTACAAA
TAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAACCGATCTTATCTCCATGT
ATCGGCAATGGAACAGATTTCAACCACCAGTCTTAACTCCACTAAGCAGGAGTGGAACAGGCTAA
ACTCT
Found at i:97228932 original size:29 final size:29
Alignment explanation
Indices: 97228898--97228954 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
97228888 TAAACATCCC
97228898 ACTAAACCAACCACTAACTCCATCACCCT
1 ACTAAACCAACCACTAACTCCATCACCCT
* * *
97228927 ACTAAACCATCCACTACCTTCATCACCC
1 ACTAAACCAACCACTAACTCCATCACCC
97228955 CCACACCCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.35, C:0.46, G:0.00, T:0.19
Consensus pattern (29 bp):
ACTAAACCAACCACTAACTCCATCACCCT
Found at i:97228968 original size:37 final size:37
Alignment explanation
Indices: 97228921--97228995 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
97228911 CTAACTCCAT
*
97228921 CACCCTACTAAACCATCCACTACCTTCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
97228958 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
97228995 C
1 C
97228996 TAACTCCATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.29, C:0.53, G:0.00, T:0.17
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:97228997 original size:18 final size:18
Alignment explanation
Indices: 97228974--97229009 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
97228964 ACTAAACCAT
*
97228974 CCACTACCTCCATCACCC
1 CCACTAACTCCATCACCC
97228992 CCACTAACTCCATCACCC
1 CCACTAACTCCATCACCC
97229010 TACTTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.58, G:0.00, T:0.17
Consensus pattern (18 bp):
CCACTAACTCCATCACCC
Found at i:97229422 original size:19 final size:18
Alignment explanation
Indices: 97229398--97229434 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
97229388 TTATGTTTCA
97229398 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
97229417 TATTATTATATATTTATT
1 TATTATTATATATTTATT
97229435 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:97229423 original size:63 final size:63
Alignment explanation
Indices: 97229283--97229425 Score: 159
Period size: 63 Copynumber: 2.3 Consensus size: 63
97229273 TTAACCCATT
* * *
97229283 TTTTTATTTTTGTTATTTTACTGTTAAATTAATCAATTTGAGCTTTATTCTCATTATTTTTATA
1 TTTTTATTTTTATTATTTTACTATTAAATTAATCAATTTGAGC-TTATTCTCATTATTATTATA
* * *
97229347 TTTGTT-TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATA
1 TTT-TTATTTTTATTATTTTACTATTAAATTAATCAATTTGAGCTTAT-TCTCATTATTATTATA
97229408 TTATTTATTTATTATTAT
1 TT-TTTATTT-TTATTAT
97229426 ATATTTATTA
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
61 17 0.25
62 8 0.12
63 26 0.38
64 15 0.22
65 2 0.03
ACGTcount: A:0.26, C:0.05, G:0.06, T:0.64
Consensus pattern (63 bp):
TTTTTATTTTTATTATTTTACTATTAAATTAATCAATTTGAGCTTATTCTCATTATTATTATA
Found at i:97229446 original size:17 final size:14
Alignment explanation
Indices: 97229406--97229436 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
97229396 CATATTATTA
*
97229406 TATTATTTATTTAT
1 TATTATATATTTAT
97229420 TATTATATATTTAT
1 TATTATATATTTAT
97229434 TAT
1 TAT
97229437 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:97229663 original size:21 final size:21
Alignment explanation
Indices: 97229630--97229680 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
97229620 TATTATCCCC
** *
97229630 CATATTTAATGTTATCGTCAA
1 CATATTTTTTGTTATCATCAA
* *
97229651 CATATTTTTTGTTATTATCAT
1 CATATTTTTTGTTATCATCAA
97229672 CATATTTTT
1 CATATTTTT
97229681 AATATTATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.12, G:0.06, T:0.55
Consensus pattern (21 bp):
CATATTTTTTGTTATCATCAA
Found at i:97230114 original size:126 final size:126
Alignment explanation
Indices: 97229889--97230132 Score: 436
Period size: 126 Copynumber: 1.9 Consensus size: 126
97229879 CATTGATCTT
*
97229889 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATTGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATTGTGCCCTA
*
97229954 ACGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAAAATTCGAATATCCTCTTACCAGTTCA
97230015 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAG-ATTCGTGCCCT
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATT-GTGCCCT
* *
97230079 AACGTACTGGGTTTCGCTTTCTTTGTTTGTTTTGAAAATTCGAATATCCTCTTA
65 AACGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAAAATTCGAATATCCTCTTA
97230133 AGGCTAAAAC
Statistics
Matches: 113, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
125 3 0.03
126 110 0.97
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (126 bp):
CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATTGTGCCCTA
ACGTACTGGGTTTCACTTTCTTTGTTTGTCTTGAAAATTCGAATATCCTCTTACCAGTTCA
Found at i:97231999 original size:19 final size:19
Alignment explanation
Indices: 97231974--97232097 Score: 170
Period size: 19 Copynumber: 6.8 Consensus size: 19
97231964 ATAATCTTCA
97231974 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
97231993 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
97232012 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
97232029 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
97232047 AT-A-ATACAATCCTAGAT
1 ATGATATGCAATCTTAGAT
97232064 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
97232082 ATGATATACAATCTTA
1 ATGATATGCAATCTTA
97232098 AAAGATATGA
Statistics
Matches: 92, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
17 30 0.33
18 30 0.33
19 32 0.35
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:97232014 original size:14 final size:15
Alignment explanation
Indices: 97231995--97232085 Score: 67
Period size: 18 Copynumber: 5.5 Consensus size: 15
97231985 TCTTAGATGT
97231995 GATATG-CAATCTTA
1 GATATGACAATCTTA
97232009 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
97232026 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
* *
97232044 GATATAATACAATCCTA
1 GATAT--GACAATCTTA
97232061 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
97232079 GATATGA
1 GATATGA
97232086 TATACAATCT
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 6 0.10
15 2 0.03
17 26 0.42
18 27 0.44
20 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:97232044 original size:35 final size:35
Alignment explanation
Indices: 97231982--97232097 Score: 178
Period size: 35 Copynumber: 3.2 Consensus size: 35
97231972 CAATGATATG
*
97231982 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
*
97232018 CAATCTTAGATATGATTGCAATCTTAGATATAATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
*
97232053 CAATCCTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
97232090 CAATCTTA
1 CAATCTTA
97232098 AAAGATATGA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
35 48 0.66
36 15 0.21
37 10 0.14
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:97232437 original size:24 final size:25
Alignment explanation
Indices: 97232391--97232437 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
97232381 TATCTCCTTG
*
97232391 ATTTTTTAATTCACTTTTATATTTT
1 ATTTTTTAATTCAATTTTATATTTT
97232416 ATTTTTTAA-T-AATTTTAGTATT
1 ATTTTTTAATTCAATTTTA-TATT
97232438 ATATCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (25 bp):
ATTTTTTAATTCAATTTTATATTTT
Found at i:97237327 original size:22 final size:22
Alignment explanation
Indices: 97237302--97237374 Score: 96
Period size: 23 Copynumber: 3.3 Consensus size: 22
97237292 TTTATTTCAA
97237302 AAAAAAG-GCAAAAAAATAAAAG
1 AAAAAAGAG-AAAAAAATAAAAG
97237324 -AAAAAGAGAAAAAAATAAAAAG
1 AAAAAAGAGAAAAAAAT-AAAAG
*
97237346 AAAAAAGAGAAAAAAGAAAAAAG
1 AAAAAAGAGAAAAAA-ATAAAAG
97237369 AAAAAA
1 AAAAAA
97237375 AGGAGAGGCC
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
21 14 0.30
22 6 0.13
23 25 0.54
24 1 0.02
ACGTcount: A:0.82, C:0.01, G:0.14, T:0.03
Consensus pattern (22 bp):
AAAAAAGAGAAAAAAATAAAAG
Found at i:97237327 original size:23 final size:22
Alignment explanation
Indices: 97237301--97237378 Score: 88
Period size: 21 Copynumber: 3.5 Consensus size: 22
97237291 TTTTATTTCA
97237301 AAAAAAAGGCAAAAAAATAAAAG
1 AAAAAAAGG-AAAAAAATAAAAG
*
97237324 AAAAAGA-GAAAAAAATAAAA-
1 AAAAAAAGGAAAAAAATAAAAG
*
97237344 AGAAAAAAGAGAAAAAAGAAAAAAG
1 A-AAAAAAG-GAAAAAA-ATAAAAG
97237369 AAAAAAAGGA
1 AAAAAAAGGA
97237379 GAGGCCAAGG
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
20 1 0.02
21 17 0.36
22 1 0.02
23 15 0.32
24 12 0.26
25 1 0.02
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.03
Consensus pattern (22 bp):
AAAAAAAGGAAAAAAATAAAAG
Found at i:97237338 original size:16 final size:16
Alignment explanation
Indices: 97237319--97237373 Score: 71
Period size: 14 Copynumber: 3.6 Consensus size: 16
97237309 GCAAAAAAAT
97237319 AAAAGAAAAAGAGAAA
1 AAAAGAAAAAGAGAAA
*
97237335 AAAATAAAAAGA-AAA
1 AAAAGAAAAAGAGAAA
*
97237350 AAGAGAAAAA-AG-AA
1 AAAAGAAAAAGAGAAA
97237364 AAAAGAAAAA
1 AAAAGAAAAA
97237374 AAGGAGAGGC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
14 12 0.35
15 11 0.32
16 11 0.32
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.02
Consensus pattern (16 bp):
AAAAGAAAAAGAGAAA
Found at i:97237374 original size:16 final size:16
Alignment explanation
Indices: 97237324--97237375 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
97237314 AAAATAAAAG
*
97237324 AAAAAGAGAAAAA-AAT
1 AAAAAGA-AAAAAGAAA
*
97237340 AAAAAGAAAAAAGAGA
1 AAAAAGAAAAAAGAAA
97237356 AAAAAGAAAAAAGAAA
1 AAAAAGAAAAAAGAAA
97237372 AAAA
1 AAAA
97237376 GGAGAGGCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
15 5 0.16
16 27 0.84
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAAAAGAAA
Found at i:97238546 original size:87 final size:86
Alignment explanation
Indices: 97238299--97238586 Score: 339
Period size: 87 Copynumber: 3.4 Consensus size: 86
97238289 CAGATCGAAG
*
97238299 ACTCGCCTTAATCCCCTAAGCAATAGGGTAACAGGTTC---A--CAGATCTTATCTCCCTAAGCA
1 ACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-TCAAAATTCAGATCTTATCTCCCTAAGCA
* * *
97238359 GTAGCGGAGCAAATCAACGACG
65 GTAGCGGAGTAGATCAACGACA
* * *
97238381 ACTCGCCTTAACCCCCTAAGCAGTAGGGTAGCAAG-CTAAAATTACAGATCTTATCTCCCTAAGC
1 ACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTC-AAAATT-CAGATCTTATCTCCCTAAGC
*
97238445 AGTAGCGGAATAGATCAACGACA
64 AGTAGCGGAGTAGATCAACGACA
*
97238468 ACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAAATTGCGGATCTTATCTCCCTAAGCA
1 ACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAAATT-CAGATCTTATCTCCCTAAGCA
*
97238533 GTAGTGGAGTAGAT---CGA-A
65 GTAGCGGAGTAGATCAACGACA
*
97238551 GA-TGCGCCTTAA-CCCCTAAGTAGTAGGGTAACAGGT
1 -ACT-CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT
97238587 TAAAGTATAA
Statistics
Matches: 180, Mismatches: 16, Indels: 19
0.84 0.07 0.09
Matches are distributed among these distances:
80 1 0.01
82 31 0.17
83 25 0.14
84 13 0.07
87 109 0.61
88 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (86 bp):
ACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCAAAATTCAGATCTTATCTCCCTAAGCAG
TAGCGGAGTAGATCAACGACA
Found at i:97239074 original size:207 final size:207
Alignment explanation
Indices: 97238715--97239630 Score: 1442
Period size: 207 Copynumber: 4.4 Consensus size: 207
97238705 CGGAGAGCAG
* * * * *
97238715 ATCGAAGACATAACTGATTTGGCTTTCACGTGCTTATGA-TGAAGCAAATCTAAGATGATTTTGC
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTA-CATTGAAGCAAGTCTAAGATGATTTGGC
*
97238779 ATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACA
65 ATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACA
** * * *
97238844 TAGCAGATCTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCTTTGTAC
130 TAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGC
* *
97238909 TTGCAAGGAGCAA
195 TTACAAGGAACAA
* * * * *
97238922 GTCAAAGACATAACTGATTTGGCTTTCACATGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAGTCTAAGATGATTTGGCA
97238987 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
** *
97239052 AGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCTAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
97239117 TACAAGGAACAA
196 TACAAGGAACAA
97239129 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAGTCTAAGATGATTTGGCA
* *
97239194 TATCTGTATTGTCAGAGAACAAATCGAAGTTTGGTGTCTCCATATTCGACGGAGGGCAGACACAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
97239259 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
131 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
97239324 TACAAGGAACAA
196 TACAAGGAACAA
97239336 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAGTCTAAGATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAGTCTAAGATGATTTGGCA
* * * ** *
97239401 TCTCTGTATTTTCAGAGAACAAATCGAAGTGTGGCGTCTCCATATTCGATGGAGGATAGACATAT
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
* * * * *
97239466 AGCAAATCTAACTTTCAGATGATTAGACTGAAGC-AGATCCAAGATGGTTTGGTATCCTTGTGCT
131 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
*
97239530 TACAAGGAGCAA
196 TACAAGGAACAA
* * *
97239542 ATCGAAGACATAGCTGATATGGCTTTCGCGTGTTTAC-TCTGAAGCAAATCTAAGATGATTTGGC
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACAT-TGAAGCAAGTCTAAGATGATTTGGC
*
97239606 ATCTCTGTATTGTCAGCGAACAAAT
65 ATCTCTGTATTGTCAGAGAACAAAT
97239631 TAAAGAAGCA
Statistics
Matches: 663, Mismatches: 44, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
205 1 0.00
206 122 0.18
207 540 0.81
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (207 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAGTCTAAGATGATTTGGCA
TCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACAT
AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCT
TACAAGGAACAA
Found at i:97240049 original size:17 final size:18
Alignment explanation
Indices: 97240036--97240158 Score: 78
Period size: 18 Copynumber: 6.8 Consensus size: 18
97240026 TAATCTTCAA
97240036 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
*
97240055 TGATATGCAATCTTGGA-
1 TGATATGCAATCTTAGAG
* *
97240072 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
97240091 TGAT-TGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* * *
97240107 T-ATAATACAATCCTAGATA
1 TGAT-ATGCAATCTTAGA-G
*
97240126 TGAT-TGCAATCTTAGATA
1 TGATATGCAATCTTAGA-G
*
97240144 TGATATACAATCTTA
1 TGATATGCAATCTTA
97240159 AAAGATATGA
Statistics
Matches: 85, Mismatches: 9, Indels: 20
0.75 0.08 0.18
Matches are distributed among these distances:
15 2 0.02
16 3 0.04
17 22 0.26
18 27 0.32
19 27 0.32
20 4 0.05
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:97240060 original size:19 final size:19
Alignment explanation
Indices: 97240035--97240158 Score: 161
Period size: 19 Copynumber: 6.8 Consensus size: 19
97240025 ATAATCTTCA
97240035 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
97240054 GTGATATGCAATCTTGGAT
1 ATGATATGCAATCTTAGAT
97240073 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
97240090 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
97240108 AT-A-ATACAATCCTAGAT
1 ATGATATGCAATCTTAGAT
97240125 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
97240143 ATGATATACAATCTTA
1 ATGATATGCAATCTTA
97240159 AAAGATATGA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
17 29 0.32
18 30 0.33
19 31 0.34
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:97240109 original size:35 final size:35
Alignment explanation
Indices: 97240043--97240158 Score: 169
Period size: 35 Copynumber: 3.2 Consensus size: 35
97240033 CAATGATATG
* *
97240043 CAATCTTAGATGTGATATGCAATCTTGGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
*
97240079 CAATCTTAGATATGATTGCAATCTTAGATATAATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
*
97240114 CAATCCTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
97240151 CAATCTTA
1 CAATCTTA
97240159 AAAGATATGA
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
35 47 0.65
36 15 0.21
37 10 0.14
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:97240498 original size:24 final size:25
Alignment explanation
Indices: 97240452--97240498 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
97240442 TATCTCCTTG
*
97240452 ATTTTTTAATTCACTTTTATATTTT
1 ATTTTTTAATTCAATTTTATATTTT
97240477 ATTTTTTAA-T-AATTTTAGTATT
1 ATTTTTTAATTCAATTTTA-TATT
97240499 ATATCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (25 bp):
ATTTTTTAATTCAATTTTATATTTT
Found at i:97242006 original size:8 final size:8
Alignment explanation
Indices: 97241993--97242021 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
97241983 TTATGTTTAG
97241993 TATATTAT
1 TATATTAT
97242001 TATATTAT
1 TATATTAT
97242009 TATATTAT
1 TATATTAT
97242017 TATAT
1 TATAT
97242022 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:97242054 original size:5 final size:5
Alignment explanation
Indices: 97242044--97242084 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
97242034 TTATGTTTTA
97242044 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
97242085 AAACTAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:97243380 original size:15 final size:15
Alignment explanation
Indices: 97243360--97243416 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
97243350 CGATGAATTT
97243360 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
97243375 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
97243390 ATTGAATTTATATTG
1 ATTGAATTTATATTG
97243405 ATTGAA-TTATAT
1 ATTGAATTTATAT
97243417 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:97243818 original size:23 final size:23
Alignment explanation
Indices: 97243788--97243874 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
97243778 GCTTTATCGA
*
97243788 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTCATGTGTCGTATT
* *
97243811 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACTTCATGTGTCGTATT
* *
97243832 TCAAGCACTTCGTGTGTC--ATT
1 TCAGGCACTTCATGTGTCGTATT
* *
97243853 TTAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTCATGTGTCGTAT
97243875 ACTGATCAAG
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
19 1 0.02
21 30 0.59
23 20 0.39
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (23 bp):
TCAGGCACTTCATGTGTCGTATT
Found at i:97247730 original size:31 final size:31
Alignment explanation
Indices: 97247692--97247754 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
97247682 ATACGTTCGG
97247692 TAATGCCTCGTAACCTTGTTTCGGCGACTGT
1 TAATGCCTCGTAACCTTGTTTCGGCGACTGT
*
97247723 TAATGCCTCGTAACCTTGTTTCGGTGACTGT
1 TAATGCCTCGTAACCTTGTTTCGGCGACTGT
97247754 T
1 T
97247755 TGGGGTTAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (31 bp):
TAATGCCTCGTAACCTTGTTTCGGCGACTGT
Found at i:97248716 original size:23 final size:21
Alignment explanation
Indices: 97248686--97248729 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
97248676 AAATTAAATC
97248686 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC--AATCATATCT
*
97248709 TCTAAGATTGCAATCATATCT
1 TCTAAGATTACAATCATATCT
97248730 AAGATTGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
23 10 0.50
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (21 bp):
TCTAAGATTACAATCATATCT
Found at i:97248743 original size:17 final size:18
Alignment explanation
Indices: 97248709--97248761 Score: 81
Period size: 17 Copynumber: 2.9 Consensus size: 18
97248699 AATCATATCT
97248709 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
97248727 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
97248744 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
97248762 TAAAGATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 16 0.52
18 10 0.32
19 5 0.16
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:97248912 original size:21 final size:20
Alignment explanation
Indices: 97248874--97248913 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
97248864 TTGGGCTTCG
**
97248874 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
97248894 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
97248914 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:97252176 original size:26 final size:24
Alignment explanation
Indices: 97252136--97252213 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 24
97252126 TTATTTTATT
* * **
97252136 AAATAAAAAAATTTAAAATTATAA
1 AAATAAATATATTTAAAAACATAA
97252160 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
* *
97252186 AAAT-AA-ATATTAAAAAAAATAA
1 AAATAAATATATTTAAAAACATAA
97252208 AAATAA
1 AAATAA
97252214 TACTAAAACA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
22 18 0.40
23 3 0.07
25 8 0.18
26 16 0.36
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.27
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:97252201 original size:22 final size:21
Alignment explanation
Indices: 97252166--97252221 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 21
97252156 ATAATAAATC
* *
97252166 AAAT-ATATTTAAAAACATAA
1 AAATAATATTAAAAAAAATAA
97252186 AAATAAATATTAAAAAAAATAA
1 AAAT-AATATTAAAAAAAATAA
*
97252208 AAATAATACTAAAA
1 AAATAATATTAAAA
97252222 CAATTCTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.13
21 9 0.29
22 18 0.58
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (21 bp):
AAATAATATTAAAAAAAATAA
Found at i:97252315 original size:20 final size:20
Alignment explanation
Indices: 97252268--97252315 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
97252258 AAAAAATAGT
97252268 TATATTAAAAATTTAAAATAA
1 TATATTAAAAA-TTAAAATAA
*
97252289 T-TTTTAAAAA-TAAAATATA
1 TATATTAAAAATTAAAATA-A
97252308 TATATTAA
1 TATATTAA
97252316 TATATAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 7 0.30
19 2 0.09
20 13 0.57
21 1 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TATATTAAAAATTAAAATAA
Found at i:97264836 original size:34 final size:36
Alignment explanation
Indices: 97264772--97264841 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
97264762 TATTTAGAGT
97264772 GACTATCAAAATAATTTACCAAAAAAAAAACTATGA
1 GACTATCAAAATAATTTACCAAAAAAAAAACTATGA
*
97264808 GACTATCAAGATAATTTA-C-AAAAAAAAACTATGA
1 GACTATCAAAATAATTTACCAAAAAAAAAACTATGA
97264842 TATTAAAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 15 0.45
35 1 0.03
36 17 0.52
ACGTcount: A:0.57, C:0.13, G:0.07, T:0.23
Consensus pattern (36 bp):
GACTATCAAAATAATTTACCAAAAAAAAAACTATGA
Found at i:97265888 original size:24 final size:25
Alignment explanation
Indices: 97265832--97265904 Score: 112
Period size: 24 Copynumber: 3.0 Consensus size: 25
97265822 TGGAACAAAG
* *
97265832 GAAGGTAATTACCGATGATGGTATA
1 GAAGGTGATTACCGATGATGGTAAA
97265857 GAAGGTGATTACCGATGATGG-AAA
1 GAAGGTGATTACCGATGATGGTAAA
*
97265881 GAAGGTGATTACCGGTGATGGTAA
1 GAAGGTGATTACCGATGATGGTAA
97265905 GTGATGTTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
24 22 0.50
25 22 0.50
ACGTcount: A:0.34, C:0.08, G:0.33, T:0.25
Consensus pattern (25 bp):
GAAGGTGATTACCGATGATGGTAAA
Found at i:97265910 original size:34 final size:34
Alignment explanation
Indices: 97265872--97265941 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
97265862 TGATTACCGA
97265872 TGATGGAAAGAAGGTGATTACCGGTGATGGTAAG
1 TGATGGAAAGAAGGTGATTACCGGTGATGGTAAG
*** *
97265906 TGATGTTGAGATGGTGATTACCGGTGATGGTAAG
1 TGATGGAAAGAAGGTGATTACCGGTGATGGTAAG
97265940 TG
1 TG
97265942 GTGTTGAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.27, C:0.06, G:0.39, T:0.29
Consensus pattern (34 bp):
TGATGGAAAGAAGGTGATTACCGGTGATGGTAAG
Found at i:97265947 original size:34 final size:34
Alignment explanation
Indices: 97265884--97265950 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
97265874 ATGGAAAGAA
97265884 GGTGATTACCGGTGATGGTAAGTGATGTTGAGAT
1 GGTGATTACCGGTGATGGTAAGTGATGTTGAGAT
*
97265918 GGTGATTACCGGTGATGGTAAGTGGTGTTGAGA
1 GGTGATTACCGGTGATGGTAAGTGATGTTGAGA
97265951 ACAAGCAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.22, C:0.06, G:0.40, T:0.31
Consensus pattern (34 bp):
GGTGATTACCGGTGATGGTAAGTGATGTTGAGAT
Found at i:97272652 original size:21 final size:17
Alignment explanation
Indices: 97272610--97272644 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
97272600 CTTCCATAAG
97272610 TTGTTTCAGCCAAGTAC
1 TTGTTTCAGCCAAGTAC
97272627 TTGTTTCAGCCAAGTAC
1 TTGTTTCAGCCAAGTAC
97272644 T
1 T
97272645 CTCTTGTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (17 bp):
TTGTTTCAGCCAAGTAC
Found at i:97289448 original size:16 final size:16
Alignment explanation
Indices: 97289429--97289468 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
97289419 AAATATAAAA
* *
97289429 TTTATAATAAATAACT
1 TTTATAAAAAAAAACT
*
97289445 TTTATAAAAAAAAAGT
1 TTTATAAAAAAAAACT
97289461 TTTATAAA
1 TTTATAAA
97289469 TTGTCTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (16 bp):
TTTATAAAAAAAAACT
Found at i:97289642 original size:17 final size:17
Alignment explanation
Indices: 97289620--97289652 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
97289610 ACTCAATTTT
97289620 CTTAATTAATTTACAAC
1 CTTAATTAATTTACAAC
97289637 CTTAATTAATTTACAA
1 CTTAATTAATTTACAA
97289653 ACTGTCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (17 bp):
CTTAATTAATTTACAAC
Found at i:97290208 original size:17 final size:17
Alignment explanation
Indices: 97290188--97290221 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
97290178 AAATAGATTT
97290188 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
*
97290205 TTAATTAAAATTTTTAA
1 TTAATTAAAAATTTTAA
97290222 ACCTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:97308959 original size:127 final size:127
Alignment explanation
Indices: 97308828--97309139 Score: 491
Period size: 127 Copynumber: 2.5 Consensus size: 127
97308818 AACGAAAAAC
* * * * *
97308828 CGAAACCCAACACGGTAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGTCTTGCTTTAG
1 CGAAACCCAGCACGATAGGGCACGGTTCCTCGAATTTCCAAACATTGAACATTGCCTTACTTTAG
*
97308893 AATTTATAAAACATGAGTGAAATTCTAAAGGAATATTCAATTATTTGGAACAAACCGGAAAT
66 AATTTATAAAACACGAGTGAAATTCTAAAGGAATATTCAATTATTTGGAACAAACCGGAAAT
* * *
97308955 CGAAACCCAGCACGATAGGGCACGGTT-CTCCGAATTTCCAAATATTGAACACTGCCTTATTTTA
1 CGAAACCCAGCACGATAGGGCACGGTTCCT-CGAATTTCCAAACATTGAACATTGCCTTACTTTA
97309019 GAATTTATAAAACACGAGTGAAATTCTAAAGGAATATTCAATTATTTGGAACAAACCGGAAAT
65 GAATTTATAAAACACGAGTGAAATTCTAAAGGAATATTCAATTATTTGGAACAAACCGGAAAT
* * * *
97309082 CGAAACCCAGCGCGATAGGGCACGGTTCCCCGAATTTCCAAACATTAAACATTACCTT
1 CGAAACCCAGCACGATAGGGCACGGTTCCTCGAATTTCCAAACATTGAACATTGCCTT
97309140 CGTTTTAAGG
Statistics
Matches: 168, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
126 2 0.01
127 165 0.98
128 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (127 bp):
CGAAACCCAGCACGATAGGGCACGGTTCCTCGAATTTCCAAACATTGAACATTGCCTTACTTTAG
AATTTATAAAACACGAGTGAAATTCTAAAGGAATATTCAATTATTTGGAACAAACCGGAAAT
Found at i:97311863 original size:17 final size:17
Alignment explanation
Indices: 97311841--97311874 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
97311831 ATTCAGCCTT
* *
97311841 ACACTAGTATTCATACC
1 ACACTAATATTAATACC
97311858 ACACTAATATTAATACC
1 ACACTAATATTAATACC
97311875 TGTTTTAGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.26, G:0.03, T:0.29
Consensus pattern (17 bp):
ACACTAATATTAATACC
Found at i:97321376 original size:22 final size:20
Alignment explanation
Indices: 97321330--97321376 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
97321320 ACAGCCGTAA
97321330 AAAAG-AAAGAAAAATAAGG
1 AAAAGAAAAGAAAAATAAGG
* *
97321349 AGAAGAAAAGAGAGAAATAGGG
1 AAAAGAAAAGA-A-AAATAAGG
97321371 AAAAGA
1 AAAAGA
97321377 CTTGTGTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.18
20 5 0.23
21 1 0.05
22 12 0.55
ACGTcount: A:0.68, C:0.00, G:0.28, T:0.04
Consensus pattern (20 bp):
AAAAGAAAAGAAAAATAAGG
Found at i:97330234 original size:7 final size:7
Alignment explanation
Indices: 97330223--97330255 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
97330213 AATATAAGAT
*
97330223 AAAAATT
1 AAAAATA
97330230 AAAAATA
1 AAAAATA
97330237 AAAAATA
1 AAAAATA
97330244 AAAAATA
1 AAAAATA
97330251 AAAAA
1 AAAAA
97330256 ACTACTAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:97330236 original size:20 final size:20
Alignment explanation
Indices: 97330211--97330254 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
97330201 ACAAATAAGT
* * *
97330211 AAAATATAAGATAAAAATTA
1 AAAATAAAAAATAAAAAATA
97330231 AAAATAAAAAATAAAAAATA
1 AAAATAAAAAATAAAAAATA
97330251 AAAA
1 AAAA
97330255 AACTACTAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAATAAAAAATAAAAAATA
Found at i:97330237 original size:13 final size:13
Alignment explanation
Indices: 97330211--97330255 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
97330201 ACAAATAAGT
*
97330211 AAAATATAAGATAA
1 AAAATA-AAAATAA
*
97330225 AAATTAAAAATAA
1 AAAATAAAAATAA
97330238 AAAATAAAAAATAA
1 AAAAT-AAAAATAA
97330252 AAAA
1 AAAA
97330256 ACTACTAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 10 0.37
14 17 0.63
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:97333151 original size:21 final size:21
Alignment explanation
Indices: 97333111--97333151 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
97333101 TCCAGCAACC
* *
97333111 AAACACTCTCATTCTAGCTCT
1 AAACACTCCCATTCCAGCTCT
*
97333132 AAACACTCCCATTCCGGCTC
1 AAACACTCCCATTCCAGCTC
97333152 CTGTCCAGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.39, G:0.07, T:0.27
Consensus pattern (21 bp):
AAACACTCCCATTCCAGCTCT
Found at i:97337593 original size:100 final size:100
Alignment explanation
Indices: 97337420--97337619 Score: 391
Period size: 100 Copynumber: 2.0 Consensus size: 100
97337410 AAAAGTATGC
97337420 TCTTTAAGGAACTGGCAATAGATAGAGAATCCAAACTTGAATGTAAAGATAAAACCACAAATTCA
1 TCTTTAAGGAACTGGCAATAGATAGAGAATCCAAACTTGAATGTAAAGATAAAACCACAAATTCA
97337485 AGTAAAATTGATGTGGAATAAAATCTTTCAACATA
66 AGTAAAATTGATGTGGAATAAAATCTTTCAACATA
*
97337520 TCTTTGAGGAACTGGCAATAGATAGAGAATCCAAACTTGAATGTAAAGATAAAACCACAAATTCA
1 TCTTTAAGGAACTGGCAATAGATAGAGAATCCAAACTTGAATGTAAAGATAAAACCACAAATTCA
97337585 AGTAAAATTGATGTGGAATAAAATCTTTCAACATA
66 AGTAAAATTGATGTGGAATAAAATCTTTCAACATA
97337620 AAGATGGCAA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (100 bp):
TCTTTAAGGAACTGGCAATAGATAGAGAATCCAAACTTGAATGTAAAGATAAAACCACAAATTCA
AGTAAAATTGATGTGGAATAAAATCTTTCAACATA
Found at i:97365344 original size:138 final size:138
Alignment explanation
Indices: 97365179--97365595 Score: 753
Period size: 138 Copynumber: 3.0 Consensus size: 138
97365169 TTTTAAAATT
*
97365179 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATCTAAAACGTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACGTAAAAACAAT
97365244 TTAATGCCAATTTTTAAAGAAATTACATATGGTTCTAAAATTCAAAACAGGGACTCCTGAAAGCA
66 TTAATGCCAATTTTTAAAGAAATTACATATGGTTCTAAAATTCAAAACAGGGACTCCTGAAAGCA
97365309 TTCAGACG
131 TTCAGACG
*
97365317 TTAAATCAAATAAGTTGCATAACAACATAACAAAGAGAAATGTTAATATAAAACGTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACGTAAAAACAAT
97365382 TTAATGCCAATTTTTAAAGAAATTACATATGGTTCTAAAATTCAAAACAGGGACTCCTGAAAGCA
66 TTAATGCCAATTTTTAAAGAAATTACATATGGTTCTAAAATTCAAAACAGGGACTCCTGAAAGCA
*
97365447 GTCAGACG
131 TTCAGACG
* *
97365455 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTATTATAAAACCTAAAAACAAT
1 TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACGTAAAAACAAT
* *
97365520 TTAATGCCAATTTTTAAAGAAATTACATATGATTCTAAAATTCAAAACAGGGACTCCTCAAAGCA
66 TTAATGCCAATTTTTAAAGAAATTACATATGGTTCTAAAATTCAAAACAGGGACTCCTGAAAGCA
* *
97365585 TCCATACG
131 TTCAGACG
97365593 TTA
1 TTA
97365596 TTAAGCCTCC
Statistics
Matches: 268, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 268 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (138 bp):
TTAAATCAAATAAGTTGCATAATAACATAACAAAGAGAAATGTTAATATAAAACGTAAAAACAAT
TTAATGCCAATTTTTAAAGAAATTACATATGGTTCTAAAATTCAAAACAGGGACTCCTGAAAGCA
TTCAGACG
Found at i:97369238 original size:34 final size:35
Alignment explanation
Indices: 97369194--97369260 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
97369184 CAGTAAAATA
* *
97369194 TTTTCCGTAAAATGA-TTTCTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGAAAAATATTTTAC
* *
97369228 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGAAAAATATTTT
97369261 CTGGTATTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGAAAAATATTTTAC
Found at i:97369247 original size:20 final size:20
Alignment explanation
Indices: 97369209--97369248 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
97369199 CGTAAAATGA
**
97369209 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGACTTACT
*
97369229 TTTCTGTAAAATGACTTACT
1 TTTCTGAAAAATGACTTACT
97369249 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (20 bp):
TTTCTGAAAAATGACTTACT
Found at i:97373093 original size:26 final size:26
Alignment explanation
Indices: 97373059--97373112 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
97373049 CTTCAATAAT
* *
97373059 AGAGACAAGAGATTTGACAATTAACA
1 AGAGACAAGAGATTTAACAATGAACA
97373085 AGAGACAAGAGATTTAACAATGAACA
1 AGAGACAAGAGATTTAACAATGAACA
97373111 AG
1 AG
97373113 GGCAAGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.52, C:0.11, G:0.20, T:0.17
Consensus pattern (26 bp):
AGAGACAAGAGATTTAACAATGAACA
Found at i:97375996 original size:31 final size:31
Alignment explanation
Indices: 97375960--97376021 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
97375950 AGATATTCAA
97375960 ATCATCATATTTACTTTTCATCCAAAACTAT
1 ATCATCATATTTACTTTTCATCCAAAACTAT
97375991 ATCATCATATTTACTTTTCATCCAAAACTAT
1 ATCATCATATTTACTTTTCATCCAAAACTAT
97376022 CTAAAATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (31 bp):
ATCATCATATTTACTTTTCATCCAAAACTAT
Found at i:97379633 original size:93 final size:93
Alignment explanation
Indices: 97379447--97379729 Score: 338
Period size: 93 Copynumber: 3.0 Consensus size: 93
97379437 GCAACTAATC
* * * *
97379447 ATATTATAAAAGTAGATGAAAATTTTGTGTCAAATTAAATTATAGGGACTAAATCTCATAT-ATG
1 ATATTATAAAAGTTGATGAAAA-ATTATGTCAAATTAAATTATAGGGACTAAATCTCA-ATCAAG
* *
97379511 AGTATAATAAAAGGACCAAAATCACAATTTG
64 -GTATAATAAAAGGACCAAAACCATAATTTG
* **
97379542 ATATTACAAAAGTTGATGAAAAATTATGTCAAATTAAATTATAGGGACT-AATCTCAACTCCCGG
1 ATATTATAAAAGTTGATGAAAAATTATGTCAAATTAAATTATAGGGACTAAATCTCAA-TCAAGG
*
97379606 TATAATAAAAAGACCAAAACCATAATTTG
65 TATAATAAAAGGACCAAAACCATAATTTG
* * * * *
97379635 ATATTATAAAAG-TAATAGAAATATTATGTCAAATTAAATTATAAGGACTGAATCTCAAATCTAG
1 ATATTATAAAAGTTGAT-GAAAAATTATGTCAAATTAAATTATAGGGACTAAATCTC-AATCAAG
* *
97379699 ATATAATAAAAGGACCAAAACCATAAATTG
64 GTATAATAAAAGGACCAAAACCATAATTTG
97379729 A
1 A
97379730 CATCATATTT
Statistics
Matches: 165, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
92 4 0.02
93 76 0.46
94 63 0.38
95 22 0.13
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (93 bp):
ATATTATAAAAGTTGATGAAAAATTATGTCAAATTAAATTATAGGGACTAAATCTCAATCAAGGT
ATAATAAAAGGACCAAAACCATAATTTG
Found at i:97380846 original size:18 final size:18
Alignment explanation
Indices: 97380803--97380847 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
97380793 TTTGAAAAAG
97380803 AAGTTTTTTTGAGGAGGA
1 AAGTTTTTTTGAGGAGGA
* * *
97380821 AGGTTTTTTTTAGGGGGA
1 AAGTTTTTTTGAGGAGGA
97380839 TAAGTTTTT
1 -AAGTTTTT
97380848 GGGGGAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (18 bp):
AAGTTTTTTTGAGGAGGA
Found at i:97381327 original size:27 final size:28
Alignment explanation
Indices: 97381297--97381415 Score: 86
Period size: 29 Copynumber: 4.3 Consensus size: 28
97381287 ATTTTAAATT
97381297 CTATATTA-CGTATATATATATTTTATA
1 CTATATTATCGTATATATATATTTTATA
* * *
97381324 CTATTTTAT-G--TATATATCTTTAATA
1 CTATATTATCGTATATATATATTTTATA
* * * *
97381349 TTATATTATTTGTATATATATATTTTTTT
1 CTATATTA-TCGTATATATATATTTTATA
* * *
97381378 CTATATGTTATCTTATGTATATATCTTA-A
1 CTATA--TTATCGTATATATATATTTTATA
97381407 CTATATTAT
1 CTATATTAT
97381416 GAATGTATTT
Statistics
Matches: 69, Mismatches: 16, Indels: 14
0.70 0.16 0.14
Matches are distributed among these distances:
25 19 0.28
26 1 0.01
27 13 0.19
29 20 0.29
30 13 0.19
31 3 0.04
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (28 bp):
CTATATTATCGTATATATATATTTTATA
Found at i:97381337 original size:25 final size:27
Alignment explanation
Indices: 97381309--97381369 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
97381299 ATATTACGTA
*
97381309 TATATATATTTTATACTAT-TT-TATG
1 TATATATATTTAATACTATATTATATG
* * *
97381334 TATATATCTTTAATATTATATTATTTG
1 TATATATATTTAATACTATATTATATG
97381361 TATATATAT
1 TATATATAT
97381370 ATTTTTTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 16 0.55
26 2 0.07
27 11 0.38
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (27 bp):
TATATATATTTAATACTATATTATATG
Found at i:97381410 original size:29 final size:29
Alignment explanation
Indices: 97381320--97381412 Score: 71
Period size: 31 Copynumber: 3.1 Consensus size: 29
97381310 ATATATATTT
* *
97381320 TATACTATTTTATGTATATATCTTTAA-TA
1 TATATTATCTTATGTATATATC-TTAACTA
* * * **
97381349 TTATATTATTTGTATATATATATTTTTTTCTA
1 -TATATTATCT-TATGTATATA-TCTTAACTA
*
97381381 TATGTTATCTTATGTATATATCTTAACTA
1 TATATTATCTTATGTATATATCTTAACTA
97381410 TAT
1 TAT
97381413 TATGAATGTA
Statistics
Matches: 49, Mismatches: 11, Indels: 7
0.73 0.16 0.10
Matches are distributed among these distances:
29 9 0.18
30 18 0.37
31 19 0.39
32 3 0.06
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (29 bp):
TATATTATCTTATGTATATATCTTAACTA
Found at i:97381452 original size:25 final size:25
Alignment explanation
Indices: 97381406--97381454 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
97381396 ATATATCTTA
** *
97381406 ACTATATTATGAATGTATTTTTAAC
1 ACTATATTATGAACATAATTTTAAC
*
97381431 ACTATATTATGTACATAATTTTAA
1 ACTATATTATGAACATAATTTTAA
97381455 TATTATCACG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (25 bp):
ACTATATTATGAACATAATTTTAAC
Found at i:97381624 original size:8 final size:8
Alignment explanation
Indices: 97381606--97381656 Score: 68
Period size: 8 Copynumber: 6.5 Consensus size: 8
97381596 TAATTATTAT
*
97381606 TATTCTAA
1 TATTTTAA
*
97381614 TATTTTGA
1 TATTTTAA
97381622 TATTTTAA
1 TATTTTAA
97381630 TATTTT-A
1 TATTTTAA
97381637 TATTTTAA
1 TATTTTAA
*
97381645 TATTTTAT
1 TATTTTAA
97381653 TATT
1 TATT
97381657 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
7 7 0.18
8 31 0.82
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:97381639 original size:23 final size:23
Alignment explanation
Indices: 97381613--97381656 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
97381603 TATTATTCTA
*
97381613 ATATTTTGATATTTTAATATTTT
1 ATATTTTAATATTTTAATATTTT
*
97381636 ATATTTTAATATTTTATTATT
1 ATATTTTAATATTTTAATATT
97381657 CACATCATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
ATATTTTAATATTTTAATATTTT
Found at i:97381641 original size:15 final size:15
Alignment explanation
Indices: 97381606--97381652 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
97381596 TAATTATTAT
*
97381606 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
97381622 TATTTTAATATTTTA
1 TATTTTAATATTTTA
97381637 TATTTTAATATTTTA
1 TATTTTAATATTTTA
97381652 T
1 T
97381653 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 17 0.57
16 13 0.43
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:97388449 original size:28 final size:28
Alignment explanation
Indices: 97388409--97388467 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
97388399 TCAAATAATA
*
97388409 TTTTTAATATTTTAATAAATTTATATAT
1 TTTTTAAGATTTTAATAAATTTATATAT
* * *
97388437 TTTTTAAGCTTTTTATAATTTTATATAT
1 TTTTTAAGATTTTAATAAATTTATATAT
97388465 TTT
1 TTT
97388468 AAATTTCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (28 bp):
TTTTTAAGATTTTAATAAATTTATATAT
Found at i:97395436 original size:30 final size:32
Alignment explanation
Indices: 97395362--97395443 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 32
97395352 TGTTTGAGCT
* *
97395362 AAGACTAAAATT-TTAAAATTCAAAAAGTACA
1 AAGACTAAAATTGATCAAATTCAAAAAGTACA
*
97395393 AAGACTAAAATTGAT-AAATTCGAAAAGTACA
1 AAGACTAAAATTGATCAAATTCAAAAAGTACA
**
97395424 GGGACT-AAATTGATCAAATT
1 AAGACTAAAATTGATCAAATT
97395444 AAGCACATGG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
30 8 0.18
31 36 0.80
32 1 0.02
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.26
Consensus pattern (32 bp):
AAGACTAAAATTGATCAAATTCAAAAAGTACA
Found at i:97395950 original size:33 final size:33
Alignment explanation
Indices: 97395908--97395971 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
97395898 ACAAGCTAAC
*
97395908 ATAATATTAGACATATGATAATATGTTTGCCCT
1 ATAACATTAGACATATGATAATATGTTTGCCCT
97395941 ATAACATTAGACATATGATAATATGTTTGCC
1 ATAACATTAGACATATGATAATATGTTTGCC
97395972 TTATCATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (33 bp):
ATAACATTAGACATATGATAATATGTTTGCCCT
Found at i:97408858 original size:15 final size:16
Alignment explanation
Indices: 97408838--97408883 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
97408828 TTGATGATAA
97408838 TAAAAATATATTAAT-
1 TAAAAATATATTAATC
97408853 TAAAAAT-TAATTAATC
1 TAAAAATAT-ATTAATC
* *
97408869 TGATAATATATTAAT
1 TAAAAATATATTAAT
97408884 GGAAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 1 0.04
15 13 0.50
16 11 0.42
17 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (16 bp):
TAAAAATATATTAATC
Found at i:97409749 original size:18 final size:19
Alignment explanation
Indices: 97409726--97409762 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
97409716 GGTTAGATAG
*
97409726 TTAAATG-TTAGTGATTTT
1 TTAAATGTTTAGTAATTTT
97409744 TTAAATGTTTAGTAATTTT
1 TTAAATGTTTAGTAATTTT
97409763 GAACTACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.57
Consensus pattern (19 bp):
TTAAATGTTTAGTAATTTT
Found at i:97410202 original size:24 final size:24
Alignment explanation
Indices: 97410170--97410215 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
97410160 GACTATGAGC
97410170 CATTGTAAGTCTCATGTTCATAGT
1 CATTGTAAGTCTCATGTTCATAGT
97410194 CATTGTAAGTCTCATGTTCATA
1 CATTGTAAGTCTCATGTTCATA
97410216 AGTGAATGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (24 bp):
CATTGTAAGTCTCATGTTCATAGT
Found at i:97411245 original size:39 final size:39
Alignment explanation
Indices: 97411197--97411281 Score: 161
Period size: 39 Copynumber: 2.2 Consensus size: 39
97411187 TACTTTGATC
97411197 TTGAGTGGATGATGGACTATATATGTGTGACTCCTATACT
1 TTGA-TGGATGATGGACTATATATGTGTGACTCCTATACT
97411237 TTGATGGATGATGGACTATATATGTGTGACTCCTATACT
1 TTGATGGATGATGGACTATATATGTGTGACTCCTATACT
97411276 TTGATG
1 TTGATG
97411282 CAAGTAAAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 41 0.91
40 4 0.09
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.39
Consensus pattern (39 bp):
TTGATGGATGATGGACTATATATGTGTGACTCCTATACT
Found at i:97411968 original size:23 final size:23
Alignment explanation
Indices: 97411942--97411987 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
97411932 CATTTGAGTG
97411942 ACAAAACACTTTAGGAAATTATA
1 ACAAAACACTTTAGGAAATTATA
*
97411965 ACAAAACATTTTAGGAAATTATA
1 ACAAAACACTTTAGGAAATTATA
97411988 CTTAGTCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.28
Consensus pattern (23 bp):
ACAAAACACTTTAGGAAATTATA
Done.