Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 296 of 328
Found at i:88282638 original size:39 final size:39
Alignment explanation
Indices: 88282563--88282706 Score: 216
Period size: 39 Copynumber: 3.7 Consensus size: 39
88282553 CCGCACAAAG
*
88282563 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * * * *
88282603 GCCTTTGGGCTTAGCTCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
*
88282642 GCCTTCGGGCTTAGCCCGGGTATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
88282681 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
88282707 TCGAACATTC
Statistics
Matches: 91, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 83 0.91
40 8 0.09
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:88282672 original size:78 final size:79
Alignment explanation
Indices: 88282523--88282705 Score: 251
Period size: 78 Copynumber: 2.3 Consensus size: 79
88282513 TCGTTCAAAC
* * **
88282523 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
88282588 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* * * ** * *
88282603 GCCTTTGGGCTTAGCTCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGGTATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
88282667 CAATTTGCACAATT
66 CAATTTGCACAATT
88282681 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
88282706 CTCGAACATT
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
78 51 0.57
79 31 0.34
80 8 0.09
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:88284819 original size:47 final size:47
Alignment explanation
Indices: 88284759--88284905 Score: 222
Period size: 47 Copynumber: 3.1 Consensus size: 47
88284749 TATAAGTTGA
*
88284759 AGTTAAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTT
1 AGTTAAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTT
* *
88284806 AGTTAATCTTGTTAAATTTGCTCTTAATATTTCCAGATAAGTTACTT
1 AGTTAAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTT
* * * *
88284853 AGTTAAGCTTGTTAAATTTTCCCTTAATATTTCTGGATAATTTACTT
1 AGTTAAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTT
*
88284900 TGTTAA
1 AGTTAA
88284906 AGAAAATTTT
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 90 1.00
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.46
Consensus pattern (47 bp):
AGTTAAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTT
Found at i:88285774 original size:45 final size:45
Alignment explanation
Indices: 88285708--88285927 Score: 295
Period size: 45 Copynumber: 5.0 Consensus size: 45
88285698 TATCATACAG
*
88285708 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * * *
88285753 TACTATTTGGGCCTTTAAGCCTAGCAGGTTATGATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
88285798 TACTATTCGGGCCTTTGATCCTAGCAGGCTATAATGCTGATGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
88285843 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
88285888 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
88285928 ATGAATTCAG
Statistics
Matches: 154, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
42 11 0.07
43 17 0.11
44 5 0.03
45 120 0.78
46 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:88286487 original size:16 final size:18
Alignment explanation
Indices: 88286456--88286488 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
88286446 AACTCGTGAC
88286456 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
88286474 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
88286489 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:88287595 original size:17 final size:16
Alignment explanation
Indices: 88287573--88287605 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
88287563 CCCTTCTCAC
88287573 CTTTTCTTTTCTTCCAT
1 CTTTTCTTTTC-TCCAT
88287590 CTTTTCTTTTCTCCAT
1 CTTTTCTTTTCTCCAT
88287606 AGCCGAACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.06, C:0.30, G:0.00, T:0.64
Consensus pattern (16 bp):
CTTTTCTTTTCTCCAT
Found at i:88288553 original size:27 final size:26
Alignment explanation
Indices: 88288523--88288584 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
88288513 ATTTACTAAA
*
88288523 ATACCCCTAAGTATAAAAATTACCATT
1 ATACCCCTAAGT-GAAAAATTACCATT
* *
88288550 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAAGTGAAAAATTACCATT
88288576 ATACCCCTA
1 ATACCCCTA
88288585 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 21 0.66
27 11 0.34
ACGTcount: A:0.39, C:0.27, G:0.06, T:0.27
Consensus pattern (26 bp):
ATACCCCTAAGTGAAAAATTACCATT
Found at i:88288763 original size:27 final size:26
Alignment explanation
Indices: 88288687--88288803 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 26
88288677 ATGAAGGAAG
88288687 TGTTCTGGTGGCTATGCCACAAATATC
1 TGTTCTGGTGGCTATGCCAC-AATATC
* *
88288714 TGTTTCAGGTGGCTATGCAACAAATATC
1 TG-TTCTGGTGGCTATGCCAC-AATATC
*
88288742 TGTTCTGGTGGCTCTGCCACAATATC
1 TGTTCTGGTGGCTATGCCACAATATC
* * *
88288768 TGTATCTGGTGACTCTGTCACAATATC
1 TGT-TCTGGTGGCTATGCCACAATATC
88288795 TGTTCTGGT
1 TGTTCTGGT
88288804 AGCCATGCTG
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 15 0.19
27 41 0.51
28 25 0.31
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (26 bp):
TGTTCTGGTGGCTATGCCACAATATC
Found at i:88293953 original size:27 final size:28
Alignment explanation
Indices: 88293923--88294022 Score: 121
Period size: 27 Copynumber: 3.5 Consensus size: 28
88293913 ATAGTGAGTC
88293923 CGCACACTTAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* *
88293950 CGCACACCTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
88293978 CGCACACTTAGTGCTGTACAAATTAAAAACC
1 CGCACACTTAGTGCTATA-AAA-T-CAAACT
88294009 CGCACACTTAGTGC
1 CGCACACTTAGTGC
88294023 CATTCTCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 2 0.03
30 1 0.02
31 18 0.29
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:88301614 original size:27 final size:28
Alignment explanation
Indices: 88301584--88301683 Score: 121
Period size: 27 Copynumber: 3.5 Consensus size: 28
88301574 ATAGTGAGTC
88301584 CGCACACTTAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* *
88301611 CGCACACCTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
88301639 CGCACACTTAGTGCTGTACAAATTAAAAACC
1 CGCACACTTAGTGCTATA-AAA-T-CAAACT
88301670 CGCACACTTAGTGC
1 CGCACACTTAGTGC
88301684 CATTCTCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 2 0.03
30 1 0.02
31 18 0.29
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:88309642 original size:26 final size:28
Alignment explanation
Indices: 88309601--88309699 Score: 121
Period size: 27 Copynumber: 3.5 Consensus size: 28
88309591 ATAGTGAGTC
88309601 CGCACACTTAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
*
88309628 CGCACAC-TAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
88309655 CGCACACTTAGTGCTGTACAAATTAAAAACC
1 CGCACACTTAGTGCTATA-AAA-T-CAAACT
88309686 CGCACACTTAGTGC
1 CGCACACTTAGTGC
88309700 CATTCTCATG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
26 14 0.23
27 18 0.29
28 9 0.15
29 2 0.03
30 1 0.02
31 18 0.29
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.24
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:88316625 original size:40 final size:40
Alignment explanation
Indices: 88316520--88316665 Score: 163
Period size: 40 Copynumber: 3.6 Consensus size: 40
88316510 GCTACTCGTT
* * *
88316520 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
88316560 CAAAGGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
88316600 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
88316641 CGAAT-CCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
88316666 CATCATTCGA
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 3 0.03
40 74 0.82
41 13 0.14
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:88324651 original size:40 final size:40
Alignment explanation
Indices: 88324552--88324691 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 40
88324542 CGTTCAAATA
* * *
88324552 CCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAAGG
*
88324592 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAAGG
** * * *
88324632 CCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCACGAA-G
1 CCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAAAGG
**
88324672 CCTTTTGGACTTAACCCGGA
1 CCTTCGGGACTTAACCCGGA
88324692 CATCATTCGA
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
39 3 0.04
40 69 0.82
41 12 0.14
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAAGG
Found at i:88327087 original size:47 final size:47
Alignment explanation
Indices: 88327027--88327173 Score: 258
Period size: 47 Copynumber: 3.1 Consensus size: 47
88327017 TATAAGTTAA
*
88327027 AGTTAAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTT
1 AGTTAAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTT
88327074 AGTTAAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTT
1 AGTTAAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTT
* * *
88327121 AGTTAAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAATTTACTT
1 AGTTAAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTT
88327168 AGTTAA
1 AGTTAA
88327174 AGAAAATTTT
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 96 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.44
Consensus pattern (47 bp):
AGTTAAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTT
Found at i:88328248 original size:27 final size:26
Alignment explanation
Indices: 88328213--88328324 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
88328203 AACATGGCTG
* *
88328213 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
88328239 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
88328267 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
88328294 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
88328321 CCAG
1 CCAG
88328325 GACGGTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.71
28 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:88328277 original size:54 final size:54
Alignment explanation
Indices: 88328213--88328324 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
88328203 AACATGGCTG
*
88328213 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAACCA
* * * *
88328267 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
88328321 CCAG
1 CCAG
88328325 GACGGTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
Found at i:88329783 original size:24 final size:24
Alignment explanation
Indices: 88329755--88329804 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
88329745 ACACATTTCA
88329755 CCCTGATCAGCTCCTAAATCCTCT
1 CCCTGATCAGCTCCTAAATCCTCT
*
88329779 CCCTGATCAGCTCCTAAATCTTCT
1 CCCTGATCAGCTCCTAAATCCTCT
88329803 CC
1 CC
88329805 AGACAAACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.42, G:0.08, T:0.30
Consensus pattern (24 bp):
CCCTGATCAGCTCCTAAATCCTCT
Found at i:88330939 original size:45 final size:45
Alignment explanation
Indices: 88330867--88331043 Score: 230
Period size: 45 Copynumber: 4.0 Consensus size: 45
88330857 TATCGTACAG
* * * * *
88330867 TACTATTCGAGCTTTTGAGGCTCGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
88330912 TACTATTTGGGCCTTCGAGCCTAGCAGGCTATGATGTCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
88330957 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
88331002 TACTATTCGGGCCTTCAAGCCTAGCAGGC-AAAATGCCGGTGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
88331044 ATGAATTCGG
Statistics
Matches: 113, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 11 0.10
45 102 0.90
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:88331023 original size:90 final size:90
Alignment explanation
Indices: 88330867--88331030 Score: 265
Period size: 90 Copynumber: 1.8 Consensus size: 90
88330857 TATCGTACAG
* * * * *
88330867 TACTATTCGAGCTTTTGAGGCTCGCAGGCTATAATGCCGGTGAGATACTATTTGGGCCTTCGAGC
1 TACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCCTTCAAGC
88330932 CTAGCAGGCTATGATGTCGGTGAAA
66 CTAGCAGGCTATGATGTCGGTGAAA
* *
88330957 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGATACTATTCGGGCCTTCAAGC
1 TACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCCTTCAAGC
88331022 CTAGCAGGC
66 CTAGCAGGC
88331031 AAAATGCCGG
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 67 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (90 bp):
TACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCCTTCAAGC
CTAGCAGGCTATGATGTCGGTGAAA
Found at i:88331603 original size:16 final size:18
Alignment explanation
Indices: 88331572--88331604 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
88331562 AACTCGTGAC
88331572 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
88331590 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
88331605 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:88332550 original size:17 final size:17
Alignment explanation
Indices: 88332528--88332560 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
88332518 CTGTCCGTTC
88332528 AACTGGAAAACGTCCTT
1 AACTGGAAAACGTCCTT
88332545 AACTGGAAAACGTCCT
1 AACTGGAAAACGTCCT
88332561 GGAACTGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.21
Consensus pattern (17 bp):
AACTGGAAAACGTCCTT
Found at i:88337207 original size:17 final size:18
Alignment explanation
Indices: 88337166--88337208 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
88337156 TGTATTTACT
88337166 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
88337184 TAGTATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
88337201 TATTATAT
1 TATTATAT
88337209 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:88337219 original size:18 final size:17
Alignment explanation
Indices: 88337196--88337232 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
88337186 GTATAAAGTA
*
88337196 AATTATATTATATTATAT
1 AATTATAATATATTA-AT
88337214 AATTATAATATATTAAT
1 AATTATAATATATTAAT
88337231 AA
1 AA
88337233 AATAAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTATAATATATTAAT
Found at i:88342810 original size:14 final size:14
Alignment explanation
Indices: 88342763--88342844 Score: 57
Period size: 15 Copynumber: 5.9 Consensus size: 14
88342753 AATTTCTCTT
88342763 TTTCTTTTCT-TTTC
1 TTTC-TTTCTATTTC
88342777 -TTCTTTC--TTTC
1 TTTCTTTCTATTTC
88342788 TTTCTTTCTATTTC
1 TTTCTTTCTATTTC
*
88342802 GTTTCTTCTCTGTTTC
1 -TTTCTT-TCTATTTC
* * *
88342818 TTTTTCTTGTTTTTC
1 TTTCT-TTCTATTTC
88342833 TTTCTTT-TATTT
1 TTTCTTTCTATTT
88342845 ATTCTTTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
11 4 0.07
12 11 0.20
13 7 0.12
14 6 0.11
15 20 0.36
16 8 0.14
ACGTcount: A:0.02, C:0.20, G:0.04, T:0.74
Consensus pattern (14 bp):
TTTCTTTCTATTTC
Found at i:88342837 original size:30 final size:30
Alignment explanation
Indices: 88342755--88342838 Score: 75
Period size: 30 Copynumber: 2.8 Consensus size: 30
88342745 CAAACCCTAA
* *
88342755 TTTCTCTT-TTTC-TTTTCTTTTCTTCTTTC
1 TTTCT-TTCTTTCTTTTTCGTTTCTTCTCTC
* *
88342784 TTTCTTTCTTTCTATTTCGTTTCTTCTCTG
1 TTTCTTTCTTTCTTTTTCGTTTCTTCTCTC
* *
88342814 TTTCTTTTTCTTGTTTTTC-TTTCTT
1 TTTCTTTCT-TTCTTTTTCGTTTCTT
88342839 TTATTTATTC
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
28 2 0.04
29 9 0.20
30 27 0.60
31 7 0.16
ACGTcount: A:0.01, C:0.21, G:0.04, T:0.74
Consensus pattern (30 bp):
TTTCTTTCTTTCTTTTTCGTTTCTTCTCTC
Found at i:88345590 original size:27 final size:27
Alignment explanation
Indices: 88345537--88345590 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
88345527 ATATATAATT
* *
88345537 ATTATAAAATAATCATTTTGTACTTAA
1 ATTATAAAATAATCAATTTGTAATTAA
*
88345564 ATTATTAAAATAATGAATTT-TAATTAA
1 ATTA-TAAAATAATCAATTTGTAATTAA
88345591 TTTTATAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (27 bp):
ATTATAAAATAATCAATTTGTAATTAA
Found at i:88345592 original size:10 final size:10
Alignment explanation
Indices: 88345574--88345616 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
88345564 ATTATTAAAA
*
88345574 TAATGAATTT
1 TAATTAATTT
88345584 TAATTAATTTT
1 TAATTAA-TTT
88345595 ATAATTAATTT
1 -TAATTAATTT
*
88345606 TGATTAATTT
1 TAATTAATTT
88345616 T
1 T
88345617 TATCATTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 16 0.55
11 6 0.21
12 7 0.24
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (10 bp):
TAATTAATTT
Found at i:88345598 original size:22 final size:22
Alignment explanation
Indices: 88345573--88345616 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
88345563 AATTATTAAA
88345573 ATAATGAATTTTAATTAATTTT
1 ATAATGAATTTTAATTAATTTT
* *
88345595 ATAATTAATTTTGATTAATTTT
1 ATAATGAATTTTAATTAATTTT
88345617 TATCATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
ATAATGAATTTTAATTAATTTT
Found at i:88350638 original size:8 final size:8
Alignment explanation
Indices: 88350627--88350654 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
88350617 TTAAAGCGAT
88350627 AAATGCCG
1 AAATGCCG
88350635 AAATGCCG
1 AAATGCCG
88350643 AAATGCCG
1 AAATGCCG
88350651 AAAT
1 AAAT
88350655 TCTGGCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (8 bp):
AAATGCCG
Found at i:88351226 original size:20 final size:20
Alignment explanation
Indices: 88351160--88351226 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
88351150 ATTTTGATAA
*
88351160 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
88351180 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
88351200 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
88351220 ACGTGAT
1 ACATGAT
88351227 GTAATCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:88351355 original size:24 final size:24
Alignment explanation
Indices: 88351276--88351379 Score: 149
Period size: 23 Copynumber: 4.4 Consensus size: 24
88351266 GAGGAAGTGA
*
88351276 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
88351300 -AAAGGGCTTATTCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
88351323 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
88351346 AAAAGGGCTTTTGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
88351370 AAAAGAGGCT
1 AAAAG-GGCT
88351380 AGGCCTCCAG
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
23 43 0.59
24 26 0.36
25 4 0.05
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:88351622 original size:31 final size:31
Alignment explanation
Indices: 88351587--88351650 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
88351577 CGTTTACAGT
*
88351587 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
88351618 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
88351649 AA
1 AA
88351651 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:88359093 original size:25 final size:25
Alignment explanation
Indices: 88359064--88359111 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
88359054 TTATAACATG
* *
88359064 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
*
88359089 AAAATGACTATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
88359112 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:88359312 original size:46 final size:47
Alignment explanation
Indices: 88359245--88359340 Score: 167
Period size: 47 Copynumber: 2.1 Consensus size: 47
88359235 AGGAAGTGAA
88359245 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
* *
88359291 AAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
88359338 AAA
1 AAA
88359341 AGAGGCTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 22 0.47
47 25 0.53
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:88359323 original size:24 final size:24
Alignment explanation
Indices: 88359244--88359347 Score: 167
Period size: 23 Copynumber: 4.4 Consensus size: 24
88359234 GAGGAAGTGA
88359244 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
88359268 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
88359291 -AAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
88359314 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
88359338 AAAAGAGGCT
1 AAAAG-GGCT
88359348 AGGCCTCCAG
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
23 45 0.60
24 26 0.35
25 4 0.05
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:88359612 original size:31 final size:31
Alignment explanation
Indices: 88359555--88359618 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
88359545 CGTTTACAGT
* *
88359555 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATACGAAATATGA
**
88359586 AAAGGCTTCGGCCCAGTGTTACGAAATATGA
1 AAAGGCTTCGGCCCAGTAATACGAAATATGA
88359617 AA
1 AA
88359619 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATACGAAATATGA
Found at i:88369490 original size:21 final size:21
Alignment explanation
Indices: 88369451--88369497 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
88369441 GCATACACTT
** *
88369451 GTGTGAAGATGGCATACGCCC
1 GTGTGAAGATAACACACGCCC
*
88369472 GTGTGAAGATAACACACGCCT
1 GTGTGAAGATAACACACGCCC
88369493 GTGTG
1 GTGTG
88369498 TCCAAGGGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (21 bp):
GTGTGAAGATAACACACGCCC
Found at i:88370348 original size:5 final size:5
Alignment explanation
Indices: 88370338--88370362 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
88370328 AAAACAAATC
88370338 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
88370363 GTAATCCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:88374118 original size:172 final size:176
Alignment explanation
Indices: 88373660--88374159 Score: 645
Period size: 177 Copynumber: 2.8 Consensus size: 176
88373650 ATTGGTAAAG
* * * ** *
88373660 ATTGAAGATTTTGTCTCCTTGAGATTGCAGTGGAGCAGATCTTCGCAGATGGTGAATCTTATCTC
1 ATTGAAGA-TTTATCTCCCTGAGATTACAGTGGAGCAGA--TTCAAAAATGGTGAATCTTATCTC
* *
88373725 CATGTATCGGCAATGGAGCAGATTTTACCACCAGCCTCATCT-T-TGAGGTAGCAAGAGAGCAGA
63 CATGTATCGGCAATGGAGTAGATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGG
* * * *
88373788 CTGAAGAGTGAGTCTTATCTTCCTGATGTAGCAAGGAAGCAGACTGAGA
128 TTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAGA
* ** * *
88373837 ATTGAAGATTTTATCTCCCTGAGATTACAGTGGAGTAGATCTTCGCAGATGGTGAGTCTTATCTC
1 ATTGAAGA-TTTATCTCCCTGAGATTACAGTGGAGCAGA--TTCAAAAATGGTGAATCTTATCTC
* * *
88373902 CATGTATCGGCAATGGAGTAGATTTTACCACCAACCTCATCTCTCTGAGGTAGCATGAGAGTAGG
63 CATGTATCGGCAATGGAGTAGATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGG
* *
88373967 TTGAAGAATGAGTCTTATCTTCCTAAGGTAGTAAGGAAGCAGATTGAGA
128 TTGAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAGA
* *
88374016 ATTG-A-A-TTATCTCCCTGA-AGTTGCAGTGGAGCAGA-TCAAAAATGGTTAATCTTATCTCCA
1 ATTGAAGATTTATCTCCCTGAGA-TTACAGTGGAGCAGATTCAAAAATGGTGAATCTTATCTCCA
* *
88374076 TGTATCGGCAATGGAGTAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCGGGTT
65 TGTATCGGCAATGGAGTAGATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTT
*
88374141 GAAGATTGAGTCTTATCTT
130 GAAGAATGAGTCTTATCTT
88374160 TTTGAAGTAG
Statistics
Matches: 291, Mismatches: 29, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
172 98 0.34
174 1 0.00
175 25 0.09
177 101 0.35
178 2 0.01
179 64 0.22
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (176 bp):
ATTGAAGATTTATCTCCCTGAGATTACAGTGGAGCAGATTCAAAAATGGTGAATCTTATCTCCAT
GTATCGGCAATGGAGTAGATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTTG
AAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAGA
Found at i:88381918 original size:71 final size:69
Alignment explanation
Indices: 88381830--88382024 Score: 236
Period size: 71 Copynumber: 2.8 Consensus size: 69
88381820 CGATTTGTCC
* *
88381830 CGTAGCTCTCTTGTCTACATGGTG-T-CCTTCACTTGGAATCACGCATGCGACCTAG-CTACATT
1 CGTAGCTCTCTTGTCTACATGG-GATACATTC-C---GAATCACACATGCGACCTAGACTACATT
88381892 TATCTTTCA
61 TATCTTTCA
* *
88381901 CGTAGCTCTCTTGTCTACATGGGATACATTCCGTATCACACATGTGACCTAGCTACTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGGATACATTCCGAATCACACATGCGACCTAG--ACTACATTTAT
88381966 CTTTCA
64 CTTTCA
* *
88381972 CGTAGCTCTCTTGTCTACATGGGATACA-TCCCATATCACACATGTGACCTAGA
1 CGTAGCTCTCTTGTCTACATGGGATACATTCCGA-ATCACACATGCGACCTAGA
88382025 TACTACATGG
Statistics
Matches: 112, Mismatches: 6, Indels: 14
0.85 0.05 0.11
Matches are distributed among these distances:
68 17 0.15
69 1 0.01
70 4 0.04
71 86 0.77
72 4 0.04
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (69 bp):
CGTAGCTCTCTTGTCTACATGGGATACATTCCGAATCACACATGCGACCTAGACTACATTTATCT
TTCA
Found at i:88382029 original size:71 final size:71
Alignment explanation
Indices: 88381885--88382032 Score: 269
Period size: 71 Copynumber: 2.1 Consensus size: 71
88381875 TGCGACCTAG
* *
88381885 CTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGGATACATTCCGTATCACACATGTGACC
1 CTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGGATACATCCCATATCACACATGTGACC
*
88381950 TAGCTA
66 TAGATA
88381956 CTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGGATACATCCCATATCACACATGTGACC
1 CTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGGATACATCCCATATCACACATGTGACC
88382021 TAGATA
66 TAGATA
88382027 CTACAT
1 CTACAT
88382033 GGTGTCTCGT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (71 bp):
CTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGGATACATCCCATATCACACATGTGACC
TAGATA
Found at i:88388994 original size:67 final size:67
Alignment explanation
Indices: 88388864--88389056 Score: 273
Period size: 67 Copynumber: 2.8 Consensus size: 67
88388854 CCGATTTGTC
* * * *
88388864 CGTAGCTCTCTTGTCTACATGGTGT-CCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTA
1 CGTAGCTCTCTTGTCTACATGG-GTACATTC-C---GTATCACACATGTGACCTAGCTACATTTA
88388928 TCTTTCA
61 TCTTTCA
*
88388935 TGTAGCTCTCTTGTCTACATGGGTACATTCCGTATCACACATGTGACCTAGCTACATTTATCTTT
1 CGTAGCTCTCTTGTCTACATGGGTACATTCCGTATCACACATGTGACCTAGCTACATTTATCTTT
88389000 CA
66 CA
88389002 CGTAGCTCTCTTGTCTACATGGGATACA-TCCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGG-TACATTCCGTATCACACATGTGACCTAGCTAC
88389057 TACAGGTGTC
Statistics
Matches: 114, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
67 82 0.72
68 4 0.04
70 3 0.03
71 25 0.22
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.34
Consensus pattern (67 bp):
CGTAGCTCTCTTGTCTACATGGGTACATTCCGTATCACACATGTGACCTAGCTACATTTATCTTT
CA
Found at i:88397207 original size:53 final size:53
Alignment explanation
Indices: 88397134--88397278 Score: 179
Period size: 53 Copynumber: 2.7 Consensus size: 53
88397124 GGGGAGGGAA
* * *
88397134 GCCAAAGTGAAAACCTGCAAAGGGCGCTTTGAGACTTTAAA-AAAAAAGG-GGG
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGAC-TCAAATAAAAAAGGAAGG
* * *
88397186 GTCCAAAGTGAAAACCCGCAAAGGGCACTTTAAGAC-CAAATAAAAATGGAAAGG
1 G-CCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTCAAATAAAAAAGG-AAGG
*
88397240 GCCAAAGTGAAAACCCACAAAGGGCGCTTTGAGACTCAA
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTCAA
88397279 TAATAATCAA
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
51 3 0.04
52 8 0.10
53 62 0.78
54 6 0.08
ACGTcount: A:0.42, C:0.19, G:0.25, T:0.14
Consensus pattern (53 bp):
GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTCAAATAAAAAAGGAAGG
Found at i:88398858 original size:172 final size:176
Alignment explanation
Indices: 88398393--88399082 Score: 643
Period size: 177 Copynumber: 3.9 Consensus size: 176
88398383 ATTGGTAAAG
* * * * * * *
88398393 ATTGAAGATTTTGTCTCCCTGAGTTTGCAGTGGAGCAGATTTTCACAGATGGTGAATCTTATCTC
1 ATTGAAGA-TTTATCTCCCTGAGATTGCAGCGGAGCAGA--TTAAAAAATAGTGAATCTTATCTC
*
88398458 CATGTATCGGCAATGGAGCAGATTTTACCACCAGCCTCATCT-T-TGAGGTAGCAAGAGAGCAGA
63 CATGTATCGGCAATGGAGCAGATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGG
* * *
88398521 CTGAAGAGTGAGTCTTATCTTCCTGATGTAGCAAGGAAACAGACTGAGA
128 TTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAGA
* * * * * *
88398570 ATTGAAGATTTTATCTCCCTGAGATTGCAGCGGAGTAGATCTTCACAGATGGTGAGTCTTATCTC
1 ATTGAAGA-TTTATCTCCCTGAGATTGCAGCGGAGCAGA--TTAAAAAATAGTGAATCTTATCTC
* * *
88398635 CATGTATCGGCAATGGAGCAGATTTTACCACCAACCTCATCTCTCTGAGGTAGCATGAGAGTAGG
63 CATGTATCGGCAATGGAGCAGATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGG
*
88398700 TTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA
128 TTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAGA
** *
88398749 ATTG-A-A-TTATCTTTCTGA-AGTTGCAGTGGAGCAGA-TAAAAAATAGTGAATCTTATCTCCA
1 ATTGAAGATTTATCTCCCTGAGA-TTGCAGCGGAGCAGATTAAAAAATAGTGAATCTTATCTCCA
* * *
88398809 TGTATCGGCAATGGAGTAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCGGGTT
65 TGTATCGGCAATGGAGCAGATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTT
* ** * * * *
88398874 GAAGATTGAGTCTTATCTTTTTGAAGTAGCAA-AAAAGCATATTGA-A
130 GAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAA-CAGACTGAGA
* * * * ** ** * *
88398920 GATTAAAGATCTTATTTCCCTAAGTAGTG--GCGGAGCAGATTGGAGGA-GGCGAATCTTATCTC
1 -ATTGAAGAT-TTATCTCCCTGAG-ATTGCAGCGGAGCAGATTAAAAAATAGTGAATCTTATCTC
** * * * * * * * * *
88398982 CATGTATCGGTGATGAAGCAGATTTTAGTCACTAACTTTATCTCTCTAAAGTAGCAAGAGAGCAT
63 CATGTATCGGCAATGGAGCAGATTTTA-CCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAG
*
88399047 GTTG--GCAATTGGAGTCTTATCTTCTTGAGGTAGCAA
127 GTTGAAG-AA-T-GAGTCTTATCTTCCTGAGGTAGCAA
88399083 AGAAGTAGAC
Statistics
Matches: 432, Mismatches: 65, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
171 3 0.01
172 116 0.27
173 1 0.00
174 3 0.01
175 69 0.16
176 45 0.10
177 126 0.29
178 3 0.01
179 66 0.15
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (176 bp):
ATTGAAGATTTATCTCCCTGAGATTGCAGCGGAGCAGATTAAAAAATAGTGAATCTTATCTCCAT
GTATCGGCAATGGAGCAGATTTTACCACCAGCCTCATCTCTCTGAGGTAGCAAGAGAGCAGGTTG
AAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAACAGACTGAGA
Found at i:88399113 original size:177 final size:175
Alignment explanation
Indices: 88398446--88399115 Score: 520
Period size: 172 Copynumber: 3.8 Consensus size: 175
88398436 CACAGATGGT
* * * * *
88398446 GAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACCAGCCTCATCT-T-TGAGGTAG
1 GAATCTTATCTCCATGTATCGGCAATGAAGCAGATTTTACCACCAACCTTATCTCTCTAAAGTAG
** * * * * *
88398509 CAAGAGAGCAGACTGAAGAGTGAGTCTTATCTTCCTGATGTAGCAAGGAAA-CAGACT-GAGAAT
66 CAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCTTGAAGTAGCAA-AAAAGCAGACTAAAG-AT
* * * * * * ** * *
88398572 TGAAGATTTTATCTCCCTGAG-ATTGCAGCGGAGTAGATCTTCACAGATGGT
129 TAAAGATCTTATTTCCCTAAGTAGTG--GCGGAGCAGAT-TGGA-GGA-GGC
* * * * *
88398623 GAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACCAACCTCATCTCTCTGAGGTAG
1 GAATCTTATCTCCATGTATCGGCAATGAAGCAGATTTTACCACCAACCTTATCTCTCTAAAGTAG
* * * * * ** *
88398688 CATGAGAGTAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT-GAGAATT
66 CAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCTTGAAGTAGCAAAAAAGCAGACTAAAG-ATT
* * * ** * ** ** * *
88398752 ---GA-ATTATCTT-TCTGAAGTTGCAGTGGAGCAGA-TAAAAAATAGT
130 AAAGATCTTAT-TTCCCT-AAGTAGTGGCGGAGCAGATTGGAGGA-GGC
* * * * *
88398795 GAATCTTATCTCCATGTATCGGCAATGGAGTAGATTTTACCACCAGCCTTATCTCTCTGAGGTAG
1 GAATCTTATCTCCATGTATCGGCAATGAAGCAGATTTTACCACCAACCTTATCTCTCTAAAGTAG
* * * * *
88398860 CAAGAGAGCGGGTTGAAGATTGAGTCTTATCTTTTTGAAGTAGCAAAAAAGCATATTGAAGATTA
66 CAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCTTGAAGTAGCAAAAAAGCAGACTAAAGATTA
88398925 AAGATCTTATTTCCCTAAGTAGTGGCGGAGCAGATTGGAGGAGGC
131 AAGATCTTATTTCCCTAAGTAGTGGCGGAGCAGATTGGAGGAGGC
** * * *
88398970 GAATCTTATCTCCATGTATCGGTGATGAAGCAGATTTTAGTCACTAACTTTATCTCTCTAAAGTA
1 GAATCTTATCTCCATGTATCGGCAATGAAGCAGATTTTA-CCACCAACCTTATCTCTCTAAAGTA
* * * * *
88399035 GCAAGAGAGCATGTTGGCA-ATTGGAGTCTTATCTTCTTGAGGTAGCAAAGAAGTAGACTAAAGA
65 GCAAGAGAGCAGGTT-GAAGATT-GAGTCTTATCTTCTTGAAGTAGCAAAAAAGCAGACTAAAGA
88399099 TTAAAGATCTTATTTCC
128 TTAAAGATCTTATTTCC
88399116 ATGTATCAGC
Statistics
Matches: 406, Mismatches: 71, Indels: 32
0.80 0.14 0.06
Matches are distributed among these distances:
172 115 0.28
173 4 0.01
175 68 0.17
176 49 0.12
177 105 0.26
178 4 0.01
179 61 0.15
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (175 bp):
GAATCTTATCTCCATGTATCGGCAATGAAGCAGATTTTACCACCAACCTTATCTCTCTAAAGTAG
CAAGAGAGCAGGTTGAAGATTGAGTCTTATCTTCTTGAAGTAGCAAAAAAGCAGACTAAAGATTA
AAGATCTTATTTCCCTAAGTAGTGGCGGAGCAGATTGGAGGAGGC
Found at i:88403479 original size:21 final size:22
Alignment explanation
Indices: 88403453--88403493 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
88403443 CACATGACAC
*
88403453 AGGGGC-ACACGCCCGTGTGGG
1 AGGGGCAACACACCCGTGTGGG
88403474 AGGGGCAACACACCCGTGTG
1 AGGGGCAACACACCCGTGTG
88403494 AGCATTCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.29, G:0.41, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACACCCGTGTGGG
Found at i:88404715 original size:47 final size:48
Alignment explanation
Indices: 88404640--88404844 Score: 133
Period size: 46 Copynumber: 4.4 Consensus size: 48
88404630 GCCGTGTCTT
* **
88404640 AGACACGGTCTTACACTGGCTTAT-ATCTC-AAGTCGAAGCCATGTCCC
1 AGACATGGTCTTACACT-AATTATCATCTCGAAGTCGAAGCCATGTCCC
* * * *
88404687 AAACATGGTCTTACACTAATTATCATCTCGTAG-CCAA-CGAATGTCCC
1 AGACATGGTCTTACACTAATTATCATCTCGAAGTCGAAGC-CATGTCCC
* * * * *
88404734 AGACAT-GTCTTACACTAGCTTA-CGTCTCGAGGCCGATG-CATGTCCC
1 AGACATGGTCTTACACTA-ATTATCATCTCGAAGTCGAAGCCATGTCCC
* ** * *
88404780 GGACAT-GTCTTACACT-AGCACTCATCT-TAATGTCGATGCCATGTCCC
1 AGACATGGTCTTACACTAATTA-TCATCTCGAA-GTCGAAGCCATGTCCC
*
88404827 AGATATGGTCTTACACTA
1 AGACATGGTCTTACACTA
88404845 GCTCTCACAA
Statistics
Matches: 121, Mismatches: 25, Indels: 22
0.72 0.15 0.13
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 55 0.45
47 52 0.43
48 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (48 bp):
AGACATGGTCTTACACTAATTATCATCTCGAAGTCGAAGCCATGTCCC
Found at i:88404762 original size:46 final size:47
Alignment explanation
Indices: 88404680--88404798 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 47
88404670 AGTCGAAGCC
* *
88404680 ATGTCCCAAACATGGTCTTACACTA-ATTATCATCTCGTA-GCCAACGA
1 ATGTCCCAGACAT-GTCTTACACTAGCTTATCATCTCG-AGGCCAACGA
* * * *
88404727 ATGTCCCAGACATGTCTTACACTAGCTTA-CGTCTCGAGGCCGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTTATCATCTCGAGGCCAACGA
*
88404773 ATGTCCCGGACATGTCTTACACTAGC
1 ATGTCCCAGACATGTCTTACACTAGC
88404799 ACTCATCTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
45 1 0.02
46 47 0.75
47 15 0.24
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (47 bp):
ATGTCCCAGACATGTCTTACACTAGCTTATCATCTCGAGGCCAACGA
Found at i:88404817 original size:46 final size:46
Alignment explanation
Indices: 88404727--88404851 Score: 135
Period size: 46 Copynumber: 2.7 Consensus size: 46
88404717 TAGCCAACGA
* * *
88404727 ATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGAGGCCGATG-C
1 ATGTCCCAGACATGTCTTACACTAGCCT-CATCTCAAGGCCGATGCC
* * * *
88404773 ATGTCCCGGACATGTCTTACACTAGCACTCATCTTAATGTCGATGCC
1 ATGTCCCAGACATGTCTTACACTAGC-CTCATCTCAAGGCCGATGCC
*
88404820 ATGTCCCAGATATGGTCTTACACTAGCTCTCA
1 ATGTCCCAGACAT-GTCTTACACTAGC-CTCA
88404852 CAAATGACCC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
46 36 0.55
47 13 0.20
48 17 0.26
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (46 bp):
ATGTCCCAGACATGTCTTACACTAGCCTCATCTCAAGGCCGATGCC
Found at i:88406655 original size:22 final size:22
Alignment explanation
Indices: 88406611--88406656 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
88406601 CAAATGTGTT
*
88406611 AAAATCATTAATTAAAAATTAA
1 AAAATCATTAATTAAAAAATAA
*
88406633 AAAATCATT-TTTAAAATAATAA
1 AAAATCATTAATTAAAA-AATAA
88406655 AA
1 AA
88406657 CTGTGCTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAATCATTAATTAAAAAATAA
Found at i:88406656 original size:20 final size:22
Alignment explanation
Indices: 88406610--88406656 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 22
88406600 ACAAATGTGT
88406610 TAAAATCATTAATTAAAAATTAA
1 TAAAATCATT-ATTAAAAATTAA
*
88406633 -AAAATCATT-TTTAAAA-TAA
1 TAAAATCATTATTAAAAATTAA
88406652 TAAAA
1 TAAAA
88406657 CTGTGCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 3 0.14
20 10 0.45
22 9 0.41
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (22 bp):
TAAAATCATTATTAAAAATTAA
Found at i:88406718 original size:19 final size:20
Alignment explanation
Indices: 88406663--88406750 Score: 65
Period size: 21 Copynumber: 4.2 Consensus size: 20
88406653 AAAACTGTGC
88406663 TAAT-ATATAATTACAAATATT
1 TAATAATATAATT--AAATATT
* *
88406684 TAATTATTATATTTAAATATT
1 TAA-TAATATAATTAAATATT
88406705 TAA-AATATAATTAAATATT
1 TAATAATATAATTAAATATT
* *
88406724 CTAATCAA-ATTTATTAAATAAT
1 -TAAT-AATA-TAATTAAATATT
88406746 TAATA
1 TAATA
88406751 TTAATTACTT
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
19 14 0.25
20 4 0.07
21 18 0.33
22 13 0.24
23 6 0.11
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
TAATAATATAATTAAATATT
Found at i:88412407 original size:63 final size:63
Alignment explanation
Indices: 88412331--88412456 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
88412321 TAAATTTGAG
88412331 TGGTTTTATTTATTTACATAATTTCTTTGATTATAAATTGAGCGTGTTACTAATTCAACCGCA
1 TGGTTTTATTTATTTACATAATTTCTTTGATTATAAATTGAGCGTGTTACTAATTCAACCGCA
88412394 TGGTTTTATTTATTTACATAATTTCTTTGATTATAAATTGAGCGTGTTACTAATTCAACCGCA
1 TGGTTTTATTTATTTACATAATTTCTTTGATTATAAATTGAGCGTGTTACTAATTCAACCGCA
88412457 AAAATTAAAG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.46
Consensus pattern (63 bp):
TGGTTTTATTTATTTACATAATTTCTTTGATTATAAATTGAGCGTGTTACTAATTCAACCGCA
Found at i:88413511 original size:22 final size:22
Alignment explanation
Indices: 88413486--88413529 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
88413476 ATAATTTTGA
88413486 CCCTCAACATTAAAAATTTAGT
1 CCCTCAACATTAAAAATTTAGT
*
88413508 CCCTCAACATTATAAATTTAGT
1 CCCTCAACATTAAAAATTTAGT
88413530 AAAAGTGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.34
Consensus pattern (22 bp):
CCCTCAACATTAAAAATTTAGT
Found at i:88415862 original size:88 final size:88
Alignment explanation
Indices: 88415713--88415888 Score: 307
Period size: 88 Copynumber: 2.0 Consensus size: 88
88415703 ATAAAGCTAA
*
88415713 CATATACTCTCACATGCAATTACACTCAACTCGTATATATATAATTCATTTAACGATAATTCATC
1 CATATACTCTCACATGCAATTACACTCAACTCGTATATATATAATTCATTTAACAATAATTCATC
88415778 AAGATAAAACAACGTATTCATGC
66 AAGATAAAACAACGTATTCATGC
* * *
88415801 CATATACTCTCACATGCAATTACACTCTACTCGTATATATATAGTTCATTTAACAATAATTCATG
1 CATATACTCTCACATGCAATTACACTCAACTCGTATATATATAATTCATTTAACAATAATTCATC
*
88415866 AAGATAAAACAATGTATTCATGC
66 AAGATAAAACAACGTATTCATGC
88415889 TTTAATGACC
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 83 1.00
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.33
Consensus pattern (88 bp):
CATATACTCTCACATGCAATTACACTCAACTCGTATATATATAATTCATTTAACAATAATTCATC
AAGATAAAACAACGTATTCATGC
Found at i:88417325 original size:27 final size:27
Alignment explanation
Indices: 88417287--88417338 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
88417277 ATAAAATAAG
*
88417287 GGTGGAGGGTACCCCATAGGCGGCACA
1 GGTGGAGGGTACCCCACAGGCGGCACA
88417314 GGTGGAGGGTACCCCACAGGCGGCA
1 GGTGGAGGGTACCCCACAGGCGGCA
88417339 TCGGTCATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.27, G:0.42, T:0.10
Consensus pattern (27 bp):
GGTGGAGGGTACCCCACAGGCGGCACA
Found at i:88417540 original size:6 final size:6
Alignment explanation
Indices: 88417524--88417559 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
88417514 ATTGCTGAGG
*
88417524 AAAGAAA AAAGAA AAAGAA AAAGAG AAAGAA AAAGA
1 AAAG-AA AAAGAA AAAGAA AAAGAA AAAGAA AAAGA
88417560 GAAGGAGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 23 0.85
7 4 0.15
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:88417554 original size:18 final size:18
Alignment explanation
Indices: 88417531--88417577 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
88417521 AGGAAAGAAA
88417531 AAAGAAAAAGAAAAAGAG
1 AAAGAAAAAGAAAAAGAG
* *
88417549 AAAGAAAAAGAGAAGGAG
1 AAAGAAAAAGAAAAAGAG
*
88417567 -AAGAAGAAGAA
1 AAAGAAAAAGAA
88417578 GAGGGAGGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAGAAAAAGAG
Found at i:88417560 original size:12 final size:12
Alignment explanation
Indices: 88417523--88417562 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
88417513 CATTGCTGAG
88417523 GAAAGAAAAAAGA
1 GAAAG-AAAAAGA
*
88417536 AAAAGAAAAAGA
1 GAAAGAAAAAGA
88417548 GAAAGAAAAAGA
1 GAAAGAAAAAGA
88417560 GAA
1 GAA
88417563 GGAGAAGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 21 0.84
13 4 0.16
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
GAAAGAAAAAGA
Found at i:88417663 original size:27 final size:27
Alignment explanation
Indices: 88417610--88417665 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
88417600 TAATATTTTT
*
88417610 TTTAAGGAAATAATTTTTAATTGTTAA
1 TTTAAGGAAATAATTTTTAATTATTAA
88417637 TTTAAGGAAATAAATTATTT-A-TATTAA
1 TTTAAGGAAAT-AATT-TTTAATTATTAA
88417664 TT
1 TT
88417666 GTTAATGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 18 0.69
28 5 0.19
29 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (27 bp):
TTTAAGGAAATAATTTTTAATTATTAA
Found at i:88418038 original size:14 final size:14
Alignment explanation
Indices: 88418019--88418045 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
88418009 AGCTTAATAG
88418019 TATATTTTAAAAAA
1 TATATTTTAAAAAA
88418033 TATATTTTAAAAA
1 TATATTTTAAAAA
88418046 TCTAAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TATATTTTAAAAAA
Found at i:88418486 original size:147 final size:148
Alignment explanation
Indices: 88418014--88419228 Score: 1763
Period size: 148 Copynumber: 8.3 Consensus size: 148
88418004 AGAATAGCTT
* * * * *
88418014 AATAGTATATTTTAAAAAATATATTTTAAAAATCTAAAAATAAAATAAAAAA-GACCAAAATCAG
1 AATAGTATATTTTAAAAAATAAAATCTGAAAA--T-AAAATAAAA-AAAAAACGGCCAAAATCAG
* * * *
88418078 AGTTTTTTACTAAATTAATATAAATATACTAAAATAATACATATGAAACATTATGTACCAAAATA
62 AGTTTTTTACTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATA
* *
88418143 TTATAAAAAAATAAAATACAAA
127 ATATAAAAAAATAAAATACGAA
* * *
88418165 AATAGTTTATTTTGAAAAATAAAATCTGAAAATAAAATAAAAAAACAAACGGCCAAAAGCAGAG-
1 AATAGTATATTTTAAAAAATAAAATCTGAAAATAAAATAAAAAAA-AAACGGCCAAAATCAGAGT
* *
88418229 TTTTTACTAAATTAATATAAAAAAACTAAAATAATACATATGAAACATTATGTACTAAAATATTA
65 TTTTTACTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATA
*
88418294 TAAAAAAATAAAATACAAA
130 TAAAAAAATAAAATACGAA
* * *
88418313 AATAGTTTATTTTGAAAAATAAAATCTGAAAATAAAATAAAAAAACAAACGGCCAAAAGCAGAG-
1 AATAGTATATTTTAAAAAATAAAATCTGAAAATAAAATAAAAAAA-AAACGGCCAAAATCAGAGT
*
88418377 TTTTTACTAAATTAATATAAAAAAACTAAAATAATACATTTGAAAAATTATGTAC-AAAATAATA
65 TTTTTACTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATA
88418441 TAAAAAAATAAAATACGAA
130 TAAAAAAATAAAATACGAA
* *
88418460 AATAGTATATTTTAAAAAATAAAATCTGAAAATAAAAT---AAAAAAACGGCCAAAATCACAGAT
1 AATAGTATATTTTAAAAAATAAAATCTGAAAATAAAATAAAAAAAAAACGGCCAAAATCAGAGTT
88418522 TTTTACTAAATTAATAT-AAAAAACTAAAATAATACA--TGAAACATTATGTACTAAAATAATAT
66 TTTTACTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT
88418584 AAAAAAATAAAATACGAA
131 AAAAAAATAAAATACGAA
* * * *
88418602 AATAATATATTTTAAAAAATAAAATCCGAAAAT--AA-AAATAAAAAAGGGCCAAAATCAGAGTT
1 AATAGTATATTTTAAAAAATAAAATCTGAAAATAAAATAAAAAAAAAACGGCCAAAATCAGAG--
*
88418664 TTTTTTTCTAAATTAATAT-AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAAT
64 TTTTTTACTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAAT
88418728 ATAAAAAAATAAAATACGAA
129 ATAAAAAAATAAAATACGAA
* * * *
88418748 AATAATATATTTTAAAAAATAAAATCCGAAAAT--AA-AAATAAAAAAGGGCCAAAATCAGAGTT
1 AATAGTATATTTTAAAAAATAAAATCTGAAAATAAAATAAAAAAAAAACGGCCAAAATCAGAG-T
*
88418810 TTTTTTCTAAATTAATAT-AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATA
65 TTTTTACTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATA
88418874 TAAAAAAATAAAATACGAA
130 TAAAAAAATAAAATACGAA
* * *
88418893 AATAGTATATTTTAAAAAATAAAATCTGAAAATAAAAT-AAAAATAAATGGCCAAAATCAAAGTT
1 AATAGTATATTTTAAAAAATAAAATCTGAAAATAAAATAAAAAAAAAACGGCCAAAATCAGAGTT
88418957 TTTTACTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT
66 TTTTACTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT
*
88419022 -AAAAAATAAAATACAAA
131 AAAAAAATAAAATACGAA
* * * *
88419039 AATAGTATATTTTAAAAAGTAAAATCCGAAAATAAAATAAAAAAACAAATGGCCAAAATCATAGT
1 AATAGTATATTTTAAAAAATAAAATCTGAAAATAAAATAAAAAAA-AAACGGCCAAAATCAGAGT
*
88419104 TTTTTACTAAATTAATATAAAAAAATACAAAAATAATACATTTGAAACATTATGTACTAAAATAA
65 TTTTTACTAAATTAATAT-AAAAAA-ACTAAAATAATACATTTGAAACATTATGTACTAAAATAA
* *
88419169 TAT-AAAAATTATAATACGAA
128 TATAAAAAAATAAAATACGAA
*
88419189 AATAGTATATTTTAAAAAATAAAATCCGAAAAT-AAATAAA
1 AATAGTATATTTTAAAAAATAAAATCTGAAAATAAAATAAA
88419229 TACCAAAATA
Statistics
Matches: 1001, Mismatches: 44, Indels: 40
0.92 0.04 0.04
Matches are distributed among these distances:
140 2 0.00
141 14 0.01
142 78 0.08
143 35 0.03
144 58 0.06
145 116 0.12
146 174 0.17
147 139 0.14
148 246 0.25
149 26 0.03
150 87 0.09
151 26 0.03
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.28
Consensus pattern (148 bp):
AATAGTATATTTTAAAAAATAAAATCTGAAAATAAAATAAAAAAAAAACGGCCAAAATCAGAGTT
TTTTACTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT
AAAAAAATAAAATACGAA
Found at i:88425563 original size:14 final size:14
Alignment explanation
Indices: 88425544--88425573 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
88425534 TATTTGACTG
88425544 TTAGTCCATCATTT
1 TTAGTCCATCATTT
*
88425558 TTAGTCCATTATTT
1 TTAGTCCATCATTT
88425572 TT
1 TT
88425574 GTGTCGTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.57
Consensus pattern (14 bp):
TTAGTCCATCATTT
Found at i:88426304 original size:132 final size:131
Alignment explanation
Indices: 88425910--88426307 Score: 433
Period size: 131 Copynumber: 3.0 Consensus size: 131
88425900 ATTATTCATT
* ** * * *
88425910 TAAAAAC-CTTTCAAAACAAAGGCGACGTTCGATGTTTGGCAATCCGTGGAATCGTGTCCTATCG
1 TAAAAACTCTTT-AAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTG-CCTATCG
* * * * * *
88425974 TGCTGGATTGCAATTTCTCGTTTGCTCAAAATAATCGAACGTCCCTTTAGAATTTCACTCATGGT
64 TGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATTGAACATCCCTTCAGAATTTCACTCATGTT
*
88426039 TCC
129 TTC
* * * *
88426042 TAAAAACTCTTTGAAACGAAGGAAATGTTCGATGTTTGGCGATT-TGAGAATCGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTG-CCTATCGT
** * * * * * *
88426106 GCTGGGTTGCGCTTTTTCATTTGTTCAAAACAATTGAAGATTCCTTC-GAAATTTTACTCATGTT
65 GCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATTGAACATCCCTTCAG-AATTTCACTCATGTT
88426170 TTC
129 TTC
* * *
88426173 TAAAAACTCTTTAAAACGAGGGAAATGTTCGATGTTTGGCAATTCGGGGAATAGTGCCTTATTGT
1 TAAAAACTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCC-TATCGT
* * * * *
88426238 GCTGGGTTGCAATCTCCCGTTTGTTCAAAATAATTGAATATCCCTTCAGAATTTCACTCGTATTT
65 GCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATTGAACATCCCTTCAGAATTTCACTCATGTTT
88426303 TC
130 TC
88426305 TAA
1 TAA
88426308 GGCGAGGCAA
Statistics
Matches: 216, Mismatches: 45, Indels: 10
0.80 0.17 0.04
Matches are distributed among these distances:
130 1 0.00
131 109 0.50
132 101 0.47
133 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (131 bp):
TAAAAACTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCTATCGTG
CTGGGTTGCAATTTCTCGTTTGTTCAAAATAATTGAACATCCCTTCAGAATTTCACTCATGTTTT
C
Found at i:88428726 original size:40 final size:40
Alignment explanation
Indices: 88428681--88428848 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
88428671 CGGAATATAA
88428681 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
88428721 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
88428761 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * * *
88428801 CCGGATATAATTTCCAGCATAATTGTCTTAGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
88428841 CCGGATAT
1 CCGGATAT
88428849 CATTCAATTT
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 105 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:88430153 original size:71 final size:69
Alignment explanation
Indices: 88430065--88430262 Score: 240
Period size: 71 Copynumber: 2.8 Consensus size: 69
88430055 CGATTTGTCC
* * ** *
88430065 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAG-CTACATTTA
1 CGTAGCTCTCTTGTCTACATGG-G--ATACACTCCGAATCACACATGCGACCTAGACTACATTTA
88430129 TCTTTCA
63 TCTTTCA
* *
88430136 CGTAGCTCTCTTGTCTACATGGGATACACTCCGTATCACACATGTGACCTAGCTACTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGGATACACTCCGAATCACACATGCGACCTAG--ACTACATTTAT
88430201 CTTTCA
64 CTTTCA
* *
88430207 CGTAGCTCTCTTGTCTACATGGGATACA-TCCCGTATCACACATGTGACCTAG-CTAC
1 CGTAGCTCTCTTGTCTACATGGGATACACT-CCGAATCACACATGCGACCTAGACTAC
88430263 TACATGGTGT
Statistics
Matches: 116, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
68 26 0.22
70 2 0.02
71 88 0.76
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (69 bp):
CGTAGCTCTCTTGTCTACATGGGATACACTCCGAATCACACATGCGACCTAGACTACATTTATCT
TTCA
Found at i:88430263 original size:71 final size:71
Alignment explanation
Indices: 88430120--88430267 Score: 280
Period size: 71 Copynumber: 2.1 Consensus size: 71
88430110 TGCGACCTAG
88430120 CTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGGATACACTCCGTATCACACATGTGACC
1 CTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGGATACACTCCGTATCACACATGTGACC
88430185 TAGCTA
66 TAGCTA
88430191 CTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGGATACA-TCCCGTATCACACATGTGAC
1 CTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGGATACACT-CCGTATCACACATGTGAC
88430255 CTAGCTA
65 CTAGCTA
88430262 CTACAT
1 CTACAT
88430268 GGTGTCTCGT
Statistics
Matches: 76, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
70 1 0.01
71 75 0.99
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (71 bp):
CTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGGATACACTCCGTATCACACATGTGACC
TAGCTA
Found at i:88435811 original size:8 final size:8
Alignment explanation
Indices: 88435795--88435829 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
88435785 CTATTTATTT
88435795 TTTTAAAAA
1 TTTT-AAAA
88435804 TTTTAAAA
1 TTTTAAAA
88435812 TTTTAAAA
1 TTTTAAAA
88435820 TTTTAAAA
1 TTTTAAAA
88435828 TT
1 TT
88435830 AAAATATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 22 0.85
9 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
TTTTAAAA
Found at i:88436733 original size:22 final size:24
Alignment explanation
Indices: 88436690--88436737 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
88436680 TATTAAAATA
88436690 AAATATCATCATAATCAATTTCATT
1 AAATATCAT-ATAATCAATTTCATT
*
88436715 AAATATCAT-TAA-CATTTTCATT
1 AAATATCATATAATCAATTTCATT
88436737 A
1 A
88436738 CAAAATCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 10 0.45
23 3 0.14
25 9 0.41
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.42
Consensus pattern (24 bp):
AAATATCATATAATCAATTTCATT
Found at i:88441509 original size:5 final size:5
Alignment explanation
Indices: 88441499--88441524 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
88441489 AATAATCATC
88441499 TTTAA TTTAA TTTAA TTTAA TTTAA T
1 TTTAA TTTAA TTTAA TTTAA TTTAA T
88441525 GATAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:88447241 original size:12 final size:12
Alignment explanation
Indices: 88447224--88447248 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88447214 TAATTAAATG
88447224 AATTAAAAGCCA
1 AATTAAAAGCCA
88447236 AATTAAAAGCCA
1 AATTAAAAGCCA
88447248 A
1 A
88447249 TTTTTTTCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AATTAAAAGCCA
Found at i:88471947 original size:46 final size:46
Alignment explanation
Indices: 88471827--88471952 Score: 216
Period size: 46 Copynumber: 2.7 Consensus size: 46
88471817 AACCCGCCCC
* * * *
88471827 TAAGTGAACTCGGACTCAACTCAATGAGCTCAGACGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
88471873 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
88471919 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
88471953 TGCTCAACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:88471971 original size:46 final size:45
Alignment explanation
Indices: 88471829--88471971 Score: 137
Period size: 46 Copynumber: 3.1 Consensus size: 45
88471819 CCCGCCCCTA
* * * * * *
88471829 AGTGAACTCGGACTCAACTCAATGAGCTCAGACGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
*** *
88471874 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
88471920 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCT
88471967 AGTGA
1 AGTGA
88471972 CATGTCACTT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
46 81 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCT
Found at i:88473616 original size:44 final size:43
Alignment explanation
Indices: 88473515--88473672 Score: 178
Period size: 43 Copynumber: 3.7 Consensus size: 43
88473505 GGTCTTACAC
* *
88473515 ATGCCACTGTCCCAGACAGGGTCTTACAC-AAA-ATTAAATACG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCTTAAAT-CG
*
88473557 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTTAAATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACG-AAATCTTAAATCG
* * * *
88473601 ATGACAATGTCCCAGA-TGTGGTCTTACACGAAATCATATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCTTAAATCG
* * *
88473644 ATGCCACTATCTCAGACAGGGTCTTACAC
1 ATGCCAATGTCCCAGACAGGGTCTTACAC
88473673 AATATCTCAC
Statistics
Matches: 98, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
42 27 0.28
43 33 0.34
44 32 0.33
45 6 0.06
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCTTAAATCG
Found at i:88497474 original size:12 final size:12
Alignment explanation
Indices: 88497457--88497481 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88497447 TGGACAAAAA
88497457 TTGGCTTTTAAT
1 TTGGCTTTTAAT
88497469 TTGGCTTTTAAT
1 TTGGCTTTTAAT
88497481 T
1 T
88497482 CATTTAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TTGGCTTTTAAT
Found at i:88499872 original size:43 final size:43
Alignment explanation
Indices: 88499810--88499969 Score: 148
Period size: 43 Copynumber: 3.7 Consensus size: 43
88499800 ATGTGAGATA
* *
88499810 TCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATATGATT
1 TCGTGTAAGACCCTATCTGGGACAGTGGCATCGATATATGATT
* * *
88499853 TCGTGTAAGACCAC-ATCTGGGA-TGTTGTCATCGATTTGA-GATT
1 TCGTGTAAGACC-CTATCTGGGACAG-TGGCATCGATAT-ATGATT
* * * * *
88499896 TACGTGTAAGACCATGTCTGGGACATTGGCATC-ATATTTAATT
1 T-CGTGTAAGACCCTATCTGGGACAGTGGCATCGATATATGATT
* *
88499939 TCATGTAAGACCCTATCTAGGACAGTGGCAT
1 TCGTGTAAGACCCTATCTGGGACAGTGGCAT
88499970 GTGTAAGACC
Statistics
Matches: 93, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
42 26 0.28
43 41 0.44
44 26 0.28
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
TCGTGTAAGACCCTATCTGGGACAGTGGCATCGATATATGATT
Found at i:88502640 original size:3 final size:3
Alignment explanation
Indices: 88502632--88502657 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
88502622 TATGTAAGTA
88502632 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
88502658 TTTAAAGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:88505536 original size:77 final size:77
Alignment explanation
Indices: 88505444--88505595 Score: 304
Period size: 77 Copynumber: 2.0 Consensus size: 77
88505434 AATCATTGCT
88505444 AGTAGCAGGCTAATCTGGTTCCTCCTCAGAGTCATCAGATGACAGCAAGGTTGATGGAAATATAG
1 AGTAGCAGGCTAATCTGGTTCCTCCTCAGAGTCATCAGATGACAGCAAGGTTGATGGAAATATAG
88505509 GAAATGGTGGGC
66 GAAATGGTGGGC
88505521 AGTAGCAGGCTAATCTGGTTCCTCCTCAGAGTCATCAGATGACAGCAAGGTTGATGGAAATATAG
1 AGTAGCAGGCTAATCTGGTTCCTCCTCAGAGTCATCAGATGACAGCAAGGTTGATGGAAATATAG
88505586 GAAATGGTGG
66 GAAATGGTGG
88505596 CTTGTGTTTT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (77 bp):
AGTAGCAGGCTAATCTGGTTCCTCCTCAGAGTCATCAGATGACAGCAAGGTTGATGGAAATATAG
GAAATGGTGGGC
Found at i:88508726 original size:21 final size:21
Alignment explanation
Indices: 88508700--88508740 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
88508690 ATCTGCTCAA
* *
88508700 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
88508721 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
88508741 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:88512742 original size:13 final size:13
Alignment explanation
Indices: 88512724--88512751 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
88512714 TGAATTACTT
88512724 CAAAAGGTCCTAC
1 CAAAAGGTCCTAC
88512737 CAAAAGGTCCTAC
1 CAAAAGGTCCTAC
88512750 CA
1 CA
88512752 TCAAGCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.32, G:0.14, T:0.14
Consensus pattern (13 bp):
CAAAAGGTCCTAC
Found at i:88514477 original size:22 final size:22
Alignment explanation
Indices: 88514423--88514489 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
88514413 GAGCTGATGG
88514423 ACAGTAAGCTCTATTGAGCTGA
1 ACAGTAAGCTCTATTGAGCTGA
*
88514445 A-ATGGTAAGCTCTATCT-TGCTGA
1 ACA--GTAAGCTCTAT-TGAGCTGA
88514468 ACAGTAAGCTC-ATATGAGCTGA
1 ACAGTAAGCTCTAT-TGAGCTGA
88514490 TATATCGATA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
21 4 0.11
22 14 0.38
23 17 0.46
24 2 0.05
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (22 bp):
ACAGTAAGCTCTATTGAGCTGA
Found at i:88519704 original size:49 final size:49
Alignment explanation
Indices: 88519462--88519819 Score: 147
Period size: 49 Copynumber: 7.5 Consensus size: 49
88519452 TATGTGTGCT
* * * *
88519462 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCA-C-AT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GACATCGATAGATGAAAGCC
* * * * * * *
88519508 ACTGTAAGACCATGTCTGAGACATGGCATCGGCATTG--AGACGAGAGCT
1 AGTGTAAGACC-TGTCTGGGACATGGCATCGACATCGATAGATGAAAGCC
* * * * * * *
88519556 AGTGTAAGACATTTCTGGGATAT-GCATC-AGCCTTGATATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CATCGATAGATGA-AAGCC
* * * * * *
88519604 AGTGTAAGACCTGCCTGGGACATGGCGT-TAGC-TTGAT-G-TG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CATCGATAGATGAAAGCC
* * *
88519648 AGTGTAAGACCTGTTTGGGGCATGGCATCGACATCGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGCC
* *** * * * * *
88519697 AGTGTAAGACTTGTCTGGGACACAACATCGGCCTCAATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGCC
* * * * ** *
88519746 AGTGTAAGACTTGTTTGGGACATGGCATCGACTTTGAT-G-TGCTAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGCC
*
88519793 AGTGTAAGACCATGTCTGGGGCATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
88519820 GTCAGCATCT
Statistics
Matches: 230, Mismatches: 63, Indels: 36
0.70 0.19 0.11
Matches are distributed among these distances:
44 26 0.11
45 5 0.02
46 20 0.09
47 40 0.17
48 64 0.28
49 75 0.33
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGCC
Found at i:88520961 original size:37 final size:37
Alignment explanation
Indices: 88520902--88521047 Score: 211
Period size: 37 Copynumber: 3.9 Consensus size: 37
88520892 AGCTCAGACG
* *
88520902 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
88520939 AAATCTCCACTCGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
88520976 TACTCTCCACACATAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
88521013 TAATCTCCACATGTAGTCATCGGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
88521048 ATATATTTCC
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:88521261 original size:47 final size:47
Alignment explanation
Indices: 88521210--88521489 Score: 497
Period size: 47 Copynumber: 6.0 Consensus size: 47
88521200 TTTCACACTA
* *
88521210 GCCATTCGGCTTTACCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
88521257 GCCATTCGGCCTTATCACATATATGAATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
88521304 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
88521351 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
88521398 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* **
88521445 GCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
88521490 AAAATCCTAA
Statistics
Matches: 224, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 224 1.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:88521370 original size:22 final size:22
Alignment explanation
Indices: 88521342--88521464 Score: 74
Period size: 22 Copynumber: 5.3 Consensus size: 22
88521332 GTTCACATTC
88521342 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
88521364 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
88521388 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
88521411 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
88521435 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
88521458 ATCACAT
1 ATCACAT
88521465 ATATACACAT
Statistics
Matches: 75, Mismatches: 12, Indels: 28
0.65 0.10 0.24
Matches are distributed among these distances:
22 27 0.36
23 14 0.19
24 14 0.19
25 20 0.27
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:88528332 original size:19 final size:19
Alignment explanation
Indices: 88528288--88528332 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
88528278 CCGTGTGAGT
*
88528288 GACATGGCCTAAAGACACG
1 GACATGTCCTAAAGACACG
88528307 GACATGTCCTAAAGACACG
1 GACATGTCCTAAAGACACG
88528326 GACATGT
1 GACATGT
88528333 GGCCTGGCCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (19 bp):
GACATGTCCTAAAGACACG
Found at i:88541607 original size:26 final size:24
Alignment explanation
Indices: 88541517--88541637 Score: 68
Period size: 26 Copynumber: 4.8 Consensus size: 24
88541507 AAGTGAATGA
*
88541517 TATAAAACAGTTTAAAAT-AA-AC
1 TATAAAACAATTTAAAATAAATAC
* *
88541539 GATAAGACAATTTTAAAATGAATAATA-
1 TATAAAACAA-TTTAAAAT--A-AATAC
*
88541566 TATGGAGAAACAAATTTAAAATAGATAC
1 TAT--A-AAAC-AATTTAAAATAAATAC
* * *
88541594 TATAAAAAGCAATTTTAAGTAAATAG
1 TAT-AAAA-CAATTTAAAATAAATAC
88541620 TATAAAACAATTTAAAAT
1 TATAAAACAATTTAAAAT
88541638 CATTGATATA
Statistics
Matches: 74, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
22 7 0.09
23 8 0.11
24 9 0.12
25 4 0.05
26 18 0.24
27 9 0.12
28 5 0.07
29 1 0.01
30 11 0.15
31 2 0.03
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.29
Consensus pattern (24 bp):
TATAAAACAATTTAAAATAAATAC
Found at i:88541776 original size:29 final size:29
Alignment explanation
Indices: 88541723--88541778 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
88541713 CACAAAGAAA
* *
88541723 TTTAACATAAATAATATGTCAAAAATAAG
1 TTTAAAATAAATAATATATCAAAAATAAG
88541752 TTTAAAATAAATAATATAT-ATAAAATA
1 TTTAAAATAAATAATATATCA-AAAATA
88541779 CATATGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.34
Consensus pattern (29 bp):
TTTAAAATAAATAATATATCAAAAATAAG
Found at i:88541920 original size:25 final size:25
Alignment explanation
Indices: 88541892--88541975 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 25
88541882 GTTAACATAC
*
88541892 AAAA-AAATGAAAATTAAATAATAAT
1 AAAACAAATTAAAA-TAAATAATAAT
* * *
88541917 AAAACGATTTAAAATAAATAATATAAG
1 AAAACAAATTAAAATAAAT-A-ATAAT
88541944 AAAACAAACTTAAAATAAATAATAAT
1 AAAACAAA-TTAAAATAAATAATAAT
88541970 AAAACA
1 AAAACA
88541976 GTTCCTAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
25 9 0.19
26 17 0.35
27 11 0.23
28 11 0.23
ACGTcount: A:0.69, C:0.05, G:0.04, T:0.23
Consensus pattern (25 bp):
AAAACAAATTAAAATAAATAATAAT
Found at i:88543682 original size:45 final size:45
Alignment explanation
Indices: 88543532--88543961 Score: 181
Period size: 45 Copynumber: 9.6 Consensus size: 45
88543522 TTTCAACATG
* * * * * *
88543532 CTCCACTGCAACTTCAGGGAGATAAGATTTGTGTATTTTTA-TCCTG
1 CTCCACTACAACTTCAGGGAGATAAGATCTG-CTATCTTCAGT-CTA
* * ** **
88543578 TTCTACTACAACTTCAGATAGATAAGGATC-G-TGGCTTC-GATCTA
1 CTCCACTACAACTTCAGGGAGATAA-GATCTGCTATCTTCAG-TCTA
* * *
88543622 CTCTACTACAACTTCAGGGAGATAAGATCTGCTATTTTCAGTCTG
1 CTCCACTACAACTTCAGGGAGATAAGATCTGCTATCTTCAGTCTA
* *
88543667 CTCCACTGCAACTTCAGGGAGATAAGA-CTTGCTATCTTCGGTCTA
1 CTCCACTACAACTTCAGGGAGATAAGATC-TGCTATCTTCAGTCTA
* * * * **
88543712 CACCACTGCAACTTCAGGGAGATATGA-AT--T-TCTTCAACCTA
1 CTCCACTACAACTTCAGGGAGATAAGATCTGCTATCTTCAGTCTA
* * * * * * *
88543753 CTCTACTACTACTTCCGGGAGATAAGGTTTGCTA---TGA-TCTG
1 CTCCACTACAACTTCAGGGAGATAAGATCTGCTATCTTCAGTCTA
** * * * **
88543794 CTCTTCTGCAACTTTAGAGAGATAAGATCTATTTATTTATAGCTTC-GATCTA
1 CTCCACTACAACTTCAGGGAGATAAGATC----T-GCTAT--CTTCAG-TCTA
* * * * * *
88543846 TTCAACTACAACTTCAGGGAAATAAGATTTGCTATTTTCAGTCTG
1 CTCCACTACAACTTCAGGGAGATAAGATCTGCTATCTTCAGTCTA
* * * * **
88543891 TTCCACTACAACTTTAGGGAGATAAGA-CT-TTAACTTCAACCTA
1 CTCCACTACAACTTCAGGGAGATAAGATCTGCTATCTTCAGTCTA
*
88543934 CTCCACTGCAACTTCAGGGAGATAAGAT
1 CTCCACTACAACTTCAGGGAGATAAGAT
88543962 TCACCATTAT
Statistics
Matches: 282, Mismatches: 77, Indels: 52
0.69 0.19 0.13
Matches are distributed among these distances:
41 51 0.18
42 4 0.01
43 36 0.13
44 32 0.11
45 102 0.36
46 25 0.09
47 6 0.02
48 1 0.00
51 1 0.00
52 24 0.09
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (45 bp):
CTCCACTACAACTTCAGGGAGATAAGATCTGCTATCTTCAGTCTA
Found at i:88544394 original size:46 final size:46
Alignment explanation
Indices: 88544364--88544451 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
88544354 TCTTCCATTC
* ** *
88544364 ATCCCACTGTAACTCAGGTTTATAGGATTTGTATCTTCTTTAATCT
1 ATCCCACTGCAACTCAGGGGTATAGGATTTGTATCTTCTTCAATCT
88544410 ATCCCACTGCAACTCAGGGGTATAGGATTTGTATCTTCTTCA
1 ATCCCACTGCAACTCAGGGGTATAGGATTTGTATCTTCTTCA
88544452 TTAATCTGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.39
Consensus pattern (46 bp):
ATCCCACTGCAACTCAGGGGTATAGGATTTGTATCTTCTTCAATCT
Found at i:88545279 original size:5 final size:5
Alignment explanation
Indices: 88545269--88545328 Score: 77
Period size: 5 Copynumber: 11.8 Consensus size: 5
88545259 GGCCTCTCCG
*
88545269 TTTTC TTTTC TTTTC TTTTA TTTTC TTTTC TTTTC TTCTTC TTCTTC TTTT-
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT-TTC TT-TTC TTTTC
*
88545320 TTTTA TTTT
1 TTTTC TTTT
88545329 TGGAAAACTT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
4 4 0.08
5 36 0.71
6 11 0.22
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:88554230 original size:23 final size:23
Alignment explanation
Indices: 88554204--88554259 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
88554194 GTGGAGAAAC
88554204 AAATTTAAAATAGATACTATAAA
1 AAATTTAAAATAGATACTATAAA
* * **
88554227 AAATTTTAAGTAGATTGTATAAA
1 AAATTTAAAATAGATACTATAAA
88554250 ACAATTTAAA
1 A-AATTTAAA
88554260 TTCATTGATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 20 0.74
24 7 0.26
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (23 bp):
AAATTTAAAATAGATACTATAAA
Found at i:88554413 original size:17 final size:16
Alignment explanation
Indices: 88554386--88554418 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
88554376 AGTTTAAAAT
88554386 AAATAATATATATAAA
1 AAATAATATATATAAA
88554402 AAATACATATATATAAA
1 AAATA-ATATATATAAA
88554419 CAGTTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATAATATATATAAA
Found at i:88558535 original size:51 final size:51
Alignment explanation
Indices: 88558459--88558560 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
88558449 TTATGTATTG
88558459 GCATTATGTCATTGTTCTTAATTAATGAAATTATCATCATTTTTCATTCAA
1 GCATTATGTCATTGTTCTTAATTAATGAAATTATCATCATTTTTCATTCAA
88558510 GCATTATGTCATTGTTCTTAATTAATGAAATTATCATCATTTTTCATTCAA
1 GCATTATGTCATTGTTCTTAATTAATGAAATTATCATCATTTTTCATTCAA
88558561 CATACTCTCC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (51 bp):
GCATTATGTCATTGTTCTTAATTAATGAAATTATCATCATTTTTCATTCAA
Found at i:88564535 original size:7 final size:7
Alignment explanation
Indices: 88564525--88564572 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
88564515 TAAAACATAA
88564525 ATTTTGG
1 ATTTTGG
**
88564532 ATTTTAA
1 ATTTTGG
88564539 ATTTTGG
1 ATTTTGG
88564546 ATTTTGG
1 ATTTTGG
*
88564553 AATTTGG
1 ATTTTGG
*
88564560 AATTTGG
1 ATTTTGG
88564567 AATTTT
1 -ATTTT
88564573 TAAAATTCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
7 30 0.88
8 4 0.12
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (7 bp):
ATTTTGG
Found at i:88564541 original size:14 final size:14
Alignment explanation
Indices: 88564522--88564550 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
88564512 TTATAAAACA
88564522 TAAATTTTGGATTT
1 TAAATTTTGGATTT
88564536 TAAATTTTGGATTT
1 TAAATTTTGGATTT
88564550 T
1 T
88564551 GGAATTTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (14 bp):
TAAATTTTGGATTT
Found at i:88567678 original size:10 final size:10
Alignment explanation
Indices: 88567646--88567710 Score: 53
Period size: 10 Copynumber: 6.4 Consensus size: 10
88567636 TAATTTTTTT
88567646 AAATT-TTAA
1 AAATTATTAA
* * *
88567655 AAATAAATAT
1 AAATTATTAA
88567665 AAATTATTAA
1 AAATTATTAA
88567675 AAA-TATTAA
1 AAATTATTAA
88567684 AAATTATGTTAA
1 AAATTA--TTAA
*
88567696 AATATTTTTAA
1 AA-ATTATTAA
88567707 AAAT
1 AAAT
88567711 AAACATTATA
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
9 13 0.30
10 16 0.36
11 6 0.14
12 6 0.14
13 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (10 bp):
AAATTATTAA
Found at i:88567687 original size:19 final size:19
Alignment explanation
Indices: 88567646--88567701 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
88567636 TAATTTTTTT
* *
88567646 AAATT-TTAAAAATAAATAT
1 AAATTATTAAAAAT-ATTAA
88567665 AAATTATTAAAAATATTAA
1 AAATTATTAAAAATATTAA
*
88567684 AAATTATGTTAAAATATT
1 AAATTAT-TAAAAATATT
88567702 TTTAAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
AAATTATTAAAAATATTAA
Found at i:88567749 original size:29 final size:30
Alignment explanation
Indices: 88567693--88567749 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
88567683 AAAATTATGT
* *
88567693 TAAAATATTTTTAAAAATAAACATTATAAA
1 TAAAATATTTCTAAAAATAAACAATATAAA
88567723 TAAAA-ATTTCTAAAAATTAAA-AATATA
1 TAAAATATTTCTAAAAA-TAAACAATATA
88567750 TATGTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (30 bp):
TAAAATATTTCTAAAAATAAACAATATAAA
Found at i:88567758 original size:31 final size:29
Alignment explanation
Indices: 88567674--88567769 Score: 86
Period size: 31 Copynumber: 3.2 Consensus size: 29
88567664 TAAATTATTA
* *
88567674 AAAATATTAAAAATTATGTTAAAATATTTTT
1 AAAA-ATTAAAAATTATATTAAAA-ATTTCT
* *
88567705 AAAAA-TAAACATTATAAATAAAAATTTCT
1 AAAAATTAAAAATTAT-ATTAAAAATTTCT
**
88567734 AAAAATTAAAAATATATATGTAAAAAAATCT
1 AAAAATTAAAAAT-TATAT-TAAAAATTTCT
88567765 AAAAA
1 AAAAA
88567770 GGTTACAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
29 19 0.36
30 13 0.25
31 21 0.40
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.33
Consensus pattern (29 bp):
AAAAATTAAAAATTATATTAAAAATTTCT
Found at i:88574581 original size:2 final size:2
Alignment explanation
Indices: 88574576--88574600 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
88574566 GTGAAAGTCG
88574576 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
88574601 TCTGAAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:88575002 original size:40 final size:39
Alignment explanation
Indices: 88574941--88575085 Score: 173
Period size: 39 Copynumber: 3.7 Consensus size: 39
88574931 ATTTAATGTG
*
88574941 TATCCAGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGGGCTT-AAGACCCGCAGGCTATATGCTGGAATTA
*
88574981 TGTCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGGGCTT-AAGACCCGCAGGCTATATGCTGGAATTA
* * ** *
88575021 TACCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGGCTTAAGACCCGCAGGCTATATGCTGGAATTA
* * **
88575060 TAACCGGACTTAAGGTCCGCAGGCTA
1 TATCCGGGCTTAAGACCCGCAGGCTA
88575086 CGCGCTGGAA
Statistics
Matches: 96, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 50 0.52
40 46 0.48
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTTAAGACCCGCAGGCTATATGCTGGAATTA
Found at i:88575053 original size:39 final size:39
Alignment explanation
Indices: 88574958--88575085 Score: 184
Period size: 39 Copynumber: 3.3 Consensus size: 39
88574948 GCTTAAAGAC
** * **
88574958 CCGCAGGCTATATGCTGGAATTATGTCCGGGCTTAAAGAC
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTT-AAGGT
*
88574998 CCGCAGGCTATATGCTGGAATTATACCCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
*
88575037 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
88575076 CCGCAGGCTA
1 CCGCAGGCTA
88575086 CGCGCTGGAA
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 50 0.62
40 31 0.38
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
Found at i:88575093 original size:39 final size:39
Alignment explanation
Indices: 88575011--88575095 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
88575001 CAGGCTATAT
* * *
88575011 GCTGGAATTATACCCGGACTTAAGGTCCGCAGGCTATGT
1 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGC
88575050 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGC
1 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGC
88575089 GCTGGAA
1 GCTGGAA
88575096 ATATGTCCGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (39 bp):
GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGC
Found at i:88583115 original size:22 final size:22
Alignment explanation
Indices: 88583088--88583135 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
88583078 TTTAGTTTGA
88583088 TTTTGTTTTCATGGAAATCGGT
1 TTTTGTTTTCATGGAAATCGGT
*
88583110 TTTTGTTTTCATGGAAATCTGT
1 TTTTGTTTTCATGGAAATCGGT
88583132 TTTT
1 TTTT
88583136 ATGCCTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.17, C:0.08, G:0.19, T:0.56
Consensus pattern (22 bp):
TTTTGTTTTCATGGAAATCGGT
Found at i:88583204 original size:19 final size:19
Alignment explanation
Indices: 88583167--88583206 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
88583157 TAACAAAAGA
*
88583167 TAAAAAATATGGATGTTTT
1 TAAAAAATATAGATGTTTT
*
88583186 TAAAAAATATATAT-TTTT
1 TAAAAAATATAGATGTTTT
88583204 TAA
1 TAA
88583207 TACCTTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (19 bp):
TAAAAAATATAGATGTTTT
Found at i:88586090 original size:16 final size:17
Alignment explanation
Indices: 88586030--88586094 Score: 55
Period size: 16 Copynumber: 3.8 Consensus size: 17
88586020 ATTTGTATAA
*
88586030 TATACATTTTTATAAATT
1 TATACATTTATAT-AATT
*
88586048 TATAGGCTTTTATAT-ATT
1 TATA--CATTTATATAATT
*
88586066 TATATATTTATATAATT
1 TATACATTTATATAATT
88586083 T-TACATTT-TATA
1 TATACATTTATATA
88586095 TGCTTTTCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
15 4 0.10
16 13 0.33
17 4 0.10
18 11 0.28
20 7 0.18
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (17 bp):
TATACATTTATATAATT
Found at i:88588121 original size:17 final size:18
Alignment explanation
Indices: 88588096--88588129 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
88588086 CACTTATATT
*
88588096 TTATTTTAT-TTTAAATA
1 TTATCTTATATTTAAATA
88588113 TTATCTTATATTTAAAT
1 TTATCTTATATTTAAAT
88588130 TAATTATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATCTTATATTTAAATA
Found at i:88588764 original size:12 final size:12
Alignment explanation
Indices: 88588749--88588773 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88588739 TTATAAAAAA
88588749 TTTATTAAATTT
1 TTTATTAAATTT
88588761 TTTATTAAATTT
1 TTTATTAAATTT
88588773 T
1 T
88588774 AATAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTATTAAATTT
Found at i:88588876 original size:191 final size:188
Alignment explanation
Indices: 88588490--88588873 Score: 657
Period size: 191 Copynumber: 2.0 Consensus size: 188
88588480 CTTCTTCTTC
88588490 TTCAAAAAAAAAAAAACGCAATAAGCTATGCTCTTATTAAAATTAGAAAAAATAAATTATAAAAT
1 TTCAAAAAAAAAAAAACGCAATAAGCTATGCTCTTATTAAAATTAGAAAAAATAAATTAT--AAT
88588555 AAAAATTTATTAAATTTTTTATTAAATTTAATAAAAATTTAAAAATCATTAACAATTAATTTTTT
64 AAAAATTTATTAAATTTTTTATTAAATTTAATAAAAATTTAAAAAT-ATTAACAATTAATTTTTT
88588620 AAAAAAATTAAAAAATGAAAATTTATAAAAATCATAAAAAATTAACGACCCCTAGTTTTTT
128 AAAAAAATTAAAAAATGAAAATTTATAAAAATCATAAAAAATTAACGACCCCTAGTTTTTT
88588681 TTCAAAAAAAAAAAAACGCAATTAAGCTCATGCTCTTATTAAAATTAGAAAAAATAAATTAT-A-
1 TTCAAAAAAAAAAAAACGCAA-TAAGCT-ATGCTCTTATTAAAATTAGAAAAAATAAATTATAAT
88588744 AAAAATTTATTAAATTTTTTATTAAATTTTAATAAAAATTTAAAAAT-TTAACAATTAATTTTTT
64 AAAAATTTATTAAATTTTTTATTAAA-TTTAATAAAAATTTAAAAATATTAACAATTAATTTTTT
88588808 AAAAAAATTAAAAAAATGTAAAATTTTATAAAAATCATAAAAAAATTAACGACCCCTAGTTTTTT
128 AAAAAAATT-AAAAAATG-AAAA-TTTATAAAAATCAT-AAAAAATTAACGACCCCTAGTTTTTT
88588873 T
1 T
88588874 CAATTAAAGT
Statistics
Matches: 186, Mismatches: 0, Indels: 13
0.93 0.00 0.07
Matches are distributed among these distances:
188 26 0.14
189 34 0.18
190 25 0.13
191 35 0.19
192 33 0.18
193 33 0.18
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (188 bp):
TTCAAAAAAAAAAAAACGCAATAAGCTATGCTCTTATTAAAATTAGAAAAAATAAATTATAATAA
AAATTTATTAAATTTTTTATTAAATTTAATAAAAATTTAAAAATATTAACAATTAATTTTTTAAA
AAAATTAAAAAATGAAAATTTATAAAAATCATAAAAAATTAACGACCCCTAGTTTTTT
Found at i:88589092 original size:29 final size:28
Alignment explanation
Indices: 88589060--88589159 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 28
88589050 ACTTTATAAA
*
88589060 ATTTTATAGATTTTTTTATATTTCTATAT
1 ATTTTATA-ATTTTTTTATATTTTTATAT
*
88589089 ATTTTATAA--TTTTTATGATTTTTATAAA
1 ATTTTATAATTTTTTTAT-ATTTTTAT-AT
*
88589117 ATTTTAT-ATTTTTTTACGATTTTTATATT
1 ATTTTATAATTTTTTTA-TATTTTTATA-T
88589146 ATTTTATAATTTTT
1 ATTTTATAATTTTT
88589160 AATAAAAGCA
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
26 7 0.12
27 8 0.13
28 10 0.17
29 29 0.48
30 6 0.10
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (28 bp):
ATTTTATAATTTTTTTATATTTTTATAT
Found at i:88589095 original size:17 final size:17
Alignment explanation
Indices: 88589072--88589114 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
88589062 TTTATAGATT
88589072 TTTTTATATTTCTAT-A
1 TTTTTATATTTCTATGA
*
88589088 TATTTTATAATTTTTATGA
1 T-TTTTAT-ATTTCTATGA
88589107 TTTTTATA
1 TTTTTATA
88589115 AAATTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 1 0.04
17 7 0.30
18 13 0.57
19 2 0.09
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTTTATATTTCTATGA
Found at i:88589131 original size:57 final size:57
Alignment explanation
Indices: 88589052--88589160 Score: 168
Period size: 57 Copynumber: 1.9 Consensus size: 57
88589042 TTCTTACGAC
*
88589052 TTTATAAAATTTTATAGATTTTTTTA-TATTTCTATA-TATTTTATAATTTTTATGATT
1 TTTATAAAATTTTAT--ATTTTTTTACGATTTCTATATTATTTTATAATTTTTATGATT
*
88589109 TTTATAAAATTTTATATTTTTTTACGATTTTTATATTATTTTATAATTTTTA
1 TTTATAAAATTTTATATTTTTTTACGATTTCTATATTATTTTATAATTTTTA
88589161 ATAAAAGCAT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
55 9 0.19
56 8 0.17
57 31 0.65
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (57 bp):
TTTATAAAATTTTATATTTTTTTACGATTTCTATATTATTTTATAATTTTTATGATT
Found at i:88589157 original size:19 final size:19
Alignment explanation
Indices: 88589059--88589160 Score: 86
Period size: 19 Copynumber: 5.4 Consensus size: 19
88589049 GACTTTATAA
* *
88589059 AATTTTATAGATTTTTTTAT
1 AATTTT-TATATTATTTTAT
*
88589079 -ATTTCTATA-TATTTTAT
1 AATTTTTATATTATTTTAT
88589096 AATTTTTATGA-T-TTTTAT
1 AATTTTTAT-ATTATTTTAT
* * *
88589114 AAAATTTTATATTTTTTTAC
1 -AATTTTTATATTATTTTAT
*
88589134 GATTTTTATATTATTTTAT
1 AATTTTTATATTATTTTAT
88589153 AATTTTTA
1 AATTTTTA
88589161 ATAAAAGCAT
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
17 7 0.11
18 17 0.26
19 37 0.56
20 5 0.08
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (19 bp):
AATTTTTATATTATTTTAT
Found at i:88589164 original size:10 final size:9
Alignment explanation
Indices: 88589061--88589160 Score: 69
Period size: 10 Copynumber: 10.6 Consensus size: 9
88589051 CTTTATAAAA
88589061 TTTTATAGAT
1 TTTTATA-AT
*
88589071 TTTTTTATAT
1 TTTTATA-AT
*
88589081 TTCTAT-AT
1 TTTTATAAT
88589089 ATTTTATAAT
1 -TTTTATAAT
*
88589099 TTTTATGAT
1 TTTTATAAT
*
88589108 TTTTATAAAA
1 TTTTAT-AAT
88589118 TTTTAT-AT
1 TTTTATAAT
*
88589126 TTTTTTACGAT
1 TTTTATA--AT
*
88589137 TTTTATATT
1 TTTTATAAT
88589146 ATTTTATAAT
1 -TTTTATAAT
88589156 TTTTA
1 TTTTA
88589161 ATAAAAGCAT
Statistics
Matches: 70, Mismatches: 13, Indels: 15
0.71 0.13 0.15
Matches are distributed among these distances:
8 8 0.11
9 25 0.36
10 29 0.41
11 8 0.11
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:88590346 original size:15 final size:17
Alignment explanation
Indices: 88590308--88590345 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
88590298 GAATTGGTTT
88590308 ATATATTTCTATAATAA
1 ATATATTTCTATAATAA
88590325 ATATATTTCTATAATAA
1 ATATATTTCTATAATAA
88590342 ATAT
1 ATAT
88590346 TACTTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTTCTATAATAA
Found at i:88604000 original size:14 final size:14
Alignment explanation
Indices: 88603981--88604007 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
88603971 AAAAAATTGT
88603981 CCGATTGAACCGAA
1 CCGATTGAACCGAA
88603995 CCGATTGAACCGA
1 CCGATTGAACCGA
88604008 GCCGGTCAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.30, G:0.22, T:0.15
Consensus pattern (14 bp):
CCGATTGAACCGAA
Found at i:88632944 original size:42 final size:45
Alignment explanation
Indices: 88632842--88633001 Score: 175
Period size: 48 Copynumber: 3.5 Consensus size: 45
88632832 AGATGCCAAC
*
88632842 GCCATATCCCAGATATGGTCTTACATGGGATCACAACTCAATGCCAAT
1 GCCATATCCCAGATATGGTCTTACATGGGATCTC-ACT-AATG-CAAT
* * * *
88632890 GCCATGTGCCAGACATGGTCTTACATGGGATCTCA-T-AT-CAAA
1 GCCATATCCCAGATATGGTCTTACATGGGATCTCACTAATGCAAT
* *
88632932 GCCATATCCCAGATATGGTCTTACAATGTGATACAT-ACTGATGCAAT
1 GCCATATCCCAGATATGGTCTTAC-ATGGGAT-C-TCACTAATGCAAT
88632979 GCCATATCCCAGATATGGTCTTA
1 GCCATATCCCAGATATGGTCTTA
88633002 TACGAGATCT
Statistics
Matches: 96, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
42 24 0.25
43 6 0.06
44 4 0.04
45 2 0.02
46 3 0.03
47 27 0.28
48 30 0.31
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (45 bp):
GCCATATCCCAGATATGGTCTTACATGGGATCTCACTAATGCAAT
Found at i:88642045 original size:34 final size:34
Alignment explanation
Indices: 88642002--88642069 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
88641992 TCTTTAACTT
88642002 AGAATTATTAAACTCATGTTTATATTGTTACGAA
1 AGAATTATTAAACTCATGTTTATATTGTTACGAA
*
88642036 AGAATTATTAAACTCATGTTTATGTTGTTACGAA
1 AGAATTATTAAACTCATGTTTATATTGTTACGAA
88642070 TAAATTCACG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (34 bp):
AGAATTATTAAACTCATGTTTATATTGTTACGAA
Done.