Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 54 of 259
Found at i:16999572 original size:26 final size:27
Alignment explanation
Indices: 16999489--16999644 Score: 176
Period size: 26 Copynumber: 5.9 Consensus size: 27
16999479 CCCAATATGA
*
16999489 TAAAATGATTGTTTTG-CATT-TGTGG
1 TAAAATGATTGTTTTGCCCTTATGTGG
*
16999514 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGATTGTTTTGCCCTTATGTGG
16999541 TAAAATGATTGTTTTGCCCTT-TGTGG
1 TAAAATGATTGTTTTGCCCTTATGTGG
* *
16999567 TAAAATGTTTGTTTTGCCCTTATGAGG
1 TAAAATGATTGTTTTGCCCTTATGTGG
* * * * *
16999594 T-AAATGACTATTTTTCCCTTATATGC
1 TAAAATGATTGTTTTGCCCTTATGTGG
* * *
16999620 TAAGATGATTGTTTGGCCCCTATGT
1 TAAAATGATTGTTTTGCCCTTATGT
16999645 AAGGTATATT
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
25 15 0.14
26 47 0.44
27 46 0.43
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.44
Consensus pattern (27 bp):
TAAAATGATTGTTTTGCCCTTATGTGG
Found at i:16999580 original size:53 final size:52
Alignment explanation
Indices: 16999489--16999597 Score: 173
Period size: 53 Copynumber: 2.1 Consensus size: 52
16999479 CCCAATATGA
*
16999489 TAAAATGATTGTTTTGCATTTGTGGTAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGATTGTTTTGCATTTGTGGTAAAATGACTGTTTTGCCCTTATGAGG
* **
16999541 TAAAATGATTGTTTTGCCCTTTGTGGTAAAATGTTTGTTTTGCCCTTATGAGG
1 TAAAATGATTGTTTTG-CATTTGTGGTAAAATGACTGTTTTGCCCTTATGAGG
16999594 TAAA
1 TAAA
16999598 TGACTATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
52 16 0.31
53 36 0.69
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.44
Consensus pattern (52 bp):
TAAAATGATTGTTTTGCATTTGTGGTAAAATGACTGTTTTGCCCTTATGAGG
Found at i:16999632 original size:53 final size:53
Alignment explanation
Indices: 16999514--16999643 Score: 145
Period size: 53 Copynumber: 2.5 Consensus size: 53
16999504 GCATTTGTGG
* * * * * *
16999514 TAAAATGACTGTTTTGCCCTTATGTGGTAAAATGATTGTTTTGCCCTTTGTGG
1 TAAAATGATTGTTTTGCCCTTATGAGGTAAAATGACTATTTTGCCCTTTATGC
* *
16999567 TAAAATGTTTGTTTTGCCCTTATGAGGT-AAATGACTATTTTTCCCTTATATGC
1 TAAAATGATTGTTTTGCCCTTATGAGGTAAAATGACTATTTTGCCCTT-TATGC
* * *
16999620 TAAGATGATTGTTTGGCCCCTATG
1 TAAAATGATTGTTTTGCCCTTATG
16999644 TAAGGTATAT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
52 16 0.25
53 48 0.75
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (53 bp):
TAAAATGATTGTTTTGCCCTTATGAGGTAAAATGACTATTTTGCCCTTTATGC
Found at i:17006521 original size:40 final size:40
Alignment explanation
Indices: 17006431--17006650 Score: 214
Period size: 40 Copynumber: 5.5 Consensus size: 40
17006421 ACCCAAGTAT
* * ** * *
17006431 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
17006469 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
17006509 CTTCGAGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
17006549 CTTCGAGTCTTAGCCCGGATATAG-CAACTCGAACAAATGC
1 CTTCGAGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
17006589 CTTCG-GATCTTAGTCTGGATATAGTCACTAGCATAAAAGC
1 CTTCGAGA-CTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
17006629 CTTTGGGACTTAGCCCGGATAT
1 CTTCGAGACTTAGCCCGGATAT
17006651 CATTCGAATA
Statistics
Matches: 149, Mismatches: 27, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
38 11 0.07
39 17 0.11
40 118 0.79
41 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:17010537 original size:40 final size:39
Alignment explanation
Indices: 17010500--17010669 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 39
17010490 GCTACTCGTT
* *
17010500 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGTT-TAGTAACTCGCA
*
17010540 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCC-GGTTTAGTAACTCGCA
17010580 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCA
** * * * * *
17010620 TGAACGCCTTCGGG-CTTAGCCTGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCA
17010659 CAAATGCCTTC
1 CAAATGCCTTC
17010670 AGATCTAAGT
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
39 30 0.26
40 81 0.71
41 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCA
Found at i:17018799 original size:40 final size:40
Alignment explanation
Indices: 17018762--17018933 Score: 267
Period size: 40 Copynumber: 4.3 Consensus size: 40
17018752 GCTACTCGTT
* *
17018762 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
17018802 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17018842 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
17018882 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17018921 CAAATGCCTTCGG
1 CAAATGCCTTCGG
17018934 ATCTTAGTCC
Statistics
Matches: 124, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 34 0.27
40 88 0.71
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:17018946 original size:79 final size:81
Alignment explanation
Indices: 17018762--17018979 Score: 277
Period size: 80 Copynumber: 2.7 Consensus size: 81
17018752 GCTACTCGTT
*
17018762 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
17018826 GATTTAGTAACTCGCA
66 GAATTAGTAACTCGCA
* * *
17018842 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
17018905 GAATTAGTATCTCGCA
66 GAATTAGTAACTCGCA
* * * * *
17018921 CAAATGCCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGCACAAA-GCCTTTGGGACTTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAAC-TCGCACAAATGCCTTCGGGACTTA
17018980 GACCGGACAT
Statistics
Matches: 120, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 4 0.03
79 55 0.46
80 59 0.49
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GAATTAGTAACTCGCA
Found at i:17018986 original size:119 final size:120
Alignment explanation
Indices: 17018764--17018979 Score: 287
Period size: 119 Copynumber: 1.8 Consensus size: 120
17018754 TACTCGTTCA
*
17018764 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
17018829 TTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
17018884 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
17018946 ATATGGTCACTTAGCACAAA-GCCTTTGGGACTTA
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTA
17018980 GACCGGACAT
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.05
119 59 0.71
120 20 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:17029823 original size:30 final size:28
Alignment explanation
Indices: 17029773--17029831 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
17029763 TCATTTTACG
*
17029773 AGTTTAGGGACAAAAGTGTAAATATTTGAA
1 AGTTCAGGGACAAAAGTGT-AAT-TTTGAA
* *
17029803 AGTTCAGGGGCAAAATTGTAATTTTGAA
1 AGTTCAGGGACAAAAGTGTAATTTTGAA
17029831 A
1 A
17029832 AAATATGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 7 0.27
29 3 0.12
30 16 0.62
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.31
Consensus pattern (28 bp):
AGTTCAGGGACAAAAGTGTAATTTTGAA
Found at i:17030232 original size:48 final size:48
Alignment explanation
Indices: 17030158--17030343 Score: 162
Period size: 48 Copynumber: 3.9 Consensus size: 48
17030148 ATTGGGTTGA
* * * *
17030158 TGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCAATG
1 TGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCAATG
* * * ** ** *
17030206 TGAGATCCCATGTAAGACCATGTCTGGCACATGGCTTTGATATCGTTA
1 TGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCAATG
* * *
17030254 AGTGATCCCATGTAAGACCATGT-TAGGGACATGGCATTGGCATCGATATG
1 TGAGATCCCATGTAAGACCATATCT-GGGACATGGCATTGGCATC-A-ATG
* * *
17030304 TG-G-TCCCTTGTAAGACCATATCCGGGATATGGCATTGGCA
1 TGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCA
17030344 CCCTACCATG
Statistics
Matches: 108, Mismatches: 26, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
47 1 0.01
48 104 0.96
49 1 0.01
50 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (48 bp):
TGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCAATG
Found at i:17031520 original size:19 final size:20
Alignment explanation
Indices: 17031496--17031541 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
17031486 CGGGCTAGGG
17031496 ACACGGG-GTGTCCCAAGCC
1 ACACGGGTGTGTCCCAAGCC
*
17031515 ACACGGGTGTGTCCCAAGCT
1 ACACGGGTGTGTCCCAAGCC
17031535 ACACGGG
1 ACACGGG
17031542 CGTCTGTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.22, C:0.33, G:0.33, T:0.13
Consensus pattern (20 bp):
ACACGGGTGTGTCCCAAGCC
Found at i:17047817 original size:19 final size:20
Alignment explanation
Indices: 17047774--17047819 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
17047764 GTGTCATGCT
17047774 CGTGTGAGGGTGCTCAGGCC
1 CGTGTGAGGGTGCTCAGGCC
17047794 CGTGTGAGGGTGCTCAGG-C
1 CGTGTGAGGGTGCTCAGGCC
17047813 CGTGTGA
1 CGTGTGA
17047820 ACTTCTGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.11, C:0.22, G:0.46, T:0.22
Consensus pattern (20 bp):
CGTGTGAGGGTGCTCAGGCC
Found at i:17049723 original size:6 final size:6
Alignment explanation
Indices: 17049702--17049733 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
17049692 ATAAGTCTTC
17049702 AAAAAT AAATAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAA-AAT AAAAAT AAAAAT AAAAAT A
17049734 GTAATAGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:17049739 original size:12 final size:12
Alignment explanation
Indices: 17049702--17049752 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
17049692 ATAAGTCTTC
17049702 AAAAATAAATAAT
1 AAAAAT-AATAAT
*
17049715 AAAAATAAAAAT
1 AAAAATAATAAT
*
17049727 AAAAATAGTAAT
1 AAAAATAATAAT
**
17049739 AGCAATAA-AAT
1 AAAAATAATAAT
17049750 AAA
1 AAA
17049753 TGGACTCAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
11 4 0.13
12 20 0.67
13 6 0.20
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (12 bp):
AAAAATAATAAT
Found at i:17055657 original size:25 final size:25
Alignment explanation
Indices: 17055623--17055698 Score: 152
Period size: 25 Copynumber: 3.0 Consensus size: 25
17055613 TAATGTTGAT
17055623 TGAACATGAAATTGATATGGAAAGC
1 TGAACATGAAATTGATATGGAAAGC
17055648 TGAACATGAAATTGATATGGAAAGC
1 TGAACATGAAATTGATATGGAAAGC
17055673 TGAACATGAAATTGATATGGAAAGC
1 TGAACATGAAATTGATATGGAAAGC
17055698 T
1 T
17055699 TTATTGAGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.43, C:0.08, G:0.24, T:0.25
Consensus pattern (25 bp):
TGAACATGAAATTGATATGGAAAGC
Found at i:17061661 original size:9 final size:9
Alignment explanation
Indices: 17061636--17061680 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
17061626 ATATGTGTAT
*
17061636 ATGAATTAA
1 ATGAATGAA
17061645 ATTGAATGAA
1 A-TGAATGAA
17061655 ATGAATGAA
1 ATGAATGAA
17061664 ATGAATGAA
1 ATGAATGAA
*
17061673 TTGAATGA
1 ATGAATGA
17061681 TTGAATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 25 0.76
10 8 0.24
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (9 bp):
ATGAATGAA
Found at i:17066891 original size:29 final size:29
Alignment explanation
Indices: 17066828--17066895 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
17066818 TAATCAACCG
17066828 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
17066857 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
17066886 CGCACACTTA
1 CGCACACTTA
17066896 CCTTTTTCCG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:17067015 original size:175 final size:174
Alignment explanation
Indices: 17066717--17067045 Score: 568
Period size: 175 Copynumber: 1.9 Consensus size: 174
17066707 TACTCAAGGT
* * *
17066717 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATATAAATAATTTGTA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
*
17066782 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
17066847 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* *
17066891 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTAT
1 ACTTACC-TTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTAT
*
17066956 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCATGCACACTTAGTGCCATG
65 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATG
* *
17067021 TACTTTAAACTCGCACACTTAGTGC
130 CACTTTAAACTCACACACTTAGTGC
17067046 TGTACAATTT
Statistics
Matches: 145, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
174 7 0.05
175 138 0.95
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:17067038 original size:29 final size:30
Alignment explanation
Indices: 17067004--17067076 Score: 107
Period size: 29 Copynumber: 2.5 Consensus size: 30
17066994 AATCAACCAT
*
17067004 GCACACTTAGTGCCATGTAC-TTTAAACTC
1 GCACACTTAGTGCCATGTACATTTAAACCC
17067033 GCACACTTAGTG-C-TGTACAATTTAAACCC
1 GCACACTTAGTGCCATGTAC-ATTTAAACCC
17067062 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
17067077 ATCTCATGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
27 5 0.13
28 1 0.03
29 32 0.82
30 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (30 bp):
GCACACTTAGTGCCATGTACATTTAAACCC
Found at i:17072325 original size:8 final size:9
Alignment explanation
Indices: 17072293--17072334 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
17072283 ATATGGATTA
17072293 AATTGAATG
1 AATTGAATG
*
17072302 AAATGAATG
1 AATTGAATG
17072311 AATTGAATG
1 AATTGAATG
*
17072320 -ATTGAACG
1 AATTGAATG
17072328 -ATTGAAT
1 AATTGAAT
17072335 TTGTATTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
8 13 0.45
9 16 0.55
ACGTcount: A:0.45, C:0.02, G:0.21, T:0.31
Consensus pattern (9 bp):
AATTGAATG
Found at i:17076338 original size:36 final size:35
Alignment explanation
Indices: 17076274--17076346 Score: 92
Period size: 36 Copynumber: 2.1 Consensus size: 35
17076264 AAGTAAGTAG
* *
17076274 TATTTATTTTTTATTTATTCTTAAATTTTAATTTT
1 TATTTATTTATTATATATTCTTAAATTTTAATTTT
** *
17076309 TATTTATTCTATTATATATTCTTTTATTTTATTTTT
1 TATTTATT-TATTATATATTCTTAAATTTTAATTTT
17076345 TA
1 TA
17076347 GACATCACTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
35 8 0.25
36 24 0.75
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (35 bp):
TATTTATTTATTATATATTCTTAAATTTTAATTTT
Found at i:17076345 original size:12 final size:12
Alignment explanation
Indices: 17076274--17076346 Score: 62
Period size: 12 Copynumber: 6.2 Consensus size: 12
17076264 AAGTAAGTAG
17076274 TATTTATT-TTT
1 TATTTATTCTTT
*
17076285 TATTTATTCTTA
1 TATTTATTCTTT
* *
17076297 AATTTTAAT-TTT
1 TA-TTTATTCTTT
*
17076309 TATTTATTCTAT
1 TATTTATTCTTT
*
17076321 TATATATTCTTT
1 TATTTATTCTTT
17076333 TATTTTATT-TTT
1 TA-TTTATTCTTT
17076345 TA
1 TA
17076347 GACATCACTG
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
11 13 0.27
12 25 0.52
13 10 0.21
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (12 bp):
TATTTATTCTTT
Found at i:17087624 original size:23 final size:23
Alignment explanation
Indices: 17087591--17087647 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
17087581 CTCCAAGCAA
*
17087591 ACGGGCGTGTGTGTTGCCTCCAC
1 ACGGGCGTGTGTGCTGCCTCCAC
* *
17087614 ATGGGCATGTGTGCTGCCTCCAC
1 ACGGGCGTGTGTGCTGCCTCCAC
17087637 ACGGGCGTGTG
1 ACGGGCGTGTG
17087648 AGGCTTTAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.11, C:0.28, G:0.37, T:0.25
Consensus pattern (23 bp):
ACGGGCGTGTGTGCTGCCTCCAC
Found at i:17090229 original size:7 final size:7
Alignment explanation
Indices: 17090217--17090255 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
17090207 TCACTCATTT
17090217 TCTTTTC
1 TCTTTTC
17090224 TCTTTTC
1 TCTTTTC
17090231 TCTTTTC
1 TCTTTTC
17090238 TCTTTTC
1 TCTTTTC
17090245 TCTTTTC
1 TCTTTTC
17090252 TCTT
1 TCTT
17090256 AATATTGTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TCTTTTC
Found at i:17092910 original size:40 final size:40
Alignment explanation
Indices: 17092866--17093090 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
17092856 GCTCCTCGTT
*
17092866 CAAATGCCTTCGGGAC-AAAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAA-CCCGGATT-TAGTAACTCGCA
17092906 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17092946 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
17092986 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * ** * * * *
17093025 CAAATACCTT-TGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
17093066 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
17093091 CATCATTCAA
Statistics
Matches: 161, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 114 0.71
41 15 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:17093050 original size:119 final size:120
Alignment explanation
Indices: 17092868--17093090 Score: 274
Period size: 119 Copynumber: 1.9 Consensus size: 120
17092858 TCCTCGTTCA
* *
17092868 AATGCCTTCGGGACAAAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACAAAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
* *
17092933 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
** * * **
17092988 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATACCTT-TGGATCTTAGTCCGG
1 AATGCCTTCGGGACAAAGCCCGGATA-TAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
* * *
17093050 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
17093091 CATCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
118 4 0.05
119 63 0.72
120 20 0.23
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACAAAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:17100963 original size:41 final size:39
Alignment explanation
Indices: 17100930--17101088 Score: 203
Period size: 40 Copynumber: 4.0 Consensus size: 39
17100920 AATGCATTTT
* *
17100930 GGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTC
1 GGGACTTAACCCGGTT-TAGTAACTCGCACAAATGCCTTC
*
17100970 GGGACTTAACCCGAATTTAGTAACTCGCACAAATGCCTTC
1 GGGACTTAACCCG-GTTTAGTAACTCGCACAAATGCCTTC
*
17101010 GGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTC
1 GGGACTTAACCCGG-TTTAGTAACTCGCACAAATGCCTTC
* * * *
17101050 GGG-CTTAGCCCGGAATTAGTATCTCGCACAAATACCTTC
1 GGGACTTAACCCGG-TTTAGTAACTCGCACAAATGCCTTC
17101089 AGATCTTAGT
Statistics
Matches: 107, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 31 0.29
40 74 0.69
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
GGGACTTAACCCGGTTTAGTAACTCGCACAAATGCCTTC
Found at i:17101076 original size:39 final size:40
Alignment explanation
Indices: 17100947--17101088 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
17100937 AGCCCGGTTA
17100947 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCC-GAATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAA-T
*
17100987 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
* *
17101027 TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
* *
17101066 TAGTATCTCGCACAAATACCTTC
1 TAGTAACTCGCACAAATGCCTTC
17101089 AGATCTTAGT
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 31 0.33
40 61 0.65
41 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
Found at i:17107181 original size:79 final size:79
Alignment explanation
Indices: 17107090--17107247 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
17107080 CGCTATACTG
17107090 TAAGTTCCTAGTCGAGCATATGACCTGTAGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCATC
1 TAAGTTCCTAGTCGAGCATATGACCTGTAGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCATC
17107155 TAGGCAGATTCTTA
66 TAGGCAGATTCTTA
*
17107169 TAAGTTCCTAGTCGAGCATATGACCTGTTGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCATC
1 TAAGTTCCTAGTCGAGCATATGACCTGTAGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCATC
17107234 TAGGCAGATTCTTA
66 TAGGCAGATTCTTA
17107248 CTTTACTTAA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.39
Consensus pattern (79 bp):
TAAGTTCCTAGTCGAGCATATGACCTGTAGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCATC
TAGGCAGATTCTTA
Found at i:17110728 original size:19 final size:20
Alignment explanation
Indices: 17110698--17110742 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
17110688 AGAAAAATAA
17110698 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
*
17110718 TTTCT-GAAAATGGTTTAC-
1 TTTCTGGAAAATGATTTACT
17110736 TTTCTGG
1 TTTCTGG
17110743 TGTTTGGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:17125108 original size:47 final size:47
Alignment explanation
Indices: 17124996--17125163 Score: 146
Period size: 46 Copynumber: 3.6 Consensus size: 47
17124986 TCACTTGCGT
* * **
17124996 GAGCTAGTGTAAGACATGTCTGGGACAT-GTATCGGCCACATTACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCCACAAAACGA
* *
17125042 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAG-CATTAAAATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCAGCCA-CAAAACGA
* * ** * * *
17125090 GTGCTAGTGTAAGACATGTCTAGGACAT-GCATTGGCCTCGAGAC-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCCACAAAACGA
* *
17125135 TAAGCCAGTGTAAGACATGTCTGGGACAT
1 -GAGCTAGTGTAAGACATGTCTGGGACAT
17125164 CCATCGGCTA
Statistics
Matches: 98, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 45 0.46
47 30 0.31
48 22 0.22
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCCACAAAACGA
Found at i:17139212 original size:48 final size:47
Alignment explanation
Indices: 17139133--17139511 Score: 332
Period size: 48 Copynumber: 7.9 Consensus size: 47
17139123 TATTTGGGTG
* * * *
17139133 ATATGTGTGCTAGTGTAAGACTATGTTTGGGACATGGCATCGGCCAC
1 ATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * *
17139180 ATTATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCAC
1 A-TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * *
17139228 ATTATGAGAGCCAGTGTAAGACCATGTCTTGGACATGGAATC-GACATTG
1 A-TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA--C
* * * ** *
17139277 AGACGAGAGATAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTTGAC
1 ATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCC---AC
* * *
17139327 ATA--TGAGCCAATGTAAGACCATGTTTGGGACATGGCATCGGCCTC
1 ATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * *
17139372 GACATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTC
1 -ATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * * * * *
17139420 GACATGTAAGCCAATGTAAGACCATGTTTGGGACATGACATCGGCCTC
1 -ATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
* * *
17139468 GATATGTGAGCCAATGTAAAACCATGTCTAGGACATGGCATCGG
1 -ATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
17139512 TAATTTACCC
Statistics
Matches: 279, Mismatches: 43, Indels: 19
0.82 0.13 0.06
Matches are distributed among these distances:
45 1 0.00
46 2 0.01
47 4 0.01
48 266 0.95
49 3 0.01
50 2 0.01
52 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (47 bp):
ATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
Found at i:17139406 original size:144 final size:143
Alignment explanation
Indices: 17139143--17139511 Score: 388
Period size: 144 Copynumber: 2.6 Consensus size: 143
17139133 ATATGTGTGC
* * * *
17139143 TAGTGTAAGACTATGTTTGGGACATGGCATCGGCC--ACATTATGTGTGCTAGTGTAAGACCATG
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTGACA-TA--TGAGCCAATGTAAGACCATG
* * *
17139206 TCTGGGACATGGCGTTGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTTGGACATGGAATCG
63 TCTGGGACATGGCATCGGCCACATCATGAGAGCCAGTGTAAGACCATGTCTTGGACATGGAATCG
* *
17139271 ACATTGAGACG-AGAGA
128 ACATCGACACGTA-AGA
* * *
17139287 TAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTTGACATATGAGCCAATGTAAGACCATGTT
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCC-TGACATATGAGCCAATGTAAGACCATGTC
* * * *
17139352 TGGGACATGGCATCGGCCTCGA-CATGTGAGCTAGTGTAAGACCATGT-TTGGGACATGGCATCG
65 TGGGACATGGCATCGGCCAC-ATCATGAGAGCCAGTGTAAGACCATGTCTT-GGACATGGAATCG
* * * *
17139415 GCCTCGACATGTAAGC
128 ACATCGACACGTAAGA
* * * * * *
17139431 CAATGTAAGACCATGTTTGGGACATGACATCGGCCTCGATATGTGAGCCAATGTAAAACCATGTC
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCCT-GACATATGAGCCAATGTAAGACCATGTC
*
17139496 TAGGACATGGCATCGG
65 TGGGACATGGCATCGG
17139512 TAATTTACCC
Statistics
Matches: 188, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
143 3 0.02
144 178 0.95
145 2 0.01
146 2 0.01
147 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (143 bp):
TAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTGACATATGAGCCAATGTAAGACCATGTCT
GGGACATGGCATCGGCCACATCATGAGAGCCAGTGTAAGACCATGTCTTGGACATGGAATCGACA
TCGACACGTAAGA
Found at i:17139462 original size:96 final size:96
Alignment explanation
Indices: 17139146--17139511 Score: 409
Period size: 96 Copynumber: 3.8 Consensus size: 96
17139136 TGTGTGCTAG
* * * *
17139146 TGTAAGACTATGTTTGGGACATGGCATCGGCCAC-ATTATGTGTGCTAGTGTAAGACCATGTCTG
1 TGTAAGACCATGTTTGGGACATGACATCGGCCTCGA-TATGTGAGCTAGTGTAAGACCATGTCTG
* * * * *
17139210 GGACATGGCGTTGGCCAC-ATTATG-AGAGCCAG
65 GGACATGGCATCGGCCTCGA-CATGTA-AGCCAA
* * * * * * *
17139242 TGTAAGACCATGTCTT-GGACATGGA-ATCGACATTGAGACGAGAGATAGTGTAAGACCATGTCT
1 TGTAAGACCATGT-TTGGGACAT-GACATCGGCCTCGATATGTGAGCTAGTGTAAGACCATGTCT
* * * *
17139305 GGGACATGGCATTGGCCTTGACATATGAGCCAA
64 GGGACATGGCATCGGCCTCGACATGTAAGCCAA
* * *
17139338 TGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTGAGCTAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTTTGGGACATGACATCGGCCTCGATATGTGAGCTAGTGTAAGACCATGTCTGG
17139403 GACATGGCATCGGCCTCGACATGTAAGCCAA
66 GACATGGCATCGGCCTCGACATGTAAGCCAA
* * * *
17139434 TGTAAGACCATGTTTGGGACATGACATCGGCCTCGATATGTGAGCCAATGTAAAACCATGTCTAG
1 TGTAAGACCATGTTTGGGACATGACATCGGCCTCGATATGTGAGCTAGTGTAAGACCATGTCTGG
17139499 GACATGGCATCGG
66 GACATGGCATCGG
17139512 TAATTTACCC
Statistics
Matches: 225, Mismatches: 38, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
95 3 0.01
96 217 0.96
97 5 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (96 bp):
TGTAAGACCATGTTTGGGACATGACATCGGCCTCGATATGTGAGCTAGTGTAAGACCATGTCTGG
GACATGGCATCGGCCTCGACATGTAAGCCAA
Found at i:17154562 original size:20 final size:20
Alignment explanation
Indices: 17154525--17154562 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17154515 TAAGGAATTG
*
17154525 ATTAAATTAGTCATTTTACT
1 ATTAAATTAGTCAATTTACT
17154545 ATTAAATATA-TCAATTTA
1 ATTAAAT-TAGTCAATTTA
17154563 GTTTAAGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (20 bp):
ATTAAATTAGTCAATTTACT
Found at i:17154658 original size:70 final size:68
Alignment explanation
Indices: 17154564--17154726 Score: 227
Period size: 69 Copynumber: 2.4 Consensus size: 68
17154554 ATCAATTTAG
*
17154564 TTTAAGTATTATTAAAAGAATTAAATAAGTTTAAACGGGAATAAAGTTAAACATTTATTATTTAA
1 TTTATGTATTATTAAAAGAATTAAATAAGTTTAAACGGGAATAAAGTT-AACATTTATTATTTAA
17154629 AAAA
65 AAAA
* * *
17154633 TTTATGTATTATTAAAAAGAATTAAATAAGTTTAAACTGTAATAGAGTTAACATTTATTATTTAA
1 TTTATGTATTATT-AAAAGAATTAAATAAGTTTAAACGGGAATAAAGTTAACATTTATTATTTAA
17154698 AAAA
65 AAAA
* * * *
17154702 ATTATTTATTGTTTAATAGAATTAA
1 TTTATGTATT-ATTAAAAGAATTAA
17154727 TATTTTTAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
69 50 0.60
70 34 0.40
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.40
Consensus pattern (68 bp):
TTTATGTATTATTAAAAGAATTAAATAAGTTTAAACGGGAATAAAGTTAACATTTATTATTTAAA
AAA
Found at i:17155113 original size:29 final size:30
Alignment explanation
Indices: 17155060--17155127 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 30
17155050 TCTTTACAAA
17155060 TTTAG-AATTTAGGTTTTGTACTTTT-ATT
1 TTTAGAAATTTAGGTTTTGTACTTTTAATT
* *
17155088 TTTAGAAATTTA-GTCTTTTTATTTTTCAATT
1 TTTAGAAATTTAGGT-TTTGTACTTTT-AATT
17155119 TTTA-AAATT
1 TTTAGAAATT
17155128 CAAGTCTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 7 0.21
29 15 0.44
30 5 0.15
31 7 0.21
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.60
Consensus pattern (30 bp):
TTTAGAAATTTAGGTTTTGTACTTTTAATT
Found at i:17156350 original size:30 final size:31
Alignment explanation
Indices: 17156314--17156374 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
17156304 TATTTTATTA
17156314 TTAATTTTGTT-ATTATTTTAAAGACATTTG
1 TTAATTTTGTTAATTATTTTAAAGACATTTG
* *
17156344 TTAATTTTTTTAATTATTTTAGAGACATTTG
1 TTAATTTTGTTAATTATTTTAAAGACATTTG
17156375 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (31 bp):
TTAATTTTGTTAATTATTTTAAAGACATTTG
Found at i:17173720 original size:41 final size:40
Alignment explanation
Indices: 17173625--17173770 Score: 141
Period size: 41 Copynumber: 3.6 Consensus size: 40
17173615 TACTCGAATG
* *
17173625 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCAACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
17173666 ACATTCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGC-GACT
* * * * *
17173707 ATATCCGGGCTAAGTCCCGAAAGAATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
17173747 ATATTCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
17173771 CTTGTGCGAG
Statistics
Matches: 84, Mismatches: 18, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
40 26 0.31
41 57 0.68
42 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:17179651 original size:40 final size:40
Alignment explanation
Indices: 17179547--17179727 Score: 170
Period size: 40 Copynumber: 4.5 Consensus size: 40
17179537 TACTCGGATG
* * *
17179547 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTACTAAGTAACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
* * * *
17179588 ACATCTGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
* *
17179628 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * * **
17179668 ATATCCGGGTTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
17179707 ATATCC-GGCTAAACCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
17179728 ATGCTTGATT
Statistics
Matches: 114, Mismatches: 24, Indels: 7
0.79 0.17 0.05
Matches are distributed among these distances:
38 12 0.11
39 16 0.14
40 59 0.52
41 26 0.23
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:17188654 original size:46 final size:46
Alignment explanation
Indices: 17188555--17188725 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
17188545 TATCCCAAGT
* * *
17188555 CGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCATTTCGTAGC
1 CGATGCCATGTCCCAGACATAGTCTTACACTAG-CTA-CGTCTCG-AGC
17188603 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACGTCTCGAGGC
1 CGATGCCATGTCCCAGACATAGTCTTACACTAGC-TACGTCTCGA-GC
*
17188649 TGATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTCGTCTCGATGC
1 CGATGCCATGTCCCAGACATAGTCTTACACTAGCTA--CGTCTCGA-GC
* *
17188695 CGATGCCATGTCCTAGACATAATCTTACACT
1 CGATGCCATGTCCCAGACATAGTCTTACACT
17188726 GGCTCTTATA
Statistics
Matches: 109, Mismatches: 7, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 63 0.58
47 30 0.28
48 14 0.13
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATAGTCTTACACTAGCTACGTCTCGAGC
Found at i:17194051 original size:47 final size:47
Alignment explanation
Indices: 17194000--17194147 Score: 233
Period size: 47 Copynumber: 3.1 Consensus size: 47
17193990 TTTAGGATTT
17194000 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
17194047 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * * *
17194094 AATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
17194141 AATGTGA
1 AATGTGA
17194148 AATATGTATG
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 91 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:17194103 original size:25 final size:25
Alignment explanation
Indices: 17194028--17194103 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
17194018 ATGCATATAT
17194028 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
17194053 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
17194075 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
17194100 GTGA
1 GTGA
17194104 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:17194274 original size:52 final size:48
Alignment explanation
Indices: 17194117--17194303 Score: 286
Period size: 48 Copynumber: 3.8 Consensus size: 48
17194107 TGAACATGCA
17194117 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
17194165 TATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
17194213 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATGTATGAGATATG
*
17194265 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
17194304 GGCGATGTGC
Statistics
Matches: 126, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
47 1 0.01
48 79 0.63
49 1 0.01
50 2 0.02
51 1 0.01
52 41 0.33
53 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:17194287 original size:100 final size:96
Alignment explanation
Indices: 17194118--17194303 Score: 293
Period size: 100 Copynumber: 1.9 Consensus size: 96
17194108 GAACATGCAT
* *
17194118 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGTCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
17194183 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
17194214 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGATATGTATATGTGGTAAA
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATATATGAGATATGTATATGTGGTAAA
*
17194278 GCCGAATGGCTAGTGTGAAATATGTA
61 GCCGAATGGCTAATGTGAAATATGTA
17194304 GGCGATGTGC
Statistics
Matches: 82, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
98 1 0.01
99 1 0.01
100 52 0.63
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:17194594 original size:37 final size:37
Alignment explanation
Indices: 17194449--17194593 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
17194439 GGAAATATAT
17194449 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
17194486 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
17194523 TCCGAGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
17194560 TCCGGGTAAGACCCGATAACTTCGTGTGAAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
17194594 TCGTCTGAGC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:17196225 original size:40 final size:40
Alignment explanation
Indices: 17195864--17196213 Score: 569
Period size: 40 Copynumber: 8.8 Consensus size: 40
17195854 GAGAATTGAG
*
17195864 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
17195904 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
17195944 AGTGATATATCCGGGCT--GTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
17195982 AGTGATGTATCCAGACTAAGTCCCGAAGAGAATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
17196022 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
17196062 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
17196102 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
17196142 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
17196182 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
17196214 ATCATGCTGG
Statistics
Matches: 289, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
38 35 0.12
40 254 0.88
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:17200234 original size:47 final size:47
Alignment explanation
Indices: 17200183--17200330 Score: 206
Period size: 47 Copynumber: 3.1 Consensus size: 47
17200173 TTTAGGATTT
17200183 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
17200230 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *** * * *
17200277 AATATGGTGAATACAAACATGCATATATGTGGTAAAGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
17200324 AATGTGA
1 AATGTGA
17200331 AATATGTATG
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 87 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:17200459 original size:98 final size:96
Alignment explanation
Indices: 17200301--17200484 Score: 316
Period size: 98 Copynumber: 1.9 Consensus size: 96
17200291 AAACATGCAT
*
17200301 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
17200366 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
17200397 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
17200461 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
17200485 GGCGATGTGC
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
97 2 0.02
98 53 0.64
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:17200500 original size:50 final size:48
Alignment explanation
Indices: 17200300--17200484 Score: 309
Period size: 48 Copynumber: 3.8 Consensus size: 48
17200290 CAAACATGCA
17200300 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
17200348 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
17200396 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
17200446 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
17200485 GGCGATGTGC
Statistics
Matches: 128, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
47 1 0.01
48 81 0.63
49 4 0.03
50 41 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:17200775 original size:37 final size:37
Alignment explanation
Indices: 17200630--17200774 Score: 254
Period size: 37 Copynumber: 3.9 Consensus size: 37
17200620 GGAAATATAT
17200630 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
17200667 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
17200704 TCCGGGTAAGACCCGATGACTACATGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
17200741 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
17200775 TCGTCTGAGC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:17208660 original size:30 final size:31
Alignment explanation
Indices: 17208601--17208661 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
17208591 ACTTAACAAG
17208601 CAAATGTCTCTAAAATAATTAAAAAAATTAA
1 CAAATGTCTCTAAAATAATTAAAAAAATTAA
* *
17208632 CAAATGTCTTTAAAATAA-TAACAAAATTAA
1 CAAATGTCTCTAAAATAATTAAAAAAATTAA
17208662 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (31 bp):
CAAATGTCTCTAAAATAATTAAAAAAATTAA
Found at i:17210345 original size:69 final size:70
Alignment explanation
Indices: 17210247--17210410 Score: 240
Period size: 70 Copynumber: 2.4 Consensus size: 70
17210237 TTTAAAAATA
* * * * *
17210247 TTAATTCTATTAAACAATAAATAATTTTTTTAAATAATAAATG-TTAACTCTATTACAGTTTAAA
1 TTAATTCTTTTTAATAATACATAAATTTTTTAAATAATAAATGTTTAACTCTATTACAGTTTAAA
17210311 CTTAT
66 CTTAT
* * *
17210316 TTAATTCTTTTTAATAATACATAAATTTTTTAAATAATAAATGTTTAACTTTATTCCCGTTTAAA
1 TTAATTCTTTTTAATAATACATAAATTTTTTAAATAATAAATGTTTAACTCTATTACAGTTTAAA
17210381 CTTAT
66 CTTAT
*
17210386 TTAATTCTTTTTAATAATACTTAAA
1 TTAATTCTTTTTAATAATACATAAA
17210411 CTAAATTGAT
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
69 38 0.45
70 47 0.55
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.48
Consensus pattern (70 bp):
TTAATTCTTTTTAATAATACATAAATTTTTTAAATAATAAATGTTTAACTCTATTACAGTTTAAA
CTTAT
Found at i:17241423 original size:119 final size:120
Alignment explanation
Indices: 17241241--17241463 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
17241231 TCCTCGTTCA
*
17241241 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
17241306 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
17241361 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
17241423 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
17241464 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:17241463 original size:40 final size:40
Alignment explanation
Indices: 17241239--17241463 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
17241229 GCTCCTCGTT
* *
17241239 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
17241279 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
17241319 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
17241359 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
17241398 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
17241439 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
17241464 CATCATTCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 119 0.73
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:17249327 original size:39 final size:40
Alignment explanation
Indices: 17249249--17249417 Score: 227
Period size: 39 Copynumber: 4.3 Consensus size: 40
17249239 GCTCCTCGTT
* * * *
17249249 CAAATGCATTTGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
17249289 CAAATGCCTTCGGGACTTAACCC-GATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
17249328 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
17249368 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
17249407 CAAATACCTTC
1 CAAATGCCTTC
17249418 AGATCTTAGT
Statistics
Matches: 117, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
39 67 0.57
40 50 0.43
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:17249352 original size:79 final size:79
Alignment explanation
Indices: 17249249--17249417 Score: 225
Period size: 79 Copynumber: 2.1 Consensus size: 79
17249239 GCTCCTCGTT
* * *
17249249 CAAATGCATTTGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC-
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCG
*
17249312 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
* * *
17249328 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGA
*
17249393 ATTAGTATCTCGCA
66 ATTAGTAACTCGCA
*
17249407 CAAATACCTTC
1 CAAATGCCTTC
17249418 AGATCTTAGT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
78 7 0.09
79 70 0.89
80 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGA
ATTAGTAACTCGCA
Found at i:17249432 original size:79 final size:79
Alignment explanation
Indices: 17249269--17249470 Score: 214
Period size: 79 Copynumber: 2.6 Consensus size: 79
17249259 TGGGACATAG
*
17249269 CCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCACAAAT
1 CCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAATTAGTAACTCGCACAAAT
* *
17249333 GCCTTCGGGACTTAA
65 ACCTTCGAGACTTAA
* * *
17249348 CCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAAT
1 CCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCC-GAATTAGTAACTCGCACAAAT
*
17249412 ACCTTC-AGATCTTAG
65 ACCTTCGAGA-CTTAA
* * * * * * *
17249427 TCCGGATATGGTCACTTAGCATAAA-GCCTTCGGGACTTAGCCCG
1 CCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCG
17249471 GACATCATTC
Statistics
Matches: 104, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
78 9 0.09
79 79 0.76
80 16 0.15
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (79 bp):
CCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAATTAGTAACTCGCACAAATA
CCTTCGAGACTTAA
Found at i:17255523 original size:79 final size:79
Alignment explanation
Indices: 17255432--17255589 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
17255422 CGCTATACTG
17255432 TAAGTTCCTAGTCGAGCATATGACCTGTAGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCATC
1 TAAGTTCCTAGTCGAGCATATGACCTGTAGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCATC
17255497 TAGGCAGATTCTTA
66 TAGGCAGATTCTTA
*
17255511 TAAGTTCCTAGTCGAGCATATGACCTGTTGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCATC
1 TAAGTTCCTAGTCGAGCATATGACCTGTAGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCATC
17255576 TAGGCAGATTCTTA
66 TAGGCAGATTCTTA
17255590 CTTTACTTAA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.39
Consensus pattern (79 bp):
TAAGTTCCTAGTCGAGCATATGACCTGTAGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCATC
TAGGCAGATTCTTA
Found at i:17258647 original size:147 final size:147
Alignment explanation
Indices: 17258380--17258651 Score: 334
Period size: 147 Copynumber: 1.9 Consensus size: 147
17258370 CATTTCATCT
* * * *
17258380 CATTTCAAACCTTGATGCTCGAACACAACAATGTCCCCTCCACAAGGCCCGGAGCTTCACATATC
1 CATTTCAAACATTGATGCTCAAACACAACAATATCACCTCCACAAGGCCCGGAGCTTCACATATC
* * * **** ** *
17258445 ATGGTTTGTACCTAGCAATACTGGATTGTGGAATCTAATGAAAATTCCATTTCCCTATCCCTCGG
66 ACGGTTTGAACCTAGCAAAACTGGATTCCAAAATCTAACAAAAACTCCATTTCCCTATCCCTCGG
17258510 CCTATTCCTCTATTTTC
131 CCTATTCCTCTATTTTC
* * * *
17258527 CATTTCTAACATTGATGCTCAAACATC-ACAATATCACCTCTACAAGGTCTGGAGCTTCACATAT
1 CATTTCAAACATTGATGCTCAAACA-CAACAATATCACCTCCACAAGGCCCGGAGCTTCACATAT
17258591 CACGGTTTGCAACC-AGCAAGAAC-GGATTCCAAAATCTAACAAAAACTCCATTTCCCTATCC
65 CACGGTTTG-AACCTAGCAA-AACTGGATTCCAAAATCTAACAAAAACTCCATTTCCCTATCC
17258652 ATCTCATCAA
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
147 98 0.94
148 6 0.06
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (147 bp):
CATTTCAAACATTGATGCTCAAACACAACAATATCACCTCCACAAGGCCCGGAGCTTCACATATC
ACGGTTTGAACCTAGCAAAACTGGATTCCAAAATCTAACAAAAACTCCATTTCCCTATCCCTCGG
CCTATTCCTCTATTTTC
Found at i:17259065 original size:20 final size:20
Alignment explanation
Indices: 17259040--17259085 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
17259030 AGAAAAATAA
17259040 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
*
17259060 TTTCT-GAAAATGGTTTACT
1 TTTCTGGAAAATGATTTACT
17259079 TTTCTGG
1 TTTCTGG
17259086 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:17262352 original size:46 final size:45
Alignment explanation
Indices: 17262293--17262459 Score: 174
Period size: 46 Copynumber: 3.6 Consensus size: 45
17262283 GCCCATAAGC
*
17262293 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATACGT
1 GAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCATACGT
* * * * * **
17262339 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCATCCA-TACGT
* * *
17262386 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCATACGT
*
17262432 TAACTCGGACTCAACTCAACGAGTTCGG
1 GAACTCGGACTCAACTCAACGAGTTCGG
17262460 ATGCTCAACC
Statistics
Matches: 96, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
45 1 0.01
46 59 0.61
47 34 0.35
48 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCATCCATACGT
Found at i:17262451 original size:93 final size:93
Alignment explanation
Indices: 17262292--17262463 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
17262282 CGCCCATAAG
* * * *
17262292 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATACGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17262357 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* *
17262385 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTTAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
17262450 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
17262464 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:17263860 original size:39 final size:40
Alignment explanation
Indices: 17263783--17263862 Score: 110
Period size: 39 Copynumber: 2.0 Consensus size: 40
17263773 AACCATAAAC
*
17263783 AGTCTAAGCTTCAATTGCAATATTCTCCATACACATTATG
1 AGTCTAAGCTTCAAGTGCAATATTCTCCATACACATTATG
* *
17263823 AGTCTGAA-CTTCAAGTGCAA-ATTCTCTATACAGATTATG
1 AGTCT-AAGCTTCAAGTGCAATATTCTCCATACACATTATG
17263862 A
1 A
17263863 AAGCATATCA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 18 0.50
40 16 0.44
41 2 0.06
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (40 bp):
AGTCTAAGCTTCAAGTGCAATATTCTCCATACACATTATG
Found at i:17282572 original size:17 final size:18
Alignment explanation
Indices: 17282550--17282585 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17282540 TATAGTTTGA
*
17282550 TATTCG-GTTATTTGAAT
1 TATTCGAGTTATTCGAAT
17282567 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
17282585 T
1 T
17282586 TGAAAACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.50
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:17293212 original size:46 final size:46
Alignment explanation
Indices: 17293141--17293314 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
17293131 GTAACCCGCC
17293141 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATT
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATT
* *
17293187 CATTAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACA-T
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCATT
* * * * ** * *
17293236 C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGAACATTCGCATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATT
17293280 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
17293315 ATGCCCAAAT
Statistics
Matches: 103, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 2 0.02
45 2 0.02
46 59 0.57
47 25 0.24
48 3 0.03
49 3 0.03
50 2 0.02
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATT
Found at i:17293307 original size:93 final size:93
Alignment explanation
Indices: 17293148--17293319 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
17293138 GCCCATAAGT
** * * *
17293148 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATTCATTAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17293213 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* *
17293241 GAACTCGGACTCAACTCAACGAGTTTGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17293306 CGAGCTCGGATGCC
66 CGAGCTCGGATGCC
17293320 CAAATATTCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:17293334 original size:46 final size:45
Alignment explanation
Indices: 17293145--17293334 Score: 129
Period size: 46 Copynumber: 4.1 Consensus size: 45
17293135 CCCGCCCATA
* * *
17293145 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGC-ATTCATT-
1 AGTGAACTCGGACTCAACTCAACGAGCTC-GG-ATGCCCAATT-ATTC
* *
17293191 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAATT--AT-TC
* * * * * * * *
17293239 A-CGAACTCGGACTCAACTCAACGAGTTTGAACATTCGC-ATCCA-TA
1 AGTGAACTCGGACTCAACTCAACGAGCTCG--GATGCCCAAT-TATTC
*
17293284 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAAATATTCC
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAATTATT-C
17293330 AGTGA
1 AGTGA
17293335 CATGTCACTT
Statistics
Matches: 109, Mismatches: 24, Indels: 22
0.70 0.15 0.14
Matches are distributed among these distances:
44 7 0.06
45 8 0.07
46 62 0.57
47 27 0.25
48 2 0.02
49 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAATTATTC
Found at i:17300429 original size:19 final size:19
Alignment explanation
Indices: 17300400--17300442 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
17300390 ATATGGGTAT
*
17300400 AATAA-TTCTAGTCCTCAA
1 AATAACTTCTAGACCTCAA
17300418 AATAACTTCTAGACCTCAA
1 AATAACTTCTAGACCTCAA
17300437 AATAAC
1 AATAAC
17300443 CCATACAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.44, C:0.23, G:0.05, T:0.28
Consensus pattern (19 bp):
AATAACTTCTAGACCTCAA
Found at i:17302368 original size:42 final size:41
Alignment explanation
Indices: 17302252--17302371 Score: 100
Period size: 43 Copynumber: 2.9 Consensus size: 41
17302242 GTCTGAGACA
* * * *
17302252 TCGTGTAAGACCGTGTTTGGGACATAGGCCTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATT-AGATT
* * *
17302294 TACATATAAGACCATGTCTGGAACATCA-GCATCGTATCT-GATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGCATCG-AT-TAGATT
* *
17302337 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGAT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAT
17302372 ATTGAATTAC
Statistics
Matches: 61, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
41 3 0.05
42 26 0.43
43 28 0.46
44 3 0.05
45 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTAGATT
Found at i:17302824 original size:14 final size:13
Alignment explanation
Indices: 17302804--17302833 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17302794 TTTTGAAAGT
*
17302804 GTATTTTTGTTAA
1 GTATTTTTCTTAA
17302817 GTATTTTTCTTAA
1 GTATTTTTCTTAA
17302830 GTAT
1 GTAT
17302834 GGCGTGTATA
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:0.23, C:0.03, G:0.13, T:0.60
Consensus pattern (13 bp):
GTATTTTTCTTAA
Found at i:17308576 original size:46 final size:46
Alignment explanation
Indices: 17308498--17308664 Score: 135
Period size: 46 Copynumber: 3.6 Consensus size: 46
17308488 TGTAACCCGC
* * * *
17308498 CCATAAGCGAACTCAGACACAAATCAAGGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
17308544 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * * *
17308594 -C-TCA-CGAACTCGGACTCAACTCAACAAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
17308637 CCATAAGTGAACTCGGACTCAAGTCAAC
1 CCATAAGCGAACTCGGACTCAACTCAAC
17308665 AAGTTCGGAT
Statistics
Matches: 95, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 50 0.53
47 25 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:17310983 original size:30 final size:30
Alignment explanation
Indices: 17310939--17311007 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
17310929 TAAAGATAAC
*
17310939 AAGAAAACC-GAATAAAGAAATCCAAG-ATA
1 AAGAAACCCAGAATAAAGAAAT-CAAGAATA
* *
17310968 GAGAAACCCAGAATAAAGAAATCTAGAATA
1 AAGAAACCCAGAATAAAGAAATCAAGAATA
17310998 AAGAAACCCA
1 AAGAAACCCA
17311008 AGATATGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 10 0.29
30 24 0.71
ACGTcount: A:0.59, C:0.16, G:0.14, T:0.10
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCAAGAATA
Found at i:17310987 original size:15 final size:15
Alignment explanation
Indices: 17310939--17311007 Score: 70
Period size: 15 Copynumber: 4.7 Consensus size: 15
17310929 TAAAGATAAC
*
17310939 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
17310953 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
*
17310968 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
* *
17310983 AAGAAATCTAGAATA
1 AAGAAACCCAGAATA
17310998 AAGAAACCCA
1 AAGAAACCCA
17311008 AGATATGATA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
14 9 0.20
15 34 0.77
16 1 0.02
ACGTcount: A:0.59, C:0.16, G:0.14, T:0.10
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:17314024 original size:47 final size:47
Alignment explanation
Indices: 17313963--17314185 Score: 176
Period size: 47 Copynumber: 4.8 Consensus size: 47
17313953 CATCCATAAG
* *
17313963 TGAACTCGGGCTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCA
* * ** *
17314010 TGAACTCGGACTCAACTCAATGAGTTTCTGATG--T--TCGCATCCATAA
1 TGAACTCGGACTCAACTCAACGAG-TTCAGATGCCTAGTTACAT-C-TCA
**
17314056 GTGAACTCGGACTCAACTCAACGAGTTGGGATGCCTAGTTACATCTCA
1 -TGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCA
** * * *
17314104 CAAACTCGGACTCAACTCAACGAGTTC-G--GAC--GTTCGCATCCATAA
1 TGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT-C-TCA
*
17314149 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA
1 -TGAACTCGGACTCAACTCAACGAGTTCAGATGCCTA
17314186 AATATCCGAA
Statistics
Matches: 137, Mismatches: 22, Indels: 30
0.72 0.12 0.16
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 7 0.05
45 3 0.02
46 35 0.26
47 70 0.51
48 9 0.07
49 3 0.02
50 4 0.03
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (47 bp):
TGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:17314181 original size:93 final size:93
Alignment explanation
Indices: 17313917--17314185 Score: 403
Period size: 94 Copynumber: 2.9 Consensus size: 93
17313907 CGCCCATAAG
* * * * * *
17313917 CAAACTCAGACTCAACCCAAGGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGGCTCAACTCA
1 CAAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
17313982 ACGAGCTCAGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
** * * *
17314010 TGAACTCGGACTCAACTCAATGAGTTTCTGATGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CAAACTCGGACTCAACTCAACGAG-TTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTC
*
17314075 AACGAGTTGGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
17314104 CAAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CAAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
17314169 ACGAGTTCGGATGCCTA
66 ACGAGTTCGGATGCCTA
17314186 AATATCCGAA
Statistics
Matches: 156, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
93 74 0.47
94 82 0.53
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
CAAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:17322011 original size:20 final size:19
Alignment explanation
Indices: 17321983--17322020 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
17321973 TTTTAAAGAC
*
17321983 TTTACTTTATTTTTATTTG
1 TTTACTTTATCTTTATTTG
17322002 TTTACTTTTATCTTTATTT
1 TTTAC-TTTATCTTTATTT
17322021 ACATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTACTTTATCTTTATTTG
Found at i:17322064 original size:24 final size:25
Alignment explanation
Indices: 17322014--17322065 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
17322004 TACTTTTATC
*
17322014 TTTATTTACATTTTTAAAATTACTT
1 TTTATTTACATTTTTAAAACTACTT
* *
17322039 TTTATTT-TATTTTTAAGACTA-TT
1 TTTATTTACATTTTTAAAACTACTT
17322062 TTTA
1 TTTA
17322066 CTTCATCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.25
24 11 0.46
25 7 0.29
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTATTTACATTTTTAAAACTACTT
Found at i:17331405 original size:25 final size:25
Alignment explanation
Indices: 17331371--17331425 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
17331361 ACACACAGAG
17331371 TAAGCTTGAATAGCTTAGTAAGTCA
1 TAAGCTTGAATAGCTTAGTAAGTCA
17331396 TAAGCTTGAATAGCTTAGTAAGTCA
1 TAAGCTTGAATAGCTTAGTAAGTCA
17331421 TAAGC
1 TAAGC
17331426 AAATAAATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (25 bp):
TAAGCTTGAATAGCTTAGTAAGTCA
Found at i:17335837 original size:698 final size:697
Alignment explanation
Indices: 17333954--17336048 Score: 3915
Period size: 699 Copynumber: 3.0 Consensus size: 697
17333944 GGCCACACGG
*
17333954 GCGTGTGTCCCTTGTTTTGAGAAAAACAATTATAAGTGTAACACCCCGTACCCGAGACCGTTGCC
1 GCGTGTGTCCCTTGTTTAGAGAAAAA-AATTATAAGTGTAACACCCCGTACCCGAGACCGTTGCC
17334019 GGAGTCGAACACGAGGTGCTAACAGACTTATTTCATTGTAAAACACAGTTCATTTAAAATTTCCA
65 GGAGTCGAACACGAGGTGCTAACAGACTTATTTCATTGTAAAACACAGTTCATTTAAAATTTCCA
17334084 GACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAACTCGAAAA
130 GACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAACTCGAAAA
* *
17334149 CAAGTTTCGTAATTTTTTCTGAAACTAGACTCATATGTCCATCTAAAAATTTTTTTCTATAATTT
195 CAAGTTCCGTAATTTTTTCTGAAACTAGACTCATATGTCCATCTACAAATTTTTTTCTATAATTT
17334214 TTGGTCAGGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTGTTTCAGGGTTCGACTGCTCT
260 TTGGTCAGGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTGTTTCAGGGTTCGACTGCTCT
*
17334279 GACCTTCATGCATTACGACTTATATATCTCCCTGTACAGGGCTTCAATACTTATGCTGTTTGTTT
325 GACCTTCATGCATTACGACTTATATATCTCCCTGTACAGGGCTTCAATACTTATGCCGTTTGTTT
*
17334344 CTAACGAAACTAGACTCAAAAAGAAATCTATAAATATATGGCATGACCTCTAATTATCTCTGGTT
390 CTAACGAAACTAGACTCAAAAAGGAATCTATAAATATATGGCATGACCTCTAATTATCTCTGGTT
*
17334409 AATTTATAGTGAATTTCCAAAGTCAGATCAGGGGATCCAGAAATCGCTCTGGCCCTGTTCCACGA
455 AATTTATAGTGAATTTCCAAATTCAGATCAGGGGATCCAGAAATCGCTCTGGCCCTGTTCCACGA
17334474 AAACTTAAATATCCCTTAAAATACAACTCATATGATCGTTTCGTTTCTTCCGTATGAAAGTAGAT
520 AAACTTAAATATCCCTTAAAATACAACTCATATGATCGTTTCGTTTCTTCCGTATGAAAGTAGAT
*
17334539 TCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCATTGCCACTATTTTTAGTGATTT
585 TCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCATTCCCACTATTTTTAGTGATTT
*
17334604 TTCAAATTTACGCCACTGCTGCTGTTAGCATCTGCCTTTAAGGTAGAC
650 TTCAAATTTACGCCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGAC
*
17334652 GCGTGTGTCCCTTGTTTTGAGAAAAAAAAATTATAAGTGTAACACCCCGTACCCGAGACCGTTGC
1 GCGTGTGTCCCTTG-TTT-AGAGAAAAAAATTATAAGTGTAACACCCCGTACCCGAGACCGTTGC
*
17334717 CGGAGTCAAACACGAGGTGCTAACAGACTTATTTCATTGTAAAACACAGTTCATTTAAAATTTCC
64 CGGAGTCGAACACGAGGTGCTAACAGACTTATTTCATTGTAAAACACAGTTCATTTAAAATTTCC
17334782 AGACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAACTCGAAA
129 AGACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAACTCGAAA
*
17334847 ACAAGTTCCGTAATTTTTTCCTGGAACTAGACTCATATGTCCATCTAC-AATTTTTTTCTATAAT
194 ACAAGTTCCGTAATTTTTT-CTGAAACTAGACTCATATGTCCATCTACAAATTTTTTTCTATAAT
17334911 TTTTGGTCAGGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTGTTTCAGGGTTCGACTGCT
258 TTTTGGTCAGGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTGTTTCAGGGTTCGACTGCT
*
17334976 CTGACCTTCATGCATTACAACTTATATATCTCCCTGTACAGGGCTTCAATACTTATGCCGTTTGT
323 CTGACCTTCATGCATTACGACTTATATATCTCCCTGTACAGGGCTTCAATACTTATGCCGTTTGT
17335041 TTCTAACGAAACTAGACTCAAAAAGGAATCTATAAATATATGGCATGACCTCTAATTATCTCTGG
388 TTCTAACGAAACTAGACTCAAAAAGGAATCTATAAATATATGGCATGACCTCTAATTATCTCTGG
17335106 TTAATTTATAGTGAATTTCCAAAGTT-AGATCAGGGGATCCAGAAATCGCTCTGGCCCTGTTCCA
453 TTAATTTATAGTGAATTTCCAAA-TTCAGATCAGGGGATCCAGAAATCGCTCTGGCCCTGTTCCA
17335170 CGAAAACTTAAATATCCCTTAAAATACAACTCATATGATCGTTTCGTTTCTTCCGTATGAAAGTA
517 CGAAAACTTAAATATCCCTTAAAATACAACTCATATGATCGTTTCGTTTCTTCCGTATGAAAGTA
*
17335235 GATTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCATTTCCACTATTTTTAGTGA
582 GATTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCATTCCCACTATTTTTAGTGA
17335300 TTTTTCAAATTTACGCCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGAC
647 TTTTTCAAATTTACGCCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGAC
17335351 GCGTGTGTCCCTTGTTTAGAGAAAAAAATTATAAGTGTAACACCCCGTACCCGAGACCGTTGCCG
1 GCGTGTGTCCCTTGTTTAGAGAAAAAAATTATAAGTGTAACACCCCGTACCCGAGACCGTTGCCG
17335416 GAGTCGAACACGAGGTGCTAACAGACTTATTTCATTGTAAAACACAGTTCATTTAAAATTTCCAG
66 GAGTCGAACACGAGGTGCTAACAGACTTATTTCATTGTAAAACACAGTTCATTTAAAATTTCCAG
*
17335481 ACAAGTTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAACTCGAAAAC
131 ACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAACTCGAAAAC
17335546 AAGTTCCGTAATTTTTTCATGAAACTAGACTCATATGTCCATCTACAAATTTTTTTCTATAATTT
196 AAGTTCCGTAATTTTTTC-TGAAACTAGACTCATATGTCCATCTACAAATTTTTTTCTATAATTT
17335611 TTGGTCAGGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTGTTTCAGGGTTCGACTGCTCT
260 TTGGTCAGGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTGTTTCAGGGTTCGACTGCTCT
* * *
17335676 GACCTTCATGCATTACGACTTATATATCTCCTTGTACAGGGCTTTAATACTTATGCCGTTTTTTT
325 GACCTTCATGCATTACGACTTATATATCTCCCTGTACAGGGCTTCAATACTTATGCCGTTTGTTT
*
17335741 CTAACGAAACTAGACTCAAAAAGGAATCTATAAATATATGGAATGACCTCTAATTATCTCTGGTT
390 CTAACGAAACTAGACTCAAAAAGGAATCTATAAATATATGGCATGACCTCTAATTATCTCTGGTT
17335806 AATTTATAGTGAATTTCCAAATTCAGATCAGGGGATCCAGAAATCGCTCTGGCCCTGTTCCACGA
455 AATTTATAGTGAATTTCCAAATTCAGATCAGGGGATCCAGAAATCGCTCTGGCCCTGTTCCACGA
* * *
17335871 AAACTTAAATATCCCTTAAAATACAACTCATATGATCATTTCGTTTCTTTCATATGAAAGTAGAT
520 AAACTTAAATATCCCTTAAAATACAACTCATATGATCGTTTCGTTTCTTCCGTATGAAAGTAGAT
*
17335936 TCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCTATTCCCACTATTTTTAGTGATTT
585 TCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCATTCCCACTATTTTTAGTGATTT
*
17336001 TTCAAATTTACACCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGAC
650 TTCAAATTTACGCCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGAC
17336049 TTTACCTATT
Statistics
Matches: 1363, Mismatches: 27, Indels: 14
0.97 0.02 0.01
Matches are distributed among these distances:
696 1 0.00
697 220 0.16
698 459 0.34
699 649 0.48
700 34 0.02
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (697 bp):
GCGTGTGTCCCTTGTTTAGAGAAAAAAATTATAAGTGTAACACCCCGTACCCGAGACCGTTGCCG
GAGTCGAACACGAGGTGCTAACAGACTTATTTCATTGTAAAACACAGTTCATTTAAAATTTCCAG
ACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAACTCGAAAAC
AAGTTCCGTAATTTTTTCTGAAACTAGACTCATATGTCCATCTACAAATTTTTTTCTATAATTTT
TGGTCAGGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTGTTTCAGGGTTCGACTGCTCTG
ACCTTCATGCATTACGACTTATATATCTCCCTGTACAGGGCTTCAATACTTATGCCGTTTGTTTC
TAACGAAACTAGACTCAAAAAGGAATCTATAAATATATGGCATGACCTCTAATTATCTCTGGTTA
ATTTATAGTGAATTTCCAAATTCAGATCAGGGGATCCAGAAATCGCTCTGGCCCTGTTCCACGAA
AACTTAAATATCCCTTAAAATACAACTCATATGATCGTTTCGTTTCTTCCGTATGAAAGTAGATT
CATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCATTCCCACTATTTTTAGTGATTTT
TCAAATTTACGCCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGAC
Found at i:17336820 original size:40 final size:40
Alignment explanation
Indices: 17336737--17336956 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
17336727 ACCCAATTAT
** * *
17336737 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
17336775 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
17336815 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
17336855 CTTCGGGTCTTAGCCCAGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
17336895 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
17336935 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
17336957 CATTCTAATA
Statistics
Matches: 152, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.11
40 123 0.81
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:17341451 original size:46 final size:46
Alignment explanation
Indices: 17341328--17341454 Score: 218
Period size: 46 Copynumber: 2.8 Consensus size: 46
17341318 TGTAACCCGC
* * *
17341328 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
17341374 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
17341420 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
17341455 AATGCCCAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:17343758 original size:15 final size:16
Alignment explanation
Indices: 17343732--17343787 Score: 82
Period size: 15 Copynumber: 3.7 Consensus size: 16
17343722 CAAGGAAACC
17343732 GAATAAAGAAATCCAA
1 GAATAAAGAAATCCAA
*
17343748 G-ATAGAGAAATCC-A
1 GAATAAAGAAATCCAA
17343762 GAATAAAGAAATCC-A
1 GAATAAAGAAATCCAA
17343777 GAATAAAGAAA
1 GAATAAAGAAA
17343788 CCTAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 34 0.92
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (16 bp):
GAATAAAGAAATCCAA
Found at i:17346759 original size:46 final size:46
Alignment explanation
Indices: 17346692--17346820 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
17346682 TGTAACCCGC
* * * *
17346692 CCATAAGTGATCTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
17346738 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
17346784 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17346821 TGCCCAAATA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:17351045 original size:48 final size:48
Alignment explanation
Indices: 17350974--17351079 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
17350964 CAAGATAAAT
* * *
17350974 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
17351022 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
17351070 ATGTGTATAT
1 ATATGTATAT
17351080 ATTGTGGCCG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:17353002 original size:43 final size:43
Alignment explanation
Indices: 17352941--17353117 Score: 291
Period size: 43 Copynumber: 4.1 Consensus size: 43
17352931 ATGAAACTCA
*
17352941 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
* *
17352984 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGACTTTGTGCCG
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
*
17353027 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCG
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
* **
17353070 GTGATATGTATTCGGGTCTTCGTGCCTAGCAGGCTTAATGCCG
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
17353113 GTGAT
1 GTGAT
17353118 TCAAGCAAGG
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 124 1.00
ACGTcount: A:0.13, C:0.23, G:0.32, T:0.32
Consensus pattern (43 bp):
GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
Found at i:17353335 original size:29 final size:28
Alignment explanation
Indices: 17353297--17353379 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
17353287 AAATTCCGTT
17353297 AACCGAGCACTATGTGTGCGAGATCAGT-
1 AACCGAGCACTATGTGTGCGAGATC-GTC
** * * *
17353325 AATTGAGGCACTGTGTGTGCGAGTTCTTC
1 AACCGA-GCACTATGTGTGCGAGATCGTC
17353354 AACCGAGCACTATGTGTGCGAGATCG
1 AACCGAGCACTATGTGTGCGAGATCG
17353380 ATCAGTGGGC
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
28 22 0.51
29 21 0.49
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (28 bp):
AACCGAGCACTATGTGTGCGAGATCGTC
Found at i:17353391 original size:28 final size:27
Alignment explanation
Indices: 17353303--17353399 Score: 77
Period size: 28 Copynumber: 3.4 Consensus size: 27
17353293 CGTTAACCGA
* *
17353303 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCA-TCACTG-G
* * * * *
17353332 GCACTGTGTGTGCGAGTTCTTCAACCGA
1 GCACTATGTGTGCGAGATCATC-ACTGG
*
17353360 GCACTATGTGTGCGAGATCGATCAGTGG
1 GCACTATGTGTGCGAGATC-ATCACTGG
*
17353388 GCACTAAGTGTG
1 GCACTATGTGTG
17353400 TGAAATAAGA
Statistics
Matches: 52, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
28 31 0.60
29 21 0.40
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.27
Consensus pattern (27 bp):
GCACTATGTGTGCGAGATCATCACTGG
Found at i:17355898 original size:29 final size:29
Alignment explanation
Indices: 17355835--17355908 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
17355825 GTCATGAGAT
* * **
17355835 TGGCACTAAGTGTGCGGGTTTAAATTTTA
1 TGGCACTAAGTGTGCGAGTTTAAAGTGCA
**
17355864 CAGCACTAAGTGTGCGAGTTTAAAGTGCA
1 TGGCACTAAGTGTGCGAGTTTAAAGTGCA
17355893 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
17355909 CGGTTGATTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTTAAAGTGCA
Found at i:17356131 original size:174 final size:174
Alignment explanation
Indices: 17355866--17356193 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
17355856 AAATTTTACA
17355866 GCACTAAGTGTGCGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
17355931 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
17355996 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
17356040 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
17356105 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
17356170 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
17356194 ACCTTGAGTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:17370644 original size:26 final size:27
Alignment explanation
Indices: 17370615--17370767 Score: 143
Period size: 27 Copynumber: 5.8 Consensus size: 27
17370605 GATATACCAG
17370615 CATTTTACCCTAT-GGGGTATTTTGGT
1 CATTTTACCCTATGGGGGTATTTTGGT
17370641 CATTTTA-CCTATGGGGGGTATTTTGGT
1 CATTTTACCCTAT-GGGGGTATTTTGGT
** *
17370668 CATTTTACCCTATAAGGGAATTTTGGT
1 CATTTTACCCTATGGGGGTATTTTGGT
* * ** **
17370695 CATTTTACCTTATGAGACTATTTCAGT
1 CATTTTACCCTATGGGGGTATTTTGGT
* * *
17370722 CATTTTA-CTTATGGGGGTATTTCGAT
1 CATTTTACCCTATGGGGGTATTTTGGT
* *
17370748 CA-TTTACCTTATAGGGGTAT
1 CATTTTACCCTATGGGGGTAT
17370768 CCCAAAATTG
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
25 9 0.08
26 35 0.33
27 58 0.54
28 5 0.05
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.44
Consensus pattern (27 bp):
CATTTTACCCTATGGGGGTATTTTGGT
Found at i:17372358 original size:29 final size:28
Alignment explanation
Indices: 17372322--17372399 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
17372312 TCATGAGATT
17372322 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
17372352 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
17372379 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
17372400 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:17372616 original size:173 final size:174
Alignment explanation
Indices: 17372352--17372678 Score: 602
Period size: 173 Copynumber: 1.9 Consensus size: 174
17372342 AAATTGTACA
*
17372352 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
17372417 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGAC-TTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
17372481 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
17372525 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
17372590 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
17372655 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
17372679 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
173 113 0.76
174 35 0.24
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:17380492 original size:29 final size:29
Alignment explanation
Indices: 17380457--17380533 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
17380447 CATGAGATTG
* *
17380457 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGGGTTTAAAGTGCACA
* **
17380486 GCACTAAGTGTGCGAGTTTAAAGTGCATG
1 GCACTAAGTGTGCGGGTTTAAAGTGCACA
17380515 GCACTAAGTGTGCGCGGTT
1 GCACTAAGTGTGCG-GGTT
17380534 GATTATTAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 38 0.93
30 3 0.07
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTTAAAGTGCACA
Found at i:17380751 original size:174 final size:174
Alignment explanation
Indices: 17380486--17380813 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
17380476 AAATTGTACA
17380486 GCACTAAGTGTGCGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
17380551 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
17380616 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
17380660 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
17380725 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
17380790 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
17380814 ACCTTGAGTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:17384807 original size:48 final size:48
Alignment explanation
Indices: 17384736--17384839 Score: 172
Period size: 48 Copynumber: 2.2 Consensus size: 48
17384726 CAAGATAAAT
* * *
17384736 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
17384784 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
17384832 ATGTGTAT
1 ATATGTAT
17384840 TTATTGTGGC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:17385025 original size:37 final size:37
Alignment explanation
Indices: 17384975--17385046 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
17384965 GAAATATATT
*
17384975 CCGGGTAAGACCCGATGGCTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
*
17385012 CCGGGTAAGACCCGATGACTACGTGTGGGGATTAT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
17385047 TCGAGCTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.21, G:0.35, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
Found at i:17387888 original size:53 final size:54
Alignment explanation
Indices: 17387807--17388014 Score: 249
Period size: 53 Copynumber: 3.9 Consensus size: 54
17387797 TTTTCTTTTT
* * * *
17387807 GAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* **
17387860 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * *
17387914 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * * *
17387969 AAACTTATCAATACCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
17388015 ATCTTACCAA
Statistics
Matches: 134, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
52 2 0.01
53 45 0.34
54 41 0.31
55 44 0.33
56 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:17388003 original size:54 final size:54
Alignment explanation
Indices: 17387818--17388014 Score: 245
Period size: 55 Copynumber: 3.6 Consensus size: 54
17387808 AACTTACCAT
* * * *
17387818 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAAAACTCATCAA
* ** *
17387871 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA-AAACTCATCAA
* * *
17387926 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAAAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAAAACTCATCAA
* *
17387980 TACCATGCCTTGGCATGGTCTTACATGATATCCTT
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTT
17388015 ATCTTACCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 2 0.02
53 36 0.29
54 40 0.32
55 44 0.35
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAAAACTCATCAA
Found at i:17388093 original size:47 final size:47
Alignment explanation
Indices: 17387994--17388201 Score: 169
Period size: 47 Copynumber: 4.5 Consensus size: 47
17387984 ATGCCTTGGC
* * *** *
17387994 ATGGTCTTACATGATATCCTTATCTTA--CCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTACCTTATGCC-AATGCCATGTT-TTGAT
*
17388041 ATGGTCTTACATGGTATCCTTACCTTAGTGCCAATG-CATATTTTGAT
1 ATGGTCTTACATGGTATCCTTACCTTA-TGCCAATGCCATGTTTTGAT
* * * ** *
17388088 GTGGTCTTACATGG-AGTCCTTA-ATCAATGCTGATGCCATGTCTTGAT
1 ATGGTCTTACATGGTA-TCCTTACCT-TATGCCAATGCCATGTTTTGAT
* * * *
17388135 ATGGTCTTACACGGGATCCTTGCCTTA--CCAATGCCATGTTTTGAC
1 ATGGTCTTACATGGTATCCTTACCTTATGCCAATGCCATGTTTTGAT
17388180 ATGGTCTTACATGGTATCCTTA
1 ATGGTCTTACATGGTATCCTTA
17388202 ACCGTCAATT
Statistics
Matches: 127, Mismatches: 26, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
45 33 0.26
46 8 0.06
47 73 0.57
48 7 0.06
49 4 0.03
50 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.37
Consensus pattern (47 bp):
ATGGTCTTACATGGTATCCTTACCTTATGCCAATGCCATGTTTTGAT
Found at i:17394399 original size:25 final size:25
Alignment explanation
Indices: 17394345--17394399 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
17394335 AAACATTAAA
*
17394345 TTTAATTTAATATTAAGAGAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
17394370 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
17394394 TATTAA
1 T-TTAA
17394400 GATAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:17394433 original size:37 final size:36
Alignment explanation
Indices: 17394371--17394446 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
17394361 GAGAATCACT
*
17394371 TTAATATTAAATTAATAAAATACTATTAAGATAAATA
1 TTAATATTAAATTAATAAAATACTATTAAAATAAA-A
*
17394408 TTAA-ATTAAATTTAATATCAA-ACTATTAAAATAAAA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAAAA
17394444 TTA
1 TTA
17394447 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 10 0.29
37 23 0.66
38 2 0.06
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAAAA
Found at i:17394488 original size:21 final size:21
Alignment explanation
Indices: 17394463--17394504 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
17394453 GAATAGTTAA
17394463 TTTGAAATCAAATTCTCTAGT
1 TTTGAAATCAAATTCTCTAGT
17394484 TTTGAAATCAAATTCTCTAGT
1 TTTGAAATCAAATTCTCTAGT
17394505 AGAGTCCTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (21 bp):
TTTGAAATCAAATTCTCTAGT
Found at i:17399836 original size:46 final size:44
Alignment explanation
Indices: 17399736--17399843 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
17399726 TGTCTTTGAC
** * * *
17399736 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
* *
17399780 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCAAATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCC--ATATATAAT
17399826 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
17399844 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 30 0.55
46 25 0.45
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:17401232 original size:27 final size:27
Alignment explanation
Indices: 17401173--17401261 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
17401163 GTGCAAACCA
* * *
17401173 GTGTTTACTATCCCAATGGAC-ACCCT
1 GTGTTTACTATCTCAATGGGCTACCCC
17401199 GTGTTTACTATCTCAATGGGCTACCCC
1 GTGTTTACTATCTCAATGGGCTACCCC
* *
17401226 ATGTTTACTATCTCGATGGGCTACCCC
1 GTGTTTACTATCTCAATGGGCTACCCC
*
17401253 GTGGTTACT
1 GTGTTTACT
17401262 GGCCCGGTGA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 19 0.35
27 36 0.65
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (27 bp):
GTGTTTACTATCTCAATGGGCTACCCC
Found at i:17406100 original size:228 final size:228
Alignment explanation
Indices: 17405703--17406158 Score: 894
Period size: 228 Copynumber: 2.0 Consensus size: 228
17405693 TTTAGATTTT
17405703 CTTGTTGAATGCCTTTAGTTTCATGTTCTTTAAGTTTCTTTGCAGAAAAATCTAAACCTTTATAT
1 CTTGTTGAATGCCTTTAGTTTCATGTTCTTTAAGTTTCTTTGCAGAAAAATCTAAACCTTTATAT
17405768 TTTTCTTAAGCTTCACTTTAATGGTTTCTTTACTTTTCATTTCCATGTCCATTATCTTTATTTTC
66 TTTTCTTAAGCTTCACTTTAATGGTTTCTTTACTTTTCATTTCCATGTCCATTATCTTTATTTTC
17405833 AACAGAGTAGGTAAACCTCAAAGGGGGTGGTTGAAGACATGTGGGTAAGTTGATTTTTTTGGACA
131 AACAGAGTAGGTAAACCTCAAAGGGGGTGGTTGAAGACATGTGGGTAAGTTGATTTTTTTGGACA
17405898 AGGGACTAAAATTGTAATAAATTGGATTAAATC
196 AGGGACTAAAATTGTAATAAATTGGATTAAATC
*
17405931 CTTGTTGAATGCCTTTAGTTTCATGTTCTTTAAGTTTCTTTGCATAAAAATCTAAACCTTTATAT
1 CTTGTTGAATGCCTTTAGTTTCATGTTCTTTAAGTTTCTTTGCAGAAAAATCTAAACCTTTATAT
17405996 TTTTCTTAAGCTTCACTTTAATGGTTTCTTTACTTTTCATTTCCATGTCCATTATCTTTATTTTC
66 TTTTCTTAAGCTTCACTTTAATGGTTTCTTTACTTTTCATTTCCATGTCCATTATCTTTATTTTC
*
17406061 AATAGAGTAGGTAAACCTCAAAGGGGGTGGTTGAAGACATGTGGGTAAGTTGATTTTTTTGGACA
131 AACAGAGTAGGTAAACCTCAAAGGGGGTGGTTGAAGACATGTGGGTAAGTTGATTTTTTTGGACA
17406126 AGGGACTAAAATTGTAATAAATTGGATTAAATC
196 AGGGACTAAAATTGTAATAAATTGGATTAAATC
17406159 TTATAGACCT
Statistics
Matches: 226, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
228 226 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (228 bp):
CTTGTTGAATGCCTTTAGTTTCATGTTCTTTAAGTTTCTTTGCAGAAAAATCTAAACCTTTATAT
TTTTCTTAAGCTTCACTTTAATGGTTTCTTTACTTTTCATTTCCATGTCCATTATCTTTATTTTC
AACAGAGTAGGTAAACCTCAAAGGGGGTGGTTGAAGACATGTGGGTAAGTTGATTTTTTTGGACA
AGGGACTAAAATTGTAATAAATTGGATTAAATC
Found at i:17425489 original size:22 final size:22
Alignment explanation
Indices: 17425461--17425529 Score: 95
Period size: 22 Copynumber: 3.1 Consensus size: 22
17425451 ATTACTGTGA
17425461 TGTCTACGGTGTTGAGCTATCC
1 TGTCTACGGTGTTGAGCTATCC
*
17425483 TGTCTACGGTGTTGAGCCATCC
1 TGTCTACGGTGTTGAGCTATCC
* *
17425505 TGTCTATGGCGTTGAGCCT-TCC
1 TGTCTACGGTGTTGAG-CTATCC
17425527 TGT
1 TGT
17425530 TGACTTATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 41 0.98
23 1 0.02
ACGTcount: A:0.12, C:0.25, G:0.28, T:0.36
Consensus pattern (22 bp):
TGTCTACGGTGTTGAGCTATCC
Found at i:17425692 original size:27 final size:27
Alignment explanation
Indices: 17425662--17425714 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
17425652 ACATCTGATA
*
17425662 CTGATTCTG-CACTGGGCTTAGGCCCAC
1 CTGATTCTGTCAATGGGC-TAGGCCCAC
*
17425689 CTGATTCTGTTAATGGGCTAGGCCCA
1 CTGATTCTGTCAATGGGCTAGGCCCA
17425715 ACTGTTACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.28
Consensus pattern (27 bp):
CTGATTCTGTCAATGGGCTAGGCCCAC
Found at i:17428402 original size:53 final size:53
Alignment explanation
Indices: 17428299--17428403 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 53
17428289 TTCCTTTTCA
* * * * *
17428299 AACTTACCATTGCCATGTCTTGACACGGTCTTACGCGGTATCCTTGCCTTATG
1 AACTCACCATTGCCATGCCTTGACACGGTCTTACACGGGATCCTTACCTTATG
* * * *
17428352 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTACCTTAT
1 AACTCACCATTGCCATGCCTTGACACGGTCTTACACGGGATCCTTACCTTAT
17428404 CGTAGTTTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACACGGTCTTACACGGGATCCTTACCTTATG
Found at i:17452619 original size:39 final size:40
Alignment explanation
Indices: 17452518--17452741 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
17452508 TTGAATGATG
* *
17452518 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
17452557 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
17452598 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
17452637 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
17452676 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
17452715 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
17452742 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
39 75 0.45
40 78 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:17452705 original size:79 final size:80
Alignment explanation
Indices: 17452518--17452741 Score: 287
Period size: 79 Copynumber: 2.8 Consensus size: 80
17452508 TTGAATGATG
* * * *
17452518 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATATCCGGGCTAAGACCCGAAGGCAT
*
17452581 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
17452598 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA-TCCGGGCTAAGACCCGAAGGCATT
*
17452660 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * * *
17452676 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
17452741 G
66 G
17452742 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 36 0.28
79 56 0.44
80 35 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:17452763 original size:79 final size:79
Alignment explanation
Indices: 17452518--17452774 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
17452508 TTGAATGATG
* * * * *
17452518 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
17452580 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
17452598 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
17452662 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
17452676 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
17452740 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
17452756 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
17452775 TACGTGATTT
Statistics
Matches: 153, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
77 1 0.01
78 36 0.24
79 68 0.44
80 47 0.31
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:17475507 original size:5 final size:6
Alignment explanation
Indices: 17475493--17475523 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
17475483 ACCTTGTGGC
17475493 AAAAGA AAAAGA AAAAGA AAAAG- AAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
17475524 GTGATGGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:17492890 original size:43 final size:43
Alignment explanation
Indices: 17492842--17492998 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
17492832 TATGTGTTAT
*
17492842 CGTGTAAGACCATGTGTGGGACGTTGGCATCGAT-TTGAGATTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATT-AGATTA
* * *
17492885 CGTGTAAGACCATGTCTGGGACATCGGCATC-ATATT-GATTT
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTAGATTA
* *
17492926 TGTGTAAGACCCTGTCTGGGACAG-TGGCATCGATATTCA-ATTA
1 CGTGTAAGACCATGTCTGGGAC-GTTGGCATCGATATT-AGATTA
* * * *
17492969 CATGTAAGACCACGTCTAGGATGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACGTTGGCAT
17492999 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 15, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
41 30 0.32
42 8 0.09
43 55 0.59
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTAGATTA
Found at i:17497776 original size:47 final size:47
Alignment explanation
Indices: 17497722--17497915 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
17497712 TTAGGATTTT
** * *
17497722 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
17497769 ATGTGATGAATGTGAACATGCATATATGTGAAAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
17497816 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
17497863 ATGTGATGAATATGAACATACATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
17497910 ATGTGA
1 ATGTGA
17497916 AATATGTATG
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:17498230 original size:37 final size:37
Alignment explanation
Indices: 17498125--17498230 Score: 167
Period size: 37 Copynumber: 2.9 Consensus size: 37
17498115 AATATATTCT
*
17498125 GGGTAAGACCCGATGACTACGTGTGGAGATTATATCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTATCC
*
17498162 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTATCC
* * *
17498199 GGGTAAGACCCGATAACTTCATGTGGAGATTT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTT
17498231 CGTCTAAGCT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTTTATCC
Found at i:17499612 original size:41 final size:41
Alignment explanation
Indices: 17499518--17499632 Score: 117
Period size: 41 Copynumber: 2.8 Consensus size: 41
17499508 ACTCGATATC
* * *
17499518 TCGCACACTAAGTGTTGTACATAGCCGAATCTA-TCTCAAA
1 TCGCACACTAAGTGTCGTACATAGCCAAAGCTATTCTCAAA
* * **
17499558 TCACACACTAAGTGTCGTACGTAGCCAAAGCTATTC-CGATT
1 TCGCACACTAAGTGTCGTACATAGCCAAAGCTATTCTC-AAA
* * *
17499599 TCGCACACTAAGTGCCATATATAGCCAAAGCTAT
1 TCGCACACTAAGTGTCGTACATAGCCAAAGCTAT
17499633 CTCGATCTCG
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
40 29 0.48
41 32 0.52
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (41 bp):
TCGCACACTAAGTGTCGTACATAGCCAAAGCTATTCTCAAA
Found at i:17499652 original size:41 final size:41
Alignment explanation
Indices: 17499561--17499664 Score: 129
Period size: 41 Copynumber: 2.5 Consensus size: 41
17499551 TCTCAAATCA
* * ** *
17499561 CACACTAAGTGTCGTACGTAGCCAAAGCTATTCCGATTTCG
1 CACACTAAGTGCCATATATAGCCAAAGCTATTCCGATCTCG
17499602 CACACTAAGTGCCATATATAGCCAAAGCTA-TCTCGATCTCG
1 CACACTAAGTGCCATATATAGCCAAAGCTATTC-CGATCTCG
* *
17499643 TACATTAAGTGCCATATATAGC
1 CACACTAAGTGCCATATATAGC
17499665 TGAAGTTATG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 2 0.04
41 53 0.96
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (41 bp):
CACACTAAGTGCCATATATAGCCAAAGCTATTCCGATCTCG
Found at i:17501903 original size:16 final size:16
Alignment explanation
Indices: 17501884--17501914 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17501874 CTTCTTCACT
17501884 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
17501900 TACTTACTTACTTAA
1 TACTCACTTACTTAA
17501915 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:17501920 original size:20 final size:20
Alignment explanation
Indices: 17501881--17501920 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
17501871 AAACTTCTTC
* *
17501881 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
17501901 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
17501921 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Done.