Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 51 of 187
Found at i:15192668 original size:146 final size:145
Alignment explanation
Indices: 15192403--15192682 Score: 397
Period size: 146 Copynumber: 1.9 Consensus size: 145
15192393 TAAAAATAAT
*
15192403 ATTTAAAATTAAAAAAATAATTTCAAAAATATATTTTTAAAATTTATAAGAAATAATTTCAAAAA
1 ATTTAAAATTAAAAAAATAATTTCAAAAATATATTTTTAAAATTTATAAGAAATAATTTAAAAAA
* * ** ** * *
15192468 TATATATTTAAAATTTAAAAATATATTTTTTAAATTATTTTATTTTGTTTAAAATTATAT-TTTT
66 TATATATTTAAAATTTAAAAATATAATCTAAAAATTATTTTAAATTGTTAAAAATTATATATTAT
15192532 AAAAATATATTTAAA
131 AAAAATATATTTAAA
*
15192547 ATTTAAAATTTAAAAAAATTAATTTCAAAAATATATTTTTAAAATTTATAAGACATAATTTAAAA
1 ATTTAAAA-TTAAAAAAA-TAATTTCAAAAATATATTTTTAAAATTTATAAGAAATAATTTAAAA
15192612 AA-ATAATATTTAAAATTTAAAAA-ATAATCTAAAAATAATATTTTAAATT-TTAAAAATTATAT
64 AATAT-ATATTTAAAATTTAAAAATATAATCTAAAAAT--TATTTTAAATTGTTAAAAATTATAT
15192674 ATTATAAAA
126 ATTATAAAA
15192683 TATTTCAAAT
Statistics
Matches: 120, Mismatches: 10, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
144 8 0.07
145 20 0.17
146 76 0.63
147 16 0.13
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (145 bp):
ATTTAAAATTAAAAAAATAATTTCAAAAATATATTTTTAAAATTTATAAGAAATAATTTAAAAAA
TATATATTTAAAATTTAAAAATATAATCTAAAAATTATTTTAAATTGTTAAAAATTATATATTAT
AAAAATATATTTAAA
Found at i:15192751 original size:18 final size:16
Alignment explanation
Indices: 15192725--15192771 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
15192715 TTAATAACAA
15192725 AAAATAAATAAAATAAAG
1 AAAA-AAATAAAAT-AAG
15192743 AAACAAAATAAAATAAG
1 AAA-AAAATAAAATAAG
*
15192760 AAAAATATAAAA
1 AAAAAAATAAAA
15192772 CTTAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 8 0.30
17 6 0.22
18 12 0.44
19 1 0.04
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (16 bp):
AAAAAAATAAAATAAG
Found at i:15192816 original size:23 final size:20
Alignment explanation
Indices: 15192723--15192833 Score: 57
Period size: 22 Copynumber: 5.3 Consensus size: 20
15192713 AATTAATAAC
*
15192723 AAAAAATAAATAAAATAAAGA
1 AAAAAAT-AATAAAAAAAAGA
15192744 AACAAAATAA-AATAAGAAAA-A
1 AA-AAAATAATAA-AA-AAAAGA
* * * *
15192765 TATAAA-ACTTAAAAAAAGA
1 AAAAAATAATAAAAAAAAGA
15192784 AAAAAATAATTAAAGAAAAAGA
1 AAAAAATAA-TAAA-AAAAAGA
** *
15192806 CAAAAGTTAATAAAAAAATATA
1 -AAAAAATAATAAAAAAA-AGA
15192828 AAAAAA
1 AAAAAA
15192834 AAAGTAAAAG
Statistics
Matches: 66, Mismatches: 14, Indels: 20
0.66 0.14 0.20
Matches are distributed among these distances:
18 4 0.06
19 8 0.12
20 7 0.11
21 19 0.29
22 21 0.32
23 7 0.11
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
AAAAAATAATAAAAAAAAGA
Found at i:15192819 original size:22 final size:21
Alignment explanation
Indices: 15192775--15192842 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 21
15192765 TATAAAACTT
15192775 AAAAAAAGAAAAAAATAATTA
1 AAAAAAAGAAAAAAATAATTA
**
15192796 AAGAAAAAGACAAAAGTTAA-TA
1 AA-AAAAAGA-AAAAAATAATTA
* * *
15192818 AAAAAATATAAAAAAAAAAGTA
1 AAAAAA-AGAAAAAAATAATTA
15192840 AAA
1 AAA
15192843 GGAGGGTGTG
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
21 12 0.32
22 18 0.49
23 7 0.19
ACGTcount: A:0.78, C:0.01, G:0.07, T:0.13
Consensus pattern (21 bp):
AAAAAAAGAAAAAAATAATTA
Found at i:15194414 original size:22 final size:22
Alignment explanation
Indices: 15194384--15194426 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15194374 ACACCAAAAC
* *
15194384 AGGCTTTTAGTGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
15194406 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
15194427 AGCGCCGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:15194632 original size:43 final size:43
Alignment explanation
Indices: 15194585--15194729 Score: 159
Period size: 43 Copynumber: 3.4 Consensus size: 43
15194575 AGACTAAGAG
* *
15194585 CTTTAGCGGCGTTTTTAATATAACCGCCGCTATAGAT-TGGTGT
1 CTTTAGCGGCGTTTTTAATATAAGCGCCGCTATAGATCAGG-GT
**
15194628 CTTTAGCGGCGTTTTTGTTGA-AAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTAAT-ATAAGCGCCGCTATAGATCAGGGT
* * * * *
15194671 CTGTAGCGGCGTTTTTTATATAAGTGCCGCTATAGATCATGGC
1 CTTTAGCGGCGTTTTTAATATAAGCGCCGCTATAGATCAGGGT
* *
15194714 CTTTAGCAGCGCTTTT
1 CTTTAGCGGCGTTTTT
15194730 CCCAAAAACG
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
42 1 0.01
43 82 0.95
44 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTAATATAAGCGCCGCTATAGATCAGGGT
Found at i:15194765 original size:43 final size:43
Alignment explanation
Indices: 15194722--15194923 Score: 187
Period size: 43 Copynumber: 4.6 Consensus size: 43
15194712 GCCTTTAGCA
*
15194722 GCGCTTTTCCCAAAAACGCCGC-AATAGACCCTGATCTAAAGCA
1 GCGCTTTTCCCAAAAACGCCGCTAA-AGACCCTGATCTAAAGCG
** * *
15194765 GCATTTTTCCCACAAACGCCGC-AATAGACCCTGATCTATAGCCG
1 GCGCTTTTCCCAAAAACGCCGCTAA-AGACCCTGATCTAAAG-CG
* *
15194809 GCGCTTAT-CCAGAAAACGCCGCTAAATACCCTTTG-TCTATATAGCG
1 GCGCTTTTCCCA-AAAACGCCGCTAAAGACCC--TGATCTA-A-AGCG
** * * *
15194855 GCGCTTCGCGCAAAAACGCCGCTAAAGACCCTAATCTATAGCG
1 GCGCTTTTCCCAAAAACGCCGCTAAAGACCCTGATCTAAAGCG
*
15194898 GCGCTTTTACCAAAAACGCCGCTAAA
1 GCGCTTTTCCCAAAAACGCCGCTAAA
15194924 TTTGGCAGAT
Statistics
Matches: 129, Mismatches: 21, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
43 66 0.51
44 21 0.16
45 10 0.08
46 28 0.22
47 4 0.03
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (43 bp):
GCGCTTTTCCCAAAAACGCCGCTAAAGACCCTGATCTAAAGCG
Found at i:15195246 original size:17 final size:18
Alignment explanation
Indices: 15195224--15195265 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 18
15195214 GAACTTTTGA
15195224 CGCTG-CTCTGCTTCCCT
1 CGCTGACTCTGCTTCCCT
15195241 CGCTGCAACCTCTGCTTCCCT
1 CGCTG--A-CTCTGCTTCCCT
15195262 CGCT
1 CGCT
15195266 TTAGCCTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.24
21 16 0.76
ACGTcount: A:0.05, C:0.48, G:0.17, T:0.31
Consensus pattern (18 bp):
CGCTGACTCTGCTTCCCT
Found at i:15195255 original size:21 final size:21
Alignment explanation
Indices: 15195229--15195319 Score: 92
Period size: 21 Copynumber: 4.3 Consensus size: 21
15195219 TTTGACGCTG
*
15195229 CTCTGCTTCCCTCGCTGCAAC
1 CTCTGCTTCCCTCGCTGCAGC
**
15195250 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
15195271 CTCTACTTCCCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
15195292 CTGTTCTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
15195313 ATCTGCT
1 CTCTGCT
15195320 CTAAGCTGCT
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.07, C:0.43, G:0.15, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:15195381 original size:66 final size:66
Alignment explanation
Indices: 15195297--15195437 Score: 196
Period size: 66 Copynumber: 2.1 Consensus size: 66
15195287 GCAGCCTGTT
*
15195297 CTTCTCTCGCTGCCGCATCTGCTCTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCT
1 CTTCTCTCGCTGCCGCATCTGCTCTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACAT
*
15195360 TAG
64 CAG
* * * *
15195363 CTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACATCA
1 CTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACATCA
15195428 G
66 G
15195429 CTTCTCTCG
1 CTTCTCTCG
15195438 ATGTTGCCTC
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 1 0.01
66 62 0.93
67 4 0.06
ACGTcount: A:0.14, C:0.28, G:0.18, T:0.40
Consensus pattern (66 bp):
CTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACATCA
G
Found at i:15195453 original size:66 final size:66
Alignment explanation
Indices: 15195330--15195460 Score: 174
Period size: 66 Copynumber: 2.0 Consensus size: 66
15195320 CTAAGCTGCT
* * * * *
15195330 GCTGGAGTTCTTCATACTTTCGTTGAACCTTAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGT
1 GCTGGAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAATTGT
15195395 A
66 A
* * *
15195396 GCTGGAGTTCTTCATATCTTT-TTTGAACATCAGCTTCTCTCGATGTTGCCTCCGCTTTAAATTG
1 GCTGGAGTTCTTCATA-CTTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAATTG
15195460 T
65 T
15195461 GTAATTTGCT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
66 52 0.93
67 4 0.07
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAATTGT
A
Found at i:15200885 original size:16 final size:16
Alignment explanation
Indices: 15200864--15200897 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
15200854 ATAGTTAAGC
15200864 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
15200880 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
15200896 TA
1 TA
15200898 CCCAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:15200929 original size:25 final size:25
Alignment explanation
Indices: 15200878--15200933 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
15200868 TAAGTTATGT
* *
15200878 ATTATGTAAGTTATTTATTACCCAA
1 ATTATGTAAGTTATGTATTACCAAA
* **
15200903 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATGTATTACCAAA
15200928 ATTATG
1 ATTATG
15200934 CTATGTAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTACCAAA
Found at i:15200947 original size:9 final size:9
Alignment explanation
Indices: 15200935--15201132 Score: 60
Period size: 9 Copynumber: 22.7 Consensus size: 9
15200925 AAAATTATGC
15200935 TATGTAAGT
1 TATGTAAGT
15200944 TATGTAAGT
1 TATGTAAGT
* **
15200953 CACATAAGT
1 TATGTAAGT
15200962 TATGTAAG-
1 TATGTAAGT
* * *
15200970 -AAGTTATT
1 TATGTAAGT
15200978 TATGTAAGT
1 TATGTAAGT
*
15200987 TAT-TTA-T
1 TATGTAAGT
* *
15200994 TATGAAAAT
1 TATGTAAGT
*
15201003 TAAGTAAGT
1 TATGTAAGT
*
15201012 TATGTAATT
1 TATGTAAGT
*
15201021 TACG-AA-T
1 TATGTAAGT
* **
15201028 AAT-TAAAAA
1 TATGT-AAGT
15201037 TATGTAAGT
1 TATGTAAGT
15201046 TATGTAAG-
1 TATGTAAGT
15201054 T-TGTAAGT
1 TATGTAAGT
*
15201062 TATGTATA-A
1 TATGTA-AGT
15201071 TAT-TAA-T
1 TATGTAAGT
**
15201078 TAACTAAGT
1 TATGTAAGT
* *
15201087 TATGTCATT
1 TATGTAAGT
*
15201096 TATGTATCATAT
1 TATGTA--A-GT
15201108 TAATGTAAGT
1 T-ATGTAAGT
*
15201118 TATGTAATT
1 TATGTAAGT
15201127 TATGTA
1 TATGTA
15201133 TATTAACTAA
Statistics
Matches: 134, Mismatches: 38, Indels: 34
0.65 0.18 0.17
Matches are distributed among these distances:
7 19 0.14
8 14 0.10
9 88 0.66
10 4 0.03
11 2 0.01
12 2 0.01
13 5 0.04
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.43
Consensus pattern (9 bp):
TATGTAAGT
Found at i:15201015 original size:34 final size:34
Alignment explanation
Indices: 15200977--15201055 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
15200967 AAGAAGTTAT
*** * *
15200977 TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
1 TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
* * *
15201011 TTATGTAATTTACGAATAATTAAAAATATGTAAG
1 TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
15201045 TTATGTAAGTT
1 TTATGTAAGTT
15201056 GTAAGTTATG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.42, C:0.01, G:0.14, T:0.43
Consensus pattern (34 bp):
TTATGTAAGTTACGAATAATGAAAAATAAGTAAG
Found at i:15201099 original size:34 final size:34
Alignment explanation
Indices: 15201055--15202103 Score: 342
Period size: 34 Copynumber: 28.7 Consensus size: 34
15201045 TTATGTAAGT
* *
15201055 TGTAAGTTATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* * *
15201089 TGTCATTTATGTATCATATTAA-T--GTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* *
15201120 TGTAATTTATG--T-ATATTAACTAATTAATTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
*
15201151 TGTAAGTTATGTATAATATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* *
15201185 TGTCATTTATGTATAATATTAATGTAAGTTATGTATAA
1 TGTAATTTATGTATAATATTAAT-TAA-TTAAGT-T-A
* * * * * *
15201223 TATTAATTAAT-TA-AGTTATGTCATCTATGTATAATATTAA
1 T-GTAATTTATGTATA-ATAT-TAAT-TA-AT-TAA-GTT-A
*
15201263 TGTAAGTTATGTATAATATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* *
15201297 TGTCATTTATGTATAATATTAATGTAAGTTATGTATAA
1 TGTAATTTATGTATAATATTAAT-TAA-TTAAGT-T-A
* * * * * *
15201335 TATTAATTAAT-TA-AGTTATGTCATTTATGTATAATATTAA
1 T-GTAATTTATGTATA-ATAT-T-AATTA-AT-TAA-GTT-A
*
15201375 TGTAAGTTATGTATAATATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* *
15201409 TGTCATTTATGTATAATATTAATGTAAGTTATGTATAA
1 TGTAATTTATGTATAATATTAAT-TAA-TTAAGT-T-A
* * * * * *
15201447 TATTAATTAAT-TA-AGTTATGTCATTTATGTATAATATTAA
1 T-GTAATTTATGTATA-ATAT-T-AATTA-AT-TAA-GTT-A
*
15201487 TGTAAGTTATGTATAATATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* *
15201521 TGTCATTTATGTATAATATTAATGTAAGTTATGTATAA
1 TGTAATTTATGTATAATATTAAT-TAA-TTAAGT-T-A
* * * * * *
15201559 TATTAATTAAT-TA-AGTTATGTCATTTATGTATAATATTAA
1 T-GTAATTTATGTATA-ATAT-T-AATTA-AT-TAA-GTT-A
*
15201599 TGTAAGTTATGTATAATATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* *
15201633 TGTCATTTATGTATAATATTAATGTAAGTTATGTATAA
1 TGTAATTTATGTATAATATTAAT-TAA-TTAAGT-T-A
* * * * * *
15201671 TATTAATTAAT-TA-AGTTATGTCATTTATGTATAATATTAA
1 T-GTAATTTATGTATA-ATAT-T-AATTA-AT-TAA-GTT-A
*
15201711 TGTAAGTTATGTATAATATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* *
15201745 TGTCATTTATGTATAATATTAATGTAAGTTATGTATAA
1 TGTAATTTATGTATAATATTAAT-TAA-TTAAGT-T-A
* * * * * *
15201783 TATTAATTAAT-TA-AGTTATGTCATTTATGTATAATATTAA
1 T-GTAATTTATGTATA-ATAT-T-AATTA-AT-TAA-GTT-A
*
15201823 TGTAAGTTATGTATAATATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* *
15201857 TGTCATTTATGTATAATATTAATGTAAGTTATGTATAA
1 TGTAATTTATGTATAATATTAAT-TAA-TTAAGT-T-A
* * * * * *
15201895 TATTAATTAAT-TA-AGTTATGTCATTTATGTATAATATTAA
1 T-GTAATTTATGTATA-ATAT-T-AATTA-AT-TAA-GTT-A
*
15201935 TGTAAGTTATGTATAATATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* *
15201969 TGTCATTTATGTATAATATTAATGTAAGTTATGTATAA
1 TGTAATTTATGTATAATATTAAT-TAA-TTAAGT-T-A
* * * * * *
15202007 TATTAATTAAT-TA-AGTTATGTCATTTATGTATAATATTAA
1 T-GTAATTTATGTATA-ATAT-T-AATTA-AT-TAA-GTT-A
*
15202047 TGTAAGTTATGTATAATATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATATTAATTAATTAAGTTA
* *
15202081 TGTCATCTATGTATAATATTAAT
1 TGTAATTTATGTATAATATTAAT
15202104 GTAAGTTATG
Statistics
Matches: 748, Mismatches: 158, Indels: 218
0.67 0.14 0.19
Matches are distributed among these distances:
28 7 0.01
29 2 0.00
31 33 0.04
33 2 0.00
34 232 0.31
35 40 0.05
36 64 0.09
37 24 0.03
38 86 0.11
39 140 0.19
40 102 0.14
41 16 0.02
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (34 bp):
TGTAATTTATGTATAATATTAATTAATTAAGTTA
Found at i:15201211 original size:56 final size:56
Alignment explanation
Indices: 15201150--15202140 Score: 1964
Period size: 56 Copynumber: 17.7 Consensus size: 56
15201140 TAATTAATTT
15201150 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
*
15201206 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
15201262 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
15201318 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
15201374 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
15201430 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
15201486 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
15201542 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
15201598 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
15201654 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
15201710 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
15201766 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
15201822 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
15201878 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
15201934 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
15201990 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
*
15202046 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATCTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
15202102 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTC
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTC
15202141 CCTTACAATA
Statistics
Matches: 932, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 932 1.00
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (56 bp):
ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTCATTTATGTATAATATTA
Found at i:15202264 original size:24 final size:24
Alignment explanation
Indices: 15202232--15202284 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
15202222 AGTATTTTAT
15202232 AATATAATATTAATTTTAGATACA
1 AATATAATATTAATTTTAGATACA
*
15202256 AATATAATATTAATTTTAGTTACA
1 AATATAATATTAATTTTAGATACA
15202280 AATAT
1 AATAT
15202285 TATACAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (24 bp):
AATATAATATTAATTTTAGATACA
Found at i:15203775 original size:17 final size:17
Alignment explanation
Indices: 15203755--15203792 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
15203745 TTAAAGTTCA
15203755 CAAGGAAGTAAAGGCTG
1 CAAGGAAGTAAAGGCTG
*
15203772 CAAGGAAGTAGAGGCTG
1 CAAGGAAGTAAAGGCTG
15203789 CAAG
1 CAAG
15203793 TTCCTGGGAT
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:0.39, C:0.13, G:0.37, T:0.11
Consensus pattern (17 bp):
CAAGGAAGTAAAGGCTG
Found at i:15204080 original size:33 final size:33
Alignment explanation
Indices: 15204033--15204100 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
15204023 ATATACATAT
*
15204033 ATTCATACCTAACACTAATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
*
15204066 ATTCATACCCAACACTCATCTCATTTAACTCGA
1 ATTCATACCCAACACTAATCTCATTTAACTCGA
15204099 AT
1 AT
15204101 AACATAGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.32
Consensus pattern (33 bp):
ATTCATACCCAACACTAATCTCATTTAACTCGA
Found at i:15204340 original size:14 final size:15
Alignment explanation
Indices: 15204321--15204359 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
15204311 AATTGGGAAA
15204321 TTGGGGAAAAT-ACT
1 TTGGGGAAAATAACT
15204335 TTGGGGAAGAATAACT
1 TTGGGGAA-AATAACT
*
15204351 TGGGGGAAA
1 TTGGGGAAA
15204360 TTGGGGGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 4 0.18
16 10 0.45
ACGTcount: A:0.36, C:0.05, G:0.36, T:0.23
Consensus pattern (15 bp):
TTGGGGAAAATAACT
Found at i:15205643 original size:37 final size:38
Alignment explanation
Indices: 15205600--15205671 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 38
15205590 CCATAACCCC
* * *
15205600 TAACCCTTTACCCCTAAA-TCCCCTAACCCCTAAAGCA
1 TAACCCTTAAACCCTAAATTCCCCTAACACCTAAAGCA
15205637 TAACCCTTAAACCCTAAATTCCCCTAACACCTAAA
1 TAACCCTTAAACCCTAAATTCCCCTAACACCTAAA
15205672 CCTTAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.36, C:0.40, G:0.01, T:0.22
Consensus pattern (38 bp):
TAACCCTTAAACCCTAAATTCCCCTAACACCTAAAGCA
Found at i:15206618 original size:42 final size:41
Alignment explanation
Indices: 15206473--15206998 Score: 590
Period size: 41 Copynumber: 12.8 Consensus size: 41
15206463 AAGGTTAATA
* * * * **
15206473 CATTCGCGGCGCTTAGATACAAACGCCGCTGA-ATACAGGAG
1 CATTAGCGGCGCTTAGACAAAAACGCCGCT-ATAGACCCGAG
* * * * * * *
15206514 AATTAGCGGCGCATATATAAAAACGCCGCAAAAGACCCGAA
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCCGAG
* *
15206555 CATTAGCGGCGCTTAGGCGAAAACGCCGCTATAGACCCGGAG
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCC-GAG
* * * *
15206597 CATTAGCGGCGCTTAGACGAAAACTCCGCTAAAGACTCGGAG
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGAC-CCGAG
* *
15206639 CATTACCGGCGCTTAGACGAAAACGCCGCTATAGACCCGAG
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCCGAG
* * * *
15206680 CATTAGCGGCGCTTAGACAAAAACTCCACTAAAGACTCGGAG
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGAC-CCGAG
* * *
15206722 CATTACCGGCGCTTAGACGAAAATGCCGCTATAGACCCGAG
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCCGAG
* * * *
15206763 CATTAGCGGCGCTTAGACAAAAACTCCACTAAAGACTCGGAG
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGAC-CCGAG
* * *
15206805 CATTACCGGCGCTTAGACGAAAATGCCGCTATAGACCCGAG
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCCGAG
* * * *
15206846 CATTAGCGGCGCTTAGACAAAAACTCCACTAAAGACTCGGAG
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGAC-CCGAG
* * *
15206888 CATTACCGGCGCTTAGACGAAAATGCCGCTATAGACCCGAG
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCCGAG
15206929 CATTAGCGGCGCTTAGACAAAAACG-C-CTATAGACCCGAG
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCCGAG
*
15206968 CATTAGCGGTGCTTAGACAAAAACGCCGCTA
1 CATTAGCGGCGCTTAGACAAAAACGCCGCTA
15206999 AATGTTTAAA
Statistics
Matches: 405, Mismatches: 72, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
39 37 0.09
40 3 0.01
41 191 0.47
42 173 0.43
43 1 0.00
ACGTcount: A:0.32, C:0.28, G:0.24, T:0.16
Consensus pattern (41 bp):
CATTAGCGGCGCTTAGACAAAAACGCCGCTATAGACCCGAG
Found at i:15206684 original size:83 final size:83
Alignment explanation
Indices: 15206515--15206998 Score: 742
Period size: 83 Copynumber: 5.9 Consensus size: 83
15206505 ATACAGGAGA
* * * * * * * * * *
15206515 ATTAGCGGCGCATATATAAAAACGCCGCAAAAGAC-CCGAACATTAGCGGCGCTTAGGCGAAAAC
1 ATTAGCGGCGCTTAGACAAAAACTCCACTAAAGACTCGGAGCATTACCGGCGCTTAGACGAAAAC
15206579 GCCGCTATAGACCCGGAGC
66 GCCGCTATAGACCC-GAGC
* *
15206598 ATTAGCGGCGCTTAGACGAAAACTCCGCTAAAGACTCGGAGCATTACCGGCGCTTAGACGAAAAC
1 ATTAGCGGCGCTTAGACAAAAACTCCACTAAAGACTCGGAGCATTACCGGCGCTTAGACGAAAAC
15206663 GCCGCTATAGACCCGAGC
66 GCCGCTATAGACCCGAGC
*
15206681 ATTAGCGGCGCTTAGACAAAAACTCCACTAAAGACTCGGAGCATTACCGGCGCTTAGACGAAAAT
1 ATTAGCGGCGCTTAGACAAAAACTCCACTAAAGACTCGGAGCATTACCGGCGCTTAGACGAAAAC
15206746 GCCGCTATAGACCCGAGC
66 GCCGCTATAGACCCGAGC
*
15206764 ATTAGCGGCGCTTAGACAAAAACTCCACTAAAGACTCGGAGCATTACCGGCGCTTAGACGAAAAT
1 ATTAGCGGCGCTTAGACAAAAACTCCACTAAAGACTCGGAGCATTACCGGCGCTTAGACGAAAAC
15206829 GCCGCTATAGACCCGAGC
66 GCCGCTATAGACCCGAGC
*
15206847 ATTAGCGGCGCTTAGACAAAAACTCCACTAAAGACTCGGAGCATTACCGGCGCTTAGACGAAAAT
1 ATTAGCGGCGCTTAGACAAAAACTCCACTAAAGACTCGGAGCATTACCGGCGCTTAGACGAAAAC
15206912 GCCGCTATAGACCCGAGC
66 GCCGCTATAGACCCGAGC
* * * * * *
15206930 ATTAGCGGCGCTTAGACAAAAAC-GC-CTATAGAC-CCGAGCATTAGCGGTGCTTAGACAAAAAC
1 ATTAGCGGCGCTTAGACAAAAACTCCACTAAAGACTCGGAGCATTACCGGCGCTTAGACGAAAAC
15206992 GCCGCTA
66 GCCGCTA
15206999 AATGTTTAAA
Statistics
Matches: 380, Mismatches: 20, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
80 31 0.08
81 7 0.02
82 1 0.00
83 302 0.79
84 39 0.10
ACGTcount: A:0.32, C:0.28, G:0.24, T:0.16
Consensus pattern (83 bp):
ATTAGCGGCGCTTAGACAAAAACTCCACTAAAGACTCGGAGCATTACCGGCGCTTAGACGAAAAC
GCCGCTATAGACCCGAGC
Found at i:15207172 original size:40 final size:39
Alignment explanation
Indices: 15207049--15207175 Score: 112
Period size: 40 Copynumber: 3.2 Consensus size: 39
15207039 GGTTTTTTGT
* * *
15207049 GGCGCTTTATATAAAACGCCGTTAATTC-CTATTTTTAGC
1 GGCGCTTTA-GTAAAACGCCGCTAATGCTCTATTTTTAGC
** * **
15207088 GGCGCTTCCGTATAAACGCCGCTGATGCTCTACCTTTAGC
1 GGCGCTTTAGTA-AAACGCCGCTAATGCTCTATTTTTAGC
* * * *
15207128 GGCGCTTTGGCTAAATCGCCGCTAATGCTCTATTTTTTGT
1 GGCGCTTTAG-TAAAACGCCGCTAATGCTCTATTTTTAGC
15207168 GGCGCTTT
1 GGCGCTTT
15207176 TGTTCCAAAC
Statistics
Matches: 69, Mismatches: 16, Indels: 5
0.77 0.18 0.06
Matches are distributed among these distances:
38 2 0.03
39 19 0.28
40 46 0.67
41 2 0.03
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.35
Consensus pattern (39 bp):
GGCGCTTTAGTAAAACGCCGCTAATGCTCTATTTTTAGC
Found at i:15209940 original size:40 final size:38
Alignment explanation
Indices: 15209896--15210031 Score: 103
Period size: 40 Copynumber: 3.4 Consensus size: 38
15209886 GCGTTTAGAT
15209896 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTAAA
1 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTT--A
* * ** * *
15209936 AAAAACGCCGCTAAAGATTGAGTATTAGCGGCGCATATTG
1 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGC-T-TTA
** * *
15209976 AAAAACGCTGCTAAAAATGAA-CATTAGCGGCGTTTTTCA
1 AAAAACGCCACTAAAAATCAAGCATTAGCGGCG-CTTT-A
* *
15210015 AAAAGCGCCACAAAAAA
1 AAAAACGCCACTAAAAA
15210032 CCTAAGCCCA
Statistics
Matches: 75, Mismatches: 17, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
38 2 0.03
39 24 0.32
40 46 0.61
41 1 0.01
42 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (38 bp):
AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTA
Found at i:15210138 original size:41 final size:40
Alignment explanation
Indices: 15210063--15210224 Score: 175
Period size: 40 Copynumber: 4.0 Consensus size: 40
15210053 TTTTGAGTTT
* *
15210063 TGGGGCTTTAGCGGCTTTTTTAG-AAAGCGTCGCTAATGC
1 TGGGGCTTTAGCGGCATTTTTAGAAAAGCGCCGCTAATGC
* *
15210102 ATGGGGCTTTAGCGGCGTTTTTAGAAAAGAGCCGCTAATGC
1 -TGGGGCTTTAGCGGCATTTTTAGAAAAGCGCCGCTAATGC
***** * *
15210143 TCTATTTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATTC
1 TGGGGCTTTAGCGGCATTTTTAGAAAAGCGCCGCTAATGC
*
15210183 TTGGGTCTTTAGCGGCATTTTT-GAAGAAGCGCCGCTAATGC
1 -TGGGGCTTTAGCGGCATTTTTAGAA-AAGCGCCGCTAATGC
15210224 T
1 T
15210225 CTATTTTTAG
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
40 57 0.56
41 45 0.44
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.33
Consensus pattern (40 bp):
TGGGGCTTTAGCGGCATTTTTAGAAAAGCGCCGCTAATGC
Found at i:15210204 original size:81 final size:80
Alignment explanation
Indices: 15210069--15210253 Score: 248
Period size: 81 Copynumber: 2.3 Consensus size: 80
15210059 GTTTTGGGGC
* * *
15210069 TTTAGCGGC-TTTTTTAGAAAGCGTCGCTAATGCATGGGGCTTTAGCGGCGTTTTTAGAA-AAGA
1 TTTAGCGGCATTTTTGA-AAAGCGCCGCTAATGCATGGGGCTTTAGCGGCATTTTT-GAAGAAGA
15210132 GCCGCTAATGCTCTATT
64 GCCGCTAATGCTCTATT
* * * *
15210149 TTTAGCGGCATTTTTGGAAAAGCGCCGCTAATTCTTGGGTCTTTAGCGGCATTTTTGAAGAAGCG
1 TTTAGCGGCATTTTT-GAAAAGCGCCGCTAATGCATGGGGCTTTAGCGGCATTTTTGAAGAAGAG
15210214 CCGCTAATGCTCTATT
65 CCGCTAATGCTCTATT
* *
15210230 TTTAGCGACGTTTTTGAAAAGCGC
1 TTTAGCGGCATTTTTGAAAAGCGC
15210254 AGCATAAAAT
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
80 21 0.23
81 71 0.76
82 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (80 bp):
TTTAGCGGCATTTTTGAAAAGCGCCGCTAATGCATGGGGCTTTAGCGGCATTTTTGAAGAAGAGC
CGCTAATGCTCTATT
Found at i:15210245 original size:40 final size:40
Alignment explanation
Indices: 15210069--15210253 Score: 171
Period size: 40 Copynumber: 4.6 Consensus size: 40
15210059 GTTTTGGGGC
* * *****
15210069 TTTAGCGGCTTTTTTAG-AAAGCGTCGCTAATGCATGGGGC
1 TTTAGCGGCATTTTTAGAAAAGCGCCGCTAATGC-TCTATT
* *
15210109 TTTAGCGGCGTTTTTAGAAAAGAGCCGCTAATGCTCTATT
1 TTTAGCGGCATTTTTAGAAAAGCGCCGCTAATGCTCTATT
* * * *
15210149 TTTAGCGGCATTTTTGGAAAAGCGCCGCTAATTCT-TGGGTC
1 TTTAGCGGCATTTTTAGAAAAGCGCCGCTAATGCTCT--ATT
15210190 TTTAGCGGCATTTTT-GAAGAAGCGCCGCTAATGCTCTATT
1 TTTAGCGGCATTTTTAGAA-AAGCGCCGCTAATGCTCTATT
* *
15210230 TTTAGCGACGTTTTT-GAAAAGCGC
1 TTTAGCGGCATTTTTAGAAAAGCGC
15210254 AGCATAAAAT
Statistics
Matches: 121, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
39 7 0.06
40 68 0.56
41 45 0.37
42 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (40 bp):
TTTAGCGGCATTTTTAGAAAAGCGCCGCTAATGCTCTATT
Found at i:15210814 original size:73 final size:73
Alignment explanation
Indices: 15210695--15210942 Score: 279
Period size: 73 Copynumber: 3.4 Consensus size: 73
15210685 TGTTCAGGGC
** *
15210695 TTTAGCGGCGTTTTTAAAGAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTCTGAGCTT
1 TTTAGCGGCGTTTTTGGAGAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTCTGAGCTT
*
15210760 TTTGAGGA
66 TTCGAGGA
* **
15210768 TTTAGTGGCGTTTTTGGAGAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTC-GAGAGA
1 TTTAGCGGCGTTTTTGGAGAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTCTGAG-CT
*
15210832 TTTCGGGGA
65 TTTCGAGGA
* * * * * *
15210841 TCTAGCGGCGTTTTTTGTGTAGCGCCGTAATAAAAA-CTAAGCCCAACGACGCCGTTTTCTGTGC
1 TTTAGCGGCGTTTTTGGAGAAGCGCCGCAA-AAAAACCTAAGCCCAACGACGCCG-TTTCTGAGC
*
15210905 -TTTCGGTGGA
64 TTTTC-GAGGA
*
15210915 TTTAGAGGCGTTTTTAGGA-AAGCGCCGC
1 TTTAGCGGCGTTTTT-GGAGAAGCGCCGC
15210943 TAATGCACAG
Statistics
Matches: 146, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
72 3 0.02
73 107 0.73
74 33 0.23
75 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGGAGAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTCTGAGCTT
TTCGAGGA
Found at i:15211259 original size:17 final size:17
Alignment explanation
Indices: 15211215--15211261 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 17
15211205 AGTGTTATGC
*
15211215 TTTAGGGGTTAGGGGGA
1 TTTAGGGGTTAGGAGGA
15211232 TTTAGAGGGGTTAGGAGGA
1 TTT--AGGGGTTAGGAGGA
15211251 TTTAGGGGTTA
1 TTTAGGGGTTA
15211262 AGGGTTAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 11 0.41
19 16 0.59
ACGTcount: A:0.21, C:0.00, G:0.47, T:0.32
Consensus pattern (17 bp):
TTTAGGGGTTAGGAGGA
Found at i:15212124 original size:31 final size:32
Alignment explanation
Indices: 15212089--15212150 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
15212079 TTATTATTGG
* *
15212089 ATAAAAAAAT-ACATTTTTTATACCAAATTTT
1 ATAAAAAAATAAAATTTATTATACCAAATTTT
*
15212120 ATAAAAAGATAAAATTTATTATACCAAATTT
1 ATAAAAAAATAAAATTTATTATACCAAATTT
15212151 CATTCGTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 9 0.33
32 18 0.67
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.39
Consensus pattern (32 bp):
ATAAAAAAATAAAATTTATTATACCAAATTTT
Found at i:15212376 original size:7 final size:7
Alignment explanation
Indices: 15212366--15212579 Score: 86
Period size: 7 Copynumber: 28.4 Consensus size: 7
15212356 GTTTTGTGGT
15212366 TTAGGGG
1 TTAGGGG
15212373 TTAGGGG
1 TTAGGGG
* **
15212380 TTATGCT
1 TTAGGGG
15212387 TTAGGGG
1 TTAGGGG
15212394 TTAGGGTG
1 TTAGGG-G
*
15212402 ATTAGGGT
1 -TTAGGGG
15212410 TTAGGGG
1 TTAGGGG
* **
15212417 TTATGCT
1 TTAGGGG
*
15212424 TTATGGG
1 TTAGGGG
15212431 TTAGGGGG
1 TTA-GGGG
15212439 ATTTAGGGG
1 --TTAGGGG
15212448 TTAGGGG
1 TTAGGGG
* **
15212455 TTATGCT
1 TTAGGGG
* *
15212462 TTAAGGA
1 TTAGGGG
15212469 TTAAGGGG
1 TT-AGGGG
15212477 ATTTAGGGG
1 --TTAGGGG
*
15212486 TTATGGG
1 TTAGGGG
15212493 TTAGGGGG
1 TTA-GGGG
15212501 ATTTAGGGG
1 --TTAGGGG
15212510 TTAGGGG
1 TTAGGGG
* **
15212517 TTATGCT
1 TTAGGGG
* *
15212524 TTAAGGA
1 TTAGGGG
15212531 TTAAGGGG
1 TT-AGGGG
15212539 ATTTAGGGG
1 --TTAGGGG
*
15212548 TTATGGG
1 TTAGGGG
*
15212555 TTAGGGA
1 TTAGGGG
* *
15212562 TTTGGGAT
1 TTAGGG-G
15212570 TTAGGGG
1 TTAGGGG
15212577 TTA
1 TTA
15212580 TTAATTTTTA
Statistics
Matches: 153, Mismatches: 39, Indels: 30
0.69 0.18 0.14
Matches are distributed among these distances:
7 101 0.66
8 18 0.12
9 24 0.16
10 10 0.07
ACGTcount: A:0.19, C:0.02, G:0.43, T:0.36
Consensus pattern (7 bp):
TTAGGGG
Found at i:15212454 original size:38 final size:38
Alignment explanation
Indices: 15212365--15212495 Score: 192
Period size: 38 Copynumber: 3.5 Consensus size: 38
15212355 GGTTTTGTGG
* *
15212365 TTTAGGGGTTAGGGGTTATGCTTTAGGGGTTAGGGTGA
1 TTTAGGGGTTAGGGGTTATGCTTTAAGGGTTAGGGGGA
* *
15212403 -TTAGGGTTTAGGGGTTATGCTTTATGGGTTAGGGGGA
1 TTTAGGGGTTAGGGGTTATGCTTTAAGGGTTAGGGGGA
* *
15212440 TTTAGGGGTTAGGGGTTATGCTTTAAGGATTAAGGGGA
1 TTTAGGGGTTAGGGGTTATGCTTTAAGGGTTAGGGGGA
*
15212478 TTTAGGGGTTATGGGTTA
1 TTTAGGGGTTAGGGGTTA
15212496 GGGGGATTTA
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
37 34 0.40
38 50 0.60
ACGTcount: A:0.18, C:0.02, G:0.42, T:0.37
Consensus pattern (38 bp):
TTTAGGGGTTAGGGGTTATGCTTTAAGGGTTAGGGGGA
Found at i:15212495 original size:62 final size:62
Alignment explanation
Indices: 15212424--15212580 Score: 275
Period size: 62 Copynumber: 2.6 Consensus size: 62
15212414 GGGTTATGCT
15212424 TTATGGGTTAGGGGGATTTAGGGGTTAGGGGTTATGCTTTAAGGATTAAGGGGATTTAGGGG
1 TTATGGGTTAGGGGGATTTAGGGGTTAGGGGTTATGCTTTAAGGATTAAGGGGATTTAGGGG
15212486 TTATGGGTTAGGGGGATTTAGGGGTTAGGGGTTATGCTTTAAGGATTAAGGGGATTTAGGGG
1 TTATGGGTTAGGGGGATTTAGGGGTTAGGGGTTATGCTTTAAGGATTAAGGGGATTTAGGGG
*
15212548 TTATGGGTTA--GGGATTT-GGGATTTAGGGGTTAT
1 TTATGGGTTAGGGGGATTTAGGG-GTTAGGGGTTAT
15212581 TAATTTTTAT
Statistics
Matches: 93, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
59 3 0.03
60 18 0.19
62 72 0.77
ACGTcount: A:0.20, C:0.01, G:0.43, T:0.36
Consensus pattern (62 bp):
TTATGGGTTAGGGGGATTTAGGGGTTAGGGGTTATGCTTTAAGGATTAAGGGGATTTAGGGG
Found at i:15212503 original size:24 final size:24
Alignment explanation
Indices: 15212473--15212519 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
15212463 TAAGGATTAA
*
15212473 GGGGATTTAGGGGTTATGGGTTAG
1 GGGGATTTAGGGGTTAGGGGTTAG
15212497 GGGGATTTAGGGGTTAGGGGTTA
1 GGGGATTTAGGGGTTAGGGGTTA
15212520 TGCTTTAAGG
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:0.17, C:0.00, G:0.51, T:0.32
Consensus pattern (24 bp):
GGGGATTTAGGGGTTAGGGGTTAG
Found at i:15214302 original size:16 final size:16
Alignment explanation
Indices: 15214281--15214373 Score: 81
Period size: 16 Copynumber: 6.0 Consensus size: 16
15214271 AAGGGAAGAA
15214281 GCTGGAATATATACTT
1 GCTGGAATATATACTT
*
15214297 GCTGGAATATATTCCAGTT
1 GCTGGAATATA-T--ACTT
15214316 GCTGG-A-ATATACTT
1 GCTGGAATATATACTT
*
15214330 GCTGG-A-ATATA-TG
1 GCTGGAATATATACTT
**
15214343 GC-CAAATATATACTT
1 GCTGGAATATATACTT
15214358 GCTGGAATATATACTT
1 GCTGGAATATATACTT
15214374 TACTAAAATC
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
13 4 0.06
14 19 0.31
15 3 0.05
16 23 0.37
17 4 0.06
18 1 0.02
19 8 0.13
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.35
Consensus pattern (16 bp):
GCTGGAATATATACTT
Found at i:15214333 original size:14 final size:14
Alignment explanation
Indices: 15214289--15214368 Score: 63
Period size: 14 Copynumber: 5.4 Consensus size: 14
15214279 AAGCTGGAAT
15214289 ATATACTTGCTGGA
1 ATATACTTGCTGGA
15214303 ATATATTCCAGTTGCTGGA
1 ATATA---C--TTGCTGGA
15214322 ATATACTTGCTGGA
1 ATATACTTGCTGGA
* ***
15214336 ATATA-TGGCCAAA
1 ATATACTTGCTGGA
15214349 TATATACTTGCTGGA
1 -ATATACTTGCTGGA
15214364 ATATA
1 ATATA
15214369 TACTTTACTA
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
13 4 0.08
14 28 0.55
15 4 0.08
16 1 0.02
17 1 0.02
19 13 0.25
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (14 bp):
ATATACTTGCTGGA
Found at i:15215900 original size:47 final size:47
Alignment explanation
Indices: 15215755--15215928 Score: 227
Period size: 47 Copynumber: 3.8 Consensus size: 47
15215745 AAAAAATGCA
*
15215755 ATATTCTTAAGCATATATTACATTACTTACATTACTTACCGAAATAT
1 ATATTCTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
* * * * *
15215802 AT-TACATAACTCA-GT-TTACTTTACTTACATTACTT----AAATAT
1 ATATTCTTAAGT-ATATATTACATTACTTACATTACTTACCGAAATAT
15215843 ATATTCTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
1 ATATTCTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
*
15215890 ATATTTTTAAGTATATATTACATTACTTACATTACTTAC
1 ATATTCTTAAGTATATATTACATTACTTACATTACTTAC
15215929 TAAAATATGT
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
41 9 0.08
42 7 0.07
43 19 0.18
45 19 0.18
46 6 0.06
47 47 0.44
ACGTcount: A:0.37, C:0.16, G:0.03, T:0.44
Consensus pattern (47 bp):
ATATTCTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
Found at i:15216044 original size:17 final size:17
Alignment explanation
Indices: 15216022--15216127 Score: 82
Period size: 17 Copynumber: 6.4 Consensus size: 17
15216012 ATATCATTCC
15216022 ATAATTTACATAACTTA
1 ATAATTTACATAACTTA
*
15216039 ATAATTTACATAATTTTA
1 ATAATTTACATAA-CTTA
* **
15216057 A-AATATATCAT---TCC
1 ATAATTTA-CATAACTTA
*
15216071 ATAACTTACA-AA-TTA
1 ATAATTTACATAACTTA
15216086 A-AATTATACATAACTTA
1 ATAATT-TACATAACTTA
15216103 CATAATTTACATAACTTA
1 -ATAATTTACATAACTTA
15216121 ATAATTT
1 ATAATTT
15216128 TAAAATATAT
Statistics
Matches: 70, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
14 7 0.10
15 10 0.14
16 2 0.03
17 28 0.40
18 19 0.27
19 4 0.06
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATTTACATAACTTA
Found at i:15216051 original size:9 final size:9
Alignment explanation
Indices: 15216021--15216127 Score: 64
Period size: 9 Copynumber: 11.9 Consensus size: 9
15216011 TATATCATTC
15216021 CATAATTTA
1 CATAATTTA
*
15216030 CATAACTTA
1 CATAATTTA
15216039 -ATAATTTA
1 CATAATTTA
15216047 CATAATTTTAA
1 CATAA-TTT-A
* *
15216058 AATATATCATTC
1 CATA-AT--TTA
*
15216070 CATAACTTA
1 CATAATTTA
15216079 CA-AA-TTA
1 CATAATTTA
15216086 -A-AATTATA
1 CATAATT-TA
*
15216094 CATAACTTA
1 CATAATTTA
15216103 CATAATTTA
1 CATAATTTA
*
15216112 CATAACTTA
1 CATAATTTA
15216121 -ATAATTT
1 CATAATTT
15216128 TAAAATATAT
Statistics
Matches: 77, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
6 3 0.04
7 4 0.05
8 17 0.22
9 35 0.45
10 6 0.08
11 6 0.08
12 4 0.05
13 2 0.03
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (9 bp):
CATAATTTA
Found at i:15217760 original size:21 final size:21
Alignment explanation
Indices: 15217734--15217781 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
15217724 CTACAACTTA
* *
15217734 AAGCAGAGGCGGCAGTAAGGG
1 AAGCAGAGGCAGCAGCAAGGG
15217755 AAGCAGAGGCAGCAGCAAGGG
1 AAGCAGAGGCAGCAGCAAGGG
*
15217776 CAGCAG
1 AAGCAG
15217782 TGAGGGCAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.19, G:0.44, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCAAGGG
Found at i:15217814 original size:33 final size:33
Alignment explanation
Indices: 15217745--15217814 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
15217735 AGCAGAGGCG
* *
15217745 GCAGTAAGGGAAGCAGAGGCAGCAGCAAGGGCA
1 GCAGTAAGGGAAGCAGAGGCAGCAACAAGGGAA
* * * *
15217778 GCAGTGAGGGCAGCAGAGGCGGCAACGAGGGAA
1 GCAGTAAGGGAAGCAGAGGCAGCAACAAGGGAA
15217811 GCAG
1 GCAG
15217815 AGCAGAGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.33, C:0.19, G:0.46, T:0.03
Consensus pattern (33 bp):
GCAGTAAGGGAAGCAGAGGCAGCAACAAGGGAA
Found at i:15218988 original size:7 final size:7
Alignment explanation
Indices: 15218978--15219081 Score: 57
Period size: 7 Copynumber: 14.6 Consensus size: 7
15218968 GAGTTACTAT
*
15218978 TTTAAGG
1 TTTAGGG
15218985 TTTAGGG
1 TTTAGGG
* *
15218992 ATTATGTG
1 TTTA-GGG
15219000 TTTAGGG
1 TTTAGGG
* *
15219007 ATTATGG
1 TTTAGGG
* *
15219014 ATTATGG
1 TTTAGGG
*
15219021 TTTATGG
1 TTTAGGG
15219028 TTTAAGGG
1 TTT-AGGG
*
15219036 -TTGGGG
1 TTTAGGG
**
15219042 TTTAATG
1 TTTAGGG
15219049 TTTAGGG
1 TTTAGGG
*
15219056 GTTAGGG
1 TTTAGGG
*
15219063 GTTAGAGG
1 TTTAG-GG
15219071 TTTAGGG
1 TTTAGGG
15219078 TTTA
1 TTTA
15219082 TGTTTTATGA
Statistics
Matches: 76, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
6 3 0.04
7 59 0.78
8 14 0.18
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:15219002 original size:15 final size:15
Alignment explanation
Indices: 15218984--15219012 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15218974 CTATTTTAAG
15218984 GTTTAGGGATTATGT
1 GTTTAGGGATTATGT
15218999 GTTTAGGGATTATG
1 GTTTAGGGATTATG
15219013 GATTATGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (15 bp):
GTTTAGGGATTATGT
Found at i:15219003 original size:22 final size:22
Alignment explanation
Indices: 15218978--15219083 Score: 76
Period size: 22 Copynumber: 4.9 Consensus size: 22
15218968 GAGTTACTAT
*
15218978 TTTAAGGTTTAGGGATTATGTG
1 TTTAAGGTTTAGGGATTATGGG
* * *
15219000 TTTAGGGATTATGGATTAT-GG
1 TTTAAGGTTTAGGGATTATGGG
* *
15219021 TTTATGGTTTAAGGG-TT-GGGG
1 TTTAAGGTTT-AGGGATTATGGG
* *
15219042 TTTAATGTTTAGGGGTTA-GGG
1 TTTAAGGTTTAGGGATTATGGG
* *
15219063 GTTAGAGGTTTAGGGTTTATG
1 TTTA-AGGTTTAGGGATTATG
15219084 TTTTATGATT
Statistics
Matches: 65, Mismatches: 13, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
20 4 0.06
21 29 0.45
22 31 0.48
23 1 0.02
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (22 bp):
TTTAAGGTTTAGGGATTATGGG
Found at i:15223642 original size:25 final size:25
Alignment explanation
Indices: 15223605--15223665 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
15223595 CCAATACATG
*
15223605 TATGCTCAT-ACGAGCTATGAATCGA
1 TATGCTC-TCACGAGCTATAAATCGA
*
15223630 TATGCTCTCACGAGCTGTAAATCGA
1 TATGCTCTCACGAGCTATAAATCGA
*
15223655 TAAGCTCTCAC
1 TATGCTCTCAC
15223666 AAGTTGAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 1 0.03
25 31 0.97
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (25 bp):
TATGCTCTCACGAGCTATAAATCGA
Found at i:15223677 original size:25 final size:26
Alignment explanation
Indices: 15223623--15223689 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 26
15223613 TACGAGCTAT
* *
15223623 GAATCGATATGCTCTCACGAGCTGTA
1 GAATCGATAAGCTCTCACAAGCTGTA
*
15223649 -AATCGATAAGCTCTCACAAGTTG-A
1 GAATCGATAAGCTCTCACAAGCTGTA
15223673 GAATC-AGTAAGCTCTCA
1 GAATCGA-TAAGCTCTCA
15223690 TGAGCTACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 2 0.06
25 34 0.94
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.25
Consensus pattern (26 bp):
GAATCGATAAGCTCTCACAAGCTGTA
Found at i:15226274 original size:7 final size:7
Alignment explanation
Indices: 15226262--15226294 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
15226252 GTGGAACAAC
15226262 ACGATAG
1 ACGATAG
15226269 ACGATAG
1 ACGATAG
15226276 ACGATAG
1 ACGATAG
15226283 ACGATAG
1 ACGATAG
15226290 ACGAT
1 ACGAT
15226295 GGACTAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.15
Consensus pattern (7 bp):
ACGATAG
Found at i:15233715 original size:24 final size:24
Alignment explanation
Indices: 15233688--15233736 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
15233678 TTTGGCCAAG
15233688 TGACATAAATGACATTGGTAACAA
1 TGACATAAATGACATTGGTAACAA
15233712 TGACATAAATGACATTGGTAACAA
1 TGACATAAATGACATTGGTAACAA
15233736 T
1 T
15233737 CTTGGCCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (24 bp):
TGACATAAATGACATTGGTAACAA
Found at i:15243913 original size:21 final size:21
Alignment explanation
Indices: 15243888--15243931 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
15243878 ATTGGGCTGT
* *
15243888 TACACTCCACCTGTTTTGGAG
1 TACACTCCACCTGCTGTGGAG
15243909 TACACTCCACCTGCTGTGGAG
1 TACACTCCACCTGCTGTGGAG
15243930 TA
1 TA
15243932 TTGCTCGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (21 bp):
TACACTCCACCTGCTGTGGAG
Found at i:15248701 original size:21 final size:21
Alignment explanation
Indices: 15248675--15248715 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15248665 ATCTGCTCAA
* *
15248675 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
15248696 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
15248716 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:15254446 original size:24 final size:24
Alignment explanation
Indices: 15254403--15254453 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
15254393 TTATAAAAGG
* *
15254403 TTTAGTATTTATTAATATAATATA
1 TTTAATATTTATTAACATAATATA
* *
15254427 TTTAATATTTATTAGCATAATTTA
1 TTTAATATTTATTAACATAATATA
15254451 TTT
1 TTT
15254454 GACTTATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTAATATTTATTAACATAATATA
Found at i:15256491 original size:17 final size:17
Alignment explanation
Indices: 15256469--15256503 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
15256459 TTATAACTCA
15256469 TAACACTTTTGGAAAAT
1 TAACACTTTTGGAAAAT
15256486 TAACACTTTTGGAAAAT
1 TAACACTTTTGGAAAAT
15256503 T
1 T
15256504 TTGTGTTTAC
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:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (17 bp):
TAACACTTTTGGAAAAT
Found at i:15258781 original size:44 final size:44
Alignment explanation
Indices: 15258677--15258784 Score: 110
Period size: 44 Copynumber: 2.4 Consensus size: 44
15258667 GATTTCGTAA
** * *
15258677 ATAAAATCTGTCGCTGGGCTATGGGTACACAACAAAAATTTGTAG
1 ATAAAATCTGTCATTGGG-TATGGGTACACAACAAAAATTCGCAG
* * * * *
15258722 ATGAAACCTGCCATTGGGTGTGGGTACGCAAC-AAAATATCGCAG
1 ATAAAATCTGTCATTGGGTATGGGTACACAACAAAAAT-TCGCAG
15258766 ATAAAATCTGTCATTGGGT
1 ATAAAATCTGTCATTGGGT
15258785 TGTAGATGCA
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
43 5 0.10
44 32 0.64
45 13 0.26
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (44 bp):
ATAAAATCTGTCATTGGGTATGGGTACACAACAAAAATTCGCAG
Found at i:15258915 original size:137 final size:137
Alignment explanation
Indices: 15258725--15259024 Score: 381
Period size: 137 Copynumber: 2.2 Consensus size: 137
15258715 TTTGTAGATG
* * * * * * * *
15258725 AAAC-CTGCCATTGGGTGTGGGTACGCAACAAAATATCGCAGATAAAATCTGTCATTGGGTTGTA
1 AAACACTGCCATTGGCTGTGGGTGCACAACAAAATATCGCAAATAAAATCTGTCACTAGGCTATA
* *
15258789 GATGCACACCATATTCGCAAGTAAAAGCTATCGATGGGTTGTGGATATACAACATATTTTCAGTT
66 GATGCACACCATATTCGCAAGTAAAAGCTATCGATGGGTTGTGGATATACAACATATTTGCAATT
15258854 AAAGG-T
131 AAAGGAT
* * *
15258860 TAACACTGCCATTGGATTGTGGGTGCACAACAAAATATTGCAAATAAAAGT-TGTCACTAGGCTA
1 AAACACTGCCATTGG-CTGTGGGTGCACAACAAAATATCGCAAATAAAA-TCTGTCACTAGGCTA
* * * *
15258924 TAGATGCACACCATATTTGCAGGTAAAAGCTATCGATGGGTTGTGGATGTACATCATATTTGCAA
64 TAGATGCACACCATATTCGCAAGTAAAAGCTATCGATGGGTTGTGGATATACAACATATTTGCAA
15258989 TTAAAGGAT
129 TTAAAGGAT
* *
15258998 AAATACTGCCACTGGGCTGTGGGTGCA
1 AAACACTGCCA-TTGGCTGTGGGTGCA
15259025 TAAACAAATT
Statistics
Matches: 140, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
135 3 0.02
136 10 0.07
137 103 0.74
138 21 0.15
139 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (137 bp):
AAACACTGCCATTGGCTGTGGGTGCACAACAAAATATCGCAAATAAAATCTGTCACTAGGCTATA
GATGCACACCATATTCGCAAGTAAAAGCTATCGATGGGTTGTGGATATACAACATATTTGCAATT
AAAGGAT
Found at i:15259242 original size:34 final size:34
Alignment explanation
Indices: 15259164--15259230 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
15259154 GGTAACAATC
*
15259164 AATATGCTTATAACAATTCAACACGGTAGCAAAT
1 AATATGCTTATAACAATTCAACACAGTAGCAAAT
* *
15259198 AATATTCTTATAACAGA-TCAACTCAGTAGCAAA
1 AATATGCTTATAACA-ATTCAACACAGTAGCAAA
15259231 AGTCATGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.27
Consensus pattern (34 bp):
AATATGCTTATAACAATTCAACACAGTAGCAAAT
Found at i:15259855 original size:16 final size:16
Alignment explanation
Indices: 15259830--15259860 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15259820 GATTAAATTT
*
15259830 AATTACTATAATATTA
1 AATTAATATAATATTA
15259846 AATTAATATAATATT
1 AATTAATATAATATT
15259861 TACCAAGATA
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:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTAATATAATATTA
Found at i:15267462 original size:35 final size:34
Alignment explanation
Indices: 15267417--15267532 Score: 117
Period size: 34 Copynumber: 3.4 Consensus size: 34
15267407 ATCACTTAGT
* *
15267417 TATGCTTTTAACAGGACAATACAATAGCATTTAA
1 TATGCTTATAACAGGACAATACAATAGCAATTAA
* ** *
15267451 TTATGCTTTTAAC-GAGACAATATTATAGCAATCAA
1 -TATGCTTATAACAG-GACAATACAATAGCAATTAA
* ** *
15267486 TATGCTTATAAAAGTTCAATACAATAGCAAATAA
1 TATGCTTATAACAGGACAATACAATAGCAATTAA
15267520 TATGCTTATAACA
1 TATGCTTATAACA
15267533 TATCAAATCA
Statistics
Matches: 66, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
34 37 0.56
35 29 0.44
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (34 bp):
TATGCTTATAACAGGACAATACAATAGCAATTAA
Found at i:15267630 original size:5 final size:5
Alignment explanation
Indices: 15267620--15267672 Score: 106
Period size: 5 Copynumber: 10.6 Consensus size: 5
15267610 ACAAACATAG
15267620 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
15267670 ATA
1 ATA
15267673 GATATATGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.21
Consensus pattern (5 bp):
ATACA
Found at i:15268377 original size:37 final size:36
Alignment explanation
Indices: 15268315--15268390 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
15268305 GATAATCACT
*
15268315 TTAATATTAAATTAATAAAATACTATTAAGATAAGTA
1 TTAATATTAAATTAATAAAATACTATTAAAATAA-TA
*
15268352 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAATA
15268388 TTA
1 TTA
15268391 TTTTTGGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 11 0.31
37 22 0.63
38 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:15269125 original size:164 final size:164
Alignment explanation
Indices: 15268854--15269181 Score: 656
Period size: 164 Copynumber: 2.0 Consensus size: 164
15268844 AATTAAGTTT
15268854 TTCAAAAATCACTTATATTTTCCAAATTAATTTTTCAAGAAAATTCTTTAATCAAATTCTCTAGT
1 TTCAAAAATCACTTATATTTTCCAAATTAATTTTTCAAGAAAATTCTTTAATCAAATTCTCTAGT
15268919 TGAAAAATTCTCACGACCACCTAATTTAACTCCACATCGAATAAATCGACTCAATTAAATTATTC
66 TGAAAAATTCTCACGACCACCTAATTTAACTCCACATCGAATAAATCGACTCAATTAAATTATTC
15268984 TCAAAGTCGTAAAATTATCTTCTGATTCAAATAC
131 TCAAAGTCGTAAAATTATCTTCTGATTCAAATAC
15269018 TTCAAAAATCACTTATATTTTCCAAATTAATTTTTCAAGAAAATTCTTTAATCAAATTCTCTAGT
1 TTCAAAAATCACTTATATTTTCCAAATTAATTTTTCAAGAAAATTCTTTAATCAAATTCTCTAGT
15269083 TGAAAAATTCTCACGACCACCTAATTTAACTCCACATCGAATAAATCGACTCAATTAAATTATTC
66 TGAAAAATTCTCACGACCACCTAATTTAACTCCACATCGAATAAATCGACTCAATTAAATTATTC
15269148 TCAAAGTCGTAAAATTATCTTCTGATTCAAATAC
131 TCAAAGTCGTAAAATTATCTTCTGATTCAAATAC
15269182 AGTCCGATTG
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
164 164 1.00
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (164 bp):
TTCAAAAATCACTTATATTTTCCAAATTAATTTTTCAAGAAAATTCTTTAATCAAATTCTCTAGT
TGAAAAATTCTCACGACCACCTAATTTAACTCCACATCGAATAAATCGACTCAATTAAATTATTC
TCAAAGTCGTAAAATTATCTTCTGATTCAAATAC
Found at i:15272221 original size:28 final size:28
Alignment explanation
Indices: 15272178--15272355 Score: 198
Period size: 28 Copynumber: 6.4 Consensus size: 28
15272168 TAAAATTTGT
*
15272178 AAAATAGGAGACAAAATTGTAAAATCTAA
1 AAAATAGG-GGCAAAATTGTAAAATCTAA
* *
15272207 AAAATAGGGGCAAAACTATAAAATCTAA
1 AAAATAGGGGCAAAATTGTAAAATCTAA
*
15272235 AAAATAAGGG-AAAATTGTAAAATCTAA
1 AAAATAGGGGCAAAATTGTAAAATCTAA
* *
15272262 AAAATAGGGGTAAAATTGTATAAA-CTAG
1 AAAATAGGGGCAAAATTGTA-AAATCTAA
* **
15272290 AAAATAGGGGCAAAATTGTAAAATTTTT
1 AAAATAGGGGCAAAATTGTAAAATCTAA
* * * * *
15272318 GAAATAGTGGCAAAACTATAATATCTAA
1 AAAATAGGGGCAAAATTGTAAAATCTAA
15272346 AAAATAGGGG
1 AAAATAGGGG
15272356 ACACACGACC
Statistics
Matches: 124, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
27 27 0.22
28 86 0.69
29 11 0.09
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.23
Consensus pattern (28 bp):
AAAATAGGGGCAAAATTGTAAAATCTAA
Found at i:15272253 original size:55 final size:55
Alignment explanation
Indices: 15272190--15272356 Score: 210
Period size: 55 Copynumber: 3.0 Consensus size: 55
15272180 AATAGGAGAC
*
15272190 AAAATTGTAAAATCTAAAAAATAGGGGCAAAACTATAAAATCTAAAAAATAAGGG
1 AAAATTGTAAAATCTAAAAAATAGGGGCAAAACTATAAAATCTAAAAAATAGGGG
* * * *
15272245 AAAATTGTAAAATCTAAAAAATAGGGGTAAAATTGTATAAA-CTAGAAAATAGGGG
1 AAAATTGTAAAATCTAAAAAATAGGGGCAAAACTATA-AAATCTAAAAAATAGGGG
* *** * *
15272300 CAAAATTGTAAAATTTTTGAAATAGTGGCAAAACTATAATATCTAAAAAATAGGGG
1 -AAAATTGTAAAATCTAAAAAATAGGGGCAAAACTATAAAATCTAAAAAATAGGGG
15272356 A
1 A
15272357 CACACGACCA
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
55 49 0.52
56 45 0.48
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.24
Consensus pattern (55 bp):
AAAATTGTAAAATCTAAAAAATAGGGGCAAAACTATAAAATCTAAAAAATAGGGG
Found at i:15273382 original size:9 final size:9
Alignment explanation
Indices: 15273363--15273461 Score: 64
Period size: 9 Copynumber: 11.1 Consensus size: 9
15273353 TAAAATTTTT
*
15273363 AAAATTTTA
1 AAAATTATA
15273372 AAAATTATA
1 AAAATTATA
15273381 AAAA-TATA
1 AAAATTATA
*
15273389 AAATTGATTTTA
1 AAA---ATTATA
15273401 AAAA-T-TA
1 AAAATTATA
* *
15273408 AAAATCATT
1 AAAATTATA
*
15273417 AAAATTATTT
1 AAAATTA-TA
* *
15273427 AAAATAATG
1 AAAATTATA
15273436 AAAATTAT-
1 AAAATTATA
15273444 AAAATTAT-
1 AAAATTATA
15273452 AAAATTATA
1 AAAATTATA
15273461 A
1 A
15273462 TTTTTAACAT
Statistics
Matches: 74, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
7 6 0.08
8 24 0.32
9 29 0.39
10 8 0.11
11 1 0.01
12 6 0.08
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (9 bp):
AAAATTATA
Found at i:15273400 original size:29 final size:28
Alignment explanation
Indices: 15273366--15273451 Score: 90
Period size: 29 Copynumber: 3.1 Consensus size: 28
15273356 AATTTTTAAA
15273366 ATTTTAAAAATTATAAAAATATAAAATT
1 ATTTTAAAAATTATAAAAATATAAAATT
15273394 GATTTTAAAAA-T-TAAAAATCATTAAAATT
1 -ATTTTAAAAATTATAAAAAT-A-TAAAATT
* *
15273423 A-TTT-AAAATAATGAAAATTATAAAATT
1 ATTTTAAAAATTAT-AAAAATATAAAATT
15273450 AT
1 AT
15273452 AAAATTATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
26 4 0.08
27 18 0.37
28 5 0.10
29 22 0.45
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.38
Consensus pattern (28 bp):
ATTTTAAAAATTATAAAAATATAAAATT
Found at i:15276590 original size:13 final size:13
Alignment explanation
Indices: 15276572--15276601 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15276562 ATAATAAATA
*
15276572 TTTATTTTTTATT
1 TTTATTTTTTAAT
15276585 TTTATTTTTTAAT
1 TTTATTTTTTAAT
15276598 TTTA
1 TTTA
15276602 AAATACTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTTTAAT
Found at i:15276660 original size:26 final size:27
Alignment explanation
Indices: 15276608--15276670 Score: 85
Period size: 26 Copynumber: 2.3 Consensus size: 27
15276598 TTTAAAATAC
15276608 TTTTAAAATAATTTTTTTATTATTTTAT
1 TTTTAAAATAATTTTTTTA-TATTTTAT
15276636 TTTTAAAATAA-TTTTTTA-ATGTTTAT
1 TTTTAAAATAATTTTTTTATAT-TTTAT
*
15276662 TTTAAAAAT
1 TTTTAAAAT
15276671 GGGCTGGGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
25 2 0.06
26 13 0.39
27 7 0.21
28 11 0.33
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTTAAAATAATTTTTTTATATTTTAT
Found at i:15283285 original size:18 final size:18
Alignment explanation
Indices: 15283264--15283308 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
15283254 ACCAATATGT
*
15283264 GGCCCAATACCA-TCCTTC
1 GGCCCAATACCACT-ATTC
*
15283282 GGCCCAACACCACTATTC
1 GGCCCAATACCACTATTC
15283300 GGCCCAATA
1 GGCCCAATA
15283309 GCACCATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.27, C:0.42, G:0.13, T:0.18
Consensus pattern (18 bp):
GGCCCAATACCACTATTC
Found at i:15283556 original size:18 final size:17
Alignment explanation
Indices: 15283533--15283578 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
15283523 AGCATACCAC
*
15283533 TTTTGACCACAATCATAA
1 TTTTGACCACAA-AATAA
15283551 TTTTGACCAGCAAAATAA
1 TTTTGACCA-CAAAATAA
15283569 TTTTGACCAC
1 TTTTGACCAC
15283579 TTCCATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 22 0.85
19 3 0.12
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.33
Consensus pattern (17 bp):
TTTTGACCACAAAATAA
Found at i:15283610 original size:21 final size:21
Alignment explanation
Indices: 15283561--15283615 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
15283551 TTTTGACCAG
15283561 CAAAATAATTTTGACCACTTC
1 CAAAATAATTTTGACCACTTC
** * *
15283582 CATTATAATTTTGACCATTTT
1 CAAAATAATTTTGACCACTTC
15283603 CAAAATAATTTTG
1 CAAAATAATTTTG
15283616 TGAAAGTCAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.42
Consensus pattern (21 bp):
CAAAATAATTTTGACCACTTC
Found at i:15283669 original size:18 final size:17
Alignment explanation
Indices: 15283646--15283691 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
15283636 AGCATACCAC
*
15283646 TTTTGACCACAATCATAA
1 TTTTGACCACAA-AATAA
15283664 TTTTGACCAGCAAAATAA
1 TTTTGACCA-CAAAATAA
15283682 TTTTGACCAC
1 TTTTGACCAC
15283692 TTCCATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 22 0.85
19 3 0.12
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.33
Consensus pattern (17 bp):
TTTTGACCACAAAATAA
Found at i:15283701 original size:113 final size:113
Alignment explanation
Indices: 15283503--15283728 Score: 443
Period size: 113 Copynumber: 2.0 Consensus size: 113
15283493 CTGTTGCTCA
15283503 TGAAAGGCATTAGTCCCATCAGCATACCACTTTTGACCACAATCATAATTTTGACCAGCAAAATA
1 TGAAAGGCATTAGTCCCATCAGCATACCACTTTTGACCACAATCATAATTTTGACCAGCAAAATA
15283568 ATTTTGACCACTTCCATTATAATTTTGACCATTTTCAAAATAATTTTG
66 ATTTTGACCACTTCCATTATAATTTTGACCATTTTCAAAATAATTTTG
*
15283616 TGAAAGTCATTAGTCCCATCAGCATACCACTTTTGACCACAATCATAATTTTGACCAGCAAAATA
1 TGAAAGGCATTAGTCCCATCAGCATACCACTTTTGACCACAATCATAATTTTGACCAGCAAAATA
15283681 ATTTTGACCACTTCCATTATAATTTTGACCATTTTCAAAATAATTTTG
66 ATTTTGACCACTTCCATTATAATTTTGACCATTTTCAAAATAATTTTG
15283729 ACCAGGGTTA
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 112 1.00
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (113 bp):
TGAAAGGCATTAGTCCCATCAGCATACCACTTTTGACCACAATCATAATTTTGACCAGCAAAATA
ATTTTGACCACTTCCATTATAATTTTGACCATTTTCAAAATAATTTTG
Found at i:15283704 original size:21 final size:21
Alignment explanation
Indices: 15283674--15283732 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
15283664 TTTTGACCAG
15283674 CAAAATAATTTTGACCACTTC
1 CAAAATAATTTTGACCACTTC
** * *
15283695 CATTATAATTTTGACCATTTT
1 CAAAATAATTTTGACCACTTC
15283716 CAAAATAATTTTGACCA
1 CAAAATAATTTTGACCA
15283733 GGGTTAGAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.39
Consensus pattern (21 bp):
CAAAATAATTTTGACCACTTC
Found at i:15290401 original size:13 final size:13
Alignment explanation
Indices: 15290379--15290408 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15290369 TTGAAAGCCT
*
15290379 AGAGAGAAGGGGG
1 AGAGAAAAGGGGG
15290392 AGAGAAAAGGGGG
1 AGAGAAAAGGGGG
15290405 AGAG
1 AGAG
15290409 TTTGATTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (13 bp):
AGAGAAAAGGGGG
Found at i:15291503 original size:108 final size:107
Alignment explanation
Indices: 15291237--15291625 Score: 552
Period size: 108 Copynumber: 3.6 Consensus size: 107
15291227 AAGAAATTTT
* * * * * *
15291237 TTTCTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACATGCTAGGTTT
1 TTTCAAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTT
15291302 CGATTACTCGTTTGGCCAAATAGCCAAATATCCTTTTTAAAC
66 CGATTACTCGTTTGGCCAAATAGCCAAATATCCTTTTTAAAC
* * *
15291344 TTTTAAAATAAGGCAATATTTCACGTTTGGAAAATCGAGGAAACGTACCCTAACGTGCTGGGTTT
1 TTTCAAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTT
*
15291409 CGATTATTCGTTTGGCCAAATAGCCAAATATCCTTTTTTAAAC
66 CGATTACTCGTTTGGCCAAATAGCCAAATATCC-TTTTTAAAC
* *
15291452 TTTCAAAATAAGGCAATGTTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTTT
1 TTTCAAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTT
* * *
15291517 CGACTT-CTCGTTTGACCATATAGCCAAATATCC-TTTTAAAT
66 CGA-TTACTCGTTTGGCCAAATAGCCAAATATCCTTTTTAAAC
* * * *
15291558 TTTCAAAGTGAGGCAATATTT-GTGTTTGGAAATTCGA-GAGAACGTGCCCTAACGTGCTGGGTT
1 TTTCAAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGA-AACGTGCCCTAACGTGCTGGGTT
15291621 TCGAT
65 TCGAT
15291626 GTCTCATCCG
Statistics
Matches: 254, Mismatches: 25, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
104 3 0.01
105 40 0.16
106 25 0.10
107 88 0.35
108 96 0.38
109 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (107 bp):
TTTCAAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTT
CGATTACTCGTTTGGCCAAATAGCCAAATATCCTTTTTAAAC
Found at i:15302882 original size:24 final size:24
Alignment explanation
Indices: 15302850--15302905 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
15302840 ATGTCCCAAA
15302850 ATTACAGTGGACTT-AACCTTGAAG
1 ATTACAGTGGA-TTGAACCTTGAAG
*
15302874 ATTACAGTGGATTGAACTTTGAAG
1 ATTACAGTGGATTGAACCTTGAAG
15302898 ATTACAGT
1 ATTACAGT
15302906 AGGGGAAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 2 0.07
24 28 0.93
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.32
Consensus pattern (24 bp):
ATTACAGTGGATTGAACCTTGAAG
Found at i:15303294 original size:44 final size:44
Alignment explanation
Indices: 15303226--15303603 Score: 368
Period size: 44 Copynumber: 8.6 Consensus size: 44
15303216 TATCCAGTCC
* *
15303226 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* * * *
15303270 TATCCCCCTAAGCAGTAGTGGAGCACATCCAAGACGG-TGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAG-ATCT
* * ** * *** *
15303314 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-TCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* * * *
15303357 TATCTCCCTAAGCAGTAGTGGAGCAGGTTAAAGATGGAAGATAT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* * *
15303401 TATCTCCCTAAGCAGTAGTGGAGCACATCCAAGACGG-TGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAG-ATCT
* * ** * *** *
15303445 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-TCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* * *
15303488 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAAATGGAAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
* * * *
15303532 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
15303576 TATCTCCCTAAGCAGTAGTGGAGCAGAT
1 TATCTCCCTAAGCAGTAGTGGAGCAGAT
15303604 AGGATCAATC
Statistics
Matches: 266, Mismatches: 62, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
43 66 0.25
44 198 0.74
45 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAGATCT
Found at i:15303453 original size:131 final size:131
Alignment explanation
Indices: 15303219--15303603 Score: 664
Period size: 131 Copynumber: 2.9 Consensus size: 131
15303209 GTCATCTTAT
*
15303219 CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCCCCCTAAGCA
1 CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGCA
15303284 GTAGTGGAGCACATCCAAGACGGTGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCC
66 GTAGTGGAGCACATCCAAGACGGTGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCC
15303349 A
131 A
* *
15303350 CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTTAAAGATGGAAGATATTATCTCCCTAAGCA
1 CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGCA
15303415 GTAGTGGAGCACATCCAAGACGGTGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCC
66 GTAGTGGAGCACATCCAAGACGGTGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCC
15303480 A
131 A
*
15303481 CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAAATGGAAGATCTTATCTCCCTAAGCA
1 CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGCA
* * * * * *
15303546 GTAGTGGAGCAGATCGAAGATGGT-AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGAT
66 GTAGTGGAGCACATCCAAGACGGTGA-ATCTTATCTTCCTAAGCAGTAGTGAAGCAGAT
15303604 AGGATCAATC
Statistics
Matches: 241, Mismatches: 12, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
130 1 0.00
131 240 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (131 bp):
CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCTCCCTAAGCA
GTAGTGGAGCACATCCAAGACGGTGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCC
A
Found at i:15303497 original size:87 final size:88
Alignment explanation
Indices: 15303219--15303600 Score: 279
Period size: 87 Copynumber: 4.4 Consensus size: 88
15303209 GTCATCTTAT
** * * *
15303219 CCAG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGAAGATCTTATCCCCCTAAGC
1 CCAGATCCTATCTCCCTAAGCAGTAGTGGAGCACATCAAAAACGGAAGATCTTATCTCCCTAAGC
* * *
15303283 AGTAGTGGAGCACATCCAAGAC-
66 AGTAGTGAAGCAGATCGAAGACA
*** * * * * ** ** *** *
15303305 GGTGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-TCCTATCTCCCTAAG
1 CCAG-ATCCTATCTCCCTAAGCAGTAGTGGAGCACATCAAAAACGGAAGATCTTATCTCCCTAAG
* * ** **
15303369 CAGTAGTGGAGCAGGTTAAAGATG
65 CAGTAGTGAAGCAGATCGAAGACA
** ** * * * *
15303393 GAAGATATTATCTCCCTAAGCAGTAGTGGAGCACATCCAAGACGG-TGAATCTTATCTTCCTAAG
1 CCAGATCCTATCTCCCTAAGCAGTAGTGGAGCACATCAAAAACGGAAG-ATCTTATCTCCCTAAG
** *
15303457 CAGTAGTGAAGCAGATTTAAGCCA
65 CAGTAGTGAAGCAGATCGAAGACA
** *
15303481 CCAG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAAATGGAAGATCTTATCTCCCTAAGC
1 CCAGATCCTATCTCCCTAAGCAGTAGTGGAGCACATCAAAAACGGAAGATCTTATCTCCCTAAGC
* **
15303545 AGTAGTGGAGCAGATCGAAGATG
66 AGTAGTGAAGCAGATCGAAGACA
**
15303568 GTAGATCCTATCTCCCTAAGCAGTAGTGGAGCA
1 CCAGATCCTATCTCCCTAAGCAGTAGTGGAGCA
15303601 GATAGGATCA
Statistics
Matches: 229, Mismatches: 60, Indels: 12
0.76 0.20 0.04
Matches are distributed among these distances:
86 2 0.01
87 131 0.57
88 96 0.42
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.23
Consensus pattern (88 bp):
CCAGATCCTATCTCCCTAAGCAGTAGTGGAGCACATCAAAAACGGAAGATCTTATCTCCCTAAGC
AGTAGTGAAGCAGATCGAAGACA
Found at i:15305750 original size:108 final size:104
Alignment explanation
Indices: 15305554--15305878 Score: 422
Period size: 108 Copynumber: 3.1 Consensus size: 104
15305544 AAGAAATTTT
* * *
15305554 TTTCTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTT
1 TTTCAAAATAAGGCAATA-TTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAACGTGATGGGTTT
*
15305619 CGATTACTCGTTTGGCCAAATAGCCAAATATCCTTTCTTAAA
65 CGATT-CTCGTTTGACCAAATAGCCAAATATCC-TTCTTAAA
* *
15305661 CTTTCAAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTT
1 -TTTCAAAATAAGGCAATATTT-GCGTTTGGAAATTCGAGGAAACGTGCCCTAACGTGATGGGTT
*
15305726 TCGACTTCTCGTTTGACCATATAGCCAAATATCCTT-TTAAAA
64 TCGA-TTCTCGTTTGACCAAATAGCCAAATATCCTTCTT-AAA
* * *
15305768 TTTCAAAGTGAGGCAATATTTGTGTTTGGAAATTCGA-GAGAACGTGCCCTAACGTGATGGGTTT
1 TTTCAAAATAAGGCAATATTTGCGTTTGGAAATTCGAGGA-AACGTGCCCTAACGTGATGGGTTT
** *
15305832 CGATGTCTCGTCCGACTAAATAGCCAAATATTCC-TCTTAAA
65 CGAT-TCTCGTTTGACCAAATAGCCAAATA-TCCTTCTTAAA
15305873 TTTCAA
1 TTTCAA
15305879 TCCATGTCAT
Statistics
Matches: 195, Mismatches: 15, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
104 3 0.02
105 71 0.36
106 26 0.13
107 8 0.04
108 85 0.44
109 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (104 bp):
TTTCAAAATAAGGCAATATTTGCGTTTGGAAATTCGAGGAAACGTGCCCTAACGTGATGGGTTTC
GATTCTCGTTTGACCAAATAGCCAAATATCCTTCTTAAA
Found at i:15312993 original size:22 final size:23
Alignment explanation
Indices: 15312951--15312993 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
15312941 TAAATACAAT
*
15312951 ATTTAATAAATTTGAAAAGGTAG
1 ATTTAATAAATTTAAAAAGGTAG
15312974 ATTT-ATAAA-TTAAAATAGGT
1 ATTTAATAAATTTAAAA-AGGT
15312994 GCATTAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 5 0.28
22 9 0.50
23 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (23 bp):
ATTTAATAAATTTAAAAAGGTAG
Found at i:15314514 original size:17 final size:18
Alignment explanation
Indices: 15314477--15314517 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
15314467 ATCATGCTAT
15314477 TTTTAAATAATTCTAAAA
1 TTTTAAATAATTCTAAAA
*
15314495 TTTTAAATAATT-TTAAA
1 TTTTAAATAATTCTAAAA
15314512 TTTTAA
1 TTTTAA
15314518 TTAAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTAAATAATTCTAAAA
Found at i:15316296 original size:39 final size:39
Alignment explanation
Indices: 15316252--15316337 Score: 104
Period size: 39 Copynumber: 2.2 Consensus size: 39
15316242 ACATATCTAT
* *
15316252 ATTCATATAAATATTTTGCATA-AACACTTCA-TATAACC
1 ATTCATATAAATATTTT-CATATAAAAATTCAGTATAACC
* *
15316290 ATTTCATATATATATTTTCATATAAAAATTCAGTATATCC
1 A-TTCATATAAATATTTTCATATAAAAATTCAGTATAACC
15316330 ATTCATAT
1 ATTCATAT
15316338 TACCATTTCC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
38 5 0.12
39 29 0.71
40 7 0.17
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.42
Consensus pattern (39 bp):
ATTCATATAAATATTTTCATATAAAAATTCAGTATAACC
Found at i:15316473 original size:25 final size:25
Alignment explanation
Indices: 15316405--15316474 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
15316395 ACGTAGGAAC
*
15316405 AATGCTCACACAAGTTGTGACGGTA
1 AATGCTCACACAAGTTGTGACGATA
* * *
15316430 AATGCTCAGACAAGCTGTGACTATA
1 AATGCTCACACAAGTTGTGACGATA
**
15316455 AATGCTCACATGAGTTGTGA
1 AATGCTCACACAAGTTGTGA
15316475 AATGGGCCTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (25 bp):
AATGCTCACACAAGTTGTGACGATA
Found at i:15325601 original size:21 final size:21
Alignment explanation
Indices: 15325572--15325615 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
15325562 ACACCAAAAC
*
15325572 AGGCTTTTAGCGGCGTTTTTT
1 AGGCCTTTAGCGGCGTTTTTT
15325593 AGGCCTTTAGCGGCGTTTTTT
1 AGGCCTTTAGCGGCGTTTTTT
15325614 AG
1 AG
15325616 CGCCGCAAAT
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:0.11, C:0.16, G:0.30, T:0.43
Consensus pattern (21 bp):
AGGCCTTTAGCGGCGTTTTTT
Found at i:15325858 original size:43 final size:41
Alignment explanation
Indices: 15325757--15325942 Score: 108
Period size: 43 Copynumber: 4.4 Consensus size: 41
15325747 GCGCTTTACA
* *
15325757 ACAAACGACGCTAAAGATCAAGGTCTTTAGCGACGTTTTCG
1 ACAAACGCCGCTAAAGATCAAGGTCTTTAGCGACGTTTTCC
* * *
15325798 ATAAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCAC-TTTTCCC
1 ACAAA-CGCCGCTAAAGATCAAGGTCTTTAGC-G-ACGTTTT-CC
* * * * * **
15325842 ACAAACGCCGCAAAAGACCCTAA--TCTATAACGGCGCTTCCACC
1 ACAAACGCCGCTAAAGA-TC-AAGGTCTTTAGCGACG-TT-TTCC
* * ** *
15325885 ACAAACGCCACTAAAGAACCTGGTCTTTAGCGGCGCTTTCTCC
1 ACAAACGCCGCTAAAGATCAAGGTCTTTAGCGACG-TTT-TCC
15325928 ACAAACGCCGCTAAA
1 ACAAACGCCGCTAAA
15325943 TACCCTTATC
Statistics
Matches: 108, Mismatches: 25, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
41 5 0.05
42 25 0.23
43 70 0.65
44 7 0.06
45 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.21
Consensus pattern (41 bp):
ACAAACGCCGCTAAAGATCAAGGTCTTTAGCGACGTTTTCC
Found at i:15325955 original size:43 final size:43
Alignment explanation
Indices: 15325822--15325967 Score: 150
Period size: 43 Copynumber: 3.4 Consensus size: 43
15325812 AAGATTAGGG
* *
15325822 TCTTTAGCGGCACTTT-TCCCACAAACGCCGCAAAAGACCCTAA
1 TCTTTAGCGGCGCTTTCT-CCACAAACGCCGCTAAAGACCCTAA
* * * * * * **
15325865 TCTATAACGGCGCTTCCACCACAAACGCCACTAAAGAACCTGG
1 TCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGACCCTAA
* *
15325908 TCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAATACCCTTA
1 TCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGACCCTAA
*
15325951 TCTTTTAGCGGTGCTTT
1 TC-TTTAGCGGCGCTTT
15325968 TTGTCGTAAA
Statistics
Matches: 81, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
43 68 0.84
44 13 0.16
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (43 bp):
TCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGACCCTAA
Found at i:15326367 original size:21 final size:21
Alignment explanation
Indices: 15326338--15326414 Score: 118
Period size: 21 Copynumber: 3.7 Consensus size: 21
15326328 TTTTATGCTG
15326338 CTCTGCTTCCCTCACTGCAGC
1 CTCTGCTTCCCTCACTGCAGC
* * *
15326359 CTCTACTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCACTGCAGC
15326380 CTCTGCTTCCCTCACTGCAGC
1 CTCTGCTTCCCTCACTGCAGC
*
15326401 CTCTGCTTCTCTCA
1 CTCTGCTTCCCTCA
15326415 TTGCCGCATC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.09, C:0.45, G:0.13, T:0.32
Consensus pattern (21 bp):
CTCTGCTTCCCTCACTGCAGC
Found at i:15326426 original size:21 final size:21
Alignment explanation
Indices: 15326339--15326426 Score: 95
Period size: 21 Copynumber: 4.2 Consensus size: 21
15326329 TTTATGCTGC
*
15326339 TCTGCTTCCCTCACTGCAGCC
1 TCTGCTTCCCTCACTGCAGCA
* * * *
15326360 TCTACTTCCCTCGCTGTAGCC
1 TCTGCTTCCCTCACTGCAGCA
*
15326381 TCTGCTTCCCTCACTGCAGCC
1 TCTGCTTCCCTCACTGCAGCA
* * *
15326402 TCTGCTTCTCTCATTGCCGCA
1 TCTGCTTCCCTCACTGCAGCA
15326423 TCTG
1 TCTG
15326427 GTTTAAGCTG
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.09, C:0.43, G:0.15, T:0.33
Consensus pattern (21 bp):
TCTGCTTCCCTCACTGCAGCA
Found at i:15326511 original size:66 final size:66
Alignment explanation
Indices: 15326420--15326553 Score: 200
Period size: 66 Copynumber: 2.0 Consensus size: 66
15326410 TCTCATTGCC
* * *
15326420 GCATCTGGTTTAAGCTGCTGCTGGAGTTCTTCATA-CTTTCGTTGAACCTTAGCTTCTCTCGCTG
1 GCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATATCTTT-GTTGAACCTCAGCTTCTCTCGATG
15326484 TT
65 TT
*
15326486 GCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTTTTTGAACCTCAGCTTCTCTCGATG
1 GCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATATCTTTGTTGAACCTCAGCTTCTCTCGATG
15326550 TT
65 TT
15326552 GC
1 GC
15326554 CCCCGCTTTA
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
65 1 0.02
66 57 0.92
67 4 0.06
ACGTcount: A:0.15, C:0.24, G:0.20, T:0.41
Consensus pattern (66 bp):
GCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATATCTTTGTTGAACCTCAGCTTCTCTCGATGT
T
Found at i:15329390 original size:451 final size:450
Alignment explanation
Indices: 15328248--15329596 Score: 2290
Period size: 450 Copynumber: 3.0 Consensus size: 450
15328238 ATTGCTTCCA
* ** *
15328248 TAATTACCAAAATTAAATTCTGAAACAGCAATGTTTTAAGAACCTTAAATATATATTTGCGGCGT
1 TAATTGCCAAAATTAAATTCTGAAACAGCACCGTTTTAAGAACCTTCAATATATATTTGCGGC-T
** *
15328313 TTTTAGCAAAAACGCCACTAAAAATTAACTTACTGAATTCAAACGGTGCCATTTTAAGAAACTTT
65 TTTTAGCAAAAACGCCACTAAAAATTAACTTACTGAATAGAAACGGTGCCGTTTTAAGAAACTTT
*
15328378 AATCCATAGTTCCAGCGTTTTCCCGAAAAACGCCACTAAAATTTCAAGTCCTGAAGAGAAACGGT
130 AATCCATAGTTCCGGCGTTTTCCCGAAAAACGCCACTAAAATTTCAAGTCCTGAAGAGAAACGGT
*
15328443 GACGTTTTGAAAAACATTAATACATCATTGCGGCGTTTTTAGCATAAAAGCCACTAATAGATTAC
195 GACGTTTTGAAAAACATTAATACATCATTGCGGCGTTTTTAGCATAAACGCCACTAATAGATTAC
* *
15328508 ACTCATCTTCTGAAACGGTGTCGTTTTGAGAAATTATAATACATATTTATGGCGTTTTCCCAAAA
260 ACTCCTCTTCTGAAACGGTGCCGTTTTGAGAAATTATAATACATATTTATGGCGTTTTCCCAAAA
* *
15328573 AACGCCACAAATTAAATTAAATTTCTAAATAGATACGACGCCGTTTTGAAAAAAATGGGAACATA
325 AACGCCACAAATTAAATTAAATTTCTAAATGGATACGACGCCGTTTTGAAAAAAATGGGTACATA
** *
15328638 GTTGCGGTGTTT-TTCCCAAACGCCGCTAATGTTTTTTTTTCCTTATAATGTGGTCCTACG
390 GTTGCGGCATTTCTACCCAAACGCCGCTAATGTTTTTTTTTCCTTATAATGTGGTCCTACG
*
15328698 TAATTGCCAAAATTAAATTCTGAAACAGCACCGTTTTAAGAACCTTCAATATATATTTGCGGCGT
1 TAATTGCCAAAATTAAATTCTGAAACAGCACCGTTTTAAGAACCTTCAATATATATTTGCGGCTT
*
15328763 TTTACGCAAAAACGCCACTAAGAATTAACTTACTGAATAGAAACGGTGCCGTTTTAAGAAACTTT
66 TTTA-GCAAAAACGCCACTAAAAATTAACTTACTGAATAGAAACGGTGCCGTTTTAAGAAACTTT
***
15328828 AATCCATAGTTCCGATATTTTCCCGAAAAACGCCACTAAAATTTCAAGTCCTGAAGAGAAACGGT
130 AATCCATAGTTCCGGCGTTTTCCCGAAAAACGCCACTAAAATTTCAAGTCCTGAAGAGAAACGGT
15328893 GACGTTTTGAAAAACATTAATACATCATTGCGGCGTTTTTAGCATAAACGCCACTAATAGATTAC
195 GACGTTTTGAAAAACATTAATACATCATTGCGGCGTTTTTAGCATAAACGCCACTAATAGATTAC
*
15328958 ACTCCTCTTCTGAAACGGTGCCGCTTTGAGAAATTATAATACATATTTATGGCGTTTTCCCAAAA
260 ACTCCTCTTCTGAAACGGTGCCGTTTTGAGAAATTATAATACATATTTATGGCGTTTTCCCAAAA
15329023 AACGCCACAAATTAAATTAAATTTCTAAATGGATACGACGCCGTTTTGAAAAAAATGGGTACATA
325 AACGCCACAAATTAAATTAAATTTCTAAATGGATACGACGCCGTTTTGAAAAAAATGGGTACATA
* * *
15329088 GTTGCGGCATTTCTACCCAAATGCCGTTAATGTTTTTTTTTCCTTATAATGTGGTCCTGCG
390 GTTGCGGCATTTCTACCCAAACGCCGCTAATGTTTTTTTTTCCTTATAATGTGGTCCTACG
*
15329149 TAATTGCCAAAATTAAATTCTGAAACAGCACCGTTTTAAGAACCTTCAATATATAGTTGCGGCAT
1 TAATTGCCAAAATTAAATTCTGAAACAGCACCGTTTTAAGAACCTTCAATATATATTTGCGGC-T
*
15329214 TTTTAGCAAAAACGCCACTAAAAATTAACTTACTGAAAAGAAACGGTGCCGTTTTAAGAAACTTT
65 TTTTAGCAAAAACGCCACTAAAAATTAACTTACTGAATAGAAACGGTGCCGTTTTAAGAAACTTT
* * * * *
15329279 AATCCATATTTCCGGCGTTTTCCTGAAAAACGCCACTAAAATGTCAAGTCCTGGAGTGAAACGGT
130 AATCCATAGTTCCGGCGTTTTCCCGAAAAACGCCACTAAAATTTCAAGTCCTGAAGAGAAACGGT
* * * *
15329344 GACGTTTTGAAAAATATTAATACATCCTTGCGACGTTTCTAGCATAAACGCCACTAATAGATTAC
195 GACGTTTTGAAAAACATTAATACATCATTGCGGCGTTTTTAGCATAAACGCCACTAATAGATTAC
*
15329409 ACTCCTCTTCTGAAACGG-GCCGTTTTGATAAATTATAATACATATTTATGGCGTTTTCCCAAAA
260 ACTCCTCTTCTGAAACGGTGCCGTTTTGAGAAATTATAATACATATTTATGGCGTTTTCCCAAAA
* *
15329473 AACGCCACAAATTAAATTAAATTTCTAAATGGATACGACGCCGTTCTCAAAAAAATGGGTACATA
325 AACGCCACAAATTAAATTAAATTTCTAAATGGATACGACGCCGTTTTGAAAAAAATGGGTACATA
15329538 GTTGCGGCATTTCTACCCAAACGCCGCTAATGTTTTTTATTT-CTTATAATGTGGTCCTA
390 GTTGCGGCATTTCTACCCAAACGCCGCTAATGTTTTTT-TTTCCTTATAATGTGGTCCTA
15329597 TATATCCAAA
Statistics
Matches: 847, Mismatches: 48, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
449 5 0.01
450 534 0.63
451 303 0.36
452 5 0.01
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (450 bp):
TAATTGCCAAAATTAAATTCTGAAACAGCACCGTTTTAAGAACCTTCAATATATATTTGCGGCTT
TTTAGCAAAAACGCCACTAAAAATTAACTTACTGAATAGAAACGGTGCCGTTTTAAGAAACTTTA
ATCCATAGTTCCGGCGTTTTCCCGAAAAACGCCACTAAAATTTCAAGTCCTGAAGAGAAACGGTG
ACGTTTTGAAAAACATTAATACATCATTGCGGCGTTTTTAGCATAAACGCCACTAATAGATTACA
CTCCTCTTCTGAAACGGTGCCGTTTTGAGAAATTATAATACATATTTATGGCGTTTTCCCAAAAA
ACGCCACAAATTAAATTAAATTTCTAAATGGATACGACGCCGTTTTGAAAAAAATGGGTACATAG
TTGCGGCATTTCTACCCAAACGCCGCTAATGTTTTTTTTTCCTTATAATGTGGTCCTACG
Found at i:15329953 original size:21 final size:20
Alignment explanation
Indices: 15329929--15329969 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
15329919 TCTAACCCCT
*
15329929 AACCCTTAAACCTTAAATCCC
1 AACCCTTAAACCAT-AATCCC
15329950 AACCCTTAAACCATAATCCC
1 AACCCTTAAACCATAATCCC
15329970 TAGTCCCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (20 bp):
AACCCTTAAACCATAATCCC
Found at i:15330058 original size:7 final size:7
Alignment explanation
Indices: 15330048--15330077 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
15330038 TTAAATTAAT
15330048 ACCCTAA
1 ACCCTAA
15330055 ACCCTAA
1 ACCCTAA
15330062 ACCCTAA
1 ACCCTAA
*
15330069 ACTCTAA
1 ACCCTAA
15330076 AC
1 AC
15330078 AAATTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (7 bp):
ACCCTAA
Found at i:15330986 original size:41 final size:42
Alignment explanation
Indices: 15330913--15331069 Score: 155
Period size: 41 Copynumber: 3.8 Consensus size: 42
15330903 TAAAATGTTC
* *
15330913 TTAGCGGCGCTT-TTCCAGAAAACGCCGCTAAAGACCCCAGTA
1 TTAGCGGCGCTTATTACAGAAAACGCCGCTAAAG-CCCCAGAA
* *
15330955 TTAGCGGCGCTT-TTACA-AAAACGCCGTTAAAGCCCATAGAA
1 TTAGCGGCGCTTATTACAGAAAACGCCGCTAAAGCCC-CAGAA
* *
15330996 TTAGCGGCGCTTATT-CA-AAAACGCCGCTAAAGCCTACAGCA
1 TTAGCGGCGCTTATTACAGAAAACGCCGCTAAAGCC-CCAGAA
* * * *
15331037 TTAACGACGCTTCTTA-ATAAAACGCCGCTAAAG
1 TTAGCGGCGCTTATTACAGAAAACGCCGCTAAAG
15331070 ACCCGAAAGG
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
40 3 0.03
41 63 0.64
42 33 0.33
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.21
Consensus pattern (42 bp):
TTAGCGGCGCTTATTACAGAAAACGCCGCTAAAGCCCCAGAA
Found at i:15331062 original size:83 final size:83
Alignment explanation
Indices: 15330913--15331069 Score: 205
Period size: 83 Copynumber: 1.9 Consensus size: 83
15330903 TAAAATGTTC
* * * *
15330913 TTAGCGGCGCTTTTCCAGAAAACGCCGCTAAAGACCCCAGTATTAGCGGCGCTTTTACAAAAACG
1 TTAGCGGCGCTTTTCCAGAAAACGCCGCTAAAGACCACAGCATTAACGACGCTTTTACAAAAACG
*
15330978 CCGTTAAAGCCCATAGAA
66 CCGCTAAAGCCCATAGAA
15330996 TTAGCGGCGCTTATT-CA-AAAACGCCGCTAAAG-CCTACAGCATTAACGACGCTTCTTA-ATAA
1 TTAGCGGCGCTT-TTCCAGAAAACGCCGCTAAAGACC-ACAGCATTAACGACGCTT-TTACA-AA
15331057 AACGCCGCTAAAG
62 AACGCCGCTAAAG
15331070 ACCCGAAAGG
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
81 2 0.03
82 30 0.46
83 31 0.48
84 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.21
Consensus pattern (83 bp):
TTAGCGGCGCTTTTCCAGAAAACGCCGCTAAAGACCACAGCATTAACGACGCTTTTACAAAAACG
CCGCTAAAGCCCATAGAA
Found at i:15336314 original size:42 final size:42
Alignment explanation
Indices: 15336255--15336366 Score: 154
Period size: 42 Copynumber: 2.7 Consensus size: 42
15336245 ATGAGTTTCT
15336255 ATTTAACCC-TAGTGGGTTTCCGTTTAGCTCTTTTGAGCTACA
1 ATTTAACCCTTA-TGGGTTTCCGTTTAGCTCTTTTGAGCTACA
* * * *
15336297 ATTTAACCCTTATGGGTTTTCGTTCAGCTCTTTTGAGCTTCC
1 ATTTAACCCTTATGGGTTTCCGTTTAGCTCTTTTGAGCTACA
* *
15336339 ATTCAACCCTTATGGGTTTCTGTTTAGC
1 ATTTAACCCTTATGGGTTTCCGTTTAGC
15336367 ACTTATGTGC
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 59 0.97
43 2 0.03
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.43
Consensus pattern (42 bp):
ATTTAACCCTTATGGGTTTCCGTTTAGCTCTTTTGAGCTACA
Found at i:15340335 original size:84 final size:84
Alignment explanation
Indices: 15340221--15340375 Score: 224
Period size: 84 Copynumber: 1.8 Consensus size: 84
15340211 ATGTCAGGTA
* * *
15340221 AGGCGTGTAGGTTTTGAGCCAGGCCATGTGGGCCACA-TGAGCAAGGCCAATCTGGGCGTGTA-A
1 AGGCGTGTAGGTTTTGAGCCAGACCATGTGGGCCACACAG-GCAAAGCCAATCTGGGCGTGTAGA
15340284 GCCCACACGGGCATGCCACAT
65 -CCCACACGGGCATGCCACAT
* * *
15340305 AGGCGTGTGGGTTTTGGGCCAGACCGTGTGGGCCACACAGGCAAAGCCAATCTGGGCGTGTAGAC
1 AGGCGTGTAGGTTTTGAGCCAGACCATGTGGGCCACACAGGCAAAGCCAATCTGGGCGTGTAGAC
15340370 CCACAC
66 CCACAC
15340376 AAACATGTAG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
84 61 0.97
85 2 0.03
ACGTcount: A:0.22, C:0.26, G:0.34, T:0.17
Consensus pattern (84 bp):
AGGCGTGTAGGTTTTGAGCCAGACCATGTGGGCCACACAGGCAAAGCCAATCTGGGCGTGTAGAC
CCACACGGGCATGCCACAT
Found at i:15341070 original size:20 final size:20
Alignment explanation
Indices: 15341034--15341071 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15341024 TCGTAAACTG
*
15341034 TTTAAGATTATGGTTATTAT
1 TTTAAGATTAAGGTTATTAT
15341054 TTTAA-ATTAAGGATTATT
1 TTTAAGATTAAGG-TTATT
15341072 TTTGGGAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (20 bp):
TTTAAGATTAAGGTTATTAT
Found at i:15346222 original size:21 final size:21
Alignment explanation
Indices: 15346196--15346240 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
15346186 CCACAACAAA
15346196 GCAACGTTAGATAAATACATC
1 GCAACGTTAGATAAATACATC
15346217 GCAACGTTAGATAAATACATC
1 GCAACGTTAGATAAATACATC
15346238 GCA
1 GCA
15346241 GCAATAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (21 bp):
GCAACGTTAGATAAATACATC
Found at i:15349322 original size:20 final size:19
Alignment explanation
Indices: 15349297--15349342 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
15349287 TTTATTAATA
15349297 ATAAATCATAAATAAAATTT
1 ATAAAT-ATAAATAAAATTT
*
15349317 ATAAATTTAAATAAAATTT
1 ATAAATATAAATAAAATTT
15349336 ATAAATA
1 ATAAATA
15349343 ATTTATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAAATATAAATAAAATTT
Found at i:15349622 original size:3 final size:3
Alignment explanation
Indices: 15349616--15349648 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
15349606 TGTTGTTGTG
15349616 TAA TAA TAA TAA TAA TAA TAA TAA TAA TTAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TA
15349649 TGATTGTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:15361391 original size:20 final size:20
Alignment explanation
Indices: 15361357--15361394 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15361347 TTAAAGATAA
**
15361357 AAAATGTATGTATATCATAG
1 AAAATGTATAAATATCATAG
15361377 AAAATGTATAAATATCAT
1 AAAATGTATAAATATCAT
15361395 GCAATGTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (20 bp):
AAAATGTATAAATATCATAG
Found at i:15361448 original size:23 final size:22
Alignment explanation
Indices: 15361401--15361456 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
15361391 TCATGCAATG
*
15361401 TATATACTATAAAATAACATGAA
1 TATATA-TATAAAATAAAATGAA
*
15361424 TATATATATAATATAAAATGTAA
1 TATATATATAAAATAAAATG-AA
*
15361447 TATACATATA
1 TATATATATA
15361457 TTGTAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 12 0.41
23 17 0.59
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (22 bp):
TATATATATAAAATAAAATGAA
Found at i:15361455 original size:25 final size:24
Alignment explanation
Indices: 15361397--15361457 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 24
15361387 AATATCATGC
15361397 AATGT-ATATAC-TATA-AAATAA
1 AATGTAATATACATATATAAATAA
*
15361418 CATG-AATAT--ATATATAATATAA
1 AATGTAATATACATATATAA-ATAA
15361440 AATGTAATATACATATAT
1 AATGTAATATACATATAT
15361458 TGTAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
20 4 0.13
21 9 0.29
22 7 0.23
23 5 0.16
25 6 0.19
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (24 bp):
AATGTAATATACATATATAAATAA
Found at i:15362123 original size:17 final size:18
Alignment explanation
Indices: 15362098--15362143 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
15362088 TATTTTTAAC
*
15362098 AAAATAAAATGAAAA-AT
1 AAAAAAAAATGAAAACAT
*
15362115 AAAAGAAAAT-AAAACAT
1 AAAAAAAAATGAAAACAT
15362132 ATAAAAAAAATG
1 A-AAAAAAAATG
15362144 GATACTGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 4 0.17
17 12 0.50
18 8 0.33
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (18 bp):
AAAAAAAAATGAAAACAT
Found at i:15366931 original size:11 final size:11
Alignment explanation
Indices: 15366910--15366942 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
15366900 AAACACATTA
15366910 TTTTC-TTTTT
1 TTTTCTTTTTT
15366920 TTTTCTTTTTT
1 TTTTCTTTTTT
15366931 TTTTCCTTTTTT
1 TTTT-CTTTTTT
15366943 GGGTAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 5 0.24
11 9 0.43
12 7 0.33
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:15370972 original size:23 final size:22
Alignment explanation
Indices: 15370864--15370971 Score: 123
Period size: 23 Copynumber: 5.0 Consensus size: 22
15370854 CTGATCAGTA
15370864 TACGACACAT-AAGTGCCTGA-
1 TACGACACATAAAGTGCCTGAG
* ** *
15370884 AACGACACACGAGGTGCCT-AG
1 TACGACACATAAAGTGCCTGAG
*
15370905 TACGACACATAAAGAGCCTGAG
1 TACGACACATAAAGTGCCTGAG
*
15370927 ATACGACACATAAAGTGTCTGATG
1 -TACGACACATAAAGTGCCTGA-G
15370951 TACGACACATAAAGTGCCTGA
1 TACGACACATAAAGTGCCTGA
15370972 TCGGCAAAGC
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
20 9 0.12
21 21 0.29
22 2 0.03
23 39 0.54
24 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (22 bp):
TACGACACATAAAGTGCCTGAG
Found at i:15382565 original size:5 final size:5
Alignment explanation
Indices: 15382557--15382584 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
15382547 ATAAAAATAA
15382557 AAATC AAATC AAATC AAATC AAATC AAA
1 AAATC AAATC AAATC AAATC AAATC AAA
15382585 GAATATCCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.18, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATC
Found at i:15387937 original size:61 final size:59
Alignment explanation
Indices: 15387813--15387945 Score: 139
Period size: 61 Copynumber: 2.2 Consensus size: 59
15387803 TTCATATTAT
* * * * *
15387813 AATAATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTGTATTTAATC
1 AATAATTATATTAAGAATATGATTAAATTATATATTATTTTATGAAAATATATTTAATC
*
15387872 -ATAATTATGTTAA-AATATGATTAAATTATTTAATATTATTTTTATGAAAATATATTTAA-C
1 AATAATTATATTAAGAATATGATTAAATTA--T-ATATTA-TTTTATGAAAATATATTTAATC
15387932 AATAATCT-TATTAA
1 AATAAT-TATATTAA
15387946 AATTTAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
57 13 0.21
58 12 0.20
59 1 0.02
60 7 0.11
61 27 0.44
62 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (59 bp):
AATAATTATATTAAGAATATGATTAAATTATATATTATTTTATGAAAATATATTTAATC
Found at i:15388142 original size:16 final size:16
Alignment explanation
Indices: 15388121--15388153 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15388111 TATTGTTTAC
15388121 AACTCTATTCAATTAT
1 AACTCTATTCAATTAT
*
15388137 AACTCTATTCCATTAT
1 AACTCTATTCAATTAT
15388153 A
1 A
15388154 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.42
Consensus pattern (16 bp):
AACTCTATTCAATTAT
Found at i:15401968 original size:89 final size:88
Alignment explanation
Indices: 15401838--15402032 Score: 216
Period size: 91 Copynumber: 2.2 Consensus size: 88
15401828 TGTTAAAAGT
* * ** * * ** *
15401838 CCTCAAACTTTTTCAGAATAAGTAATTAAG-CCCTTGTTTTTTTTGCATTCATTTGGGTACTTGA
1 CCTCAAAC-TTTTAAAAATAAGTAATTAAGCCCCTACTTTTTTTTGCACTCAATTAAGTACTCGA
* *
15401902 ACATTT-AAAATGTATCAAAAAGAC
65 AC-TTTCAAAATGCATAAAAAAGAC
*
15401926 CCTCAAACCTTTTAAAAAGTAAGTAATTAATCCCCTACTTTTTTTTTGCACTCAATTAAGTACTC
1 CCTCAAA-CTTTTAAAAA-TAAGTAATTAAGCCCCTAC-TTTTTTTTGCACTCAATTAAGTACTC
15401991 GAACTTTCAAAATGCATAAAAAAGAC
63 GAACTTTCAAAATGCATAAAAAAGAC
15402017 CCTCAAA-TTTTAAAAA
1 CCTCAAACTTTTAAAAA
15402033 AAAACAAATT
Statistics
Matches: 90, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
88 14 0.16
89 21 0.23
90 7 0.08
91 48 0.53
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.35
Consensus pattern (88 bp):
CCTCAAACTTTTAAAAATAAGTAATTAAGCCCCTACTTTTTTTTGCACTCAATTAAGTACTCGAA
CTTTCAAAATGCATAAAAAAGAC
Found at i:15402248 original size:13 final size:13
Alignment explanation
Indices: 15402232--15402262 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15402222 AAATTAACTT
*
15402232 TTAAAAAATATTA
1 TTAAAAAAAATTA
15402245 TTAAAAAAAATTA
1 TTAAAAAAAATTA
15402258 TTAAA
1 TTAAA
15402263 TATTTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TTAAAAAAAATTA
Found at i:15402939 original size:89 final size:85
Alignment explanation
Indices: 15402779--15402996 Score: 242
Period size: 89 Copynumber: 2.5 Consensus size: 85
15402769 TTAAGGGTAT
* *
15402779 AAAAAGTCCTCAAATTTTTTCAAAAAAAGCAATTAAGCTCCTCTTTTTTTTTTACACTCAATTGT
1 AAAAAGCCCTCAAATTTTTT-AAAAAAAGCAATTAAGC-CCTC--TTTTTTTCACACTCAATTGT
*
15402844 GCACTTGAACTTTCAAAATGCATCA
62 GCACTTGAACTTTCAAAATACAT-A
* *
15402869 AAAAAGCCCTCAAACTTCTTTTAAAAAAAAGCAATTAAGCCCTGC-TTTTTTCCCATTCAATTG-
1 AAAAAGCCCTCAAA-TT-TTTT-AAAAAAAGCAATTAAGCCCT-CTTTTTTTCACACTCAATTGT
* * *
15402932 GATACTTGAACTTTCAAAATATATT
62 G-CACTTGAACTTTCAAAATACATA
*
15402957 AAAAAGACCCTCAAATTTTTTCAAAAAAGCAATTAAGCCC
1 AAAAAG-CCCTCAAATTTTTTAAAAAAAGCAATTAAGCCC
15402997 CTACTCTTAT
Statistics
Matches: 113, Mismatches: 10, Indels: 14
0.82 0.07 0.10
Matches are distributed among these distances:
86 18 0.16
87 4 0.04
88 9 0.08
89 42 0.37
90 13 0.12
91 5 0.04
92 22 0.19
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.33
Consensus pattern (85 bp):
AAAAAGCCCTCAAATTTTTTAAAAAAAGCAATTAAGCCCTCTTTTTTTCACACTCAATTGTGCAC
TTGAACTTTCAAAATACATA
Found at i:15408517 original size:31 final size:33
Alignment explanation
Indices: 15408479--15408546 Score: 104
Period size: 31 Copynumber: 2.1 Consensus size: 33
15408469 AGCTTGGTAT
15408479 ACACTTAAATAAGGTTCATA-C-CATGATTCAA
1 ACACTTAAATAAGGTTCATATCGCATGATTCAA
* *
15408510 ACACTTAAATAAGGTTTATATCGCATGATTCAG
1 ACACTTAAATAAGGTTCATATCGCATGATTCAA
15408543 ACAC
1 ACAC
15408547 ATTGGTTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 19 0.58
32 1 0.03
33 13 0.39
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (33 bp):
ACACTTAAATAAGGTTCATATCGCATGATTCAA
Found at i:15410756 original size:5 final size:5
Alignment explanation
Indices: 15410732--15410790 Score: 73
Period size: 5 Copynumber: 11.8 Consensus size: 5
15410722 ACAACCCAAC
* * * *
15410732 CAGAA CAGGA CAGAG TAGAA CAGAA CAGAA CAGAA CAGAA TAGAA CAGAA
1 CAGAA CAGAA CAGAA CAGAA CAGAA CAGAA CAGAA CAGAA CAGAA CAGAA
*
15410782 CAGCA CAGA
1 CAGAA CAGA
15410791 GCAAAACTGA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.54, C:0.19, G:0.24, T:0.03
Consensus pattern (5 bp):
CAGAA
Found at i:15418712 original size:19 final size:18
Alignment explanation
Indices: 15418663--15418724 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
15418653 AAATCGAGTC
* *
15418663 ATTCGTTTCCAAAACATT
1 ATTCATTTCCAAATCATT
* *
15418681 ATTCATTTACAAATCGTT
1 ATTCATTTCCAAATCATT
*
15418699 ATTCAATTTCCAAATCTTT
1 ATTC-ATTTCCAAATCATT
*
15418718 TTTCATT
1 ATTCATT
15418725 GCGTAAGCTT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
18 21 0.58
19 15 0.42
ACGTcount: A:0.31, C:0.19, G:0.03, T:0.47
Consensus pattern (18 bp):
ATTCATTTCCAAATCATT
Found at i:15421476 original size:15 final size:14
Alignment explanation
Indices: 15421447--15421482 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
15421437 TATAAGGCAT
*
15421447 AATAAAATATTAAA
1 AATAAAATATAAAA
15421461 AATAAATATATAAAA
1 AATAAA-ATATAAAA
15421476 AATAAAA
1 AATAAAA
15421483 CACATCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
AATAAAATATAAAA
Found at i:15422839 original size:24 final size:25
Alignment explanation
Indices: 15422807--15422856 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
15422797 AACAGAACAA
*
15422807 AGCAAAACAAAACAAATCA-AGCAG
1 AGCAAAACAAAACAAAGCAGAGCAG
* *
15422831 AGCATAACAGAACAAAGCAGAGCAG
1 AGCAAAACAAAACAAAGCAGAGCAG
15422856 A
1 A
15422857 ACAGAACTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.58, C:0.20, G:0.18, T:0.04
Consensus pattern (25 bp):
AGCAAAACAAAACAAAGCAGAGCAG
Found at i:15422850 original size:20 final size:20
Alignment explanation
Indices: 15422796--15422863 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
15422786 AGAACTGAAC
* *
15422796 TAACAGAACAAAGCAAAACA
1 TAACAGAACAAAGCAGAGCA
*
15422816 AAACA-AATC-AAGCAGAGCA
1 TAACAGAA-CAAAGCAGAGCA
15422835 TAACAGAACAAAGCAGAGCA
1 TAACAGAACAAAGCAGAGCA
*
15422855 GAACAGAAC
1 TAACAGAAC
15422864 TATACAGTGG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 15 0.38
20 25 0.62
ACGTcount: A:0.59, C:0.21, G:0.16, T:0.04
Consensus pattern (20 bp):
TAACAGAACAAAGCAGAGCA
Done.