Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 78 of 218
Found at i:23166137 original size:37 final size:36
Alignment explanation
Indices: 23166062--23166134 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 36
23166052 ATTCCAGAAA
23166062 TAATATTATTTTAATAGTTTAATATTAAGTTTAATT
1 TAATATTATTTTAATAGTTTAATATTAAGTTTAATT
* *
23166098 TAATAATTATTTTATTAGTATT-TTATTAA-TTTAATT
1 TAAT-ATTATTTTAATAGT-TTAATATTAAGTTTAATT
23166134 T
1 T
23166135 TAAATTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 12 0.36
37 19 0.58
38 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (36 bp):
TAATATTATTTTAATAGTTTAATATTAAGTTTAATT
Found at i:23181106 original size:23 final size:23
Alignment explanation
Indices: 23181080--23181134 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
23181070 TGCGAAACAA
*
23181080 TCACTTTCAAATGCACCGCAGTG
1 TCACTTTCAAATGCACCGAAGTG
* **
23181103 TCACTATCAGTTGCACCGAAGTG
1 TCACTTTCAAATGCACCGAAGTG
*
23181126 CCACTTTCA
1 TCACTTTCA
23181135 CTTATTTGCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (23 bp):
TCACTTTCAAATGCACCGAAGTG
Found at i:23181144 original size:27 final size:27
Alignment explanation
Indices: 23181121--23181213 Score: 152
Period size: 27 Copynumber: 3.4 Consensus size: 27
23181111 AGTTGCACCG
23181121 AAGTGCCACTTTCACTTATTTGCATCA
1 AAGTGCCACTTTCACTTATTTGCATCA
23181148 AAGTGCCACTTTCACTTATTTGCATCA
1 AAGTGCCACTTTCACTTATTTGCATCA
*
23181175 AAGTGCCACTTTCACTT-TATTGCATCG
1 AAGTGCCACTTTCACTTAT-TTGCATCA
*
23181202 AAGTACCACTTT
1 AAGTGCCACTTT
23181214 TCATTCATAT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
26 1 0.02
27 62 0.98
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.37
Consensus pattern (27 bp):
AAGTGCCACTTTCACTTATTTGCATCA
Found at i:23183834 original size:92 final size:91
Alignment explanation
Indices: 23183648--23183830 Score: 321
Period size: 92 Copynumber: 2.0 Consensus size: 91
23183638 TATTTTTTAA
23183648 AATAATTAATAAATATTATAATATGGTATTTTTGTATTTTATATTTTTTATAAAATTAATAAAAA
1 AATAATTAATAAATATTATAATATGGTATTTTTGTATTTTATATTTTTTATAAAATTAATAAAAA
*
23183713 ACTTAAATTTAGAAATATGCAAATGAT
66 ACTTAAATTTAAAAATATGCAAA-GAT
23183740 AATAATTAATAAATATTATAATATGGTATTTTTGTATTTTATATTTTTTTTATAAAATTAATAAA
1 AATAATTAATAAATATTATAATATGGTATTTTTGTATTTTATA--TTTTTTATAAAATTAAT-AA
23183805 AAAACTTAAATTTAAAAATATGCAAA
63 AAAACTTAAATTTAAAAATATGCAAA
23183831 TAATGAGAAT
Statistics
Matches: 87, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
92 43 0.49
94 17 0.20
95 27 0.31
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (91 bp):
AATAATTAATAAATATTATAATATGGTATTTTTGTATTTTATATTTTTTATAAAATTAATAAAAA
ACTTAAATTTAAAAATATGCAAAGAT
Found at i:23186755 original size:15 final size:15
Alignment explanation
Indices: 23186735--23186764 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23186725 TTAATACTAT
23186735 TGACAAGAAAGAAAA
1 TGACAAGAAAGAAAA
23186750 TGACAAGAAAGAAAA
1 TGACAAGAAAGAAAA
23186765 AAAGTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.20, T:0.07
Consensus pattern (15 bp):
TGACAAGAAAGAAAA
Found at i:23198160 original size:12 final size:13
Alignment explanation
Indices: 23198134--23198165 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
23198124 CTAAACCCAA
23198134 TTTAG-TATTGAC
1 TTTAGCTATTGAC
23198146 TTTAGCTATTG-C
1 TTTAGCTATTGAC
23198158 TTTAGCTA
1 TTTAGCTA
23198166 CTTTGGTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.50
Consensus pattern (13 bp):
TTTAGCTATTGAC
Found at i:23211280 original size:23 final size:23
Alignment explanation
Indices: 23211249--23211324 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
23211239 AGTGTTATTG
*
23211249 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
23211272 TTCAGTGGTAGCTACGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
23211295 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
23211318 ATCAGTG
1 ATCAGTG
23211325 TGGCACTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:23217713 original size:13 final size:13
Alignment explanation
Indices: 23217695--23217722 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
23217685 CTATTTCACT
23217695 CTGTTTTTACAAA
1 CTGTTTTTACAAA
23217708 CTGTTTTTACAAA
1 CTGTTTTTACAAA
23217721 CT
1 CT
23217723 CTACCGTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.46
Consensus pattern (13 bp):
CTGTTTTTACAAA
Found at i:23219843 original size:27 final size:27
Alignment explanation
Indices: 23219805--23220188 Score: 406
Period size: 27 Copynumber: 14.3 Consensus size: 27
23219795 ATTCGTGGGC
*
23219805 AAATGACC-AAATACCCTCGAAGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
* *
23219831 AAATTACCGAAATACCCTCGATGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
** *
23219858 AAATTACCAAAATACCCTTAAAAAGGTA
1 AAATTACCAAAATACCC-TCGAAGGGTA
* * *
23219886 AATTTACCAAAATACCCTTGATGGGT-
1 AAATTACCAAAATACCCTCGAAGGGTA
23219912 AAATTACCAAAATACCC-CTGAAGGGTA
1 AAATTACCAAAATACCCTC-GAAGGGTA
*
23219939 AAATTACCAAAATACCCTCGATGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
*** *
23219966 AAATTATTGAAATACCCTCGATGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
*** *
23219993 AAATTATTGAAATACCCTCAAAGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
23220020 AAATTACCAAAATACCCTC-AATGGGTA
1 AAATTACCAAAATACCCTCGAA-GGGTA
* * *
23220047 AAAATACTAAAATACCCCCGAAGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
*
23220074 AAATTACTAAAATACCCTC-AATGGGTA
1 AAATTACCAAAATACCCTCGAA-GGGTA
* *
23220101 AAATCATCAAAATACCCTCGAAGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
* * * *
23220128 AAATGACCGAAATACCCCCAAAGGGTA
1 AAATTACCAAAATACCCTCGAAGGGTA
*
23220155 AAATAACCAAAATACCC-CTG--GGGTA
1 AAATTACCAAAATACCCTC-GAAGGGTA
23220180 AAATTACCA
1 AAATTACCA
23220189 TTTTACCCCT
Statistics
Matches: 307, Mismatches: 41, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
25 13 0.04
26 34 0.11
27 233 0.76
28 27 0.09
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGAAGGGTA
Found at i:23235343 original size:40 final size:40
Alignment explanation
Indices: 23235281--23235529 Score: 234
Period size: 40 Copynumber: 6.3 Consensus size: 40
23235271 ATCGTCAGAT
* *
23235281 CAACC-AAACACACCTAACAGAAGCTCATAAGAGCTGATC
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
* * **
23235320 CAACTGAAACACGCCAAAGAGAAGCTTGTAAGAGCTGATC
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
* * * * *
23235360 CAACCGAAACATGCCAAAAAGAAGCTCGTAAGAGTTTATC
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
* ** * * *
23235400 CAACTGAAACAATCCAAACAGAAGCTCACAATAGCTGGTC
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
* ** * *
23235440 CAACCGAAACATGCCAAGTAGAAGCTCATAAGAGTTGGTC
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
* *
23235480 C-ACCGAAAACACGCC-AACAGAAGCTCGTAAGAGTTGATC
1 CAACCG-AAACACGCCAAACAGAAGCTCATAAGAGCTGATC
* *
23235519 TACCCGAAACA
1 CAACCGAAACA
23235530 ATCCAAAAAA
Statistics
Matches: 170, Mismatches: 37, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
39 33 0.19
40 137 0.81
ACGTcount: A:0.41, C:0.26, G:0.18, T:0.15
Consensus pattern (40 bp):
CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
Found at i:23235423 original size:80 final size:80
Alignment explanation
Indices: 23235299--23235538 Score: 279
Period size: 80 Copynumber: 3.0 Consensus size: 80
23235289 CACACCTAAC
* * *
23235299 AGAAGCTCATAAGAGCTGATCCAACTGAAACACGCCAAAGAGAAGCTTGTAAGAGCTGATCCAAC
1 AGAAGCTCATAAGAGTTGATCCAACTGAAACACGCCAAACAGAAGCTCGTAAGAGCTGATCCAAC
23235364 CGAAACATGCCAAAA
66 CGAAACATGCCAAAA
* * ** ** * *
23235379 AGAAGCTCGTAAGAGTTTATCCAACTGAAACAATCCAAACAGAAGCTCACAATAGCTGGTCCAAC
1 AGAAGCTCATAAGAGTTGATCCAACTGAAACACGCCAAACAGAAGCTCGTAAGAGCTGATCCAAC
**
23235444 CGAAACATGCCAAGT
66 CGAAACATGCCAAAA
* * * * *
23235459 AGAAGCTCATAAGAGTTGGTCC-ACCGAAAACACGCC-AACAGAAGCTCGTAAGAGTTGATCTAC
1 AGAAGCTCATAAGAGTTGATCCAACTG-AAACACGCCAAACAGAAGCTCGTAAGAGCTGATCCAA
23235522 CCGAAACAAT-CCAAAA
65 CCGAAAC-ATGCCAAAA
23235538 A
1 A
23235539 AAAGTATAAC
Statistics
Matches: 130, Mismatches: 28, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
79 35 0.27
80 95 0.73
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.15
Consensus pattern (80 bp):
AGAAGCTCATAAGAGTTGATCCAACTGAAACACGCCAAACAGAAGCTCGTAAGAGCTGATCCAAC
CGAAACATGCCAAAA
Found at i:23241752 original size:45 final size:45
Alignment explanation
Indices: 23241685--23241778 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
23241675 TAACAGAACT
* * * *
23241685 CGGTGGATTCAGCACATTGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
*
23241730 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
23241775 CGGT
1 CGGT
23241779 TCACATAGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:23241890 original size:51 final size:49
Alignment explanation
Indices: 23241775--23241967 Score: 190
Period size: 51 Copynumber: 3.8 Consensus size: 49
23241765 CAATGATGTT
* * * * *
23241775 CGGTTCACATAGTAGCCTGCACGTAGTACTAAACATGTGACGAATACCATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACTAA-A-CATC
* * *
23241826 CGATACACGTAGTAGCCTGTACATAGTACTACACACGTGATCTAAACTATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CTAAAC-ATC
* * * * * *
23241877 TGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCT-ATCATTC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CTAAACA-TC
*
23241927 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGAC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGAC
23241968 CATCACTTTC
Statistics
Matches: 115, Mismatches: 24, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
49 2 0.02
50 39 0.34
51 71 0.62
52 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (49 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACTAAACATC
Found at i:23241958 original size:101 final size:101
Alignment explanation
Indices: 23241782--23241966 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 101
23241772 GTTCGGTTCA
* * * *
23241782 CATAGTAGCCTGCACGTAGTACTAAACATGTGACGAATACCATCCGATACACGTAGTAGCCTGTA
1 CATAGTAGCCTACACATAGTACTAAACATGCGAC-AATACCATCCGATACACGTAGTAGCCTGCA
23241847 CATAGTACTACACACGTGATCTAAACTATCTGGTACG
65 CATAGTACTACACACGTGATCTAAACTATCTGGTACG
* * * *
23241884 CATAGTAGCCTACACATAGTACTACACATGCGAC-CTATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTAAACATGCGACAATACCA-TCCGATACACGTAGTAGCCTGCA
23241948 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
23241967 CCATCACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.54
102 30 0.41
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTAAACATGCGACAATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCTAAACTATCTGGTACG
Found at i:23244178 original size:13 final size:13
Alignment explanation
Indices: 23244156--23244190 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
23244146 TAGTAATTAT
23244156 AAAAACAAAAAAG
1 AAAAACAAAAAAG
*
23244169 AAAAAGAAAAAAG
1 AAAAACAAAAAAG
*
23244182 AAAATCAAA
1 AAAAACAAA
23244191 TGAGTAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.83, C:0.06, G:0.09, T:0.03
Consensus pattern (13 bp):
AAAAACAAAAAAG
Found at i:23252600 original size:5 final size:5
Alignment explanation
Indices: 23252590--23252615 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
23252580 AGACATTATT
23252590 AATTA AATTA AATTA AATTA AATTA A
1 AATTA AATTA AATTA AATTA AATTA A
23252616 TTACTTTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:23254458 original size:24 final size:24
Alignment explanation
Indices: 23254431--23254477 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
23254421 AAAATCTACT
23254431 CTAAA-AAAAAAGAAAAAAGAAAAC
1 CTAAACAAAAAA-AAAAAAGAAAAC
* *
23254455 CTAAACTAAAAATAAAAAGAAAA
1 CTAAACAAAAAAAAAAAAGAAAA
23254478 GGAAAGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.77, C:0.09, G:0.06, T:0.09
Consensus pattern (24 bp):
CTAAACAAAAAAAAAAAAGAAAAC
Found at i:23261293 original size:30 final size:30
Alignment explanation
Indices: 23261257--23261317 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
23261247 AAATCTTTTC
23261257 ATATAATAGATTATAGTTGGAAGTAAACCA
1 ATATAATAGATTATAGTTGGAAGTAAACCA
23261287 ATATAATAGATTATAGTTGGAAGTAAACCA
1 ATATAATAGATTATAGTTGGAAGTAAACCA
23261317 A
1 A
23261318 CATTGTGGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.30
Consensus pattern (30 bp):
ATATAATAGATTATAGTTGGAAGTAAACCA
Found at i:23273484 original size:29 final size:29
Alignment explanation
Indices: 23273414--23273485 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
23273404 CTAATAATTT
* *
23273414 AAATAAAAATTTTTTAATAGTTTAATGATCA
1 AAAT-AAAATTTTTT-ATAGTTAAATGACCA
*
23273445 AATTATAAATTTTTT-TAGTTAAATGACCA
1 AAATA-AAATTTTTTATAGTTAAATGACCA
23273474 AAATAAGAATTT
1 AAATAA-AATTT
23273486 ACTCATAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 1 0.03
29 21 0.60
30 1 0.03
31 12 0.34
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (29 bp):
AAATAAAATTTTTTATAGTTAAATGACCA
Found at i:23274274 original size:19 final size:18
Alignment explanation
Indices: 23274231--23274274 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
23274221 ATATTGTTGA
*
23274231 ATTTTT-TTATTTTAAAT
1 ATTTTTATTATTTTAAAG
*
23274248 ATTTTTATTATTTTTAAG
1 ATTTTTATTATTTTAAAG
23274266 ATTTATTAT
1 ATTT-TTAT
23274275 ATGGGTGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 6 0.26
18 13 0.57
19 4 0.17
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
ATTTTTATTATTTTAAAG
Found at i:23274877 original size:5 final size:5
Alignment explanation
Indices: 23274867--23274933 Score: 102
Period size: 5 Copynumber: 13.6 Consensus size: 5
23274857 GTTTTTTTAC
23274867 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA-TTA
*
23274918 TGTTA -ATTA -ATTA TAT
1 TATTA TATTA TATTA TAT
23274934 ATTATCTATA
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
4 7 0.12
5 47 0.81
6 4 0.07
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:23282352 original size:8 final size:7
Alignment explanation
Indices: 23282329--23282368 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
23282319 AAAGTATTTT
*
23282329 AAAATTA
1 AAAATAA
*
23282336 AAATTAA
1 AAAATAA
23282343 AAAATAA
1 AAAATAA
23282350 AAAAT-A
1 AAAATAA
23282356 AAAATAA
1 AAAATAA
23282363 AAAATA
1 AAAATA
23282369 TATATTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (7 bp):
AAAATAA
Found at i:23284563 original size:11 final size:11
Alignment explanation
Indices: 23284513--23284565 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
23284503 ATGAAAGTTC
23284513 TAAAATA-AAT
1 TAAAATAGAAT
23284523 TAAATATATGAAT
1 TAAA-ATA-GAAT
*
23284536 TCAAAATAGACT
1 T-AAAATAGAAT
*
23284548 CAAAATAGAAT
1 TAAAATAGAAT
23284559 TAAAATA
1 TAAAATA
23284566 ACCATTGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
10 4 0.11
11 18 0.51
12 3 0.09
13 7 0.20
14 3 0.09
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (11 bp):
TAAAATAGAAT
Found at i:23286231 original size:50 final size:50
Alignment explanation
Indices: 23286167--23286733 Score: 290
Period size: 50 Copynumber: 11.4 Consensus size: 50
23286157 AGATTCGCCA
* * *
23286167 TTGTAGCTTCAATCTTTTTAACTGCAATTTCGGGGAAGCAAGATTTGTCG
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTGACG
* * ** * * * * * * *
23286217 TTGTGGCTTTAATCTGTTCCACTGCACTGCCTGGAAAGTAAGATTCGCCG
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTGACG
* * * * *
23286267 TTGTAGCTTTAATCTTTTTAATTGCAATGTCGGGGAAGCATGATTCGCCA
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTGACG
* * * ** * *** * * * *
23286317 TTGTGGCTTCAATCTGTTCCACTAC-ACCACTGGGAAGTAATA-TTCACTG
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTGAC-G
* *
23286366 TTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGAAGCAAGATTTGCCG
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTGACG
* ** * ** * * * *
23286416 TTGTGGCTTTAAT-TTGTTCCACCGCACCGCCTGGGAAGTAAGA-TTCACTG
1 TTGTAGCTTTAATCTT-TTTAACTGCAATGTCGGGGAAGCAAGATTTGAC-G
** * *
23286466 TTGTAGCTTTAATCTTTTTAACTGCAATGTCAAGGAAGCAATA-TTCATCG
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTGA-CG
* * *** * ** * * * *
23286516 TTGTGGCTTTAATCTGTTCCGCTACACCGCCTGGGAAGTAAGATTCG-CTG
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTGAC-G
*
23286566 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGA-TTCACTG
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTGAC-G
* * ** * ** *
23286616 TTGTGGCTTTAATCTGTTCCACTGC-ATCGTCTGGGAAATAAGA-TTCACTG
1 TTGTAGCTTTAATCTTTTTAACTGCAAT-GTCGGGGAAGCAAGATTTGAC-G
* ** * * * *
23286666 TTGTAGCTTTAATCTTTTTAGCTATAATTTTGGGGAAGCAAGATTCGCCG
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTGACG
* *
23286716 TTGTGGCTTCAAT-TTTTT
1 TTGTAGCTTTAATCTTTTT
23286734 CCACTGCACC
Statistics
Matches: 371, Mismatches: 133, Indels: 27
0.70 0.25 0.05
Matches are distributed among these distances:
48 2 0.01
49 43 0.12
50 315 0.85
51 11 0.03
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.37
Consensus pattern (50 bp):
TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTGACG
Found at i:23286759 original size:100 final size:100
Alignment explanation
Indices: 23286152--23286748 Score: 800
Period size: 100 Copynumber: 6.0 Consensus size: 100
23286142 AACTTTTGGA
* ** * * * *
23286152 AAGTAAGATTCGCCATTGTAGCTTCAATCTTTTTAACTGCAATTTCGGGGAAGCAAGATTTGTCG
1 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
* *
23286217 TTGTGGCTTTAATCTGTTCCACTGCACTGCCTGGA
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* * * * *
23286252 AAGTAAGATTCGCCGTTGTAGCTTTAATCTTTTTAATTGCAATGTCGGGGAAGCATGATTCGCCA
1 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
* * *
23286317 TTGTGGCTTCAATCTGTTCCACTACACC-ACTGGG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* * *
23286351 AAGTAATATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGAAGCAAGATTTGCCG
1 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
* *
23286416 TTGTGGCTTTAATTTGTTCCACCGCACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
** * **
23286451 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCAAGGAAGCAATATTCATCG
1 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
* *
23286516 TTGTGGCTTTAATCTGTTCCGCTACACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* * *
23286551 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTG
1 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
* *
23286616 TTGTGGCTTTAATCTGTTCCACTGCATCGTCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
* * ** * *
23286651 AAATAAGATTCACTGTTGTAGCTTTAATCTTTTTAGCTATAATTTTGGGGAAGCAAGATTCGCCG
1 AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
* * *
23286716 TTGTGGCTTCAATTTTTTCCACTGCACCGCCTG
66 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTG
23286749 TGAGATAAGA
Statistics
Matches: 434, Mismatches: 62, Indels: 2
0.87 0.12 0.00
Matches are distributed among these distances:
99 85 0.20
100 349 0.80
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.36
Consensus pattern (100 bp):
AAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
Found at i:23286947 original size:44 final size:44
Alignment explanation
Indices: 23286899--23287023 Score: 160
Period size: 44 Copynumber: 2.8 Consensus size: 44
23286889 ATCTGTGATT
* *
23286899 TTCAATCTATTCCACTACTGCCCAGGGAGATAGAATTCACCATC
1 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCACAATC
* * * * *
23286943 TTCAACCTATTCCACTGCTGACCAGGGAAATAGGACTCACAATC
1 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCACAATC
* * *
23286987 TTCAATATATTCCACTGCTACCCAAGGAGATAGAATT
1 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATT
23287024 GGTATCTTCG
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.26
Consensus pattern (44 bp):
TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCACAATC
Found at i:23287089 original size:88 final size:88
Alignment explanation
Indices: 23286997--23287159 Score: 197
Period size: 88 Copynumber: 1.9 Consensus size: 88
23286987 TTCAATATAT
* * * *
23286997 TCCACTGCTACCCAAGGA-G-ATAGAATTGGTATCTTCGATCTGCTTCGCTGTCTA-TACAAGAA
1 TCCACTGCAACCCAAGGAGGCA-AG-ACTGGTATCTTCGATCTACTTCACT-TCTAGTACAAGAA
23287059 GGCAAGATCTGCTATCTTCAACTTGC
63 GGCAAGATCTGCTATCTTCAACTTGC
* * * * *
23287085 TCCACTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCACTTTTAGTACAGGAAGGC
1 TCCACTGCAACCCAAGGAGGCAAGACTGGTATCTTCGATCTACTTCACTTCTAGTACAAGAAGGC
23287150 AAGATCTGCT
66 AAGATCTGCT
23287160 GTTTTCAGCC
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
87 3 0.05
88 56 0.89
89 3 0.05
90 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (88 bp):
TCCACTGCAACCCAAGGAGGCAAGACTGGTATCTTCGATCTACTTCACTTCTAGTACAAGAAGGC
AAGATCTGCTATCTTCAACTTGC
Found at i:23287200 original size:88 final size:88
Alignment explanation
Indices: 23287023--23287213 Score: 215
Period size: 88 Copynumber: 2.2 Consensus size: 88
23287013 GAGATAGAAT
* * * *
23287023 TGGTATCTTCGATCTGCTTCGCTGTCTATACAAGAAGGCAAGATCTGCTATCTTCAACTTGCTCC
1 TGGTGTCTTCGATCTACTTCACTGTCTATACAAGAAGGCAAGATCTGCTATCTTCAACCTGCTCC
* * *
23287088 ACTGCAACCCAGGGAGGCAAGGC
66 ACTACAAACCAGAGAGGCAAGGC
* * * * * *
23287111 TGGTGTCTTCGATCTACTTCACT-TTTAGTACAGGAAGGCAAGATCTGCTGTTTTCAGCCTGTTC
1 TGGTGTCTTCGATCTACTTCACTGTCTA-TACAAGAAGGCAAGATCTGCTATCTTCAACCTGCTC
* *
23287175 TACTACAAACCAGAGAGGTAAGGC
65 CACTACAAACCAGAGAGGCAAGGC
23287199 TGG-GATCTTCGATCT
1 TGGTG-TCTTCGATCT
23287214 GCTCCACTAC
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
87 4 0.05
88 82 0.95
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (88 bp):
TGGTGTCTTCGATCTACTTCACTGTCTATACAAGAAGGCAAGATCTGCTATCTTCAACCTGCTCC
ACTACAAACCAGAGAGGCAAGGC
Found at i:23287438 original size:131 final size:131
Alignment explanation
Indices: 23287204--23287674 Score: 739
Period size: 131 Copynumber: 3.6 Consensus size: 131
23287194 AAGGCTGGGA
* *
23287204 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAATCTATTCCACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCT
* * * * * *
23287269 GCCCAGGGAGATA-AAATTAATGGCTTAAATCTGCTTCCCTACTCTTGGGGAAGATAAGATTCAC
66 GACCAGGGAGATAGAACTT-GTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCGC
23287333 CG
130 CG
*
23287335 TCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCT
*
23287400 GACCAGGGAGATAGTACTTGTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCGCC
66 GACCAGGGAGATAGAACTTGTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCGCC
*
23287465 A
131 G
* * * * *
23287466 TCTTCAATCTACTCCATTACT-CTTAGGGAGATAAGATCTGTACTTTCCAACCTATTCCACAGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCT
* *
23287530 GGCCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCGCC
66 GACCAGGGAGATAGAACTTGTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCGCC
23287595 G
131 G
* *
23287596 TCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCT
23287661 GACCAGGGAGATAG
66 GACCAGGGAGATAG
23287675 GACTAGGGTC
Statistics
Matches: 310, Mismatches: 28, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
130 121 0.39
131 186 0.60
132 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (131 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCT
GACCAGGGAGATAGAACTTGTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCGCC
G
Found at i:23287696 original size:261 final size:262
Alignment explanation
Indices: 23287203--23287680 Score: 753
Period size: 261 Copynumber: 1.8 Consensus size: 262
23287193 TAAGGCTGGG
* * * * *
23287203 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAATCTATTCCACTGC
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACAGC
* *
23287268 TGCCCAGGGAGATAAAATTAATGGCTTAAATCTGCTTCCCTACTCTTGGGGAAGATAAGATTCAC
66 TGCCCAGGGAGATAAAATTAATGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCAC
* *
23287333 CGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTG
131 CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTA
* * *
23287398 CTGACCAGGGAGATAGTACTTGTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCG
196 CTGACCAGGGAGATAGGACTAGTGGCGTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCG
23287463 CC
261 CC
* *
23287465 ATCTTCAATCTACTCCATTACT-CTTAGGGAGATAAGATCTGTACTTTCCAACCTATTCCACAGC
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACAGC
* * * * *
23287529 TGGCCAGGGAGATAGGACTT-GTGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCG
66 TGCCCAGGGAGATA-AAATTAATGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCA
*
23287593 CCGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACT
130 CCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACT
23287658 ACTGACCAGGGAGATAGGACTAG
195 ACTGACCAGGGAGATAGGACTAG
23287681 GGTCGTCGAT
Statistics
Matches: 196, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
261 174 0.89
262 22 0.11
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (262 bp):
ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACAGC
TGCCCAGGGAGATAAAATTAATGGCTTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCAC
CGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTA
CTGACCAGGGAGATAGGACTAGTGGCGTAAATCTGCTTCCCTACTCCTAGGGAAGATAAGATTCG
CC
Found at i:23290038 original size:21 final size:21
Alignment explanation
Indices: 23290000--23290039 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23289990 TGGCCTCTCC
***
23290000 TTTTCTTTTTATTTTTTTCTT
1 TTTTCTTTTTACCATTTTCTT
23290021 TTTTCTTTTTACCATTTTC
1 TTTTCTTTTTACCATTTTC
23290040 ATATTTTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTCTTTTTACCATTTTCTT
Found at i:23290103 original size:28 final size:30
Alignment explanation
Indices: 23290035--23290104 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
23290025 CTTTTTACCA
*
23290035 TTTTCATATTTTTTATTTTGAATTTGATTT
1 TTTTCATATTTTTTATTCTGAATTTGATTT
* * * *
23290065 TTTT-TTGTTTTTTCTTCTGATTTTG-TTT
1 TTTTCATATTTTTTATTCTGAATTTGATTT
23290093 TTTTCAT-TTTTT
1 TTTTCATATTTTT
23290105 CGTTCTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 12 0.36
29 17 0.52
30 4 0.12
ACGTcount: A:0.11, C:0.06, G:0.07, T:0.76
Consensus pattern (30 bp):
TTTTCATATTTTTTATTCTGAATTTGATTT
Found at i:23291167 original size:25 final size:25
Alignment explanation
Indices: 23291134--23291199 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
23291124 ATAAAATCCC
*
23291134 AAAAGAATGAAATAATAATT-ATTCA
1 AAAAGAATGAAATAAT-ATTGACTCA
*
23291159 AAAAGAATGAAAGAATATTGACTCA
1 AAAAGAATGAAATAATATTGACTCA
23291184 AAAATGAATGCAAATA
1 AAAA-GAATG-AAATA
23291200 TGTATTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 23 0.66
26 5 0.14
27 4 0.11
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.23
Consensus pattern (25 bp):
AAAAGAATGAAATAATATTGACTCA
Found at i:23292398 original size:21 final size:21
Alignment explanation
Indices: 23292372--23292415 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
23292362 TTAGTTGGTT
23292372 TTCCAAATTAGCTTAAATAAA
1 TTCCAAATTAGCTTAAATAAA
23292393 TTCCAAATTAGCTTAAATAAA
1 TTCCAAATTAGCTTAAATAAA
23292414 TT
1 TT
23292416 TACTCGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (21 bp):
TTCCAAATTAGCTTAAATAAA
Found at i:23294559 original size:11 final size:11
Alignment explanation
Indices: 23294509--23294561 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
23294499 ATGAAAGTTC
23294509 TAAAATA-AAT
1 TAAAATAGAAT
23294519 TAAATATATGAAT
1 TAAA-ATA-GAAT
*
23294532 TCAAAATAGACT
1 T-AAAATAGAAT
*
23294544 CAAAATAGAAT
1 TAAAATAGAAT
23294555 TAAAATA
1 TAAAATA
23294562 ACCATTGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
10 4 0.11
11 18 0.51
12 3 0.09
13 7 0.20
14 3 0.09
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (11 bp):
TAAAATAGAAT
Found at i:23298331 original size:20 final size:18
Alignment explanation
Indices: 23298290--23298335 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
23298280 CTCTTTCGCG
23298290 TTTCTTTTTTTTCTTCCC
1 TTTCTTTTTTTTCTTCCC
* *
23298308 TTTCTATTTTTCTTCTTTCT
1 TTTCT-TTTTT-TTCTTCCC
23298328 TTTCTTTT
1 TTTCTTTT
23298336 ACTTTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.21
19 8 0.33
20 11 0.46
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCTTTTTTTTCTTCCC
Found at i:23298340 original size:15 final size:15
Alignment explanation
Indices: 23298322--23298371 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
23298312 TATTTTTCTT
23298322 CTTTCTTTTCTTTTA
1 CTTTCTTTTCTTTTA
** *
23298337 CTTTCTTTTGAGTTTC
1 CTTTCTTTT-CTTTTA
*
23298353 CTTTCTTTTCTATTA
1 CTTTCTTTTCTTTTA
23298368 CTTT
1 CTTT
23298372 TGATTTTGGG
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.08, C:0.20, G:0.04, T:0.68
Consensus pattern (15 bp):
CTTTCTTTTCTTTTA
Found at i:23301331 original size:20 final size:20
Alignment explanation
Indices: 23301306--23301352 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
23301296 TAAAAATTAT
23301306 AAAAATAT-ATAATAATGTTA
1 AAAAATATCATAA-AATGTTA
* *
23301326 AAAAATATCATAAAATTTTT
1 AAAAATATCATAAAATGTTA
23301346 AAAAATA
1 AAAAATA
23301353 AAAATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAATATCATAAAATGTTA
Found at i:23301615 original size:18 final size:19
Alignment explanation
Indices: 23301564--23301618 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
23301554 GAAAAAAAAT
*
23301564 AAAAATTATTAAAA-TAATG
1 AAAAA-TATAAAAATTAATG
* *
23301583 AAAATTATATAAATTAA-G
1 AAAAATATAAAAATTAATG
23301601 AAAAATATAAAAATTAAT
1 AAAAATATAAAAATTAAT
23301619 ATTGATTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 22 0.76
19 7 0.24
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (19 bp):
AAAAATATAAAAATTAATG
Found at i:23303877 original size:14 final size:14
Alignment explanation
Indices: 23303854--23303901 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
23303844 AAAAATGTGA
*
23303854 TTGTTAGAATATGG
1 TTGTTGGAATATGG
* *
23303868 TTGTTGGAATCTGA
1 TTGTTGGAATATGG
* *
23303882 TTGTTGCAATAGGG
1 TTGTTGGAATATGG
23303896 TTGTTG
1 TTGTTG
23303902 AATTTTTTGG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.21, C:0.04, G:0.31, T:0.44
Consensus pattern (14 bp):
TTGTTGGAATATGG
Found at i:23309028 original size:18 final size:18
Alignment explanation
Indices: 23309005--23309039 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
23308995 AAATACAAAG
23309005 GACTTGATAAGTGATTTA
1 GACTTGATAAGTGATTTA
23309023 GACTTGATAAGTGATTT
1 GACTTGATAAGTGATTT
23309040 TGTTGCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (18 bp):
GACTTGATAAGTGATTTA
Found at i:23315900 original size:7 final size:7
Alignment explanation
Indices: 23315877--23315922 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
23315867 GATGAATGAG
*
23315877 TGAGAGA
1 TGAGGGA
23315884 TGATGGGA
1 TGA-GGGA
23315892 TGAGGGA
1 TGAGGGA
23315899 TGAGGGA
1 TGAGGGA
23315906 TGAGGGA
1 TGAGGGA
*
23315913 TAAGGGA
1 TGAGGGA
23315920 TGA
1 TGA
23315923 TTGAAAAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
7 29 0.83
8 6 0.17
ACGTcount: A:0.33, C:0.00, G:0.50, T:0.17
Consensus pattern (7 bp):
TGAGGGA
Found at i:23325502 original size:45 final size:45
Alignment explanation
Indices: 23325433--23325594 Score: 168
Period size: 45 Copynumber: 3.6 Consensus size: 45
23325423 TGTTGGTTGA
* *
23325433 AAAATGAGTAAAACCATAGCTGAAAGATACTATGGCACCATGTC-
1 AAAATGAGTAAGACCATAGCTGAAAGATACTATGGCATCATGTCG
* * ** * *
23325477 AGAAATGAATAAGACCATAGTTGAAAGACCCTATGACATCATATCG
1 A-AAATGAGTAAGACCATAGCTGAAAGATACTATGGCATCATGTCG
* *
23325523 AAAATGAGTAAGACCATGGCTGAAAGATGCTATGGCATCATG--G
1 AAAATGAGTAAGACCATAGCTGAAAGATACTATGGCATCATGTCG
* *
23325566 TAAATGGGACTAAGACCATAGCTGAAAGA
1 AAAAT--GAGTAAGACCATAGCTGAAAGA
23325595 CGCTATGACA
Statistics
Matches: 96, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 89 0.93
46 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (45 bp):
AAAATGAGTAAGACCATAGCTGAAAGATACTATGGCATCATGTCG
Found at i:23325586 original size:90 final size:88
Alignment explanation
Indices: 23325433--23325606 Score: 233
Period size: 90 Copynumber: 1.9 Consensus size: 88
23325423 TGTTGGTTGA
*
23325433 AAAATGAGTAAAACCATAGCTGAAAGATACTATGGCACCATGTCAGAAATGAATAAGACCATAGT
1 AAAATGAGTAAAACCATAGCTGAAAGATACTATGGCACCATGT-A-AAATGAATAAGACCATAGC
23325498 TGAAAGACCCTATGACATCATATCG
64 TGAAAGACCCTATGACATCATATCG
* * * * *
23325523 AAAATGAGTAAGACCATGGCTGAAAGATGCTATGGCATCATGGT-AAATGGGACTAAGACCATAG
1 AAAATGAGTAAAACCATAGCTGAAAGATACTATGGCACCAT-GTAAAAT--GAATAAGACCATAG
*
23325587 CTGAAAGACGCTATGACATC
63 CTGAAAGACCCTATGACATC
23325607 CTTTGAATAA
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
88 4 0.05
90 68 0.92
91 2 0.03
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (88 bp):
AAAATGAGTAAAACCATAGCTGAAAGATACTATGGCACCATGTAAAATGAATAAGACCATAGCTG
AAAGACCCTATGACATCATATCG
Found at i:23329356 original size:20 final size:20
Alignment explanation
Indices: 23329321--23329374 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
23329311 ACACATGTGT
*
23329321 GTGGAGTAGTCACACGGGCGA
1 GTGGA-TAGCCACACGGGCGA
* *
23329342 GTGGATCGCCACACGGGCGT
1 GTGGATAGCCACACGGGCGA
23329362 GTGGATAGCCACA
1 GTGGATAGCCACA
23329375 TAGCCATATC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 24 0.83
21 5 0.17
ACGTcount: A:0.22, C:0.24, G:0.39, T:0.15
Consensus pattern (20 bp):
GTGGATAGCCACACGGGCGA
Found at i:23330784 original size:28 final size:28
Alignment explanation
Indices: 23330735--23330811 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
23330725 AATCTGATTG
* *
23330735 TTACAATATGGTCATTGAAATCTAACCA
1 TTACAATATGGCCGTTGAAATCTAACCA
* * * *
23330763 TTACAATATGACCGTTGGAATCTGACCG
1 TTACAATATGGCCGTTGAAATCTAACCA
* *
23330791 TTGCAATATGGCCGTTTAAAT
1 TTACAATATGGCCGTTGAAAT
23330812 TTTTAGACCA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (28 bp):
TTACAATATGGCCGTTGAAATCTAACCA
Found at i:23330805 original size:14 final size:14
Alignment explanation
Indices: 23330766--23330806 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
23330756 CTAACCATTA
23330766 CAATATGACCGTTG
1 CAATATGACCGTTG
* *
23330780 GAATCTGACCGTTG
1 CAATATGACCGTTG
*
23330794 CAATATGGCCGTT
1 CAATATGACCGTT
23330807 TAAATTTTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (14 bp):
CAATATGACCGTTG
Found at i:23344655 original size:26 final size:27
Alignment explanation
Indices: 23344620--23344680 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
23344610 TTTTAGAATT
**
23344620 TTTTAAAATTTTTTTAAATA-TATAAA
1 TTTTAAAATTTTCATAAATATTATAAA
* *
23344646 TTTTAGAATTTTCATAAATATTTTAAA
1 TTTTAAAATTTTCATAAATATTATAAA
23344673 TTTTAAAA
1 TTTTAAAA
23344681 ATAATTTTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 17 0.59
27 12 0.41
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (27 bp):
TTTTAAAATTTTCATAAATATTATAAA
Found at i:23344682 original size:18 final size:20
Alignment explanation
Indices: 23344644--23344695 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
23344634 TAAATATATA
*
23344644 AATTTTAGAATTTTCATAAAT
1 AATTTTA-AATTTTCAAAAAT
23344665 -ATTTTAAATTTT-AAAAAT
1 AATTTTAAATTTTCAAAAAT
*
23344683 AATTTTGAATTTT
1 AATTTTAAATTTT
23344696 TCTTTTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 5 0.18
19 17 0.61
20 6 0.21
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (20 bp):
AATTTTAAATTTTCAAAAAT
Found at i:23347016 original size:31 final size:31
Alignment explanation
Indices: 23346973--23347031 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
23346963 TGTATGCAAC
* *
23346973 TTTGGCCAATGAAAAGCACCACGCGACATGT
1 TTTGACCAATGAAAAACACCACGCGACATGT
*
23347004 TTTGACCAATGAAAAATACCACGCGACA
1 TTTGACCAATGAAAAACACCACGCGACA
23347032 ATTAAGTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (31 bp):
TTTGACCAATGAAAAACACCACGCGACATGT
Found at i:23347494 original size:10 final size:10
Alignment explanation
Indices: 23347461--23347532 Score: 53
Period size: 10 Copynumber: 7.3 Consensus size: 10
23347451 TATATGTTTT
*
23347461 TTTTCTATACA
1 TTTT-TATATA
23347472 TTTTTATGA-A
1 TTTTTAT-ATA
23347482 TTTTTATATA
1 TTTTTATATA
*
23347492 TTTATT-TCTA
1 TTT-TTATATA
23347502 TTTTTATATA
1 TTTTTATATA
23347512 -TTTTA-ATA
1 TTTTTATATA
* *
23347520 TGTATATATA
1 TTTTTATATA
23347530 TTT
1 TTT
23347533 AATAAAAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
8 3 0.06
9 11 0.22
10 29 0.58
11 7 0.14
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (10 bp):
TTTTTATATA
Found at i:23354537 original size:6 final size:6
Alignment explanation
Indices: 23354526--23354555 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
23354516 TTGTAATTAA
23354526 TTAATT TTAATT TTAATT TATAATT TTAAT
1 TTAATT TTAATT TTAATT T-TAATT TTAAT
23354556 AATTTTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
TTAATT
Found at i:23354551 original size:13 final size:12
Alignment explanation
Indices: 23354526--23354555 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
23354516 TTGTAATTAA
23354526 TTAATTTTAATT
1 TTAATTTTAATT
23354538 TTAATTTATAATT
1 TTAATTT-TAATT
23354551 TTAAT
1 TTAAT
23354556 AATTTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTAATTTTAATT
Found at i:23354591 original size:19 final size:20
Alignment explanation
Indices: 23354547--23354591 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
23354537 TTTAATTTAT
*
23354547 AATTTTAATAATTTTTAGTA
1 AATTTTAATAATTTTTAATA
**
23354567 TTTTTTAA-AATTTTTAATA
1 AATTTTAATAATTTTTAATA
23354586 AATTTT
1 AATTTT
23354592 TTACTTTTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
AATTTTAATAATTTTTAATA
Found at i:23354743 original size:17 final size:17
Alignment explanation
Indices: 23354731--23354769 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 17
23354721 ATAGAAATGT
23354731 AAAAATTAAAGAAAGTA
1 AAAAATTAAAGAAAGTA
23354748 AAAAATTAAATAGAAAGTA
1 AAAAATT-AA-AGAAAGTA
23354767 AAA
1 AAA
23354770 GTAATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
18 2 0.10
19 11 0.55
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAAATTAAAGAAAGTA
Found at i:23354764 original size:19 final size:18
Alignment explanation
Indices: 23354719--23354769 Score: 70
Period size: 17 Copynumber: 2.8 Consensus size: 18
23354709 ATTTGACAAA
23354719 TAATAGAAATGT-AAAAAT
1 TAATAGAAA-GTAAAAAAT
23354737 TAA-AGAAAGTAAAAAAT
1 TAATAGAAAGTAAAAAAT
23354754 TAAATAGAAAGTAAAA
1 T-AATAGAAAGTAAAA
23354770 GTAATTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.07
17 12 0.40
18 5 0.17
19 11 0.37
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.22
Consensus pattern (18 bp):
TAATAGAAAGTAAAAAAT
Found at i:23354825 original size:54 final size:54
Alignment explanation
Indices: 23354762--23354869 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
23354752 ATTAAATAGA
23354762 AAGTAAAAGTAATTTTTTGTAAAGTTAGAGAACCAAATATATTATTATACTTTT
1 AAGTAAAAGTAATTTTTTGTAAAGTTAGAGAACCAAATATATTATTATACTTTT
23354816 AAGTAAAAGTAATTTTTTGTAAAGTTAGAGAACCAAATATATTATTATACTTTT
1 AAGTAAAAGTAATTTTTTGTAAAGTTAGAGAACCAAATATATTATTATACTTTT
23354870 TTTTTCTAGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.41
Consensus pattern (54 bp):
AAGTAAAAGTAATTTTTTGTAAAGTTAGAGAACCAAATATATTATTATACTTTT
Found at i:23355163 original size:7 final size:7
Alignment explanation
Indices: 23355151--23355190 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
23355141 AAAGTATTTT
23355151 AAAATTA
1 AAAATTA
23355158 AAAATTA
1 AAAATTA
23355165 AAAATTA
1 AAAATTA
23355172 AAAATTA
1 AAAATTA
23355179 AAAATTA
1 AAAATTA
23355186 AAAAT
1 AAAAT
23355191 ATATATTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAATTA
Found at i:23355974 original size:3 final size:3
Alignment explanation
Indices: 23355966--23355997 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
23355956 TATAATATCC
23355966 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
23355998 GCTGATAACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:23356528 original size:29 final size:29
Alignment explanation
Indices: 23356487--23356564 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
23356477 CCTGACCAGT
* *
23356487 AAAACGTGTCCAGGTCAGCACGCTCAAGA
1 AAAACGCGTCCAGGTCAGCACGCTAAAGA
**
23356516 AAAACGCGTCCAGGTCAGTGCGCTAAAGA
1 AAAACGCGTCCAGGTCAGCACGCTAAAGA
* * *
23356545 AAAACTCATCCTGGTCAGCA
1 AAAACGCGTCCAGGTCAGCA
23356565 TGTTCTTGCC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.35, C:0.27, G:0.23, T:0.15
Consensus pattern (29 bp):
AAAACGCGTCCAGGTCAGCACGCTAAAGA
Found at i:23356769 original size:78 final size:75
Alignment explanation
Indices: 23356625--23356768 Score: 168
Period size: 78 Copynumber: 1.9 Consensus size: 75
23356615 GGTTTATTAA
* * * *
23356625 ATTAGGGTTTTGGTGTTTTATTTAATTTTAAGTGTTTATTAATTGGTGTTTTAAGGTTTTAGAAA
1 ATTAGGGTTTTGGTGTTTTATTTAATTTTAAGTGTTCATAAATTAGTGATTTAAGGTTTTAGAAA
23356690 AATGGTTATT
66 AATGGTTATT
* *
23356700 ATTAGGGTTTTGG-GTTTTATTGTTAGGATTTTTAGTGTTCATAAATTAG-GATTTAGGGGTTTT
1 ATTAGGGTTTTGGTGTTTTA-T-TTA--ATTTTAAGTGTTCATAAATTAGTGATTTA-AGGTTTT
23356763 -GAAAAA
61 AGAAAAA
23356769 AAATTGATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
74 6 0.10
75 14 0.24
76 3 0.05
77 11 0.19
78 24 0.41
ACGTcount: A:0.26, C:0.01, G:0.24, T:0.50
Consensus pattern (75 bp):
ATTAGGGTTTTGGTGTTTTATTTAATTTTAAGTGTTCATAAATTAGTGATTTAAGGTTTTAGAAA
AATGGTTATT
Found at i:23356786 original size:26 final size:26
Alignment explanation
Indices: 23356756--23356822 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 26
23356746 TAGGATTTAG
*
23356756 GGGTTTTGAAAAAAAATTGATGAGAT
1 GGGTTTTGAAAAAAAATTGACGAGAT
**
23356782 GGGTTTTGAAATATAATTTTGACGAGAT
1 GGGTTTTGAAA-A-AAAATTGACGAGAT
23356810 -GGTTTTGAAAAAA
1 GGGTTTTGAAAAAA
23356823 TATCCCTACA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 2 0.06
26 12 0.33
27 11 0.31
28 11 0.31
ACGTcount: A:0.39, C:0.01, G:0.25, T:0.34
Consensus pattern (26 bp):
GGGTTTTGAAAAAAAATTGACGAGAT
Found at i:23361829 original size:19 final size:19
Alignment explanation
Indices: 23361805--23361843 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
23361795 GAGAATGTAT
23361805 ATGAGTAGTTCGCTCGAGG
1 ATGAGTAGTTCGCTCGAGG
23361824 ATGAGTAGTTCGCTCGAGG
1 ATGAGTAGTTCGCTCGAGG
23361843 A
1 A
23361844 CGTAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.26
Consensus pattern (19 bp):
ATGAGTAGTTCGCTCGAGG
Found at i:23367330 original size:22 final size:20
Alignment explanation
Indices: 23367290--23367330 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
23367280 AAATAATATA
*
23367290 TAAAAATAAATATATTTTTT
1 TAAAAATAAATATAATTTTT
23367310 TAAAAATATAATAATAATTTT
1 TAAAAATA-AAT-ATAATTTT
23367331 AACTTGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 3 0.17
22 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAAAATAAATATAATTTTT
Found at i:23386253 original size:15 final size:15
Alignment explanation
Indices: 23386235--23386276 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
23386225 GATTGTATCC
23386235 TTATTATTATATTAT-
1 TTATTATTAT-TTATA
23386250 TTATTATT-TTTATCA
1 TTATTATTATTTAT-A
23386265 TTATTATTATTT
1 TTATTATTATTT
23386277 TTTTATACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.17
14 1 0.04
15 16 0.67
16 3 0.12
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATTATTATTTATA
Found at i:23386276 original size:18 final size:18
Alignment explanation
Indices: 23386235--23386278 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
23386225 GATTGTATCC
*
23386235 TTATTATTATATTATTTA
1 TTATTTTTATATTATTTA
23386253 TTATTTTTATCATTA-TTA
1 TTATTTTTAT-ATTATTTA
23386271 TTATTTTT
1 TTATTTTT
23386279 TTATACATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATTTTTATATTATTTA
Found at i:23386332 original size:25 final size:24
Alignment explanation
Indices: 23386273--23386342 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
23386263 CATTATTATT
* *
23386273 ATTTTTT-T-ATACATATACACAC
1 ATTTTTTATAATACATATGCATAC
*
23386295 ATTTTTTATAATATATATGCATAC
1 ATTTTTTATAATACATATGCATAC
*
23386319 ATTTTTTATAAATACATGTGCATA
1 ATTTTTTAT-AATACATATGCATA
23386343 TTTTATATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
22 7 0.17
23 1 0.03
24 20 0.50
25 12 0.30
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.47
Consensus pattern (24 bp):
ATTTTTTATAATACATATGCATAC
Found at i:23386345 original size:23 final size:24
Alignment explanation
Indices: 23386281--23386351 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
23386271 TTATTTTTTT
* *
23386281 ATACATATACACACATTTTTTAT-A
1 ATACATATGCATA-ATTTTTTATAA
*
23386305 ATATATATGCATACATTTTTTATAA
1 ATACATATGCATA-ATTTTTTATAA
* *
23386330 ATACATGTGCAT-ATTTTATATA
1 ATACATATGCATAATTTTTTATA
23386352 TATATTTTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 9 0.22
24 20 0.50
25 11 0.28
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.45
Consensus pattern (24 bp):
ATACATATGCATAATTTTTTATAA
Found at i:23386373 original size:14 final size:14
Alignment explanation
Indices: 23386340--23386376 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
23386330 ATACATGTGC
23386340 ATATTTTA-TATAT
1 ATATTTTATTATAT
23386353 ATATTTTATTAT-T
1 ATATTTTATTATAT
23386366 ATTATTTTATT
1 A-TATTTTATT
23386377 TTCATAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
ATATTTTATTATAT
Found at i:23386422 original size:18 final size:17
Alignment explanation
Indices: 23386385--23386423 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
23386375 TTTTCATAGT
* *
23386385 TTTTATATACATTTATA
1 TTTTATATACATATACA
23386402 TTTTATAATACATATACA
1 TTTTAT-ATACATATACA
23386420 TTTT
1 TTTT
23386424 CCTTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTATATACATATACA
Found at i:23386620 original size:13 final size:12
Alignment explanation
Indices: 23386602--23386763 Score: 90
Period size: 12 Copynumber: 13.2 Consensus size: 12
23386592 TTTCAAAATT
23386602 TACTTATATATCA
1 TACTTATATAT-A
23386615 TACTTATATATA
1 TACTTATATATA
* * *
23386627 TACACATTTTGTAAA
1 T--AC-TTATATATA
* *
23386642 TACATATACATA
1 TACTTATATATA
* *
23386654 TACATATACATA
1 TACTTATATATA
* *
23386666 TACATATACATA
1 TACTTATATATA
* *
23386678 TACATATACATA
1 TACTTATATATA
* *
23386690 TACATATACATA
1 TACTTATATATA
* *
23386702 TACATATACATA
1 TACTTATATATA
* *
23386714 TACATATACATA
1 TACTTATATATA
*
23386726 TACATATATATA
1 TACTTATATATA
* *
23386738 TACATATACATA
1 TACTTATATATA
* *
23386750 TACATATACATA
1 TACTTATATATA
23386762 TA
1 TA
23386764 ATTCATATTA
Statistics
Matches: 136, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
12 114 0.84
13 13 0.10
14 2 0.01
15 7 0.05
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.37
Consensus pattern (12 bp):
TACTTATATATA
Found at i:23386652 original size:6 final size:6
Alignment explanation
Indices: 23386641--23386763 Score: 237
Period size: 6 Copynumber: 20.5 Consensus size: 6
23386631 CATTTTGTAA
23386641 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
*
23386689 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATATAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
23386737 ATACAT ATACAT ATACAT ATACAT ATA
1 ATACAT ATACAT ATACAT ATACAT ATA
23386764 ATTCATATTA
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 115 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.34
Consensus pattern (6 bp):
ATACAT
Found at i:23399049 original size:50 final size:50
Alignment explanation
Indices: 23398981--23399098 Score: 139
Period size: 50 Copynumber: 2.4 Consensus size: 50
23398971 AAGATACCAG
* * * * *
23398981 TCTTATCGCCTTGACGTTGCAATGGAATAGATTGAAGCCACAACGGCGAA
1 TCTTATCTCCCTGGCGTTGCAACGGAACAGATTGAAGCCACAACGGCGAA
* * * *
23399031 TCTTA-CTTCCCTGGCGTTGCAGCGGAGCAGATTGAAGCCACAATGGTGAA
1 TCTTATC-TCCCTGGCGTTGCAACGGAACAGATTGAAGCCACAACGGCGAA
23399081 TCTTATCTCCCTGGCGTT
1 TCTTATCTCCCTGGCGTT
23399099 AAGGCTTGGA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
49 1 0.02
50 55 0.96
51 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.27
Consensus pattern (50 bp):
TCTTATCTCCCTGGCGTTGCAACGGAACAGATTGAAGCCACAACGGCGAA
Found at i:23399230 original size:50 final size:50
Alignment explanation
Indices: 23399167--23399433 Score: 205
Period size: 50 Copynumber: 5.4 Consensus size: 50
23399157 TTTGGCATTA
* * * *
23399167 CAGTGGAATAGATTGAAGCCACAATGGCGGATCTTACCTCCCTGGCGGTG
1 CAGTGGAACAGATTGAAGCCACAACGGTGAATCTTACCTCCCTGGCGGTG
* * * *** * * **
23399217 TAGTGGAACAGATTGAAGTCACGACGGTGAAT-TTTGTTTCCTCGACATTG
1 CAGTGGAACAGATTGAAGCCACAACGGTGAATCTTACCTCCCT-GGCGGTG
** * * * *
23399267 CAGTTAAATAGATTAAAGCCACAAAGGCGAATCTTACCTCCCTGGCGGTG
1 CAGTGGAACAGATTGAAGCCACAACGGTGAATCTTACCTCCCTGGCGGTG
* *** * * **
23399317 CAGTGGAAC-GATTGAAGTCACAACGGTGAATCTTGTTTCCCCGACATTG
1 CAGTGGAACAGATTGAAGCCACAACGGTGAATCTTACCTCCCTGGCGGTG
** * * *
23399366 CAGTTAAATAGATTGAAGCCACAATGGTGAATCTTACCTCCCTGGAGGTG
1 CAGTGGAACAGATTGAAGCCACAACGGTGAATCTTACCTCCCTGGCGGTG
*
23399416 TAGTGGAACAGATTGAAG
1 CAGTGGAACAGATTGAAG
23399434 TCACGATGAC
Statistics
Matches: 153, Mismatches: 61, Indels: 6
0.70 0.28 0.03
Matches are distributed among these distances:
49 41 0.27
50 106 0.69
51 6 0.04
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (50 bp):
CAGTGGAACAGATTGAAGCCACAACGGTGAATCTTACCTCCCTGGCGGTG
Found at i:23399373 original size:99 final size:100
Alignment explanation
Indices: 23399173--23399483 Score: 480
Period size: 100 Copynumber: 3.1 Consensus size: 100
23399163 ATTACAGTGG
*
23399173 AATAGATTGAAGCCACAATGGCGGATCTTACCTCCCTGGCGGTGTAGTGGAACAGATTGAAGTCA
1 AATAGATTGAAGCCACAATGGCGAATCTTACCTCCCTGGCGGTGTAGTGGAACAGATTGAAGTCA
* *
23399238 CGACGGTGAATTTTGTTTCCTCGACATTGCAGTTA
66 CGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * *
23399273 AATAGATTAAAGCCACAAAGGCGAATCTTACCTCCCTGGCGGTGCAGTGGAAC-GATTGAAGTCA
1 AATAGATTGAAGCCACAATGGCGAATCTTACCTCCCTGGCGGTGTAGTGGAACAGATTGAAGTCA
*
23399337 CAACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
66 CGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* *
23399372 AATAGATTGAAGCCACAATGGTGAATCTTACCTCCCTGGAGGTGTAGTGGAACAGATTGAAGTCA
1 AATAGATTGAAGCCACAATGGCGAATCTTACCTCCCTGGCGGTGTAGTGGAACAGATTGAAGTCA
* ** *
23399437 CGATGACGAATCTTGTTTCCCTGACATTGCAGTTA
66 CGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* *
23399472 AACAAATTGAAG
1 AATAGATTGAAG
23399484 AAAATAATCT
Statistics
Matches: 191, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
99 91 0.48
100 100 0.52
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (100 bp):
AATAGATTGAAGCCACAATGGCGAATCTTACCTCCCTGGCGGTGTAGTGGAACAGATTGAAGTCA
CGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
Found at i:23399481 original size:50 final size:50
Alignment explanation
Indices: 23399245--23399483 Score: 151
Period size: 50 Copynumber: 4.8 Consensus size: 50
23399235 TCACGACGGT
* * * * *
23399245 GAATTTTGTTT-CCTCGACATTGCAGTTAAATAGATTAAAGCCACAAAGGC
1 GAATCTTGTTTCCCT-GACATTGCAGTTAAACAGATTGAAGCCACAATGAC
*** * ** ** * * **
23399295 GAATCTTACCTCCCTGGCGGTGCAGTGGAAC-GATTGAAGTCACAACGGT
1 GAATCTTGTTTCCCTGACATTGCAGTTAAACAGATTGAAGCCACAATGAC
* * **
23399344 GAATCTTGTTTCCCCGACATTGCAGTTAAATAGATTGAAGCCACAATGGT
1 GAATCTTGTTTCCCTGACATTGCAGTTAAACAGATTGAAGCCACAATGAC
*** ** * ** * *
23399394 GAATCTTACCTCCCTGGA-GGTGTAGTGGAACAGATTGAAGTCACGATGAC
1 GAATCTTGTTTCCCT-GACATTGCAGTTAAACAGATTGAAGCCACAATGAC
*
23399444 GAATCTTGTTTCCCTGACATTGCAGTTAAACAAATTGAAG
1 GAATCTTGTTTCCCTGACATTGCAGTTAAACAGATTGAAG
23399484 AAAATAATCT
Statistics
Matches: 136, Mismatches: 49, Indels: 8
0.70 0.25 0.04
Matches are distributed among these distances:
49 37 0.27
50 94 0.69
51 5 0.04
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (50 bp):
GAATCTTGTTTCCCTGACATTGCAGTTAAACAGATTGAAGCCACAATGAC
Found at i:23399538 original size:42 final size:42
Alignment explanation
Indices: 23399490--23399795 Score: 188
Period size: 42 Copynumber: 7.2 Consensus size: 42
23399480 GAAGAAAATA
* *
23399490 ATCTTATCTCCCTGAAGTTATAGTGGAGCGGATTAAAATCAG
1 ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAATCAG
** * * ** *** *
23399532 ATCTTATCTTTCTAAAGTTGCAGAAGAGCAGATCGCATTCAG
1 ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAATCAG
** *
23399574 -TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGAAAATA
1 ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAA-ATCA-G
* * * *
23399617 ATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAACATCAG
1 ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAATCAG
** * ** ***
23399659 ATCTTATCTCTTTGAAGTTGCAGAAGAGCAGA-TCGCATCCAG
1 ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAAT-CAG
* * * * ** *
23399701 -TCTTATCTCTCTGAAGTTGCAGTGGAGTAAATTGAAAAAAATA
1 ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATT-AAAATCA-G
* ** *
23399744 ATCTTATTTCCCTGAAGTTACAGTGGAGCAGATTAAAAAT-GG
1 ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATT-AAAATCAG
23399786 ATCTTATCTC
1 ATCTTATCTC
23399796 TATGAATTGC
Statistics
Matches: 193, Mismatches: 63, Indels: 16
0.71 0.23 0.06
Matches are distributed among these distances:
41 57 0.30
42 69 0.36
43 3 0.02
44 64 0.33
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (42 bp):
ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAATCAG
Found at i:23399591 original size:41 final size:42
Alignment explanation
Indices: 23399528--23399722 Score: 128
Period size: 41 Copynumber: 4.6 Consensus size: 42
23399518 CGGATTAAAA
* * *
23399528 TCAGATCTTATCTTTCTAAAGTTGCAGAAGAGCAGA-TCGCAT
1 TCAG-TCTTATCTCTCTGAAGTTGCAGAAGAGCAGATTAGCAT
* * ** * *
23399570 TCAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGAAAA
1 TCAGTCTTATCTCTCTGAAGTTGCAGAAGAGCAGATT--AG-CAT
* * * * * ** * *
23399615 T-AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAACA-
1 TCAGTCTTATCTCTCTGAAGTTGCAGAAGAGCAGATTAGCAT
* *
23399655 TCAGATCTTATCTCTTTGAAGTTGCAGAAGAGCAGA-TCGCAT
1 TCAG-TCTTATCTCTCTGAAGTTGCAGAAGAGCAGATTAGCAT
*
23399697 CCAGTCTTATCTCTCTGAAGTTGCAG
1 TCAGTCTTATCTCTCTGAAGTTGCAG
23399723 TGGAGTAAAT
Statistics
Matches: 118, Mismatches: 28, Indels: 15
0.73 0.17 0.09
Matches are distributed among these distances:
40 1 0.01
41 51 0.43
42 32 0.27
44 32 0.27
45 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (42 bp):
TCAGTCTTATCTCTCTGAAGTTGCAGAAGAGCAGATTAGCAT
Found at i:23399680 original size:127 final size:128
Alignment explanation
Indices: 23399474--23399820 Score: 481
Period size: 127 Copynumber: 2.7 Consensus size: 128
23399464 TGCAGTTAAA
23399474 CAAATTG-AAGAAAATAATCTTATCTCCCTGAAGTTATAGTGGAGCGGATTAAAATCAGATCTTA
1 CAAATTGAAAGAAAATAATCTTATCTCCCTGAAGTTATAGTGGAGCGGATTAAAATCAGATCTTA
* * *
23399538 TCT-TTCTAAAGTTGCAGAAGAGCAGATCGCATTCAGTCTTATCTCCCTGAAGTTGTAGTGGAG
66 TCTCTT-TGAAGTTGCAGAAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* * * * *
23399601 CAGATT-AAAGAAAATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAACATCAGATCTTA
1 CAAATTGAAAGAAAATAATCTTATCTCCCTGAAGTTATAGTGGAGCGGATTAAAATCAGATCTTA
*
23399665 TCTCTTTGAAGTTGCAGAAGAGCAGATCGCATCCAGTCTTATCTCTCTGAAGTTGCAGTGGAG
66 TCTCTTTGAAGTTGCAGAAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAG
* * * * *
23399728 TAAATTGAAA-AAAATAATCTTATTTCCCTGAAGTTACAGTGGAGCAGATTAAAAAT-GGATCTT
1 CAAATTGAAAGAAAATAATCTTATCTCCCTGAAGTTATAGTGGAGCGGATT-AAAATCAGATCTT
* * *
23399791 ATCTCTATGAA-TTGCAGTAGAGCAGGTCGC
65 ATCTCTTTGAAGTTGCAGAAGAGCAGATCGC
23399821 GTCAAACCTA
Statistics
Matches: 194, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
126 17 0.09
127 168 0.87
128 9 0.05
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (128 bp):
CAAATTGAAAGAAAATAATCTTATCTCCCTGAAGTTATAGTGGAGCGGATTAAAATCAGATCTTA
TCTCTTTGAAGTTGCAGAAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAG
Found at i:23401228 original size:22 final size:23
Alignment explanation
Indices: 23401196--23401248 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
23401186 TTTATTATTA
*
23401196 TTATACATATATA-CACGCATTTT
1 TTATA-ATATATAGCACACATTTT
*
23401219 TTATAATATATATGCATACATTTT
1 TTATAATATATA-GCACACATTTT
23401243 TTATAA
1 TTATAA
23401249 ATACATGTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 7 0.27
23 5 0.19
24 14 0.54
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (23 bp):
TTATAATATATAGCACACATTTT
Found at i:23401251 original size:25 final size:24
Alignment explanation
Indices: 23401213--23401261 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
23401203 TATATACACG
*
23401213 CATTTTTTATAATATATATGCATA
1 CATTTTTTATAATACATATGCATA
*
23401237 CATTTTTTATAAATACATGTGCATA
1 CATTTTTTAT-AATACATATGCATA
23401262 TTTTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (24 bp):
CATTTTTTATAATACATATGCATA
Found at i:23401264 original size:23 final size:24
Alignment explanation
Indices: 23401214--23401270 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
23401204 ATATACACGC
*
23401214 ATTTTTTAT-AATATATATGCATA
1 ATTTTTTATAAATACATATGCATA
*
23401237 CATTTTTTATAAATACATGTGCAT-
1 -ATTTTTTATAAATACATATGCATA
*
23401261 ATTTTATATA
1 ATTTTTTATA
23401271 TATTTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.31
24 9 0.31
25 11 0.38
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (24 bp):
ATTTTTTATAAATACATATGCATA
Found at i:23401338 original size:18 final size:17
Alignment explanation
Indices: 23401301--23401339 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
23401291 TTTTCATAAT
* *
23401301 TTTTATATACATTTATA
1 TTTTATATACATATACA
23401318 TTTTATAATACATATACA
1 TTTTAT-ATACATATACA
23401336 TTTT
1 TTTT
23401340 CCTTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTATATACATATACA
Found at i:23402191 original size:15 final size:16
Alignment explanation
Indices: 23402173--23402213 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
23402163 GATTGTATCC
23402173 TTATTATTATATTAT-
1 TTATTATTATATTATA
23402188 TTATTATT-T-TTATCA
1 TTATTATTATATTAT-A
23402203 TTATTATTATA
1 TTATTATTATA
23402214 CATATACACA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.18
14 1 0.05
15 16 0.73
16 1 0.05
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATTATTATATTATA
Found at i:23402271 original size:25 final size:24
Alignment explanation
Indices: 23402206--23402273 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 24
23402196 TTTATCATTA
* * *
23402206 TTATTATACATATACACACATTTTT
1 TTATAATACATATGCATACA-TTTT
*
23402231 TTATAATATATATGCATACATTTT
1 TTATAATACATATGCATACATTTT
*
23402255 TTATAAATACATGTGCATA
1 TTAT-AATACATATGCATA
23402274 TTTTATATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
24 8 0.22
25 28 0.78
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (24 bp):
TTATAATACATATGCATACATTTT
Found at i:23402276 original size:23 final size:24
Alignment explanation
Indices: 23402227--23402282 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 24
23402217 ATACACACAT
*
23402227 TTTTTTAT-AATATATATGCATACA
1 TTTTTTATAAATACATATGCATA-A
*
23402251 TTTTTTATAAATACATGTGCAT-A
1 TTTTTTATAAATACATATGCATAA
*
23402274 TTTTATATA
1 TTTTTTATA
23402283 TATATATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 9 0.32
24 8 0.29
25 11 0.39
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (24 bp):
TTTTTTATAAATACATATGCATAA
Found at i:23402351 original size:18 final size:17
Alignment explanation
Indices: 23402314--23402352 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
23402304 TTTTCATAAT
* *
23402314 TTTTATATACATTTATA
1 TTTTATATACATATACA
23402331 TTTTATAATACATATACA
1 TTTTAT-ATACATATACA
23402349 TTTT
1 TTTT
23402353 CCTTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTATATACATATACA
Found at i:23404178 original size:32 final size:31
Alignment explanation
Indices: 23404128--23404223 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
23404118 CTTAGATAAT
23404128 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
23404159 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
23404191 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
23404222 TT
1 TT
23404224 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:23404790 original size:11 final size:11
Alignment explanation
Indices: 23404774--23404861 Score: 68
Period size: 11 Copynumber: 8.7 Consensus size: 11
23404764 TTTAAATAAA
23404774 AGCAAAAAAAC
1 AGCAAAAAAAC
23404785 AGC--AAAAAC
1 AGCAAAAAAAC
23404794 AGCAAAAAAA-
1 AGCAAAAAAAC
23404804 A-C-AAAAAA-
1 AGCAAAAAAAC
23404812 AGCAAAAAAAGC
1 AGCAAAAAAA-C
*
23404824 -GCAAAAAAAG
1 AGCAAAAAAAC
* *
23404834 AG-TAAAAAGC
1 AGCAAAAAAAC
*
23404844 -GCAAAAAAAA
1 AGCAAAAAAAC
23404854 AGCAAAAA
1 AGCAAAAA
23404862 GCAAAAAAGC
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
8 7 0.11
9 12 0.20
10 17 0.28
11 25 0.41
ACGTcount: A:0.73, C:0.14, G:0.12, T:0.01
Consensus pattern (11 bp):
AGCAAAAAAAC
Found at i:23404791 original size:9 final size:9
Alignment explanation
Indices: 23404771--23404880 Score: 73
Period size: 9 Copynumber: 11.4 Consensus size: 9
23404761 TTCTTTAAAT
23404771 AAAAGCAAAA
1 AAAAGC-AAA
23404781 AAACAGCAAA
1 AAA-AGCAAA
*
23404791 AACAGCAAA
1 AAAAGCAAA
*
23404800 AAAAACAAA
1 AAAAGCAAA
23404809 AAAAGCAAA
1 AAAAGCAAA
23404818 AAAAGCGCAAA
1 AAAA--GCAAA
23404829 AAAAG-AGTAA
1 AAAAGCA--AA
*
23404839 AAAGCGCAAA
1 AAA-AGCAAA
23404849 AAAA--AAGCA
1 AAAAGCAA--A
23404858 AAAAGCAAA
1 AAAAGCAAA
*
23404867 AAAGCGCAAA
1 AAA-AGCAAA
23404877 AAAA
1 AAAA
23404881 AAAGTTGCCT
Statistics
Matches: 80, Mismatches: 8, Indels: 25
0.71 0.07 0.22
Matches are distributed among these distances:
7 2 0.03
8 1 0.01
9 35 0.44
10 26 0.32
11 15 0.19
12 1 0.01
ACGTcount: A:0.73, C:0.14, G:0.13, T:0.01
Consensus pattern (9 bp):
AAAAGCAAA
Found at i:23404799 original size:20 final size:20
Alignment explanation
Indices: 23404771--23404833 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
23404761 TTCTTTAAAT
23404771 AAAAGCAAAAAAACAGCAAA
1 AAAAGCAAAAAAACAGCAAA
*
23404791 AACAGCAAAAAAA-A-CAAA
1 AAAAGCAAAAAAACAGCAAA
23404809 AAAAGCAAAAAAAGC-GCAAA
1 AAAAGCAAAAAAA-CAGCAAA
23404829 AAAAG
1 AAAAG
23404834 AGTAAAAAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 16 0.42
19 1 0.03
20 21 0.55
ACGTcount: A:0.75, C:0.14, G:0.11, T:0.00
Consensus pattern (20 bp):
AAAAGCAAAAAAACAGCAAA
Found at i:23404840 original size:20 final size:20
Alignment explanation
Indices: 23404806--23404863 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
23404796 CAAAAAAAAC
23404806 AAAAAAAGCAAAAAAAGCGCAA
1 AAAAAAAGC--AAAAAGCGCAA
* *
23404828 AAAAAGAGTAAAAAGCGCAA
1 AAAAAAAGCAAAAAGCGCAA
23404848 AAAAAAAGCAAAAAGC
1 AAAAAAAGCAAAAAGC
23404864 AAAAAAGCGC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 25 0.78
22 7 0.22
ACGTcount: A:0.71, C:0.12, G:0.16, T:0.02
Consensus pattern (20 bp):
AAAAAAAGCAAAAAGCGCAA
Found at i:23404841 original size:49 final size:48
Alignment explanation
Indices: 23404775--23404880 Score: 144
Period size: 49 Copynumber: 2.2 Consensus size: 48
23404765 TTAAATAAAA
23404775 GCAAAAAAACAGCAAAAA-CAGCAAAAAAAACA-AAAAAAGCAAAAAAAGC
1 GCAAAAAAACAGCAAAAAGC-GCAAAAAAAA-AGAAAAAAGC-AAAAAAGC
* * *
23404824 GCAAAAAAAGAGTAAAAAGCGCAAAAAAAAAGCAAAAAGCAAAAAAGC
1 GCAAAAAAACAGCAAAAAGCGCAAAAAAAAAGAAAAAAGCAAAAAAGC
23404872 GCAAAAAAA
1 GCAAAAAAA
23404881 AAAGTTGCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
48 18 0.35
49 33 0.63
50 1 0.02
ACGTcount: A:0.72, C:0.14, G:0.13, T:0.01
Consensus pattern (48 bp):
GCAAAAAAACAGCAAAAAGCGCAAAAAAAAAGAAAAAAGCAAAAAAGC
Found at i:23404869 original size:20 final size:20
Alignment explanation
Indices: 23404788--23404869 Score: 60
Period size: 20 Copynumber: 4.1 Consensus size: 20
23404778 AAAAAACAGC
* *
23404788 AAAAACAGCAAAAA--AAAC
1 AAAAAAAGCAAAAAGCAAAA
**
23404806 AAAAAAAGCAAAAAAAGCGCAA
1 AAAAAAAGC--AAAAAGCAAAA
* * **
23404828 AAAAAGAGTAAAAAGCGCAA
1 AAAAAAAGCAAAAAGCAAAA
23404848 AAAAAAAGCAAAAAGCAAAA
1 AAAAAAAGCAAAAAGCAAAA
23404868 AA
1 AA
23404870 GCGCAAAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
18 8 0.16
20 34 0.68
22 8 0.16
ACGTcount: A:0.74, C:0.12, G:0.12, T:0.01
Consensus pattern (20 bp):
AAAAAAAGCAAAAAGCAAAA
Found at i:23404881 original size:20 final size:19
Alignment explanation
Indices: 23404771--23404852 Score: 78
Period size: 20 Copynumber: 4.2 Consensus size: 19
23404761 TTCTTTAAAT
*
23404771 AAAAGCAAAAAAACAGCAAA
1 AAAAGCAAAAAAGC-GCAAA
* **
23404791 AACAGCAAAAAA-AACAAA
1 AAAAGCAAAAAAGCGCAAA
23404809 AAAAGCAAAAAAAGCGCAAA
1 AAAAGC-AAAAAAGCGCAAA
23404829 AAAAG-AGTAAAAAGCGCAAA
1 AAAAGCA--AAAAAGCGCAAA
23404849 AAAA
1 AAAA
23404853 AAGCAAAAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
18 10 0.19
19 6 0.12
20 36 0.69
ACGTcount: A:0.73, C:0.13, G:0.12, T:0.01
Consensus pattern (19 bp):
AAAAGCAAAAAAGCGCAAA
Found at i:23409852 original size:32 final size:31
Alignment explanation
Indices: 23409804--23409899 Score: 156
Period size: 31 Copynumber: 3.1 Consensus size: 31
23409794 CTTAGATAAT
* *
23409804 TTTAAAGAATTTTATTAGGACTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
23409835 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
23409867 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
23409898 TT
1 TT
23409900 GTAATTTGCC
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
31 32 0.52
32 29 0.48
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.45
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:23415668 original size:25 final size:26
Alignment explanation
Indices: 23415640--23415693 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
23415630 ATCCATTACT
*
23415640 TTTTTAAT-AAAATAAATCACTAA-AA
1 TTTTAAATAAAAATAAATCAC-AATAA
*
23415665 TTTTAAATAAAAATAATTCACAATAA
1 TTTTAAATAAAAATAAATCACAATAA
23415691 TTT
1 TTT
23415694 GTCCTTTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (26 bp):
TTTTAAATAAAAATAAATCACAATAA
Found at i:23418855 original size:12 final size:13
Alignment explanation
Indices: 23418825--23418855 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
23418815 CCAATTAAAT
23418825 AACCTAGCCCAAC
1 AACCTAGCCCAAC
23418838 AACCTAGCCCAA-
1 AACCTAGCCCAAC
23418850 AACCTA
1 AACCTA
23418856 AATGGCCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.42, C:0.42, G:0.06, T:0.10
Consensus pattern (13 bp):
AACCTAGCCCAAC
Found at i:23419622 original size:11 final size:11
Alignment explanation
Indices: 23419606--23419633 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
23419596 AAGGTGTTTT
23419606 AGCGCCAAAAC
1 AGCGCCAAAAC
23419617 AGCGCCAAAAC
1 AGCGCCAAAAC
23419628 AGCGCC
1 AGCGCC
23419634 GTTCTGCGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.39, G:0.21, T:0.00
Consensus pattern (11 bp):
AGCGCCAAAAC
Found at i:23419973 original size:3 final size:3
Alignment explanation
Indices: 23419956--23420063 Score: 85
Period size: 3 Copynumber: 34.7 Consensus size: 3
23419946 TCAGCCTTTT
* * **
23419956 TTA TTA TTT TCTA TTA TTA TTA TTT TCTA TTA TTA TTA TTA TTA CCA
1 TTA TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * *
23420003 TTA TTA TTA TTA TTA TTAA TCA TTA TTA GTT- TTA TTT TTC TT- TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA -TTA TTA TTA TTA TTA TTA
23420048 TTTA TTCA TTA TTA TT
1 -TTA TT-A TTA TTA TT
23420064 GTGATAATAT
Statistics
Matches: 85, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
2 4 0.05
3 67 0.79
4 14 0.16
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:23419977 original size:16 final size:16
Alignment explanation
Indices: 23419956--23420013 Score: 89
Period size: 16 Copynumber: 3.5 Consensus size: 16
23419946 TCAGCCTTTT
23419956 TTATTATTTTCTATTA
1 TTATTATTTTCTATTA
23419972 TTATTATTTTCTATTA
1 TTATTATTTTCTATTA
*
23419988 TTATTATTATTACCATTA
1 TTATTATT-TT-CTATTA
23420006 TTATTATT
1 TTATTATT
23420014 ATTATTAATC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
16 24 0.62
17 2 0.05
18 13 0.33
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATTATTTTCTATTA
Found at i:23420038 original size:31 final size:31
Alignment explanation
Indices: 23419971--23420030 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
23419961 ATTTTCTATT
* *
23419971 ATTATTATTTTCTATTATT-ATTATTATTACC
1 ATTATTATTAT-TATTATTAATCATTATTACC
23420002 ATTATTATTATTATTATTAATCATTATTA
1 ATTATTATTATTATTATTAATCATTATTA
23420031 GTTTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (31 bp):
ATTATTATTATTATTATTAATCATTATTACC
Found at i:23420091 original size:15 final size:16
Alignment explanation
Indices: 23420071--23420104 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23420061 ATTGTGATAA
23420071 TATATTA-ATTAGTTT
1 TATATTATATTAGTTT
*
23420086 TATATTATTTTAGTTT
1 TATATTATATTAGTTT
23420102 TAT
1 TAT
23420105 TTTTATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TATATTATATTAGTTT
Found at i:23420237 original size:47 final size:47
Alignment explanation
Indices: 23420147--23420237 Score: 105
Period size: 47 Copynumber: 1.9 Consensus size: 47
23420137 TGCCCGTACA
* *
23420147 TATATATATATTATTTTATAATATTTACACATACCTACATACATGTT
1 TATATATATATTATTTTATAATATATACACATACATACATACATGTT
* * *
23420194 TATATATAT-TTCATTTTCATAA-ATATACATATATATACTTACAT
1 TATATATATATT-ATTTT-ATAATATATACACATACATACATACAT
23420238 ATTCTTTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
46 2 0.05
47 31 0.84
48 4 0.11
ACGTcount: A:0.40, C:0.12, G:0.01, T:0.47
Consensus pattern (47 bp):
TATATATATATTATTTTATAATATATACACATACATACATACATGTT
Found at i:23422773 original size:20 final size:20
Alignment explanation
Indices: 23422744--23422787 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
23422734 GCCTAGGTCG
* *
23422744 TGTGGAGGTCGACATGCCCA
1 TGTGGAGGTCGAAACGCCCA
* *
23422764 TGTGGTGGTCTAAACGCCCA
1 TGTGGAGGTCGAAACGCCCA
23422784 TGTG
1 TGTG
23422788 CAAGCTGCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.18, C:0.23, G:0.34, T:0.25
Consensus pattern (20 bp):
TGTGGAGGTCGAAACGCCCA
Found at i:23425253 original size:41 final size:41
Alignment explanation
Indices: 23425202--23425383 Score: 145
Period size: 41 Copynumber: 4.4 Consensus size: 41
23425192 TTTAAACAAA
* * ** *
23425202 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCCG
1 TTCACCGGCACTT-AGCCTGATAGGCCTATAGCCTAATTCAG
* *
23425243 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGATAGGCCTATAGCCTAATTCAG
* * * * * *
23425284 TTCACCGGCACTTAGCCTGCTAAGCTTGTAGCCTGATTCAA
1 TTCACCGGCACTTAGCCTGATAGGCCTATAGCCTAATTCAG
* * * * *
23425325 CTCACCGGCACTTAGCCTGCT-GGACGTATAGTCC-GATTCAA
1 TTCACCGGCACTTAGCCTGATAGG-CCTATAG-CCTAATTCAG
*
23425366 TTCACCGGCAATTAGCCT
1 TTCACCGGCACTTAGCCT
23425384 ACTAGACGTA
Statistics
Matches: 121, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
40 2 0.02
41 117 0.97
42 2 0.02
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGATAGGCCTATAGCCTAATTCAG
Found at i:23425392 original size:41 final size:41
Alignment explanation
Indices: 23425243--23425401 Score: 196
Period size: 41 Copynumber: 3.9 Consensus size: 41
23425233 TTTAATTCCG
* * *
23425243 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAA
* *
23425284 TTCACCGGCACTTAGCCTGCTA-AGCTTGTAGCCTGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGA-CGTATAGCCTGATTCAA
* *
23425325 CTCACCGGCACTTAGCCTGCTGGACGTATAGTCC-GATTCAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAG-CCTGATTCAA
* * *
23425366 TTCACCGGCAATTAGCCTACTAGACGTATAGTCTGA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGA
23425402 ATAATTTCAC
Statistics
Matches: 101, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
40 1 0.01
41 97 0.96
42 3 0.03
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAA
Found at i:23430720 original size:61 final size:59
Alignment explanation
Indices: 23430655--23430781 Score: 150
Period size: 61 Copynumber: 2.1 Consensus size: 59
23430645 TGATCTTAAA
* ** *
23430655 TCTAAAAAATTCAGCAAATTTAACCTTCAATGTTTACAAAA-TTTGTCATGTTAGTT-TGAAT
1 TCTAAAAAATTCAACAAATTTAACC-TCAACATTTACAAAAGTTT-TCA-ATTAGTTCT-AAT
* *
23430716 TCTAAAAAGTTCAATAAATTTAACCTCAACATTTACAAAAGTTTTCAATTAGTTCTAAT
1 TCTAAAAAATTCAACAAATTTAACCTCAACATTTACAAAAGTTTTCAATTAGTTCTAAT
23430775 TCTAAAA
1 TCTAAAA
23430782 TTTAAAAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
59 16 0.28
60 17 0.29
61 25 0.43
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (59 bp):
TCTAAAAAATTCAACAAATTTAACCTCAACATTTACAAAAGTTTTCAATTAGTTCTAAT
Found at i:23434798 original size:19 final size:19
Alignment explanation
Indices: 23434774--23434812 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
23434764 TTCTAAAATG
23434774 TACGGCTTGCGACCTAGGA
1 TACGGCTTGCGACCTAGGA
23434793 TACGGCTTGCGACCTAGGA
1 TACGGCTTGCGACCTAGGA
23434812 T
1 T
23434813 CCCTTTGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.26, G:0.31, T:0.23
Consensus pattern (19 bp):
TACGGCTTGCGACCTAGGA
Found at i:23439499 original size:16 final size:16
Alignment explanation
Indices: 23439478--23439508 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23439468 ATATAATAAA
*
23439478 TATTTTTTTTATTTTT
1 TATTTTTTTAATTTTT
23439494 TATTTTTTTAATTTT
1 TATTTTTTTAATTTT
23439509 AAAATATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (16 bp):
TATTTTTTTAATTTTT
Found at i:23439521 original size:11 final size:11
Alignment explanation
Indices: 23439505--23439530 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23439495 ATTTTTTTAA
23439505 TTTTAAAATAT
1 TTTTAAAATAT
23439516 TTTTAAAATAT
1 TTTTAAAATAT
23439527 TTTT
1 TTTT
23439531 TTTATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:23439543 original size:27 final size:28
Alignment explanation
Indices: 23439513--23439565 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
23439503 AATTTTAAAA
23439513 TATTTTTAAAAT-ATTTTTTTTATTTTT
1 TATTTTTAAAATAATTTTTTTTATTTTT
23439540 TATTTTTAAAATAATTTTTTTTATTT
1 TATTTTTAAAATAATTTTTTTTATTT
23439566 ATTAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (28 bp):
TATTTTTAAAATAATTTTTTTTATTTTT
Found at i:23439597 original size:15 final size:16
Alignment explanation
Indices: 23439577--23439606 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23439567 TTAAAAAAAT
23439577 AGGCCGGGC-CGGGCC
1 AGGCCGGGCTCGGGCC
23439592 AGGCCGGGCTCGGGC
1 AGGCCGGGCTCGGGC
23439607 TTAAAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.37, G:0.53, T:0.03
Consensus pattern (16 bp):
AGGCCGGGCTCGGGCC
Found at i:23441105 original size:19 final size:19
Alignment explanation
Indices: 23441069--23441123 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
23441059 TTATAATTCT
*
23441069 TTTTTGAAAT-TTTAGAAT-
1 TTTTT-AAATATTTTGAATA
23441087 TTTTATAAATATTTTGAATA
1 TTTT-TAAATATTTTGAATA
* *
23441107 TTTTTAATTTTTTTGAA
1 TTTTTAAATATTTTGAA
23441124 GAGATTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 8 0.26
19 19 0.61
20 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (19 bp):
TTTTTAAATATTTTGAATA
Found at i:23450136 original size:24 final size:24
Alignment explanation
Indices: 23450109--23450156 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
23450099 TTATACTATA
23450109 CTTAATAACTTA-TGTAATAATTCT
1 CTTAATAACTTACT-TAATAATTCT
*
23450133 CTTAATAATTTACTTAATAATTCT
1 CTTAATAACTTACTTAATAATTCT
23450157 TTCTTCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (24 bp):
CTTAATAACTTACTTAATAATTCT
Found at i:23450138 original size:12 final size:13
Alignment explanation
Indices: 23450123--23450156 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
23450113 ATAACTTATG
23450123 TAATAATTCT-CT
1 TAATAATTCTACT
23450135 TAATAATT-TACT
1 TAATAATTCTACT
23450147 TAATAATTCT
1 TAATAATTCT
23450157 TTCTTCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 1 0.05
12 18 0.90
13 1 0.05
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (13 bp):
TAATAATTCTACT
Found at i:23456816 original size:84 final size:84
Alignment explanation
Indices: 23456718--23457436 Score: 951
Period size: 84 Copynumber: 8.5 Consensus size: 84
23456708 GATTGATTTT
* *
23456718 TTTCGTTTGCTCCACTACTTCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAG
1 TTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAG
23456783 GGAGATAAGATCTGGTTTC
66 GGAGATAAGATCTGGTTTC
*
23456802 TTTCGTCTGCTCCACTACTTCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAG
1 TTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAG
*
23456867 GGAGATAAGATCTGGTTTT
66 GGAGATAAGATCTGGTTTC
* *
23456886 TTTCGTCTGCTCTACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTGG
1 TTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAG
23456951 GGAGATAAGATCTGGTTTC
66 GGAGATAAGATCTGGTTTC
23456970 TTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAG
1 TTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAG
23457035 GGAGATAAGATCTGGTTTC
66 GGAGATAAGATCTGGTTTC
*
23457054 TTTCGTCTGCTCCACTACTTCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAG
1 TTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAG
23457119 GGAGATAAGATCTGGTTTC
66 GGAGATAAGATCTGGTTTC
* * * * *
23457138 TTTCGTCTACTCCACTACTGCTTAGGGAGATAAGATTTGGTTTCTTTCG-TCTGCTCCACTACTT
1 TTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTT-G---ATGT-GATCTGCTCCACTACTG
* **
23457202 CTTAGGCAGATAAGA-C---TTGA
61 CTTAGGGAGATAAGATCTGGTTTC
* ** *
23457222 TGT-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCG-TCTGCTCCACTACT
1 TTTCG-TCTGCTCCACTACTGCTTAGGGAGATAAGA-C---TTGATGT-GATCTGCTCCACTACT
* **
23457285 TCTTAGGGAGATAAGA-C---TTGA
60 GCTTAGGGAGATAAGATCTGGTTTC
* ** *
23457306 TGT-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCG-TCTGCTCCACTACT
1 TTTCG-TCTGCTCCACTACTGCTTAGGGAGATAAGA-C---TTGATGT-GATCTGCTCCACTACT
23457369 GCTTAGGGAGATAAGATCTGGTTTC
60 GCTTAGGGAGATAAGATCTGGTTTC
*
23457394 TTTCGTCTGCTCCACTACTTCTTAGGGAGATAAGACTTGATGT
1 TTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGT
23457437 CTTCAACCAG
Statistics
Matches: 589, Mismatches: 31, Indels: 30
0.91 0.05 0.05
Matches are distributed among these distances:
83 1 0.00
84 517 0.88
85 2 0.00
87 2 0.00
88 65 0.11
89 2 0.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (84 bp):
TTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAG
GGAGATAAGATCTGGTTTC
Found at i:23456985 original size:128 final size:124
Alignment explanation
Indices: 23456763--23457437 Score: 810
Period size: 128 Copynumber: 5.3 Consensus size: 124
23456753 CTTGATGTGA
** * *
23456763 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTTCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C---TTGATGTCGTCTGCTCCACTACTGCTTAGG
*
23456828 GAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTTTTTCG
62 GAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCG
* *
23456891 TCTGCTCTACTACTGCTTAGGGAGATAAGACTTGATGT-GATCTGCTCCACTACTGCTTGGGGAG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTCG-TCTGCTCCACTACTGCTTAGGGAG
** * ** *
23456955 ATAAGATCTGGTTTCTTTCG-TCTGCTCCACTACTGCTTAGGGAGATAAGA-C---TTGATGT-G
65 ATAAGA-C---TTGATGT-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCG
** * *
23457014 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTTCTTAG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGA-C---TTGATGTCGTCTGCTCCACTACTGCTTAG
23457079 GGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCG
61 GGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCG
* * * * *
23457143 TCTACTCCACTACTGCTTAGGGAGATAAGATTTGGTTTCTTTCGTCTGCTCCACTACTTCTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTT-G---ATGTCGTCTGCTCCACTACTGCTTAGG
*
23457208 CAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCG
62 GAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCG
*
23457271 TCTGCTCCACTACTTCTTAGGGAGATAAGACTTGATGT-GATCTGCTCCACTACTGCTTAGGGAG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTCG-TCTGCTCCACTACTGCTTAGGGAG
** *
23457335 ATAAGATCTGGTTTCTTTCG-TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCG
65 ATAAGA-C---TTGATGT-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCG
*
23457399 TCTGCTCCACTACTTCTTAGGGAGATAAGACTTGATGTC
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTC
23457438 TTCAACCAGC
Statistics
Matches: 480, Mismatches: 38, Indels: 57
0.83 0.07 0.10
Matches are distributed among these distances:
123 4 0.01
124 131 0.27
125 4 0.01
127 4 0.01
128 333 0.69
129 4 0.01
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (124 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTCGTCTGCTCCACTACTGCTTAGGGAGA
TAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCG
Found at i:23457088 original size:212 final size:210
Alignment explanation
Indices: 23456718--23457436 Score: 946
Period size: 212 Copynumber: 3.4 Consensus size: 210
23456708 GATTGATTTT
* * ** *
23456718 TTTCGTTTGCTCCACTACTTCTTAGGGAGATAAGA-C---TTGATGT-GATCTGCTCCACTACTG
1 TTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCG-TCTGCTCCACTACTG
** * *
23456778 CTTAGGGAGATAAGATCTGGTTTCTTTCG-TCTGCTCCACTACTTCTTAGGGAGATAAGA-C---
65 CTTAGGGAGATAAGA-C---TTGATGT-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGG
** * * ** * *
23456838 TTGATGT-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTTTTTCG-TCTGCTCTAC
125 TTTCTTTCG-TCTGCTCCACTACTTCTTAGGGAGATAAGA-C---TTGATGT-GATCTGCTCCAC
**
23456901 TACTGCTTAGGGAGATAAGA-C-TTGA
184 TACTGCTTAGGGAGATAAGATCGTTTC
* *
23456926 TGT-GATCTGCTCCACTACTGCTTGGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTG
1 TTTCG-TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTG
23456990 CTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCT
65 CTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCT
23457055 TTCGTCTGCTCCACTACTTCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGG
130 TTCGTCTGCTCCACTACTTCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGG
23457120 GAGATAAGATCTGGTTTC
195 GAGATAAGATC--GTTTC
* * *
23457138 TTTCGTCTACTCCACTACTGCTTAGGGAGATAAGATTTGGTTTCTTTCGTCTGCTCCACTACTTC
1 TTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGC
*
23457203 TTAGGCAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTT
66 TTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTT
23457268 TCGTCTGCTCCACTACTTCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGG
131 TCGTCTGCTCCACTACTTCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGG
23457333 AGATAAGATCTGGTTTC
196 AGATAAGATC--GTTTC
*
23457350 TTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTTC
1 TTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGC
23457415 TTAGGGAGATAAGACTTGATGT
66 TTAGGGAGATAAGACTTGATGT
23457437 CTTCAACCAG
Statistics
Matches: 463, Mismatches: 30, Indels: 32
0.88 0.06 0.06
Matches are distributed among these distances:
207 3 0.01
208 95 0.21
209 3 0.01
211 2 0.00
212 357 0.77
213 3 0.01
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (210 bp):
TTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGC
TTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTT
TCGTCTGCTCCACTACTTCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGG
AGATAAGATCGTTTC
Found at i:23457538 original size:87 final size:87
Alignment explanation
Indices: 23457436--23457692 Score: 435
Period size: 87 Copynumber: 3.0 Consensus size: 87
23457426 AGACTTGATG
*
23457436 TCTTCAACCAGCTCCACTACAACCGATGGAGGCAAGACGTTGTTTTCGATCTGCTTCGCTGTTAA
1 TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGACGTTGTTTTCGATCTGCTTCGCTGTTAA
23457501 TGCAGGAAGGCAAGATCTGCTA
66 TGCAGGAAGGCAAGATCTGCTA
*
23457523 TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGACGTTGTTTTCGATCTGTTTCGCTGTTAA
1 TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGACGTTGTTTTCGATCTGCTTCGCTGTTAA
* *
23457588 TGCAGGAAGGCAATATCTGTTA
66 TGCAGGAAGGCAAGATCTGCTA
* * *
23457610 TCTTTAACCAGCTCCACTACAATCGATGGAGGCAAGGCTTTGTTTTCGATCTGC-TCTGCTGTTA
1 TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGACGTTGTTTTCGATCTGCTTC-GCTGTTA
23457674 ATGCAGGAAGGCAAGATCT
65 ATGCAGGAAGGCAAGATCT
23457693 ACATATTCGA
Statistics
Matches: 160, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
86 2 0.01
87 158 0.99
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (87 bp):
TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGACGTTGTTTTCGATCTGCTTCGCTGTTAA
TGCAGGAAGGCAAGATCTGCTA
Done.