Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 71 of 163
Found at i:23404900 original size:27 final size:27
Alignment explanation
Indices: 23404870--23404933 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
23404860 AATAAAAATA
23404870 ACCAAAATATTATAACTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
*
23404897 ACCAAAATATTATAATTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
23404924 ACCAAAATAT
1 ACCAAAATAT
23404934 ACCAAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (27 bp):
ACCAAAATATTATAACTTTTTTTATTT
Found at i:23405021 original size:27 final size:27
Alignment explanation
Indices: 23404983--23405061 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
23404973 CACCCTAGTC
* *
23404983 GTGCCAAGGTGATTGGCGGCACTAAAG
1 GTGCCAAAGTGATTGGCGGCACCAAAG
*
23405010 GTGCCAAAGTGATTGGCTGCACCAAAG
1 GTGCCAAAGTGATTGGCGGCACCAAAG
** *
23405037 GTGCCAAAGACATTGGCAGCACCAA
1 GTGCCAAAGTGATTGGCGGCACCAA
23405062 TGTTATAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.30, C:0.23, G:0.30, T:0.16
Consensus pattern (27 bp):
GTGCCAAAGTGATTGGCGGCACCAAAG
Found at i:23405114 original size:4 final size:4
Alignment explanation
Indices: 23405105--23405164 Score: 52
Period size: 4 Copynumber: 15.0 Consensus size: 4
23405095 GAAGGAGAGG
* * *
23405105 GAAA GAAA GAAA GAAA GAAA GAAAA GAAG GTGAG GAAA GAAA G-AA -AAA
1 GAAA GAAA GAAA GAAA GAAA G-AAA GAAA G-AAA GAAA GAAA GAAA GAAA
*
23405153 GAAG GAAA GAAA
1 GAAA GAAA GAAA
23405165 AGGAATGGAG
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
3 4 0.09
4 35 0.76
5 7 0.15
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (4 bp):
GAAA
Found at i:23405132 original size:13 final size:13
Alignment explanation
Indices: 23405105--23405248 Score: 53
Period size: 13 Copynumber: 10.3 Consensus size: 13
23405095 GAAGGAGAGG
23405105 GAAAGAAAG-AAA
1 GAAAGAAAGAAAA
23405117 GAAAGAAAGAAAA
1 GAAAGAAAGAAAA
* ** *
23405130 GAAGGTGAGGAAA
1 GAAAGAAAGAAAA
23405143 GAAAG--A-AAAA
1 GAAAGAAAGAAAA
*
23405153 GAAGGAAAGAAAA
1 GAAAGAAAGAAAA
*
23405166 GGAATGGAGAAGGGGAAAA
1 -GAA---AGAA--AGAAAA
*
23405185 AAAAGAAAGAAGAA
1 GAAAGAAAGAA-AA
23405199 GAAGAGGAAATGAGAAGAA
1 GAA-A-G-AA--AGAA-AA
*
23405218 AAAAGAAAGAAAAA
1 GAAAGAAAG-AAAA
*
23405232 GAAGGAAAGAAAA
1 GAAAGAAAGAAAA
23405245 GAAA
1 GAAA
23405249 AGGAGAAGAG
Statistics
Matches: 99, Mismatches: 16, Indels: 33
0.67 0.11 0.22
Matches are distributed among these distances:
10 7 0.07
11 1 0.01
12 10 0.10
13 30 0.30
14 18 0.18
15 7 0.07
16 3 0.03
17 6 0.06
18 3 0.03
19 14 0.14
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (13 bp):
GAAAGAAAGAAAA
Found at i:23405273 original size:13 final size:14
Alignment explanation
Indices: 23405181--23405270 Score: 63
Period size: 17 Copynumber: 5.8 Consensus size: 14
23405171 GGAGAAGGGG
23405181 AAAAAAAAGAAAGA
1 AAAAAAAAGAAAGA
* *
23405195 AGAAGAAGAGGAAATGA
1 A-AA-AAAAAGAAA-GA
23405212 GAAGAAAAAAGAAAGA
1 -AA-AAAAAAGAAAGA
* *
23405228 AAAAGAAGGAAAGA
1 AAAAAAAAGAAAGA
23405242 AAAGAAAAGGAGAAGAGA
1 AAA-AAAA--AGAA-AGA
23405260 AAAAAAAAGAA
1 AAAAAAAAGAA
23405271 GAAGAGGGAA
Statistics
Matches: 59, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
14 14 0.24
15 11 0.19
16 9 0.15
17 17 0.29
18 8 0.14
ACGTcount: A:0.73, C:0.00, G:0.26, T:0.01
Consensus pattern (14 bp):
AAAAAAAAGAAAGA
Found at i:23405273 original size:18 final size:18
Alignment explanation
Indices: 23405194--23405276 Score: 71
Period size: 18 Copynumber: 4.6 Consensus size: 18
23405184 AAAAAGAAAG
** *
23405194 AAGAAGAAGAGGAAATGAG
1 AAGAAGAAGA-GAAAAAAA
* *
23405213 AAGAA-AAAAGAAAGAAA
1 AAGAAGAAGAGAAAAAAA
*
23405230 AAGAAGGAA-AGAAAAGAA
1 AAGAA-GAAGAGAAAAAAA
*
23405248 AAGGAGAAGAGAAAAAAA
1 AAGAAGAAGAGAAAAAAA
23405266 AAGAAGAAGAG
1 AAGAAGAAGAG
23405277 GGAAGGAAGG
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
17 13 0.25
18 32 0.62
19 7 0.13
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (18 bp):
AAGAAGAAGAGAAAAAAA
Found at i:23405290 original size:26 final size:25
Alignment explanation
Indices: 23405216--23405298 Score: 70
Period size: 26 Copynumber: 3.4 Consensus size: 25
23405206 AAATGAGAAG
*
23405216 AAAAAAG-AAA-GA-AAAAGAAGGA
1 AAAAAAGAAAAGGAGAAGAGAAGGA
23405238 AAGAAAAGAAAAGGAGAAGAGAA--A
1 AA-AAAAGAAAAGGAGAAGAGAAGGA
*
23405262 AAAAAAGAAGAAGAGGGAAG-GAAGGA
1 AAAAAAGAA-AAG-GAGAAGAGAAGGA
*
23405288 AAAAAATAAAA
1 AAAAAAGAAAA
23405299 AAAGGTAATT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
22 2 0.04
23 12 0.24
24 12 0.24
25 9 0.18
26 15 0.30
ACGTcount: A:0.72, C:0.00, G:0.27, T:0.01
Consensus pattern (25 bp):
AAAAAAGAAAAGGAGAAGAGAAGGA
Found at i:23405290 original size:41 final size:41
Alignment explanation
Indices: 23405171--23405290 Score: 106
Period size: 41 Copynumber: 3.0 Consensus size: 41
23405161 GAAAAGGAAT
* * *
23405171 GGAGAAGGGGAAAAAAAAGAAAGAAGA-AGAA-G-AGG-AAA
1 GGAGAAGAGAAAAAAAAAG-AAGAAGAGGGAAGGAAGGAAAA
* * * * * *
23405209 TGAGAAGA-AAAAAGAAAGAAAAAGAAGGAAAGAAAAGAAAA
1 GGAGAAGAGAAAAAAAAAGAAGAAG-AGGGAAGGAAGGAAAA
23405250 GGAGAAGAGAAAAAAAAAGAAGAAGAGGGAAGGAAGGAAAA
1 GGAGAAGAGAAAAAAAAAGAAGAAGAGGGAAGGAAGGAAAA
23405291 AAATAAAAAA
Statistics
Matches: 61, Mismatches: 15, Indels: 9
0.72 0.18 0.11
Matches are distributed among these distances:
36 5 0.08
37 9 0.15
38 8 0.13
40 2 0.03
41 23 0.38
42 14 0.23
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.01
Consensus pattern (41 bp):
GGAGAAGAGAAAAAAAAAGAAGAAGAGGGAAGGAAGGAAAA
Found at i:23405290 original size:46 final size:46
Alignment explanation
Indices: 23405180--23405270 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 46
23405170 TGGAGAAGGG
* * *
23405180 GAAAAA-AAAGAAAGAAGAAGAAGAGGAAATGAGAAGAAAAAAGAAA
1 GAAAAAGAAGGAAAGAA-AAGAAAAGGAAATGAGAAAAAAAAAGAAA
23405226 GAAAAAGAAGGAAAGAAAAGAAAAGGAGAA-GAGAAAAAAAAAGAA
1 GAAAAAGAAGGAAAGAAAAGAAAAGGA-AATGAGAAAAAAAAAGAA
23405271 GAAGAGGGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
46 29 0.73
47 11 0.28
ACGTcount: A:0.73, C:0.00, G:0.26, T:0.01
Consensus pattern (46 bp):
GAAAAAGAAGGAAAGAAAAGAAAAGGAAATGAGAAAAAAAAAGAAA
Found at i:23405333 original size:17 final size:19
Alignment explanation
Indices: 23405304--23405340 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
23405294 TAAAAAAAGG
23405304 TAATTTTTATTATAA-ATT
1 TAATTTTTATTATAATATT
23405322 TAATTTTT-TTATAATATT
1 TAATTTTTATTATAATATT
23405340 T
1 T
23405341 GTGTGTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TAATTTTTATTATAATATT
Found at i:23405845 original size:27 final size:27
Alignment explanation
Indices: 23405815--23405870 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
23405805 AAAGAGGGTG
* *
23405815 ATGGAGGGGAATAAAAAGGCGGCACCA
1 ATGGAGAGGAATAAAAAGGCAGCACCA
23405842 ATGGAGAGGAATAAAAAGGCAGCACCA
1 ATGGAGAGGAATAAAAAGGCAGCACCA
23405869 AT
1 AT
23405871 ATGTGGCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.45, C:0.14, G:0.32, T:0.09
Consensus pattern (27 bp):
ATGGAGAGGAATAAAAAGGCAGCACCA
Found at i:23406356 original size:27 final size:27
Alignment explanation
Indices: 23406326--23406381 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
23406316 AAAGAGGGTG
* *
23406326 ATGGAGGGGAATAAAAAGGCGGCACCA
1 ATGGAGAGGAATAAAAAGGCAGCACCA
23406353 ATGGAGAGGAATAAAAAGGCAGCACCA
1 ATGGAGAGGAATAAAAAGGCAGCACCA
23406380 AT
1 AT
23406382 ATGTGGCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.45, C:0.14, G:0.32, T:0.09
Consensus pattern (27 bp):
ATGGAGAGGAATAAAAAGGCAGCACCA
Found at i:23406448 original size:511 final size:510
Alignment explanation
Indices: 23405488--23406449 Score: 1816
Period size: 511 Copynumber: 1.9 Consensus size: 510
23405478 TAAAAATTGC
*
23405488 GATATTTTTTAAAATAATAAAATGCGGATAAAAAAATACGAACAAATGACCGAAGTAAGAGTGTA
1 GATATTTTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGACCGAAGTAAGAGTGTA
*
23405553 TTACTAAATTTTTTAAAAATTCAAAAATAATGAATACAAATAATTGAAACAAAATGTACTGAAAT
66 TTACTAAATTTTTTAAAAATTCAAAAATAATGAATACAAATAATTCAAACAAAATGTACTGAAAT
*
23405618 AATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAACTTGGGAAAATA
131 AATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATTGGGAAAATA
*
23405683 ATACGAGCGAAGGGCAGGGAAAAGGGTTTTTTTCGGGTTTTTTACCAAAATATTACAAAAAAATA
196 ATACGAGCAAAGGGCAGGGAAAAGGGTTTTTTTCGGGTTTTTTACCAAAATATTACAAAAAAATA
23405748 AAAAATACCAATATATTATAAACTTTTTTTTATTTACCAAAATAATAAAGGAAAAAAAAAGAGGG
261 AAAAATACCAATATATTATAAACTTTTTTTTATTTACCAAAATAATAAAGGAAAAAAAAAGAGGG
23405813 TGATGGAGGGGAATAAAAAGGCGGCACCAATGGAGAGGAATAAAAAGGCAGCACCAATATGTGGC
326 TGATGGAGGGGAATAAAAAGGCGGCACCAATGGAGAGGAATAAAAAGGCAGCACCAATATGTGGC
23405878 TAATTGCCTTTTAAGCTCTCCTTATTTATTATTATTTTTATTCCCCTTCAACACACTAAATTAAT
391 TAATTGCCTTTTAAGCTCTCCTTATTTATTATTATTTTTATTCCCCTTCAACACACTAAATTAAT
23405943 AAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAAGACTAAGTTTAT
456 AAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAAGACTAAGTTTAT
* * *
23405998 GATATTTTTTAAAATAATAAAATGCGGAGAATAAAATACGAACAAATGGCGGAAGTAAGAGTGTA
1 GATATTTTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGACCGAAGTAAGAGTGTA
* * * *
23406063 TTACTAAATTTTTTAAAAATTTAGAAATAATTAATACAAAATATTTCAAACAAAATGTACTGAAA
66 TTACTAAATTTTTTAAAAATTCAAAAATAATGAATAC-AAATAATTCAAACAAAATGTACTGAAA
23406128 TAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATTGGGAAAAT
130 TAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATTGGGAAAAT
23406193 AATACGAGCAAAGGGCAGGGAAAAGGGTTTTTTTCGGGTTTTTTACCAAAATATTACAAAAAAAT
195 AATACGAGCAAAGGGCAGGGAAAAGGGTTTTTTTCGGGTTTTTTACCAAAATATTACAAAAAAAT
23406258 AAAAAATACCAATATATTATAAACTTTTTTTTATTTACCAAAATAATAAAGGAAAAAAAAAGAGG
260 AAAAAATACCAATATATTATAAACTTTTTTTTATTTACCAAAATAATAAAGGAAAAAAAAAGAGG
23406323 GTGATGGAGGGGAATAAAAAGGCGGCACCAATGGAGAGGAATAAAAAGGCAGCACCAATATGTGG
325 GTGATGGAGGGGAATAAAAAGGCGGCACCAATGGAGAGGAATAAAAAGGCAGCACCAATATGTGG
23406388 CTAATTGCCTTTTAAGCTCTCCTTATTTATTATTATTTTTATTCCCCTTCAACACACTAAAT
390 CTAATTGCCTTTTAAGCTCTCCTTATTTATTATTATTTTTATTCCCCTTCAACACACTAAAT
23406450 GATAGACACA
Statistics
Matches: 440, Mismatches: 11, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
510 95 0.22
511 345 0.78
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.30
Consensus pattern (510 bp):
GATATTTTTTAAAATAATAAAATGCGGAGAAAAAAATACGAACAAATGACCGAAGTAAGAGTGTA
TTACTAAATTTTTTAAAAATTCAAAAATAATGAATACAAATAATTCAAACAAAATGTACTGAAAT
AATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAAATTGGGAAAATA
ATACGAGCAAAGGGCAGGGAAAAGGGTTTTTTTCGGGTTTTTTACCAAAATATTACAAAAAAATA
AAAAATACCAATATATTATAAACTTTTTTTTATTTACCAAAATAATAAAGGAAAAAAAAAGAGGG
TGATGGAGGGGAATAAAAAGGCGGCACCAATGGAGAGGAATAAAAAGGCAGCACCAATATGTGGC
TAATTGCCTTTTAAGCTCTCCTTATTTATTATTATTTTTATTCCCCTTCAACACACTAAATTAAT
AAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAAGACTAAGTTTAT
Found at i:23408624 original size:11 final size:11
Alignment explanation
Indices: 23408608--23408634 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
23408598 TTTATAACTT
23408608 AATTTGGATAC
1 AATTTGGATAC
23408619 AATTTGGATAC
1 AATTTGGATAC
23408630 AATTT
1 AATTT
23408635 AAGCATAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (11 bp):
AATTTGGATAC
Found at i:23410903 original size:18 final size:18
Alignment explanation
Indices: 23410880--23410914 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
23410870 CCCAATGATC
23410880 GCCACCACCTTCTTCTTT
1 GCCACCACCTTCTTCTTT
23410898 GCCACCACCTTCTTCTT
1 GCCACCACCTTCTTCTT
23410915 CACCACCAAC
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:0.11, C:0.46, G:0.06, T:0.37
Consensus pattern (18 bp):
GCCACCACCTTCTTCTTT
Found at i:23410920 original size:18 final size:18
Alignment explanation
Indices: 23410881--23410922 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
23410871 CCAATGATCG
**
23410881 CCACCACCTTCTTCTTTG
1 CCACCACCTTCTTCTTCA
23410899 CCACCACCTTCTTCTTCA
1 CCACCACCTTCTTCTTCA
23410917 CCACCA
1 CCACCA
23410923 ACCATATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.50, G:0.02, T:0.31
Consensus pattern (18 bp):
CCACCACCTTCTTCTTCA
Found at i:23416248 original size:19 final size:21
Alignment explanation
Indices: 23416221--23416259 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
23416211 ACTAAAACAA
*
23416221 AAAATAAT-ACAA-AATATAC
1 AAAACAATAACAACAATATAC
23416240 AAAACAATAACAACAATATA
1 AAAACAATAACAACAATATA
23416260 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 4 0.24
21 6 0.35
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (21 bp):
AAAACAATAACAACAATATAC
Found at i:23416339 original size:3 final size:3
Alignment explanation
Indices: 23416333--23416387 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
23416323 CCGCAGCGCC
23416333 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
23416381 TTT TCT T
1 TCT TCT T
23416388 ATTTTTCTCC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:23416508 original size:27 final size:27
Alignment explanation
Indices: 23416435--23416509 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
23416425 AACACGAGTA
*
23416435 GTGCCGCCAATCAGTATGGCACCATTG
1 GTGCCGCCAATCACTATGGCACCATTG
** * *
23416462 GTGCCGCCAATGTCTTTGGCACCTTTG
1 GTGCCGCCAATCACTATGGCACCATTG
*
23416489 GTGCCGCCAATCACCATGGCA
1 GTGCCGCCAATCACTATGGCA
23416510 TGACCAGGGT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.19, C:0.32, G:0.25, T:0.24
Consensus pattern (27 bp):
GTGCCGCCAATCACTATGGCACCATTG
Found at i:23416613 original size:28 final size:28
Alignment explanation
Indices: 23416559--23416648 Score: 166
Period size: 28 Copynumber: 3.3 Consensus size: 28
23416549 TTTTTTTGGT
23416559 ATATTTTGGTAAAT-AAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
23416585 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
23416613 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
23416641 ATATTTTG
1 ATATTTTG
23416649 ATTATTTTTT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
26 14 0.23
27 7 0.11
28 41 0.66
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:23417829 original size:101 final size:101
Alignment explanation
Indices: 23417695--23418120 Score: 535
Period size: 101 Copynumber: 4.1 Consensus size: 101
23417685 TAAATTAAAT
*
23417695 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACATAATCATAAATTACTAAC
1 TAAAAAATCACAAAACACTAAACTAAACACTAACAA-TT-TATAACCTAATCATAAATTACTAAC
23417760 AAAATAACTAT-AAATTA-TTTTTAAAAAATACATTAC
64 AAAATAACTATAAAATTATTTTTTAAAAAATACATTAC
*
23417796 TAAAAAATCACAAAACACTAAACTAAACCCTAACAATTTATATAACCTAATCATAAATTACTAAC
1 TAAAAAATCACAAAACACTAAACTAAACACTAACAA-TT-TATAACCTAATCATAAATTACTAAC
*
23417861 AAAATAACTATAAAATTATTTTTTTAAAAATTACATTAC
64 AAAATAACTATAAAATTA-TTTTTTAAAAAATACATTAC
* *
23417900 TAAAAAAATCACAAAACCCTAAACTAAACACTAATAATTTATAACCTAATCCCATAAATTACTAA
1 T-AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAAT--CATAAATTACTAA
* **
23417965 CAAAATAAATAACTATAACATT-TTTTAAAAAATAAATTACATTAC
63 C---A-AAATAACTATAAAATTATTTT-TTAAA-AAA-TACATTAC
* * *
23418010 TAAAAAATAACAAAAGAC---A--AAACACTAACAATTTATAACCTAATCATAAACTACTAACAA
1 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTACTAACAA
*
23418070 AATAACTATAAAATTATTTTTTAAAAATTTACATTAC
66 AATAACTATAAAATTATTTTTTAAAAA-ATACATTAC
*
23418107 TAAAAACTCACAAA
1 TAAAAAATCACAAA
23418121 CACAACAATT
Statistics
Matches: 289, Mismatches: 21, Indels: 34
0.84 0.06 0.10
Matches are distributed among these distances:
97 22 0.08
98 18 0.06
99 5 0.02
101 74 0.26
102 19 0.07
103 11 0.04
104 45 0.16
105 46 0.16
106 1 0.00
107 4 0.01
108 4 0.01
109 31 0.11
110 9 0.03
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (101 bp):
TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTACTAACAA
AATAACTATAAAATTATTTTTTAAAAAATACATTAC
Found at i:23417914 original size:206 final size:201
Alignment explanation
Indices: 23417695--23418120 Score: 569
Period size: 206 Copynumber: 2.1 Consensus size: 201
23417685 TAAATTAAAT
23417695 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACATAAT-CATAAATTACTAA
1 TAAAAAATCACAAAACACTAAACTAAACACTAACAA-TT-TATAACATAATCCATAAATTACTAA
* *
23417759 C-A-AAATAACTATAA-ATTATTTT-TAAA-AAA-TACATTACTAAAAAATCACAAAACACTAAA
64 CAATAAATAACTATAACATT-TTTTAAAAATAAATTACATTACTAAAAAATAACAAAACAC---A
* *
23417818 CTAAACCCTAACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTT
125 --AAACACTAACAA-TT-TATAACCTAATCATAAACTACTAACAAAATAACTATAAAATTA-TTT
23417883 TTTAAAAATTACATTAC
185 TTTAAAAATTACATTAC
* * *
23417900 TAAAAAAATCACAAAACCCTAAACTAAACACTAATAATTTATAACCTAATCCCATAAATTACTAA
1 T-AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACATAAT-CCATAAATTACTAA
*
23417965 CAAAATAAATAACTATAACATTTTTTAAAAAATAAATTACATTACTAAAAAATAACAAAAGACAA
64 C--AATAAATAACTATAACATTTTTT-AAAAATAAATTACATTACTAAAAAATAACAAAACACAA
23418030 AACACTAACAATTTATAACCTAATCATAAACTACTAACAAAATAACTATAAAATTATTTTTTAAA
126 AACACTAACAATTTATAACCTAATCATAAACTACTAACAAAATAACTATAAAATTATTTTTTAAA
23418095 AATTTACATTAC
191 AA-TTACATTAC
*
23418107 TAAAAACTCACAAA
1 TAAAAAATCACAAA
23418121 CACAACAATT
Statistics
Matches: 199, Mismatches: 9, Indels: 25
0.85 0.04 0.11
Matches are distributed among these distances:
204 10 0.05
205 3 0.02
206 70 0.35
207 52 0.26
208 2 0.01
209 12 0.06
210 16 0.08
211 4 0.02
212 3 0.02
213 3 0.02
214 24 0.12
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (201 bp):
TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACATAATCCATAAATTACTAACA
ATAAATAACTATAACATTTTTTAAAAATAAATTACATTACTAAAAAATAACAAAACACAAAACAC
TAACAATTTATAACCTAATCATAAACTACTAACAAAATAACTATAAAATTATTTTTTAAAAATTA
CATTAC
Found at i:23418172 original size:71 final size:72
Alignment explanation
Indices: 23418097--23418260 Score: 303
Period size: 72 Copynumber: 2.3 Consensus size: 72
23418087 TTTTTAAAAA
*
23418097 TTTACATTACTAAAAACTCAC-AAACACAACAATTTATAATAAATTGCTAACAAAATATTTAACA
1 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
23418161 AAATAAT
66 AAATAAT
23418168 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
1 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
23418233 AAATAAT
66 AAATAAT
*
23418240 TTTACATTACTAAAAAATCAC
1 TTTACATTACTAAAAACTCAC
23418261 CAAATACTAA
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
71 21 0.23
72 69 0.77
ACGTcount: A:0.54, C:0.16, G:0.01, T:0.30
Consensus pattern (72 bp):
TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
AAATAAT
Found at i:23418191 original size:41 final size:41
Alignment explanation
Indices: 23418146--23418266 Score: 100
Period size: 41 Copynumber: 3.2 Consensus size: 41
23418136 TAAATTGCTA
23418146 ACAAAATATTTAACAAAATAATTTTACATTACTAAAAACTC
1 ACAAAATATTTAACAAAATAATTTTACATTACTAAAAACTC
* * * ** *
23418187 ACAAAACA--CAAC--AAT--TTATA-A-TA--AATTACTA
1 ACAAAATATTTAACAAAATAATTTTACATTACTAAAAACTC
*
23418218 ACAAAATATTTAACAAAATAATTTTACATTACTAAAAAATC
1 ACAAAATATTTAACAAAATAATTTTACATTACTAAAAACTC
*
23418259 ACCAAATA
1 ACAAAATA
23418267 CTAAACTAAG
Statistics
Matches: 56, Mismatches: 14, Indels: 20
0.62 0.16 0.22
Matches are distributed among these distances:
31 12 0.21
33 5 0.09
34 1 0.02
35 7 0.12
37 7 0.12
38 1 0.02
39 5 0.09
41 18 0.32
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (41 bp):
ACAAAATATTTAACAAAATAATTTTACATTACTAAAAACTC
Found at i:23418203 original size:34 final size:33
Alignment explanation
Indices: 23418097--23418203 Score: 81
Period size: 34 Copynumber: 3.1 Consensus size: 33
23418087 TTTTTAAAAA
23418097 TTTACATTACTAAAAACTCACAAACACAACAATT
1 TTTACATTACTAAAAACTCACAAACACAACAA-T
* * * ** * *
23418131 TATAATAAATTGCTAACAAAAT-ATTTAACAAAATAAT
1 T-T--TACATTACTAA-AAACTCA-CAAACACAACAAT
23418168 TTTACATTACTAAAAACTCACAAAACACAACAAT
1 TTTACATTACTAAAAACTCAC-AAACACAACAAT
23418202 TT
1 TT
23418204 ATAATAAATT
Statistics
Matches: 52, Mismatches: 14, Indels: 14
0.65 0.17 0.17
Matches are distributed among these distances:
33 4 0.08
34 22 0.42
35 1 0.02
36 1 0.02
37 12 0.23
38 12 0.23
ACGTcount: A:0.52, C:0.18, G:0.01, T:0.29
Consensus pattern (33 bp):
TTTACATTACTAAAAACTCACAAACACAACAAT
Found at i:23418241 original size:38 final size:38
Alignment explanation
Indices: 23418127--23418241 Score: 114
Period size: 38 Copynumber: 3.1 Consensus size: 38
23418117 CAAACACAAC
*
23418127 AATTTATAATAAATTGCTAACAAAATATTTAACAAAAT
1 AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
* * *** * *
23418165 AA-TT-T--TACATTACTAA-AAACTCACAAAACACAAC
1 AATTTATAATAAATTACTAACAAAAT-ATTTAACAAAAT
23418199 AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
1 AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
23418237 AATTT
1 AATTT
23418242 TACATTACTA
Statistics
Matches: 56, Mismatches: 15, Indels: 12
0.67 0.18 0.14
Matches are distributed among these distances:
33 4 0.07
34 18 0.32
35 2 0.04
36 2 0.04
37 2 0.04
38 24 0.43
39 4 0.07
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.32
Consensus pattern (38 bp):
AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
Found at i:23418529 original size:3 final size:3
Alignment explanation
Indices: 23418521--23418556 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
23418511 CTTTCTTTCT
23418521 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
23418557 CATTTCTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:23418813 original size:27 final size:27
Alignment explanation
Indices: 23418739--23418822 Score: 123
Period size: 27 Copynumber: 3.1 Consensus size: 27
23418729 GTCATTCCAA
* * **
23418739 TGCCGCCTACCTGGCAGGCGCAACCAG
1 TGCCGCCTATCTGACAGGCGTGACCAG
23418766 TGCCGCCTATCTGACAGGCGTGACCAG
1 TGCCGCCTATCTGACAGGCGTGACCAG
*
23418793 TGCCGCCTATCTGACAGGCGTGACTAG
1 TGCCGCCTATCTGACAGGCGTGACCAG
23418820 TGC
1 TGC
23418823 TGCCAGTCCA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.18, C:0.35, G:0.30, T:0.18
Consensus pattern (27 bp):
TGCCGCCTATCTGACAGGCGTGACCAG
Found at i:23419125 original size:6 final size:6
Alignment explanation
Indices: 23419110--23419145 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
23419100 AGAATAATTA
*
23419110 TATTTT TATTTC TATTTC TATTTC TATTTC TATTTC
1 TATTTC TATTTC TATTTC TATTTC TATTTC TATTTC
23419146 AATGTCTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (6 bp):
TATTTC
Found at i:23419567 original size:5 final size:6
Alignment explanation
Indices: 23419552--23419577 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
23419542 TTCAATGATA
23419552 AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA
23419578 TGTTTTTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:23421153 original size:20 final size:19
Alignment explanation
Indices: 23421124--23421162 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
23421114 TAGAAATAAC
23421124 TTTTAAGATTAGATTTGTG
1 TTTTAAGATTAGATTTGTG
23421143 TTTTGAAGATTAGATTTGTG
1 TTTT-AAGATTAGATTTGTG
23421163 CTTAAGTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (19 bp):
TTTTAAGATTAGATTTGTG
Found at i:23429433 original size:144 final size:145
Alignment explanation
Indices: 23429159--23429446 Score: 515
Period size: 144 Copynumber: 2.0 Consensus size: 145
23429149 GAATCTCTAC
23429159 TCTTTGCATGTCTGTGGAATTTGTTGGAATCTAAATTGTCTATTAACCAGTGATAGAATATAAAA
1 TCTTTGCATGTC-GTGGAATTTGTTGGAATCTAAATTGTCTATTAACCAGTGATAGAATATAAAA
23429224 ACAATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAAG
65 ACAATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAAG
23429289 AAACGGGAAATTGTAT
130 AAACGGGAAATTGTAT
* *
23429305 TCTTTGCATGTC-TGGAATTTGTTGGAATCTAAGTTTTCTATTAACCAGTGATAGAATATAAAAA
1 TCTTTGCATGTCGTGGAATTTGTTGGAATCTAAATTGTCTATTAACCAGTGATAGAATATAAAAA
* *
23429369 CAGTGCAATTTCTATTAGACATGGAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAAGA
66 CAATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAAGA
*
23429434 AACGGTAAATTGT
131 AACGGGAAATTGT
23429447 GTTTTTGAGC
Statistics
Matches: 137, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
144 125 0.91
146 12 0.09
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (145 bp):
TCTTTGCATGTCGTGGAATTTGTTGGAATCTAAATTGTCTATTAACCAGTGATAGAATATAAAAA
CAATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAAGA
AACGGGAAATTGTAT
Found at i:23431373 original size:53 final size:53
Alignment explanation
Indices: 23431316--23431423 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
23431306 ATTTCTCATT
*
23431316 TATCACTCAACCATTTTGAGCATATGATATACCGTTGTAAAGTTCTCATGGAG
1 TATCACTCAACCATTTTGAGCATATGATATACCATTGTAAAGTTCTCATGGAG
23431369 TATCACTCAACCATTTTGAGCATATGATATACCATTGTAAAGTTCTCATGGAG
1 TATCACTCAACCATTTTGAGCATATGATATACCATTGTAAAGTTCTCATGGAG
23431422 TA
1 TA
23431424 GAATATGAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (53 bp):
TATCACTCAACCATTTTGAGCATATGATATACCATTGTAAAGTTCTCATGGAG
Found at i:23434456 original size:83 final size:83
Alignment explanation
Indices: 23434372--23434594 Score: 242
Period size: 84 Copynumber: 2.7 Consensus size: 83
23434362 AATTATATCA
* * * * *
23434372 AAATAAAATC-TATTAAATGGCGGAAATAAATCTCGAAACAGAATTATTTGA-TTACGTCTTTAT
1 AAATAAAATCTTGTTAAATGGCGGAAATAAATCTCGAAACAAAATTATTTAATTTAAGTC-TAAT
*
23434435 TTGGAAACAAAATAAAATC
65 TTAGAAACAAAATAAAATC
* ** *
23434454 AAATAAAATCTTGTTAAATGGCGTG-AATAAATC-CCAGAACATATTTTATTTAATTTAATTCTA
1 AAATAAAATCTTGTTAAATGGCG-GAAATAAATCTCGA-AACA-AAATTATTTAATTTAAGTCTA
23434517 ATTTAGAAACAAAATAAAATC
63 ATTTAGAAACAAAATAAAATC
23434538 AAATAAAATCTTGTTAAACT-GC-GAGAATAAATCTCGAAACAAAATTTTATTTAATTT
1 AAATAAAATCTTGTTAAA-TGGCGGA-AATAAATCTCGAAACAAAA--TTATTTAATTT
23434595 TAATTTCTCA
Statistics
Matches: 117, Mismatches: 13, Indels: 19
0.79 0.09 0.13
Matches are distributed among these distances:
82 13 0.11
83 24 0.21
84 61 0.52
85 19 0.16
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (83 bp):
AAATAAAATCTTGTTAAATGGCGGAAATAAATCTCGAAACAAAATTATTTAATTTAAGTCTAATT
TAGAAACAAAATAAAATC
Found at i:23434539 original size:84 final size:86
Alignment explanation
Indices: 23434433--23434599 Score: 252
Period size: 84 Copynumber: 2.0 Consensus size: 86
23434423 TTACGTCTTT
* *
23434433 ATTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAA-TGGCGTGAATAAATCCC-AGAAC-A
1 ATTTAGAAACAAAATAAAATCAAATAAAATCTTGTTAAACT-GCGAGAATAAATCCCGA-AACAA
*
23434495 TATTTTATTTAA-TTTAATTCTA
64 AATTTTATTTAATTTTAATTCTA
*
23434517 ATTTAGAAACAAAATAAAATCAAATAAAATCTTGTTAAACTGCGAGAATAAATCTCGAAACAAAA
1 ATTTAGAAACAAAATAAAATCAAATAAAATCTTGTTAAACTGCGAGAATAAATCCCGAAACAAAA
23434582 TTTTATTTAATTTTAATT
66 TTTTATTTAATTTTAATT
23434600 TCTCATTTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
84 54 0.72
85 14 0.19
86 7 0.09
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.34
Consensus pattern (86 bp):
ATTTAGAAACAAAATAAAATCAAATAAAATCTTGTTAAACTGCGAGAATAAATCCCGAAACAAAA
TTTTATTTAATTTTAATTCTA
Found at i:23434674 original size:89 final size:84
Alignment explanation
Indices: 23434580--23434772 Score: 251
Period size: 85 Copynumber: 2.2 Consensus size: 84
23434570 CTCGAAACAA
* ** * *
23434580 AATTTTATTTAATTTTAATTTCTCATTTTTGGAAATAAAATAAAAATTTGGAATAAAATCGTTGA
1 AATTTTATTTAACTTTAATTTC-CA--GGTGGAAATAAAATAAAAA-ATGGAATAAAATCATTGA
* *
23434645 ATGGAGGGAATCAATCCCGAAAT
62 ACGGAGGGAATCAATCCCAAAAT
*
23434668 GAATTTTATTTACCTTTAATTTCCAGGTGGAAATAAAATAAAAAATGGAATAAAATCATTGAACG
1 -AATTTTATTTAACTTTAATTTCCAGGTGGAAATAAAATAAAAAATGGAATAAAATCATTGAACG
23434733 GAGGGAATCAATCCCAAAAT
65 GAGGGAATCAATCCCAAAAT
*
23434753 AGATTTTATTTACCTTTAAT
1 A-ATTTTATTTAACTTTAAT
23434773 CTCCCGTTTA
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
84 1 0.01
85 55 0.58
86 17 0.18
88 2 0.02
89 20 0.21
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.35
Consensus pattern (84 bp):
AATTTTATTTAACTTTAATTTCCAGGTGGAAATAAAATAAAAAATGGAATAAAATCATTGAACGG
AGGGAATCAATCCCAAAAT
Found at i:23434736 original size:85 final size:86
Alignment explanation
Indices: 23434609--23434772 Score: 269
Period size: 85 Copynumber: 1.9 Consensus size: 86
23434599 TTCTCATTTT
* * * *
23434609 TGGAAATAAAATAAAAATTTGGAATAAAATCGTTGAATGGAGGGAATCAATCCCGAAAT-GAATT
1 TGGAAATAAAATAAAAATATGGAATAAAATCATTGAACGGAGGGAATCAATCCCAAAATAG-ATT
23434673 TTATTTACCTTTAATTTCCAGG
65 TTATTTACCTTTAATTTCCAGG
23434695 TGGAAATAAAATAAAAA-ATGGAATAAAATCATTGAACGGAGGGAATCAATCCCAAAATAGATTT
1 TGGAAATAAAATAAAAATATGGAATAAAATCATTGAACGGAGGGAATCAATCCCAAAATAGATTT
23434759 TATTTACCTTTAAT
66 TATTTACCTTTAAT
23434773 CTCCCGTTTA
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
85 55 0.75
86 18 0.25
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (86 bp):
TGGAAATAAAATAAAAATATGGAATAAAATCATTGAACGGAGGGAATCAATCCCAAAATAGATTT
TATTTACCTTTAATTTCCAGG
Found at i:23434792 original size:85 final size:86
Alignment explanation
Indices: 23434611--23434795 Score: 259
Period size: 85 Copynumber: 2.2 Consensus size: 86
23434601 CTCATTTTTG
* * * *
23434611 GAAATAAAATAAAAATTTGGAATAAAATCGTTGAATGGAGGGAATCAATCCCGAAATGAATTTTA
1 GAAATAAAATAAAAATATGGAATAAAATCATTGAACGGAGGGAATCAATCCCAAAATGAATTTTA
* *
23434676 TTTACCTTTAATTTCCAGGTG
66 TTTACCTTTAATCTCCAGGTA
23434697 GAAATAAAATAAAAA-ATGGAATAAAATCATTGAACGGAGGGAATCAATCCCAAAAT-AGATTTT
1 GAAATAAAATAAAAATATGGAATAAAATCATTGAACGGAGGGAATCAATCCCAAAATGA-ATTTT
* *
23434760 ATTTACCTTTAATCTCCCGTTTA
65 ATTTACCTTTAATCTCCAG-GTA
23434783 GAAAT-AAATAAAA
1 GAAATAAAATAAAA
23434796 TAGAGGAAAA
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
84 1 0.01
85 67 0.75
86 21 0.24
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (86 bp):
GAAATAAAATAAAAATATGGAATAAAATCATTGAACGGAGGGAATCAATCCCAAAATGAATTTTA
TTTACCTTTAATCTCCAGGTA
Found at i:23435965 original size:22 final size:24
Alignment explanation
Indices: 23435938--23435983 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
23435928 TTAGCGAACA
23435938 AAATA-TATAAATAT-AAATAAAC
1 AAATATTATAAATATAAAATAAAC
*
23435960 AAATATTTATATATATAAAATAAA
1 AAATA-TTATAAATATAAAATAAA
23435984 ATACAAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
24 8 0.40
25 7 0.35
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
AAATATTATAAATATAAAATAAAC
Found at i:23436905 original size:17 final size:16
Alignment explanation
Indices: 23436864--23436907 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
23436854 AATAAGTGTT
23436864 TTAAAATTTAAAATAA
1 TTAAAATTTAAAATAA
*
23436880 TTAATATTTATAAAT-A
1 TTAAAATTTA-AAATAA
23436896 TTATAAATTTAA
1 TTA-AAATTTAA
23436908 TTTTAACCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATTTAAAATAA
Found at i:23438399 original size:113 final size:113
Alignment explanation
Indices: 23438189--23439632 Score: 2861
Period size: 113 Copynumber: 12.8 Consensus size: 113
23438179 AAAAAACTTC
* *
23438189 GAGCTTTCGGGGATTTAGCGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTG
1 GAGCTTTC-GGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTG
23438254 TTTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
65 TTTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
23438303 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
1 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
23438368 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
66 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
23438416 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
1 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
23438481 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
66 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
23438529 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
1 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
23438594 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
66 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
23438642 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
1 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
23438707 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
66 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
23438755 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
1 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
23438820 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
66 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
23438868 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
1 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
23438933 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
66 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
23438981 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
1 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
23439046 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
66 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
23439094 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
1 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
23439159 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
66 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
23439207 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
1 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
23439272 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
66 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
23439320 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
1 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
23439385 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
66 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
23439433 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
1 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
23439498 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
66 TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
23439546 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
1 GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
23439611 TTTAGATAAAGCGCCACAAATA
66 TTTAGATAAAGCGCCACAAATA
23439633 TTTATTGCAT
Statistics
Matches: 1328, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
113 1320 0.99
114 8 0.01
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (113 bp):
GAGCTTTCGGAATTTAGTGGCGTTTTTCAAGTAAGCGCTGCTAATATCCAGGGCTTTAGCGGTGT
TTTAGATAAAGCGCCACAAATAACCTAAGCACAACGACGCCGTTTTCT
Found at i:23441003 original size:32 final size:33
Alignment explanation
Indices: 23440951--23441015 Score: 123
Period size: 32 Copynumber: 2.0 Consensus size: 33
23440941 GCCATTGACA
23440951 CTTTGTTTTAGTCAGCTGCTTCTCTATTTTATG
1 CTTTGTTTTAGTCAGCTGCTTCTCTATTTTATG
23440984 CTTTGTTTTA-TCAGCTGCTTCTCTATTTTATG
1 CTTTGTTTTAGTCAGCTGCTTCTCTATTTTATG
23441016 AGTATTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 22 0.69
33 10 0.31
ACGTcount: A:0.12, C:0.18, G:0.14, T:0.55
Consensus pattern (33 bp):
CTTTGTTTTAGTCAGCTGCTTCTCTATTTTATG
Found at i:23441989 original size:36 final size:36
Alignment explanation
Indices: 23441928--23442015 Score: 140
Period size: 36 Copynumber: 2.4 Consensus size: 36
23441918 AGTAAATTAA
* * *
23441928 ATAATTTACATAAACTTGCATAAATTAAATAACTTAC
1 ATAACTTACAT-AACCTACATAAATTAAATAACTTAC
23441965 ATAACTTACATAACCTACATAAATTAAATAACTTAC
1 ATAACTTACATAACCTACATAAATTAAATAACTTAC
23442001 ATAACTTACATAACC
1 ATAACTTACATAACC
23442016 NNNNNNNNNN
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
36 38 0.79
37 10 0.21
ACGTcount: A:0.49, C:0.18, G:0.01, T:0.32
Consensus pattern (36 bp):
ATAACTTACATAACCTACATAAATTAAATAACTTAC
Found at i:23442014 original size:9 final size:9
Alignment explanation
Indices: 23441928--23442014 Score: 102
Period size: 9 Copynumber: 9.6 Consensus size: 9
23441918 AGTAAATTAA
*
23441928 ATAATTTAC
1 ATAACTTAC
*
23441937 ATAAACTTGC
1 AT-AACTTAC
* *
23441947 ATAAATTAA
1 ATAACTTAC
23441956 ATAACTTAC
1 ATAACTTAC
23441965 ATAACTTAC
1 ATAACTTAC
*
23441974 ATAACCTAC
1 ATAACTTAC
* *
23441983 ATAAATTAA
1 ATAACTTAC
23441992 ATAACTTAC
1 ATAACTTAC
23442001 ATAACTTAC
1 ATAACTTAC
23442010 ATAAC
1 ATAAC
23442015 CNNNNNNNNN
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
9 57 0.89
10 7 0.11
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:23446840 original size:21 final size:21
Alignment explanation
Indices: 23446814--23446859 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
23446804 AACTTAAAGT
*
23446814 AGAGGCGGCAGCGAGGGAAGC
1 AGAGGCCGCAGCGAGGGAAGC
23446835 AGAGGCCGCAGCGAGGGAAGC
1 AGAGGCCGCAGCGAGGGAAGC
23446856 AGAG
1 AGAG
23446860 CAGACCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.50, T:0.00
Consensus pattern (21 bp):
AGAGGCCGCAGCGAGGGAAGC
Found at i:23447226 original size:43 final size:42
Alignment explanation
Indices: 23447178--23447288 Score: 105
Period size: 42 Copynumber: 2.6 Consensus size: 42
23447168 GTATAAAAGT
* *
23447178 GCCACTAAAGAACATGTTCTTTAGCGGGGTTTTAAAAAAAAAC
1 GCCACTAAAGAACATGTTCTTTAGCGGCG-CTTAAAAAAAAAC
***** * *
23447221 GCCACTATTTTTCATGTTCTTTAGCGGCGCTTAAGAATAAAC
1 GCCACTAAAGAACATGTTCTTTAGCGGCGCTTAAAAAAAAAC
* * *
23447263 GTCGCGAAAGAACATGTTCTTTAGCG
1 GCCACTAAAGAACATGTTCTTTAGCG
23447289 ACGTTTTTAT
Statistics
Matches: 51, Mismatches: 17, Indels: 1
0.74 0.25 0.01
Matches are distributed among these distances:
42 28 0.55
43 23 0.45
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (42 bp):
GCCACTAAAGAACATGTTCTTTAGCGGCGCTTAAAAAAAAAC
Found at i:23447307 original size:24 final size:24
Alignment explanation
Indices: 23447275--23447320 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
23447265 CGCGAAAGAA
23447275 CATGTTCTTTAGCGACGTTTTTAT
1 CATGTTCTTTAGCGACGTTTTTAT
*
23447299 CATGTTCTTTAGCGGCGTTTTT
1 CATGTTCTTTAGCGACGTTTTT
23447321 CTTCTAAGCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.13, C:0.17, G:0.20, T:0.50
Consensus pattern (24 bp):
CATGTTCTTTAGCGACGTTTTTAT
Found at i:23447381 original size:42 final size:43
Alignment explanation
Indices: 23447299--23447405 Score: 180
Period size: 42 Copynumber: 2.5 Consensus size: 43
23447289 ACGTTTTTAT
* *
23447299 CATGTTCTTTAGCGGCGTTTTTCTTCTAAGCGCCGCTAAAGAA
1 CATGGTCTTTAGCGGCGTTTTTCTTCTAAGCACCGCTAAAGAA
*
23447342 CATGGTCTTTAGCGGCGTTTTT-TTCTAAGCACTGCTAAAGAA
1 CATGGTCTTTAGCGGCGTTTTTCTTCTAAGCACCGCTAAAGAA
23447384 CATGGTCTTTAGCGGCGTTTTT
1 CATGGTCTTTAGCGGCGTTTTT
23447406 GTTTGTAAAC
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
42 40 0.66
43 21 0.34
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (43 bp):
CATGGTCTTTAGCGGCGTTTTTCTTCTAAGCACCGCTAAAGAA
Found at i:23450887 original size:9 final size:9
Alignment explanation
Indices: 23450873--23450903 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
23450863 GTTAAACTAA
23450873 TCGAGTTAT
1 TCGAGTTAT
*
23450882 TCGAGTTAA
1 TCGAGTTAT
23450891 TCGAGTTAT
1 TCGAGTTAT
23450900 TCGA
1 TCGA
23450904 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:23450980 original size:9 final size:9
Alignment explanation
Indices: 23450956--23450992 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
23450946 TGAGTTTTCA
*
23450956 AATTCAAAT
1 AATTCGAAT
*
23450965 AACTCGAAT
1 AATTCGAAT
23450974 AATTCGAAT
1 AATTCGAAT
23450983 AATTCGAAT
1 AATTCGAAT
23450992 A
1 A
23450993 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:23451410 original size:17 final size:16
Alignment explanation
Indices: 23451376--23451406 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23451366 CCTATTTACT
*
23451376 TTCCCTAAAACTTTTA
1 TTCCCCAAAACTTTTA
23451392 TTCCCCAAAACTTTT
1 TTCCCCAAAACTTTT
23451407 TATTTTCCTC
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:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (16 bp):
TTCCCCAAAACTTTTA
Found at i:23453078 original size:17 final size:19
Alignment explanation
Indices: 23453058--23453107 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
23453048 ATTTATTAAA
23453058 TAAATTAATTTT-TCAAT-
1 TAAATTAATTTTCTCAATC
23453075 TAAA-TAATTTTCTCAATC
1 TAAATTAATTTTCTCAATC
*
23453093 TAATTCTAATTTTCT
1 TAAAT-TAATTTTCT
23453108 TAAAGTCATG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 7 0.25
17 9 0.32
18 3 0.11
20 9 0.32
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (19 bp):
TAAATTAATTTTCTCAATC
Found at i:23463462 original size:25 final size:26
Alignment explanation
Indices: 23463434--23463554 Score: 130
Period size: 25 Copynumber: 4.8 Consensus size: 26
23463424 AATCTTACGG
23463434 AAAGCCTTTGTGGCGTATTATCTA-A
1 AAAGCCTTTGTGGCGTATTATCTAGA
* *
23463459 AAAGCCATTGTGGC-TAATAT-TATGA
1 AAAGCCTTTGTGGCGTATTATCTA-GA
23463484 AAAGCCTTTGTGGCGTATTATCTA-A
1 AAAGCCTTTGTGGCGTATTATCTAGA
*
23463509 AAAGCCTTTGAGGC-TA--ATCTTATGA
1 AAAGCCTTTGTGGCGTATTATC-TA-GA
*
23463534 AAAGCCTTTGTGGTGTATTAT
1 AAAGCCTTTGTGGCGTATTAT
23463555 TTGGAATGCC
Statistics
Matches: 79, Mismatches: 7, Indels: 17
0.77 0.07 0.17
Matches are distributed among these distances:
22 3 0.04
23 4 0.05
24 7 0.09
25 54 0.68
26 7 0.09
27 2 0.03
28 2 0.03
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (26 bp):
AAAGCCTTTGTGGCGTATTATCTAGA
Found at i:23463491 original size:50 final size:50
Alignment explanation
Indices: 23463408--23463604 Score: 250
Period size: 50 Copynumber: 3.9 Consensus size: 50
23463398 GAATTACCTG
* * * *
23463408 AAAAGCCTTTGGGGATAATCTTACGGAAAGCCTTTGTGGCGTATTATCTA
1 AAAAGCCTTTGTGGCTAATCTTATGAAAAGCCTTTGTGGCGTATTATCTA
* *
23463458 AAAAGCCATTGTGGCTAATATTATGAAAAGCCTTTGTGGCGTATTATCTA
1 AAAAGCCTTTGTGGCTAATCTTATGAAAAGCCTTTGTGGCGTATTATCTA
* * * *
23463508 AAAAGCCTTTGAGGCTAATCTTATGAAAAGCCTTTGTGGTGTATTATTTG
1 AAAAGCCTTTGTGGCTAATCTTATGAAAAGCCTTTGTGGCGTATTATCTA
* * * * * *
23463558 GAATGCCTTTATGACTAATCTTATGAAAAACTTTTGTGGCGTATTAT
1 AAAAGCCTTTGTGGCTAATCTTATGAAAAGCCTTTGTGGCGTATTAT
23463605 TTGGAAAGAC
Statistics
Matches: 127, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 127 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (50 bp):
AAAAGCCTTTGTGGCTAATCTTATGAAAAGCCTTTGTGGCGTATTATCTA
Found at i:23467629 original size:23 final size:23
Alignment explanation
Indices: 23467603--23467648 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
23467593 GCACAAAGGT
23467603 TGTTTGATTGATTTTTTTGCTTA
1 TGTTTGATTGATTTTTTTGCTTA
23467626 TGTTTGATTGATTTTTTTGCTTA
1 TGTTTGATTGATTTTTTTGCTTA
23467649 AAAATACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.04, G:0.17, T:0.65
Consensus pattern (23 bp):
TGTTTGATTGATTTTTTTGCTTA
Found at i:23472857 original size:58 final size:55
Alignment explanation
Indices: 23472789--23472909 Score: 138
Period size: 57 Copynumber: 2.1 Consensus size: 55
23472779 AGAGATGGTG
*
23472789 AAATGAAGAAATAGAAAACATTTCGAAATGATTAA-GGTTTTCCCCAAAATAAA-ATTGA
1 AAATGAAGAAAT-GAAAACATTT-GAAA--ATCAACGGTTTTCCCCAAAATAAAGA-TGA
* *
23472847 AAATGGAGAAATGAAATCATTTGAAAATCAACGTGGTTTTCCCCAAAATAAAGATGA
1 AAATGAAGAAATGAAAACATTTGAAAATCAAC--GGTTTTCCCCAAAATAAAGATGA
23472904 AAATGA
1 AAATGA
23472910 CCTGAAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
54 4 0.07
56 4 0.07
57 35 0.64
58 12 0.22
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.25
Consensus pattern (55 bp):
AAATGAAGAAATGAAAACATTTGAAAATCAACGGTTTTCCCCAAAATAAAGATGA
Found at i:23488383 original size:9 final size:9
Alignment explanation
Indices: 23488366--23488396 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
23488356 TCGAGTTGAT
23488366 TCGAATAAC
1 TCGAATAAC
*
23488375 TCGATTAAC
1 TCGAATAAC
23488384 TCGAATAAC
1 TCGAATAAC
23488393 TCGA
1 TCGA
23488397 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:23497336 original size:6 final size:6
Alignment explanation
Indices: 23497251--23497375 Score: 59
Period size: 6 Copynumber: 21.7 Consensus size: 6
23497241 TATTTCATAT
* * * * * *
23497251 TTATTT TTATTA TTAATA TTTTTA TTATT- TT-TTA TTTTTC CT-TTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
* * * *
23497296 TT-TTA TTATTC TTAGT- TTATTA TCATTAA TT-TTA TTATTA TTCTTA
1 TTATTA TTATTA TTATTA TTATTA TTATT-A TTATTA TTATTA TTATTA
* *
23497342 TGATTC TTATTA TTATT- TTCATT- TTCATTA TTAT
1 TTATTA TTATTA TTATTA TT-ATTA TT-ATTA TTAT
23497376 CGTTGTTCTG
Statistics
Matches: 91, Mismatches: 20, Indels: 16
0.72 0.16 0.13
Matches are distributed among these distances:
4 2 0.02
5 21 0.23
6 64 0.70
7 4 0.04
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (6 bp):
TTATTA
Found at i:23498973 original size:15 final size:16
Alignment explanation
Indices: 23498948--23498977 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23498938 TCGAACGGTT
23498948 CACTCGTTTTGAGCGA
1 CACTCGTTTTGAGCGA
23498964 CACT-GTTTTGAGCG
1 CACTCGTTTTGAGCG
23498978 GTTTAACAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.23, G:0.27, T:0.33
Consensus pattern (16 bp):
CACTCGTTTTGAGCGA
Found at i:23499095 original size:6 final size:6
Alignment explanation
Indices: 23499093--23499150 Score: 82
Period size: 6 Copynumber: 9.7 Consensus size: 6
23499083 CTGATTTTGA
* *
23499093 TTTTAT TTTTAC TTTTAT TTTTAT TTTTAT TTTTAT TTTT-T CTTTTAG
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT
23499141 TTTTAT TTTT
1 TTTTAT TTTT
23499151 TTCTTAGACT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
5 1 0.02
6 45 0.98
ACGTcount: A:0.14, C:0.03, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:23499108 original size:12 final size:11
Alignment explanation
Indices: 23499086--23499150 Score: 76
Period size: 12 Copynumber: 5.5 Consensus size: 11
23499076 AATACCACTG
*
23499086 ATTTTGATTTT
1 ATTTTTATTTT
23499097 ATTTTTACTTTT
1 ATTTTTA-TTTT
23499109 ATTTTTATTTTT
1 ATTTTTA-TTTT
23499121 ATTTTTATTTT
1 ATTTTTATTTT
*
23499132 TTCTTTTAGTTTT
1 AT-TTTTA-TTTT
23499145 ATTTTT
1 ATTTTT
23499151 TTCTTAGACT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
11 11 0.23
12 31 0.66
13 5 0.11
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.78
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:23499151 original size:18 final size:17
Alignment explanation
Indices: 23499087--23499152 Score: 78
Period size: 18 Copynumber: 3.7 Consensus size: 17
23499077 ATACCACTGA
*
23499087 TTTTGATTTTATTTTTAC
1 TTTT-ATTTTTTTTTTAC
*
23499105 TTTTATTTTTATTTTTAT
1 TTTTATTTTT-TTTTTAC
*
23499123 TTTTATTTTTTCTTTTAG
1 TTTTATTTTTT-TTTTAC
23499141 TTTTATTTTTTT
1 TTTTATTTTTTT
23499153 CTTAGACTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
17 7 0.16
18 36 0.84
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (17 bp):
TTTTATTTTTTTTTTAC
Found at i:23502334 original size:27 final size:27
Alignment explanation
Indices: 23502295--23502464 Score: 204
Period size: 27 Copynumber: 6.3 Consensus size: 27
23502285 GAGAGGTCAA
23502295 TAAAATGACCAAAATACCCTCATAGGG
1 TAAAATGACCAAAATACCCTCATAGGG
* *
23502322 TAAATTGATCAAAATACTCCT-ATAGGG
1 TAAAATGACCAAAATAC-CCTCATAGGG
* * *
23502349 TAAAATGACCGAAGTACCTTCATAGGG
1 TAAAATGACCAAAATACCCTCATAGGG
*
23502376 TAAAATGACCGAAATACCC-CTATAGGG
1 TAAAATGACCAAAATACCCTC-ATAGGG
*
23502403 TAAAATGACTGAAAA-ACCC-CATAGGG
1 TAAAATGAC-CAAAATACCCTCATAGGG
* *
23502429 TAGAATGATCAAAATACCCTCATAGGG
1 TAAAATGACCAAAATACCCTCATAGGG
23502456 TAAAATGAC
1 TAAAATGAC
23502465 TGTTATACCT
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
25 4 0.03
26 20 0.17
27 91 0.75
28 6 0.05
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (27 bp):
TAAAATGACCAAAATACCCTCATAGGG
Found at i:23502490 original size:80 final size:79
Alignment explanation
Indices: 23502295--23502464 Score: 216
Period size: 80 Copynumber: 2.1 Consensus size: 79
23502285 GAGAGGTCAA
* * * *
23502295 TAAAATGACCAAAATACCCTCATAGGGTAAATTGA-TCAAAATACTCCTATAGGGTAAAATGACC
1 TAAAATGACCGAAATACCCT-ATAGGGTAAAATGACTGAAAA-AC-CCCATAGGGTAAAATGACC
* * *
23502359 GAAGTACCTTCATAGGG
63 AAAATACCCTCATAGGG
* *
23502376 TAAAATGACCGAAATACCCCTATAGGGTAAAATGACTGAAAAACCCCATAGGGTAGAATGATCAA
1 TAAAATGACCGAAATA-CCCTATAGGGTAAAATGACTGAAAAACCCCATAGGGTAAAATGACCAA
23502441 AATACCCTCATAGGG
65 AATACCCTCATAGGG
23502456 TAAAATGAC
1 TAAAATGAC
23502465 TGTTATACCT
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
80 39 0.50
81 30 0.38
82 9 0.12
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (79 bp):
TAAAATGACCGAAATACCCTATAGGGTAAAATGACTGAAAAACCCCATAGGGTAAAATGACCAAA
ATACCCTCATAGGG
Found at i:23509911 original size:18 final size:18
Alignment explanation
Indices: 23509880--23509916 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
23509870 ACGAAATCGA
*
23509880 TAGCAGCACCGTCAACTG
1 TAGCAACACCGTCAACTG
*
23509898 TAGCAACACGGTCAACTG
1 TAGCAACACCGTCAACTG
23509916 T
1 T
23509917 CAACATGTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (18 bp):
TAGCAACACCGTCAACTG
Found at i:23526079 original size:26 final size:28
Alignment explanation
Indices: 23526050--23526101 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
23526040 TTGTTAAAAC
*
23526050 TTTTCTAAAAG-AAACTCAAA-AGAAAT
1 TTTTCAAAAAGAAAACTCAAAGAGAAAT
*
23526076 TTTTGAAAAAGAAAACTCAAAGAGAA
1 TTTTCAAAAAGAAAACTCAAAGAGAA
23526102 TTTATTAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 9 0.41
28 4 0.18
ACGTcount: A:0.56, C:0.10, G:0.12, T:0.23
Consensus pattern (28 bp):
TTTTCAAAAAGAAAACTCAAAGAGAAAT
Found at i:23528985 original size:11 final size:11
Alignment explanation
Indices: 23528969--23528993 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23528959 GTGGCTATAT
23528969 AAATTTGAGAG
1 AAATTTGAGAG
23528980 AAATTTGAGAG
1 AAATTTGAGAG
23528991 AAA
1 AAA
23528994 AAGTGAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (11 bp):
AAATTTGAGAG
Found at i:23529115 original size:11 final size:12
Alignment explanation
Indices: 23529094--23529128 Score: 63
Period size: 11 Copynumber: 3.0 Consensus size: 12
23529084 ATTTTCATAA
23529094 TAAAATATTAAT
1 TAAAATATTAAT
23529106 TAAAAT-TTAAT
1 TAAAATATTAAT
23529117 TAAAATATTAAT
1 TAAAATATTAAT
23529129 ATTATAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAAAATATTAAT
Found at i:23533589 original size:24 final size:22
Alignment explanation
Indices: 23533541--23533590 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
23533531 ATTCATTAAT
*
23533541 TCATTTACATAGTATCACATTC
1 TCATTTACATAGTATCACATAC
23533563 TCATTTAAGCATA-TATCACAATAC
1 TCATTT-A-CATAGTATCAC-ATAC
23533587 TCAT
1 TCAT
23533591 AAACATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 7 0.29
24 11 0.46
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (22 bp):
TCATTTACATAGTATCACATAC
Found at i:23539998 original size:42 final size:42
Alignment explanation
Indices: 23539943--23540070 Score: 193
Period size: 44 Copynumber: 3.0 Consensus size: 42
23539933 GCCACTACAA
23539943 AACATGACCTTTAGCGGCGCTTTCCCACAAATGCCGCTAAAC
1 AACATGACCTTTAGCGGCGCTTTCCCACAAATGCCGCTAAAC
* * *
23539985 AACATGACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTACAG
1 AACATGACCTTTAGCGGCGCTTT-CCCACAAATGCCGCTAAAC
*
23540028 AACATGGACCTTTAGCGGCGCTTTTCCCAAAAATGCCGCTAAA
1 AACAT-GACCTTTAGCGGCGC-TTTCCCACAAATGCCGCTAAA
23540071 GTTCATGTTC
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
42 23 0.30
43 21 0.27
44 30 0.39
45 3 0.04
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (42 bp):
AACATGACCTTTAGCGGCGCTTTCCCACAAATGCCGCTAAAC
Found at i:23540032 original size:43 final size:42
Alignment explanation
Indices: 23539929--23540068 Score: 192
Period size: 42 Copynumber: 3.3 Consensus size: 42
23539919 CATTGTAGAA
*
23539929 AAACGCCACTACAAAACATGACCTTTAGCGGCGCTTTCCCAC
1 AAACGCCGCTACAAAACATGACCTTTAGCGGCGCTTTCCCAC
*
23539971 AAATGCCGCTA-AACAACATGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTACAA-AACATGACCTTTAGCGGCGCTTT-CCCAC
* *
23540014 AAACGCCGCTACAGAACATGGACCTTTAGCGGCGCTTTTCCCAA
1 AAACGCCGCTACAAAACAT-GACCTTTAGCGGCGC-TTTCCCAC
*
23540058 AAATGCCGCTA
1 AAACGCCGCTA
23540069 AAGTTCATGT
Statistics
Matches: 87, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
41 2 0.02
42 32 0.37
43 20 0.23
44 30 0.34
45 3 0.03
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (42 bp):
AAACGCCGCTACAAAACATGACCTTTAGCGGCGCTTTCCCAC
Found at i:23540066 original size:44 final size:43
Alignment explanation
Indices: 23539927--23540068 Score: 189
Period size: 44 Copynumber: 3.3 Consensus size: 43
23539917 GGCATTGTAG
*
23539927 AAAAACGCCACTACAAAACATGACCTTTAGCGGCGC-TTTCCC
1 AAAAACGCCGCTACAAAACATGACCTTTAGCGGCGCTTTTCCC
* * *
23539969 ACAAATGCCGCTA-AACAACATGACCTTTAGCGGCGCTTTCCCC
1 AAAAACGCCGCTACAA-AACATGACCTTTAGCGGCGCTTTTCCC
* *
23540012 ACAAACGCCGCTACAGAACATGGACCTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTACAAAACAT-GACCTTTAGCGGCGCTTTTCCC
*
23540056 AAAAATGCCGCTA
1 AAAAACGCCGCTA
23540069 AAGTTCATGT
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
41 2 0.02
42 30 0.34
43 22 0.25
44 33 0.38
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (43 bp):
AAAAACGCCGCTACAAAACATGACCTTTAGCGGCGCTTTTCCC
Found at i:23540466 original size:21 final size:21
Alignment explanation
Indices: 23540442--23540481 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23540432 TTCTGCTTTG
*
23540442 CTCTACTTCCCTCGTTGCTGC
1 CTCTACTTCCCTCGCTGCTGC
*
23540463 CTCTGCTTCCCTCGCTGCT
1 CTCTACTTCCCTCGCTGCT
23540482 ACCTTCGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.03, C:0.45, G:0.15, T:0.38
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCTGC
Found at i:23548943 original size:9 final size:9
Alignment explanation
Indices: 23548929--23548998 Score: 56
Period size: 9 Copynumber: 8.0 Consensus size: 9
23548919 TAAGTATAAT
23548929 TAAGTTATG
1 TAAGTTATG
23548938 TAAGTTATG
1 TAAGTTATG
* * *
23548947 ATATGATATA
1 -TAAGTTATG
*
23548957 T-ATTTATG
1 TAAGTTATG
23548965 T-A-TTATG
1 TAAGTTATG
*
23548972 TAAATTATG
1 TAAGTTATG
23548981 TAAGTTATG
1 TAAGTTATG
*
23548990 TAAATTATG
1 TAAGTTATG
23548999 ATCCAAAGTT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
7 6 0.12
8 6 0.12
9 31 0.63
10 6 0.12
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:23551976 original size:40 final size:41
Alignment explanation
Indices: 23551893--23551981 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
23551883 TTCTCCTAGC
* **
23551893 GCCGCTAATACTCGACCTTTTGTGGCGTTTTTTTCATAAAT
1 GCCGCTAATACTCGACCTATTGCAGCGTTTTTTTCATAAAT
* * *
23551934 GCCGCTAATGCTTGACCTATTGCAGCG-TTTTTTCGTAAAT
1 GCCGCTAATACTCGACCTATTGCAGCGTTTTTTTCATAAAT
*
23551974 GCCACTAA
1 GCCGCTAA
23551982 AAAGTCAATC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 19 0.46
41 22 0.54
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (41 bp):
GCCGCTAATACTCGACCTATTGCAGCGTTTTTTTCATAAAT
Found at i:23552102 original size:41 final size:41
Alignment explanation
Indices: 23552025--23552136 Score: 127
Period size: 41 Copynumber: 2.7 Consensus size: 41
23552015 ACAAAATGAT
* * *
23552025 TTTTTCAGCGTTTTTCTCATAAACGCCACTACTGCTT-GACC
1 TTTTGCAGTGTTTTTCTCATAAACACCACTACTGCTTAG-CC
* * *
23552066 TTTTGCAGTGTTTTTCTCCTAAACACCGCTATTGCTTAGCC
1 TTTTGCAGTGTTTTTCTCATAAACACCACTACTGCTTAGCC
* * *
23552107 TTTTGCGGTGTTTCTCTCATAAACGCCACT
1 TTTTGCAGTGTTTTTCTCATAAACACCACT
23552137 TTAGCTCTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 58 0.98
42 1 0.02
ACGTcount: A:0.18, C:0.28, G:0.14, T:0.40
Consensus pattern (41 bp):
TTTTGCAGTGTTTTTCTCATAAACACCACTACTGCTTAGCC
Found at i:23554031 original size:6 final size:6
Alignment explanation
Indices: 23554020--23554046 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
23554010 GTAAGTCAAC
23554020 CCCTCT CCCTCT CCCTCT CCCTCT CCC
1 CCCTCT CCCTCT CCCTCT CCCTCT CCC
23554047 ATTTTATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (6 bp):
CCCTCT
Found at i:23558406 original size:19 final size:19
Alignment explanation
Indices: 23558382--23558433 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 19
23558372 AAAAATAAAA
23558382 AAAATTCAAAATAATTTTC
1 AAAATTCAAAATAATTTTC
* *
23558401 AAAATTTTAAAATAATTTTT
1 AAAA-TTCAAAATAATTTTC
23558421 AAAATTCAAAATA
1 AAAATTCAAAATA
23558434 TTTATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTC
Found at i:23558443 original size:19 final size:19
Alignment explanation
Indices: 23558381--23558443 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 19
23558371 AAAAAATAAA
23558381 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
* *
23558400 CAAAATTTTAAAATAATTTT
1 -AAAAATTCAAAATAATTTT
*
23558420 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
23558439 AAAAA
1 AAAAA
23558444 CTCCAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 4 0.11
19 15 0.42
20 17 0.47
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:23559820 original size:2 final size:2
Alignment explanation
Indices: 23559815--23559850 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
23559805 GCGAGTTCGA
23559815 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
23559851 TATTTTTAAA
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:23564300 original size:22 final size:22
Alignment explanation
Indices: 23564268--23564318 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
23564258 ATTTAAATTT
* *
23564268 TTTA-ATTCATCTTATATATCTA
1 TTTATATTCATCTAAAATAT-TA
23564290 -TTATATTCATCTAAAATATTA
1 TTTATATTCATCTAAAATATTA
23564311 TTTATATT
1 TTTATATT
23564319 AATAGGAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTATATTCATCTAAAATATTA
Found at i:23569072 original size:32 final size:32
Alignment explanation
Indices: 23569036--23569099 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
23569026 ATAAAGAAGA
23569036 AAACATATTAACAGCGGATCTAAAGCAAAATC
1 AAACATATTAACAGCGGATCTAAAGCAAAATC
23569068 AAACATATTAACAGCGGATCTAAAGCAAAATC
1 AAACATATTAACAGCGGATCTAAAGCAAAATC
23569100 CATAAGAATA
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:0.50, C:0.19, G:0.12, T:0.19
Consensus pattern (32 bp):
AAACATATTAACAGCGGATCTAAAGCAAAATC
Found at i:23570925 original size:13 final size:13
Alignment explanation
Indices: 23570907--23570934 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
23570897 GTGAATTTAC
23570907 TTGTGTGAAAATT
1 TTGTGTGAAAATT
23570920 TTGTGTGAAAATT
1 TTGTGTGAAAATT
23570933 TT
1 TT
23570935 ATCGTTTGTG
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:0.00, G:0.21, T:0.50
Consensus pattern (13 bp):
TTGTGTGAAAATT
Found at i:23578321 original size:13 final size:13
Alignment explanation
Indices: 23578303--23578327 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23578293 GAATTTACTT
23578303 GTGTGAAAATTTC
1 GTGTGAAAATTTC
23578316 GTGTGAAAATTT
1 GTGTGAAAATTT
23578328 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:23579640 original size:37 final size:37
Alignment explanation
Indices: 23579599--23579718 Score: 102
Period size: 37 Copynumber: 3.2 Consensus size: 37
23579589 GAATATAAAT
*
23579599 ATGTATGCATATAATCAAGTTATTGAGTTGGGAATTA
1 ATGTATGCATTTAATCAAGTTATTGAGTTGGGAATTA
* * * * *
23579636 ATGTATGAATTTTAT-AA-TTATAGGGAGATT-CGAACATA
1 ATGTATGCATTTAATCAAGTTAT--TGAG-TTGGGAA-TTA
*
23579674 TATGTATGCATTTAATCAAGTTATTGAGTTGGAAATTA
1 -ATGTATGCATTTAATCAAGTTATTGAGTTGGGAATTA
*
23579712 AAGTATG
1 ATGTATG
23579719 TTTCTTATGT
Statistics
Matches: 62, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
35 4 0.06
36 2 0.03
37 24 0.39
38 8 0.13
39 18 0.29
40 2 0.03
41 4 0.06
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.38
Consensus pattern (37 bp):
ATGTATGCATTTAATCAAGTTATTGAGTTGGGAATTA
Found at i:23580010 original size:41 final size:42
Alignment explanation
Indices: 23579940--23580042 Score: 140
Period size: 41 Copynumber: 2.5 Consensus size: 42
23579930 GCCTTTGTGC
* **
23579940 CTAGCAGGCTTAACGCGGGT-AAAATATTTCGGACTATACGT
1 CTAGCAGGCTTAACGCCGGTGAAAATATTTCAAACTATACGT
*
23579981 CTAGCAGGCTTAACGCCGGTGAAAA-ATTTCAAACTATATGT
1 CTAGCAGGCTTAACGCCGGTGAAAATATTTCAAACTATACGT
23580022 CTAGCAGGCTTAATC-CCGGTG
1 CTAGCAGGCTTAA-CGCCGGTG
23580043 TTCTGAATCA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
41 51 0.91
42 5 0.09
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (42 bp):
CTAGCAGGCTTAACGCCGGTGAAAATATTTCAAACTATACGT
Found at i:23582217 original size:16 final size:19
Alignment explanation
Indices: 23582174--23582210 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
23582164 ACAAACACCA
*
23582174 ATCGACCGACCACCACAAC
1 ATCGACCAACCACCACAAC
23582193 ATCGACCAACCACCACAA
1 ATCGACCAACCACCACAA
23582211 ACACCAATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.46, G:0.08, T:0.05
Consensus pattern (19 bp):
ATCGACCAACCACCACAAC
Found at i:23583391 original size:16 final size:16
Alignment explanation
Indices: 23583370--23583412 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
23583360 ATATTTTGCT
23583370 ATAAATTTTTATTTAA
1 ATAAATTTTTATTTAA
* *
23583386 ATAAATTATGATTTAA
1 ATAAATTTTTATTTAA
23583402 ATAATATTTTT
1 ATAA-ATTTTT
23583413 GGTTATAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATAAATTTTTATTTAA
Found at i:23584887 original size:19 final size:19
Alignment explanation
Indices: 23584850--23584887 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
23584840 CTAATTAATT
*
23584850 TTTAATTAGATGAATTTAG
1 TTTAATTAGATGAAATTAG
23584869 TTTAATTAAGA-GAAATTAG
1 TTTAATT-AGATGAAATTAG
23584888 GAAAAAGGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTAATTAGATGAAATTAG
Found at i:23586420 original size:21 final size:21
Alignment explanation
Indices: 23586396--23586452 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
23586386 GATTTTAGGA
23586396 ACCTAGTGTGTCGTATCAGGC
1 ACCTAGTGTGTCGTATCAGGC
* *
23586417 ACCTCGTGTGTCGTTTCAGGC
1 ACCTAGTGTGTCGTATCAGGC
*
23586438 ACTTA-TGTGTCGTAT
1 ACCTAGTGTGTCGTAT
23586453 ACTGATCAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 9 0.29
21 22 0.71
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.35
Consensus pattern (21 bp):
ACCTAGTGTGTCGTATCAGGC
Found at i:23586720 original size:19 final size:19
Alignment explanation
Indices: 23586696--23586733 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
23586686 AGTAAAGGTA
*
23586696 ATTAAAGTT-ATGACATAAT
1 ATTAAAATTGATG-CATAAT
23586715 ATTAAAATTGATGCATAAT
1 ATTAAAATTGATGCATAAT
23586734 TAAAAGTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (19 bp):
ATTAAAATTGATGCATAAT
Found at i:23591773 original size:21 final size:21
Alignment explanation
Indices: 23591747--23591787 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
23591737 TAATCTGGGC
23591747 TTGTT-TTT-GTTTTGGG-TT
1 TTGTTGTTTAGTTTTGGGCTT
23591765 TTGTTGTTTAGTTTTGGGCTT
1 TTGTTGTTTAGTTTTGGGCTT
23591786 TT
1 TT
23591788 AGCCCGGGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 3 0.15
20 8 0.40
21 4 0.20
ACGTcount: A:0.02, C:0.02, G:0.27, T:0.68
Consensus pattern (21 bp):
TTGTTGTTTAGTTTTGGGCTT
Found at i:23593954 original size:12 final size:12
Alignment explanation
Indices: 23593937--23593963 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23593927 TTTAAATCAT
23593937 AAAAAAACAAAA
1 AAAAAAACAAAA
23593949 AAAAAAACAAAA
1 AAAAAAACAAAA
23593961 AAA
1 AAA
23593964 GAATATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:23601964 original size:44 final size:45
Alignment explanation
Indices: 23601871--23601965 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 45
23601861 GGTTCGCTGT
* *
23601871 AATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAATGT
1 AATGGAATAGAGGCGTAATAGCAATTCAATTGTTTAGTTGAATGG
* * *
23601916 AATGGAATAGAGGTGTAATAG-TATTC-TTGTGTTTAGTTGAATGG
1 AATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTAGTTGAATGG
23601960 AATGGA
1 AATGGA
23601966 GATGTAATAG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.52
45 20 0.45
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.35
Consensus pattern (45 bp):
AATGGAATAGAGGCGTAATAGCAATTCAATTGTTTAGTTGAATGG
Found at i:23602150 original size:14 final size:15
Alignment explanation
Indices: 23602111--23602152 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23602101 TTTTAACATA
*
23602111 ATTATTATTAAATAT
1 ATTATAATTAAATAT
23602126 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
23602140 A-TATAATTTAATA
1 ATTATAATTAAATA
23602153 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:23602399 original size:26 final size:28
Alignment explanation
Indices: 23602370--23602536 Score: 87
Period size: 26 Copynumber: 5.8 Consensus size: 28
23602360 TATGAATTTG
*
23602370 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
23602396 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
* * *
23602424 TAAAATTCTTGATAATAAATTTTCTTATATGAATT-TA
1 TATAA-T-TTAATAAT-AA------TATAT-AATTACA
*
23602461 TATAATTTAA-AATAAT-TA-ATATTAAA
1 TATAATTTAATAATAATATATA-ATTACA
* *
23602487 TATAATTTAATAATGATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
23602515 TAAAATTCTTAATAATAA-ATAT
1 TATAA-T-TTAATAATAATATAT
23602537 TCTTATATGA
Statistics
Matches: 109, Mismatches: 13, Indels: 35
0.69 0.08 0.22
Matches are distributed among these distances:
24 1 0.01
25 3 0.03
26 23 0.21
27 12 0.11
28 22 0.20
29 7 0.06
30 16 0.15
31 2 0.02
33 2 0.02
34 3 0.03
35 3 0.03
36 1 0.01
37 10 0.09
38 4 0.04
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:23602427 original size:101 final size:93
Alignment explanation
Indices: 23602270--23602551 Score: 306
Period size: 91 Copynumber: 3.0 Consensus size: 93
23602260 ACTATAAAAG
* * * *
23602270 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* * *
23602334 ATAATTATAACTAATAAATTATATTTTATGAATTTGT
62 -T--CT-TAA-TAATAAATTATATTATATGAATTTAT
* *
23602371 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* * *
23602434 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATATTATATGAATTTAT
*
23602462 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
*
23602525 AATAATAAA-TATTCTTATATGAATTTA
66 AATAATAAATTA-TATTATATGAATTTA
23602552 CTAAAATCAT
Statistics
Matches: 162, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
90 1 0.01
91 105 0.65
92 2 0.01
93 1 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.30
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATATTATATGAATTTAT
Found at i:23602440 original size:91 final size:90
Alignment explanation
Indices: 23602345--23602551 Score: 310
Period size: 91 Copynumber: 2.3 Consensus size: 90
23602335 TAATTATAAC
* * *
23602345 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTAT-TTTTATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
23602410 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
23602436 TAATAAATT-TTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
1 TAATAAATTATT-TT-TATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAA
*
23602500 TGATATATAATTTCATAAAATTCTTAA
64 TAATATATAATTTCATAAAATTCTTAA
23602527 TAATAAA-TATTCTTATATGAATTTA
1 TAATAAATTATT-TT-TATGAATTTA
23602552 CTAAAATCAT
Statistics
Matches: 108, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
89 1 0.01
90 4 0.04
91 103 0.95
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (90 bp):
TAATAAATTATTTTTATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:23602463 original size:47 final size:47
Alignment explanation
Indices: 23602412--23602551 Score: 148
Period size: 47 Copynumber: 3.0 Consensus size: 47
23602402 TTAATAATAA
*
23602412 TATATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATT
1 TATATAATTTCATAAAATTCTTAATAATAAATTTTCTTATATGAATT
** * * *
23602459 TATATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATGA
1 TATATAATTTCATAAAATTCTTAATAATAAAT-T-TTCTTATATGAAT-T
*
23602503 TATATAATTTCATAAAATTCTTAATAATAAATATTCTTATATGAATT
1 TATATAATTTCATAAAATTCTTAATAATAAATTTTCTTATATGAATT
23602550 TA
1 TA
23602552 CTAAAATCAT
Statistics
Matches: 72, Mismatches: 12, Indels: 18
0.71 0.12 0.18
Matches are distributed among these distances:
43 3 0.04
44 25 0.35
45 7 0.10
46 6 0.08
47 28 0.39
48 3 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (47 bp):
TATATAATTTCATAAAATTCTTAATAATAAATTTTCTTATATGAATT
Found at i:23602507 original size:44 final size:43
Alignment explanation
Indices: 23602326--23602512 Score: 128
Period size: 44 Copynumber: 4.1 Consensus size: 43
23602316 GATTTAATAA
* * * *
23602326 AATTTAAAATAATTATAACTAATAAAT-TATATTTTATGAATTTGTAT
1 AATTTAAAATAA-T-TAA-TATTAAATATA-ATTTAAT-AATATATAT
* *
23602373 AATTTAAAATAATTATTATTACATATAATTTAATAATAATATAT
1 AATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATATAT
** * * * *
23602417 AATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTATAT
1 AA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATATAT
23602464 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATAT
1 AATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATATAT
23602508 AATTT
1 AATTT
23602513 CATAAAATTC
Statistics
Matches: 109, Mismatches: 20, Indels: 25
0.71 0.13 0.16
Matches are distributed among these distances:
43 6 0.06
44 46 0.42
45 11 0.10
46 8 0.07
47 35 0.32
48 3 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (43 bp):
AATTTAAAATAATTAATATTAAATATAATTTAATAATATATAT
Found at i:23607905 original size:18 final size:18
Alignment explanation
Indices: 23607884--23607919 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
23607874 AAACAAATTG
23607884 CCAAAAAGAAACCCAAAT
1 CCAAAAAGAAACCCAAAT
23607902 CCAAAAAGAAACCCAAAT
1 CCAAAAAGAAACCCAAAT
23607920 TTTGTCTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.28, G:0.06, T:0.06
Consensus pattern (18 bp):
CCAAAAAGAAACCCAAAT
Found at i:23608831 original size:11 final size:11
Alignment explanation
Indices: 23608811--23608875 Score: 52
Period size: 12 Copynumber: 6.3 Consensus size: 11
23608801 TTAAAAATTA
23608811 AAAAAGTATTTT
1 AAAAA-TATTTT
23608823 AAAAATATTTT
1 AAAAATATTTT
23608834 --AAA-A--TT
1 AAAAATATTTT
* *
23608840 AAAAAAAATTT
1 AAAAATATTTT
23608851 AAAAAGTATTTT
1 AAAAA-TATTTT
23608863 AAAAA-ATTTT
1 AAAAATATTTT
23608873 AAA
1 AAA
23608876 NNNNNNNNNN
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
6 2 0.04
8 4 0.09
9 4 0.09
10 8 0.18
11 13 0.29
12 14 0.31
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:23608843 original size:17 final size:17
Alignment explanation
Indices: 23608821--23608854 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23608811 AAAAAGTATT
* *
23608821 TTAAAAATATTTTAAAA
1 TTAAAAAAAATTTAAAA
23608838 TTAAAAAAAATTTAAAA
1 TTAAAAAAAATTTAAAA
23608855 AGTATTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAAAAATTTAAAA
Found at i:23608863 original size:12 final size:10
Alignment explanation
Indices: 23608818--23608875 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
23608808 TTAAAAAAGT
23608818 ATTTTAAAAA
1 ATTTTAAAAA
23608828 TATTTT--AAA
1 -ATTTTAAAAA
*
23608837 A-TTAAAAAA
1 ATTTTAAAAA
*
23608846 AATTTAAAAA
1 ATTTTAAAAA
23608856 GTATTTTAAAAA
1 --ATTTTAAAAA
23608868 ATTTTAAA
1 ATTTTAAA
23608876 NNNNNNNNNN
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
7 2 0.05
8 1 0.03
9 7 0.18
10 15 0.38
11 5 0.13
12 9 0.23
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:23611458 original size:27 final size:29
Alignment explanation
Indices: 23611401--23611459 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
23611391 TTTGTTTTAA
*
23611401 ATGTAGTGTATTTTAAAAATAAAAAATAT
1 ATGTAGTATATTTTAAAAATAAAAAATAT
23611430 ATGTAGTATATTTTAAAAATAAAAAATAT
1 ATGTAGTATATTTTAAAAATAAAAAATAT
23611459 A
1 A
23611460 GTTTTTATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.37
Consensus pattern (29 bp):
ATGTAGTATATTTTAAAAATAAAAAATAT
Found at i:23630178 original size:44 final size:44
Alignment explanation
Indices: 23630092--23630179 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
23630082 TGAAATACAT
* * *
23630092 TTTTGCGGCGTTTTAAGCAAAGCGCCACAATATATAGGTCAAAA
1 TTTTGCGGCGTTTTAAACAAAGCGCCACAATATACAGCTCAAAA
*
23630136 TTTTGCGGCGTTTTAAACTAAGCGCCACTAACTAT-CA-CTCAAAA
1 TTTTGCGGCGTTTTAAACAAAGCGCCAC-AA-TATACAGCTCAAAA
23630180 CGCAGTCGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
44 32 0.84
45 3 0.08
46 3 0.08
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (44 bp):
TTTTGCGGCGTTTTAAACAAAGCGCCACAATATACAGCTCAAAA
Found at i:23630401 original size:147 final size:147
Alignment explanation
Indices: 23630134--23630414 Score: 327
Period size: 147 Copynumber: 1.9 Consensus size: 147
23630124 TATAGGTCAA
* * * ** *
23630134 AATTTTGCGGCGTTTTAAACTAAGCGCCACTAACTATCACTCAAAACGCAGTCGCTTCATCAACA
1 AATTTTGCGGCATTTTAAACTAAGCGCCACTAACTATAACTCAAAACGAACCCGCTTCACCAACA
* * * *
23630199 CTTACCTCAAACCCGTGGCGTTTTCGATAAAACGCCACTAATAACATTAACAAAACGGCAACGTT
66 CTTACCTCAAACCCGTGGCGTTTCCGATAAAACGCCACTAATAACAATAACAAAACGACAACATT
23630264 TCAACAAATGTTTGAAC
131 TCAACAAATGTTTGAAC
* * *
23630281 AATTTTGCGGCATTTT-AAGTAAAGCGCCACTAACTATAACTCAAAACGAACCCGTTTCCCCAAC
1 AATTTTGCGGCATTTTAAACT-AAGCGCCACTAACTATAACTCAAAACGAACCCGCTTCACCAAC
* **** *
23630345 AGTTTACC-CAATGTTGTGGCGTTTCCGA-CAAACGCCACTAAT-ACAATAGACAAAAACGACAA
65 A-CTTACCTCAAACCCGTGGCGTTTCCGATAAAACGCCACTAATAACAATA-AC-AAAACGACAA
23630407 CATTTCAA
127 CATTTCAA
23630415 TAAACATAAT
Statistics
Matches: 111, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
145 5 0.05
146 18 0.16
147 83 0.75
148 5 0.05
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.25
Consensus pattern (147 bp):
AATTTTGCGGCATTTTAAACTAAGCGCCACTAACTATAACTCAAAACGAACCCGCTTCACCAACA
CTTACCTCAAACCCGTGGCGTTTCCGATAAAACGCCACTAATAACAATAACAAAACGACAACATT
TCAACAAATGTTTGAAC
Found at i:23630932 original size:21 final size:20
Alignment explanation
Indices: 23630908--23630963 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
23630898 TTGTAATCCT
23630908 TAAACCTCAAAAACCAAACCC
1 TAAACC-CAAAAACCAAACCC
* *
23630929 TAAACCCCAAACACTAAACCC
1 TAAA-CCCAAAAACCAAACCC
* *
23630950 CAAACCCTAAAACC
1 TAAACCCAAAAACC
23630964 CCAAACAGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 7 0.25
21 19 0.68
22 2 0.07
ACGTcount: A:0.50, C:0.41, G:0.00, T:0.09
Consensus pattern (20 bp):
TAAACCCAAAAACCAAACCC
Found at i:23630938 original size:14 final size:14
Alignment explanation
Indices: 23630921--23630969 Score: 80
Period size: 14 Copynumber: 3.4 Consensus size: 14
23630911 ACCTCAAAAA
23630921 CCAAACCCTAAACC
1 CCAAACCCTAAACC
*
23630935 CCAAACACTAAACC
1 CCAAACCCTAAACC
23630949 CCAAACCCTAAAACC
1 CCAAACCCT-AAACC
23630964 CCAAAC
1 CCAAAC
23630970 AGTAAAAGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.06
Consensus pattern (14 bp):
CCAAACCCTAAACC
Found at i:23630969 original size:7 final size:7
Alignment explanation
Indices: 23630921--23630969 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
23630911 ACCTCAAAAA
23630921 CCAAACC
1 CCAAACC
*
23630928 CTAAACC
1 CCAAACC
*
23630935 CCAAACA
1 CCAAACC
*
23630942 CTAAACC
1 CCAAACC
23630949 CCAAACC
1 CCAAACC
*
23630956 CTAAAACC
1 C-CAAACC
23630964 CCAAAC
1 CCAAAC
23630970 AGTAAAAGTC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.06
Consensus pattern (7 bp):
CCAAACC
Found at i:23630970 original size:29 final size:28
Alignment explanation
Indices: 23630921--23630975 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
23630911 ACCTCAAAAA
23630921 CCAAACCCTAAACCCCAAACACTAAACC
1 CCAAACCCTAAACCCCAAACACTAAACC
*
23630949 CCAAACCCTAAAACCCCAAACAGTAAA
1 CCAAACCCT-AAACCCCAAACACTAAA
23630976 AGTCAAAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.49, C:0.42, G:0.02, T:0.07
Consensus pattern (28 bp):
CCAAACCCTAAACCCCAAACACTAAACC
Found at i:23630975 original size:15 final size:15
Alignment explanation
Indices: 23630921--23630976 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 15
23630911 ACCTCAAAAA
*
23630921 CCAAACCCT-AAACC
1 CCAAACACTAAAACC
23630935 CCAAACACT-AAACC
1 CCAAACACTAAAACC
*
23630949 CCAAACCCTAAAACC
1 CCAAACACTAAAACC
*
23630964 CCAAACAGTAAAA
1 CCAAACACTAAAA
23630977 GTCAAAACCA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
14 21 0.57
15 16 0.43
ACGTcount: A:0.50, C:0.41, G:0.02, T:0.07
Consensus pattern (15 bp):
CCAAACACTAAAACC
Found at i:23631815 original size:18 final size:18
Alignment explanation
Indices: 23631792--23631827 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
23631782 ATTGAATTTT
23631792 AATT-AATATAAATAAACA
1 AATTAAATATAAA-AAACA
23631810 AATTAAATATAAAAAACA
1 AATTAAATATAAAAAACA
23631828 TATAAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (18 bp):
AATTAAATATAAAAAACA
Found at i:23631835 original size:18 final size:19
Alignment explanation
Indices: 23631796--23631835 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
23631786 AATTTTAATT
*
23631796 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
*
23631815 AATATAAA-AAACATATAA
1 AATATAAATAAACAAATAA
23631833 AAT
1 AAT
23631836 GATTTTGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:23632489 original size:114 final size:114
Alignment explanation
Indices: 23631987--23632474 Score: 318
Period size: 114 Copynumber: 4.3 Consensus size: 114
23631977 TTAATTCTAG
* * * * * * * * * *
23631987 TATACATCAAGAACTAAACGCTGTGTTTTGGTTAAGATACTTTGCGGCGCGTTACAC-AAACGCT
1 TATACATCAAG-ACCAAACGCTGCGTGTTGGTTAACATATTTTGCGGTGC-TTTCGCTAAGCGCC
* * *
23632051 GCTAATGA-TATACTTTAGCGGC-ATTT-TTCATCAAGCGCCACTAATT-CTAA
64 GCTAAT-ACTATACATTACCGGCGTTTTCTTCAT-AAGCGCCACTAATTGC-AA
* * * * * * * * * * * *
23632101 TACT-CCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTGGAGGCGCTTACCACAAAACGCT
1 TA-TACATCAAGACCAAACGCTGCGTGTTGGTTAACATATTTTGCGGTGCTT-TCGCTAAGCGCC
* * * * ** *
23632165 GCT-ATAACTATCCTTTACTGGCATTTTCCTT-A-AA-CGCCACTAATTATAG
64 GCTAAT-ACTATACATTACCGGCGTTTT-CTTCATAAGCGCCACTAATTGCAA
* * * * * * * **
23632214 TATACATCAAGACCAAAATGGTGCGTTTTGATTAAGATATCTTGCGGCG-TTTAACGCTCTGCGC
1 TATACATCAAGACC-AAACGCTGCGTGTTGGTTAACATATTTTGCGGTGCTTT--CGCTAAGCGC
* *
23632278 CGCTAATACTATACATTAGCGGCGTTTTCTTTATAAGCGCCACTAATTGCAA
63 CGCTAATACTATACATTACCGGCGTTTTCTTCATAAGCGCCACTAATTGCAA
* * * *
23632330 TATACATCAAGACTAAACTCTGCGTTTTGGTTAACATCTTTTGCGGTGCTTTCGCTAAGCGCCGC
1 TATACATCAAGACCAAACGCTGCGTGTTGGTTAACATATTTTGCGGTGCTTTCGCTAAGCGCCGC
* *
23632395 TAATACTGTACATTACCGGCG-TTTGTTCATAAGCGCCACTAA-TGCCAA
66 TAATACTATACATTACCGGCGTTTTCTTCATAAGCGCCACTAATTG-CAA
23632443 TATACATCAAGACCAGAACGCTGCGTGTTGGT
1 TATACATCAAGACCA-AACGCTGCGTGTTGGT
23632475 CTTGATATTT
Statistics
Matches: 299, Mismatches: 56, Indels: 38
0.76 0.14 0.10
Matches are distributed among these distances:
112 5 0.02
113 102 0.34
114 127 0.42
115 34 0.11
116 29 0.10
117 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (114 bp):
TATACATCAAGACCAAACGCTGCGTGTTGGTTAACATATTTTGCGGTGCTTTCGCTAAGCGCCGC
TAATACTATACATTACCGGCGTTTTCTTCATAAGCGCCACTAATTGCAA
Found at i:23632569 original size:40 final size:40
Alignment explanation
Indices: 23632504--23632617 Score: 117
Period size: 40 Copynumber: 2.9 Consensus size: 40
23632494 GCGTGGTAAA
*
23632504 CGCCGCTAATGATGTTCTTTAGCGGCGTTTTGTTAAAAT-
1 CGCCGCTAATGATGATCTTTAGCGGCGTTTTGTTAAAATG
* ****
23632543 CGCCGCTAATGCTAGATCTTTAGCGGCGTTTT-TTTCTTTG
1 CGCCGCTAATGAT-GATCTTTAGCGGCGTTTTGTTAAAATG
* *
23632583 CGCCGCTAATGGTTGATTTTTAGCGGCG-TTTGTTA
1 CGCCGCTAAT-GATGATCTTTAGCGGCGTTTTGTTA
23632618 TCAAAATGCC
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
39 18 0.29
40 42 0.68
41 2 0.03
ACGTcount: A:0.16, C:0.19, G:0.25, T:0.40
Consensus pattern (40 bp):
CGCCGCTAATGATGATCTTTAGCGGCGTTTTGTTAAAATG
Found at i:23633440 original size:20 final size:20
Alignment explanation
Indices: 23633415--23633460 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
23633405 TATTTTTCAA
23633415 CCATGTCTCGAGACATCTTG
1 CCATGTCTCGAGACATCTTG
*
23633435 CCATGTCTTGAGACATCTTG
1 CCATGTCTCGAGACATCTTG
23633455 CCATGT
1 CCATGT
23633461 TTCAAGACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.33
Consensus pattern (20 bp):
CCATGTCTCGAGACATCTTG
Found at i:23633468 original size:20 final size:20
Alignment explanation
Indices: 23633415--23633468 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
23633405 TATTTTTCAA
*
23633415 CCATGTCTCGAGACATCTTG
1 CCATGTTTCGAGACATCTTG
23633435 CCATGTCTT-GAGACATCTTG
1 CCATGT-TTCGAGACATCTTG
*
23633455 CCATGTTTCAAGAC
1 CCATGTTTCGAGAC
23633469 CTAGGTTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 2 0.07
20 27 0.90
21 1 0.03
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (20 bp):
CCATGTTTCGAGACATCTTG
Found at i:23641101 original size:31 final size:31
Alignment explanation
Indices: 23641066--23641126 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
23641056 GGAAAATTAC
*
23641066 AAGAGTAACTGAATCCTAATAAAAATCTTTG
1 AAGAGTAACTGAATCCCAATAAAAATCTTTG
* *
23641097 AAGAGTAATTGAATCCCAATAAAACTCTTT
1 AAGAGTAACTGAATCCCAATAAAAATCTTT
23641127 AAAATTATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (31 bp):
AAGAGTAACTGAATCCCAATAAAAATCTTTG
Found at i:23643143 original size:53 final size:52
Alignment explanation
Indices: 23643056--23643292 Score: 273
Period size: 53 Copynumber: 4.5 Consensus size: 52
23643046 TTCATCTCCA
** *
23643056 GGGGTATAACAGTCATTTTACCCTAT-GTGGGTATTTCGGTCATTTGACCCTTC
1 GGGGTATTTCAGTCATTTTACCCT-TCG-GGGTATTTCGGTCATTTTACCCTTC
* *
23643109 GAGGGTATTTC-GATCATTGTACCCTTCGGGGTATTTCGGTCATTTTACTCTTC
1 G-GGGTATTTCAG-TCATTTTACCCTTCGGGGTATTTCGGTCATTTTACCCTTC
* * * * *
23643162 GAGGGTATTTCAGT-TTTTTCACCCTTCAAGGGCATTTCAGTCATTTTACCTTTC
1 G-GGGTATTTCAGTCATTTT-ACCCTTC-GGGGTATTTCGGTCATTTTACCCTTC
*
23643216 GGGGTATTTCAGTCATTTTACCTTTCGGGGTATTTCGGTCATTTTACCCTTC
1 GGGGTATTTCAGTCATTTTACCCTTCGGGGTATTTCGGTCATTTTACCCTTC
* *
23643268 GGGATATTTCGGTCATTTTACCCTT
1 GGGGTATTTCAGTCATTTTACCCTT
23643293 TCGATCTTTT
Statistics
Matches: 156, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
52 47 0.30
53 63 0.40
54 46 0.29
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.42
Consensus pattern (52 bp):
GGGGTATTTCAGTCATTTTACCCTTCGGGGTATTTCGGTCATTTTACCCTTC
Done.