Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 60 of 316
Found at i:17643877 original size:22 final size:20
Alignment explanation
Indices: 17643829--17643877 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 20
17643819 TCTTAACTAT
*
17643829 TCAAATCCATAGCCAAAACA
1 TCAAATCAATAGCCAAAACA
17643849 TACCAAATCAATATGCCAAAATCA
1 T--CAAATCAATA-GCCAAAA-CA
17643873 TCAAA
1 TCAAA
17643878 CTTACACAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
22 13 0.54
23 7 0.29
24 3 0.12
ACGTcount: A:0.51, C:0.27, G:0.04, T:0.18
Consensus pattern (20 bp):
TCAAATCAATAGCCAAAACA
Found at i:17644733 original size:43 final size:43
Alignment explanation
Indices: 17644656--17644791 Score: 148
Period size: 43 Copynumber: 3.2 Consensus size: 43
17644646 GTTACATGTT
* * * * *
17644656 ATCACATATCGATGCCACTGTCCCAGATAGGGTCTTATACGAA
1 ATCACATAACGATGCCAATGTCCCAGACATGGTCTTATAAGAA
* * * *
17644699 ATCATATAACGATGCCAATGTCCCAAACATGGTCTTACAAGTA
1 ATCACATAACGATGCCAATGTCCCAGACATGGTCTTATAAGAA
* * *
17644742 ATCACA-ATACAATGCCAATGTCCCAGACATGGTCTTATATGTA
1 ATCACATA-ACGATGCCAATGTCCCAGACATGGTCTTATAAGAA
17644785 ATCACAT
1 ATCACAT
17644792 CTCGATAATC
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
42 1 0.01
43 76 0.99
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (43 bp):
ATCACATAACGATGCCAATGTCCCAGACATGGTCTTATAAGAA
Found at i:17645715 original size:39 final size:39
Alignment explanation
Indices: 17645625--17645738 Score: 160
Period size: 39 Copynumber: 2.9 Consensus size: 39
17645615 ACGTAGCTTA
* *
17645625 TTCAACCCTGTGTCCATGCCATAAT-CTTTCACTAACGC
1 TTCAAGCCTGTGTCGATGCCATAATACTTTCACTAACGC
* *
17645663 TTCAATCCTGTGTCGATGCCATAATACTTTCACTAACTC
1 TTCAAGCCTGTGTCGATGCCATAATACTTTCACTAACGC
*
17645702 TTTAAGGCC-GTGTCGATGCCATAATACTTTCACTAAC
1 TTCAA-GCCTGTGTCGATGCCATAATACTTTCACTAAC
17645739 ACTATTCTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
38 23 0.33
39 44 0.64
40 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.33
Consensus pattern (39 bp):
TTCAAGCCTGTGTCGATGCCATAATACTTTCACTAACGC
Found at i:17650625 original size:32 final size:32
Alignment explanation
Indices: 17650587--17650662 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 32
17650577 CCTTCAATAG
17650587 CGGTATTATAATTAGCACAAAGCCATCAGTAA
1 CGGTATTATAATTAGCACAAAGCCATCAGTAA
* ** * * * *
17650619 CTGTATTATGTTTGGTACATAGCCATCAGTGA
1 CGGTATTATAATTAGCACAAAGCCATCAGTAA
17650651 CGGTATTATAAT
1 CGGTATTATAAT
17650663 CGGCACACAG
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (32 bp):
CGGTATTATAATTAGCACAAAGCCATCAGTAA
Found at i:17651145 original size:27 final size:27
Alignment explanation
Indices: 17651092--17651229 Score: 106
Period size: 27 Copynumber: 5.1 Consensus size: 27
17651082 TAAAATAGTT
*
17651092 ATTTTATC-CTACAA-GGTATTTCGGTA
1 ATTTTA-CACTACAAGGGTATTTCAGTA
17651118 ATTTTACACTACAAGGGTATTTCAGTA
1 ATTTTACACTACAAGGGTATTTCAGTA
* * *
17651145 ATTTTACA-AATCAGGGGTATTTTAGTA
1 ATTTTACACTA-CAAGGGTATTTCAGTA
* *
17651172 ATTTTACAAGT-CGAGGGTATTTC-GATA
1 ATTTTAC-ACTACAAGGGTATTTCAG-TA
* ** * *
17651199 ATTTCACAAAATAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCAGTA
17651226 ATTT
1 ATTT
17651230 CACAAATTAG
Statistics
Matches: 91, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
25 1 0.01
26 15 0.16
27 73 0.80
28 2 0.02
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCAGTA
Found at i:17651174 original size:54 final size:53
Alignment explanation
Indices: 17651106--17651287 Score: 165
Period size: 54 Copynumber: 3.4 Consensus size: 53
17651096 TATCCTACAA
*
17651106 GGTATTTCGGTAATTTTACACTACAAGGGTATTTC-AGTAATTTTACAAATCAGG
1 GGTATTTCAGTAATTTTACA-TACAAGGGTATTTCGA-TAATTTTACAAATCAGG
* * * *
17651160 GGTATTTTAGTAATTTTACA-AGTCGAGGGTATTTCGATAATTTCACAAAAT-AAG
1 GGTATTTCAGTAATTTTACATA--CAAGGGTATTTCGATAATTTTAC-AAATCAGG
* * * * * *
17651214 GGTATTTCGGTAATTTCACAAATTAGGGGTATTTCGATAATTTTACAACTC-GG
1 GGTATTTCAGTAATTTTACATA-CAAGGGTATTTCGATAATTTTACAAATCAGG
*
17651267 AGGTATTTTAGTAATTTTACA
1 -GGTATTTCAGTAATTTTACA
17651288 AGTTAAGGGT
Statistics
Matches: 104, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
52 1 0.01
53 4 0.04
54 93 0.89
55 6 0.06
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (53 bp):
GGTATTTCAGTAATTTTACATACAAGGGTATTTCGATAATTTTACAAATCAGG
Found at i:17651201 original size:81 final size:81
Alignment explanation
Indices: 17651105--17651288 Score: 221
Period size: 81 Copynumber: 2.3 Consensus size: 81
17651095 TTATCCTACA
* ** *
17651105 AGGTATTTCGGTAATTTTACACTACAAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTAG
1 AGGTATTTCGATAATTTTACAAAACAAGGGTATTTCAGTAATTTCACAAATCAGGGGTA-TTTAG
*
17651170 -TAATTTTACAAGTC-G
65 ATAATTTTACAACTCGG
* * * * *
17651185 AGGGTATTTCGATAATTTCACAAAATAAGGGTATTTCGGTAATTTCACAAATTAGGGGTATTTCG
1 A-GGTATTTCGATAATTTTACAAAACAAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTAG
17651250 ATAATTTTACAACTCGG
65 ATAATTTTACAACTCGG
*
17651267 AGGTATTT-TAGTAATTTTACAA
1 AGGTATTTCGA-TAATTTTACAA
17651289 GTTAAGGGTC
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
80 6 0.07
81 80 0.91
82 2 0.02
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (81 bp):
AGGTATTTCGATAATTTTACAAAACAAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTAGA
TAATTTTACAACTCGG
Found at i:17651230 original size:27 final size:27
Alignment explanation
Indices: 17651106--17651261 Score: 145
Period size: 27 Copynumber: 5.8 Consensus size: 27
17651096 TATCCTACAA
** *
17651106 GGTATTTCGGTAATTTTACACTACAAG
1 GGTATTTCGGTAATTTTACAAAATAAG
* *
17651133 GGTATTTCAGTAATTTTAC-AAATCAGG
1 GGTATTTCGGTAATTTTACAAAAT-AAG
** * *
17651160 GGTATTTTAGTAATTTTAC-AAGTCGAG
1 GGTATTTCGGTAATTTTACAAAAT-AAG
* *
17651187 GGTATTTCGATAATTTCACAAAATAAG
1 GGTATTTCGGTAATTTTACAAAATAAG
* * *
17651214 GGTATTTCGGTAATTTCACAAATTAGG
1 GGTATTTCGGTAATTTTACAAAATAAG
*
17651241 GGTATTTCGATAATTTTACAA
1 GGTATTTCGGTAATTTTACAA
17651262 CTCGGAGGTA
Statistics
Matches: 107, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 1 0.01
27 103 0.96
28 3 0.03
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAAATAAG
Found at i:17651271 original size:27 final size:27
Alignment explanation
Indices: 17651133--17651288 Score: 110
Period size: 27 Copynumber: 5.8 Consensus size: 27
17651123 ACACTACAAG
17651133 GGTATTTC-AGTAATTTTACAAATCAGG-
1 GGTATTTCGA-TAATTTTACAAATC-GGA
* *
17651160 GGTATTT-TAGTAATTTTACAAGTC-GA
1 GGTATTTCGA-TAATTTTACAAATCGGA
* **
17651186 GGGTATTTCGATAATTTCACAAAATAAG-
1 -GGTATTTCGATAATTTTAC-AAATCGGA
* * *
17651214 GGTATTTCGGTAATTTCACAAATTAGG-
1 GGTATTTCGATAATTTTACAAA-TCGGA
*
17651241 GGTATTTCGATAATTTTACAACTCGGA
1 GGTATTTCGATAATTTTACAAATCGGA
*
17651268 GGTATTT-TAGTAATTTTACAA
1 GGTATTTCGA-TAATTTTACAA
17651289 GTTAAGGGTC
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
25 1 0.01
26 7 0.06
27 95 0.88
28 4 0.04
29 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTATTTCGATAATTTTACAAATCGGA
Found at i:17655618 original size:47 final size:47
Alignment explanation
Indices: 17655555--17655671 Score: 137
Period size: 47 Copynumber: 2.5 Consensus size: 47
17655545 GTGTGACTAA
* * ** *
17655555 TACCTTGACTTGGCTACGGGCCATGATATAGGTATTTTGAG-AGGAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTCCG-GCAGAAGT
* * *
17655602 TACCTTGATTTGGCTACGAGCCATGGTATAGGTACTCCGGCATAAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTCCGGCAGAAGT
*
17655649 TACCTTGATTTGGCTGCGGGCCA
1 TACCTTGATTTGGCTACGGGCCA
17655672 CAGTATGGGT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 1 0.02
47 58 0.98
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGATATAGGTACTCCGGCAGAAGT
Found at i:17666422 original size:60 final size:60
Alignment explanation
Indices: 17666350--17666463 Score: 219
Period size: 60 Copynumber: 1.9 Consensus size: 60
17666340 AAATGTGGTG
*
17666350 GTTAAAAGTGTGAATAAATTGAAAATATGGGCTGCTAGTAATACATGTTAAATTCGGCTA
1 GTTAAAAGTGTGAATAAATTGAAAATATGGGCTACTAGTAATACATGTTAAATTCGGCTA
17666410 GTTAAAAGTGTGAATAAATTGAAAATATGGGCTACTAGTAATACATGTTAAATT
1 GTTAAAAGTGTGAATAAATTGAAAATATGGGCTACTAGTAATACATGTTAAATT
17666464 TGGCCAAGCA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.32
Consensus pattern (60 bp):
GTTAAAAGTGTGAATAAATTGAAAATATGGGCTACTAGTAATACATGTTAAATTCGGCTA
Found at i:17670310 original size:47 final size:48
Alignment explanation
Indices: 17670204--17670334 Score: 174
Period size: 47 Copynumber: 2.8 Consensus size: 48
17670194 GTACGAGTGA
* * * * * *
17670204 TACCTTGATTTCGCTATGGGCCATGGTATGGGTATTTCAGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGAGAGAAGT
*
17670252 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAG-GATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGAGAGAAGT
**
17670299 TACCTTGATTTGGCTACAAGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
17670335 TATCAATTGT
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 39 0.53
48 35 0.47
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (48 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGAGAGAAGT
Found at i:17677169 original size:3 final size:3
Alignment explanation
Indices: 17677154--17677205 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
17677144 GAGGATGAAA
* * * * * *
17677154 ATG ATG GTG ATG ATG AGG ATG ACG ATG GTG ATG ATG ATT ATG ATG AAG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
17677202 ATG A
1 ATG A
17677206 GCCTACCAGA
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.02, G:0.37, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:17682131 original size:3 final size:3
Alignment explanation
Indices: 17682123--17682208 Score: 163
Period size: 3 Copynumber: 28.7 Consensus size: 3
17682113 TAAACTTGCT
17682123 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
17682171 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
17682209 TTTTTTTGCA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:17689500 original size:12 final size:12
Alignment explanation
Indices: 17689483--17689507 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17689473 TGTGAAAAAT
17689483 AAAATAAAATAA
1 AAAATAAAATAA
17689495 AAAATAAAATAA
1 AAAATAAAATAA
17689507 A
1 A
17689508 GACCACACAA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:17697779 original size:16 final size:15
Alignment explanation
Indices: 17697738--17697779 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
17697728 GAGGGAAAAT
17697738 AAAATTGAAAGGATG
1 AAAATTGAAAGGATG
*
17697753 AAATATTGAAAGGTTG
1 AAA-ATTGAAAGGATG
17697769 AAAATTAGAAA
1 AAAATT-GAAA
17697780 TATTTTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 6 0.25
16 18 0.75
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (15 bp):
AAAATTGAAAGGATG
Found at i:17702740 original size:22 final size:22
Alignment explanation
Indices: 17702697--17702740 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
17702687 TCACTAATTC
* *
17702697 ATCACAATATCATCTATTTCAT
1 ATCACAAAATCATCTATATCAT
17702719 ATCACAAAACTCATC-ATATCAT
1 ATCACAAAA-TCATCTATATCAT
17702741 CATTTCAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.34
Consensus pattern (22 bp):
ATCACAAAATCATCTATATCAT
Found at i:17708670 original size:4 final size:4
Alignment explanation
Indices: 17708661--17708689 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
17708651 CACACGCCTC
17708661 CTCA CTCA CTCA CTCA CTCA CTCA CTCA C
1 CTCA CTCA CTCA CTCA CTCA CTCA CTCA C
17708690 CAAGTAGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.52, G:0.00, T:0.24
Consensus pattern (4 bp):
CTCA
Found at i:17710749 original size:21 final size:21
Alignment explanation
Indices: 17710723--17710803 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 21
17710713 GTTCTACTTA
*
17710723 TATGAGTTTCTGTTCAGCACT
1 TATGAGCTTCTGTTCAGCACT
* * * *
17710744 TTTGAGCTTCTGTTTAACCCT
1 TATGAGCTTCTGTTCAGCACT
* * *
17710765 TATGGGTTTCTGTTTAGCACT
1 TATGAGCTTCTGTTCAGCACT
*
17710786 TATGTGCTTCTGTTCAGC
1 TATGAGCTTCTGTTCAGC
17710804 CTTCGGGCTT
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (21 bp):
TATGAGCTTCTGTTCAGCACT
Found at i:17710751 original size:42 final size:43
Alignment explanation
Indices: 17710705--17710800 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 43
17710695 TAGCTATCAC
* *
17710705 GAGCTTCTGTTCT-A-CTTATATGAGTTTCTGTTCAGCACTTTT
1 GAGCTTCTGTTCTAACCCT-TATGAGTTTCTGTTCAGCACTTAT
* *
17710747 GAGCTTCTGTT-TAACCCTTATGGGTTTCTGTTTAGCACTTAT
1 GAGCTTCTGTTCTAACCCTTATGAGTTTCTGTTCAGCACTTAT
*
17710789 GTGCTTCTGTTC
1 GAGCTTCTGTTC
17710801 AGCCTTCGGG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.02
42 43 0.93
43 2 0.04
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.47
Consensus pattern (43 bp):
GAGCTTCTGTTCTAACCCTTATGAGTTTCTGTTCAGCACTTAT
Found at i:17721002 original size:18 final size:17
Alignment explanation
Indices: 17720979--17721012 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
17720969 AGACTGTAGC
17720979 TTGTTTTGGACTTTTTTT
1 TTGTTTT-GACTTTTTTT
*
17720997 TTGTTTTTACTTTTTT
1 TTGTTTTGACTTTTTT
17721013 CAAATTAAGT
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:0.06, C:0.06, G:0.12, T:0.76
Consensus pattern (17 bp):
TTGTTTTGACTTTTTTT
Found at i:17723680 original size:28 final size:28
Alignment explanation
Indices: 17723640--17723705 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
17723630 GATGTGCTAA
*
17723640 TATACCCCTATGTATGCAAAATTACCAT
1 TATACCCCTATGTATGCAAAATGACCAT
*
17723668 TATACCCCTATGTATGCAAAATGACCTT
1 TATACCCCTATGTATGCAAAATGACCAT
17723696 TATACCCCTA
1 TATACCCCTA
17723706 GGGTTAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.32
Consensus pattern (28 bp):
TATACCCCTATGTATGCAAAATGACCAT
Found at i:17723869 original size:27 final size:27
Alignment explanation
Indices: 17723811--17723900 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
17723801 AGGAAGCATC
17723811 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
17723839 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
17723866 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
17723895 CTGGTG
1 CTGGTG
17723901 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:17723924 original size:56 final size:55
Alignment explanation
Indices: 17723811--17723925 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 55
17723801 AGGAAGCATC
* *
17723811 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTT
* * *
17723866 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTTT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTG-TT
17723922 CTGG
1 CTGG
17723926 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTT
Found at i:17724390 original size:19 final size:19
Alignment explanation
Indices: 17724366--17724404 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
17724356 TTAATTATTT
* *
17724366 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
17724385 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
17724404 T
1 T
17724405 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:17727129 original size:11 final size:11
Alignment explanation
Indices: 17727113--17727137 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
17727103 TATATATATG
17727113 TATTTTTTATT
1 TATTTTTTATT
17727124 TATTTTTTATT
1 TATTTTTTATT
17727135 TAT
1 TAT
17727138 ATATATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TATTTTTTATT
Found at i:17729773 original size:18 final size:18
Alignment explanation
Indices: 17729721--17729808 Score: 72
Period size: 18 Copynumber: 4.6 Consensus size: 18
17729711 ACAAGTATAG
*
17729721 TAAAAAATAAATAAATAA
1 TAAAAAATAAAGAAATAA
17729739 TAATGAAAAT-AAG-AATAA
1 TAA--AAAATAAAGAAATAA
*
17729757 TAAACAATAAAGAAATAA
1 TAAAAAATAAAGAAATAA
17729775 TAATAATAATAATAAGAAATAA
1 TAA-AA-AAT-A-AAGAAATAA
*
17729797 GAAATAAATAAA
1 TAAA-AAATAAA
17729809 TAAAATATGC
Statistics
Matches: 57, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
16 4 0.07
17 3 0.05
18 19 0.33
19 5 0.09
20 9 0.16
21 5 0.09
22 12 0.21
ACGTcount: A:0.72, C:0.01, G:0.06, T:0.22
Consensus pattern (18 bp):
TAAAAAATAAAGAAATAA
Found at i:17729783 original size:33 final size:33
Alignment explanation
Indices: 17729721--17729815 Score: 93
Period size: 33 Copynumber: 2.8 Consensus size: 33
17729711 ACAAGTATAG
17729721 TAAAAAATAAATAAATAATAATGAAAATAAGAATAA
1 TAAAAAATAAATAAATAATAAT---AATAAGAATAA
* * *
17729757 TAAACAATAAAGAAATAATAATAATAATAATAA
1 TAAAAAATAAATAAATAATAATAATAAGAATAA
* * *
17729790 GAAATAAGAAATAAATAAATAA-AATA
1 TAAAAAATAAATAAAT-AATAATAATA
17729816 TGCAAACAGT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
33 26 0.51
34 5 0.10
36 20 0.39
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.22
Consensus pattern (33 bp):
TAAAAAATAAATAAATAATAATAATAAGAATAA
Found at i:17729807 original size:30 final size:30
Alignment explanation
Indices: 17729745--17729815 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 30
17729735 ATAATAATGA
17729745 AAATAAGAATAATAAACAATAAAGAAATAAT
1 AAATAA-AATAATAAACAATAAAGAAATAAT
17729776 -AATAATAATAATAAGA-AAT-AAGAAATAAAT
1 AAATAA-AATAATAA-ACAATAAAGAAAT-AAT
17729806 AAATAAAATA
1 AAATAAAATA
17729816 TGCAAACAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
29 7 0.19
30 23 0.64
31 6 0.17
ACGTcount: A:0.72, C:0.01, G:0.06, T:0.21
Consensus pattern (30 bp):
AAATAAAATAATAAACAATAAAGAAATAAT
Found at i:17730871 original size:42 final size:42
Alignment explanation
Indices: 17730798--17730891 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 42
17730788 TCTTAGGATC
* *
17730798 CACATGGCCAAGGACAGGCCTATGTGACCAGG-ACGTGTTGGT
1 CACATGGCCAAGGACACGCCTATGTGACCAGGCA-GTGTGGGT
* *
17730840 CACATGGCCAAGGACACG-CTCCTGTGTCCAGGCAGTGTGGGT
1 CACATGGCCAAGGACACGCCT-ATGTGACCAGGCAGTGTGGGT
*
17730882 TACATGGCCA
1 CACATGGCCA
17730892 TGTCACCAGG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
41 2 0.04
42 42 0.93
43 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.32, T:0.19
Consensus pattern (42 bp):
CACATGGCCAAGGACACGCCTATGTGACCAGGCAGTGTGGGT
Found at i:17739438 original size:42 final size:42
Alignment explanation
Indices: 17739391--17739475 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
17739381 TGTCATGGTG
17739391 TTAAATTACAAATTTAACAAAATTCAGGGATTAATAGTGAAT
1 TTAAATTACAAATTTAACAAAATTCAGGGATTAATAGTGAAT
* *
17739433 TTAAATTACAAATTTAACAAAATTCAGGTATTGATAGTGAAT
1 TTAAATTACAAATTTAACAAAATTCAGGGATTAATAGTGAAT
17739475 T
1 T
17739476 ATATGTATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (42 bp):
TTAAATTACAAATTTAACAAAATTCAGGGATTAATAGTGAAT
Found at i:17740250 original size:75 final size:75
Alignment explanation
Indices: 17740133--17740309 Score: 178
Period size: 75 Copynumber: 2.4 Consensus size: 75
17740123 ACAACTATTA
* * * * **
17740133 TCGA-TTATCCAACTAGCGATGGGCACAATCTTTTTTTATTTATCCGACTAGTGCTGGGCACATT
1 TCGATTTATCCAACTAGCGATGGGCACAATCCTTTTTCATTTATCCAACTAGTGCTAGGCACACC
17740197 ATTAGACTTG
66 ATTAGACTTG
* ** **
17740207 TCGATTTATCCAACTAGCGTTGGGTGCAA-CCTTTTTCAGTTTATTTAACTAGTGCTAGGCACAC
1 TCGATTTATCCAACTAGCGATGGGCACAATCCTTTTTCA-TTTATCCAACTAGTGCTAGGCACAC
* *
17740271 CATTATATTTG
65 CATTAGACTTG
* * * *
17740282 TCGGTTTACCCGACTAGCGCTGGGCACA
1 TCGATTTATCCAACTAGCGATGGGCACA
17740310 TCTATCGTTG
Statistics
Matches: 82, Mismatches: 19, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
74 11 0.13
75 71 0.87
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (75 bp):
TCGATTTATCCAACTAGCGATGGGCACAATCCTTTTTCATTTATCCAACTAGTGCTAGGCACACC
ATTAGACTTG
Found at i:17741516 original size:105 final size:105
Alignment explanation
Indices: 17741395--17741617 Score: 329
Period size: 105 Copynumber: 2.1 Consensus size: 105
17741385 ATGGCTTGCG
*
17741395 ACACGGCCGTGTGACCCAACATTGAATGCACACACGGGCAGACACACGGGCTGGGACACGACCGT
1 ACACGGCCGTGTGACCCAACATTGAATGCACACACGGGCAGACACACGGGCTGAGACACGACCGT
* * *
17741460 GTGTCCAAATTTTAAATGTCTACACGGTCTGGGTTGTGAC
66 GTGTCCAAATTTTAAATATCTACACGGCCTGGGCTGTGAC
* * **
17741500 ACACGGCCGTGTGACCCGACATTGAATGCACACATGGGTGGACACACGGGCTGAGACACGACCGT
1 ACACGGCCGTGTGACCCAACATTGAATGCACACACGGGCAGACACACGGGCTGAGACACGACCGT
***
17741565 GTGTTTGAATTTTAAATATCTACACGGCCTGGGCTGTGAC
66 GTGTCCAAATTTTAAATATCTACACGGCCTGGGCTGTGAC
* *
17741605 ACAGGGTCGTGTG
1 ACACGGCCGTGTG
17741618 TCCTCTATTT
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.21
Consensus pattern (105 bp):
ACACGGCCGTGTGACCCAACATTGAATGCACACACGGGCAGACACACGGGCTGAGACACGACCGT
GTGTCCAAATTTTAAATATCTACACGGCCTGGGCTGTGAC
Found at i:17757655 original size:30 final size:30
Alignment explanation
Indices: 17757621--17757680 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
17757611 TGGAGAACTG
17757621 GTTTCATTCTGACTTGGTTTGTATCCCTGC
1 GTTTCATTCTGACTTGGTTTGTATCCCTGC
17757651 GTTTCATTCTGACTTGGTTTGTATCCCTGC
1 GTTTCATTCTGACTTGGTTTGTATCCCTGC
17757681 TTACTTTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.47
Consensus pattern (30 bp):
GTTTCATTCTGACTTGGTTTGTATCCCTGC
Found at i:17758960 original size:5 final size:5
Alignment explanation
Indices: 17758950--17758987 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
17758940 TTGTGTGTTC
17758950 TTTAT TTTAT TTTAT TTT-T TTTATT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTT
17758988 TCACAAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.13
5 22 0.71
6 5 0.16
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTAT
Found at i:17758977 original size:20 final size:19
Alignment explanation
Indices: 17758950--17758988 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
17758940 TTGTGTGTTC
17758950 TTTATTTTATTTTATTTTT
1 TTTATTTTATTTTATTTTT
17758969 TTTATTTTTATTTTATTTTT
1 TTTA-TTTTATTTTATTTTT
17758989 CACAAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTATTTTATTTTATTTTT
Found at i:17772179 original size:30 final size:30
Alignment explanation
Indices: 17772139--17772203 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
17772129 AAATTATTAT
*
17772139 TTTAGATAATATTTTTAAATTTTTTTATAA
1 TTTAAATAATATTTTTAAATTTTTTTATAA
17772169 TTTAAATAATATTTTTAAATTTTTTTATAA
1 TTTAAATAATATTTTTAAATTTTTTTATAA
17772199 TTTAA
1 TTTAA
17772204 CACTTATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (30 bp):
TTTAAATAATATTTTTAAATTTTTTTATAA
Found at i:17772248 original size:27 final size:28
Alignment explanation
Indices: 17772187--17772249 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
17772177 ATATTTTTAA
*
17772187 ATTTTTTTATAATTTAACACTTATATAT
1 ATTTTTTTAAAATTTAACACTTATATAT
* * *
17772215 A-TTTTTTAAAATTTCACA-TTATGTTT
1 ATTTTTTTAAAATTTAACACTTATATAT
17772241 ATTTTTTTA
1 ATTTTTTTA
17772250 TATTTTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.23
27 22 0.73
28 1 0.03
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (28 bp):
ATTTTTTTAAAATTTAACACTTATATAT
Found at i:17772254 original size:26 final size:27
Alignment explanation
Indices: 17772187--17772254 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
17772177 ATATTTTTAA
17772187 ATTTTTTTATAATTTAACACTTATATAT
1 ATTTTTTTAT-ATTTAACACTTATATAT
* * * * *
17772215 ATTTTTTAAAATTTCACA-TTATGTTT
1 ATTTTTTTATATTTAACACTTATATAT
17772241 ATTTTTTTATATTT
1 ATTTTTTTATATTT
17772255 TTTTACAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
26 18 0.55
27 7 0.21
28 8 0.24
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (27 bp):
ATTTTTTTATATTTAACACTTATATAT
Found at i:17784564 original size:8 final size:8
Alignment explanation
Indices: 17784553--17784577 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17784543 CCACCTACCC
17784553 CCCACTTG
1 CCCACTTG
17784561 CCCACTTG
1 CCCACTTG
17784569 CCCACTTG
1 CCCACTTG
17784577 C
1 C
17784578 GCCGAACACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCACTTG
Found at i:17785105 original size:13 final size:12
Alignment explanation
Indices: 17785069--17785106 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
17785059 CCTTTCCCCC
17785069 TCCCTTCTCTC-
1 TCCCTTCTCTCT
17785080 TCCCTTCTCTCT
1 TCCCTTCTCTCT
17785092 TCCCTCTCTCTCT
1 TCCCT-TCTCTCT
17785105 TC
1 TC
17785107 TTTTTTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.44
12 5 0.20
13 9 0.36
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (12 bp):
TCCCTTCTCTCT
Found at i:17785597 original size:3 final size:3
Alignment explanation
Indices: 17785573--17785643 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
17785563 AATATCCTCG
* * * *
17785573 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
17785620 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
17785644 GTACGTGTAT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:17785640 original size:23 final size:22
Alignment explanation
Indices: 17785585--17785646 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
17785575 ATTTTTATAT
*
17785585 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
17785606 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
17785628 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
17785647 CGTGTATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:17785653 original size:23 final size:23
Alignment explanation
Indices: 17785580--17785654 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
17785570 TCGTTATTTT
* *
17785580 TATATTATTAGTATTAT-TAGTAT
1 TATA-TATTATTATTATGTAGTAG
*
17785603 TACTATTATTATTATTATGTATTAG
1 TA-TA-TATTATTATTATGTAGTAG
*
17785628 TATATATTTTTATTATGTACGT-G
1 TATATATTATTATTATGTA-GTAG
17785651 TATA
1 TATA
17785655 CATATATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 21 0.48
24 17 0.39
25 6 0.14
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (23 bp):
TATATATTATTATTATGTAGTAG
Found at i:17785722 original size:25 final size:24
Alignment explanation
Indices: 17785675--17785722 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
17785665 TATTTTTTCA
*
17785675 TATTTAATATTTTTATTTCATTTT
1 TATTTAATATTTTTATTTAATTTT
17785699 TATTCTAATA-TTTTATTATAATTT
1 TATT-TAATATTTTTATT-TAATTT
17785723 ATATATATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTTAATATTTTTATTTAATTTT
Found at i:17793577 original size:118 final size:117
Alignment explanation
Indices: 17793352--17793586 Score: 434
Period size: 117 Copynumber: 2.0 Consensus size: 117
17793342 ATTGTGCACA
*
17793352 ATAATTTATTCCTGACTAAAAAAGGCTCGCACGAATACACATGCATGTGGTTCGAACTGTCGACA
1 ATAATTTATTCCTGACTAAAAAAGGCTCACACGAATACACATGCATGTGGTTCGAACTGTCGACA
17793417 TAGTAAATGGTCATGTTTCCAAACAGTTGTAAACCTATTTCCCAATTCTAAC
66 TAGTAAATGGTCATGTTTCCAAACAGTTGTAAACCTATTTCCCAATTCTAAC
* *
17793469 ATAATTTATTCCTGACTAAAAAAGGCTCACACGAATACACATGCATGTGGTTTGAACTGTATGAC
1 ATAATTTATTCCTGACTAAAAAAGGCTCACACGAATACACATGCATGTGGTTCGAACTGT-CGAC
17793534 ATAGTAAATGGTCATGTTTCCAAACAGTTGTAAACCTATTTCCCAATTCTAAC
65 ATAGTAAATGGTCATGTTTCCAAACAGTTGTAAACCTATTTCCCAATTCTAAC
17793587 CAGGGTTACA
Statistics
Matches: 114, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
117 58 0.51
118 56 0.49
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (117 bp):
ATAATTTATTCCTGACTAAAAAAGGCTCACACGAATACACATGCATGTGGTTCGAACTGTCGACA
TAGTAAATGGTCATGTTTCCAAACAGTTGTAAACCTATTTCCCAATTCTAAC
Found at i:17794783 original size:35 final size:36
Alignment explanation
Indices: 17794734--17794802 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
17794724 CTTAGAAAAA
*
17794734 GCTTTTACTAATATTTCTAACGATTTACCAATATTG
1 GCTTTTACCAATATTTCTAACGATTTACCAATATTG
*
17794770 GCTTTT-CCAATATTTCTAAGGATTTACCAATAT
1 GCTTTTACCAATATTTCTAACGATTTACCAATAT
17794803 CGTTAGATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 25 0.81
36 6 0.19
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.43
Consensus pattern (36 bp):
GCTTTTACCAATATTTCTAACGATTTACCAATATTG
Found at i:17794801 original size:20 final size:20
Alignment explanation
Indices: 17794737--17794802 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
17794727 AGAAAAAGCT
* *
17794737 TTTACTAATATTTCTAACGA
1 TTTACCAATATTTCTAAGGA
*
17794757 TTTACCAATA--T-T--GGC
1 TTTACCAATATTTCTAAGGA
*
17794772 TTTTCCAATATTTCTAAGGA
1 TTTACCAATATTTCTAAGGA
17794792 TTTACCAATAT
1 TTTACCAATAT
17794803 CGTTAGATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
15 10 0.29
17 2 0.06
18 2 0.06
20 21 0.60
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.44
Consensus pattern (20 bp):
TTTACCAATATTTCTAAGGA
Found at i:17801457 original size:18 final size:18
Alignment explanation
Indices: 17801436--17801490 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
17801426 AAATAATAGC
17801436 AAAATTAACAATAAAATA
1 AAAATTAACAATAAAATA
**
17801454 AAAATTATACAAT-ATCTA
1 AAAATTA-ACAATAAAATA
*
17801472 AAAAATAACAATAAAATA
1 AAAATTAACAATAAAATA
17801490 A
1 A
17801491 TAGCAATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
17 5 0.17
18 20 0.67
19 5 0.17
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATTAACAATAAAATA
Found at i:17801501 original size:22 final size:22
Alignment explanation
Indices: 17801476--17801518 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17801466 TATCTAAAAA
17801476 ATAACAATAAAATAATAGCAAT
1 ATAACAATAAAATAATAGCAAT
* * *
17801498 ATAATAATGAAATGATAGCAA
1 ATAACAATAAAATAATAGCAA
17801519 AACAGTGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.23
Consensus pattern (22 bp):
ATAACAATAAAATAATAGCAAT
Found at i:17803552 original size:22 final size:21
Alignment explanation
Indices: 17803509--17803547 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17803499 TTATCCCAAA
*
17803509 CTCTCAAACCTTTTTACTTTT
1 CTCTCAAAACTTTTTACTTTT
17803530 CTCTCAAAAC-TTTTACTT
1 CTCTCAAAACTTTTTACTT
17803548 CTTTCCACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (21 bp):
CTCTCAAAACTTTTTACTTTT
Found at i:17803732 original size:30 final size:30
Alignment explanation
Indices: 17803688--17803746 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
17803678 AACTTTTTAT
*
17803688 TTTTTCCCAAAACTTTTACT-CCTTCCCAC
1 TTTTCCCCAAAACTTTTACTCCCTTCCCAC
17803717 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
1 TTTTCCCC-AAAACTTTTACTCCCTTCCCA
17803747 TCCCACCTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 7 0.26
30 12 0.44
31 8 0.30
ACGTcount: A:0.20, C:0.39, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTTCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:17803982 original size:17 final size:17
Alignment explanation
Indices: 17803952--17804047 Score: 65
Period size: 17 Copynumber: 5.5 Consensus size: 17
17803942 TAGTAATAAT
*
17803952 TTTAT-TTATATAAACTA
1 TTTATATTAT-TAAATTA
17803969 TTTATATTATTAAATTAAA
1 TTTATATTATTAAATT--A
* *
17803988 TTTCACATT-TTATATTA
1 TTT-ATATTATTAAATTA
*
17804005 TTTATATTATTAAATTG
1 TTTATATTATTAAATTA
*
17804022 TTTAGTCA-TATTTAA-TA
1 TTTA-T-ATTATTAAATTA
17804039 TTTATATTA
1 TTTATATTA
17804048 AAATTGAATT
Statistics
Matches: 63, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
15 1 0.02
16 7 0.11
17 29 0.46
18 11 0.17
19 11 0.17
20 4 0.06
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (17 bp):
TTTATATTATTAAATTA
Found at i:17821665 original size:17 final size:17
Alignment explanation
Indices: 17821643--17821730 Score: 75
Period size: 17 Copynumber: 5.6 Consensus size: 17
17821633 GCCCTACTAA
17821643 ATCACCCCACTAACTCC
1 ATCACCCCACTAACTCC
17821660 ATCACCCCACTAA----
1 ATCACCCCACTAACTCC
*
17821673 ATCTCCCCACTAACTCC
1 ATCACCCCACTAACTCC
* * *
17821690 ATCACCCAATTAA-ACC
1 ATCACCCCACTAACTCC
17821706 AT---CCCACTAACTCC
1 ATCACCCCACTAACTCC
*
17821720 ATTACCCCACT
1 ATCACCCCACT
17821731 TGCCACTAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
13 18 0.33
14 4 0.07
16 4 0.07
17 29 0.53
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.20
Consensus pattern (17 bp):
ATCACCCCACTAACTCC
Found at i:17821674 original size:30 final size:30
Alignment explanation
Indices: 17821638--17821730 Score: 132
Period size: 30 Copynumber: 3.1 Consensus size: 30
17821628 CCTACGCCCT
17821638 ACTAAATCACCCCACTAACTCCATCACCCC
1 ACTAAATCACCCCACTAACTCCATCACCCC
* *
17821668 ACTAAATCTCCCCACTAACTCCATCACCCA
1 ACTAAATCACCCCACTAACTCCATCACCCC
* * * *
17821698 ATTAAACCATCCCACTAACTCCATTACCCC
1 ACTAAATCACCCCACTAACTCCATCACCCC
17821728 ACT
1 ACT
17821731 TGCCACTAAC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.20
Consensus pattern (30 bp):
ACTAAATCACCCCACTAACTCCATCACCCC
Found at i:17821736 original size:24 final size:24
Alignment explanation
Indices: 17821709--17821782 Score: 139
Period size: 24 Copynumber: 3.1 Consensus size: 24
17821699 TTAAACCATC
17821709 CCACTAACTCCATTACCCCACTTG
1 CCACTAACTCCATTACCCCACTTG
*
17821733 CCACTAACTCCATCACCCCACTTG
1 CCACTAACTCCATTACCCCACTTG
17821757 CCACTAACTCCATTACCCCACTTG
1 CCACTAACTCCATTACCCCACTTG
17821781 CC
1 CC
17821783 TACAAAAAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.24, C:0.49, G:0.04, T:0.23
Consensus pattern (24 bp):
CCACTAACTCCATTACCCCACTTG
Found at i:17822158 original size:15 final size:16
Alignment explanation
Indices: 17822138--17822180 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
17822128 AGAGGGAGAG
17822138 TGTTATTTTTA-ATAT
1 TGTTATTTTTATATAT
*
17822153 TGTTATTATTATATAT
1 TGTTATTTTTATATAT
* *
17822169 TATTATATTTAT
1 TGTTATTTTTAT
17822181 TTTATTACTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (16 bp):
TGTTATTTTTATATAT
Found at i:17822163 original size:3 final size:3
Alignment explanation
Indices: 17822140--17822301 Score: 77
Period size: 3 Copynumber: 54.7 Consensus size: 3
17822130 AGGGAGAGTG
* * *
17822140 TTA TTT TTA ATA TTG TTA TTA TTA TATA TTA TTA -TA TTTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA -TTA TTA TTA
* * * * *
17822185 TTA CTG TTA CTA TTA TT- TTA -TA TATA TTTA TTA TCA TTA TTAA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TT-A TTA
* ** ** * * *
17822231 TTT TTA TTA GAA ACA -TA TTG TTA TTT TTA TTA TTT TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
17822277 TTA TTA TTA TTA ATA -TA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
17822302 GTCTTCTATT
Statistics
Matches: 119, Mismatches: 28, Indels: 24
0.70 0.16 0.14
Matches are distributed among these distances:
2 13 0.11
3 93 0.78
4 12 0.10
5 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:17822193 original size:36 final size:35
Alignment explanation
Indices: 17822144--17822216 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 35
17822134 AGAGTGTTAT
* *
17822144 TTTTAATATTGTTATTATTATATATTAT-TATATTTA
1 TTTTAATACTGTTACTATTAT-T-TTATATATATTTA
*
17822180 TTTTATTACTGTTACTATTATTTTATATATATTTA
1 TTTTAATACTGTTACTATTATTTTATATATATTTA
17822215 TT
1 TT
17822217 ATCATTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 4 0.12
35 11 0.33
36 18 0.55
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (35 bp):
TTTTAATACTGTTACTATTATTTTATATATATTTA
Found at i:17822271 original size:23 final size:23
Alignment explanation
Indices: 17822245--17822301 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
17822235 TATTAGAAAC
* * **
17822245 ATATTGTTATTTTTATTATTTTT
1 ATATTATTATTATTATTATTAAT
17822268 ATATTATTATTATTATTATTAAT
1 ATATTATTATTATTATTATTAAT
17822291 ATATTATTATT
1 ATATTATTATT
17822302 GTCTTCTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
ATATTATTATTATTATTATTAAT
Found at i:17824641 original size:24 final size:24
Alignment explanation
Indices: 17824604--17824672 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 24
17824594 ACTCCTTCTG
*
17824604 AGCTGATGAACAGTAAGCTCT-ATCG
1 AGCTG-TGAACAGTAAGCTCTGA-CA
*
17824629 AGCTG-GAAACAGTAAACTCTGACA
1 AGCTGTG-AACAGTAAGCTCTGACA
17824653 AGCTGTGAACAGTAAGCTCT
1 AGCTGTGAACAGTAAGCTCT
17824673 TATGAACTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.03
24 30 0.79
25 7 0.18
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (24 bp):
AGCTGTGAACAGTAAGCTCTGACA
Found at i:17831571 original size:9 final size:9
Alignment explanation
Indices: 17831552--17831584 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
17831542 TATAAAGTAC
17831552 AATATTATTA
1 AATA-TATTA
17831562 AATATATTA
1 AATATATTA
17831571 AATATATTA
1 AATATATTA
17831580 AATAT
1 AATAT
17831585 GATTTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
AATATATTA
Found at i:17831623 original size:16 final size:15
Alignment explanation
Indices: 17831597--17831638 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
17831587 TTTATTATTT
*
17831597 TAATAAATTTTTTGA
1 TAATAAATTTTTTAA
*
17831612 TATTATAATTTTTTAA
1 TAATA-AATTTTTTAA
17831628 TAATAAATTTT
1 TAATAAATTTT
17831639 AACAATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
TAATAAATTTTTTAA
Found at i:17831651 original size:15 final size:16
Alignment explanation
Indices: 17831626--17831655 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17831616 ATAATTTTTT
17831626 AATAATAAATTTTAAC
1 AATAATAAATTTTAAC
17831642 AATAAT-AATTTTAA
1 AATAATAAATTTTAA
17831656 ATTTTAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATAAATTTTAAC
Found at i:17833218 original size:37 final size:37
Alignment explanation
Indices: 17833154--17833229 Score: 89
Period size: 37 Copynumber: 2.1 Consensus size: 37
17833144 CGAAGTAAAT
* ** * *
17833154 AAATTACATCCAGCGCCCATCCGTATAACCGAAATAA
1 AAATTACATCCAGCGCCAATCAATATAAACAAAATAA
* *
17833191 AAATTGCATCCAGCGCTAATCAATATAAACAAAATAA
1 AAATTACATCCAGCGCCAATCAATATAAACAAAATAA
17833228 AA
1 AA
17833230 CTTGTGCCCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.47, C:0.24, G:0.09, T:0.20
Consensus pattern (37 bp):
AAATTACATCCAGCGCCAATCAATATAAACAAAATAA
Found at i:17845003 original size:23 final size:23
Alignment explanation
Indices: 17844960--17845003 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
17844950 ATACATACAC
* *
17844960 TAAAACATATAAACAAGGAAATA
1 TAAAACAAATAAACAAAGAAATA
*
17844983 TAAAACAAATAAATAAAGAAA
1 TAAAACAAATAAACAAAGAAA
17845004 ACAAAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.16
Consensus pattern (23 bp):
TAAAACAAATAAACAAAGAAATA
Found at i:17845928 original size:22 final size:22
Alignment explanation
Indices: 17845866--17845972 Score: 55
Period size: 23 Copynumber: 5.0 Consensus size: 22
17845856 TTTCATATCA
*
17845866 TTATGCATATATGTT--T-TTG
1 TTATGCATATATTTTAATATTG
* *
17845885 TTAT-CATAT-TCTTATATGTTG
1 TTATGCATATATTTTA-ATATTG
17845906 TTATGCATATATTTTAATATTG
1 TTATGCATATATTTTAATATTG
* * *
17845928 TCA-GCTATATATCTTTTATATTA
1 TTATGC-ATATAT-TTTAATATTG
* * *
17845951 TTGTACGTATATTTCTAATATT
1 TTATGCATATATTT-TAATATT
17845973 ATATTGTATA
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
17 3 0.04
18 5 0.07
19 4 0.06
20 1 0.01
21 9 0.13
22 20 0.30
23 24 0.36
24 1 0.01
ACGTcount: A:0.27, C:0.08, G:0.09, T:0.55
Consensus pattern (22 bp):
TTATGCATATATTTTAATATTG
Found at i:17845997 original size:21 final size:21
Alignment explanation
Indices: 17845957--17845997 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17845947 ATTATTGTAC
* **
17845957 GTATATTTCTAATATTATATT
1 GTATATTTCTAACACAATATT
17845978 GTATATTTCTAACACAATAT
1 GTATATTTCTAACACAATAT
17845998 ATATATACTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.49
Consensus pattern (21 bp):
GTATATTTCTAACACAATATT
Found at i:17850613 original size:23 final size:23
Alignment explanation
Indices: 17850587--17850631 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
17850577 TGGGTATGTG
*
17850587 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
17850610 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
17850632 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:17857822 original size:50 final size:52
Alignment explanation
Indices: 17857762--17857867 Score: 126
Period size: 50 Copynumber: 2.1 Consensus size: 52
17857752 CAAACCAAAT
* *
17857762 AAGGCTTATGTGACACATTATCTGGAAAGCCTTTATAGTG-AGTTACCT-GA
1 AAGGCCTATGTGACACATTATCTGGAAAGCCTTAATAGTGAAGTTACCTGGA
* * * * * *
17857812 AAGGCCTATGTGGCATATTATTTGGGAAGCCTTAATGGTGAAGTTATCTGGA
1 AAGGCCTATGTGACACATTATCTGGAAAGCCTTAATAGTGAAGTTACCTGGA
17857864 AAGG
1 AAGG
17857868 TTTTGCAGTA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 33 0.72
51 7 0.15
52 6 0.13
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.31
Consensus pattern (52 bp):
AAGGCCTATGTGACACATTATCTGGAAAGCCTTAATAGTGAAGTTACCTGGA
Found at i:17863775 original size:37 final size:37
Alignment explanation
Indices: 17863734--17863855 Score: 138
Period size: 37 Copynumber: 3.3 Consensus size: 37
17863724 TCCATTTGAA
* *
17863734 AACACGCCAAGTGCTCATAAGAGCTTATCCACCCGAT
1 AACACGCCAAATGCTCATAAGAGCTTATCCACCAGAT
* ** * *
17863771 AACACGCCAATTGCTCCGAAGAGC-TAGTCCAACAGAA
1 AACACGCCAAATGCTCATAAGAGCTTA-TCCACCAGAT
* *
17863808 AACATGCCAAATGCTCATAAGAGCTAATCCACCAGAT
1 AACACGCCAAATGCTCATAAGAGCTTATCCACCAGAT
*
17863845 AACATGCCAAA
1 AACACGCCAAA
17863856 ACAGGGAGTA
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
36 2 0.03
37 67 0.96
38 1 0.01
ACGTcount: A:0.39, C:0.30, G:0.16, T:0.16
Consensus pattern (37 bp):
AACACGCCAAATGCTCATAAGAGCTTATCCACCAGAT
Found at i:17864076 original size:10 final size:10
Alignment explanation
Indices: 17864053--17864081 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
17864043 CAATAAAACA
17864053 ATTATATC-T
1 ATTATATCAT
17864062 ATTATATCAT
1 ATTATATCAT
17864072 ATTATATCAT
1 ATTATATCAT
17864082 CTAACATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (10 bp):
ATTATATCAT
Found at i:17865848 original size:19 final size:20
Alignment explanation
Indices: 17865824--17865864 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
17865814 ATAAATGGTA
*
17865824 AAAAATTGAAAACT-TAAAT
1 AAAAATTAAAAACTCTAAAT
*
17865843 AAAAATTAAAAATTCTAAAT
1 AAAAATTAAAAACTCTAAAT
17865863 AA
1 AA
17865865 TATAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAAATTAAAAACTCTAAAT
Found at i:17865883 original size:26 final size:25
Alignment explanation
Indices: 17865824--17865889 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 25
17865814 ATAAATGGTA
* *
17865824 AAAAATTGAAAACTTAA-ATAAAAATT
1 AAAAATTCAAAA--TAATATAAAAAAT
*
17865850 AAAAATTCTAAATAATATAAAAAAT
1 AAAAATTCAAAATAATATAAAAAAT
*
17865875 AAATTATTCAAAATA
1 AAA-AATTCAAAATA
17865890 TTGGAAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
24 3 0.09
25 11 0.33
26 19 0.58
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.29
Consensus pattern (25 bp):
AAAAATTCAAAATAATATAAAAAAT
Found at i:17868746 original size:49 final size:49
Alignment explanation
Indices: 17868678--17868965 Score: 277
Period size: 49 Copynumber: 6.0 Consensus size: 49
17868668 CAAATTGTGA
* * *
17868678 GGTCACGTGTGTAGTACTAAGTGCGGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
17868727 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
** * **
17868777 AATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGT-CTCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATAATT
* **
17868826 AGGTCAC--GTGT-G---T-AGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * **
17868869 AGGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTATACTGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
17868919 GGTCACATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATAA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
17868966 CTTTGGCTAC
Statistics
Matches: 195, Mismatches: 33, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
43 35 0.18
44 1 0.01
45 4 0.02
46 1 0.01
47 1 0.01
48 4 0.02
49 84 0.43
50 65 0.33
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:17868857 original size:43 final size:43
Alignment explanation
Indices: 17868796--17868884 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
17868786 TGTAGTACTA
*
17868796 AGTGCAGGCTACTACGTGTCTCAGATGGTTAGGTCACGTGTGT
1 AGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGT
17868839 AGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGT
1 AGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGT
17868882 AGT
1 AGT
17868885 ACTAAGTACA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (43 bp):
AGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGT
Found at i:17874128 original size:38 final size:38
Alignment explanation
Indices: 17874081--17874163 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
17874071 GATATGTTTT
*
17874081 ACATATATTCAGTTCAAAACT-GCCAGTAGACATGCTTA
1 ACATGTATTCAGTTCAAAACTAG-CAGTAGACATGCTTA
* *
17874119 ACATGTATTCAGTTCAACATTAGCAGTAGACATGCTTA
1 ACATGTATTCAGTTCAAAACTAGCAGTAGACATGCTTA
17874157 ACATGTA
1 ACATGTA
17874164 CTCAATAGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 40 0.98
39 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (38 bp):
ACATGTATTCAGTTCAAAACTAGCAGTAGACATGCTTA
Found at i:17875034 original size:45 final size:45
Alignment explanation
Indices: 17874985--17875075 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
17874975 TATATCATTC
17874985 ACACATAAATTTATTAATTTTTTTTACATTGAATCCAAATCCGGA
1 ACACATAAATTTATTAATTTTTTTTACATTGAATCCAAATCCGGA
*
17875030 ACACATAAATTTGTTAATTTTTTTTACATTGAATCCAAATCCGGA
1 ACACATAAATTTATTAATTTTTTTTACATTGAATCCAAATCCGGA
17875075 A
1 A
17875076 TCATGAATAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (45 bp):
ACACATAAATTTATTAATTTTTTTTACATTGAATCCAAATCCGGA
Found at i:17875819 original size:2 final size:2
Alignment explanation
Indices: 17875812--17875837 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17875802 AGCTCAGCTT
17875812 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
17875838 CATTAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:17880798 original size:13 final size:13
Alignment explanation
Indices: 17880780--17880810 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
17880770 AACAAGAGAA
17880780 AATCGAAGAAAAC
1 AATCGAAGAAAAC
*
17880793 AATCGAAGAACAC
1 AATCGAAGAAAAC
17880806 AATCG
1 AATCG
17880811 GAGCCAACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.19, G:0.16, T:0.10
Consensus pattern (13 bp):
AATCGAAGAAAAC
Found at i:17888321 original size:22 final size:23
Alignment explanation
Indices: 17888293--17888340 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
17888283 TTCTCTTAAC
*
17888293 AAAAAATTTAAAA-AATTTCTAA
1 AAAAAATTCAAAATAATTTCTAA
*
17888315 AAAAAATTCAAAATAATTTTTAA
1 AAAAAATTCAAAATAATTTCTAA
17888338 AAA
1 AAA
17888341 TTCAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAAAATTCAAAATAATTTCTAA
Found at i:17888356 original size:18 final size:18
Alignment explanation
Indices: 17888316--17888372 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
17888306 AATTTCTAAA
*
17888316 AAAAATTCAAAATAATTTTT
1 AAAAATTC-AAAT-ATTTAT
17888336 AAAAATTCAAATATTTAT
1 AAAAATTCAAATATTTAT
17888354 AAAAATTCCAAAT-TTTAT
1 AAAAATT-CAAATATTTAT
17888372 A
1 A
17888373 TATTTTTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 18 0.51
19 9 0.26
20 8 0.23
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAAATTCAAATATTTAT
Found at i:17888403 original size:19 final size:16
Alignment explanation
Indices: 17888380--17888431 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 16
17888370 ATATATTTTT
*
17888380 TAAAATATTATAAAAAA
1 TAAAAAATT-TAAAAAA
17888397 TAAAAAATTTAAAAAA
1 TAAAAAATTTAAAAAA
17888413 TAAATAAAAATTTAAAAAA
1 T--A-AAAAATTTAAAAAA
17888432 CTCTAAAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 8 0.26
17 8 0.26
18 1 0.03
19 14 0.45
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
TAAAAAATTTAAAAAA
Found at i:17888419 original size:20 final size:19
Alignment explanation
Indices: 17888394--17888431 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 19
17888384 ATATTATAAA
17888394 AAATAAAAAATTTAAAAAAT
1 AAAT-AAAAATTTAAAAAAT
17888414 AAATAAAAATTTAAAAAA
1 AAATAAAAATTTAAAAAA
17888432 CTCTAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AAATAAAAATTTAAAAAAT
Found at i:17888849 original size:16 final size:16
Alignment explanation
Indices: 17888816--17888849 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17888806 TGGGGGTGTT
* *
17888816 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
17888832 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
17888848 AA
1 AA
17888850 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:17891677 original size:21 final size:21
Alignment explanation
Indices: 17891651--17891691 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17891641 AGACGAGCAA
* *
17891651 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
17891672 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
17891692 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:17893630 original size:16 final size:16
Alignment explanation
Indices: 17893597--17893630 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17893587 GGAGATTGTT
* *
17893597 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
17893613 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
17893629 AA
1 AA
17893631 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:17895380 original size:21 final size:19
Alignment explanation
Indices: 17895355--17895404 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
17895345 AGAAGTTAGA
17895355 AATTTTAAAATATTATATTAT-
1 AATTTTAAAA-A-TA-ATTATG
17895376 AATTTTAACAAATAATTATG
1 AATTTTAA-AAATAATTATG
17895396 AATTTTAAA
1 AATTTTAAA
17895405 CCTAAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 6 0.22
20 10 0.37
21 9 0.33
22 2 0.07
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (19 bp):
AATTTTAAAAATAATTATG
Found at i:17896258 original size:20 final size:20
Alignment explanation
Indices: 17896233--17896271 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
17896223 GCTTTTACAT
17896233 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
17896253 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
17896272 TTTTAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:17899616 original size:52 final size:48
Alignment explanation
Indices: 17899433--17899639 Score: 168
Period size: 47 Copynumber: 4.2 Consensus size: 48
17899423 TGCACATAGT
* * ** * *
17899433 CACATATCACATACCGAGGCCATAACCCAGCCATGGTCTTACACGG-AT
1 CACATATCACAT-CCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
* * * * * * *
17899481 CACATATCACA-CTGATGTCATATCCCAAATATGGTCTTATACAGTAG
1 CACATATCACATCCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
* * *
17899528 CACATATCACA-CCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACATCCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
17899575 CACATATCACATTTGTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAAT
1 CACATATCACA----TCCGAAGCCATAGCCCAGATATGGTCTTATACGG-AAG
*
17899628 CACATTTCACAT
1 CACATATCACAT
17899640 GCTGTCATGG
Statistics
Matches: 130, Mismatches: 22, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
46 24 0.18
47 53 0.41
48 11 0.08
49 1 0.01
52 29 0.22
53 12 0.09
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.25
Consensus pattern (48 bp):
CACATATCACATCCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
Found at i:17903286 original size:50 final size:50
Alignment explanation
Indices: 17903204--17903303 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
17903194 GAGATGAATT
*
17903204 GCTAGGAGTGATGGCGGTAATTATGAATTTTTTTAAAGAATATTGAAGTA
1 GCTAGGAGTGATGGCGGTAATTATGAAGTTTTTTAAAGAATATTGAAGTA
*
17903254 GCTATGAGTGATGGCGGTAATTATGAAGTTTTTTAAAGAATATTGAAGTA
1 GCTAGGAGTGATGGCGGTAATTATGAAGTTTTTTAAAGAATATTGAAGTA
17903304 ATCTTTGCAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (50 bp):
GCTAGGAGTGATGGCGGTAATTATGAAGTTTTTTAAAGAATATTGAAGTA
Found at i:17910063 original size:47 final size:46
Alignment explanation
Indices: 17909967--17910144 Score: 198
Period size: 47 Copynumber: 3.8 Consensus size: 46
17909957 GGAAATTGAG
* * *
17909967 ATCCGAACTCGTTGAGTTGCGTTTCGAGTTCATGA-GAATTATG-AGGC
1 ATCCGAACTCGTTGAGTTGCGTTTCGAGTTCATTATG---GATGCAAGC
*
17910014 ATCCGAACTCGTTGAGTTGCGTTTAGAGTTCACTTATGGATGCAAGC
1 ATCCGAACTCGTTGAGTTGCGTTTCGAGTTCA-TTATGGATGCAAGC
* * * * * *
17910061 ATCCAAACTCGTTGAGCTGTGTTCCGAGTTTATTATGGATGCAAAC
1 ATCCGAACTCGTTGAGTTGCGTTTCGAGTTCATTATGGATGCAAGC
* *
17910107 ACCCGAGCTCGTTGAGTTGCGTTTCGAGTTCATTATGG
1 ATCCGAACTCGTTGAGTTGCGTTTCGAGTTCATTATGG
17910145 GTGAGATTAT
Statistics
Matches: 110, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
46 47 0.43
47 60 0.55
48 2 0.02
49 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGCGTTTCGAGTTCATTATGGATGCAAGC
Found at i:17910118 original size:46 final size:46
Alignment explanation
Indices: 17910019--17910144 Score: 144
Period size: 46 Copynumber: 2.7 Consensus size: 46
17910009 GAGGCATCCG
* ** * *
17910019 AACTCGTTGAGTTGCGTTTAGAGTTCACTTATGGATGCAAGCATCCA
1 AACTCGTTGAGCTGCGTTCCGAGTTCA-TTATGGATGCAAACACCCA
* * *
17910066 AACTCGTTGAGCTGTGTTCCGAGTTTATTATGGATGCAAACACCCG
1 AACTCGTTGAGCTGCGTTCCGAGTTCATTATGGATGCAAACACCCA
* * *
17910112 AGCTCGTTGAGTTGCGTTTCGAGTTCATTATGG
1 AACTCGTTGAGCTGCGTTCCGAGTTCATTATGG
17910145 GTGAGATTAT
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
46 44 0.67
47 22 0.33
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (46 bp):
AACTCGTTGAGCTGCGTTCCGAGTTCATTATGGATGCAAACACCCA
Found at i:17913325 original size:9 final size:9
Alignment explanation
Indices: 17913313--17913342 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
17913303 ATTATAATAT
17913313 TTATATTTA
1 TTATATTTA
17913322 TTATATTTA
1 TTATATTTA
*
17913331 TTGTATTTA
1 TTATATTTA
17913340 TTA
1 TTA
17913343 CATGTCTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (9 bp):
TTATATTTA
Found at i:17913397 original size:13 final size:12
Alignment explanation
Indices: 17913379--17913427 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
17913369 TATGTATGCG
17913379 TATGTAATATACT
1 TATGTAATATA-T
*
17913392 TATGTATTATAT
1 TATGTAATATAT
*
17913404 TATAT-ATATAT
1 TATGTAATATAT
17913415 T-T-TAATATAT
1 TATGTAATATAT
17913425 TAT
1 TAT
17913428 ATGTATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
9 1 0.03
10 8 0.26
11 7 0.23
12 5 0.16
13 10 0.32
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (12 bp):
TATGTAATATAT
Found at i:17913565 original size:22 final size:22
Alignment explanation
Indices: 17913540--17913583 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
17913530 TATGTTCCTA
*
17913540 AATACTATGTTA-TATATATTTT
1 AATACCATGTTAGTAT-TATTTT
17913562 AATACCATGTTAGTATTATTTT
1 AATACCATGTTAGTATTATTTT
17913584 TGTACTATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (22 bp):
AATACCATGTTAGTATTATTTT
Found at i:17926456 original size:90 final size:90
Alignment explanation
Indices: 17926291--17926458 Score: 203
Period size: 90 Copynumber: 1.9 Consensus size: 90
17926281 TTCTGTTTTT
* * * * *
17926291 AAAATTCAACTCATATTTCGAGAAATGAGTTAAGCCTCAAGACACGTTGAGGTATTTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
*
17926356 GTTCTTTCAAAAAAAAGAAAAAAGA
66 GTTCTGTCAAAAAAAAGAAAAAAGA
* ** * * * *
17926381 AAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTTAGGACATGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
17926446 TGTT-TGTCAAAAA
66 -GTTCTGTCAAAAA
17926459 TCAACTCATA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
90 61 0.95
91 3 0.05
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (90 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
GTTCTGTCAAAAAAAAGAAAAAAGA
Found at i:17926461 original size:73 final size:73
Alignment explanation
Indices: 17926381--17926525 Score: 213
Period size: 73 Copynumber: 2.0 Consensus size: 73
17926371 AGAAAAAAGA
*
17926381 AAAAATCAACTCATGTTGCGAGAGGTGAGTTGAGCCTTAGG-ACATGCTGAGGTA-ATTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TAGGCACATGCTGAGG-AGATTTCAATT
17926444 TCTGTTTGTC
64 TCTGTTTGTC
* *
17926454 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGAGTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG--CACATGCTGAGGAGATTTCAATT
17926519 TCTGTTT
64 TCTGTTT
17926526 TTTCAATTTA
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
72 3 0.05
73 35 0.54
74 1 0.02
75 26 0.40
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGCACATGCTGAGGAGATTTCAATTTC
TGTTTGTC
Found at i:17926531 original size:90 final size:88
Alignment explanation
Indices: 17926436--17926699 Score: 290
Period size: 90 Copynumber: 3.0 Consensus size: 88
17926426 GCTGAGGTAA
17926436 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTTCAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
*
17926501 GCTGAGGAGTTTTCAATTTCTGTTT
65 GCTGAGGA-TTTTAAATTTCTGTTT
* * * *
17926526 TTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACAT
1 TTTCAATTTCT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
* * *
17926591 GCTGAGCTATTTTTAATTTC--TAT
65 GCTGAG-GATTTTAAATTTCTGTTT
* * * **
17926614 TTT-AATGTCTGTTTT-AAAGAGTCAATTCATATTAAGAGAGGTGAGTTGAGCCTCAGG---ACA
1 TTTCAATTTCTGTTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACA
*
17926674 CGCTGAGGTATTTTAAATTTCTGTTT
64 TGCTGAGG-ATTTTAAATTTCTGTTT
17926700 GTCAAAAATC
Statistics
Matches: 147, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
84 20 0.14
85 3 0.02
86 35 0.24
87 7 0.05
88 5 0.03
90 73 0.50
91 4 0.03
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (88 bp):
TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
CTGAGGATTTTAAATTTCTGTTT
Found at i:17926720 original size:73 final size:74
Alignment explanation
Indices: 17926611--17926898 Score: 273
Period size: 73 Copynumber: 3.8 Consensus size: 74
17926601 TTTTAATTTC
* * * * *
17926611 TATTTT-AATGTCTGTTT-T-AAAGAGTCAATTCATATTAAGAGAGGTGAGTTGAGCCTCAGGAC
1 TATTTTAAATTTCTGTTTGTCAAAGAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGGAC
17926673 ACGCTGAGG
66 ACGCTGAGG
* * *
17926682 TATTTTAAATTTCTGTTTGTCAAA-AATCAACTCATATTACGAGAAGTGAGTTGAGCAT-TGGCT
1 TATTTTAAATTTCTGTTTGTCAAAGAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGG-A
* *
17926745 CATGTGCTGAGC
65 CA--CGCTGAGG
* * * * *
17926757 TATTTTTAATTCCTGTTTTAATGTCTGTTTTAAAGAGTCAATTCATATTACGAGAGGTGAGTTGA
1 TATTTTAAATTTCTG--TT--TGTC------AAAGAATCAACTCATATTACGAGAAGTGAGTTGA
17926822 GCCTCAGGACACGCTGAGG
56 GCCTCAGGACACGCTGAGG
*
17926841 TATTTTAAATTTCTGTTTGTCAAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 TATTTTAAATTTCTGTTTGTCAAAGAATCAACTCATATTACGAGAAGTGAGTTGAGCCT
17926899 TGGCTCACGT
Statistics
Matches: 173, Mismatches: 26, Indels: 34
0.74 0.11 0.15
Matches are distributed among these distances:
71 6 0.03
72 12 0.07
73 62 0.36
74 6 0.03
75 19 0.11
77 2 0.01
79 4 0.02
80 4 0.02
82 2 0.01
84 19 0.11
85 3 0.02
86 32 0.18
87 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.36
Consensus pattern (74 bp):
TATTTTAAATTTCTGTTTGTCAAAGAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGGAC
ACGCTGAGG
Found at i:17926726 original size:159 final size:159
Alignment explanation
Indices: 17926542--17926988 Score: 788
Period size: 159 Copynumber: 2.8 Consensus size: 159
17926532 TTTATATTTT
*
17926542 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACATGCTGAGCTATTTTTAA
1 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTTAA
* *
17926607 TTTCTATTTTAATGTCTGTTTTAAAGAGTCAATTCATATTAAGAGAGGTGAGTTGAGCCTCAGGA
66 TTTCTGTTTTAATGTCTGTTTTAAAGAGTCAATTCATATTACGAGAGGTGAGTTGAGCCTCAGGA
17926672 CACGCTGAGGTATTTTAAATTTCTGTTTG
131 CACGCTGAGGTATTTTAAATTTCTGTTTG
* * *
17926701 TCAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCATTGGCTCATGTGCTGAGCTATTTTTAA
1 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTTAA
*
17926766 TTCCTGTTTTAATGTCTGTTTTAAAGAGTCAATTCATATTACGAGAGGTGAGTTGAGCCTCAGGA
66 TTTCTGTTTTAATGTCTGTTTTAAAGAGTCAATTCATATTACGAGAGGTGAGTTGAGCCTCAGGA
17926831 CACGCTGAGGTATTTTAAATTTCTGTTTG
131 CACGCTGAGGTATTTTAAATTTCTGTTTG
17926860 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTTAA
1 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTTAA
* * **
17926925 TTTTTGTTTTAATGTCTATTTTAAAGAGTCAATTCATATTACGAGAAATGAGTTGAG-CTCAGGA
66 TTTCTGTTTTAATGTCTGTTTTAAAGAGTCAATTCATATTACGAGAGGTGAGTTGAGCCTCAGGA
17926989 TCACATGCCA
Statistics
Matches: 273, Mismatches: 15, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
158 7 0.03
159 266 0.97
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (159 bp):
TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTTAA
TTTCTGTTTTAATGTCTGTTTTAAAGAGTCAATTCATATTACGAGAGGTGAGTTGAGCCTCAGGA
CACGCTGAGGTATTTTAAATTTCTGTTTG
Found at i:17926927 original size:75 final size:72
Alignment explanation
Indices: 17926772--17926936 Score: 181
Period size: 73 Copynumber: 2.2 Consensus size: 72
17926762 TTAATTCCTG
* * * *
17926772 TTTTAATGTCTGTTTTAAAGAGTCAATTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCT
1 TTTTAATTTCTGTTTTAAAGAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGGACACGCT
*
17926837 GAGGTAT
66 GAGCTAT
* * * *
17926844 TTTAAATTTCTGTTTGTCAAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTCAC
1 TTTTAATTTCTGTTT-T-AAAGAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGG-ACAC
17926907 GTGCTGAGCTAT
63 --GCTGAGCTAT
*
17926919 TTTTAATTTTTGTTTTAA
1 TTTTAATTTCTGTTTTAA
17926937 TGTCTATTTT
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
72 15 0.19
73 36 0.47
74 4 0.05
75 22 0.29
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (72 bp):
TTTTAATTTCTGTTTTAAAGAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGGACACGCT
GAGCTAT
Found at i:17928810 original size:9 final size:9
Alignment explanation
Indices: 17928798--17928827 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
17928788 ATTATAATAT
17928798 TTATATTTA
1 TTATATTTA
17928807 TTATATTTA
1 TTATATTTA
*
17928816 TTGTATTTA
1 TTATATTTA
17928825 TTA
1 TTA
17928828 CATGTCGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (9 bp):
TTATATTTA
Found at i:17928882 original size:13 final size:12
Alignment explanation
Indices: 17928864--17928912 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
17928854 TATGTATGCG
17928864 TATGTAATATACT
1 TATGTAATATA-T
*
17928877 TATGTATTATAT
1 TATGTAATATAT
*
17928889 TATAT-ATATAT
1 TATGTAATATAT
17928900 T-T-TAATATAT
1 TATGTAATATAT
17928910 TAT
1 TAT
17928913 ATGTATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
9 1 0.03
10 8 0.26
11 7 0.23
12 5 0.16
13 10 0.32
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (12 bp):
TATGTAATATAT
Found at i:17929052 original size:24 final size:24
Alignment explanation
Indices: 17929025--17929071 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
17929015 TATGTTCCTA
*
17929025 AATACTATGTTA-TATATATTTTTT
1 AATACCATGTTAGTAT-TATTTTTT
17929049 AATACCATGTTAGTATTATTTTT
1 AATACCATGTTAGTATTATTTTT
17929072 GTACTATCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (24 bp):
AATACCATGTTAGTATTATTTTTT
Found at i:17929754 original size:26 final size:26
Alignment explanation
Indices: 17929725--17929780 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
17929715 TGATACAAAT
*
17929725 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17929751 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17929777 TGAT
1 TGAT
17929781 GGGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:17931420 original size:25 final size:22
Alignment explanation
Indices: 17931333--17931408 Score: 152
Period size: 22 Copynumber: 3.5 Consensus size: 22
17931323 CATGTTTGAC
17931333 TGTTGTTATTTACTGCATGCCA
1 TGTTGTTATTTACTGCATGCCA
17931355 TGTTGTTATTTACTGCATGCCA
1 TGTTGTTATTTACTGCATGCCA
17931377 TGTTGTTATTTACTGCATGCCA
1 TGTTGTTATTTACTGCATGCCA
17931399 TGTTGTTATT
1 TGTTGTTATT
17931409 ATCTGATGCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 54 1.00
ACGTcount: A:0.17, C:0.16, G:0.18, T:0.49
Consensus pattern (22 bp):
TGTTGTTATTTACTGCATGCCA
Found at i:17935534 original size:21 final size:21
Alignment explanation
Indices: 17935479--17935524 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
17935469 TGTAGCATAG
*
17935479 AAGTGCATAT-AGGGGCACGA
1 AAGTGCAAATCAGGGGCACGA
*
17935499 GAGTGCAAATCAGGGGCACGA
1 AAGTGCAAATCAGGGGCACGA
17935520 AAGTG
1 AAGTG
17935525 TAATCAAGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.35, C:0.15, G:0.37, T:0.13
Consensus pattern (21 bp):
AAGTGCAAATCAGGGGCACGA
Found at i:17935535 original size:20 final size:21
Alignment explanation
Indices: 17935491--17935536 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
17935481 GTGCATATAG
* *
17935491 GGGCACGAGAGTGCAAATCAG
1 GGGCACGAAAGTGCAAATCAA
*
17935512 GGGCACGAAAGTG-TAATCAA
1 GGGCACGAAAGTGCAAATCAA
17935532 GGGCA
1 GGGCA
17935537 TTGGAGGATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.35, C:0.17, G:0.37, T:0.11
Consensus pattern (21 bp):
GGGCACGAAAGTGCAAATCAA
Found at i:17940499 original size:15 final size:15
Alignment explanation
Indices: 17940481--17940515 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
17940471 ATAATAGTAG
*
17940481 TAATAGTAATAAAAA
1 TAATAGTAACAAAAA
17940496 TAATAGTAACAAAAA
1 TAATAGTAACAAAAA
17940511 TAATA
1 TAATA
17940516 CCAAGGGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.26
Consensus pattern (15 bp):
TAATAGTAACAAAAA
Found at i:17940675 original size:24 final size:23
Alignment explanation
Indices: 17940617--17940692 Score: 75
Period size: 23 Copynumber: 3.2 Consensus size: 23
17940607 ATGTTAAATA
17940617 AAAATAAAAAT-ATAATAGTAAT
1 AAAATAAAAATGATAATAGTAAT
17940639 AATAATTACAAAAATGATAAT-GATAAT
1 AA-AA-T--AAAAATGATAATAG-TAAT
* *
17940666 AAAATAAAAATGATACTAGCAAT
1 AAAATAAAAATGATAATAGTAAT
17940689 AAAA
1 AAAA
17940693 ATAGTAATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
22 2 0.04
23 20 0.44
24 2 0.04
25 1 0.02
26 9 0.20
27 11 0.24
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (23 bp):
AAAATAAAAATGATAATAGTAAT
Found at i:17940677 original size:17 final size:18
Alignment explanation
Indices: 17940657--17940694 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
17940647 CAAAAATGAT
17940657 AATGATAATA-AAATAAA
1 AATGATAATAGAAATAAA
* *
17940674 AATGATACTAGCAATAAA
1 AATGATAATAGAAATAAA
17940692 AAT
1 AAT
17940695 AGTAATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.24
Consensus pattern (18 bp):
AATGATAATAGAAATAAA
Found at i:17941022 original size:3 final size:3
Alignment explanation
Indices: 17940613--17941002 Score: 178
Period size: 3 Copynumber: 127.7 Consensus size: 3
17940603 TAGTATGTTA
* * * * * * *
17940613 AAT AAA AAT AAA AAT -AT AAT AGT AAT AAT AAT TAC AAA AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * ** * * *
17940660 GAT AAT AA- AAT AAA AAT GAT ACT AGC AAT AAA AAT AGT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
17940707 AAT AAG AACGT AAT AAA AAG AAA AAG AGAT AAT AAC ATGT AAAT AAT
1 AAT AAT AA--T AAT AAT AAT AAT AAT A-AT AAT AAT A-AT -AAT AAT
* * *
17940754 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT ATT GAT AAT GAAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * * * * * *
17940799 AAT AAT AA- AAGG AAT AAA AAT AAC AGT AAT AAT AAG ATT ATT AAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
17940844 AAT ATT AAT AAT AGT AAT AAT AAC AAT AAT -AT AAAT AAT AAT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT A-AT
* * * * * * * *
17940890 ACACG AAA AAT AAA AAT AAT AAT GAT AAT AGT AAT AAA AAT AAA AAC
1 A-A-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
17940937 AGT AAC AAT GAT AAT AAT AAT ATT GAT AAT AAAT AAT AAT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
*
17940983 AAT AAT ACT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
17941003 AGTGAACAGT
Statistics
Matches: 278, Mismatches: 93, Indels: 32
0.69 0.23 0.08
Matches are distributed among these distances:
2 10 0.04
3 247 0.89
4 17 0.06
5 4 0.01
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:17944443 original size:13 final size:13
Alignment explanation
Indices: 17944425--17944487 Score: 81
Period size: 13 Copynumber: 4.8 Consensus size: 13
17944415 TTGGCAATGT
17944425 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
17944438 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
* * *
17944451 TGTAGAAAAGTGA
1 TTTTGAAAAGTGC
*
17944464 TTTTGAGAAGTGC
1 TTTTGAAAAGTGC
*
17944477 TTTTAAAAAGT
1 TTTTGAAAAGT
17944488 TTGGTTTAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:17950809 original size:37 final size:38
Alignment explanation
Indices: 17950727--17950811 Score: 109
Period size: 37 Copynumber: 2.2 Consensus size: 38
17950717 TATCAAAAGT
**
17950727 CCTTCAATCTTTATCCAACCATTTTTTTAAATCTTCAAC
1 CCTTCAATCTTTATCCAACCA-TACTTTAAATCTTCAAC
* *
17950766 CCTTCAATCTTTATCCAGCCA-ACTTTAAATCTTCAAT
1 CCTTCAATCTTTATCCAACCATACTTTAAATCTTCAAC
*
17950803 CTTTCAATC
1 CCTTCAATC
17950812 AAGCCTTCCT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
37 21 0.51
39 20 0.49
ACGTcount: A:0.28, C:0.29, G:0.01, T:0.41
Consensus pattern (38 bp):
CCTTCAATCTTTATCCAACCATACTTTAAATCTTCAAC
Found at i:17955096 original size:166 final size:166
Alignment explanation
Indices: 17954822--17955137 Score: 569
Period size: 166 Copynumber: 1.9 Consensus size: 166
17954812 TCATGGAAAA
17954822 TTTGAGAAATAATGATTTGTATGGATTGATATACGTCCCTAGAGAAATTGGCTAGCTTGACAAAA
1 TTTGAGAAATAATGATTTGTATGGATTGATATACGTCCCTAGAGAAATTGGCTAGCTTGACAAAA
17954887 GGATAAAAATGCTTAGATTTCAAGTTATGAACTTAAGGACTAAATTGTGAAAAGTTCAAATGTTA
66 GGATAAAAATGCTTAGATTTCAAGTTATGAACTTAAGGACTAAATTGTGAAAAGTTCAAATGTTA
* *
17954952 GGGGAAAAATAGTAATTTTGCCCCTAACATTTGAAC
131 GAGCAAAAATAGTAATTTTGCCCCTAACATTTGAAC
* * *
17954988 TTTGAGAAATAATGATTTGTATGGATTGATATAGGTCCTTAGAGAAATTGGCTAGCTTGAGAAAA
1 TTTGAGAAATAATGATTTGTATGGATTGATATACGTCCCTAGAGAAATTGGCTAGCTTGACAAAA
*
17955053 GGATAAAAATGGTTAGATTTCAAGTTATGAACTTAAGGACTAAATTGTGAAAAGTTCAAATGTTA
66 GGATAAAAATGCTTAGATTTCAAGTTATGAACTTAAGGACTAAATTGTGAAAAGTTCAAATGTTA
*
17955118 GAGCCAAAATAGTAATTTTG
131 GAGCAAAAATAGTAATTTTG
17955138 AAAATTATGG
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
166 143 1.00
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (166 bp):
TTTGAGAAATAATGATTTGTATGGATTGATATACGTCCCTAGAGAAATTGGCTAGCTTGACAAAA
GGATAAAAATGCTTAGATTTCAAGTTATGAACTTAAGGACTAAATTGTGAAAAGTTCAAATGTTA
GAGCAAAAATAGTAATTTTGCCCCTAACATTTGAAC
Found at i:17957776 original size:40 final size:40
Alignment explanation
Indices: 17957720--17957797 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
17957710 TATTTTTGTA
** **
17957720 TTGGTTATTGTTTGTCATTGTCTAGGTTATATGAAAGTTT
1 TTGGTTATTGCCTGTCATTACCTAGGTTATATGAAAGTTT
* *
17957760 TTGGTTATTGCCTGTCATTACCTAGGTTGTATTAAAGT
1 TTGGTTATTGCCTGTCATTACCTAGGTTATATGAAAGT
17957798 GTTCGATTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.21, C:0.09, G:0.22, T:0.49
Consensus pattern (40 bp):
TTGGTTATTGCCTGTCATTACCTAGGTTATATGAAAGTTT
Found at i:17957808 original size:40 final size:40
Alignment explanation
Indices: 17957732--17957808 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 40
17957722 GGTTATTGTT
** * * *
17957732 TGTCATTGTCTAGGTTATATGAAAGTTTTTGGTTATTGCC
1 TGTCATTACCTAGGTTATATGAAAGTGTTCGATTATTGCC
* *
17957772 TGTCATTACCTAGGTTGTATTAAAGTGTTCGATTATT
1 TGTCATTACCTAGGTTATATGAAAGTGTTCGATTATT
17957809 ATTTTCCATG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.22, C:0.10, G:0.21, T:0.47
Consensus pattern (40 bp):
TGTCATTACCTAGGTTATATGAAAGTGTTCGATTATTGCC
Found at i:17960372 original size:21 final size:20
Alignment explanation
Indices: 17960319--17960373 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
17960309 ATAACCAAAT
*
17960319 AGTTGCCCCAACTCAACAAGA
1 AGTTG-CCCAACTTAACAAGA
* * *
17960340 AGCTACCCAACTTACCAAGA
1 AGTTGCCCAACTTAACAAGA
17960360 AGTTGCGCCAACTT
1 AGTTGC-CCAACTT
17960374 GTCAACAAGC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.35, C:0.33, G:0.15, T:0.18
Consensus pattern (20 bp):
AGTTGCCCAACTTAACAAGA
Found at i:17961430 original size:3 final size:3
Alignment explanation
Indices: 17961422--17961449 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
17961412 GCATCTCCAT
17961422 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
17961450 ACCTAAACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Done.