Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 318 of 438
Found at i:99642564 original size:9 final size:9
Alignment explanation
Indices: 99642552--99642628 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
99642542 TTTGATGCAC
99642552 ATGATATGT
1 ATGATATGT
*
99642561 ATGATATGCAC
1 ATGATATG--T
99642572 ATGATATGT
1 ATGATATGT
*
99642581 ATGATATGCAC
1 ATGATATG--T
*
99642592 ATGACATGT
1 ATGATATGT
*
99642601 ATGATATGCAC
1 ATGATATG--T
99642612 ATGATATGT
1 ATGATATGT
99642621 ATGATATG
1 ATGATATG
99642629 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:99642640 original size:20 final size:20
Alignment explanation
Indices: 99642546--99642632 Score: 165
Period size: 20 Copynumber: 4.3 Consensus size: 20
99642536 TGGGATTTTG
99642546 ATGCACATGATATGTATGAT
1 ATGCACATGATATGTATGAT
99642566 ATGCACATGATATGTATGAT
1 ATGCACATGATATGTATGAT
*
99642586 ATGCACATGACATGTATGAT
1 ATGCACATGATATGTATGAT
99642606 ATGCACATGATATGTATGAT
1 ATGCACATGATATGTATGAT
99642626 ATGCACA
1 ATGCACA
99642633 CGAGATGTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGCACATGATATGTATGAT
Found at i:99642743 original size:24 final size:24
Alignment explanation
Indices: 99642687--99642874 Score: 258
Period size: 24 Copynumber: 8.0 Consensus size: 24
99642677 GAGGAAGTGA
*
99642687 AAAATGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
99642710 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
99642734 AAAAGGGCTTATG-CCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
99642757 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
99642781 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
99642804 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
99642828 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* *
99642852 AAAAAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCC-CCAGTTAT
99642875 ATGATAAAGC
Statistics
Matches: 149, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
23 69 0.46
24 80 0.54
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:99642762 original size:47 final size:47
Alignment explanation
Indices: 99642687--99642874 Score: 263
Period size: 47 Copynumber: 4.0 Consensus size: 47
99642677 GAGGAAGTGA
* *
99642687 AAAATGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
99642734 AAAAGGGCTTATG-CCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
* * *
99642781 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
99642828 AAAAGGGCTTTTGCCCCAGTTATTAAAAAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAGGGCTTATGCC-CCAGTTAT
99642875 ATGATAAAGC
Statistics
Matches: 127, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
46 9 0.07
47 94 0.74
48 24 0.19
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:99649651 original size:22 final size:22
Alignment explanation
Indices: 99649609--99649651 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
99649599 GCTATATTAT
*
99649609 AAGCATTGAGCTACAATATGTA
1 AAGCATTGAGCTACAAAATGTA
*
99649631 AAGCATT-AGCTAGTAAAATGT
1 AAGCATTGAGCTA-CAAAATGT
99649652 GTGCCATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.28
Consensus pattern (22 bp):
AAGCATTGAGCTACAAAATGTA
Found at i:99650205 original size:39 final size:39
Alignment explanation
Indices: 99650151--99650313 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
99650141 TGTGTATGAA
*
99650151 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
99650190 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
99650229 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
99650268 TGTGCGAGTTGTGATATTCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
99650308 TGTGCG
1 TGTGCG
99650314 GGTTACCATA
Statistics
Matches: 113, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 96 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:99650338 original size:40 final size:39
Alignment explanation
Indices: 99650151--99650344 Score: 244
Period size: 39 Copynumber: 4.9 Consensus size: 39
99650141 TGTGTATGAA
* *
99650151 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
99650190 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
99650229 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
99650268 TGTGCGAGTTGTGATATTCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
99650308 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
99650345 GTTTGAACGA
Statistics
Matches: 136, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 96 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:99654679 original size:28 final size:28
Alignment explanation
Indices: 99654627--99654699 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
99654617 ACAGGGTTAG
* * *
99654627 CACATAT-GGTTCGCACCTAGTGGTTGTT
1 CACATATGGGTTTGCACCCAGAGGTT-TT
99654655 -ACATATGGGTTTGCACCCAGAGGTTTT
1 CACATATGGGTTTGCACCCAGAGGTTTT
99654682 CACATATATGGGTTTGCA
1 CAC--ATATGGGTTTGCA
99654700 TATTCATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
27 8 0.21
28 17 0.45
30 13 0.34
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (28 bp):
CACATATGGGTTTGCACCCAGAGGTTTT
Found at i:99656316 original size:28 final size:28
Alignment explanation
Indices: 99656245--99656316 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 28
99656235 GGTGTTACAG
* * *
99656245 TTCGTATACAGAGGCTCGCCTATAGGGG
1 TTCGCATACAGAGGCTCACCTATAGGGC
* * *
99656273 TTCACATATAGAGGCTCACTTATAGGGC
1 TTCGCATACAGAGGCTCACCTATAGGGC
*
99656301 TTCGCATACAGGGGCT
1 TTCGCATACAGAGGCT
99656317 TACATGTAAG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (28 bp):
TTCGCATACAGAGGCTCACCTATAGGGC
Found at i:99657713 original size:39 final size:39
Alignment explanation
Indices: 99657650--99657812 Score: 218
Period size: 39 Copynumber: 4.2 Consensus size: 39
99657640 GGACTTTAGC
* * * *
99657650 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
* * * * *
99657689 CCGGTTATAATTCTAGCATATAGCCTGCGAACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
**
99657728 CTAGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
99657767 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
99657806 CTGGATA
1 CCGGATA
99657813 AACATCACTG
Statistics
Matches: 107, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 107 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:99660963 original size:2 final size:2
Alignment explanation
Indices: 99660958--99660996 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
99660948 AACTAAAATC
99660958 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
99660997 CGCAATTACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:99664674 original size:27 final size:27
Alignment explanation
Indices: 99664644--99664744 Score: 139
Period size: 27 Copynumber: 3.7 Consensus size: 27
99664634 TATTGAAATG
* * *
99664644 CCCTCAATTTGTAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
99664671 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
99664698 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * *
99664725 CCCTTGATTTACAAAATTAC
1 CCCTCGATTTATAGAATTAC
99664745 TAAAATACCC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Found at i:99664753 original size:27 final size:27
Alignment explanation
Indices: 99664723--99664914 Score: 149
Period size: 27 Copynumber: 7.2 Consensus size: 27
99664713 ATTACCGTTT
*
99664723 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
99664750 TACCCTT-AGTTTACAAAATTACC-AAA
1 TACCCTTGA-TTTACAAAATTACCAAAA
** *
99664776 TACCCTTGATCAATAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* **
99664803 TACCCCTGATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* ** **
99664830 TACCCCTGGCTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
*** *
99664857 TA-CCTCTGATTTGTGAAATTATCAAAA
1 TACCCT-TGATTTACAAAATTACCAAAA
* * ** *
99664884 TACTCTCGATTTGTAAAA-TATCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
99664910 TACCC
1 TACCC
99664915 CTGTAGGGTA
Statistics
Matches: 141, Mismatches: 19, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
26 36 0.26
27 103 0.73
28 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCAAAA
Found at i:99664754 original size:54 final size:54
Alignment explanation
Indices: 99664624--99664772 Score: 145
Period size: 54 Copynumber: 2.8 Consensus size: 54
99664614 AATACTTTAG
* * * * *
99664624 TTTACCAAATTATTGAAATGCCCTCAATTTGTAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCAATTTATAAAATTACCGTTTTACCCTCGA
* * * *** * * *
99664678 TTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTTGA
1 TTTACAAAATTACTAAAATACCCTCAATTTATAAAATTACCGTTTTACCCTCGA
* * *
99664732 TTTACAAAATTACTAAAATACCCTTAGTTTACAAAATTACC
1 TTTACAAAATTACTAAAATACCCTCAATTTATAAAATTACC
99664773 AAATACCCTT
Statistics
Matches: 70, Mismatches: 25, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
54 70 1.00
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (54 bp):
TTTACAAAATTACTAAAATACCCTCAATTTATAAAATTACCGTTTTACCCTCGA
Found at i:99664855 original size:54 final size:54
Alignment explanation
Indices: 99664737--99664917 Score: 174
Period size: 54 Copynumber: 3.4 Consensus size: 54
99664727 CTTGATTTAC
* * ** * **
99664737 AAAATTACTAAAATA-CCCTTAGTTTACAAAATTACC-AAATACCCTTGA-TCAAT
1 AAAATTACCAAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCTCGACT-TGT
*
99664790 AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCC-CTGGCTTGT
1 AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTC-GACTTGT
* * * * *
99664844 AAAATTACCAAAATACCTCTGATTTGTGAAATTATCAAAATACTCTCGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGACTTGT
*
99664898 AAAA-TATCAAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
99664918 TAGGGTAGAA
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
53 40 0.37
54 65 0.61
55 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGACTTGT
Found at i:99664930 original size:80 final size:81
Alignment explanation
Indices: 99664791--99664940 Score: 187
Period size: 80 Copynumber: 1.9 Consensus size: 81
99664781 TTGATCAATA
***
99664791 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGAGGGTAAAATTACCAAA
99664856 ATACCTCTGATTTGTG
66 ATACCTCTGATTTGTG
* * * * * **
99664872 AAATTATCAAAATA-CTCTCGATTTGTAAAA-TATCAAAATACCCCTGTAGGGTAGAATTACTGA
1 AAATTACCAAAATACCCCT-GATTTGTAAAATTACCAAAATACCCCTGGAGGGTAAAATTACCAA
99664935 AATACC
65 AATACC
99664941 CTTGTAGGGT
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
80 34 0.59
81 24 0.41
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGAGGGTAAAATTACCAAA
ATACCTCTGATTTGTG
Found at i:99664946 original size:27 final size:27
Alignment explanation
Indices: 99664907--99665120 Score: 288
Period size: 27 Copynumber: 7.9 Consensus size: 27
99664897 TAAAATATCA
99664907 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
99664934 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
99664961 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
99664988 AAATACCCTTGTAGGGTAGAAATAAC-G
1 AAATACCCCTGTAGGGTAG-AATTACTG
99665015 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
99665042 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
99665069 AAATACCCCTGTAGGGTAGAATTA-TCG
1 AAATACCCCTGTAGGGTAGAATTACT-G
* * * *
99665096 AGATATCCTTGTAGGGTAAAATTAC
1 AAATACCCCTGTAGGGTAGAATTAC
99665121 CATTTTGCCC
Statistics
Matches: 163, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
26 5 0.03
27 153 0.94
28 5 0.03
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACTG
Found at i:99665132 original size:54 final size:54
Alignment explanation
Indices: 99664907--99665117 Score: 372
Period size: 54 Copynumber: 3.9 Consensus size: 54
99664897 TAAAATATCA
99664907 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCG
*
99664961 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATAACG
1 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCG
99665015 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCG
* *
99665069 AAATACCCCTGTAGGGTAGAATTA-TCGAGATATCCTTGTAGGGTA-AAAT
1 AAATACCCCTGTAGGGTAGAATTACT-GAAATACCCTTGTAGGGTAGAAAT
99665118 TACCATTTTG
Statistics
Matches: 152, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
53 5 0.03
54 147 0.97
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (54 bp):
AAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCG
Found at i:99665362 original size:25 final size:25
Alignment explanation
Indices: 99665324--99665393 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
99665314 AGGAAGTGCT
* * * *
99665324 AAAAGCGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
99665349 AAAAGGGCTTTGCCCCAATTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
99665374 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
99665394 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:99665395 original size:24 final size:25
Alignment explanation
Indices: 99665349--99665400 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
99665339 TAGTTTACCG
*
99665349 AAAAGGGCTTTGCCCCAATTTATCA
1 AAAAGGGCTTTGCCCCAAGTTATCA
*
99665374 AAAAGGGCTTTGCCCC-AGTTATTA
1 AAAAGGGCTTTGCCCCAAGTTATCA
99665398 AAA
1 AAA
99665401 GAGGCTAGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAAGTTATCA
Found at i:99665406 original size:24 final size:25
Alignment explanation
Indices: 99665349--99665406 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
99665339 TAGTTTACCG
*
99665349 AAAAG-GGCTTTGCCCCAATTTATC
1 AAAAGAGGCTTTGCCCCAAGTTATC
*
99665373 AAAA-AGGGCTTTGCCCC-AGTTATT
1 AAAAGA-GGCTTTGCCCCAAGTTATC
99665397 AAAAGAGGCT
1 AAAAGAGGCT
99665407 AGGCCTCCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 17 0.59
25 12 0.41
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAAGTTATC
Found at i:99665692 original size:31 final size:31
Alignment explanation
Indices: 99665613--99665693 Score: 135
Period size: 31 Copynumber: 2.6 Consensus size: 31
99665603 ATCGTTTACA
* *
99665613 GTAAAGGCTTCGGCCCAATGATATGAATAAT
1 GTAAAGGCTTCGGCCCAGTGACATGAATAAT
*
99665644 GAAAAGGCTTCGGCCCAGTGACATGAATAAT
1 GTAAAGGCTTCGGCCCAGTGACATGAATAAT
99665675 GTAAAGGCTTCGGCCCAGT
1 GTAAAGGCTTCGGCCCAGT
99665694 ATATGCTGAG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (31 bp):
GTAAAGGCTTCGGCCCAGTGACATGAATAAT
Found at i:99666622 original size:17 final size:17
Alignment explanation
Indices: 99666600--99666634 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
99666590 TAAATTTTCC
*
99666600 TTTTCTTTTTCTTTCTT
1 TTTTCTTCTTCTTTCTT
99666617 TTTTCTTCTTCTTTCTT
1 TTTTCTTCTTCTTTCTT
99666634 T
1 T
99666635 CCCTGCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTCTTCTTCTTTCTT
Found at i:99666725 original size:14 final size:15
Alignment explanation
Indices: 99666689--99666725 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
99666679 TTTCTTTTAT
*
99666689 TTATTATAACTATTA
1 TTATTATATCTATTA
99666704 -TATTATATC-ATTA
1 TTATTATATCTATTA
99666717 TTATTATAT
1 TTATTATAT
99666726 TTTTAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATATCTATTA
Found at i:99666740 original size:18 final size:20
Alignment explanation
Indices: 99666713--99666751 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
99666703 ATATTATATC
*
99666713 ATTATTATTA-TATTT-TTA
1 ATTATAATTATTATTTCTTA
99666731 ATTATAATTATTATTTCTTA
1 ATTATAATTATTATTTCTTA
99666751 A
1 A
99666752 ATATTAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 5 0.28
20 4 0.22
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTATAATTATTATTTCTTA
Found at i:99672121 original size:40 final size:40
Alignment explanation
Indices: 99672051--99672268 Score: 257
Period size: 40 Copynumber: 5.5 Consensus size: 40
99672041 AAACCAAGTA
* * *
99672051 CCTTTGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
99672090 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
99672130 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
99672170 CCTTCCGGACTTAGCCCGGA-ATTAGTCAC-CAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTC-GCACAAATG
* * * *
99672210 CCTTCGGGACTTAGCTC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
99672250 TCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
99672269 TTACCATCCG
Statistics
Matches: 159, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
39 16 0.10
40 142 0.89
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:99680168 original size:40 final size:40
Alignment explanation
Indices: 99680098--99680314 Score: 266
Period size: 40 Copynumber: 5.5 Consensus size: 40
99680088 AAACCAAGTA
* * *
99680098 CCTTCAGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
99680137 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
99680177 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
99680217 CCTTC-GGACTTAGCCCTGA-ATTAGTCAC-CAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTC-GCACAAATG
* * *
99680256 CCTTCGGGACTTAGCCCAGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
99680296 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
99680315 TTACCATCCG
Statistics
Matches: 161, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
38 2 0.01
39 45 0.28
40 114 0.71
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:99680253 original size:79 final size:78
Alignment explanation
Indices: 99680098--99680313 Score: 260
Period size: 79 Copynumber: 2.7 Consensus size: 78
99680088 AAACCAAGTA
* * * *
99680098 CCTTCAGGATTTAG-CCGGATATAGCTACTCGCTCAAATGCCTTCGAGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCG-GACTTAGCCCGAATATAG
99680162 TAACTCGCACAAATG
64 TAACTCGCACAAATG
99680177 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCTGAAT-TAG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGACTTAGCCC-GAATATAG
*
99680241 TCAC-CAGCACAAATG
64 TAACTC-GCACAAATG
* * *
99680256 CCTTCGGGACTTAGCCCAGA-ATTAGTCACTAGCACAAATGCCTTTGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATGCC-TTCGGACTTAGCCCG
99680314 GTTACCATCC
Statistics
Matches: 122, Mismatches: 9, Indels: 12
0.85 0.06 0.08
Matches are distributed among these distances:
78 2 0.02
79 76 0.62
80 44 0.36
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGACTTAGCCCGAATATAGTA
ACTCGCACAAATG
Found at i:99686441 original size:3 final size:3
Alignment explanation
Indices: 99686433--99686490 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
99686423 TTGTTTTCAT
99686433 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
99686481 TTA TTA TTA T
1 TTA TTA TTA T
99686491 AACATATGCT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:99690971 original size:40 final size:39
Alignment explanation
Indices: 99690926--99691055 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
99690916 CGGAATATAA
99690926 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
99690966 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
99691006 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
99691046 CCGGATATAA
1 CCGGATATAA
99691056 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:99691070 original size:40 final size:40
Alignment explanation
Indices: 99690942--99691093 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
99690932 ATAACCATGT
* * *
99690942 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
99690982 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
99691022 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
99691062 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
99691094 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:99691076 original size:80 final size:80
Alignment explanation
Indices: 99690942--99691091 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
99690932 ATAACCATGT
*
99690942 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
99691006 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
99691022 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
99691085 CCCGGAT
64 CCCGGAT
99691092 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:99695860 original size:29 final size:29
Alignment explanation
Indices: 99695828--99695884 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
99695818 CTTCGAGCTC
*
99695828 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
99695857 GCACACTTAGTGCCATATATTTCCAGCA
1 GCACACCCAGTGCCATATATTTCCAGCA
99695885 CACACACTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:99695890 original size:29 final size:29
Alignment explanation
Indices: 99695836--99695900 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
99695826 TCGCACACCC
* **
99695836 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCACACACACTT
99695865 AGTGCCATATATTTCCAGCACACACACTT
1 AGTGCCATATATTTCCAGCACACACACTT
99695894 AGTGCCA
1 AGTGCCA
99695901 ATCTCGTCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCACACACACTT
Found at i:99702806 original size:32 final size:32
Alignment explanation
Indices: 99702770--99702833 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
99702760 CCTCAAGATT
99702770 AACTCAAAGGATAAGCCTTTAGTTTCAACTTC
1 AACTCAAAGGATAAGCCTTTAGTTTCAACTTC
99702802 AACTCAAAGGATAAGCCTTTAGTTTCAACTTC
1 AACTCAAAGGATAAGCCTTTAGTTTCAACTTC
99702834 CACACACACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (32 bp):
AACTCAAAGGATAAGCCTTTAGTTTCAACTTC
Found at i:99703008 original size:21 final size:23
Alignment explanation
Indices: 99702982--99703031 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
99702972 TCAAAAATAT
*
99702982 TTTATGTA-TATCTTTTCCTT-A
1 TTTATGTATTATATTTTCCTTGA
*
99703003 TTTATGTATTTTATTTTCCTTGA
1 TTTATGTATTATATTTTCCTTGA
99703026 TTTATG
1 TTTATG
99703032 GGCTAATTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.32
22 10 0.40
23 7 0.28
ACGTcount: A:0.18, C:0.10, G:0.08, T:0.64
Consensus pattern (23 bp):
TTTATGTATTATATTTTCCTTGA
Found at i:99705240 original size:46 final size:44
Alignment explanation
Indices: 99705151--99705367 Score: 204
Period size: 46 Copynumber: 4.7 Consensus size: 44
99705141 GCATATCTAT
* * *
99705151 GCCGATGCCATGTCCTAGACAAGGTCTTACACTGACACATCTCGTA
1 GCCGATG-CATGTCCCAGAC-ATGTCTTACACTGGCACATCTCGTA
* * *
99705197 GCCGATGCATGTCCTAGACATGTCTTACACTGGCTTACGTCTCGAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC--ACATCTCGTA
* *
99705243 GCCGATGCATGTCCCAGACATTTCTTACACTGGCAC-TCGTCTTAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACATC-TCGT-A
* * * *
99705288 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTG
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACATC-T--CGTA
99705337 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
99705368 ACCTCACACA
Statistics
Matches: 146, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
43 2 0.01
44 17 0.12
45 13 0.09
46 63 0.43
47 28 0.19
48 22 0.15
50 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACATCTCGTA
Found at i:99705316 original size:94 final size:94
Alignment explanation
Indices: 99705100--99705367 Score: 289
Period size: 94 Copynumber: 2.9 Consensus size: 94
99705090 TGGGTGCAGG
* ** * *
99705100 TGCCGATGCCATGTCCCAAACATGGTCTTACACAAGCTCTAGCATATCTATGCCGATGCCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTA-CATATCGAAGCCGATG-CATGTC
* *
99705165 CTAGACAAGGTCTTACACTGACACATCTCGTA
64 CCAGAC-ATGTCTTACACTGACACATCTCGTA
* * *
99705197 -GCCGATG-CATGTCCTAGACAT-GTCTTACACTGGCT-TACGTCTCGAAGCCGATGCATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCGAAGCCGATGCATGTCCC
* * *
99705258 AGACATTTCTTACACTGGCAC-TCGTCTTAA
66 AGACATGTCTTACACTGACACATC-TCGT-A
* **
99705288 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATCGAAGCCGATGCATGTCC
99705351 CAGACATGTCTTACACT
65 CAGACATGTCTTACACT
99705368 ACCTCACACA
Statistics
Matches: 144, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
89 2 0.01
90 17 0.12
91 12 0.08
92 18 0.12
93 15 0.10
94 59 0.41
95 14 0.10
96 7 0.05
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATCGAAGCCGATGCATGTCCC
AGACATGTCTTACACTGACACATCTCGTA
Found at i:99708936 original size:30 final size:30
Alignment explanation
Indices: 99708881--99709011 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
99708871 ATAGTGAATC
*
99708881 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
99708910 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
99708940 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
99708968 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
99708998 CGCACACTTAGTGC
1 CGCACACTTAGTGC
99709012 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:99708991 original size:58 final size:58
Alignment explanation
Indices: 99708880--99709011 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
99708870 TATAGTGAAT
* * * * *
99708880 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
99708939 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
99708997 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
99709012 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:99716892 original size:30 final size:30
Alignment explanation
Indices: 99716837--99716967 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
99716827 ATAGTGAATC
*
99716837 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
99716866 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
99716896 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
99716924 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
99716954 CGCACACTTAGTGC
1 CGCACACTTAGTGC
99716968 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:99716947 original size:58 final size:58
Alignment explanation
Indices: 99716836--99716967 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
99716826 TATAGTGAAT
* * * * *
99716836 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
99716895 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
99716953 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
99716968 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:99721988 original size:40 final size:40
Alignment explanation
Indices: 99721944--99722020 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
99721934 ACTATGTTTG
*
99721944 GCACTCAATGTGCGATTTGAAATAGCTTCGGCTATATAAA
1 GCACTCAATGTGCGAATTGAAATAGCTTCGGCTATATAAA
* * *
99721984 GCACTCAGTGTGTGAATTGGAATAGCTTCGGCTATAT
1 GCACTCAATGTGCGAATTGAAATAGCTTCGGCTATAT
99722021 GTGGCATTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (40 bp):
GCACTCAATGTGCGAATTGAAATAGCTTCGGCTATATAAA
Found at i:99730296 original size:49 final size:49
Alignment explanation
Indices: 99730236--99730400 Score: 312
Period size: 49 Copynumber: 3.4 Consensus size: 49
99730226 GTATGAGATA
99730236 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
99730285 TATATATGTGATAAGGCCTAATGGCCGATGTGCTGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
99730334 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
99730383 TATATATGTGATAAGGCC
1 TATATATGTGATAAGGCC
99730401 ATTAATATAT
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 113 1.00
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:99730427 original size:21 final size:22
Alignment explanation
Indices: 99730382--99730427 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
99730372 GTGAAAGTGT
99730382 ATATATATGTGATAAGGCCATTA
1 ATATATATGTGATAAGGCCA-TA
99730405 ATATATATGTGATAAGGCC-TA
1 ATATATATGTGATAAGGCCATA
99730426 AT
1 AT
99730428 GGCCGATGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.17
23 19 0.83
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (22 bp):
ATATATATGTGATAAGGCCATA
Found at i:99730464 original size:47 final size:46
Alignment explanation
Indices: 99730406--99730561 Score: 222
Period size: 47 Copynumber: 3.3 Consensus size: 46
99730396 AGGCCATTAA
99730406 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-GTG
99730453 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTG
* * * * * *
99730500 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT-GAAGTG
*
99730547 TATAAATGTGATAAG
1 TATATATGTGATAAG
99730562 TCCCGAAGGG
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
47 96 0.97
48 3 0.03
ACGTcount: A:0.31, C:0.08, G:0.32, T:0.29
Consensus pattern (46 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGTG
Found at i:99730470 original size:70 final size:72
Alignment explanation
Indices: 99730334--99730470 Score: 251
Period size: 72 Copynumber: 1.9 Consensus size: 72
99730324 TGAAAGTGTG
99730334 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
99730399 CCATTAA
66 CCATTAA
*
99730406 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
99730469 CC
66 CC
99730471 TAATGGCCGA
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
70 20 0.31
71 3 0.05
72 41 0.64
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (72 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
CCATTAA
Found at i:99730497 original size:119 final size:121
Alignment explanation
Indices: 99730285--99730506 Score: 421
Period size: 119 Copynumber: 1.9 Consensus size: 121
99730275 TGAAAGTGTG
*
99730285 TATATATGTGATAAGGCCTAATGGCCGATGTGCTGAATGTGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
99730350 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCATTAA
66 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCATTAA
99730406 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
99730469 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
66 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
99730507 GTGATAGGGC
Statistics
Matches: 100, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
119 57 0.57
120 3 0.03
121 40 0.40
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.32
Consensus pattern (121 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCATTAA
Found at i:99735643 original size:40 final size:40
Alignment explanation
Indices: 99735587--99735754 Score: 209
Period size: 40 Copynumber: 4.2 Consensus size: 40
99735577 CAATTGAATG
*
99735587 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCTAGTG-CTT
*
99735628 -TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAG-TGCTT
* * *
99735667 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAGTGC-TT
* *
99735707 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAGTGCTT
99735747 ATATCCGG
1 ATATCCGG
99735755 TTGTATCCGA
Statistics
Matches: 111, Mismatches: 10, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
39 6 0.05
40 103 0.93
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAGTGCTT
Found at i:99735720 original size:80 final size:79
Alignment explanation
Indices: 99735587--99735754 Score: 239
Period size: 80 Copynumber: 2.1 Consensus size: 79
99735577 CAATTGAATG
* *
99735587 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
99735652 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
99735667 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
99735731 ATTCGTGCTTGTGGTT
64 ATTCGTGCAAGTGGTT
99735747 ATATCCGG
1 ATATCCGG
99735755 TTGTATCCGA
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 2 0.03
80 76 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:99741693 original size:178 final size:178
Alignment explanation
Indices: 99741394--99741747 Score: 600
Period size: 178 Copynumber: 2.0 Consensus size: 178
99741384 TCAGAAAAGA
** *
99741394 TTTGATCAGTTGAAAGCTTTATTAACCGAAGCTCTGGTGTGAGTTTAGCCAGAATTGGGTAAAGA
1 TTTGATCAGTTGAAAGCTTTATTAACCGAAGCTCCAGTGTGAGTTCAGCCAGAATTGGGTAAAGA
* * * *
99741459 ATTTGTGATTTATAGCGATGCATCTTTGAATGGTTTAGGGTGTGTTTTGATGCAGGAAGGCAAAG
66 ATTTGTGATTCATAGCGATGCATCTTTGAATGGTTTAGGCTGTGTTTTGATGCAGGAACGAAAAG
* * *
99741524 TCATAGCTTATGCCTCGAGACAATTAAAGCCGCATGAAAATAACTAGT
131 TCATAACTGATGCCTCGAGACAATTAAAGCCGCATGAAAAGAACTAGT
99741572 TTTGATCAGTTGAAAGCTTTATTAACCGAAGCTCCAGTGTGAGTTCAGCCAGAATTGGGTAAAGA
1 TTTGATCAGTTGAAAGCTTTATTAACCGAAGCTCCAGTGTGAGTTCAGCCAGAATTGGGTAAAGA
*
99741637 ATTTGTGATTCATAGTGATGCATCTTTGAATGGTTTAGGCTGTGTTTTGATGCAGGAACGAAAAG
66 ATTTGTGATTCATAGCGATGCATCTTTGAATGGTTTAGGCTGTGTTTTGATGCAGGAACGAAAAG
*
99741702 TCATAACTGATGCCTTGAGACAATTAAAGCCGCATGAAAAGAACTA
131 TCATAACTGATGCCTCGAGACAATTAAAGCCGCATGAAAAGAACTA
99741748 TTTGACACAT
Statistics
Matches: 164, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
178 164 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (178 bp):
TTTGATCAGTTGAAAGCTTTATTAACCGAAGCTCCAGTGTGAGTTCAGCCAGAATTGGGTAAAGA
ATTTGTGATTCATAGCGATGCATCTTTGAATGGTTTAGGCTGTGTTTTGATGCAGGAACGAAAAG
TCATAACTGATGCCTCGAGACAATTAAAGCCGCATGAAAAGAACTAGT
Found at i:99750377 original size:48 final size:48
Alignment explanation
Indices: 99750312--99750898 Score: 1057
Period size: 48 Copynumber: 12.2 Consensus size: 48
99750302 GCTGAAATTG
*
99750312 ATATATGAGATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
99750360 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
99750408 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
99750456 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
99750504 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
99750552 ATATATGAGATATGTATATGTGGTAAAGCCGGATGGCTAGTGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
99750600 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
99750648 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
99750696 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
99750744 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
99750792 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
99750840 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
99750888 ATGTAGGAGAT
1 ATATATGAGAT
99750899 GTGTGTATAT
Statistics
Matches: 522, Mismatches: 17, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 522 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:99753210 original size:46 final size:46
Alignment explanation
Indices: 99753160--99753332 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
99753150 TGGTTGAGCA
99753160 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
99753206 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
99753251 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
99753299 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
99753333 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:99753316 original size:93 final size:93
Alignment explanation
Indices: 99753157--99753327 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
99753147 GGATGGTTGA
* *
99753157 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
99753222 TGAGTCTGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
99753250 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
99753315 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
99753328 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:99756437 original size:21 final size:20
Alignment explanation
Indices: 99756413--99756457 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
99756403 TCGCTTCTCC
* *
99756413 CACGCTCGTGTTTTATGGTA
1 CACGCCCGTGTATTATGGTA
*
99756433 GCACGCCCGTGTATTATTGTA
1 -CACGCCCGTGTATTATGGTA
99756454 CACG
1 CACG
99756458 GTTGAATGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.33
Consensus pattern (20 bp):
CACGCCCGTGTATTATGGTA
Found at i:99776974 original size:47 final size:45
Alignment explanation
Indices: 99776905--99777114 Score: 167
Period size: 47 Copynumber: 4.5 Consensus size: 45
99776895 ACTGATGCTG
* *
99776905 TGTCCCAGACATGATCTTACACTGGCTTATATCTCAAGTCGAAGCCA
1 TGTCCCAGACATGGTCTTACACTGGC-TATATCTCAAGTCGATG-CA
* * * * *
99776952 TGTCCTAGACATGGTCTTACACTGACTATCATCTTATAG-CTGACGTA
1 TGTCCCAGACATGGTCTTACACTGGCTAT-ATCTCA-AGTC-GATGCA
* * * *
99776999 TGTCCCAGACAT-GTCTTACACTCGCTTATGTCTCGAGGCCGATGCA
1 TGTCCCAGACATGGTCTTACACTGGC-TATATCTC-AAGTCGATGCA
* *
99777045 TGTCCCAGACAT-GTCTTACACTAGC-ACTAGTCTCAATGTTGATGCCA
1 TGTCCCAGACATGGTCTTACACTGGCTA-TA-TCTCAA-GTCGATG-CA
*
99777092 TGTCCTAGACATGGTCTTACACT
1 TGTCCCAGACATGGTCTTACACT
99777115 AGCTCTCATA
Statistics
Matches: 132, Mismatches: 20, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 55 0.42
47 59 0.45
48 15 0.11
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (45 bp):
TGTCCCAGACATGGTCTTACACTGGCTATATCTCAAGTCGATGCA
Found at i:99777078 original size:46 final size:47
Alignment explanation
Indices: 99776905--99777117 Score: 159
Period size: 46 Copynumber: 4.5 Consensus size: 47
99776895 ACTGATGCTG
* * * * *
99776905 TGTCCCAGACATGATCTTACACTGGCTTATATCTCAA-GTCGAAGCCA
1 TGTCCCAGACATG-TCTTACACTAGCCTATGTCTCAAGGCCGATGCCA
* * * * * * *
99776952 TGTCCTAGACATGGTCTTACACT-GACTATCATCTTATA-GCTGACG-TA
1 TGTCCCAGACAT-GTCTTACACTAGCCTAT-GTCTCA-AGGCCGATGCCA
* * *
99776999 TGTCCCAGACATGTCTTACACTCGCTTATGTCTCGAGGCCGATG-CA
1 TGTCCCAGACATGTCTTACACTAGCCTATGTCTCAAGGCCGATGCCA
* **
99777045 TGTCCCAGACATGTCTTACACTAGCACTA-GTCTCAATGTTGATGCCA
1 TGTCCCAGACATGTCTTACACTAGC-CTATGTCTCAAGGCCGATGCCA
*
99777092 TGTCCTAGACATGGTCTTACACTAGC
1 TGTCCCAGACAT-GTCTTACACTAGC
99777118 TCTCATAATT
Statistics
Matches: 134, Mismatches: 24, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
45 1 0.01
46 58 0.43
47 56 0.42
48 19 0.14
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (47 bp):
TGTCCCAGACATGTCTTACACTAGCCTATGTCTCAAGGCCGATGCCA
Found at i:99784217 original size:47 final size:46
Alignment explanation
Indices: 99784136--99784249 Score: 108
Period size: 47 Copynumber: 2.4 Consensus size: 46
99784126 GCTGATGCCT
** **
99784136 TGTCCCAGACACA-GTCTTACACTGGCTTATATCTCA-AGTTGAAGCCA
1 TGTCCCA-A-ACATGTCTTACACTAACTTATATCTCATAGCCGAAG-CA
*
99784183 TGTCCCAAACATGGTCTTACACTAAC-TATCATCTCATAGCCGACGCA
1 TGTCCCAAACAT-GTCTTACACTAACTTAT-ATCTCATAGCCGAAGCA
*
99784230 TGTCCCATACATGTCTTACA
1 TGTCCCAAACATGTCTTACA
99784250 TTAGCTCTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
45 3 0.05
46 12 0.21
47 37 0.65
48 5 0.09
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (46 bp):
TGTCCCAAACATGTCTTACACTAACTTATATCTCATAGCCGAAGCA
Found at i:99784785 original size:29 final size:29
Alignment explanation
Indices: 99784738--99784794 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
99784728 CACTATTTCA
**
99784738 CACATTTATTATCTATTTTACAACTTATG
1 CACATTTATTAGATATTTTACAACTTATG
*
99784767 CACATTTATTAGATGTTTTACAACTTAT
1 CACATTTATTAGATATTTTACAACTTAT
99784795 CTTCTTCCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (29 bp):
CACATTTATTAGATATTTTACAACTTATG
Found at i:99785462 original size:24 final size:24
Alignment explanation
Indices: 99785435--99785488 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
99785425 ATTCATTGTC
*
99785435 CTCAAAATGAATAGAGACTTCCTG
1 CTCAAAACGAATAGAGACTTCCTG
*
99785459 CTCAAAGCGAATAGAGACTTCCTG
1 CTCAAAACGAATAGAGACTTCCTG
99785483 CTCAAA
1 CTCAAA
99785489 GCATCGACGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (24 bp):
CTCAAAACGAATAGAGACTTCCTG
Found at i:99785489 original size:24 final size:24
Alignment explanation
Indices: 99785443--99785490 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
99785433 TCCTCAAAAT
99785443 GAATAGAGACTTCCTGCTCAAAGC
1 GAATAGAGACTTCCTGCTCAAAGC
99785467 GAATAGAGACTTCCTGCTCAAAGC
1 GAATAGAGACTTCCTGCTCAAAGC
99785491 ATCGACGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (24 bp):
GAATAGAGACTTCCTGCTCAAAGC
Found at i:99788154 original size:29 final size:29
Alignment explanation
Indices: 99788122--99788189 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
99788112 CACGCACACT
* *
99788122 TAGTGCCATGTGATTTAAGCTCGCACAAA
1 TAGTGCCATATAATTTAAGCTCGCACAAA
* * **
99788151 TAGTGTCATATAATTTAAGTTCGCACACT
1 TAGTGCCATATAATTTAAGCTCGCACAAA
99788180 TAGTGCCATA
1 TAGTGCCATA
99788190 CTTTTCAAGC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (29 bp):
TAGTGCCATATAATTTAAGCTCGCACAAA
Found at i:99789503 original size:14 final size:14
Alignment explanation
Indices: 99789484--99789510 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
99789474 AGCATTCTTT
99789484 TTTTTCTTCTTTTC
1 TTTTTCTTCTTTTC
99789498 TTTTTCTTCTTTT
1 TTTTTCTTCTTTT
99789511 ACTAACATTA
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:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTCTTCTTTTC
Found at i:99795147 original size:34 final size:34
Alignment explanation
Indices: 99795101--99795169 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
99795091 ATGTTACACG
99795101 GCCATGTCTCCCCTGGGGTACCCTATGATTTTAA
1 GCCATGTCTCCCCTGGGGTACCCTATGATTTTAA
*
99795135 GCCATGTTTCCCCTGGGGTACCCTATGATTTTAA
1 GCCATGTCTCCCCTGGGGTACCCTATGATTTTAA
99795169 G
1 G
99795170 TCAGTATACC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.17, C:0.28, G:0.22, T:0.33
Consensus pattern (34 bp):
GCCATGTCTCCCCTGGGGTACCCTATGATTTTAA
Found at i:99805055 original size:22 final size:19
Alignment explanation
Indices: 99805027--99805068 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
99805017 TGATAATAAT
99805027 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
99805049 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
99805068 T
1 T
99805069 CAACTTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:99807528 original size:35 final size:35
Alignment explanation
Indices: 99807482--99807552 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
99807472 AATCATTTGG
99807482 TTAATAAAGACAAAAATTACTAAAATAAAATATGT
1 TTAATAAAGACAAAAATTACTAAAATAAAATATGT
99807517 TTAATAAAGACAAAAATTACTAAAATAAAATATGT
1 TTAATAAAGACAAAAATTACTAAAATAAAATATGT
99807552 T
1 T
99807553 CATCTTCATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.30
Consensus pattern (35 bp):
TTAATAAAGACAAAAATTACTAAAATAAAATATGT
Found at i:99813156 original size:38 final size:38
Alignment explanation
Indices: 99813113--99813310 Score: 238
Period size: 38 Copynumber: 5.2 Consensus size: 38
99813103 ATGATATTTG
* ** *
99813113 TATCCGGCTTAAAGACCGCAGGCTAT-ATGCTGG-AATTA
1 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGTAA-TA
* *
99813151 TATCCGGGGTAAATCCCGCAGGCTTCGTGATGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
99813189 TATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* *
99813227 TATCCGGGTTAATTCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * *
99813265 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGCTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
99813303 TATTCGGG
1 TATCCGGG
99813311 CCTTTGAGCC
Statistics
Matches: 141, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
37 1 0.01
38 138 0.98
39 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:99813352 original size:44 final size:45
Alignment explanation
Indices: 99813303--99813431 Score: 190
Period size: 45 Copynumber: 2.9 Consensus size: 45
99813293 GCTGCTATTA
*
99813303 TATTCGGGCCTTTGAGCCTAGCAGGCTGT-ATGCCGATGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGACAC
* * *
99813347 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGACAC
*
99813392 TATTCAGG-CTTTCGAGCCTAGCAGGCTATAATGCCGATGA
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGATGA
99813432 AATGATAATC
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
44 31 0.41
45 45 0.59
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGACAC
Found at i:99813456 original size:89 final size:88
Alignment explanation
Indices: 99813303--99813474 Score: 206
Period size: 89 Copynumber: 1.9 Consensus size: 88
99813293 GCTGCTATTA
* * * * * *
99813303 TATTCGGGCCTTTGAGCCTAGCAGGCTGTATGCCGATGAGACACTATTCGGGCCTTTGGGCCTAG
1 TATTCAGGCCTTTGAGCCTAGCAGGCTATATGCCGATGAAACACTAATCAGGCCTTCGGGCCTAG
*
99813368 CAGGCTATAATGCCGGTGAGATAC
66 CAGGCGA-AATGCCGGTGAGATAC
* *
99813392 TATTCAGG-CTTTCGAGCCTAGCAGGCTATAATGCCGATGAAATGA-TAATCAGGCC-TCGGTCC
1 TATTCAGGCCTTT-GAGCCTAGCAGGCTAT-ATGCCGATGAAA-CACTAATCAGGCCTTCGGGCC
99813454 TAGCAGGCGAAATGCCGGTGA
63 TAGCAGGCGAAATGCCGGTGA
99813475 TTTGAGAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
88 15 0.21
89 36 0.51
90 19 0.27
91 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.24
Consensus pattern (88 bp):
TATTCAGGCCTTTGAGCCTAGCAGGCTATATGCCGATGAAACACTAATCAGGCCTTCGGGCCTAG
CAGGCGAAATGCCGGTGAGATAC
Found at i:99819284 original size:20 final size:20
Alignment explanation
Indices: 99819259--99819300 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
99819249 TCATATTCCC
99819259 CTGTTTAAGCTCTAAAAATT
1 CTGTTTAAGCTCTAAAAATT
*
99819279 CTGTTTGAGCTCTAAAAATT
1 CTGTTTAAGCTCTAAAAATT
99819299 CT
1 CT
99819301 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (20 bp):
CTGTTTAAGCTCTAAAAATT
Found at i:99822478 original size:40 final size:39
Alignment explanation
Indices: 99822367--99822480 Score: 174
Period size: 39 Copynumber: 2.9 Consensus size: 39
99822357 GAATGTTCGA
* *
99822367 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
99822406 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* **
99822445 GTGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
99822481 GGTTACCATA
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 53 0.77
40 16 0.23
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:99829931 original size:43 final size:42
Alignment explanation
Indices: 99829810--99829932 Score: 115
Period size: 43 Copynumber: 2.9 Consensus size: 42
99829800 ACAAGATGTA
* * *
99829810 TCATACCAATGCCATGTCCCAGACATGGTCTTACATGGAAATC
1 TCATACCGATGCCATGTCCCAGACATGGTCTTACA-CGAAACC
* * **
99829853 TCATATCGATGTCAATAGT-CCAG-CTATGGTCTTACACGATGCC
1 TCATACCGATG-CCAT-GTCCCAGAC-ATGGTCTTACACGAAACC
*
99829896 TCATGCCGATGCCATGTCCCAGACATGGTCTTTACAC
1 TCATACCGATGCCATGTCCCAGACATGGTC-TTACAC
99829933 TGGCTCACAT
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
41 2 0.03
42 13 0.20
43 29 0.45
44 18 0.28
45 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (42 bp):
TCATACCGATGCCATGTCCCAGACATGGTCTTACACGAAACC
Found at i:99830004 original size:58 final size:58
Alignment explanation
Indices: 99829935--99830085 Score: 180
Period size: 58 Copynumber: 2.8 Consensus size: 58
99829925 CTTTACACTG
*
99829935 GCTCACATAACAATGCCGATGTCATGTCCCAGACATAGTCTTACACTAGCTCACGTAA
1 GCTCACATAACAATGCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCACGTAA
* *
99829993 GCTCACGTAACAATGCCGATGCCATGTCCCAGACATGGTCTT--A-TA-CT---G---
1 GCTCACATAACAATGCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCACGTAA
* *
99830041 GCTCACATAACAATGCCGATACCATGT-CCAGACATGGTCTTACAC
1 GCTCACATAACAATGCCGATGCCATGTCCCAGACATAGTCTTACAC
99830086 CGATGTCATG
Statistics
Matches: 85, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
47 14 0.16
48 25 0.29
49 1 0.01
51 1 0.01
54 2 0.02
55 2 0.02
56 1 0.01
58 39 0.46
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (58 bp):
GCTCACATAACAATGCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCACGTAA
Found at i:99830089 original size:29 final size:30
Alignment explanation
Indices: 99830056--99830117 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
99830046 CATAACAATG
*
99830056 CCGATACCATGT-CCAGACATGGTCTTACA
1 CCGATACCATGTCCCAGACATAGTCTTACA
**
99830085 CCGATGTCATGTCCCAGACATAGTCTTACA
1 CCGATACCATGTCCCAGACATAGTCTTACA
99830115 CCG
1 CCG
99830118 GCTCACGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (30 bp):
CCGATACCATGTCCCAGACATAGTCTTACA
Found at i:99830102 original size:77 final size:78
Alignment explanation
Indices: 99830008--99830163 Score: 233
Period size: 77 Copynumber: 2.0 Consensus size: 78
99829998 CGTAACAATG
* * * *
99830008 CCGATGCCATGTCCCAGACATGGTCTTATACTGGCTCACATAACAATGCCGATACCATGT-CCAG
1 CCGATGCCATGTCCCAGACATAGTCTTACACCGGCTCACATAACAATGCCGATACCATGTCCCAA
*
99830072 ACATGGTCTTACA
66 ACATGGTATTACA
* * *
99830085 CCGATGTCATGTCCCAGACATAGTCTTACACCGGCTCACGTAACAATGCCGATGCCATGTCCCAA
1 CCGATGCCATGTCCCAGACATAGTCTTACACCGGCTCACATAACAATGCCGATACCATGTCCCAA
99830150 ACATGGTATTACA
66 ACATGGTATTACA
99830163 C
1 C
99830164 GGTTACACAT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
77 54 0.77
78 16 0.23
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.24
Consensus pattern (78 bp):
CCGATGCCATGTCCCAGACATAGTCTTACACCGGCTCACATAACAATGCCGATACCATGTCCCAA
ACATGGTATTACA
Found at i:99832081 original size:23 final size:23
Alignment explanation
Indices: 99832054--99832097 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
99832044 AAGAATATTT
*
99832054 TATA-TATATTTTCTTTATTTATG
1 TATATTAT-TTTTCTTGATTTATG
99832077 TATATTATTTTTCTTGATTTA
1 TATATTATTTTTCTTGATTTA
99832098 CGAGCTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.66
Consensus pattern (23 bp):
TATATTATTTTTCTTGATTTATG
Found at i:99833276 original size:20 final size:20
Alignment explanation
Indices: 99833253--99833298 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
99833243 AAGTAAATTA
99833253 AAAAATGTAAAAATGTGAGT
1 AAAAATGTAAAAATGTGAGT
99833273 -AAAATGTAAAAATGTGAGT
1 AAAAATGTAAAAATGTGAGT
99833292 AAAAATG
1 AAAAATG
99833299 GACTTATCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.24
Consensus pattern (20 bp):
AAAAATGTAAAAATGTGAGT
Found at i:99833958 original size:19 final size:19
Alignment explanation
Indices: 99833930--99833993 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 19
99833920 TTATTAACTT
*
99833930 TTTATATATTTTTAAATTA
1 TTTATTTATTTTTAAATTA
*
99833949 TTTATTTA-TTTGAATATT-
1 TTTATTTATTTTTAA-ATTA
* *
99833967 TTTA-TAAATTTTAAATTA
1 TTTATTTATTTTTAAATTA
*
99833985 TTTTTTTAT
1 TTTATTTAT
99833994 GACACATATA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
17 5 0.15
18 17 0.50
19 12 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTATTTATTTTTAAATTA
Found at i:99836810 original size:150 final size:150
Alignment explanation
Indices: 99836539--99836839 Score: 557
Period size: 150 Copynumber: 2.0 Consensus size: 150
99836529 ACAGTACCAA
99836539 TACCAATTACCTTGCTAGATGAATAATTTCCCATGCGCACAACTTCACCTTCAACTGAACTGTAT
1 TACCAATTACCTTGCTAGATGAATAATTTCCCATGCGCACAACTTCACCTTCAACTGAACTGTAT
99836604 GTGAAGAACTATTCTCTATTGGGACACATGTGAAAAGAACATCCCGAATCTAGGATCCACTCGAA
66 GTGAAGAACTATTCTCTATTGGGACACATGTGAAAAGAACATCCCGAATCTAGGATCCACTCGAA
*
99836669 TGTGAGCTTAGAGTTATCGC
131 CGTGAGCTTAGAGTTATCGC
*
99836689 TACCAATTACCTTGCTAGATGAATAATTTCCCATGCGCACAACTTCACTTTCAACTGAACTGTAT
1 TACCAATTACCTTGCTAGATGAATAATTTCCCATGCGCACAACTTCACCTTCAACTGAACTGTAT
* *
99836754 GTGAAGAACTATTCTCTATTGGGACACATGTGGAAAGAACATCCCGAATCTAGGATCCACTCGGA
66 GTGAAGAACTATTCTCTATTGGGACACATGTGAAAAGAACATCCCGAATCTAGGATCCACTCGAA
*
99836819 CGTGAGCTTGGAGTTATCGC
131 CGTGAGCTTAGAGTTATCGC
99836839 T
1 T
99836840 CGTTAACACT
Statistics
Matches: 146, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
150 146 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (150 bp):
TACCAATTACCTTGCTAGATGAATAATTTCCCATGCGCACAACTTCACCTTCAACTGAACTGTAT
GTGAAGAACTATTCTCTATTGGGACACATGTGAAAAGAACATCCCGAATCTAGGATCCACTCGAA
CGTGAGCTTAGAGTTATCGC
Found at i:99838824 original size:41 final size:40
Alignment explanation
Indices: 99838779--99838864 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 40
99838769 AAAGATAAAA
99838779 ATATGTTTATATAAA-TCTA-TATACAATATATATTTGCATGT
1 ATATGTTTAT-TAAACT-TAGTATACAA-ATATATTTGCATGT
* *
99838820 ATATGTTTATTGAACTTAGTTATTCAAATATATTTGCATGT
1 ATATGTTTATTAAACTTAG-TATACAAATATATTTGCATGT
99838861 ATAT
1 ATAT
99838865 ACAATATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
40 5 0.12
41 29 0.73
42 6 0.15
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (40 bp):
ATATGTTTATTAAACTTAGTATACAAATATATTTGCATGT
Found at i:99843848 original size:25 final size:25
Alignment explanation
Indices: 99843816--99843866 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
99843806 AGGGACTTGG
99843816 ATGTTTTTGTTTCATCGGATTCATT
1 ATGTTTTTGTTTCATCGGATTCATT
99843841 ATGTTTTTGTTTCATCGGATTCATT
1 ATGTTTTTGTTTCATCGGATTCATT
99843866 A
1 A
99843867 AGTTCTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.18, C:0.12, G:0.16, T:0.55
Consensus pattern (25 bp):
ATGTTTTTGTTTCATCGGATTCATT
Found at i:99852346 original size:17 final size:18
Alignment explanation
Indices: 99852313--99852346 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
99852303 AAACTAATTT
99852313 TCTCTTATTTATTTTCTA
1 TCTCTTATTTATTTTCTA
*
99852331 TCTCTTCTTT-TTTTCT
1 TCTCTTATTTATTTTCT
99852347 TTGAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.71
Consensus pattern (18 bp):
TCTCTTATTTATTTTCTA
Found at i:99857707 original size:48 final size:46
Alignment explanation
Indices: 99857607--99857724 Score: 152
Period size: 48 Copynumber: 2.6 Consensus size: 46
99857597 AACAAGAGCT
* *
99857607 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTACGGGATGTGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCTACGAGAGGTGTC
*
99857651 AGTGTAAGACCATGTCTCGGACATGGCATCGGC-ACGTATAGAGGTGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCTACG---AGAGGTGTC
*
99857699 AGTGTAAGACCATGTCTGGGACATGG
1 AGTGTAAGACCATGTCTAGGACATGG
99857725 TATTGGCATG
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
44 9 0.14
45 16 0.25
46 8 0.12
48 32 0.49
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCTACGAGAGGTGTC
Found at i:99859032 original size:21 final size:21
Alignment explanation
Indices: 99859008--99859060 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
99858998 TCATAAAAAC
99859008 CACACGGGCGTTTTACCCTTT
1 CACACGGGCGTTTTACCCTTT
99859029 CACACGGGCGTTTTACCCTTT
1 CACACGGGCGTTTTACCCTTT
99859050 CACACGGGCGT
1 CACACGGGCGT
99859061 GTGCCCTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.15, C:0.34, G:0.23, T:0.28
Consensus pattern (21 bp):
CACACGGGCGTTTTACCCTTT
Found at i:99863034 original size:40 final size:40
Alignment explanation
Indices: 99862979--99863061 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
99862969 TACACTGGTT
99862979 CACATATCAAAGTCGATGCCATGTCCCAGACATTATCTTA
1 CACATATCAAAGTCGATGCCATGTCCCAGACATTATCTTA
99863019 CACATATCAAAGTCGATGCCATGTCCCAGACATTATCTTA
1 CACATATCAAAGTCGATGCCATGTCCCAGACATTATCTTA
99863059 CAC
1 CAC
99863062 TGACTCTCGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.27
Consensus pattern (40 bp):
CACATATCAAAGTCGATGCCATGTCCCAGACATTATCTTA
Found at i:99863200 original size:95 final size:96
Alignment explanation
Indices: 99863072--99863252 Score: 276
Period size: 95 Copynumber: 1.9 Consensus size: 96
99863062 TGACTCTCGT
* * * *
99863072 ATATCGAGGCTGATGCCATGTCCCATACATGGTCTTACACTAGCTCTCATCTAT-GGGTGCCGAT
1 ATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGAG-GCCGAT
99863136 GCCATGTCCCAAACATGGTCTTACATTGACAC
65 GCCATGTCCCAAACATGGTCTTACATTGACAC
* *
99863168 ATATC-AGGCCGATGCCATGTCCCAAACATGGTCTTACATTAGCTCTCATATCTCGAGGCCGATG
1 ATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGAGGCCGATG
*
99863232 CCATGTCCCAGACATGGTCTT
66 CCATGTCCCAAACATGGTCTT
99863253 GCACTAGCTC
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
95 70 0.91
96 7 0.09
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (96 bp):
ATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGAGGCCGATG
CCATGTCCCAAACATGGTCTTACATTGACAC
Found at i:99863271 original size:50 final size:50
Alignment explanation
Indices: 99863032--99863268 Score: 272
Period size: 50 Copynumber: 4.8 Consensus size: 50
99863022 ATATCAAAGT
* ** *
99863032 CGATGCCATGTCCCAGACATTATCTTACACT-GACTCTCGTATATCGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAG-CTCTCATATATCGAGGC
* * * *
99863082 TGATGCCATGTCCCATACATGGTCTTACACTAGCTCTCATCTAT-GGGTGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGAG-GC
** *
99863132 CGATGCCATGTCCCAAACATGGTCTTACA-T---TGACACATATC-AGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGAGGC
* *
99863177 CGATGCCATGTCCCAAACATGGTCTTACATTAGCTCTCATATCTCGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGAGGC
* *
99863227 CGATGCCATGTCCCAGACATGGTCTTGCACTAGCTCTCATAT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAT
99863269 CTCCCTAGCA
Statistics
Matches: 158, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
45 31 0.20
46 8 0.05
49 10 0.06
50 108 0.68
51 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (50 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGAGGC
Found at i:99865317 original size:37 final size:38
Alignment explanation
Indices: 99865249--99865323 Score: 125
Period size: 37 Copynumber: 2.0 Consensus size: 38
99865239 CAACAAGGGA
*
99865249 AGTCTTACAAATTATCATTTTTTGGATTCCACTACCAT
1 AGTCATACAAATTATCATTTTTTGGATTCCACTACCAT
*
99865287 AGTCATACAAATTGTCA-TTTTTGGATTCCACTACCAT
1 AGTCATACAAATTATCATTTTTTGGATTCCACTACCAT
99865324 GTATCATCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 20 0.57
38 15 0.43
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.40
Consensus pattern (38 bp):
AGTCATACAAATTATCATTTTTTGGATTCCACTACCAT
Found at i:99868777 original size:18 final size:18
Alignment explanation
Indices: 99868754--99868788 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
99868744 TACCTCAGGG
99868754 TTCTTT-TTTTTCTTCTTC
1 TTCTTTCTTTTT-TTCTTC
99868772 TTCTTTCTTTTTTTCTT
1 TTCTTTCTTTTTTTCTT
99868789 TTTTGATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
TTCTTTCTTTTTTTCTTC
Found at i:99869538 original size:2 final size:2
Alignment explanation
Indices: 99869531--99869559 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
99869521 CTTGAAATTA
99869531 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
99869560 AGTGTGTGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:99870336 original size:27 final size:27
Alignment explanation
Indices: 99870306--99870365 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
99870296 ATAATTATTA
* * * *
99870306 TTTATTTTTTGAATTTCGAGTTTATAT
1 TTTATATTTTAAATTTAGAGTTTAGAT
* *
99870333 TTTAGATTTTAAATTTAGGGTTTAGAT
1 TTTATATTTTAAATTTAGAGTTTAGAT
99870360 TTTATA
1 TTTATA
99870366 ATACATTTGG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (27 bp):
TTTATATTTTAAATTTAGAGTTTAGAT
Found at i:99871282 original size:2 final size:2
Alignment explanation
Indices: 99871275--99871309 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
99871265 TAGGGTGCAC
99871275 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
99871310 ACAACAACTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:99872354 original size:5 final size:5
Alignment explanation
Indices: 99872344--99872382 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
99872334 GTTGATAGAG
*
99872344 AAAAT AAAAT AAACA- AAAAT ATAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAA-AT AAAAT AAAAT AAAAT AAAAT AAAA
99872383 ACAGATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 1 0.03
5 28 0.93
6 1 0.03
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:99873601 original size:2 final size:2
Alignment explanation
Indices: 99873596--99873631 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
99873586 TAATTTAAAG
99873596 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99873632 TTAAAATAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:99883636 original size:5 final size:5
Alignment explanation
Indices: 99883620--99883651 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
99883610 AGAGTTTTTT
99883620 GGCCC GGGCCC GGCCC GGCCC GGCCC GGCCC G
1 GGCCC -GGCCC GGCCC GGCCC GGCCC GGCCC G
99883652 AATTATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.00, C:0.56, G:0.44, T:0.00
Consensus pattern (5 bp):
GGCCC
Found at i:99883788 original size:22 final size:22
Alignment explanation
Indices: 99883749--99883807 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
99883739 GTTTTAAGAA
*
99883749 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
99883770 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
99883792 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
99883808 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:99883824 original size:26 final size:24
Alignment explanation
Indices: 99883778--99883837 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
99883768 ATTTGTTTTA
*
99883778 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
99883802 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
99883828 TTTTTTATTT
1 ATATTTATTT
99883838 AATAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:99884381 original size:3 final size:3
Alignment explanation
Indices: 99884373--99884416 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
99884363 CTTCAATAAC
99884373 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
99884417 GCCTTTCATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:99889286 original size:49 final size:49
Alignment explanation
Indices: 99889214--99889312 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
99889204 AATGAATGGC
99889214 ATTTCCAAGCAGGTCATATATTGAATGTGTGCATTGATCTCTACGACTT
1 ATTTCCAAGCAGGTCATATATTGAATGTGTGCATTGATCTCTACGACTT
99889263 ATTTCCAAGCAGGTCATATATTGAATGTGTGCATTGATCTCTACGACTT
1 ATTTCCAAGCAGGTCATATATTGAATGTGTGCATTGATCTCTACGACTT
99889312 A
1 A
99889313 CACATGCATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (49 bp):
ATTTCCAAGCAGGTCATATATTGAATGTGTGCATTGATCTCTACGACTT
Found at i:99894271 original size:13 final size:13
Alignment explanation
Indices: 99894250--99894283 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
99894240 ATGACAAATC
*
99894250 CTGGTATGTTACA
1 CTGGCATGTTACA
99894263 CTGGCATGTTACA
1 CTGGCATGTTACA
99894276 CTGGCATG
1 CTGGCATG
99894284 CAATTAAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (13 bp):
CTGGCATGTTACA
Found at i:99895377 original size:21 final size:21
Alignment explanation
Indices: 99895329--99895377 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
99895319 ATAAATTTTT
*
99895329 TATAATATATAACTTTATAAA
1 TATAATATATAACTTTACAAA
*
99895350 AATTAATATA-AACTTTACAATA
1 TA-TAATATATAACTTTACAA-A
99895372 TATAAT
1 TATAAT
99895378 CTTTATAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (21 bp):
TATAATATATAACTTTACAAA
Found at i:99899532 original size:27 final size:28
Alignment explanation
Indices: 99899502--99899583 Score: 73
Period size: 27 Copynumber: 3.0 Consensus size: 28
99899492 ACCTGTGAGC
*
99899502 AAAGAGAGAGGAGAGAGAAAAGAGGAA-
1 AAAGAGAGAGGAGAGAGAAAAGAGAAAG
* * * *
99899529 AAAGA-ACTATGACAGAG-AAAGTGAAAG
1 AAAGAGA-GAGGAGAGAGAAAAGAGAAAG
99899556 AAAGAGAGAGGAGAGAGAGAAA-AGAAAG
1 AAAGAGAGAGGAGAGAGA-AAAGAGAAAG
99899584 CCTAAAAAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 9
0.69 0.15 0.15
Matches are distributed among these distances:
26 8 0.20
27 24 0.59
28 6 0.15
29 3 0.07
ACGTcount: A:0.59, C:0.02, G:0.35, T:0.04
Consensus pattern (28 bp):
AAAGAGAGAGGAGAGAGAAAAGAGAAAG
Found at i:99899718 original size:15 final size:15
Alignment explanation
Indices: 99899698--99899730 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
99899688 TTATTAATAA
99899698 ATTTATATTTTAATT
1 ATTTATATTTTAATT
*
99899713 ATTTATTTTTTAATT
1 ATTTATATTTTAATT
99899728 ATT
1 ATT
99899731 ATAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTATATTTTAATT
Found at i:99899759 original size:20 final size:21
Alignment explanation
Indices: 99899724--99899762 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
99899714 TTTATTTTTT
99899724 AATTATTATAAATTATTAAAA
1 AATTATTATAAATTATTAAAA
*
99899745 AATTATT-TCAATTATTAA
1 AATTATTATAAATTATTAA
99899763 GCTATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (21 bp):
AATTATTATAAATTATTAAAA
Found at i:99900371 original size:70 final size:67
Alignment explanation
Indices: 99900248--99900380 Score: 169
Period size: 70 Copynumber: 1.9 Consensus size: 67
99900238 ATAAACAATA
* ** *
99900248 TAATGGTTTTGCCTTTTAACTTAATTAGTAAATATTTATCAAAAGAACATAGTTTTACCTTTTAA
1 TAATGGTTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAAGAACATAGTTTTACCTTTTAA
99900313 CT
66 CT
* *
99900315 TAATGGTTTTGACTTTTAACTTTAGAAAACGTAAACATTTATCAAAATG-ACGTAGTTTTGCCTT
1 TAATGGTTTTGACTTTTAAC-TTA-AAAA-GTAAACATTTATCAAAA-GAACATAGTTTTACCTT
99900379 TT
62 TT
99900381 CTTATTCGGA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
67 19 0.34
68 3 0.05
69 2 0.04
70 31 0.55
71 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (67 bp):
TAATGGTTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAAGAACATAGTTTTACCTTTTAA
CT
Found at i:99900686 original size:13 final size:13
Alignment explanation
Indices: 99900668--99900731 Score: 74
Period size: 13 Copynumber: 4.9 Consensus size: 13
99900658 AATTTGGCAA
*
99900668 TGCTTTGGAAAAG
1 TGCTTTTGAAAAG
99900681 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
99900694 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
99900707 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
*
99900720 TACTTTTGAAAA
1 TGCTTTTGAAAA
99900732 ATTTAAGTGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:99900697 original size:26 final size:26
Alignment explanation
Indices: 99900668--99900731 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
99900658 AATTTGGCAA
*
99900668 TGCTTTGGAAAAGTGCTTTTGAAAAG
1 TGCTTTGGAAAAGTACTTTTGAAAAG
* *
99900694 TGCTGTGGAAAAGTACTTTTGAGAAG
1 TGCTTTGGAAAAGTACTTTTGAAAAG
* *
99900720 TACTTTTGAAAA
1 TGCTTTGGAAAA
99900732 ATTTAAGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.34
Consensus pattern (26 bp):
TGCTTTGGAAAAGTACTTTTGAAAAG
Found at i:99900910 original size:8 final size:9
Alignment explanation
Indices: 99900892--99900939 Score: 50
Period size: 8 Copynumber: 5.6 Consensus size: 9
99900882 TATTATAACT
99900892 TATTATTAA
1 TATTATTAA
99900901 TATT-TTAATA
1 TATTATT-A-A
99900911 TATTATTAA
1 TATTATTAA
99900920 TATT-TTAA
1 TATTATTAA
99900928 TA-TA-TAA
1 TATTATTAA
99900935 TATTA
1 TATTA
99900940 ATTTTAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
7 6 0.18
8 10 0.29
9 10 0.29
10 6 0.18
11 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TATTATTAA
Found at i:99900938 original size:21 final size:19
Alignment explanation
Indices: 99900892--99900950 Score: 84
Period size: 19 Copynumber: 3.1 Consensus size: 19
99900882 TATTATAACT
99900892 TATTATTAATATTTTAATA
1 TATTATTAATATTTTAATA
99900911 TATTATTAATATTTTAATA
1 TATTATTAATATTTTAATA
*
99900930 TATAATATTAAT-TTTAAATA
1 TAT--TATTAATATTTTAATA
99900950 T
1 T
99900951 TTCTAAGTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
19 22 0.59
20 8 0.22
21 7 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATTATTAATATTTTAATA
Found at i:99902844 original size:26 final size:24
Alignment explanation
Indices: 99902815--99902975 Score: 63
Period size: 26 Copynumber: 6.7 Consensus size: 24
99902805 AAATAAGTAG
99902815 AACATAAATTCAATATCTAAATACCA
1 AACATAAATTCAATATCTAAATA--A
99902841 AACATAAA--CAACTAT-T-AATAA
1 AACATAAATTCAA-TATCTAAATAA
** * *
99902862 AAC-TAAATTACACATAAATAAGTAG
1 AACATAAATT-CA-ATATCTAAATAA
* *
99902887 AACATAAATTCAATATCCAAAAACCA
1 AACATAAATTCAATATCTAAATA--A
99902913 AACATAAA--CAACTAT-T-AATAA
1 AACATAAATTCAA-TATCTAAATAA
* ** * *
99902934 AAC-TAGATTACACATAAATAAGTAG
1 AACATAAATT-CA-ATATCTAAATAA
99902959 AACATAAATTCAATATC
1 AACATAAATTCAATATC
99902976 CAAAAACCAA
Statistics
Matches: 99, Mismatches: 18, Indels: 38
0.64 0.12 0.25
Matches are distributed among these distances:
20 7 0.07
21 8 0.08
23 15 0.15
24 20 0.20
25 22 0.22
26 27 0.27
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (24 bp):
AACATAAATTCAATATCTAAATAA
Found at i:99902848 original size:41 final size:41
Alignment explanation
Indices: 99902803--99902920 Score: 96
Period size: 41 Copynumber: 3.1 Consensus size: 41
99902793 CTAATTTAGT
99902803 ATAAATAAGTAGAACATAAATTCAATATCTAAATACCAAAC
1 ATAAATAAGTAGAACATAAATTCAATATCTAAATACCAAAC
* * * *
99902844 ATAAACAACT-----ATTAA-T-AA-AACTAAATTA-C--AC
1 ATAAATAAGTAGAACATAAATTCAATATCTAAA-TACCAAAC
* *
99902875 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAAC
1 ATAAATAAGTAGAACATAAATTCAATATCTAAATACCAAAC
99902916 ATAAA
1 ATAAA
99902921 CAACTATTAA
Statistics
Matches: 55, Mismatches: 10, Indels: 24
0.62 0.11 0.27
Matches are distributed among these distances:
31 10 0.18
33 7 0.13
34 4 0.07
35 1 0.02
36 8 0.15
37 1 0.02
38 3 0.05
39 6 0.11
41 15 0.27
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.23
Consensus pattern (41 bp):
ATAAATAAGTAGAACATAAATTCAATATCTAAATACCAAAC
Found at i:99903109 original size:72 final size:72
Alignment explanation
Indices: 99902773--99903083 Score: 500
Period size: 72 Copynumber: 4.3 Consensus size: 72
99902763 AAAATCATAT
** *
99902773 ATAAACAACTATTGATAAAACTA-ATTTA-GTATAAATAAGTAGAACATAAATTCAATATCTAAA
1 ATAAACAACTATTGATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
*
99902836 TACCAAAC
65 AACCAAAC
* *
99902844 ATAAACAACTATTAATAAAACTAAATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
99902909 ACCAAAC
66 ACCAAAC
*
99902916 ATAAACAACTATTAATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
99902981 ACCAAAC
66 ACCAAAC
* *
99902988 ATAAACAACCATTGGTAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
*
99903053 ACCAAAA
66 ACCAAAC
*
99903060 ATAAATAACTATTGATAAAACTAG
1 ATAAACAACTATTGATAAAACTAG
99903084 TTTAGCATTT
Statistics
Matches: 225, Mismatches: 13, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
71 25 0.11
72 200 0.89
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.24
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:99903533 original size:18 final size:18
Alignment explanation
Indices: 99903512--99903559 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
99903502 TCCATCAATT
*
99903512 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
99903530 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
99903548 TGAACATCATTT
1 TGAACATCATTT
99903560 CTCACATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:99904513 original size:21 final size:21
Alignment explanation
Indices: 99904487--99904556 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
99904477 AGATAATATA
99904487 TATAAATATATATGGTCATAG
1 TATAAATATATATGGTCATAG
* **
99904508 TATAAAAATATTACAGTCAATA-
1 TATAAATATA-TATGGTC-ATAG
99904530 TATAAATATATATGGTCATAG
1 TATAAATATATATGGTCATAG
*
99904551 TCTAAA
1 TATAAA
99904557 CCAATGGAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
20 3 0.08
21 19 0.49
22 14 0.36
23 3 0.08
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (21 bp):
TATAAATATATATGGTCATAG
Found at i:99904533 original size:22 final size:23
Alignment explanation
Indices: 99904481--99904542 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
99904471 CGCATAAGAT
* **
99904481 AATATATATAAATATATATGGTC
1 AATATATAAAAATATATACAGTC
99904504 -ATAGTATAAAAATAT-TACAGTC
1 AATA-TATAAAAATATATACAGTC
*
99904526 AATATATAAATATATAT
1 AATATATAAAAATATAT
99904543 GGTCATAGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
22 18 0.56
23 14 0.44
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (23 bp):
AATATATAAAAATATATACAGTC
Found at i:99907205 original size:19 final size:19
Alignment explanation
Indices: 99907183--99907225 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
99907173 TGTAAATAGA
99907183 TTAAAA-TTATTTTAAAATT
1 TTAAAATTTA-TTTAAAATT
99907202 TTAAAATTTATTTAAAATT
1 TTAAAATTTATTTAAAATT
*
99907221 ATAAA
1 TTAAA
99907226 TAATAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAAAATTTATTTAAAATT
Found at i:99907242 original size:17 final size:18
Alignment explanation
Indices: 99907215--99907251 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
99907205 AAATTTATTT
99907215 AAAATTATAAATAATAAA
1 AAAATTATAAATAATAAA
99907233 AAAATT-TAAATAATAAA
1 AAAATTATAAATAATAAA
99907250 AA
1 AA
99907252 TTAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATTATAAATAATAAA
Found at i:99907248 original size:24 final size:24
Alignment explanation
Indices: 99907211--99907268 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
99907201 TTTAAAATTT
*
99907211 ATTTAAAATTATAAATAATAAAAAA
1 ATTTAAAATAATAAA-AATAAAAAA
*
99907236 ATTT-AAATAATAAAAATTAAAAAT
1 ATTTAAAATAATAAAAA-TAAAAAA
*
99907260 TTTTAAAAT
1 ATTTAAAAT
99907269 TGTAAATAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 2 0.07
24 18 0.64
25 8 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
ATTTAAAATAATAAAAATAAAAAA
Found at i:99907666 original size:16 final size:16
Alignment explanation
Indices: 99907632--99907688 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
99907622 ATATTGAATT
99907632 ATTTATAAAAA-AT-AA
1 ATTTA-AAAAATATAAA
99907647 ATTTAAAAAATATAAA
1 ATTTAAAAAATATAAA
* *
99907663 ATTTTAAAAAT-GAAA
1 ATTTAAAAAATATAAA
99907678 ATTATAAAAAA
1 ATT-TAAAAAA
99907689 AAAGAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
14 5 0.14
15 13 0.36
16 18 0.50
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
ATTTAAAAAATATAAA
Found at i:99908190 original size:3 final size:3
Alignment explanation
Indices: 99908182--99908225 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
99908172 TTTCTTTATA
99908182 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
99908226 AATTTCATGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Done.