Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 29 of 167
Found at i:8514191 original size:12 final size:12
Alignment explanation
Indices: 8514174--8514198 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8514164 AGTGTCGAAT
8514174 CGGTAACAGTAA
1 CGGTAACAGTAA
8514186 CGGTAACAGTAA
1 CGGTAACAGTAA
8514198 C
1 C
8514199 CAGTAACAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:8514821 original size:20 final size:18
Alignment explanation
Indices: 8514785--8514829 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
8514775 AAACCTTCAA
8514785 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
8514803 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
8514823 -TTTCCCT
1 TTTTCCCT
8514830 GCTTTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:8522002 original size:21 final size:21
Alignment explanation
Indices: 8521963--8522015 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
8521953 ATCAAAAAAT
8521963 TAAATAA-ATTTAAATTATAATA
1 TAAATAATATTT-AATTAT-ATA
8521985 TAAATAATATTT-ATTATATA
1 TAAATAATATTTAATTATATA
*
8522005 -AAAAAATATTT
1 TAAATAATATTT
8522016 TAAAAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 10 0.34
20 3 0.10
21 5 0.17
22 7 0.24
23 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATAATATTTAATTATATA
Found at i:8524481 original size:29 final size:30
Alignment explanation
Indices: 8524447--8524533 Score: 140
Period size: 29 Copynumber: 2.9 Consensus size: 30
8524437 ATCTTAGCCT
*
8524447 TTTCCACCATCAACTCCACTAGCCACAC-C
1 TTTCCACCACCAACTCCACTAGCCACACAC
*
8524476 TTTCCACCACCAACTCCACTAGCCACACAT
1 TTTCCACCACCAACTCCACTAGCCACACAC
*
8524506 TTTCCACCACCAAATCCACTAGCCACAC
1 TTTCCACCACCAACTCCACTAGCCACAC
8524534 TTGCTCCGTT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 27 0.50
30 27 0.50
ACGTcount: A:0.30, C:0.47, G:0.03, T:0.20
Consensus pattern (30 bp):
TTTCCACCACCAACTCCACTAGCCACACAC
Found at i:8524512 original size:30 final size:29
Alignment explanation
Indices: 8524445--8524579 Score: 146
Period size: 30 Copynumber: 4.6 Consensus size: 29
8524435 AAATCTTAGC
*
8524445 CTTTTCCACCATCAACTCCACTAGCCACA
1 CTTTTCCACCACCAACTCCACTAGCCACA
*
8524474 CCTTTCCACCACCAACTCCACTAGCCACA
1 CTTTTCCACCACCAACTCCACTAGCCACA
*
8524503 CATTTTCCACCACCAAATCCACTAGCCACA
1 C-TTTTCCACCACCAACTCCACTAGCCACA
* *** * *
8524533 CTTGCTCCGTTACCTACTCCACTAACCACA
1 CTT-TTCCACCACCAACTCCACTAGCCACA
*
8524563 CTTGCTCCACCA-CAACT
1 CTT-TTCCACCACCAACT
8524580 TGTACCTACA
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
29 34 0.38
30 55 0.62
ACGTcount: A:0.27, C:0.46, G:0.04, T:0.22
Consensus pattern (29 bp):
CTTTTCCACCACCAACTCCACTAGCCACA
Found at i:8525102 original size:16 final size:15
Alignment explanation
Indices: 8525078--8525125 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
8525068 TAATTATTAT
*
8525078 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
8525094 TATTTTAATATTTTA
1 TATTTTAATATTTTA
8525109 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
8525125 T
1 T
8525126 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:8525113 original size:7 final size:8
Alignment explanation
Indices: 8525078--8525129 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
8525068 TAATTATTAT
*
8525078 TATTCTAA
1 TATTTTAA
*
8525086 TATTTTGA
1 TATTTTAA
8525094 TATTTTAA
1 TATTTTAA
8525102 TATTTT-A
1 TATTTTAA
8525109 TATTTTATA
1 TATTTTA-A
*
8525118 TATTTTAT
1 TATTTTAA
8525126 TATT
1 TATT
8525130 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:8530255 original size:84 final size:83
Alignment explanation
Indices: 8530033--8530255 Score: 229
Period size: 84 Copynumber: 2.7 Consensus size: 83
8530023 CAATCCACGT
* *
8530033 ATTTAAGGGTTTGAAAGCTATATGAATAAT-AAAAATGGTATAATAAATAATAAA-AGATCAAAT
1 ATTTAAGGGTTTGAAAGATATATGAATAATAAAAAATGGTATAAAAAATAATAAAGAGATCAAAT
* * * *
8530096 ATAAATATTAATCTTTCG
66 AGAAACACTAACCTTTCG
* * * * *
8530114 ACTTAAAGGTTTGAAAGACATATGAATAATAACAAAAATTGTATAAATAATAATAAAGA-ATCAA
1 ATTTAAGGGTTTGAAAGATATATGAATAAT-A-AAAAATGGTATAAAAAATAATAAAGAGATCAA
*
8530178 ATAGAAACACTAGCCTTTCTG
64 ATAGAAACACTAACCTTTC-G
* * * *
8530199 -TTTAAGGGTTTAAAAGGTACATGAATAATAGAAACAATGGTGTAAAAAATAATAAAG
1 ATTTAAGGGTTTGAAAGATATATGAATAATA-AAA-AATGGTATAAAAAATAATAAAG
8530256 GACTAAATAG
Statistics
Matches: 114, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
81 26 0.23
83 4 0.04
84 82 0.72
85 2 0.02
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (83 bp):
ATTTAAGGGTTTGAAAGATATATGAATAATAAAAAATGGTATAAAAAATAATAAAGAGATCAAAT
AGAAACACTAACCTTTCG
Found at i:8532766 original size:6 final size:6
Alignment explanation
Indices: 8532755--8532789 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
8532745 ACATGTTATG
8532755 GATGGT GATGGT GATGGT GATGGT GATGGT GATGG
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGG
8532790 GGGGGGATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.51, T:0.31
Consensus pattern (6 bp):
GATGGT
Found at i:8534323 original size:3 final size:3
Alignment explanation
Indices: 8534315--8534346 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
8534305 TTTGACGCCT
8534315 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8534347 CCAGGAAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8537636 original size:12 final size:12
Alignment explanation
Indices: 8537621--8537684 Score: 62
Period size: 12 Copynumber: 5.3 Consensus size: 12
8537611 CTATATCTTT
8537621 TATTATAATATA
1 TATTATAATATA
8537633 TATTATAATGATA
1 TATTATAAT-ATA
* *
8537646 -GTTAT-ATATG
1 TATTATAATATA
8537656 TATTAATAATTATA
1 TATT-ATAA-TATA
8537670 TATTATAATAT-
1 TATTATAATATA
8537681 TATT
1 TATT
8537685 TTATGTATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
10 2 0.05
11 8 0.19
12 18 0.42
13 8 0.19
14 7 0.16
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (12 bp):
TATTATAATATA
Found at i:8537670 original size:18 final size:18
Alignment explanation
Indices: 8537647--8537699 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
8537637 ATAATGATAG
8537647 TTATATATGTATTAATAA
1 TTATATATGTATTAATAA
8537665 TTATATAT-TA-TAAT-A
1 TTATATATGTATTAATAA
*
8537680 TTATTTTATGTATTAATAA
1 TTA-TATATGTATTAATAA
8537699 T
1 T
8537700 ATACTAATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 4 0.13
16 8 0.27
17 4 0.13
18 12 0.40
19 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (18 bp):
TTATATATGTATTAATAA
Found at i:8537695 original size:34 final size:37
Alignment explanation
Indices: 8537621--8537699 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
8537611 CTATATCTTT
8537621 TATT-ATAA-TATATATTATAATGATAGTTATATATG
1 TATTAATAATTATATATTATAATGATAGTTATATATG
8537656 TATTAATAATTATATATTATAAT-ATTA-TT-T-TATG
1 TATTAATAATTATATATTATAATGA-TAGTTATATATG
8537690 TATTAATAAT
1 TATTAATAAT
8537700 ATACTAATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
34 14 0.34
35 5 0.12
36 7 0.17
37 15 0.37
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (37 bp):
TATTAATAATTATATATTATAATGATAGTTATATATG
Found at i:8542006 original size:18 final size:17
Alignment explanation
Indices: 8541961--8542007 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
8541951 CAACTTGTAT
8541961 TTTTA-AGTATGTAATA
1 TTTTATAGTATGTAATA
* * *
8541977 TTTTATATTATGTTATT
1 TTTTATAGTATGTAATA
8541994 TTTGTATAGTATGT
1 TTT-TATAGTATGT
8542008 CATCTATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 5 0.20
17 11 0.44
18 9 0.36
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.60
Consensus pattern (17 bp):
TTTTATAGTATGTAATA
Found at i:8542622 original size:11 final size:11
Alignment explanation
Indices: 8542606--8542648 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
8542596 TAGAATATAT
8542606 CCCATACCTTG
1 CCCATACCTTG
*
8542617 CCCATACCTTT
1 CCCATACCTTG
* *
8542628 CTCATACC-TA
1 CCCATACCTTG
8542638 CCCATACCTTG
1 CCCATACCTTG
8542649 GAAAGGTCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.21, C:0.44, G:0.05, T:0.30
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:8543208 original size:18 final size:18
Alignment explanation
Indices: 8543181--8543237 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
8543171 TACGACCGTT
8543181 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
8543199 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
8543217 TATGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
8543235 TAC
1 TAC
8543238 AGTAGTTGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:8547300 original size:11 final size:11
Alignment explanation
Indices: 8547284--8547314 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8547274 TAGAATATAC
8547284 CCCATACCTTG
1 CCCATACCTTG
*
8547295 CCCATACCTTT
1 CCCATACCTTG
8547306 CCCATACCT
1 CCCATACCT
8547315 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:8550466 original size:22 final size:22
Alignment explanation
Indices: 8550440--8550494 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
8550430 AAAGTGAATA
* *
8550440 AAACAAACAGAGTAAAGAAAAG
1 AAACAAAAAGAATAAAGAAAAG
*
8550462 AAACAAAAAGAATAGAGAAAAG
1 AAACAAAAAGAATAAAGAAAAG
*
8550484 AGAACAGAAAG
1 A-AACAAAAAG
8550495 CATTCGAGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.69, C:0.07, G:0.20, T:0.04
Consensus pattern (22 bp):
AAACAAAAAGAATAAAGAAAAG
Found at i:8551796 original size:21 final size:23
Alignment explanation
Indices: 8551741--8551802 Score: 83
Period size: 21 Copynumber: 2.8 Consensus size: 23
8551731 TACTGATCAA
8551741 GCACTTTATGTGTCGTATTTCAG
1 GCACTTTATGTGTCGTATTTCAG
* **
8551764 GCACCTCGTGTGTCGT-TTT-AG
1 GCACTTTATGTGTCGTATTTCAG
8551785 GCACTTTATGTGTCGTAT
1 GCACTTTATGTGTCGTAT
8551803 ACTGATCAGG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 15 0.47
22 4 0.12
23 13 0.41
ACGTcount: A:0.15, C:0.19, G:0.24, T:0.42
Consensus pattern (23 bp):
GCACTTTATGTGTCGTATTTCAG
Found at i:8557610 original size:20 final size:20
Alignment explanation
Indices: 8557587--8557625 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
8557577 TAAACATGGT
8557587 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
8557607 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
8557626 TGTATTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:8557703 original size:24 final size:24
Alignment explanation
Indices: 8557676--8557772 Score: 142
Period size: 25 Copynumber: 4.0 Consensus size: 24
8557666 GAGGAAGTGC
8557676 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
8557700 AAAAAGGGCTTATGCCCCAGTTATC
1 -AAAAGGGCTTATGCCCCAGTTATT
8557725 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
8557749 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
8557773 ATGATAAAGC
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
24 33 0.49
25 34 0.51
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:8557769 original size:49 final size:49
Alignment explanation
Indices: 8557675--8557772 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 49
8557665 GGAGGAAGTG
*
8557675 CAAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTAGGCCCCAGTTAT
8557724 CAAAAGGGCTTATGCCCCAGTTATT-AAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAAAG-GGCTTAGGCC-CCAGTTAT
8557773 ATGATAAAGC
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
48 10 0.22
49 36 0.78
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (49 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTAGGCCCCAGTTAT
Found at i:8559083 original size:182 final size:182
Alignment explanation
Indices: 8558776--8559139 Score: 683
Period size: 182 Copynumber: 2.0 Consensus size: 182
8558766 GCATCCCAAG
8558776 ATCTTTTCCAGCATCAAGTGCCTTTCTCAAAACCTAGAATCAAAAGGAAGGTTTCATTATTGAAC
1 ATCTTTTCCAGCATCAAGTGCCTTTCTCAAAACCTAGAATCAAAAGGAAGGTTTCATTATTGAAC
*
8558841 ACATGATATATACTACCCTGAAAAGTAAAACATGGCTATAAATCCAGTAACTCAACAAAGTTCTA
66 ACATGATATATACTACCCTGAAAAGTAAAACATGGCCATAAATCCAGTAACTCAACAAAGTTCTA
8558906 ACCGTGTGGTTGCGAGTGTACCAATCACCAATCAAAATTGTAATGTCTCCAT
131 ACCGTGTGGTTGCGAGTGTACCAATCACCAATCAAAATTGTAATGTCTCCAT
*
8558958 ATCTTTTCCAGCATCAAGTGCCTTTCTCAAAGCCTAGAATCAAAAGGAAGGTTTCATTATTGAAC
1 ATCTTTTCCAGCATCAAGTGCCTTTCTCAAAACCTAGAATCAAAAGGAAGGTTTCATTATTGAAC
* *
8559023 ACATTATATATACTACCCTGAAAAGTAAAACATGGCCATAAATCCTGTAACTCAACAAAGTTCTA
66 ACATGATATATACTACCCTGAAAAGTAAAACATGGCCATAAATCCAGTAACTCAACAAAGTTCTA
*
8559088 ACTGTGTGGTTGCGAGTGTACCAATCACCAATCAAAATTGTAATGTCTCCAT
131 ACCGTGTGGTTGCGAGTGTACCAATCACCAATCAAAATTGTAATGTCTCCAT
8559140 TAGGGAAGCC
Statistics
Matches: 177, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
182 177 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (182 bp):
ATCTTTTCCAGCATCAAGTGCCTTTCTCAAAACCTAGAATCAAAAGGAAGGTTTCATTATTGAAC
ACATGATATATACTACCCTGAAAAGTAAAACATGGCCATAAATCCAGTAACTCAACAAAGTTCTA
ACCGTGTGGTTGCGAGTGTACCAATCACCAATCAAAATTGTAATGTCTCCAT
Found at i:8559338 original size:22 final size:22
Alignment explanation
Indices: 8559310--8559353 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
8559300 AGGACAATTA
8559310 GTGCCTGGTAACCCATCTTGCC
1 GTGCCTGGTAACCCATCTTGCC
8559332 GTGCCTGGTAACCCATCTTGCC
1 GTGCCTGGTAACCCATCTTGCC
8559354 ATGAACTACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.36, G:0.23, T:0.27
Consensus pattern (22 bp):
GTGCCTGGTAACCCATCTTGCC
Found at i:8565074 original size:131 final size:131
Alignment explanation
Indices: 8564918--8565179 Score: 497
Period size: 131 Copynumber: 2.0 Consensus size: 131
8564908 AAATTTTTAG
* * *
8564918 TGGTGTCGGAATAGTGATTTGAGATCACTAAATCTGACAAATGAGTAGAAAATATTAATAATTTA
1 TGGTGTCGAAACAGTGATTTGAGATCACTAAATCTGAAAAATGAGTAGAAAATATTAATAATTTA
8564983 GTGAATATAAGTTAAGTGTGAAGTTAGGAAAATTTTTGAAATAGCGAATAGTGTACTAAAAATAA
66 GTGAATATAAGTTAAGTGTGAAGTTAGGAAAATTTTTGAAATAGCGAATAGTGTACTAAAAATAA
8565048 A
131 A
8565049 TGGTGTCGAAACAGTGATTTGAGATCACTAAATCTGAAAAATGAGTAGAAAATATTAATAATTTA
1 TGGTGTCGAAACAGTGATTTGAGATCACTAAATCTGAAAAATGAGTAGAAAATATTAATAATTTA
8565114 GTGAATATAAGTTAAGTGTGAAGTTAGGAAAATTTTTGAAATAGCGAATAGTGTACTAAAAATAA
66 GTGAATATAAGTTAAGTGTGAAGTTAGGAAAATTTTTGAAATAGCGAATAGTGTACTAAAAATAA
8565179 A
131 A
8565180 AATTTTAAAA
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 128 1.00
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.31
Consensus pattern (131 bp):
TGGTGTCGAAACAGTGATTTGAGATCACTAAATCTGAAAAATGAGTAGAAAATATTAATAATTTA
GTGAATATAAGTTAAGTGTGAAGTTAGGAAAATTTTTGAAATAGCGAATAGTGTACTAAAAATAA
A
Found at i:8566595 original size:13 final size:13
Alignment explanation
Indices: 8566577--8566626 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
8566567 ATATAAAGTA
*
8566577 AAATAAATAAAAG
1 AAATAAAGAAAAG
**
8566590 AAATAATTAAAAG
1 AAATAAAGAAAAG
8566603 -AATAAAGAAACA-
1 AAATAAAGAAA-AG
8566615 AAATAAAGAAAA
1 AAATAAAGAAAA
8566627 AAAAGTAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 9 0.28
13 23 0.72
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.14
Consensus pattern (13 bp):
AAATAAAGAAAAG
Found at i:8566676 original size:4 final size:4
Alignment explanation
Indices: 8566667--8566702 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
8566657 AAAATTGAAG
8566667 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
8566703 AAGAAAAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:8574499 original size:6 final size:6
Alignment explanation
Indices: 8574490--8574534 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
8574480 AAAAAGTCTA
* *
8574490 AAAAAT AAAAAT AGAAAT AAAACT AAAAAT AAAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
8574535 TGAATGGACT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:8576078 original size:16 final size:16
Alignment explanation
Indices: 8576057--8576087 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8576047 GATATTTTAA
8576057 TATATTATATTAATAT
1 TATATTATATTAATAT
*
8576073 TATATTATGTTAATA
1 TATATTATATTAATA
8576088 AAATAATAAA
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:8576725 original size:15 final size:15
Alignment explanation
Indices: 8576705--8576761 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
8576695 CGATGAATTT
8576705 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
8576720 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
8576735 ATTGAATTTATATTG
1 ATTGAATTTATATTG
8576750 ATTGAA-TTATAT
1 ATTGAATTTATAT
8576762 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:8577163 original size:23 final size:23
Alignment explanation
Indices: 8577133--8577219 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
8577123 GCTTTATCGA
* *
8577133 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
8577156 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
8577177 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
8577199 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
8577220 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:8580843 original size:21 final size:21
Alignment explanation
Indices: 8580830--8580879 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
8580820 ATGATGAATC
8580830 CGGCTTCTGAGATGGATCAAT
1 CGGCTTCTGAGATGGATCAAT
8580851 CGGCTTCTGAGATGGATCAAT
1 CGGCTTCTGAGATGGATCAAT
8580872 CGGCTTCT
1 CGGCTTCT
8580880 TTGGGGTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (21 bp):
CGGCTTCTGAGATGGATCAAT
Found at i:8581479 original size:3 final size:3
Alignment explanation
Indices: 8581465--8581525 Score: 90
Period size: 3 Copynumber: 20.7 Consensus size: 3
8581455 AAGTAAAAGA
*
8581465 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8581512 TAT T-T TAT CTAT TA
1 TAT TAT TAT -TAT TA
8581526 AATGAGATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
2 4 0.08
3 46 0.87
4 3 0.06
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:8582732 original size:37 final size:38
Alignment explanation
Indices: 8582691--8582787 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 38
8582681 CGGATAGATT
8582691 CGATGAGGCGTTGGTCGCCAC-TTTGCTTCG-ACTTAGC
1 CGATGAGGCGTTGGTCGCCACTTTTGCTTCGAAC-TAGC
* * *
8582728 CGATGAGACGTTGGTCGTCACTTATTTGCTTCGAACTATC
1 CGATGAGGCGTTGGTCGCCAC-T-TTTGCTTCGAACTAGC
*
8582768 CAATGAGGCGTTGGTCGCCA
1 CGATGAGGCGTTGGTCGCCA
8582788 TTCTGGTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
37 19 0.38
40 29 0.58
41 2 0.04
ACGTcount: A:0.18, C:0.25, G:0.28, T:0.30
Consensus pattern (38 bp):
CGATGAGGCGTTGGTCGCCACTTTTGCTTCGAACTAGC
Found at i:8583142 original size:13 final size:13
Alignment explanation
Indices: 8583120--8583152 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
8583110 TGATAGTTTG
8583120 GTATGAATTTATAT
1 GTATG-ATTTATAT
8583134 GTATGATTTATAT
1 GTATGATTTATAT
8583147 GTATGA
1 GTATGA
8583153 GTTGCTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (13 bp):
GTATGATTTATAT
Found at i:8583708 original size:20 final size:20
Alignment explanation
Indices: 8583683--8583740 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
8583673 TGCCCACGGG
*
8583683 CAGGCCACACGGGCATGTTC
1 CAGGCCACACGGGCATGTCC
* *
8583703 CAGGCCATACGGGCGTGTCC
1 CAGGCCACACGGGCATGTCC
8583723 CAGGCCACACGGGCATGT
1 CAGGCCACACGGGCATGT
8583741 GCCCCTATCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.19, C:0.34, G:0.33, T:0.14
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTCC
Found at i:8585970 original size:23 final size:22
Alignment explanation
Indices: 8585944--8585987 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
8585934 AATATTTGGT
8585944 ATTT-GAACCTTACATTTTTTTTA
1 ATTTAGAACC-TA-ATTTTTTTTA
*
8585967 ATTTAGTACCTAATTTTTTTT
1 ATTTAGAACCTAATTTTTTTT
8585988 GGTTCAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 9 0.47
23 6 0.32
24 4 0.21
ACGTcount: A:0.25, C:0.11, G:0.05, T:0.59
Consensus pattern (22 bp):
ATTTAGAACCTAATTTTTTTTA
Found at i:8586489 original size:31 final size:31
Alignment explanation
Indices: 8586424--8586549 Score: 120
Period size: 31 Copynumber: 4.2 Consensus size: 31
8586414 GACCCCCAAA
* * * *
8586424 AAGTTTAAGTACCAACTTGAGAAAAAAATATC
1 AAGTTTAGGTACCAAATTAAG-AAAAAATGTC
*
8586456 AAGTTTAGGTACCAAATTAAGAAAAATTGTC
1 AAGTTTAGGTACCAAATTAAGAAAAAATGTC
* *
8586487 AAGTTTGGGTACCAAATT-GGACCAAAAA----
1 AAGTTTAGGTACCAAATTAAGA--AAAAATGTC
8586515 AA-TTTAGGTACCAAATTAAGAAAAAATGTC
1 AAGTTTAGGTACCAAATTAAGAAAAAATGTC
8586545 AAGTT
1 AAGTT
8586550 CAAGTACCGA
Statistics
Matches: 76, Mismatches: 10, Indels: 17
0.74 0.10 0.17
Matches are distributed among these distances:
26 5 0.07
27 14 0.18
28 4 0.05
30 4 0.05
31 27 0.36
32 22 0.29
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (31 bp):
AAGTTTAGGTACCAAATTAAGAAAAAATGTC
Found at i:8586540 original size:27 final size:27
Alignment explanation
Indices: 8586459--8586540 Score: 67
Period size: 27 Copynumber: 2.9 Consensus size: 27
8586449 AAATATCAAG
* *
8586459 TTTAGGTACCAAATTAAGAAAAATTGTCAAG
1 TTTAGGTACCAAATTAAGAAAAA----AAAA
* * *
8586490 TTTGGGTACCAAATT-GGACCAAAAAAA
1 TTTAGGTACCAAATTAAGA-AAAAAAAA
8586517 TTTAGGTACCAAATTAAGAAAAAA
1 TTTAGGTACCAAATTAAGAAAAAA
8586541 TGTCAAGTTC
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
27 20 0.49
28 2 0.05
30 2 0.05
31 17 0.41
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.26
Consensus pattern (27 bp):
TTTAGGTACCAAATTAAGAAAAAAAAA
Found at i:8612207 original size:16 final size:16
Alignment explanation
Indices: 8612186--8612227 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
8612176 TTATTAAATT
*
8612186 ATATATTTTAATTATA
1 ATATATTTTAATAATA
8612202 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
8612217 AT-TATGTTTAA
1 ATATAT-TTTAA
8612228 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:8612212 original size:15 final size:15
Alignment explanation
Indices: 8612177--8612218 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
8612167 TTAAGAATTT
*
8612177 TATTAAATTAT-ATA
1 TATTTAATTATAATA
8612191 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
8612205 TATTTAATAATAAT
1 TATTTAATTATAAT
8612219 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:8612398 original size:39 final size:40
Alignment explanation
Indices: 8612355--8612459 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
8612345 TTCCATTATG
8612355 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
8612394 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
8612439 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
8612460 ACACCTTTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:8612453 original size:45 final size:44
Alignment explanation
Indices: 8612353--8612462 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
8612343 TTTTCCATTA
8612353 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
8612392 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
8612437 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
8612463 CCTTTATTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:8612462 original size:16 final size:16
Alignment explanation
Indices: 8612441--8612478 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
8612431 TTGATTTGCT
8612441 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
8612457 ATTACACCTTTATTCC
1 ATTACACCTCTATTCC
8612473 ATTACA
1 ATTACA
8612479 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:8613295 original size:21 final size:21
Alignment explanation
Indices: 8613246--8613295 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
8613236 ATATGAAAAG
8613246 ATAAAATAAAAAAAACCATCA
1 ATAAAATAAAAAAAACCATCA
* * *
8613267 A-AATAATAATAATAACCATTA
1 ATAA-AATAAAAAAAACCATCA
8613288 ATAAAATA
1 ATAAAATA
8613296 GTAAATTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 2 0.08
21 20 0.83
22 2 0.08
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (21 bp):
ATAAAATAAAAAAAACCATCA
Found at i:8614613 original size:20 final size:18
Alignment explanation
Indices: 8614584--8614643 Score: 61
Period size: 17 Copynumber: 3.3 Consensus size: 18
8614574 AAAAAGGATT
*
8614584 AAATATAAATCTTAAATAA
1 AAATAAAAAT-TTAAATAA
*
8614603 ATAATAGAAA-TTAAATAA
1 A-AATAAAAATTTAAATAA
*
8614621 AAATAAAAA-TGAAATAA
1 AAATAAAAATTTAAATAA
8614638 AAATAA
1 AAATAA
8614644 GTAGAACAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 20 0.54
18 9 0.24
19 1 0.03
20 7 0.19
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (18 bp):
AAATAAAAATTTAAATAA
Found at i:8614630 original size:17 final size:17
Alignment explanation
Indices: 8614595--8614643 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
8614585 AATATAAATC
*
8614595 TTAAATAAATAATAGAAA
1 TTAAATAAA-AATAAAAA
8614613 TTAAATAAAAATAAAAA
1 TTAAATAAAAATAAAAA
*
8614630 TGAAATAAAAATAA
1 TTAAATAAAAATAA
8614644 GTAGAACAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 20 0.69
18 9 0.31
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (17 bp):
TTAAATAAAAATAAAAA
Found at i:8623273 original size:23 final size:23
Alignment explanation
Indices: 8623247--8623344 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
8623237 ATAAGTGCCA
8623247 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
8623270 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
8623293 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
8623315 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
8623338 CACTGAT
1 CACTGAT
8623345 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:8623312 original size:45 final size:45
Alignment explanation
Indices: 8623254--8623342 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
8623244 CCACACTGAT
* *
8623254 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
8623299 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
8623343 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:8628746 original size:29 final size:30
Alignment explanation
Indices: 8628704--8628761 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
8628694 CTATTTCCAC
*
8628704 ACATCATTAAAATTTTA-ATAGTTTTGCAT
1 ACATCATTAAAATTTTAGATACTTTTGCAT
* *
8628733 ACATTATTACAATTTTAGATACTTTTGCA
1 ACATCATTAAAATTTTAGATACTTTTGCA
8628762 GGGAATCTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (30 bp):
ACATCATTAAAATTTTAGATACTTTTGCAT
Found at i:8636874 original size:14 final size:15
Alignment explanation
Indices: 8636855--8636883 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8636845 TTAAATCAAA
8636855 ATAATATA-AAATTT
1 ATAATATATAAATTT
8636869 ATAATATATAAATTT
1 ATAATATATAAATTT
8636884 TATCAAAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATATATAAATTT
Found at i:8640348 original size:26 final size:27
Alignment explanation
Indices: 8640284--8640349 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
8640274 ATTGCAACAC
* *
8640284 TAATTATAATTTATAATTAATATATTAA
1 TAATTATAATTT-TAAATAAAATATTAA
8640312 TAA--ATACATTTTAAATAAAATA-TAA
1 TAATTATA-ATTTTAAATAAAATATTAA
8640337 TAATTATAATTTT
1 TAATTATAATTTT
8640350 GATTTATGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
25 6 0.18
26 17 0.52
27 7 0.21
28 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
TAATTATAATTTTAAATAAAATATTAA
Found at i:8640655 original size:13 final size:13
Alignment explanation
Indices: 8640637--8640671 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
8640627 AGTTTGGCAA
8640637 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
8640650 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
8640663 TACTTTTGA
1 TGCTTTTGA
8640672 AAATTTTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.23, C:0.09, G:0.26, T:0.43
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:8642800 original size:72 final size:71
Alignment explanation
Indices: 8642676--8642846 Score: 236
Period size: 72 Copynumber: 2.4 Consensus size: 71
8642666 AAAATCATAT
** *
8642676 ATAAACAACTATTGATAAAACTAATTTAGTATAAATAAGTAGAACATAAATTCAATAACCAAAGA
1 ATAAACAACTATTGATAAAACTAATTTAACATAAATAAGTAGAACATAAATTCAATAACCAAAAA
8642741 CCAAAC
66 CCAAAC
* * * *
8642747 ATAAACAACTATTAATAAAAGTAGA-TTACACATAGATAAGTAGAACATAAATTCAATATCCAAA
1 ATAAACAACTATTGATAAAACTA-ATTTA-ACATAAATAAGTAGAACATAAATTCAATAACCAAA
8642811 AACCAAAC
64 AACCAAAC
* *
8642819 ATAAATAACTATTGATAAAACTAGTTTA
1 ATAAACAACTATTGATAAAACTAATTTA
8642847 GGATTTTTGT
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
71 24 0.28
72 62 0.72
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.25
Consensus pattern (71 bp):
ATAAACAACTATTGATAAAACTAATTTAACATAAATAAGTAGAACATAAATTCAATAACCAAAAA
CCAAAC
Found at i:8643292 original size:18 final size:18
Alignment explanation
Indices: 8643271--8643318 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
8643261 TCCATCAATT
*
8643271 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
8643289 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
8643307 TGAACATCATTT
1 TGAACATCATTT
8643319 CTCATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:8649586 original size:42 final size:41
Alignment explanation
Indices: 8649538--8649619 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
8649528 AATTTTCTAT
8649538 AAAGTTATGGAAAAAATTATATTATTTATAAAAAATGTTATG
1 AAAGTTATGGAAAAAATTATATT-TTTATAAAAAATGTTATG
* * * * * *
8649580 AAAGTTATTGAATAATTTATATTTTTTTTATAAATGTTAT
1 AAAGTTATGGAAAAAATTATATTTTTATAAAAAATGTTAT
8649620 AGATTATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 14 0.41
42 20 0.59
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (41 bp):
AAAGTTATGGAAAAAATTATATTTTTATAAAAAATGTTATG
Found at i:8649972 original size:19 final size:21
Alignment explanation
Indices: 8649935--8649981 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
8649925 TGTTTAAAAC
*
8649935 TTATTTTTATCATACTAATAA
1 TTATTTTTATCATAATAATAA
*
8649956 -TATTTTT-TTATAATAATAA
1 TTATTTTTATCATAATAATAA
8649975 TTATTTT
1 TTATTTT
8649982 AAAATTATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTTTTATCATAATAATAA
Found at i:8649991 original size:17 final size:18
Alignment explanation
Indices: 8649950--8649996 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
8649940 TTTATCATAC
* *
8649950 TAATAATATTTTTTTATAA
1 TAATAA-ATTATTTTAAAA
8649969 TAAT-AATTATTTTAAAA
1 TAATAAATTATTTTAAAA
*
8649986 TTATAAATTAT
1 TAATAAATTAT
8649997 GCAATTGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 13 0.54
18 7 0.29
19 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATAAATTATTTTAAAA
Found at i:8655044 original size:34 final size:34
Alignment explanation
Indices: 8655003--8655072 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
8654993 TTTTCCCTGA
8655003 ATGGCAACCTTATTGATTACTAGTGGTAGTCATT
1 ATGGCAACCTTATTGATTACTAGTGGTAGTCATT
8655037 ATGGCAACCTTATTGATTACTAGTGGTAGTCATT
1 ATGGCAACCTTATTGATTACTAGTGGTAGTCATT
8655071 AT
1 AT
8655073 CTTATCACCG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (34 bp):
ATGGCAACCTTATTGATTACTAGTGGTAGTCATT
Found at i:8662072 original size:22 final size:22
Alignment explanation
Indices: 8662044--8662088 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
8662034 AAATAATATT
8662044 ATTTTTTAT-TTGTAACAATTTA
1 ATTTTTTATATTGTAA-AATTTA
*
8662066 ATTTTTTATATTTTAAAATTTA
1 ATTTTTTATATTGTAAAATTTA
8662088 A
1 A
8662089 GTTAGAAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTTTTTATATTGTAAAATTTA
Found at i:8664918 original size:19 final size:18
Alignment explanation
Indices: 8664894--8664936 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
8664884 TCCGCTTCAA
*
8664894 TTTTAAT-TTTGTTACTTAT
1 TTTTAATATTT-TTAATT-T
8664913 TTTTAATATTTTTAATTT
1 TTTTAATATTTTTAATTT
8664931 TTTTAA
1 TTTTAA
8664937 AGTCAAGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 12 0.55
20 3 0.14
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTAATATTTTTAATTT
Found at i:8664993 original size:15 final size:15
Alignment explanation
Indices: 8664944--8664996 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
8664934 TAAAGTCAAG
8664944 TAAATATATTTAAACA
1 TAAA-ATATTTAAACA
*
8664960 T--AATTTTTCAAA-A
1 TAAAATATTT-AAACA
8664973 -AAAATATTTAAACA
1 TAAAATATTTAAACA
8664987 TAAAATATTT
1 TAAAATATTT
8664997 TTATTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 11
0.70 0.05 0.26
Matches are distributed among these distances:
13 9 0.30
14 11 0.37
15 9 0.30
16 1 0.03
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAAATATTTAAACA
Found at i:8665600 original size:11 final size:11
Alignment explanation
Indices: 8665560--8665594 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
8665550 TATTTTTATG
8665560 ATTTAAAAATT
1 ATTTAAAAATT
8665571 ATTTAAAAATT
1 ATTTAAAAATT
8665582 ATTTAAAAATT
1 ATTTAAAAATT
8665593 AT
1 AT
8665595 AAAAAACTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTTAAAAATT
Found at i:8675150 original size:24 final size:25
Alignment explanation
Indices: 8675117--8675190 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 25
8675107 AATAACTTTT
* * *
8675117 AAAATCTAAAGATATTTAATAAATA
1 AAAATCTAAAAATATATAAAAAATA
8675142 AAAAT-TAAAAATATATAAAAAATGA
1 AAAATCTAAAAATATATAAAAAAT-A
* * *
8675167 ATAAAACAAAAAATA-ATGAAAAAT
1 A-AAATCTAAAAATATATAAAAAAT
8675191 TGATAGTGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 15 0.38
25 7 0.17
26 11 0.28
27 7 0.17
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.24
Consensus pattern (25 bp):
AAAATCTAAAAATATATAAAAAATA
Found at i:8675483 original size:21 final size:21
Alignment explanation
Indices: 8675457--8675497 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8675447 ATTTCTTTTA
8675457 TTTTTTAACAAAATTTTAAGG
1 TTTTTTAACAAAATTTTAAGG
* *
8675478 TTTTTTAAGAAATTTTTAAG
1 TTTTTTAACAAAATTTTAAG
8675498 AATGATTAAA
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:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (21 bp):
TTTTTTAACAAAATTTTAAGG
Found at i:8680567 original size:6 final size:6
Alignment explanation
Indices: 8680551--8680586 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
8680541 TAATTAAATA
*
8680551 CAAAAG AAAAAG CAAAAG CAAAAG CAAAAG CAAAAG
1 CAAAAG CAAAAG CAAAAG CAAAAG CAAAAG CAAAAG
8680587 GGTTAGGTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.69, C:0.14, G:0.17, T:0.00
Consensus pattern (6 bp):
CAAAAG
Found at i:8685272 original size:29 final size:31
Alignment explanation
Indices: 8685224--8685287 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
8685214 TTTATAATTA
*
8685224 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
8685255 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
8685284 TTTA
1 TTTA
8685288 TTTAGTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:8685276 original size:8 final size:8
Alignment explanation
Indices: 8685265--8685289 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
8685255 TTTAATAAGA
8685265 TATTTTAT
1 TATTTTAT
8685273 TATTTTAT
1 TATTTTAT
8685281 TATTTTAT
1 TATTTTAT
8685289 T
1 T
8685290 TAGTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:8688037 original size:25 final size:25
Alignment explanation
Indices: 8688009--8688060 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
8687999 TCATATTTTA
8688009 ACTAAGTAATAAATTGAGTAAGGTG
1 ACTAAGTAATAAATTGAGTAAGGTG
8688034 ACTAAGTAATAAATTGAGTAAGGTG
1 ACTAAGTAATAAATTGAGTAAGGTG
8688059 AC
1 AC
8688061 ATTGGTGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (25 bp):
ACTAAGTAATAAATTGAGTAAGGTG
Found at i:8688993 original size:32 final size:32
Alignment explanation
Indices: 8688956--8689021 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
8688946 ATTGATAGAT
8688956 TATAAGCTTGATGTTAAAATAGAACTATTTTG
1 TATAAGCTTGATGTTAAAATAGAACTATTTTG
8688988 TATAAGCTTGATGTTAAAATAGAACTATTTTG
1 TATAAGCTTGATGTTAAAATAGAACTATTTTG
8689020 TA
1 TA
8689022 AAGTAATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.41
Consensus pattern (32 bp):
TATAAGCTTGATGTTAAAATAGAACTATTTTG
Found at i:8693512 original size:27 final size:27
Alignment explanation
Indices: 8693438--8693517 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
8693428 TTTACAATAC
* *
8693438 GCCACAAATGTTATTCTTTTAGAA-TTT
1 GCCACAAAGGTTATTCTTTCA-AAGTTT
* *
8693465 GCCACAAAGGCTACTT-ATTCAAAGTTT
1 GCCACAAAGGTTA-TTCTTTCAAAGTTT
*
8693492 GCCACAAAGGTTATTCTTTCAGAGTT
1 GCCACAAAGGTTATTCTTTCAAAGTT
8693518 GGTCACGTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
26 4 0.09
27 37 0.86
28 2 0.05
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (27 bp):
GCCACAAAGGTTATTCTTTCAAAGTTT
Found at i:8703096 original size:41 final size:42
Alignment explanation
Indices: 8703029--8703109 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 42
8703019 GATGCAGGGG
* *
8703029 TCACACGGTCTATCAACATACCCGTGTG-CAAGTCGTGTGTC
1 TCACACGGTCTATCAACACACCCGTGTGACAAGCCGTGTGTC
* *
8703070 TCACACGGTCTGATC-ACACGCTCGTGTGACAAGCCGTGTG
1 TCACACGGTCT-ATCAACACACCCGTGTGACAAGCCGTGTG
8703110 GACTCAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 21 0.62
42 13 0.38
ACGTcount: A:0.21, C:0.30, G:0.25, T:0.25
Consensus pattern (42 bp):
TCACACGGTCTATCAACACACCCGTGTGACAAGCCGTGTGTC
Found at i:8703922 original size:6 final size:6
Alignment explanation
Indices: 8703911--8703936 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8703901 ACAAGTCTGA
8703911 AACAGT AACAGT AACAGT AACAGT AA
1 AACAGT AACAGT AACAGT AACAGT AA
8703937 GGCGACACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (6 bp):
AACAGT
Found at i:8707428 original size:54 final size:52
Alignment explanation
Indices: 8707335--8707443 Score: 182
Period size: 54 Copynumber: 2.1 Consensus size: 52
8707325 TAACAGTTTG
* *
8707335 TTTTAAATTTTGAATTTTTTTAATTTTTTTTCATTTACGTAATTTTAATTAA
1 TTTTAAATTTTAAATTTATTTAATTTTTTTTCATTTACGTAATTTTAATTAA
8707387 TTTTAAATTTTAAATATTATTTAATATTTTTTTCATTTACGTAATTTTAATTAA
1 TTTTAAATTTTAAAT-TTATTTAAT-TTTTTTTCATTTACGTAATTTTAATTAA
8707441 TTT
1 TTT
8707444 GTATTTTATA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
52 14 0.26
53 8 0.15
54 31 0.58
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (52 bp):
TTTTAAATTTTAAATTTATTTAATTTTTTTTCATTTACGTAATTTTAATTAA
Found at i:8711657 original size:213 final size:213
Alignment explanation
Indices: 8711290--8711714 Score: 841
Period size: 213 Copynumber: 2.0 Consensus size: 213
8711280 AAGGCAAGTA
8711290 TTTTATTCTGCGCATCTAAAATGTGGTATTTTATAAAGATATGATCTAGCTTTAAATATGAATGC
1 TTTTATTCTGCGCATCTAAAATGTGGTATTTTATAAAGATATGATCTAGCTTTAAATATGAATGC
8711355 TTGATGATTAAGCGAAAAATTTTATGAGAAATCAGTTGAGTTCTGACTTGATTTTAATGTTCATT
66 TTGATGATTAAGCGAAAAATTTTATGAGAAATCAGTTGAGTTCTGACTTGATTTTAATGTTCATT
8711420 TTGGGCTTCAAGGGCCCAAATAAAGGTTGTTATATATATGATCTCAGAAAGTGAATAGTAATGTT
131 TTGGGCTTCAAGGGCCCAAATAAAGGTTGTTATATATATGATCTCAGAAAGTGAATAGTAATGTT
8711485 TCGATTTATCTGTAAATG
196 TCGATTTATCTGTAAATG
*
8711503 TTTTATTCTGCGCATCTGAAATGTGGTATTTTATAAAGATATGATCTAGCTTTAAATATGAATGC
1 TTTTATTCTGCGCATCTAAAATGTGGTATTTTATAAAGATATGATCTAGCTTTAAATATGAATGC
8711568 TTGATGATTAAGCGAAAAATTTTATGAGAAATCAGTTGAGTTCTGACTTGATTTTAATGTTCATT
66 TTGATGATTAAGCGAAAAATTTTATGAGAAATCAGTTGAGTTCTGACTTGATTTTAATGTTCATT
8711633 TTGGGCTTCAAGGGCCCAAATAAAGGTTGTTATATATATGATCTCAGAAAGTGAATAGTAATGTT
131 TTGGGCTTCAAGGGCCCAAATAAAGGTTGTTATATATATGATCTCAGAAAGTGAATAGTAATGTT
8711698 TCGATTTATCTGTAAAT
196 TCGATTTATCTGTAAAT
8711715 TATCTGTATG
Statistics
Matches: 211, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
213 211 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (213 bp):
TTTTATTCTGCGCATCTAAAATGTGGTATTTTATAAAGATATGATCTAGCTTTAAATATGAATGC
TTGATGATTAAGCGAAAAATTTTATGAGAAATCAGTTGAGTTCTGACTTGATTTTAATGTTCATT
TTGGGCTTCAAGGGCCCAAATAAAGGTTGTTATATATATGATCTCAGAAAGTGAATAGTAATGTT
TCGATTTATCTGTAAATG
Found at i:8711949 original size:172 final size:172
Alignment explanation
Indices: 8711663--8712007 Score: 690
Period size: 172 Copynumber: 2.0 Consensus size: 172
8711653 TAAAGGTTGT
8711663 TATATATATGATCTCAGAAAGTGAATAGTAATGTTTCGATTTATCTGTAAATTATCTGTATGTAC
1 TATATATATGATCTCAGAAAGTGAATAGTAATGTTTCGATTTATCTGTAAATTATCTGTATGTAC
8711728 TAGTAACACTCTGTAACCCTGTTTCAGCGACGGATACGGGTTAGGGGTGTTACAGTGTATGCTTG
66 TAGTAACACTCTGTAACCCTGTTTCAGCGACGGATACGGGTTAGGGGTGTTACAGTGTATGCTTG
8711793 TGTTAACTGTTTGAAGGGTATGTTGTAGAGGTAATCTGCGCC
131 TGTTAACTGTTTGAAGGGTATGTTGTAGAGGTAATCTGCGCC
8711835 TATATATATGATCTCAGAAAGTGAATAGTAATGTTTCGATTTATCTGTAAATTATCTGTATGTAC
1 TATATATATGATCTCAGAAAGTGAATAGTAATGTTTCGATTTATCTGTAAATTATCTGTATGTAC
8711900 TAGTAACACTCTGTAACCCTGTTTCAGCGACGGATACGGGTTAGGGGTGTTACAGTGTATGCTTG
66 TAGTAACACTCTGTAACCCTGTTTCAGCGACGGATACGGGTTAGGGGTGTTACAGTGTATGCTTG
8711965 TGTTAACTGTTTGAAGGGTATGTTGTAGAGGTAATCTGCGCC
131 TGTTAACTGTTTGAAGGGTATGTTGTAGAGGTAATCTGCGCC
8712007 T
1 T
8712008 TGATCGTTAA
Statistics
Matches: 173, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
172 173 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.36
Consensus pattern (172 bp):
TATATATATGATCTCAGAAAGTGAATAGTAATGTTTCGATTTATCTGTAAATTATCTGTATGTAC
TAGTAACACTCTGTAACCCTGTTTCAGCGACGGATACGGGTTAGGGGTGTTACAGTGTATGCTTG
TGTTAACTGTTTGAAGGGTATGTTGTAGAGGTAATCTGCGCC
Found at i:8727404 original size:22 final size:21
Alignment explanation
Indices: 8727379--8727423 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
8727369 CAAACATATA
8727379 ATTTTATAAATTTTAAAGCGTC
1 ATTTT-TAAATTTTAAAGCGTC
** *
8727401 ATTTTTGCATTTTAAAGGGTC
1 ATTTTTAAATTTTAAAGCGTC
8727422 AT
1 AT
8727424 AGCTCTTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (21 bp):
ATTTTTAAATTTTAAAGCGTC
Found at i:8728007 original size:29 final size:30
Alignment explanation
Indices: 8727960--8728019 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 30
8727950 TTATTTTATA
8727960 GTTAATTTTCTTATTATTTTA-AAGGCATTT
1 GTTAATTTTCTTATTATTTTAGAA-GCATTT
8727990 GTTAATTTT-TTATTATTTTAGAAGCATTT
1 GTTAATTTTCTTATTATTTTAGAAGCATTT
8728019 G
1 G
8728020 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 18 0.62
30 11 0.38
ACGTcount: A:0.27, C:0.05, G:0.12, T:0.57
Consensus pattern (30 bp):
GTTAATTTTCTTATTATTTTAGAAGCATTT
Found at i:8734044 original size:32 final size:32
Alignment explanation
Indices: 8734001--8734077 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
8733991 CAAAATAAAT
** *
8734001 TATGAAAAGTTACGAATGTGAAGAGGCTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
* **
8734033 TATGAAGAGTTAATAATGCAAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
*
8734065 GATGAAAAGTTAC
1 TATGAAAAGTTAC
8734078 ACACATGCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCAAAGAGACTTGAA
Found at i:8737279 original size:32 final size:32
Alignment explanation
Indices: 8737236--8737312 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
8737226 CAAAATAAAT
** *
8737236 TATGAAAAGTTACGAATGTGAAGAGGCTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
* **
8737268 TATGAAGAGTTAATAATGCAAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
*
8737300 GATGAAAAGTTAC
1 TATGAAAAGTTAC
8737313 ACACATGCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCAAAGAGACTTGAA
Found at i:8737635 original size:15 final size:15
Alignment explanation
Indices: 8737615--8737661 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
8737605 GCTACCCCCA
*
8737615 CCACCACCTCCACCT
1 CCACCACCTCCACCG
*
8737630 CCACCACCGCCACCG
1 CCACCACCTCCACCG
*
8737645 CCACCTCCTCCACCG
1 CCACCACCTCCACCG
8737660 CC
1 CC
8737662 GCCTCCCCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.17, C:0.68, G:0.06, T:0.09
Consensus pattern (15 bp):
CCACCACCTCCACCG
Found at i:8737642 original size:21 final size:21
Alignment explanation
Indices: 8737612--8737675 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
8737602 AGTGCTACCC
*
8737612 CCACCACCACCTCCACCTCCA
1 CCACCGCCACCTCCACCTCCA
* *
8737633 CCACCGCCACCGCCACCTCCT
1 CCACCGCCACCTCCACCTCCA
* *
8737654 CCACCGCCGCCTCCCCCTCCA
1 CCACCGCCACCTCCACCTCCA
8737675 C
1 C
8737676 TAGAAGGTGG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.16, C:0.69, G:0.06, T:0.09
Consensus pattern (21 bp):
CCACCGCCACCTCCACCTCCA
Found at i:8737666 original size:15 final size:15
Alignment explanation
Indices: 8737615--8737667 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
8737605 GCTACCCCCA
* *
8737615 CCACCACCTCCACCT
1 CCACCTCCTCCACCG
* *
8737630 CCACCACCGCCACCG
1 CCACCTCCTCCACCG
8737645 CCACCTCCTCCACCG
1 CCACCTCCTCCACCG
*
8737660 CCGCCTCC
1 CCACCTCC
8737668 CCCTCCACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.15, C:0.68, G:0.08, T:0.09
Consensus pattern (15 bp):
CCACCTCCTCCACCG
Found at i:8737744 original size:16 final size:16
Alignment explanation
Indices: 8737705--8737744 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
8737695 AGAAGGTGGT
8737705 GGGTTT-GTAACAGGA
1 GGGTTTGGTAACAGGA
*
8737720 GGG-TTGGTAACGGGA
1 GGGTTTGGTAACAGGA
8737735 GGGTTTGGTA
1 GGGTTTGGTA
8737745 TTGGTGGGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 14 0.64
16 6 0.27
ACGTcount: A:0.20, C:0.05, G:0.47, T:0.28
Consensus pattern (16 bp):
GGGTTTGGTAACAGGA
Found at i:8738482 original size:20 final size:20
Alignment explanation
Indices: 8738459--8738496 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
8738449 TTACCAACCT
*
8738459 TTTTTATTTTTTAATTTTGA
1 TTTTGATTTTTTAATTTTGA
8738479 TTTTGATTTTTTAATTTT
1 TTTTGATTTTTTAATTTT
8738497 TATAACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTGATTTTTTAATTTTGA
Found at i:8739394 original size:32 final size:32
Alignment explanation
Indices: 8739351--8739427 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
8739341 CAAAATAAAT
** *
8739351 TATGAAAAGTTACGAATGTGAAGAGGCTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
* **
8739383 TATGAAGAGTTAATAATGCAAAGAGACTTGAA
1 TATGAAAAGTTACGAATGCAAAGAGACTTGAA
*
8739415 GATGAAAAGTTAC
1 TATGAAAAGTTAC
8739428 ACACATGCAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (32 bp):
TATGAAAAGTTACGAATGCAAAGAGACTTGAA
Found at i:8739750 original size:15 final size:15
Alignment explanation
Indices: 8739730--8739776 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
8739720 GCTACCCCCA
*
8739730 CCACCACCTCCACCT
1 CCACCACCTCCACCG
*
8739745 CCACCACCGCCACCG
1 CCACCACCTCCACCG
*
8739760 CCACCTCCTCCACCG
1 CCACCACCTCCACCG
8739775 CC
1 CC
8739777 GCCTCCACCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.17, C:0.68, G:0.06, T:0.09
Consensus pattern (15 bp):
CCACCACCTCCACCG
Found at i:8739757 original size:21 final size:21
Alignment explanation
Indices: 8739727--8739785 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
8739717 AGTGCTACCC
*
8739727 CCACCACCACCTCCACCTCCA
1 CCACCGCCACCTCCACCTCCA
* *
8739748 CCACCGCCACCGCCACCTCCT
1 CCACCGCCACCTCCACCTCCA
*
8739769 CCACCGCCGCCTCCACC
1 CCACCGCCACCTCCACC
8739786 AGAAGGTGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.17, C:0.68, G:0.07, T:0.08
Consensus pattern (21 bp):
CCACCGCCACCTCCACCTCCA
Found at i:8739781 original size:15 final size:15
Alignment explanation
Indices: 8739730--8739782 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
8739720 GCTACCCCCA
* *
8739730 CCACCACCTCCACCT
1 CCACCTCCTCCACCG
* *
8739745 CCACCACCGCCACCG
1 CCACCTCCTCCACCG
8739760 CCACCTCCTCCACCG
1 CCACCTCCTCCACCG
*
8739775 CCGCCTCC
1 CCACCTCC
8739783 ACCAGAAGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.15, C:0.68, G:0.08, T:0.09
Consensus pattern (15 bp):
CCACCTCCTCCACCG
Found at i:8739853 original size:16 final size:16
Alignment explanation
Indices: 8739814--8739853 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
8739804 AGAAGGTGGT
8739814 GGGTTT-GTAACAGGA
1 GGGTTTGGTAACAGGA
*
8739829 GGG-TTGGTAACGGGA
1 GGGTTTGGTAACAGGA
8739844 GGGTTTGGTA
1 GGGTTTGGTA
8739854 TTGGTGGGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 14 0.64
16 6 0.27
ACGTcount: A:0.20, C:0.05, G:0.47, T:0.28
Consensus pattern (16 bp):
GGGTTTGGTAACAGGA
Found at i:8753258 original size:28 final size:28
Alignment explanation
Indices: 8753218--8753296 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
8753208 GCAATCAAAT
* * *
8753218 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
8753246 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
8753274 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
8753297 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:8755524 original size:13 final size:13
Alignment explanation
Indices: 8755508--8755540 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
8755498 TTTAATTAAA
*
8755508 TTAGTTAATTAGT
1 TTAGATAATTAGT
8755521 TTAGATAATTAGT
1 TTAGATAATTAGT
8755534 TTA-ATAA
1 TTAGATAA
8755541 AAAAAATCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:8758401 original size:8 final size:8
Alignment explanation
Indices: 8758388--8758418 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
8758378 AGAAAGTTTA
8758388 TATATATG
1 TATATATG
8758396 TATATATG
1 TATATATG
8758404 TATATATG
1 TATATATG
8758412 TATATAT
1 TATATAT
8758419 ATATTTCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (8 bp):
TATATATG
Found at i:8768756 original size:60 final size:61
Alignment explanation
Indices: 8768663--8768777 Score: 196
Period size: 60 Copynumber: 1.9 Consensus size: 61
8768653 TTCTATAATA
8768663 AAAACTAGATCCATGGCACTTGATAGTCATGAGAGTATAATTAGGA-CAAAAAAATTTGAT
1 AAAACTAGATCCATGGCACTTGATAGTCATGAGAGTATAATTAGGACCAAAAAAATTTGAT
* * *
8768723 AAAATTAGATCCATGGCACTTGATTGTCGTGAGAGTATAATTAGGACCAAAAAAA
1 AAAACTAGATCCATGGCACTTGATAGTCATGAGAGTATAATTAGGACCAAAAAAA
8768778 AAAATGTAGA
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
60 43 0.84
61 8 0.16
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (61 bp):
AAAACTAGATCCATGGCACTTGATAGTCATGAGAGTATAATTAGGACCAAAAAAATTTGAT
Found at i:8774949 original size:41 final size:41
Alignment explanation
Indices: 8774903--8774986 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
8774893 TGCCTCCCAC
8774903 GCGGCATTCCGGCTAATACACGGGATCTTCCGCCACCAGCA
1 GCGGCATTCCGGCTAATACACGGGATCTTCCGCCACCAGCA
*
8774944 GCGGCATTCCTGCTAATACACGGGATCTTCCGCCACCAGCA
1 GCGGCATTCCGGCTAATACACGGGATCTTCCGCCACCAGCA
8774985 GC
1 GC
8774987 AGCGTTGTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.21, C:0.37, G:0.24, T:0.18
Consensus pattern (41 bp):
GCGGCATTCCGGCTAATACACGGGATCTTCCGCCACCAGCA
Found at i:8779453 original size:20 final size:20
Alignment explanation
Indices: 8779430--8779475 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
8779420 TTTTAAAATC
*
8779430 TAATATGTTTTA-TTTTTCTT
1 TAATATGTTGTACTTTTT-TT
*
8779450 TAATTTGTTGTACTTTTTTT
1 TAATATGTTGTACTTTTTTT
8779470 T-ATATG
1 TAATATG
8779476 ATTGAAGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.18
20 13 0.59
21 5 0.23
ACGTcount: A:0.20, C:0.04, G:0.09, T:0.67
Consensus pattern (20 bp):
TAATATGTTGTACTTTTTTT
Found at i:8781657 original size:47 final size:46
Alignment explanation
Indices: 8781593--8781703 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 46
8781583 GACATTGATT
8781593 CGATG-AGACACTATGTGTCGACTAT-TGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGT--ACTATATGTTAAAGTTCCGGATTTGTTC
* *
8781640 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACTAT-ATGTTAAAGTTCCGGATTTGTTC
8781687 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
8781704 CTTATCCCGA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
45 5 0.09
47 50 0.88
48 2 0.04
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.36
Consensus pattern (46 bp):
CGATGAAGCACTATGTGTACTATATGTTAAAGTTCCGGATTTGTTC
Found at i:8792657 original size:37 final size:37
Alignment explanation
Indices: 8792615--8792764 Score: 147
Period size: 37 Copynumber: 3.6 Consensus size: 37
8792605 ACCATTAATA
8792615 TAATATTAACTCTAAACTTAATTATTAAGTTTAGAGT
1 TAATATTAACTCTAAACTTAATTATTAAGTTTAGAGT
* *
8792652 TAATATTAACTCTAAACTTAATTACCATTAAATTATGTTATTACCATTAAT
1 TAATATTAACTCTAAACTTAATT---ATT--A--A-G-T-TT---A-GAGT
8792703 ATAATATTAACTCTAAACTTAATTATTAAGTTTAGAGT
1 -TAATATTAACTCTAAACTTAATTATTAAGTTTAGAGT
8792741 TAATATTAACTCTAAACTTAATTA
1 TAATATTAACTCTAAACTTAATTA
8792765 CCATTAAATT
Statistics
Matches: 94, Mismatches: 4, Indels: 30
0.73 0.03 0.23
Matches are distributed among these distances:
37 47 0.50
38 2 0.02
39 1 0.01
40 3 0.03
42 3 0.03
43 1 0.01
44 2 0.02
45 2 0.02
46 1 0.01
47 3 0.03
49 3 0.03
50 1 0.01
51 2 0.02
52 23 0.24
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.43
Consensus pattern (37 bp):
TAATATTAACTCTAAACTTAATTATTAAGTTTAGAGT
Found at i:8792741 original size:89 final size:89
Alignment explanation
Indices: 8792590--8792822 Score: 466
Period size: 89 Copynumber: 2.6 Consensus size: 89
8792580 TAATATATTT
8792590 TTAAATTATGTTATTACCATTAATATAATATTAACTCTAAACTTAATTATTAAGTTTAGAGTTAA
1 TTAAATTATGTTATTACCATTAATATAATATTAACTCTAAACTTAATTATTAAGTTTAGAGTTAA
8792655 TATTAACTCTAAACTTAATTACCA
66 TATTAACTCTAAACTTAATTACCA
8792679 TTAAATTATGTTATTACCATTAATATAATATTAACTCTAAACTTAATTATTAAGTTTAGAGTTAA
1 TTAAATTATGTTATTACCATTAATATAATATTAACTCTAAACTTAATTATTAAGTTTAGAGTTAA
8792744 TATTAACTCTAAACTTAATTACCA
66 TATTAACTCTAAACTTAATTACCA
8792768 TTAAATTATGTTATTACCATTAATATAATATTAACTCTAAACTTAATTATTAAGT
1 TTAAATTATGTTATTACCATTAATATAATATTAACTCTAAACTTAATTATTAAGT
8792823 CAAGTTCTAA
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 144 1.00
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (89 bp):
TTAAATTATGTTATTACCATTAATATAATATTAACTCTAAACTTAATTATTAAGTTTAGAGTTAA
TATTAACTCTAAACTTAATTACCA
Found at i:8798590 original size:17 final size:17
Alignment explanation
Indices: 8798568--8798607 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
8798558 AATTTCCAAA
8798568 AAAAAATTCAAAAATTC
1 AAAAAATTCAAAAATTC
* *
8798585 AAAAAATTTAAAAGTTC
1 AAAAAATTCAAAAATTC
8798602 ATAAAA
1 A-AAAA
8798608 CTATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.65, C:0.07, G:0.03, T:0.25
Consensus pattern (17 bp):
AAAAAATTCAAAAATTC
Found at i:8802301 original size:17 final size:16
Alignment explanation
Indices: 8802275--8802313 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
8802265 ATTTTTTATT
8802275 TTAATTGATATA-ATTA
1 TTAATTGATA-ACATTA
8802291 TTAAGTTGATAACATTA
1 TTAA-TTGATAACATTA
8802308 TTAATT
1 TTAATT
8802314 TTAAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (16 bp):
TTAATTGATAACATTA
Found at i:8804206 original size:6 final size:6
Alignment explanation
Indices: 8804192--8804226 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
8804182 TCTAGTACAT
*
8804192 AAGAAC AAGATC AAGATC AAGATC AAGATC AAGAT
1 AAGATC AAGATC AAGATC AAGATC AAGATC AAGAT
8804227 AGAGGTGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.54, C:0.14, G:0.17, T:0.14
Consensus pattern (6 bp):
AAGATC
Found at i:8808066 original size:79 final size:81
Alignment explanation
Indices: 8807930--8808114 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
8807920 TTGAATGATG
*
8807930 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
8807994 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
8808009 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
8808071 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
8808089 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
8808115 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:8808128 original size:40 final size:40
Alignment explanation
Indices: 8807931--8808114 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
8807921 TGAATGATGT
* * * *
8807931 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
8807971 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
8808011 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
8808049 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
8808090 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
8808115 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:8808136 original size:79 final size:79
Alignment explanation
Indices: 8807983--8808147 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
8807973 GGACTAAGAT
* **
8807983 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
8808048 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
8808062 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
8808125 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
8808141 CCGAAGG
1 CCGAAGG
8808148 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:8808912 original size:34 final size:35
Alignment explanation
Indices: 8808853--8808922 Score: 133
Period size: 34 Copynumber: 2.0 Consensus size: 35
8808843 GGTTCTTCAG
8808853 CTATCGGACTCGGGATTTTTGAAGTCGAAGTCGCC
1 CTATCGGACTCGGGATTTTTGAAGTCGAAGTCGCC
8808888 CTATCGGACTCGGGA-TTTTGAAGTCGAAGTCGCC
1 CTATCGGACTCGGGATTTTTGAAGTCGAAGTCGCC
8808922 C
1 C
8808923 ACACTATCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 20 0.57
35 15 0.43
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (35 bp):
CTATCGGACTCGGGATTTTTGAAGTCGAAGTCGCC
Found at i:8811827 original size:36 final size:37
Alignment explanation
Indices: 8811787--8811860 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
8811777 ATCGGTAGAT
*
8811787 AATCGAGGAAGAG-AAAAAATTACAGAATAGTCCCTA
1 AATCGAGGAAAAGAAAAAAATTACAGAATAGTCCCTA
8811823 AATCGAGGAAAAGAAAAAAATTACAGAATAGTCCCTA
1 AATCGAGGAAAAGAAAAAAATTACAGAATAGTCCCTA
8811860 A
1 A
8811861 CACTCCTATC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 12 0.33
37 24 0.67
ACGTcount: A:0.53, C:0.14, G:0.18, T:0.16
Consensus pattern (37 bp):
AATCGAGGAAAAGAAAAAAATTACAGAATAGTCCCTA
Found at i:8811933 original size:14 final size:15
Alignment explanation
Indices: 8811913--8811949 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
8811903 ATATTTTTGC
8811913 GTATTTTGGAA-TGT
1 GTATTTTGGAATTGT
*
8811927 TTATTTT-GAATTGT
1 GTATTTTGGAATTGT
8811941 GTATTTTGG
1 GTATTTTGG
8811950 GAAGTTGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
13 3 0.16
14 15 0.79
15 1 0.05
ACGTcount: A:0.19, C:0.00, G:0.24, T:0.57
Consensus pattern (15 bp):
GTATTTTGGAATTGT
Found at i:8815507 original size:30 final size:30
Alignment explanation
Indices: 8815471--8815530 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
8815461 TGTGATTTTT
*
8815471 TTAAAATAAAGACCTACCCTTGTTCAGCAG
1 TTAAAATAAAGACCTACCCTTGATCAGCAG
8815501 TTAAAATAAAGACCTACCCTTGATCAGCAG
1 TTAAAATAAAGACCTACCCTTGATCAGCAG
8815531 GCTTATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (30 bp):
TTAAAATAAAGACCTACCCTTGATCAGCAG
Found at i:8823893 original size:34 final size:34
Alignment explanation
Indices: 8823845--8823923 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
8823835 TTATACCATG
*
8823845 TGCGAACCTATGTTATATGCGAACCCATGTTATA
1 TGCGAACCTATGTTATATGCGAACCCATGATATA
* *
8823879 TGCGAGCCTGTGTTATATGCGAACCCATGATATA
1 TGCGAACCTATGTTATATGCGAACCCATGATATA
8823913 TGCGAACCTAT
1 TGCGAACCTAT
8823924 ATGATATTGC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (34 bp):
TGCGAACCTATGTTATATGCGAACCCATGATATA
Found at i:8823930 original size:17 final size:17
Alignment explanation
Indices: 8823845--8823923 Score: 113
Period size: 17 Copynumber: 4.6 Consensus size: 17
8823835 TTATACCATG
8823845 TGCGAACCTATGTTATA
1 TGCGAACCTATGTTATA
*
8823862 TGCGAACCCATGTTATA
1 TGCGAACCTATGTTATA
* *
8823879 TGCGAGCCTGTGTTATA
1 TGCGAACCTATGTTATA
* *
8823896 TGCGAACCCATGATATA
1 TGCGAACCTATGTTATA
8823913 TGCGAACCTAT
1 TGCGAACCTAT
8823924 ATGATATTGC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 53 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (17 bp):
TGCGAACCTATGTTATA
Found at i:8824776 original size:22 final size:22
Alignment explanation
Indices: 8824738--8824779 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8824728 AGAAATAAGG
8824738 TGTGATATGTTACATTGATGCC
1 TGTGATATGTTACATTGATGCC
*
8824760 TGTGATCTGTCTA-ATTGATG
1 TGTGATATGT-TACATTGATG
8824780 TATGAATGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.21, C:0.12, G:0.24, T:0.43
Consensus pattern (22 bp):
TGTGATATGTTACATTGATGCC
Found at i:8825143 original size:27 final size:29
Alignment explanation
Indices: 8825075--8825143 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 29
8825065 TAAGTTGCGG
* *
8825075 ACTAGTGGTTCACAGGGTAAGTTTTACGA
1 ACTAGGGGTTCACAGGGTAAGTATTACGA
* *
8825104 ACTAGGTGTTCACAGGGT-AG-ATTGCGA
1 ACTAGGGGTTCACAGGGTAAGTATTACGA
*
8825131 GCTAGGGGTTCAC
1 ACTAGGGGTTCAC
8825144 CGAGTCATCT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 16 0.47
28 2 0.06
29 16 0.47
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.28
Consensus pattern (29 bp):
ACTAGGGGTTCACAGGGTAAGTATTACGA
Found at i:8825765 original size:54 final size:54
Alignment explanation
Indices: 8825704--8825812 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
8825694 AGAACTTGAG
*
8825704 ATAATTTTCAAACATCCCATCCCAGGAATCCTAAACGGTCATGGGCTCCAACAT
1 ATAATTTTCAAACATCCCATCCCAGGAATCCCAAACGGTCATGGGCTCCAACAT
*
8825758 ATAATTTTCAAACATCCCATCCCAGGAATCCCAAACGGTTATGGGCTCCAACAT
1 ATAATTTTCAAACATCCCATCCCAGGAATCCCAAACGGTCATGGGCTCCAACAT
8825812 A
1 A
8825813 ATTTTTTAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (54 bp):
ATAATTTTCAAACATCCCATCCCAGGAATCCCAAACGGTCATGGGCTCCAACAT
Found at i:8828986 original size:15 final size:15
Alignment explanation
Indices: 8828966--8828996 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8828956 AAATATGAAA
8828966 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
8828981 GATATGTTTTGTATT
1 GATATGTTTTGGATT
8828996 G
1 G
8828997 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:8834063 original size:37 final size:37
Alignment explanation
Indices: 8834013--8834091 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
8834003 TTATTACGAA
* * *
8834013 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
8834050 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
8834087 GTCTT
1 GTCTT
8834092 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:8834288 original size:47 final size:47
Alignment explanation
Indices: 8834212--8834338 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 47
8834202 CTTCGGGACT
* * * * *
8834212 TATCACATTTATACACTTTCACACCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
8834259 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
*
8834306 TATCACATATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATACACT-TTCACATCCATCACAT
8834339 AGAATCCTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 1 0.01
47 66 0.99
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:8847303 original size:39 final size:39
Alignment explanation
Indices: 8847222--8847363 Score: 144
Period size: 39 Copynumber: 3.6 Consensus size: 39
8847212 ACCAGCTCGA
* * * * * *
8847222 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGC-GGACCTTAAGTCCGGATATAATTCCTGCACAT
*
8847261 AGCCTGCGGACCTTAAGTCCGGTTATAATTCCTGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCTGCACAT
* *
8847300 AGCCTACGGACCTTAAGTCTGGATATAATT-CTAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCT-GCACAT
* * *
8847339 AGCCTGCAGACCCTAAGCCCGGATA
1 AGCCTGCGGACCTTAAGTCCGGATA
8847364 AACATCACTG
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
38 5 0.06
39 81 0.94
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGATATAATTCCTGCACAT
Found at i:8851610 original size:46 final size:46
Alignment explanation
Indices: 8851509--8851673 Score: 167
Period size: 46 Copynumber: 3.5 Consensus size: 46
8851499 TATGAAAGAT
* *
8851509 AGTGTAAGACCATGTCTGGGACATGCCATCGGCATCGAGACG-AGTGC
1 AGTGTAAGACCATGTCTGGGACATG-CATCGGCCTTGAGACGAAGT-C
* *
8851556 TAGGGTAAGA-CATGTCTAGGACATGCATCGGCCTTGAGACGTAAGTC
1 -AGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAGACG-AAGTC
* * * *
8851603 AGTGTAAGA-CATGTCTGGGACATACATCAG-CTATGATATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCT-TGAGACGA-AGTC
*
8851649 AGTGTAAGACCATGTTTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
8851674 GAATCTTCAT
Statistics
Matches: 100, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
45 3 0.03
46 58 0.58
47 28 0.28
48 11 0.11
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAGACGAAGTC
Found at i:8854267 original size:19 final size:21
Alignment explanation
Indices: 8854230--8854268 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
8854220 TCGATATGGT
8854230 CACACGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
8854251 CACAC-GGCGTG-TGCCCTT
1 CACACGGGCGTGTTGCCCTT
8854269 GTGTCAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 6 0.33
21 5 0.28
ACGTcount: A:0.10, C:0.38, G:0.28, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Done.