Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 16 of 349
Found at i:4667087 original size:22 final size:22
Alignment explanation
Indices: 4667041--4667108 Score: 91
Period size: 22 Copynumber: 3.0 Consensus size: 22
4667031 ACAAAAAGAG
*
4667041 AAAAACTCAAATATCAAATTGAA
1 AAAAACTCAAATATTAAATT-AA
*
4667064 AAAAACCCAAATATTAAATTAA
1 AAAAACTCAAATATTAAATTAA
* *
4667086 AAAAATTCAAGTATTAAATTAA
1 AAAAACTCAAATATTAAATTAA
4667108 A
1 A
4667109 TATTAAACTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 22 0.55
23 18 0.45
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (22 bp):
AAAAACTCAAATATTAAATTAA
Found at i:4667120 original size:13 final size:12
Alignment explanation
Indices: 4667072--4667122 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
4667062 AAAAAAACCC
4667072 AAATATTAAATT
1 AAATATTAAATT
4667084 AAA-A--AAATT
1 AAATATTAAATT
*
4667093 CAAGTATTAAATT
1 -AAATATTAAATT
4667106 AAATATTAAACTT
1 AAATATTAAA-TT
4667119 AAAT
1 AAAT
4667123 TCAAGCATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
9 5 0.16
10 2 0.06
11 2 0.06
12 12 0.38
13 11 0.34
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (12 bp):
AAATATTAAATT
Found at i:4668275 original size:11 final size:11
Alignment explanation
Indices: 4668261--4668312 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
4668251 TCTTTCAATA
4668261 TTCTCTCAAAT
1 TTCTCTCAAAT
4668272 TTCTCTCAAA-
1 TTCTCTCAAAT
4668282 -TCTCTCAAAT
1 TTCTCTCAAAT
*
4668292 TTCTCTTAAAT
1 TTCTCTCAAAT
*
4668303 TCCTCTCAAA
1 TTCTCTCAAA
4668313 ACTCTCATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:4668284 original size:31 final size:31
Alignment explanation
Indices: 4668261--4668319 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
4668251 TCTTTCAATA
*
4668261 TTCTCTCAAATTTCTCTCAAATCTCTCAAAT
1 TTCTCTCAAATTCCTCTCAAATCTCTCAAAT
* *
4668292 TTCTCTTAAATTCCTCTCAAAACTCTCA
1 TTCTCTCAAATTCCTCTCAAATCTCTCA
4668320 TTAATTTTTT
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:0.29, C:0.31, G:0.00, T:0.41
Consensus pattern (31 bp):
TTCTCTCAAATTCCTCTCAAATCTCTCAAAT
Found at i:4668287 original size:20 final size:21
Alignment explanation
Indices: 4668255--4668312 Score: 82
Period size: 20 Copynumber: 2.7 Consensus size: 21
4668245 CTTCAATCTT
4668255 TCAATATTCTCTCAAATTTCTC
1 TCAA-ATTCTCTCAAATTTCTC
4668277 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTTCTC
*
4668297 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
4668313 ACTCTCATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 19 0.58
21 2 0.06
22 12 0.36
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTTCTC
Found at i:4668368 original size:16 final size:15
Alignment explanation
Indices: 4668339--4668369 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4668329 TCAAAAAAGC
*
4668339 TCTAATTTTATTTTT
1 TCTAAATTTATTTTT
4668354 TCTAAATTTATTTTT
1 TCTAAATTTATTTTT
4668369 T
1 T
4668370 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTAAATTTATTTTT
Found at i:4669480 original size:7 final size:7
Alignment explanation
Indices: 4669468--4669494 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
4669458 TAGTGGATTC
4669468 GTATTTA
1 GTATTTA
4669475 GTATTTA
1 GTATTTA
4669482 GTATTTA
1 GTATTTA
4669489 GTATTT
1 GTATTT
4669495 TTTATTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (7 bp):
GTATTTA
Found at i:4670724 original size:116 final size:116
Alignment explanation
Indices: 4670520--4671250 Score: 1291
Period size: 116 Copynumber: 6.3 Consensus size: 116
4670510 TATTTGTACA
*
4670520 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
4670585 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAATGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
4670636 AACATTTTAAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* *
4670701 TATAATTTACTTTTATATTTTTAATAAAATGGAAACTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
4670752 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
4670817 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* *
4670868 AATATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAAGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
4670933 TGTAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
4670984 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTTTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
*
4671049 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGAC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* * *
4671100 AACATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* * * *
4671165 TATAATTTACTTTTATATTTTTAATAAAATGAAAACTATTTTAAATAAAGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* *
4671216 AATATTTTAAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
4671251 AAAATATAAA
Statistics
Matches: 587, Mismatches: 28, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 587 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:4678549 original size:17 final size:16
Alignment explanation
Indices: 4678524--4678557 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4678514 TGTTTTTTTC
4678524 TGAAGGAAGGACTAAAA
1 TGAAGGAA-GACTAAAA
*
4678541 TGAATGAAGACTAAAA
1 TGAAGGAAGACTAAAA
4678557 T
1 T
4678558 TTTTGGGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.53, C:0.06, G:0.24, T:0.18
Consensus pattern (16 bp):
TGAAGGAAGACTAAAA
Found at i:4679049 original size:15 final size:14
Alignment explanation
Indices: 4679025--4679064 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
4679015 ATGATATATA
4679025 TATA-TATTATTTT
1 TATACTATTATTTT
4679038 TATCACTATTATTTT
1 TAT-ACTATTATTTT
*
4679053 TATATTATTATT
1 TATACTATTATT
4679065 ATATTATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 3 0.12
14 9 0.38
15 12 0.50
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (14 bp):
TATACTATTATTTT
Found at i:4679141 original size:18 final size:18
Alignment explanation
Indices: 4679118--4679156 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
4679108 ATTATATGCA
*
4679118 TATATTTATTATTATTAT
1 TATATTTATTATTAATAT
4679136 TATATTTATTATTAATAT
1 TATATTTATTATTAATAT
4679154 TAT
1 TAT
4679157 TAGTACTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TATATTTATTATTAATAT
Found at i:4679274 original size:24 final size:23
Alignment explanation
Indices: 4679236--4679298 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 23
4679226 AATAATTTTT
4679236 TATAT-TAT-TAT-TATTTCTAA
1 TATATATATGTATATATTTCTAA
*
4679256 TATATATATTGTATATATTTTTAA
1 TATATATA-TGTATATATTTCTAA
*
4679280 TATATTTATGTATATATTT
1 TATATATATGTATATATTT
4679299 ATGTAGTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
20 5 0.14
21 2 0.05
22 1 0.03
23 14 0.38
24 15 0.41
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (23 bp):
TATATATATGTATATATTTCTAA
Found at i:4679584 original size:3 final size:3
Alignment explanation
Indices: 4679578--4679707 Score: 76
Period size: 3 Copynumber: 44.0 Consensus size: 3
4679568 TCATACTTGT
* * *
4679578 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTA TCA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * *
4679626 ACA TTTA TT- TATA TTT TTA TGTA CATA TTA TTA TT- TTA -TA TTA TTA
1 TTA -TTA TTA T-TA TTA TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA
* * *
4679672 TTA CTA -AA TATA TTA TT- TT- TTC TTA TT- TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4679708 GTACATAGTT
Statistics
Matches: 100, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
2 12 0.12
3 80 0.80
4 8 0.08
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:4693017 original size:16 final size:16
Alignment explanation
Indices: 4692993--4693070 Score: 50
Period size: 16 Copynumber: 4.6 Consensus size: 16
4692983 ACATTTGTAC
*
4692993 AATTGTACACATATTT
1 AATTCTACACATATTT
*
4693009 AATTCTACATAT-TTT
1 AATTCTACACATATTT
* **
4693024 AACATCATTTACATATTTT
1 AA-TTC-TACACATA-TTT
*
4693043 ACAATTGTACACATATTT
1 --AATTCTACACATATTT
4693061 AATTCTACAC
1 AATTCTACAC
4693071 TTATACCAAT
Statistics
Matches: 45, Mismatches: 11, Indels: 12
0.66 0.16 0.18
Matches are distributed among these distances:
15 5 0.11
16 21 0.47
17 4 0.09
18 3 0.07
19 9 0.20
20 1 0.02
21 2 0.04
ACGTcount: A:0.37, C:0.17, G:0.03, T:0.44
Consensus pattern (16 bp):
AATTCTACACATATTT
Found at i:4693295 original size:15 final size:14
Alignment explanation
Indices: 4693277--4693307 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
4693267 TTAATTTATT
4693277 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
4693292 TAATAATAATCTAA
1 TAATAATAATCTAA
4693306 TA
1 TA
4693308 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:4693318 original size:21 final size:20
Alignment explanation
Indices: 4693294--4693362 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
4693284 AATGCTAATA
4693294 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
4693315 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
4693334 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
4693355 ATAATAAT
1 ATAATAAT
4693363 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:4695130 original size:26 final size:26
Alignment explanation
Indices: 4695101--4695182 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
4695091 TGATACAAAT
4695101 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
4695127 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4695153 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4695179 TGAT
1 TGAT
4695183 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:4702575 original size:24 final size:24
Alignment explanation
Indices: 4702491--4702577 Score: 86
Period size: 24 Copynumber: 3.5 Consensus size: 24
4702481 TTAACATTTG
*
4702491 TACAATTGTACACATTTTTAATTC
1 TACAATTGTACACATATTTAATTC
* *
4702515 TACATATTTTA-ACATCATTTACATATTT
1 TACA-ATTGTACACAT-ATTT--A-ATTC
4702543 TACAATTGTACACATATTTAATTC
1 TACAATTGTACACATATTTAATTC
*
4702567 TACAGTTGTAC
1 TACAATTGTAC
4702578 CAATAATTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
24 21 0.41
25 9 0.18
27 10 0.20
28 11 0.22
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (24 bp):
TACAATTGTACACATATTTAATTC
Found at i:4702880 original size:43 final size:41
Alignment explanation
Indices: 4702777--4702880 Score: 99
Period size: 40 Copynumber: 2.6 Consensus size: 41
4702767 TTAATTTATT
4702777 TAATAATAATGT--TAATA-ATAATAATCTAATATAAAACCA
1 TAATAATAAT-TAATAATATATAATAATCTAATATAAAACCA
** * *
4702816 TAATGTTAATTAATAAT-TATAATAATTTGATATAAAACCA
1 TAATAATAATTAATAATATATAATAATCTAATATAAAACCA
* *
4702856 TTATAATAATCATTATAATATATAA
1 TAATAATAAT--TAATAATATATAA
4702881 AACCTAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
38 1 0.02
39 8 0.16
40 31 0.61
42 6 0.12
43 5 0.10
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (41 bp):
TAATAATAATTAATAATATATAATAATCTAATATAAAACCA
Found at i:4708061 original size:385 final size:385
Alignment explanation
Indices: 4707350--4708119 Score: 1317
Period size: 385 Copynumber: 2.0 Consensus size: 385
4707340 TTGATGGCAT
*
4707350 TCTCAATAAGTTCTCCGGATATTACGATATCCAAAAAATCCTTCGTAGCACTTCCCACCATCTTG
1 TCTCAATAAGTTCTCCGGATATTACGATATCCAAAAAATCCTTCGTAGCACTTCCCACCAGCTTG
*
4707415 TCATAGAATGGTGCTCTTAGAGTATTGATGAAAAGGACTGTTATCTCAGTCTTAGTCAGTGGAGG
66 TCATAGAATGGTGCTCTCAGAGTATTGATGAAAAGGACTGTTATCTCAGTCTTAGTCAGTGGAGG
* * * * *
4707480 CTCCACTTAGGCCGATATATCTCTCTACCTTTGTGCATATTGTCTAAAGGTTTCTGCTGGTTTCT
131 CTCCACTTAGGCCGAGATATCTCTCCACCTTTGCGCATACTGTCTAAAGGTTTCTACTGGTTTCT
* *
4707545 TTTCCATCATTTGTAGGGTCATTCGATCAGGCACCATATCTGATACATGCTTGCATTGCTCACAG
196 TTTCCATCATTTGTAGGGTCATTCGATCAGGCACCATATCCGATACATGCTTGCACTGCTCACAG
* *
4707610 AAGCCTGACGTCAAGTCCTTCCAGGATCGGATCTTTTCCCTACTAAGCTGGTTATACCATCGAAG
261 AAGCCTGACGCCAAGTCCTTCCAGGATCGGATCTTTTCCCTACTAAGCTGGTTATACCACCGAAG
*
4707675 AGCCGATCCTACTAGACTATCCTAAAAACAATGTATGAGTAGCTTATCTTCGTTCACATA
326 AGCCGATCCTACTAGACTATCCTAAAAACAATATATGAGTAGCTTATCTTCGTTCACATA
* *
4707735 TCTCAATAAGTTCTCCGGATATTACGATATCCGAAAAATCCTTCGTAGCACTTCCCACGAGCTTG
1 TCTCAATAAGTTCTCCGGATATTACGATATCCAAAAAATCCTTCGTAGCACTTCCCACCAGCTTG
*
4707800 TCATAGAATGGTGCTCTCAGAGTGTTGATGAAAAGGACTGTTATCTCAGTCTTAGTCAGTGGAGG
66 TCATAGAATGGTGCTCTCAGAGTATTGATGAAAAGGACTGTTATCTCAGTCTTAGTCAGTGGAGG
* *
4707865 CTCTACTTGGGCCGAGATATCTCTCCACCTTTGCGCATACTGTCTAAAAGGTTTCTACTGGTTTC
131 CTCCACTTAGGCCGAGATATCTCTCCACCTTTGCGCATACTGTCT-AAAGGTTTCTACTGGTTTC
*
4707930 TTTTCCATCATTTGTAGGGTCATTCGAT-AGGCACCATATCCGATACATGCTTGTACTGCTCACA
195 TTTTCCATCATTTGTAGGGTCATTCGATCAGGCACCATATCCGATACATGCTTGCACTGCTCACA
* * *
4707994 GAAGGCTGACGCCAAGTCCTTCTAGGATCGGATCTTTTCCCTACTAAGTTGGTTATACCACCGAA
260 GAAGCCTGACGCCAAGTCCTTCCAGGATCGGATCTTTTCCCTACTAAGCTGGTTATACCACCGAA
* *
4708059 GAGCCGATCCTACTAGACTATCCTGAAAACAATATATGAGTAGCTTATCTTTGTTCACATA
325 GAGCCGATCCTACTAGACTATCCTAAAAACAATATATGAGTAGCTTATCTTCGTTCACATA
4708120 ACCTGTCATT
Statistics
Matches: 361, Mismatches: 23, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
385 315 0.87
386 46 0.13
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (385 bp):
TCTCAATAAGTTCTCCGGATATTACGATATCCAAAAAATCCTTCGTAGCACTTCCCACCAGCTTG
TCATAGAATGGTGCTCTCAGAGTATTGATGAAAAGGACTGTTATCTCAGTCTTAGTCAGTGGAGG
CTCCACTTAGGCCGAGATATCTCTCCACCTTTGCGCATACTGTCTAAAGGTTTCTACTGGTTTCT
TTTCCATCATTTGTAGGGTCATTCGATCAGGCACCATATCCGATACATGCTTGCACTGCTCACAG
AAGCCTGACGCCAAGTCCTTCCAGGATCGGATCTTTTCCCTACTAAGCTGGTTATACCACCGAAG
AGCCGATCCTACTAGACTATCCTAAAAACAATATATGAGTAGCTTATCTTCGTTCACATA
Found at i:4709751 original size:47 final size:47
Alignment explanation
Indices: 4709677--4709802 Score: 234
Period size: 47 Copynumber: 2.7 Consensus size: 47
4709667 GGATGGTTGA
*
4709677 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
4709724 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
*
4709771 GCATTCGAACTCGTTGAGTTGAGTCCAAGTTC
1 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTC
4709803 ATTTATGGAT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 77 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (47 bp):
GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:4715898 original size:3 final size:3
Alignment explanation
Indices: 4715892--4715934 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
4715882 GTTAATGATG
4715892 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4715935 ACAAGTATGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4716100 original size:26 final size:25
Alignment explanation
Indices: 4716071--4716128 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
4716061 ATATGTGAGG
4716071 AAATATATACATA-ATATAGTATTAAA
1 AAATATATA-ATATATATAGTATT-AA
4716097 AAATATATAATATATATAGTATTAA
1 AAATATATAATATATATAGTATTAA
4716122 AAATATA
1 AAATATA
4716129 GTATTAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 12 0.39
26 19 0.61
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (25 bp):
AAATATATAATATATATAGTATTAA
Found at i:4716142 original size:16 final size:14
Alignment explanation
Indices: 4716083--4716138 Score: 73
Period size: 14 Copynumber: 4.1 Consensus size: 14
4716073 ATATATACAT
4716083 AATATAGTATTAAA
1 AATATAGTATTAAA
4716097 AA-ATA-TA-TAATA
1 AATATAGTATTAA-A
*
4716109 TATATAGTATTAAA
1 AATATAGTATTAAA
4716123 AATATAGTATTAAA
1 AATATAGTATTAAA
4716137 AA
1 AA
4716139 AATAATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
11 3 0.08
12 4 0.11
13 6 0.17
14 20 0.56
15 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (14 bp):
AATATAGTATTAAA
Found at i:4716227 original size:20 final size:20
Alignment explanation
Indices: 4716199--4716236 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4716189 GAAAACTACA
* *
4716199 TAAATATATACATAATATCT
1 TAAAAATATACACAATATCT
4716219 TAAAAATATACACAATAT
1 TAAAAATATACACAATAT
4716237 ATATATTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAAATATACACAATATCT
Found at i:4716349 original size:3 final size:3
Alignment explanation
Indices: 4716335--4716372 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
4716325 TACTAGTACC
*
4716335 AAT AAT ATT AAT AAT AA- ATAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AA
4716373 ATCTATGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 1 0.03
3 29 0.94
4 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:4716453 original size:14 final size:15
Alignment explanation
Indices: 4716434--4716466 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
4716424 AACATAATAT
4716434 AATAATAGT-ATAAA
1 AATAATAGTGATAAA
4716448 AATAATAGTGATAAA
1 AATAATAGTGATAAA
4716463 AATA
1 AATA
4716467 GCATATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (15 bp):
AATAATAGTGATAAA
Found at i:4718049 original size:77 final size:75
Alignment explanation
Indices: 4717869--4718180 Score: 366
Period size: 77 Copynumber: 4.1 Consensus size: 75
4717859 GGCTATACGT
* * * *
4717869 AGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGACACGTTGAGGTAT
1 AGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
4717934 TTTCAATTT-
66 TTTCAATTTC
* * * * *
4717943 A-TGTTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACGCCGAGGT
1 AGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGT
*
4718005 ATTTCCAATTTC
64 ATTTTCAATTTC
4718017 AGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACACACGCTGAG
1 AGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG----ACACGCTGAG
*
4718082 GTAATTTCAATTTC
62 GTATTTTCAATTTC
* * * *
4718096 TGTTTGTC--AAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAC
1 AGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-
4718159 TATTTCAATTTC
65 T-TTTCAATTTC
*
4718171 TGTTTTTCAA
1 AGTTTTTCAA
4718181 TTTCTGCTTT
Statistics
Matches: 204, Mismatches: 22, Indels: 21
0.83 0.09 0.09
Matches are distributed among these distances:
71 37 0.18
73 37 0.18
74 2 0.01
75 22 0.11
77 78 0.38
79 28 0.14
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (75 bp):
AGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
TTTCAATTTC
Found at i:4718164 original size:148 final size:144
Alignment explanation
Indices: 4717869--4718165 Score: 373
Period size: 148 Copynumber: 2.0 Consensus size: 144
4717859 GGCTATACGT
* * * * *
4717869 AGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGACACGTTGAGGTAT
1 AGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTGAACACACGCTGAGGTAA
* * * *
4717934 TTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCACACGC
66 TTTCAATTTATGTTTCAAAAATCAACTCATATTACAAGAAGTGAGTTGAGCCTCAGG-CACACGA
4717999 CGAGGTATTTCCAATTTC
130 CGAGGTA--T-CAATTTC
4718017 AGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACACACGCTGAG
1 AGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCT---GA-ACACACGCTGAG
* *
4718082 GTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAGG-A
62 GTAATTTCAATTTATG-TT-TCAAAAATCAACTCATATTACAAGAAGTGAGTTGAGCCTCAGGCA
* *
4718146 CACGATGAGGTA-CTATTTC
125 CACGACGAGGTATCAATTTC
4718165 A
1 A
4718166 ATTTCTGTTT
Statistics
Matches: 130, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
148 53 0.41
151 1 0.01
152 35 0.27
153 2 0.02
154 39 0.30
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (144 bp):
AGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTGAACACACGCTGAGGTAA
TTTCAATTTATGTTTCAAAAATCAACTCATATTACAAGAAGTGAGTTGAGCCTCAGGCACACGAC
GAGGTATCAATTTC
Found at i:4718180 original size:14 final size:14
Alignment explanation
Indices: 4718161--4718194 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
4718151 TGAGGTACTA
*
4718161 TTTCAATTTCTGTT
1 TTTCAATTTCTGCT
4718175 TTTCAATTTCTGCT
1 TTTCAATTTCTGCT
4718189 TTTCAA
1 TTTCAA
4718195 AAAAAAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.59
Consensus pattern (14 bp):
TTTCAATTTCTGCT
Found at i:4718259 original size:94 final size:87
Alignment explanation
Indices: 4718086--4718505 Score: 425
Period size: 89 Copynumber: 4.6 Consensus size: 87
4718076 GCTGAGGTAA
* * * *
4718086 TTTCAATTTCTG-TTTGTC-AAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTCAATTTATGCTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGTCAC
*
4718149 GATGAGGTACTATTTCAATTTCTGTT
64 GCTGAGGTA-T-TTTCAATTTCTGTT
* * *
4718175 TTTCAATTTCTGCTTTTCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTGGTT
1 TTTCAATTTATGCTTTTC----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG-T
*
4718240 CACGTGCTGAGGTATTTTCAATTTCTATT
61 CAC--GCTGAGGTATTTTCAATTTCTGTT
* * * *
4718269 TTTCAATTTCT-ATTTGTC-AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTAGGGCAC
1 TTTCAATTTATGCTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TAGGTCAC
*
4718332 GCTGAGGTATTTTCAATTTCCGTT
64 GCTGAGGTATTTTCAATTTCTGTT
* * * * **
4718356 TTCCAACTTATGCTTCTCAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAAATTCA
1 TTTCAATTTATGCTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT--AGGTCA
*
4718421 CGCTGAGGTATTTTCAATTCCTGATTTTT
63 CGCTGAGGTATTTTCAATTTCTG----TT
**
4718450 TTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
4718506 CGGGTCGCAT
Statistics
Matches: 281, Mismatches: 30, Indels: 36
0.81 0.09 0.10
Matches are distributed among these distances:
87 32 0.11
88 3 0.01
89 87 0.31
90 30 0.11
93 42 0.15
94 78 0.28
95 1 0.00
96 8 0.03
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (87 bp):
TTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGTCACGC
TGAGGTATTTTCAATTTCTGTT
Found at i:4718273 original size:14 final size:14
Alignment explanation
Indices: 4718254--4718288 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
4718244 TGCTGAGGTA
4718254 TTTTCAATTTCTAT
1 TTTTCAATTTCTAT
4718268 TTTTCAATTTCTAT
1 TTTTCAATTTCTAT
*
4718282 TTGTCAA
1 TTTTCAA
4718289 AAATCAACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.23, C:0.14, G:0.03, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTAT
Found at i:4718542 original size:93 final size:92
Alignment explanation
Indices: 4718086--4718526 Score: 390
Period size: 94 Copynumber: 4.8 Consensus size: 92
4718076 GCTGAGGTAA
* * * * * *
4718086 TTTCAATTTCTGTTTGTC-AAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAGG-ACAC
1 TTTCAATTTATATTTCTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTGCAC
* *
4718149 GATGAGGTACTATTTCAATTTC---TGTT
66 GCTGAGGTA-T-TTTCAATTTCTATTTTT
* * * *
4718175 TTTCAATTTCTGCTTT-TCAAAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT-TGG
1 TTTCAATTTAT-ATTTCTC----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
4718238 TTCACGTGCTGAGGTATTTTCAATTTCTA---TT
61 TGCAC--GCTGAGGTATTTTCAATTTCTATTTTT
* * * *
4718269 TTTCAATTTCTATTTGTC-AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTAGG-GCAC
1 TTTCAATTTATATTTCTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTGCAC
**
4718332 GCTGAGGTATTTTCAATTTC---CGTT
66 GCTGAGGTATTTTCAATTTCTATTTTT
* * ** * ** *
4718356 TTCCAACTTATGCTTCTCAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAAATTCA
1 TTTCAATTTATATTTCTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTGCA
*
4718421 CGCTGAGGTATTTTCAATTCCTGATTTTT
65 CGCTGAGGTATTTTCAATTTCT-ATTTTT
* *
4718450 TTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCGCA
1 TTTCAATTTATATTTCTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT-GCA
*
4718515 TGCTGAGGTATT
65 CGCTGAGGTATT
4718527 GTTAGTTTAT
Statistics
Matches: 293, Mismatches: 36, Indels: 41
0.79 0.10 0.11
Matches are distributed among these distances:
87 34 0.12
89 89 0.30
90 27 0.09
93 44 0.15
94 90 0.31
95 1 0.00
96 8 0.03
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (92 bp):
TTTCAATTTATATTTCTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTGCAC
GCTGAGGTATTTTCAATTTCTATTTTT
Found at i:4718582 original size:77 final size:77
Alignment explanation
Indices: 4718449--4718686 Score: 331
Period size: 77 Copynumber: 3.1 Consensus size: 77
4718439 TCCTGATTTT
*
4718449 TTTTCAATTTATATTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCG
1 TTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
4718513 CATGCTGAGGTA
66 CATGCTGAGGTA
* * *
4718525 TTGTT-AGTTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TT-TTCAATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
4718589 ACA--CTGAGGTA
65 ACATGCTGAGGTA
* * * * * * *
4718600 TTTTCAATTTCTGTTTTTCAAGAAAATCAACCCATATTGAGAGAGGTGAGTTGAGCCTTGGTTCA
1 TTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
*
4718665 CGTGCTGAGGTA
66 CATGCTGAGGTA
4718677 TTTTCAATTT
1 TTTTCAATTT
4718687 CTGTTCTTTC
Statistics
Matches: 142, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
74 2 0.01
75 61 0.43
76 15 0.11
77 64 0.45
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.35
Consensus pattern (77 bp):
TTTTCAATTTATATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
CATGCTGAGGTA
Found at i:4720527 original size:15 final size:14
Alignment explanation
Indices: 4720505--4720544 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
4720495 ATTCATGATA
4720505 TATA-TATTATTTT
1 TATACTATTATTTT
4720518 TATCACTATTATTTT
1 TAT-ACTATTATTTT
*
4720533 TATATTATTATT
1 TATACTATTATT
4720545 ATATTATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 3 0.12
14 9 0.38
15 12 0.50
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (14 bp):
TATACTATTATTTT
Found at i:4720749 original size:26 final size:23
Alignment explanation
Indices: 4720720--4720772 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 23
4720710 TATTATTATC
4720720 ATTTCTAATATATATATATTGTATAT
1 ATTTCTAATATAT-T-TA-TGTATAT
*
4720746 ATTTTTAATATATTTATGTATAT
1 ATTTCTAATATATTTATGTATAT
4720769 ATTT
1 ATTT
4720773 ATGTAGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 1 0.04
26 12 0.46
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (23 bp):
ATTTCTAATATATTTATGTATAT
Found at i:4720895 original size:26 final size:26
Alignment explanation
Indices: 4720854--4720933 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 26
4720844 TTTTTAATAC
4720854 TATA-TTTTTAACACTATATATAT-TA
1 TATATTTTTTAACACTATAT-TATGTA
*
4720879 TATATTTTTTAATACTATATTATGTA
1 TATATTTTTTAACACTATATTATGTA
**
4720905 TATA--TTTCCACAC-ATATTATGTA
1 TATATTTTTTAACACTATATTATGTA
4720928 TATATT
1 TATATT
4720934 ATTTGTATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
23 14 0.30
24 6 0.13
25 7 0.15
26 20 0.43
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (26 bp):
TATATTTTTTAACACTATATTATGTA
Found at i:4721005 original size:24 final size:24
Alignment explanation
Indices: 4720978--4721058 Score: 69
Period size: 24 Copynumber: 3.3 Consensus size: 24
4720968 CTGTCATATG
4720978 TATTATTTTCAATATATTTGTTAT
1 TATTATTTTCAATATATTTGTTAT
* *
4721002 TATTATTTATCACTTTATTT-TAATAT
1 TATTATTT-TCAATATATTTGT--TAT
*
4721028 TATTA-TTTC-ATCATACTTGTTTAT
1 TATTATTTTCAAT-ATATTTG-TTAT
4721052 TATTATT
1 TATTATT
4721059 ATTATTATCA
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
23 1 0.02
24 23 0.51
25 12 0.27
26 9 0.20
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.62
Consensus pattern (24 bp):
TATTATTTTCAATATATTTGTTAT
Found at i:4726887 original size:5 final size:6
Alignment explanation
Indices: 4726872--4726896 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4726862 TCCTAAAGGT
4726872 TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA T
4726897 GTCAATACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:4727192 original size:27 final size:27
Alignment explanation
Indices: 4727154--4727209 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
4727144 ATACTTATCT
4727154 ATTAAAATGGCTGATTGAATAGGTGTA
1 ATTAAAATGGCTGATTGAATAGGTGTA
4727181 ATTAAAATGGCTGATTGAATAGGTGTA
1 ATTAAAATGGCTGATTGAATAGGTGTA
4727208 AT
1 AT
4727210 GACTCAACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.34
Consensus pattern (27 bp):
ATTAAAATGGCTGATTGAATAGGTGTA
Found at i:4727702 original size:7 final size:7
Alignment explanation
Indices: 4727690--4727715 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4727680 AATTCAGAAA
4727690 GCAGCAG
1 GCAGCAG
4727697 GCAGCAG
1 GCAGCAG
4727704 GCAGCAG
1 GCAGCAG
4727711 GCAGC
1 GCAGC
4727716 TAGCTTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.31, G:0.42, T:0.00
Consensus pattern (7 bp):
GCAGCAG
Found at i:4736987 original size:17 final size:19
Alignment explanation
Indices: 4736955--4736998 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
4736945 TAGTATCAGT
*
4736955 AATAATAATAATAATA-TGA
1 AATAAT-ATAACAATAGTGA
4736974 AA-AATATAACAATAGTGA
1 AATAATATAACAATAGTGA
4736992 AATAATA
1 AATAATA
4736999 ATACAGATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 8 0.36
18 8 0.36
19 6 0.27
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (19 bp):
AATAATATAACAATAGTGA
Found at i:4737375 original size:3 final size:3
Alignment explanation
Indices: 4737367--4737443 Score: 93
Period size: 3 Copynumber: 26.0 Consensus size: 3
4737357 CAATGGTGAA
* * * * * *
4737367 AAT AAT AAT AAT AGT AAA AAT AAT AAT -AT ACT AAT GAG GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4737414 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4737444 GATGATGATG
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4745761 original size:9 final size:9
Alignment explanation
Indices: 4745747--4745868 Score: 118
Period size: 9 Copynumber: 12.9 Consensus size: 9
4745737 ATGTATTAGT
4745747 TAAGTTATG
1 TAAGTTATG
4745756 TAAGTTGTTATG
1 TAA---GTTATG
*
4745768 TACGTTATG
1 TAAGTTATG
*
4745777 TGAGTTATG
1 TAAGTTATG
*
4745786 TAAATTATG
1 TAAGTTATG
4745795 TAAGTTATG
1 TAAGTTATG
*
4745804 TAAATTATG
1 TAAGTTATG
4745813 TAAGTTGTTATG
1 TAA---GTTATG
*
4745825 TAAATTATG
1 TAAGTTATG
*
4745834 TAAGTTATA
1 TAAGTTATG
*
4745843 TGAGTTATG
1 TAAGTTATG
4745852 TAAGTTATG
1 TAAGTTATG
*
4745861 TAATTTAT
1 TAAGTTAT
4745869 TGAAGTAATG
Statistics
Matches: 92, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
9 76 0.83
12 16 0.17
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:4745823 original size:57 final size:57
Alignment explanation
Indices: 4745751--4745868 Score: 173
Period size: 57 Copynumber: 2.1 Consensus size: 57
4745741 ATTAGTTAAG
** * *
4745751 TTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTAAA
1 TTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTAAA
* * *
4745808 TTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATGTAAT
1 TTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTAAA
4745865 TTAT
1 TTAT
4745869 TGAAGTAATG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.47
Consensus pattern (57 bp):
TTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTAAA
Found at i:4746417 original size:241 final size:241
Alignment explanation
Indices: 4745994--4746905 Score: 1491
Period size: 241 Copynumber: 3.7 Consensus size: 241
4745984 TGAATATAGT
*
4745994 AATTTTTTAAGATTCATCATGCGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
*
4746059 TCGATATAAGGCAACCCGTCAGATTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
4746124 AGGTTGGAGAGAAGGTAAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAGGTAAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
*
4746189 ATTCAATAGTAAATGAGCTTGATAGAACTTTTTTCAAGTCTTTTTA
196 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTA
*
4746235 AATTTTTTAAGATTCATTATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
*
4746300 TCGATATAAGGCAACCCGTCATGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
4746365 AGGTTGGAGAGAAGGTAAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAGGTAAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
4746430 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTA
196 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTA
4746476 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
*
4746541 TCGATATAAGGCAACCCGTCAGGTTTCCAACCTATATACTTTGAATCTTTAAAATATTTAAAAAA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
4746606 AGGTTGGAGAGAAGGTAAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAGGTAAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
4746671 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCTAAATGAGCTCGATAGAACTTTTTTCAAGT
196 ATTCAATAGTAAATGAGCTCGATAGAAC---TTT-T---T----TC------A---------AGT
4746736 CTTTTTA
235 CTTTTTA
*
4746743 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAAGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
*
4746808 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
* * *
4746873 ATGTTGGAGAGAAGGTCAGCTATTGTTTTAATT
131 AGGTTGGAGAGAAGGTAAGCTATTGTTGTAATT
4746906 GCTTATAAAT
Statistics
Matches: 631, Mismatches: 14, Indels: 26
0.94 0.02 0.04
Matches are distributed among these distances:
241 456 0.72
244 3 0.00
245 1 0.00
248 1 0.00
252 2 0.00
258 1 0.00
267 167 0.26
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (241 bp):
AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
AGGTTGGAGAGAAGGTAAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTA
Found at i:4746716 original size:26 final size:26
Alignment explanation
Indices: 4746680--4746731 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
4746670 TATTCAATAG
4746680 TAAATGAGCTCGATAGAACTTTTTTC
1 TAAATGAGCTCGATAGAACTTTTTTC
4746706 TAAATGAGCTCGATAGAACTTTTTTC
1 TAAATGAGCTCGATAGAACTTTTTTC
4746732 AAGTCTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (26 bp):
TAAATGAGCTCGATAGAACTTTTTTC
Found at i:4750260 original size:25 final size:25
Alignment explanation
Indices: 4750226--4750290 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
4750216 TGCGAAAGCG
4750226 GAGAGCGACGGCGAAGGGACGCAGAA
1 GAGA-CGACGGCGAAGGGACGCAGAA
*
4750252 GAGACGACGGTGAAGGGACGCAGAA
1 GAGACGACGGCGAAGGGACGCAGAA
4750277 GAGACGACGGCGAA
1 GAGACGACGGCGAA
4750291 CGATGATGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
25 33 0.89
26 4 0.11
ACGTcount: A:0.35, C:0.18, G:0.45, T:0.02
Consensus pattern (25 bp):
GAGACGACGGCGAAGGGACGCAGAA
Found at i:4751906 original size:14 final size:14
Alignment explanation
Indices: 4751886--4751930 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
4751876 TCCTACACCT
4751886 TAAACCCTAAACTA
1 TAAACCCTAAACTA
*
4751900 TATACCCTAAA-TCA
1 TAAACCCTAAACT-A
4751914 TAAACCCTAAACTA
1 TAAACCCTAAACTA
4751928 TAA
1 TAA
4751931 TGATAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:4752518 original size:40 final size:40
Alignment explanation
Indices: 4752474--4752561 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
4752464 CCTTATAAGT
* *
4752474 GCCGCTAATGCTCGTTTTTTAGTGGC-ATTGTTGTTGAAGC
1 GCCGCTAATGCTC-TTTTTTAGTGGCGATTGTTGTTAAAAC
* * *
4752514 GCCGCTAGTGCTCTTTTTTAGTGGCGTTTTTTGTTAAAAC
1 GCCGCTAATGCTCTTTTTTAGTGGCGATTGTTGTTAAAAC
4752554 GCCGCTAA
1 GCCGCTAA
4752562 AAGCGCCGCT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 12 0.29
40 29 0.71
ACGTcount: A:0.16, C:0.19, G:0.25, T:0.40
Consensus pattern (40 bp):
GCCGCTAATGCTCTTTTTTAGTGGCGATTGTTGTTAAAAC
Found at i:4755083 original size:130 final size:128
Alignment explanation
Indices: 4754834--4755067 Score: 362
Period size: 130 Copynumber: 1.8 Consensus size: 128
4754824 TAAAATTTAG
* * *
4754834 AAAACATGAGTGAAATTCTAAAGGAGTATTCGATTATTTGAACAAACAGGAAATTACAACCCAGC
1 AAAACATGAGTGAAATTCTAAAGGAATATTCGATCATTTGAACAAACAGGAAATTACAACCAAGC
* * *
4754899 ACGATAGGGCACGATTCCCCGAATTTCTAAACTTCGAACGTTTCCTTCATTTTAAAGAATTTTT
66 ACGATAGGGCACGATTCCCCGAATTTCTAAACATCAAACG-ATCCTTCATTTTAAAGAATTTTT
*
4754963 AAAACATGAGTGAAATTCTAAAGGAATATTCGATCATTTTGAACAAAC-GAGAAATTTCAACCAA
1 AAAACATGAGTGAAATTCTAAAGGAATATTCGATCA-TTTGAACAAACAG-GAAATTACAACCAA
*
4755027 GCACGATAGGGCACGATTCCTCGAATTTCTAAACATCAAAC
64 GCACGATAGGGCACGATTCCCCGAATTTCTAAACATCAAAC
4755068 ATCGCTTTAG
Statistics
Matches: 96, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
129 35 0.36
130 61 0.64
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (128 bp):
AAAACATGAGTGAAATTCTAAAGGAATATTCGATCATTTGAACAAACAGGAAATTACAACCAAGC
ACGATAGGGCACGATTCCCCGAATTTCTAAACATCAAACGATCCTTCATTTTAAAGAATTTTT
Found at i:4756060 original size:12 final size:12
Alignment explanation
Indices: 4756027--4756064 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
4756017 AAAATAACAA
4756027 TAATAATAATAG
1 TAATAATAATAG
* *
4756039 TAGTAGTAATAG
1 TAATAATAATAG
4756051 TAATAATAAT-G
1 TAATAATAATAG
4756062 TAA
1 TAA
4756065 ATAAATATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:4756150 original size:3 final size:3
Alignment explanation
Indices: 4756139--4756390 Score: 94
Period size: 3 Copynumber: 84.7 Consensus size: 3
4756129 TGATGATAGC
* * *
4756139 AAT AGT AAT AAT -AT AAT AAT AA- AGT AGAA AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
** * * * * *
4756183 ACATT AAT AGG AAT AAT AAT AGT -AT ATT AAT AAT AAC AAT AAC AGAA
1 A-A-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * * *
4756230 AAT AAT GAT GA- AAT AAT AAT AAT AAT AA- ACT AAGG AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
* * * * ** *
4756274 AAG ACT AAC AAT AAT -AT AAAT AAT AAT AAG AGA- AAT AGC AAC AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* * * * **
4756319 AAT AGT AAT AA- AAG AAT AGA- AGT GAT AAT AAT AAT AAT AAT AGC
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
*
4756363 AAT AAT AAT AGA- ATT AAT AAT AA- AAT AA
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AA
4756391 AGTAAATAAA
Statistics
Matches: 180, Mismatches: 49, Indels: 40
0.67 0.18 0.15
Matches are distributed among these distances:
2 13 0.07
3 153 0.85
4 12 0.07
5 2 0.01
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:4756223 original size:23 final size:23
Alignment explanation
Indices: 4756144--4756224 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 23
4756134 ATAGCAATAG
* *
4756144 TAATAAT-ATAATAATAAAGTAGA
1 TAATAATAATAATAATACATTA-A
*
4756167 AAATAATAATAATAATACATTAA
1 TAATAATAATAATAATACATTAA
** * *
4756190 TAGGAATAATAATAGTATATTAA
1 TAATAATAATAATAATACATTAA
*
4756213 TAATAACAATAA
1 TAATAATAATAA
4756225 CAGAAAATAA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
23 34 0.74
24 12 0.26
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.31
Consensus pattern (23 bp):
TAATAATAATAATAATACATTAA
Found at i:4759048 original size:46 final size:46
Alignment explanation
Indices: 4758996--4759263 Score: 230
Period size: 47 Copynumber: 5.8 Consensus size: 46
4758986 TATTTGGGCA
* *
4758996 TCCGAACTCGTTTAGTTGAATCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
4759042 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* * *
4759087 CATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
4759135 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* * *
4759180 CATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
4759227 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4759264 GCGGGTTACA
Statistics
Matches: 178, Mismatches: 26, Indels: 37
0.74 0.11 0.15
Matches are distributed among these distances:
42 6 0.03
43 8 0.04
45 39 0.22
46 54 0.30
47 55 0.31
48 4 0.02
50 9 0.05
51 3 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:4759151 original size:93 final size:92
Alignment explanation
Indices: 4758992--4759256 Score: 415
Period size: 93 Copynumber: 2.9 Consensus size: 92
4758982 CGGATATTTG
* * * *
4758992 GGCATCCGAACTCGTTTAGTTGAATCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC-TCCGAACTCGTTGAG
4759057 TTGAGTCCGAGTTCGTGAGATGTAACTA
65 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
4759085 GGCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC-TCCGAACTCGTTGAG
*
4759150 TTGAGTCCGAGTTCATGAGATGTAACTA
65 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
4759178 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGATGC-CCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA-ACTCCGAACTCGTTGAG
4759242 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
4759257 CTTATGGGCG
Statistics
Matches: 159, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
92 27 0.17
93 131 0.82
94 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (92 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:4761848 original size:42 final size:42
Alignment explanation
Indices: 4761793--4761948 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
4761783 AAAATCGACA
*
4761793 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
4761835 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
4761877 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
4761921 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
4761949 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:4769183 original size:42 final size:42
Alignment explanation
Indices: 4769118--4769273 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
4769108 AAATCGGACA
*
4769118 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
4769160 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
4769202 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
4769246 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
4769274 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:4776494 original size:41 final size:43
Alignment explanation
Indices: 4776437--4776591 Score: 157
Period size: 41 Copynumber: 3.7 Consensus size: 43
4776427 AAAATCGACA
*
4776437 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACTGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
4776479 ATGCC-ACTGT-CCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAACTGTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* *
4776520 ATGCCGA-TGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACTGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
4776564 ATGCCAAC-GTCCCAGACGTGGTCTTACA
1 ATGCCAACTGTCCCAGACGTGGTCTTACA
4776592 CGATAACATA
Statistics
Matches: 95, Mismatches: 6, Indels: 24
0.76 0.05 0.19
Matches are distributed among these distances:
41 31 0.33
42 28 0.29
43 7 0.07
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:4776788 original size:21 final size:22
Alignment explanation
Indices: 4776762--4776802 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
4776752 ATAAATTCAG
4776762 CACATATAACAT-ATATACAGT
1 CACATATAACATCATATACAGT
4776783 CACATATAACATCATATACA
1 CACATATAACATCATATACA
4776803 TTCAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.49, C:0.22, G:0.02, T:0.27
Consensus pattern (22 bp):
CACATATAACATCATATACAGT
Found at i:4776814 original size:22 final size:21
Alignment explanation
Indices: 4776765--4776815 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
4776755 AATTCAGCAC
*
4776765 ATATAACATATATACAGTCAC
1 ATATAACATATATACAGTCAA
*
4776786 ATATAACATCATATACATTCAA
1 ATATAACAT-ATATACAGTCAA
*
4776808 ATTTAACA
1 ATATAACA
4776816 GCATTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 9 0.35
22 17 0.65
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (21 bp):
ATATAACATATATACAGTCAA
Found at i:4783315 original size:16 final size:16
Alignment explanation
Indices: 4783294--4783361 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
4783284 TTTGGTTCGC
4783294 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
4783310 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
*
4783326 TGTATTGAATTAGAGG
1 TGTATTGGATTAGAGG
*
4783342 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
4783358 TGTA
1 TGTA
4783362 ATAGCAAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:4783685 original size:157 final size:157
Alignment explanation
Indices: 4783488--4783800 Score: 554
Period size: 157 Copynumber: 2.0 Consensus size: 157
4783478 ATACCCTTAG
*
4783488 CATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTAT
1 CATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATAT
* *
4783553 CAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATA
66 CAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATA
4783618 TAATTTAATAAAATTCTTAATAATTAC
131 TAATTTAATAAAATTCTTAATAATTAC
* *
4783645 CATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATAT
1 CATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATAT
* * *
4783710 GAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATA
66 CAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATA
4783775 TAATTTAATAAAATTCTTAATAATTA
131 TAATTTAATAAAATTCTTAATAATTA
4783801 ATATTCTTAT
Statistics
Matches: 148, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 148 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.48
Consensus pattern (157 bp):
CATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATAT
CAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATA
TAATTTAATAAAATTCTTAATAATTAC
Found at i:4783797 original size:82 final size:81
Alignment explanation
Indices: 4783554--4783803 Score: 193
Period size: 76 Copynumber: 3.1 Consensus size: 81
4783544 TATTATTATC
* * *
4783554 AATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTAT-ATTAAAATATAT
4783619 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
* * * * * *
4783636 AATAATTACCATAAATTT-GT--T-TTGGT-AA-ATTATTATTGTT--AT-TGTTAT-TTAAATT
1 AATAA-TA-AAT-AATTTAATCATATT--TAAACATAATTATTATTAAATATATTATATTAAAAT
* * * * *
4783691 TTGATAAGATT-AT-TAA-TATG
61 AT-ATAA-TTTAATAAAATTCTT
4783711 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATAT
1 AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATA-TTAAAATATAT
4783776 AATTTAATAAAATTCTT
65 AATTTAATAAAATTCTT
*
4783793 AATAATTAATA
1 AATAATAAATA
4783804 TTCTTATATG
Statistics
Matches: 121, Mismatches: 26, Indels: 42
0.64 0.14 0.22
Matches are distributed among these distances:
72 5 0.04
73 3 0.02
74 3 0.02
75 10 0.08
76 21 0.17
77 6 0.05
78 8 0.07
79 8 0.07
80 6 0.05
81 21 0.17
82 20 0.17
83 3 0.02
84 3 0.02
85 4 0.03
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (81 bp):
AATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATATTAAAATATATA
ATTTAATAAAATTCTT
Found at i:4783874 original size:157 final size:155
Alignment explanation
Indices: 4783537--4783858 Score: 358
Period size: 157 Copynumber: 2.0 Consensus size: 155
4783527 TTAAATTTTA
* * * *
4783537 ATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * * * ** *
4783602 TTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTACCATAAATTTGTTTTGGTAAATT
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACATAAATATGATTTACTAAATC
* * * * *
4783667 ATTATTGTTATTGTTATTTAAATTTTG
131 ATAATTATTATTGATATATAAA--TAG
* *
4783694 ATAAGATTATTAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATA
1 ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
* * **
4783759 TTATACTTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
66 TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACA-T-AAATATG-ATTTACT-A
4783824 AATCATAATATATTATATGATACTATAAA-AG
127 AATCATAAT-TATTAT-TGATA-TATAAATAG
4783855 ATAA
1 ATAA
4783859 TTTGAAATAA
Statistics
Matches: 138, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
157 102 0.74
158 1 0.01
159 4 0.03
160 4 0.03
161 13 0.09
162 5 0.04
163 4 0.03
164 5 0.04
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (155 bp):
ATAAGATTATGAATATGAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATA
TTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACATAAATATGATTTACTAAATC
ATAATTATTATTGATATATAAATAG
Found at i:4784697 original size:13 final size:13
Alignment explanation
Indices: 4784679--4784708 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
4784669 CAATCAGCTA
4784679 AATTCAGAAAAAC
1 AATTCAGAAAAAC
4784692 AATTCAGAAAAAC
1 AATTCAGAAAAAC
4784705 AATT
1 AATT
4784709 ACATGACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (13 bp):
AATTCAGAAAAAC
Found at i:4786816 original size:28 final size:27
Alignment explanation
Indices: 4786777--4786835 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 27
4786767 GGGGTGTATT
4786777 AGCTATGCCAATACACCAAACCAAACA
1 AGCTATGCCAATACACCAAACCAAACA
4786804 AGCTATAGCCAATACACCAAACCAAACA
1 AGCTAT-GCCAATACACCAAACCAAACA
4786832 AGCT
1 AGCT
4786836 GTAAAAGTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 6 0.19
28 25 0.81
ACGTcount: A:0.47, C:0.32, G:0.08, T:0.12
Consensus pattern (27 bp):
AGCTATGCCAATACACCAAACCAAACA
Found at i:4786921 original size:6 final size:6
Alignment explanation
Indices: 4786910--4786936 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4786900 TCGAATTCAA
4786910 GACTTT GACTTT GACTTT GACTTT GAC
1 GACTTT GACTTT GACTTT GACTTT GAC
4786937 CATATGCTAT
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:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (6 bp):
GACTTT
Found at i:4789035 original size:22 final size:21
Alignment explanation
Indices: 4789010--4789101 Score: 58
Period size: 22 Copynumber: 4.1 Consensus size: 21
4789000 GCACGTACAT
4789010 AATATATACATACTATATAAAA
1 AATATATACATA-TATATAAAA
* * * *
4789032 AATATGTGCGTAATATATTAAA
1 AATATATACAT-ATATATAAAA
*
4789054 AATATAGACATGATATACATAAACA
1 AATATATACAT-ATAT--ATAAA-A
* * *
4789079 AATATATATATGTATGTAAAA
1 AATATATACATATATATAAAA
4789100 AA
1 AA
4789102 AAAAAACAAA
Statistics
Matches: 52, Mismatches: 14, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
21 3 0.06
22 31 0.60
23 1 0.02
24 7 0.13
25 10 0.19
ACGTcount: A:0.54, C:0.07, G:0.08, T:0.32
Consensus pattern (21 bp):
AATATATACATATATATAAAA
Found at i:4789912 original size:27 final size:27
Alignment explanation
Indices: 4789867--4789919 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
4789857 GAACAGGCCG
* *
4789867 GTCGCCGTCGTTTCGTCCGCCTTGCCA
1 GTCGCCGTCGTGTCGTCCGCCGTGCCA
*
4789894 GTCGCCGTCGTGTCTTCCGCCGTGCC
1 GTCGCCGTCGTGTCGTCCGCCGTGCC
4789920 GGCCACCGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.02, C:0.42, G:0.28, T:0.28
Consensus pattern (27 bp):
GTCGCCGTCGTGTCGTCCGCCGTGCCA
Found at i:4789928 original size:27 final size:27
Alignment explanation
Indices: 4789871--4789928 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
4789861 AGGCCGGTCG
* * * *
4789871 CCGTCGTTTCGTCCGCCTTGCCAGTCG
1 CCGTCGTGTCGTCCGCCGTGCCAGCCA
* *
4789898 CCGTCGTGTCTTCCGCCGTGCCGGCCA
1 CCGTCGTGTCGTCCGCCGTGCCAGCCA
4789925 CCGT
1 CCGT
4789929 ACACGGGGGC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.03, C:0.43, G:0.28, T:0.26
Consensus pattern (27 bp):
CCGTCGTGTCGTCCGCCGTGCCAGCCA
Found at i:4796386 original size:24 final size:24
Alignment explanation
Indices: 4796354--4796401 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
4796344 CATTATGTAT
4796354 TTCATCTATTTTAAAACAAATAAA
1 TTCATCTATTTTAAAACAAATAAA
4796378 TTCATCTATTTTAAAACAAATAAA
1 TTCATCTATTTTAAAACAAATAAA
4796402 CGTGTTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (24 bp):
TTCATCTATTTTAAAACAAATAAA
Found at i:4798115 original size:43 final size:43
Alignment explanation
Indices: 4798054--4798136 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
4798044 TTTATTCTAA
* *
4798054 TAAGGGTACAACTCCTAAAAGTACAACTCTCTCACCCTTCCAC
1 TAAGGGTACAACTCCTAAAAGTACAACTCCCACACCCTTCCAC
* * *
4798097 TAAGGGTACGACTCCTAAATGTGCAACTCCCACACCCTTC
1 TAAGGGTACAACTCCTAAAAGTACAACTCCCACACCCTTC
4798137 TAAGGATCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.30, C:0.35, G:0.12, T:0.23
Consensus pattern (43 bp):
TAAGGGTACAACTCCTAAAAGTACAACTCCCACACCCTTCCAC
Found at i:4799049 original size:17 final size:18
Alignment explanation
Indices: 4799001--4799038 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
4798991 ATGTGGGTAA
4799001 AAAATAAAA--TTAATAT
1 AAAATAAAATTTTAATAT
4799017 AAAATAAAATTTTAATAT
1 AAAATAAAATTTTAATAT
4799035 AAAA
1 AAAA
4799039 GAATTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.45
18 11 0.55
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATAAAATTTTAATAT
Found at i:4799127 original size:7 final size:7
Alignment explanation
Indices: 4799115--4799153 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
4799105 TTGTTGATAA
4799115 GATACAT
1 GATACAT
4799122 GATACAT
1 GATACAT
*
4799129 GAGAC--
1 GATACAT
4799134 GATACAT
1 GATACAT
4799141 GATACAT
1 GATACAT
4799148 GATACA
1 GATACA
4799154 ATATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 4 0.14
7 24 0.86
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (7 bp):
GATACAT
Found at i:4800724 original size:15 final size:14
Alignment explanation
Indices: 4800688--4800714 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4800678 TATTAGATTC
4800688 AAAAAATAAATTTT
1 AAAAAATAAATTTT
4800702 AAAAAATAAATTT
1 AAAAAATAAATTT
4800715 ATTTAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAAAATAAATTTT
Found at i:4800878 original size:16 final size:14
Alignment explanation
Indices: 4800845--4800901 Score: 52
Period size: 16 Copynumber: 4.3 Consensus size: 14
4800835 ATATAACACA
*
4800845 TAAAATATTATTTT
1 TAAAATATTATATT
4800859 TAAAATAATATATATT
1 TAAAAT-AT-TATATT
4800875 TAAAA-A-TATA-T
1 TAAAATATTATATT
4800886 T--AATATTATATT
1 TAAAATATTATATT
4800898 TAAA
1 TAAA
4800902 TTTAACCTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 14
0.70 0.02 0.28
Matches are distributed among these distances:
9 2 0.06
10 1 0.03
11 6 0.17
12 6 0.17
14 8 0.23
15 2 0.06
16 10 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TAAAATATTATATT
Found at i:4806418 original size:27 final size:27
Alignment explanation
Indices: 4806372--4806433 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 27
4806362 CACTAAATAG
*
4806372 TAAAAAT-AAATCATAATTTTTTAAAA
1 TAAAAATAAAATCATAATTTTCTAAAA
* *
4806398 TAAAAATAAAAT-ACTATTTTTCTATAA
1 TAAAAATAAAATCA-TAATTTTCTAAAA
4806425 -AAAAATAAA
1 TAAAAATAAA
4806434 TTTCCCCCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 17 0.55
27 14 0.45
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (27 bp):
TAAAAATAAAATCATAATTTTCTAAAA
Found at i:4816197 original size:21 final size:21
Alignment explanation
Indices: 4816171--4816211 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4816161 ATCTGCTCAA
* *
4816171 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
4816192 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
4816212 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:4820416 original size:19 final size:19
Alignment explanation
Indices: 4820389--4820430 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
4820379 ATAAAATAAA
*
4820389 AAACGATTAGTCTGAATTT
1 AAACAATTAGTCTGAATTT
4820408 AAACAATTAGTCTGAATTT
1 AAACAATTAGTCTGAATTT
4820427 AAAC
1 AAAC
4820431 TTAAAATTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (19 bp):
AAACAATTAGTCTGAATTT
Found at i:4823456 original size:60 final size:60
Alignment explanation
Indices: 4823363--4823483 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
4823353 ACTGACTATG
*
4823363 GACTCGATCATCTTTAGAGCATAAGCCTCCACTTATATCAAAGCACCATGAGTTATATAT
1 GACTCGATCATCTTTAGAGCATAAGCCTCCACTTATATCAAAGCACCATAAGTTATATAT
4823423 GACTCGATCATCTTTAGAGCATAAGCCTCCACTTATATCAAAGCACCATAAGTTATATAT
1 GACTCGATCATCTTTAGAGCATAAGCCTCCACTTATATCAAAGCACCATAAGTTATATAT
4823483 G
1 G
4823484 CATGGCCAGT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (60 bp):
GACTCGATCATCTTTAGAGCATAAGCCTCCACTTATATCAAAGCACCATAAGTTATATAT
Found at i:4824071 original size:19 final size:18
Alignment explanation
Indices: 4824047--4824082 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4824037 TATTAAAAAT
*
4824047 AATTTTTTATAATATTTAC
1 AATTTTTGATAAT-TTTAC
4824066 AATTTTTGATAATTTTA
1 AATTTTTGATAATTTTA
4824083 ATGATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (18 bp):
AATTTTTGATAATTTTAC
Found at i:4828838 original size:128 final size:127
Alignment explanation
Indices: 4828603--4828921 Score: 415
Period size: 128 Copynumber: 2.5 Consensus size: 127
4828593 GAAAATTCCT
* * * *
4828603 TAAAACGAAGGCAATATTTGATGCTTGGAAATTCGGGGAATCGTGCCTTATCGTGCTGGGTTTCG
1 TAAAAC-AAGGCAATGTTTGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGTTGGGTTTCG
* *
4828668 ATTTCCCGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTCACTT-GTGTTTTTCTAAATTC
65 ATTTCCCGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTCA-TTCGTATTCTT-TAAATTC
* * * *
4828732 TGAAACAAGGCAATGTTTGATATTTGAAAATTCGGGGAATCGTGCCCTATTGTGTTGGGTTTCGA
1 TAAAACAAGGCAATGTTTGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGTTGGGTTTCGA
* * * *
4828797 TTTCTCGTTTGTTCAAAATAATCGAATATTTCTTTAGAATTTCATTCGTATTCTTTAAATTT
66 TTTCCCGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTCATTCGTATTCTTTAAATTC
* ** * * * *
4828859 TAAAACAAAGCAATGTTCAATGTTTGGAAGTTTGAGGAATCGTGCCCTACCGTGTTGGGTTTC
1 TAAAACAAGGCAATGTTTGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGTTGGGTTTC
4828922 AGTTTTTCGT
Statistics
Matches: 164, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
127 60 0.37
128 99 0.60
129 5 0.03
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.39
Consensus pattern (127 bp):
TAAAACAAGGCAATGTTTGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGTTGGGTTTCGA
TTTCCCGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTCATTCGTATTCTTTAAATTC
Found at i:4841035 original size:18 final size:18
Alignment explanation
Indices: 4841006--4841062 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 18
4840996 TACGACCGTT
*
4841006 TACGGTACTATTCACGTA
1 TACGGCACTATTCACGTA
*
4841024 TATGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* *
4841042 TACGGTACTGTTCACGTA
1 TACGGCACTATTCACGTA
4841060 TAC
1 TAC
4841063 AGTAGTTGGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:4849767 original size:13 final size:12
Alignment explanation
Indices: 4849705--4849768 Score: 55
Period size: 12 Copynumber: 5.6 Consensus size: 12
4849695 ATTAGTGAAA
4849705 TATTTTATT-AT
1 TATTTTATTAAT
4849716 TATTTTATTAAT
1 TATTTTATTAAT
* *
4849728 AAATTT-TTATAT
1 TATTTTATTA-AT
*
4849740 TATATT-TTAA-
1 TATTTTATTAAT
4849750 TATTTTATTAAT
1 TATTTTATTAAT
*
4849762 TAATTTA
1 TATTTTA
4849769 GTAAATATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
10 5 0.12
11 17 0.40
12 20 0.48
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TATTTTATTAAT
Found at i:4849778 original size:34 final size:34
Alignment explanation
Indices: 4849696--4849781 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
4849686 TGAAATATGA
* *
4849696 TTAGTGAAATATTTTATTATTATTTTATTAATAAAT
1 TTAGT-AAATATATT-TTAATATTTTATTAATAAAT
* * *
4849732 TT-TTATATTATATTTTAATATTTTATTAATTAAT
1 TTAGTA-AATATATTTTAATATTTTATTAATAAAT
4849766 TTAGTAAATATATTTT
1 TTAGTAAATATATTTT
4849782 TATGGAAGTC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
34 30 0.73
35 9 0.22
36 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.59
Consensus pattern (34 bp):
TTAGTAAATATATTTTAATATTTTATTAATAAAT
Found at i:4851829 original size:132 final size:133
Alignment explanation
Indices: 4851657--4851957 Score: 355
Period size: 132 Copynumber: 2.3 Consensus size: 133
4851647 TTGAATTTCT
* ** * *
4851657 AAACATCGAGCATTGCCTT-GTTTTTTAGAATTTTTAAG-AAACATGAGGGAAATTCTAAAGGGG
1 AAACATCGAACATTGCCTTCGTTTTAAAGAATTTTTAAGAAAACATGAAGGAAATTCCAAA-GGG
** *
4851720 ATGTTCGATTATTTTGAACCAATA-G-GAAATTGCAACCCAGCACGATAGGGCACAATTCCCCGA
65 ACATTCGATTATTTTGAA-CAA-ACGAGAAATTGCAACCCAGCACGATAGGGCACAATTCCACGA
4851783 ATTGCC
128 ATTGCC
* * *
4851789 AAACATCGAACATTACCTTCGTTTTAAAGAGTTTTT-AGAAAACATGAATGAAATTCCAAAGGGA
1 AAACATCGAACATTGCCTTCGTTTTAAAGAATTTTTAAGAAAACATGAAGGAAATTCCAAAGGGA
* * * *
4851853 CATTCGATTGTTTTGAACAAACGAGAAATTGCAACCTAGCACGTTAGGGCACGATTCCACGAATT
66 CATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCACAATTCCACGAATT
4851918 GCC
131 GCC
*
4851921 AAATATC-AA-ATCTCGCCTTCGTTTTTAAAGAATTTTT
1 AAACATCGAACAT-T-GCCTTCG-TTTTAAAGAATTTTT
4851958 GAACGAATAA
Statistics
Matches: 144, Mismatches: 18, Indels: 13
0.82 0.10 0.07
Matches are distributed among these distances:
130 3 0.02
131 7 0.05
132 89 0.62
133 45 0.31
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (133 bp):
AAACATCGAACATTGCCTTCGTTTTAAAGAATTTTTAAGAAAACATGAAGGAAATTCCAAAGGGA
CATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCACAATTCCACGAATT
GCC
Found at i:4862461 original size:21 final size:22
Alignment explanation
Indices: 4862435--4862481 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
4862425 CTCTGCTCAA
*
4862435 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
4862456 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
4862478 ACTC
1 ACTC
4862482 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:4868134 original size:10 final size:10
Alignment explanation
Indices: 4868119--4868146 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
4868109 TAGTGAAATC
4868119 ATAATTTCAT
1 ATAATTTCAT
4868129 ATAATTTCAT
1 ATAATTTCAT
4868139 ATAATTTC
1 ATAATTTC
4868147 TTCTTGTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (10 bp):
ATAATTTCAT
Found at i:4869696 original size:20 final size:20
Alignment explanation
Indices: 4869671--4869710 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4869661 TAACATGTGC
4869671 ATAATACGA-TATTAAAAAAT
1 ATAATA-GAGTATTAAAAAAT
*
4869691 ATAATATAGTATTAAAAAAT
1 ATAATAGAGTATTAAAAAAT
4869711 GTATACATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (20 bp):
ATAATAGAGTATTAAAAAAT
Found at i:4869720 original size:21 final size:20
Alignment explanation
Indices: 4869680--4869723 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
4869670 CATAATACGA
*
4869680 TATTAAAAAATATAATATAG
1 TATTAAAAAATATAACATAG
*
4869700 TATTAAAAAATGTATACATAG
1 TATTAAAAAATATA-ACATAG
4869721 TAT
1 TAT
4869724 ATATACTAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (20 bp):
TATTAAAAAATATAACATAG
Found at i:4869843 original size:24 final size:25
Alignment explanation
Indices: 4869795--4869846 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
4869785 ATAGTAATAG
* *
4869795 TATATACATAATATAGTTATTAAAAA
1 TATATACATAACATAG-TATGAAAAA
4869821 TATATACATAACATA-TATGAAAAA
1 TATATACATAACATAGTATGAAAAA
4869845 TA
1 TA
4869847 CAATATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 10 0.42
26 14 0.58
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (25 bp):
TATATACATAACATAGTATGAAAAA
Found at i:4869954 original size:21 final size:21
Alignment explanation
Indices: 4869930--4870009 Score: 60
Period size: 21 Copynumber: 3.8 Consensus size: 21
4869920 ATGATATTAA
4869930 ATAAATATATACATATATATT
1 ATAAATATATACATATATATT
4869951 ATAAATGA-ATACATGATAATATT
1 ATAAAT-ATATACAT-AT-ATATT
* *
4869974 A-AAAGTATGTACATA-ACA-T
1 ATAAA-TATATACATATATATT
* *
4869993 ATAAAAATATATATATA
1 ATAAATATATACATATA
4870010 CATATATACA
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
19 9 0.19
20 6 0.13
21 12 0.26
22 8 0.17
23 12 0.26
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (21 bp):
ATAAATATATACATATATATT
Found at i:4870099 original size:27 final size:25
Alignment explanation
Indices: 4870069--4870131 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 25
4870059 AAGTATTGAT
4870069 TAAAAATAATACTAATAATAG-TAATAG
1 TAAAAATAATA--AATAATAGAT-ATAG
4870096 TAAAATACTAATAAATAATAGATATAG
1 TAAAA-A-TAATAAATAATAGATATAG
*
4870123 TAATAATAA
1 TAAAAATAA
4870132 GAATATATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
25 3 0.09
26 1 0.03
27 21 0.66
28 2 0.06
29 5 0.16
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.30
Consensus pattern (25 bp):
TAAAAATAATAAATAATAGATATAG
Found at i:4870421 original size:24 final size:24
Alignment explanation
Indices: 4870364--4870421 Score: 57
Period size: 24 Copynumber: 2.4 Consensus size: 24
4870354 ATGATAACAT
*
4870364 AAAATATATAACTAATAATATTTA
1 AAAATATATAACTAATAATATATA
* *
4870388 AGAATGTAT-ACATAAT-ATAGTATA
1 AAAATATATAAC-TAATAATA-TATA
4870412 AAAATATATA
1 AAAATATATA
4870422 TATACGTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.34
Consensus pattern (24 bp):
AAAATATATAACTAATAATATATA
Found at i:4870594 original size:22 final size:22
Alignment explanation
Indices: 4870575--4870631 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
4870565 ATACTAATGC
4870575 TAATAAATAAT-AAATATAATAA
1 TAAT-AATAATAAAATATAATAA
* *
4870597 TAATAGTAATAAAATATAATAG
1 TAATAATAATAAAATATAATAA
4870619 TATATATATAATA
1 TA-ATA-ATAATA
4870632 TTAAAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 5 0.17
22 16 0.55
23 3 0.10
24 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (22 bp):
TAATAATAATAAAATATAATAA
Found at i:4870631 original size:19 final size:18
Alignment explanation
Indices: 4870575--4870632 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 18
4870565 ATACTAATGC
*
4870575 TAATA-AATAATAA-ATA
1 TAATATAATAGTAATATA
4870591 TAATAATAATAGTAATA-A
1 TAAT-ATAATAGTAATATA
4870609 -AATATAATAGTATATATA
1 TAATATAATAGTA-ATATA
4870627 TAATAT
1 TAATAT
4870633 TAAAATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 13 0.37
17 7 0.20
18 9 0.26
19 6 0.17
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
TAATATAATAGTAATATA
Found at i:4872225 original size:69 final size:69
Alignment explanation
Indices: 4872087--4872217 Score: 167
Period size: 69 Copynumber: 1.9 Consensus size: 69
4872077 TAAATAATTT
* * * * *
4872087 AAAAAATTATAAAACATATAAATATAAATTAAAGAAATGATAATATTACATAAAATTTGAAAAAT
1 AAAAAAATATAAAACATATAAATATAAATTAAAGAAATCAAAATATCACATAAAAATTGAAAAAT
4872152 TTTC
66 TTTC
* *
4872156 AAAAAAATATAAAA-TTATAAATATAAATTTTAAA-AAATCAAAATATCATATAAAAATTGAAA
1 AAAAAAATATAAAACATATAAATATAAA--TTAAAGAAATCAAAATATCACATAAAAATTGAAA
4872218 TTTTTTCATA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
68 12 0.23
69 36 0.68
70 5 0.09
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.31
Consensus pattern (69 bp):
AAAAAAATATAAAACATATAAATATAAATTAAAGAAATCAAAATATCACATAAAAATTGAAAAAT
TTTC
Found at i:4872475 original size:17 final size:18
Alignment explanation
Indices: 4872450--4872488 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
4872440 TCAAAAGTTA
*
4872450 TATACTTTTTT-AATTCT
1 TATAATTTTTTCAATTCT
*
4872467 TATAATTTTTTCAATTTT
1 TATAATTTTTTCAATTCT
4872485 TATA
1 TATA
4872489 TAATATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (18 bp):
TATAATTTTTTCAATTCT
Found at i:4872492 original size:20 final size:19
Alignment explanation
Indices: 4872447--4872505 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
4872437 TTTTCAAAAG
*
4872447 TTATATACTTTTTTAA-TT
1 TTATATAATTTTTTAATTT
*
4872465 CT-TATAATTTTTTCAATTT
1 TTATATAATTTTTT-AATTT
*
4872484 TTATATAATATTTTGAATTT
1 TTATATAAT-TTTTTAATTT
4872504 TT
1 TT
4872506 TAATTTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 10 0.30
18 3 0.09
19 3 0.09
20 13 0.39
21 4 0.12
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (19 bp):
TTATATAATTTTTTAATTT
Found at i:4872522 original size:28 final size:29
Alignment explanation
Indices: 4872470--4872525 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
4872460 TAATTCTTAT
*
4872470 AATTTTTTCAATTTTTATATAATATTTTG
1 AATTTTTTCAATTTATATATAATATTTTG
4872499 AATTTTTT-AATTTATAT-TATATATTTT
1 AATTTTTTCAATTTATATATA-ATATTTT
4872526 ATCATTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 2 0.08
28 15 0.60
29 8 0.32
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (29 bp):
AATTTTTTCAATTTATATATAATATTTTG
Found at i:4872532 original size:29 final size:29
Alignment explanation
Indices: 4872466--4872534 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 29
4872456 TTTTTAATTC
*
4872466 TTATAATTTTTTCAATTTTTATATAATATT
1 TTAT-ATTTTTTCAATTTATATATAATATT
4872496 TTGA-ATTTTTT-AATTTATAT-TATATATT
1 TT-ATATTTTTTCAATTTATATATA-ATATT
4872524 TTATCATTTTT
1 TTAT-ATTTTT
4872535 CAAAACTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
27 3 0.09
28 15 0.44
29 13 0.38
30 2 0.06
31 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (29 bp):
TTATATTTTTTCAATTTATATATAATATT
Found at i:4875083 original size:18 final size:19
Alignment explanation
Indices: 4875055--4875090 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4875045 TGAAATTTCA
4875055 ATTGAAATCGAATTAATTG
1 ATTGAAATCGAATTAATTG
*
4875074 ATTG-AATCGATTTAATT
1 ATTGAAATCGAATTAATT
4875091 CGGTTAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.42
Consensus pattern (19 bp):
ATTGAAATCGAATTAATTG
Found at i:4876727 original size:5 final size:5
Alignment explanation
Indices: 4876717--4876741 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4876707 TAAAGTTATT
4876717 GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA
4876742 ACGGTGCCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:4889099 original size:18 final size:18
Alignment explanation
Indices: 4889052--4889102 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
4889042 CCCAACTATT
* *
4889052 GTATACGTGAACAGTATC
1 GTATACATGAATAGTATC
*
4889070 GTATATATGAATAGTATC
1 GTATACATGAATAGTATC
4889088 GTATACATGAATAGT
1 GTATACATGAATAGT
4889103 GCCGTAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (18 bp):
GTATACATGAATAGTATC
Found at i:4889108 original size:18 final size:18
Alignment explanation
Indices: 4889052--4889108 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
4889042 CCCAACTATT
* * *
4889052 GTATACGTGAACAGTATC
1 GTATACATGAATAGTACC
* *
4889070 GTATATATGAATAGTATC
1 GTATACATGAATAGTACC
*
4889088 GTATACATGAATAGTGCC
1 GTATACATGAATAGTACC
4889106 GTA
1 GTA
4889109 AATGGTCGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (18 bp):
GTATACATGAATAGTACC
Found at i:4889668 original size:21 final size:22
Alignment explanation
Indices: 4889642--4889699 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
4889632 TGACCTTTCC
*
4889642 AAGGTATGGG-TAGGTATGGGA
1 AAGGTATGGGCAAGGTATGGGA
4889663 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGGCAAGGTATGGGA
*
4889685 AAGGTATGGGGAAGG
1 AAGGTATGGGCAAGG
4889700 AATAAGTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 10 0.29
22 24 0.71
ACGTcount: A:0.31, C:0.02, G:0.48, T:0.19
Consensus pattern (22 bp):
AAGGTATGGGCAAGGTATGGGA
Found at i:4889669 original size:11 final size:11
Alignment explanation
Indices: 4889642--4889699 Score: 82
Period size: 11 Copynumber: 5.4 Consensus size: 11
4889632 TGACCTTTCC
4889642 AAGGTATGGG-
1 AAGGTATGGGA
*
4889652 TAGGTATGGGA
1 AAGGTATGGGA
*
4889663 AAGGTATGGGC
1 AAGGTATGGGA
4889674 AAGGTATGGGA
1 AAGGTATGGGA
*
4889685 AAGGTATGGGG
1 AAGGTATGGGA
4889696 AAGG
1 AAGG
4889700 AATAAGTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
10 9 0.21
11 33 0.79
ACGTcount: A:0.31, C:0.02, G:0.48, T:0.19
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:4890367 original size:29 final size:29
Alignment explanation
Indices: 4890320--4890379 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
4890310 ATTTAATGTG
* *
4890320 GTGTAATATTAGTTATGCACTTGGACAAT
1 GTGTAATAATAATTATGCACTTGGACAAT
*
4890349 GTGTAATAATAATTGTGCACTTGGACAAT
1 GTGTAATAATAATTATGCACTTGGACAAT
4890378 GT
1 GT
4890380 TGTTATTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.37
Consensus pattern (29 bp):
GTGTAATAATAATTATGCACTTGGACAAT
Found at i:4892128 original size:16 final size:16
Alignment explanation
Indices: 4892101--4892154 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
4892091 CGACACCAAT
4892101 GTATATATTTATTTATA
1 GTATA-ATTTATTTATA
* *
4892118 GTATAATTTATTTTTT
1 GTATAATTTATTTATA
*
4892134 GGATAATTTATTTATA
1 GTATAATTTATTTATA
4892150 GTATA
1 GTATA
4892155 GGGTGTATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
16 26 0.84
17 5 0.16
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.57
Consensus pattern (16 bp):
GTATAATTTATTTATA
Found at i:4898665 original size:24 final size:23
Alignment explanation
Indices: 4898613--4898668 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
4898603 TGAAACCTTT
*
4898613 ACTAAAATTAAGTTCATTAATAA
1 ACTAAAATTAAGTTAATTAATAA
* * *
4898636 AATAAAATTTATTTAATTAAATAA
1 ACTAAAATTAAGTTAATT-AATAA
4898660 ACTAAAATT
1 ACTAAAATT
4898669 GTATATTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (23 bp):
ACTAAAATTAAGTTAATTAATAA
Found at i:4899622 original size:59 final size:60
Alignment explanation
Indices: 4899496--4899626 Score: 151
Period size: 59 Copynumber: 2.2 Consensus size: 60
4899486 TTTCATTTTA
* * * * * * *
4899496 TTACTACTATTTTGTTGTTATTATTTGGGTATTGTATAATTCTTATTTTATTATTAATAT
1 TTACTACCATTTTGTTGTTATTATTTAGATATAGTATAACTCTTATTATATTACTAATAT
* *
4899556 TGT--TACCATTTTGTTGTTATTGTTTAGATATAGTATAACTCTTGTTATATTACTAA-AT
1 T-TACTACCATTTTGTTGTTATTATTTAGATATAGTATAACTCTTATTATATTACTAATAT
4899614 TTACTACCATTTT
1 TTACTACCATTTT
4899627 ATAGGCATTT
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
57 1 0.02
58 3 0.05
59 53 0.90
60 1 0.02
61 1 0.02
ACGTcount: A:0.26, C:0.08, G:0.10, T:0.56
Consensus pattern (60 bp):
TTACTACCATTTTGTTGTTATTATTTAGATATAGTATAACTCTTATTATATTACTAATAT
Found at i:4903402 original size:30 final size:31
Alignment explanation
Indices: 4903347--4903404 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
4903337 AAATTTTAAA
*
4903347 ATTCGAAAAGAATAGGGACTAAAATTGACCG
1 ATTCGAAAAGAACAGGGACTAAAATTGACCG
* *
4903378 ATTCGAAAAGTACATGGA-TAAAATTGA
1 ATTCGAAAAGAACAGGGACTAAAATTGA
4903405 TCAAATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.47, C:0.10, G:0.21, T:0.22
Consensus pattern (31 bp):
ATTCGAAAAGAACAGGGACTAAAATTGACCG
Found at i:4905046 original size:20 final size:19
Alignment explanation
Indices: 4905001--4905051 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
4904991 TTCTCTCAAC
4905001 AAAAA-TTTAAAATAATTA
1 AAAAATTTTAAAATAATTA
*
4905019 AAATAATTTTAAAATATTTA
1 AAA-AATTTTAAAATAATTA
*
4905039 TAAAAATTCTAAA
1 -AAAAATTTTAAA
4905052 TTTTATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 3 0.11
19 2 0.07
20 20 0.71
21 3 0.11
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTTTAAAATAATTA
Found at i:4905079 original size:26 final size:24
Alignment explanation
Indices: 4905032--4905081 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
4905022 TAATTTTAAA
*
4905032 ATATTTATAAAAATTCTAAATTTT
1 ATATTTATAAAAATTATAAATTTT
*
4905056 ATATTTTTAAAAATATATATAATTTT
1 ATATTTATAAAAAT-TATA-AATTTT
4905082 TAAAAGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.59
25 3 0.14
26 6 0.27
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
ATATTTATAAAAATTATAAATTTT
Found at i:4907445 original size:21 final size:21
Alignment explanation
Indices: 4907419--4907458 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4907409 TAAATTAAAT
*
4907419 AAAATTGA-TTATTTTTATTAA
1 AAAATT-ATTTATTTGTATTAA
4907440 AAAATTATTTATTTGTATT
1 AAAATTATTTATTTGTATT
4907459 GTTAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
AAAATTATTTATTTGTATTAA
Found at i:4909942 original size:27 final size:26
Alignment explanation
Indices: 4909884--4910021 Score: 159
Period size: 27 Copynumber: 5.1 Consensus size: 26
4909874 ATGGCTGCCA
* *
4909884 AACAGATAATGTGACAGAGTCACCAG
1 AACAGATAATGTGGCAGAGCCACCAG
4909910 ATACAGATAATCGTGGCAGAGCCACCAG
1 A-ACAGATAAT-GTGGCAGAGCCACCAG
4909938 AACAGATATATGTGGCAGAGCCACCAG
1 AACAGATA-ATGTGGCAGAGCCACCAG
* *
4909965 ATCAGATATTTGTGGCAGAGCCACCAG
1 AACAGATA-ATGTGGCAGAGCCACCAG
* * * *
4909992 ATCATATATTTGTGGCATAGCCACCAG
1 AACAGATA-ATGTGGCAGAGCCACCAG
4910019 AAC
1 AAC
4910022 GCTTCCTCCA
Statistics
Matches: 102, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
26 1 0.01
27 84 0.82
28 17 0.17
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
AACAGATAATGTGGCAGAGCCACCAG
Found at i:4909980 original size:54 final size:55
Alignment explanation
Indices: 4909884--4910019 Score: 186
Period size: 54 Copynumber: 2.5 Consensus size: 55
4909874 ATGGCTGCCA
* *
4909884 AACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAG
1 AACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAG
* *
4909938 AACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCACCAG
1 AACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAG
* * * *
4909992 ATCATATATTTGTGGCATAGCCACCAGA
1 AACAGATATATGTGGCAGAGCCACCAGA
4910020 ACGCTTCCTC
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 55 0.75
55 18 0.25
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (55 bp):
AACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAG
Found at i:4911679 original size:25 final size:25
Alignment explanation
Indices: 4911638--4911768 Score: 210
Period size: 25 Copynumber: 5.2 Consensus size: 25
4911628 CATGAAATTC
4911638 TATCATGAAACATTTACCTAACCCAT
1 TATCATG-AACATTTACCTAACCCAT
4911664 TATCATGAACATTTACCTAA-CCAT
1 TATCATGAACATTTACCTAACCCAT
4911688 TATCATGAACATTTACCTAACCCAT
1 TATCATGAACATTTACCTAACCCAT
*
4911713 TATCATGGAACATTTACCTAACCTAT
1 TATCAT-GAACATTTACCTAACCCAT
* *
4911739 TATCAGGAACATTTACCTAACCTAT
1 TATCATGAACATTTACCTAACCCAT
4911764 TATCA
1 TATCA
4911769 ATTTGTATCA
Statistics
Matches: 101, Mismatches: 2, Indels: 5
0.94 0.02 0.05
Matches are distributed among these distances:
24 24 0.24
25 47 0.47
26 30 0.30
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (25 bp):
TATCATGAACATTTACCTAACCCAT
Found at i:4911766 original size:51 final size:49
Alignment explanation
Indices: 4911646--4911768 Score: 210
Period size: 51 Copynumber: 2.5 Consensus size: 49
4911636 TCTATCATGA
*
4911646 AACATTTACCTAACCCATTATCATGAACATTTACCTAACCATTATCATG
1 AACATTTACCTAACCCATTATCATGAACATTTACCTAACCATTATCAGG
4911695 AACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCAGG
1 AACATTTACCTAACCCATTATCAT-GAACATTTACCTAACC-ATTATCAGG
*
4911746 AACATTTACCTAACCTATTATCA
1 AACATTTACCTAACCCATTATCA
4911769 ATTTGTATCA
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
49 24 0.34
50 16 0.23
51 30 0.43
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.33
Consensus pattern (49 bp):
AACATTTACCTAACCCATTATCATGAACATTTACCTAACCATTATCAGG
Done.