Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 12 of 318
Found at i:4350516 original size:46 final size:46
Alignment explanation
Indices: 4350440--4350753 Score: 443
Period size: 46 Copynumber: 6.8 Consensus size: 46
4350430 TGATGTCATA
* * * * *
4350440 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCAGGTTGCCATG
* *** *
4350486 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATG
*
4350533 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
4350579 GTATCTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
4350625 TTATCTTTCAACCATGGTCTTA-TACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACT-CATTTCATATCAGGTTGCCATG
*
4350671 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
4350717 GTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
4350754 AGAGCACACT
Statistics
Matches: 248, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
45 1 0.00
46 208 0.84
47 39 0.16
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
Found at i:4360738 original size:15 final size:17
Alignment explanation
Indices: 4360708--4360740 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
4360698 AATGATTTGT
4360708 TAATCAACTCATCATCA
1 TAATCAACTCATCATCA
4360725 TAATCAA-T-ATCATCA
1 TAATCAACTCATCATCA
4360740 T
1 T
4360741 CCTCAATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.33
Consensus pattern (17 bp):
TAATCAACTCATCATCA
Found at i:4367042 original size:5 final size:5
Alignment explanation
Indices: 4367032--4367064 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
4367022 ACAATATCTC
4367032 TTTCT TTTCT TTTCT TTTCT TTTCCT TTT-T TTT
1 TTTCT TTTCT TTTCT TTTCT TTT-CT TTTCT TTT
4367065 GCTCTTCGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:4373161 original size:13 final size:13
Alignment explanation
Indices: 4373145--4373172 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4373135 AAATTAATAC
4373145 AAATTATAATCTA
1 AAATTATAATCTA
4373158 AAATTATAATCTA
1 AAATTATAATCTA
4373171 AA
1 AA
4373173 TTAAATTAAA
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:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATTATAATCTA
Found at i:4378587 original size:16 final size:17
Alignment explanation
Indices: 4378559--4378590 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4378549 ATTTATATTT
4378559 TTTAAATAAAATTAATA
1 TTTAAATAAAATTAATA
4378576 TTTAAA-AAAATTAAT
1 TTTAAATAAAATTAAT
4378591 GATATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTAAATAAAATTAATA
Found at i:4397417 original size:270 final size:269
Alignment explanation
Indices: 4396937--4397479 Score: 1016
Period size: 270 Copynumber: 2.0 Consensus size: 269
4396927 TATCACCTAG
4396937 AGGCAGAGTAGATAAACTTCCTGTCTGTTCTTGTGTGATATCCTGATGTTCTCATCAGTTTGGGA
1 AGGCAGAGTAGATAAACTTCCTGTCTGTTCTTGTGTGATATCCTGATGTTCTCATCAGTTTGGGA
4397002 TTTAAAAAAAAAAAGTTTTCAGTTCAATTTGCTTTATAAAGAAGATACCAGATTTTGTTTCCAAT
66 TTTAAAAAAAAAAAGTTTTCAGTTCAATTTGCTTTATAAAGAAGATACCAGATTTTGTTTCCAAT
4397067 TGACGAGAACAAAGTAATACATTGTTAGATGTAGGCTACATAGCTACATTTTTGCATGTGAAATG
131 TGACGAGAACAAAGTAATACATTGTTAGATGTAGGCTACATAGCTACATTTTTGCATGTGAAATG
*
4397132 ATTAACCAAGTGCAAAGTATATCATCAAGTTGAGCTAGTGCTATATCTGGCAATATAGTTGCTTT
196 ATTAACCAAGTGCAAAGTATATCATCAAGTTGAGCTAGTGCTATATCTGGCAAAATAGTTGCTTT
4397197 GAGTCAAAA
261 GAGTCAAAA
4397206 AGGCAGAGTAGATAAACTTCCTAG-CTGTTCTTGTGTGATATCCTGATGTTCTCATCAGTTTGGG
1 AGGCAGAGTAGATAAACTTCCT-GTCTGTTCTTGTGTGATATCCTGATGTTCTCATCAGTTTGGG
*
4397270 ATTTTAAAAAGAAAAAGTTTTCAGTTCAATTTGCTTTATAAAGAAGATACCAGATTTTGTTTCCA
65 A-TTTAAAAAAAAAAAGTTTTCAGTTCAATTTGCTTTATAAAGAAGATACCAGATTTTGTTTCCA
* *
4397335 ATTGACGAGAACAAAGTAATACATTGTTAGATGTAGGCTATATTGCTACATTTTTGCATGTGAAA
129 ATTGACGAGAACAAAGTAATACATTGTTAGATGTAGGCTACATAGCTACATTTTTGCATGTGAAA
4397400 TGATTAACCAAGTGCAAAGTATATCATCAAGTTGAGCTAGTGCTATATCTGGCAAAATAGTTGCT
194 TGATTAACCAAGTGCAAAGTATATCATCAAGTTGAGCTAGTGCTATATCTGGCAAAATAGTTGCT
*
4397465 TTGAGTCCAAA
259 TTGAGTCAAAA
4397476 AGGC
1 AGGC
4397480 TAAAAAAAGG
Statistics
Matches: 267, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
269 63 0.24
270 204 0.76
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (269 bp):
AGGCAGAGTAGATAAACTTCCTGTCTGTTCTTGTGTGATATCCTGATGTTCTCATCAGTTTGGGA
TTTAAAAAAAAAAAGTTTTCAGTTCAATTTGCTTTATAAAGAAGATACCAGATTTTGTTTCCAAT
TGACGAGAACAAAGTAATACATTGTTAGATGTAGGCTACATAGCTACATTTTTGCATGTGAAATG
ATTAACCAAGTGCAAAGTATATCATCAAGTTGAGCTAGTGCTATATCTGGCAAAATAGTTGCTTT
GAGTCAAAA
Found at i:4399797 original size:13 final size:14
Alignment explanation
Indices: 4399770--4399799 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4399760 AACAAGGTTC
4399770 TTTTGTTCAATTTT
1 TTTTGTTCAATTTT
*
4399784 TTTTGTTCCATTTT
1 TTTTGTTCAATTTT
4399798 TT
1 TT
4399800 GCATGTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.10, G:0.07, T:0.73
Consensus pattern (14 bp):
TTTTGTTCAATTTT
Found at i:4401630 original size:14 final size:15
Alignment explanation
Indices: 4401602--4401632 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
4401592 AAAAAATATT
4401602 TTTTAATATTTAAAC
1 TTTTAATATTTAAAC
4401617 TTTTAATA-TTAAAC
1 TTTTAATATTTAAAC
4401631 TT
1 TT
4401633 ATAACATACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTTAATATTTAAAC
Found at i:4401915 original size:22 final size:23
Alignment explanation
Indices: 4401881--4401927 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
4401871 CGCGACCCAT
4401881 TTTTTTAATAATATAATTTATTA
1 TTTTTTAATAATATAATTTATTA
* *
4401904 TTTTTTAA-AATATTATTTTTTA
1 TTTTTTAATAATATAATTTATTA
4401926 TT
1 TT
4401928 ATATTTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTTTTAATAATATAATTTATTA
Found at i:4401915 original size:25 final size:25
Alignment explanation
Indices: 4401879--4401936 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
4401869 GGCGCGACCC
*
4401879 ATTTTTT-TAATAATATAATTTATT
1 ATTTTTTAAAATAATATAATTTATT
* **
4401903 ATTTTTTAAAATATTATTTTTTATT
1 ATTTTTTAAAATAATATAATTTATT
*
4401928 ATATTTTAA
1 ATTTTTTAA
4401937 TAATTTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
ATTTTTTAAAATAATATAATTTATT
Found at i:4402022 original size:27 final size:27
Alignment explanation
Indices: 4401992--4402055 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
4401982 GCCAGACCCG
4401992 GAGGCGCGACCAGTCGCTCCTGCTGCA
1 GAGGCGCGACCAGTCGCTCCTGCTGCA
*
4402019 GAGGCGTGACCAGTCGCTCCTGCTGCA
1 GAGGCGCGACCAGTCGCTCCTGCTGCA
4402046 GAGGCGCGAC
1 GAGGCGCGAC
4402056 TCCCCTGCAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.16, C:0.34, G:0.36, T:0.14
Consensus pattern (27 bp):
GAGGCGCGACCAGTCGCTCCTGCTGCA
Found at i:4404308 original size:3 final size:3
Alignment explanation
Indices: 4404302--4404364 Score: 65
Period size: 3 Copynumber: 20.7 Consensus size: 3
4404292 ACTAACATTT
* * * *
4404302 TTC TTC TTTC TCC TCC TTC TCC TTC TTC TTC TTC TTC TTT TTC TTC
1 TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
4404348 TTC TTC TT- TTC TCTC TT
1 TTC TTC TTC TTC T-TC TT
4404365 TGCTGCTGCA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 43 0.84
4 6 0.12
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:4404623 original size:19 final size:18
Alignment explanation
Indices: 4404601--4404640 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
4404591 AAAATATAAT
4404601 AAAATAATAATATTTAAAA
1 AAAATAATAATA-TTAAAA
* *
4404620 AAAATTATATTATTAAAA
1 AAAATAATAATATTAAAA
4404638 AAA
1 AAA
4404641 TGGGTCGCGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATAATAATATTAAAA
Found at i:4407540 original size:26 final size:25
Alignment explanation
Indices: 4407506--4407557 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
4407496 CTTTTTACTT
* *
4407506 AAAAAAAAGTTTAAAAATATTCATA
1 AAAAAAAAGTATAAAAACATTCATA
*
4407531 AAAAATAAAGTATAAAAACATTTATA
1 AAAAA-AAAGTATAAAAACATTCATA
4407557 A
1 A
4407558 TTTAAATCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (25 bp):
AAAAAAAAGTATAAAAACATTCATA
Found at i:4416077 original size:21 final size:21
Alignment explanation
Indices: 4416053--4416103 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
4416043 CATATTTTAG
4416053 ATATAAAATAATTA-AATATAA
1 ATAT-AAATAATTATAATATAA
* *
4416074 ATATTAATAATTATATTATAA
1 ATATAAATAATTATAATATAA
*
4416095 ATATTAATA
1 ATATAAATA
4416104 TTAATATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATATAAATAATTATAATATAA
Found at i:4416110 original size:21 final size:21
Alignment explanation
Indices: 4416059--4416113 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
4416049 TTAGATATAA
*
4416059 AATAATTA-AATATAAATATT
1 AATAATTATATTATAAATATT
4416079 AATAATTATATTATAAATATT
1 AATAATTATATTATAAATATT
4416100 AAT-ATTAATATTAT
1 AATAATT-ATATTAT
4416114 TAATTAACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 11 0.34
21 21 0.66
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AATAATTATATTATAAATATT
Found at i:4416129 original size:27 final size:27
Alignment explanation
Indices: 4416060--4416130 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
4416050 TAGATATAAA
4416060 ATAATTAAATATA-AATATTAATAATT
1 ATAATTAAATATATAATATTAATAATT
*
4416086 ATATTATAAATAT-TAATATTAAT-ATT
1 ATAAT-TAAATATATAATATTAATAATT
*
4416112 ATTAATTAACTATATAATA
1 A-TAATTAAATATATAATA
4416131 ATCCAACAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
26 14 0.37
27 24 0.63
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (27 bp):
ATAATTAAATATATAATATTAATAATT
Found at i:4427982 original size:9 final size:9
Alignment explanation
Indices: 4427965--4428012 Score: 60
Period size: 9 Copynumber: 5.2 Consensus size: 9
4427955 TTTGACTGAC
*
4427965 TTAAATTAA
1 TTAATTTAA
4427974 TTAATTTAA
1 TTAATTTAA
*
4427983 TTGAATTGAA
1 TT-AATTTAA
*
4427993 TTAAATTAA
1 TTAATTTAA
4428002 TTAATTTAA
1 TTAATTTAA
4428011 TT
1 TT
4428013 TTAATCGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
9 25 0.76
10 8 0.24
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (9 bp):
TTAATTTAA
Found at i:4428223 original size:13 final size:13
Alignment explanation
Indices: 4428201--4428231 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4428191 TTCCATGAAC
4428201 AAAAAAAAAAAGG
1 AAAAAAAAAAAGG
*
4428214 AAAAACAAAAAGG
1 AAAAAAAAAAAGG
4428227 AAAAA
1 AAAAA
4428232 GCGTTGATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAGG
Found at i:4430808 original size:15 final size:16
Alignment explanation
Indices: 4430778--4430816 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
4430768 TAGTCAAAAT
4430778 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
4430795 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
4430810 ATAATTT
1 ATAATTT
4430817 TTAAAAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:4437102 original size:16 final size:16
Alignment explanation
Indices: 4437081--4437113 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4437071 CGGGCTAAGA
4437081 CCCGAAGGCAATTATG
1 CCCGAAGGCAATTATG
4437097 CCCGAAGGCAATTATG
1 CCCGAAGGCAATTATG
4437113 C
1 C
4437114 GAGTTGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.18
Consensus pattern (16 bp):
CCCGAAGGCAATTATG
Found at i:4437108 original size:56 final size:56
Alignment explanation
Indices: 4437041--4437153 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
4437031 CGGGCTAAGA
4437041 CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATG
1 CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATG
4437097 CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATG
1 CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATG
4437153 C
1 C
4437154 GAGTTGATAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (56 bp):
CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATG
Found at i:4437152 original size:40 final size:40
Alignment explanation
Indices: 4437097--4437307 Score: 359
Period size: 40 Copynumber: 5.3 Consensus size: 40
4437087 GGCAATTATG
4437097 CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGA
1 CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGA
4437137 CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGA
1 CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGA
* *
4437177 CCCGAAGGCAATTATGCGAGTTAATATATCCGGGCTATGA
1 CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGA
* *
4437217 CCCGAAGGCAATTATGCGAGATGATATATCTGGGCTAAGA
1 CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGA
* * *
4437257 CCCGAAGGCAATTATGCAAGTTGATATGTCCGGGTTAAGA
1 CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGA
4437297 CCCGAAGGCAA
1 CCCGAAGGCAA
4437308 ATGTGTTTGC
Statistics
Matches: 160, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 160 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGA
Found at i:4438884 original size:19 final size:18
Alignment explanation
Indices: 4438860--4438903 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
4438850 TAACAACGAG
*
4438860 ATTCTTTTCTCCTTCTCTT
1 ATTCTTTTC-CCTTCACTT
4438879 ATTC-TTTCCCTTCACTT
1 ATTCTTTTCCCTTCACTT
4438896 ATT-TTTTC
1 ATTCTTTTC
4438904 AAAAAATCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 15 0.65
18 4 0.17
19 4 0.17
ACGTcount: A:0.09, C:0.30, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTCTTTTCCCTTCACTT
Found at i:4452423 original size:30 final size:30
Alignment explanation
Indices: 4452375--4452434 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
4452365 AAGATTTAAG
*
4452375 AAAAAAGAGAGCTTAGATTAGAAACATACT
1 AAAAAAAAGAGCTTAGATTAGAAACATACT
*
4452405 AAAAAAAAGA-CTTCAGATTAGTAACATACT
1 AAAAAAAAGAGCTT-AGATTAGAAACATACT
4452435 TATTTTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 3 0.11
30 24 0.89
ACGTcount: A:0.53, C:0.12, G:0.13, T:0.22
Consensus pattern (30 bp):
AAAAAAAAGAGCTTAGATTAGAAACATACT
Found at i:4459408 original size:8 final size:8
Alignment explanation
Indices: 4459395--4459423 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
4459385 AGAAATTTAA
4459395 ATTTATAT
1 ATTTATAT
4459403 ATTTATAT
1 ATTTATAT
4459411 ATTTATAT
1 ATTTATAT
4459419 ATTTA
1 ATTTA
4459424 AAAATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATTTATAT
Found at i:4462535 original size:53 final size:53
Alignment explanation
Indices: 4462394--4462544 Score: 187
Period size: 53 Copynumber: 2.8 Consensus size: 53
4462384 ATAAGTGCGC
* * * * **
4462394 CCGTTTAAGACCATATCTGGGCTATGACATCTGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATGTCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
4462447 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCAT-GTCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
4462500 CCGTATAAGACCATGTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATGTCTGGGCTATGGCATCGGTAT-A-ATGTGA
4462545 ACCGTGTAAG
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
52 1 0.01
53 77 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (53 bp):
CCGTATAAGACCATGTCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:4469967 original size:53 final size:53
Alignment explanation
Indices: 4469901--4470041 Score: 201
Period size: 53 Copynumber: 2.7 Consensus size: 53
4469891 ATAAGTGCGC
*
4469901 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
* ** *
4469954 CCGTATAAGACCATAGCTGGACTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
* ** *
4470007 CCGTATAAGACCATGGCAAGGCTATGGCTTCGGTG
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTG
4470042 TGTGATGCGT
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 77 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
Found at i:4482346 original size:3 final size:3
Alignment explanation
Indices: 4482338--4482366 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4482328 ATTACACCCA
4482338 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4482367 AACATGTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4486705 original size:3 final size:3
Alignment explanation
Indices: 4486697--4486728 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4486687 ATTACACCCA
4486697 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4486729 AACATGTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4494117 original size:9 final size:9
Alignment explanation
Indices: 4494103--4494133 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
4494093 AAAGTTTGCC
4494103 AAAAAGGGA
1 AAAAAGGGA
4494112 AAAAAGGGA
1 AAAAAGGGA
4494121 AAAAAGGGA
1 AAAAAGGGA
4494130 AAAA
1 AAAA
4494134 TAATGGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (9 bp):
AAAAAGGGA
Found at i:4496791 original size:2 final size:2
Alignment explanation
Indices: 4496784--4496808 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4496774 GGTTAAGCGA
4496784 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
4496809 TCTTAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4506171 original size:16 final size:16
Alignment explanation
Indices: 4506152--4506205 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
4506142 TATAAAAACT
4506152 AAAATTAATAAATTTA
1 AAAATTAATAAATTTA
4506168 AAAATTAA-AAAGTTT-
1 AAAATTAATAAA-TTTA
*
4506183 AAAATTAATTAGA-TTA
1 AAAATTAA-TAAATTTA
4506199 AAAATTA
1 AAAATTA
4506206 CGAATTTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 13 0.39
16 18 0.55
17 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (16 bp):
AAAATTAATAAATTTA
Found at i:4506838 original size:55 final size:53
Alignment explanation
Indices: 4506719--4506840 Score: 131
Period size: 55 Copynumber: 2.3 Consensus size: 53
4506709 TATAGTAGTA
* *
4506719 GTCACTCAATTATTAGTATTTTTTTGTCACCTAACTATGAAAATTTATAAAAT
1 GTCAATCAATTATTAATATTTTTTTGTCACCTAACTATGAAAATTTATAAAAT
* * * * *
4506772 ATCATTTAATTATTAATATTTTTTTTTGTCA-CTGAATTATGAAATTTTA-AAAAT
1 GTCAATCAATTATTAATA--TTTTTTTGTCACCT-AACTATGAAAATTTATAAAAT
4506826 GGTCAATCAATTATT
1 -GTCAATCAATTATT
4506841 CAATTTCATC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
53 14 0.25
54 7 0.12
55 35 0.62
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (53 bp):
GTCAATCAATTATTAATATTTTTTTGTCACCTAACTATGAAAATTTATAAAAT
Found at i:4508163 original size:29 final size:28
Alignment explanation
Indices: 4508131--4508186 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
4508121 TTTTTCTTAT
*
4508131 TTTTAATGACTTTTTGGTAACAAATATTG
1 TTTTAATGA-ATTTTGGTAACAAATATTG
** *
4508160 TTTTCTTGAATTTTGGTAACAATTATT
1 TTTTAATGAATTTTGGTAACAAATATT
4508187 ATTAAACAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.52
Consensus pattern (28 bp):
TTTTAATGAATTTTGGTAACAAATATTG
Found at i:4510810 original size:46 final size:46
Alignment explanation
Indices: 4510757--4510932 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
4510747 TTGTTGAGCA
*
4510757 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
4510803 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * *
4510850 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
4510896 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4510933 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 67 0.65
47 36 0.35
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:4510913 original size:93 final size:93
Alignment explanation
Indices: 4510754--4510925 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
4510744 GGATTGTTGA
* * * *
4510754 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCAAACGCCCGAACTCGTTGAGT
4510819 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
4510847 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCAAACGCCCGAACTCGTTGAGT
4510912 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
4510926 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:4513907 original size:15 final size:15
Alignment explanation
Indices: 4513868--4513947 Score: 81
Period size: 15 Copynumber: 5.4 Consensus size: 15
4513858 GTATCTTGGG
* *
4513868 TTTCTTTATCCTAGA
1 TTTCTTTATTCTGGA
*
4513883 TATCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
4513898 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
* *
4513913 TTTCTCTATTTTGGA
1 TTTCTTTATTCTGGA
*
4513928 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
4513942 TTTCTT
1 TTTCTT
4513948 GTTATCTTTG
Statistics
Matches: 52, Mismatches: 13, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
14 8 0.15
15 44 0.85
ACGTcount: A:0.12, C:0.16, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:4516392 original size:46 final size:46
Alignment explanation
Indices: 4516335--4516510 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
4516325 TTGTTGAGCA
*
4516335 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *** * * ** *
4516381 TCCGAATTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
4516428 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
4516474 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
4516511 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 68 0.66
47 35 0.34
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:4516491 original size:93 final size:93
Alignment explanation
Indices: 4516332--4516503 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
4516322 GGATTGTTGA
* * * *
4516332 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAATTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
4516397 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
4516425 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
4516490 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
4516504 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:4518602 original size:8 final size:9
Alignment explanation
Indices: 4518579--4518603 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4518569 TAAATGTTAG
4518579 TATTTTTAT
1 TATTTTTAT
4518588 TATTTTTAT
1 TATTTTTAT
4518597 TATTTTT
1 TATTTTT
4518604 TAAGCATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TATTTTTAT
Found at i:4521248 original size:14 final size:14
Alignment explanation
Indices: 4521220--4521253 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
4521210 AATAATATTT
4521220 TTTTATTTCAAAAA
1 TTTTATTTCAAAAA
4521234 TTATTATTT-AAAAA
1 TT-TTATTTCAAAAA
4521248 TTTTAT
1 TTTTAT
4521254 ATTATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 9 0.47
15 6 0.32
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTATTTCAAAAA
Found at i:4521256 original size:15 final size:15
Alignment explanation
Indices: 4521219--4521256 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
4521209 AAATAATATT
4521219 TTTTTATTTCAAAAA
1 TTTTTATTTCAAAAA
*
4521234 TTATTATTT-AAAAA
1 TTTTTATTTCAAAAA
4521248 TTTTATATT
1 TTTT-TATT
4521257 ATTTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTTATTTCAAAAA
Found at i:4527745 original size:12 final size:12
Alignment explanation
Indices: 4527728--4527758 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
4527718 GAAGCAGGGG
4527728 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
4527740 AGAAAAAGGGAA
1 AGAAAAAGAGAA
4527752 AGAAAAA
1 AGAAAAA
4527759 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:4528847 original size:27 final size:29
Alignment explanation
Indices: 4528813--4528881 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 29
4528803 ATGCCTTATT
*
4528813 GGTGTGTTTGGGAGGA-TATATTATACC-
1 GGTGTGTTTGGGAGGATTATAATATACCG
*
4528840 GGTGTGTTAT-GGAGGATTTATAATATTCCG
1 GGTGTGTT-TGGGAGGA-TTATAATATACCG
4528870 GGTGTGTTTGGG
1 GGTGTGTTTGGG
4528882 TTTGATATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
27 14 0.40
28 1 0.03
29 10 0.29
30 10 0.29
ACGTcount: A:0.19, C:0.06, G:0.36, T:0.39
Consensus pattern (29 bp):
GGTGTGTTTGGGAGGATTATAATATACCG
Found at i:4530410 original size:46 final size:44
Alignment explanation
Indices: 4530306--4530413 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
4530296 TGTCTTTAAC
** * * *
4530306 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
4530350 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
4530396 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
4530414 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:4530835 original size:9 final size:9
Alignment explanation
Indices: 4530821--4530855 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
4530811 TTCTATTCTG
4530821 TTTCTTTTC
1 TTTCTTTTC
*
4530830 TTTCTTTTT
1 TTTCTTTTC
*
4530839 TTTCTATTC
1 TTTCTTTTC
4530848 TTTCTTTT
1 TTTCTTTT
4530856 GTTTTATGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:4530848 original size:18 final size:19
Alignment explanation
Indices: 4530821--4530860 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
4530811 TTCTATTCTG
*
4530821 TTTCTTTTCTTTCTTTT-T
1 TTTCTATTCTTTCTTTTGT
4530839 TTTCTATTCTTTCTTTTGT
1 TTTCTATTCTTTCTTTTGT
4530858 TTT
1 TTT
4530861 ATGTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTCTATTCTTTCTTTTGT
Found at i:4530877 original size:5 final size:5
Alignment explanation
Indices: 4530864--4530936 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
4530854 TTGTTTTATG
4530864 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
4530912 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
4530937 TTTTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:4530889 original size:19 final size:19
Alignment explanation
Indices: 4530865--4530907 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
4530855 TGTTTTATGT
4530865 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
4530884 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
4530903 ATATA
1 ATATA
4530908 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:4530917 original size:24 final size:25
Alignment explanation
Indices: 4530871--4530935 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
4530861 ATGTATATAT
* *
4530871 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
4530895 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
4530920 TTACTATAATATAATA
1 ATAATATAATATAATA
4530936 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 18 0.53
25 13 0.38
26 1 0.03
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:4533662 original size:53 final size:53
Alignment explanation
Indices: 4533521--4533671 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
4533511 ATAAGTGCGC
* * **
4533521 CCGTTTAAGACCATAGCTGGGCTATGGCATCTGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
4533574 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
4533627 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
4533672 ACCGTGTAAG
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:4537934 original size:50 final size:50
Alignment explanation
Indices: 4537859--4538185 Score: 546
Period size: 50 Copynumber: 6.5 Consensus size: 50
4537849 CCATGGCAAC
* *
4537859 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
4537909 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
4537959 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
4538009 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGATAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
4538059 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
4538109 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGGC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT-GA
* * * *
4538160 AAGTAAAAAGTGGTAACTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
4538186 CTGATCAATG
Statistics
Matches: 261, Mismatches: 15, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
50 239 0.92
51 22 0.08
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:4538211 original size:31 final size:31
Alignment explanation
Indices: 4538165--4538223 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
4538155 ATGGCAAGTA
*
4538165 AAAAGTGGTAACTTCGGCTACCTGATCAATG
1 AAAAGTGATAACTTCGGCTACCTGATCAATG
* *
4538196 AAAAGTGATAGCTTCGGCTATCTGATCA
1 AAAAGTGATAACTTCGGCTACCTGATCA
4538224 TCGGCTACTT
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:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAAGTGATAACTTCGGCTACCTGATCAATG
Found at i:4538231 original size:46 final size:46
Alignment explanation
Indices: 4538178--4538269 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
4538168 AGTGGTAACT
* * *
4538178 TCGGCTACCTGATCAATGAAAAGTGATAGCTTCGGCTATCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGATAGCTCCGGCTACCTGATCA
* * * *
4538224 TCGGCTACTTGATTAGTGAAAAATGGTAGCTCCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGATAGCTCCGGCTACCTGATCA
4538270 GTGAATAGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (46 bp):
TCGGCTACCTGATCAATGAAAAATGATAGCTCCGGCTACCTGATCA
Found at i:4538273 original size:31 final size:31
Alignment explanation
Indices: 4538225--4538293 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
4538215 ATCTGATCAT
* * *
4538225 CGGCTACTTGATTAGTGAAAAATGGTAGCTC
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
* * *
4538256 CGGCTACCTGATCAGTGAATAGTGATAGCTT
1 CGGCTACCTGATCAGTGAAAAATGATAGCTC
4538287 CGGCTAC
1 CGGCTAC
4538294 AAGTGACAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (31 bp):
CGGCTACCTGATCAGTGAAAAATGATAGCTC
Found at i:4555643 original size:25 final size:25
Alignment explanation
Indices: 4555615--4555667 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
4555605 CAATTAACAA
4555615 AAATTCCCATATTTGAAAGCAAATC
1 AAATTCCCATATTTGAAAGCAAATC
*
4555640 AAATTCGCATATTTGAAAGCAAATC
1 AAATTCCCATATTTGAAAGCAAATC
4555665 AAA
1 AAA
4555668 CACTTTCAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.47, C:0.17, G:0.09, T:0.26
Consensus pattern (25 bp):
AAATTCCCATATTTGAAAGCAAATC
Found at i:4561330 original size:94 final size:94
Alignment explanation
Indices: 4561169--4561356 Score: 367
Period size: 94 Copynumber: 2.0 Consensus size: 94
4561159 TAATAACGTC
4561169 GAACATGGGGTGTCAACTGAATAAACATAAGATGAATATGCATATTTCAAAAGATATTACCAGTA
1 GAACATGGGGTGTCAACTGAATAAACATAAGATGAATATGCATATTTCAAAAGATATTACCAGTA
4561234 GTAGCATTAGAAAATCTAGCAAGTATCTT
66 GTAGCATTAGAAAATCTAGCAAGTATCTT
*
4561263 GAACATGGGGTGTCAACTGAATAAACATAAGATGAATATGCATATTTCACAAGATATTACCAGTA
1 GAACATGGGGTGTCAACTGAATAAACATAAGATGAATATGCATATTTCAAAAGATATTACCAGTA
4561328 GTAGCATTAGAAAATCTAGCAAGTATCTT
66 GTAGCATTAGAAAATCTAGCAAGTATCTT
4561357 TGCATCTTGT
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 93 1.00
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (94 bp):
GAACATGGGGTGTCAACTGAATAAACATAAGATGAATATGCATATTTCAAAAGATATTACCAGTA
GTAGCATTAGAAAATCTAGCAAGTATCTT
Found at i:4566982 original size:20 final size:22
Alignment explanation
Indices: 4566943--4566983 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4566933 GCTTCTGTTC
*
4566943 TGTTTCTTCTTTGTTTCTTTTG
1 TGTTTCTTCTTTGATTCTTTTG
4566965 TGTTTCTT-TTT-ATTCTTTT
1 TGTTTCTTCTTTGATTCTTTT
4566984 ATTATTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.02, C:0.12, G:0.10, T:0.76
Consensus pattern (22 bp):
TGTTTCTTCTTTGATTCTTTTG
Found at i:4567015 original size:18 final size:17
Alignment explanation
Indices: 4566980--4567012 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4566970 CTTTTTATTC
4566980 TTTTATTATTTCATTTA
1 TTTTATTATTTCATTTA
4566997 TTTTACTTATTT-ATTT
1 TTTTA-TTATTTCATTT
4567013 TATCATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATTATTTCATTTA
Found at i:4570879 original size:14 final size:17
Alignment explanation
Indices: 4570848--4570884 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
4570838 ATTATAAAGG
4570848 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
4570865 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
4570879 ATATTA
1 ATATTA
4570885 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:4571060 original size:14 final size:14
Alignment explanation
Indices: 4571034--4571084 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
4571024 GAAAACAAAA
4571034 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
4571048 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
4571062 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
4571077 G-AATAAAA
1 GAAATAAAA
4571085 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:4571095 original size:17 final size:16
Alignment explanation
Indices: 4571073--4571106 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4571063 AAGTTAAAAT
4571073 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
4571090 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
4571106 A
1 A
4571107 GAATAGCCAA
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:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:4572254 original size:37 final size:39
Alignment explanation
Indices: 4572195--4572290 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
4572185 CGGATAGATT
* * * *
4572195 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
4572232 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
4572271 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
4572291 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:4578339 original size:14 final size:17
Alignment explanation
Indices: 4578308--4578344 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
4578298 ATTATAAAGG
4578308 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
4578325 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
4578339 ATATTA
1 ATATTA
4578345 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:4578520 original size:14 final size:14
Alignment explanation
Indices: 4578494--4578544 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
4578484 GAAAACAAAA
4578494 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
4578508 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
4578522 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
4578537 G-AATAAAA
1 GAAATAAAA
4578545 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:4578555 original size:17 final size:16
Alignment explanation
Indices: 4578533--4578566 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4578523 AAGTTAAAAT
4578533 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
4578550 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
4578566 A
1 A
4578567 GAATAGCCAA
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:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:4580877 original size:37 final size:37
Alignment explanation
Indices: 4580836--4581048 Score: 372
Period size: 37 Copynumber: 5.8 Consensus size: 37
4580826 TTTGAGTACT
4580836 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
4580873 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
4580910 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
4580947 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
4580984 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
4581021 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
4581049 TAGCTTCAGC
Statistics
Matches: 171, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 171 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:4581120 original size:45 final size:46
Alignment explanation
Indices: 4581011--4581134 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
4581001 GTGATAAGTG
* *
4581011 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
4581057 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
4581102 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
4581135 AGGTTATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:4588605 original size:37 final size:37
Alignment explanation
Indices: 4588564--4588776 Score: 372
Period size: 37 Copynumber: 5.8 Consensus size: 37
4588554 TTTGAGTACT
4588564 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
4588601 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
4588638 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
4588675 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
4588712 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
4588749 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
4588777 TAGCTTCAGC
Statistics
Matches: 171, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 171 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:4588848 original size:45 final size:46
Alignment explanation
Indices: 4588739--4588862 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
4588729 GTGATAAGTG
* *
4588739 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
4588785 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
4588830 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
4588863 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:4591684 original size:15 final size:14
Alignment explanation
Indices: 4591666--4591696 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
4591656 TTAATTTATT
4591666 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
4591681 TAATAATAATCTAA
1 TAATAATAATCTAA
4591695 TA
1 TA
4591697 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:4591707 original size:21 final size:20
Alignment explanation
Indices: 4591683--4591751 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
4591673 AATGCTAATA
4591683 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
4591704 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
4591723 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
4591744 ATAATAAT
1 ATAATAAT
4591752 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:4595828 original size:18 final size:17
Alignment explanation
Indices: 4595795--4595833 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
4595785 TTGTATAAAT
4595795 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
4595813 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
4595830 TGTG
1 TGTG
4595834 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:4596086 original size:23 final size:23
Alignment explanation
Indices: 4596059--4596156 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
4596049 AGTGTTATTG
4596059 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
4596082 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
4596105 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
4596127 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
4596150 ATCAGTG
1 ATCAGTG
4596157 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:4596125 original size:45 final size:45
Alignment explanation
Indices: 4596061--4596149 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
4596051 TGTTATTGAT
* *
4596061 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
4596106 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
4596150 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:4600916 original size:8 final size:8
Alignment explanation
Indices: 4600903--4600932 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
4600893 TTATTAAGTA
*
4600903 AATTTTGC
1 AATTTTCC
4600911 AATTTTCC
1 AATTTTCC
4600919 AATTTTCC
1 AATTTTCC
4600927 AATTTT
1 AATTTT
4600933 GCCCTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.27, C:0.17, G:0.03, T:0.53
Consensus pattern (8 bp):
AATTTTCC
Found at i:4616551 original size:19 final size:19
Alignment explanation
Indices: 4616529--4616573 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4616519 CTTTTTTGAG
*
4616529 TTTTTTTCACATTTT-AAT
1 TTTTTTTTACATTTTAAAT
*
4616547 TTTTTATATACATTTTAAAT
1 TTTTT-TTTACATTTTAAAT
4616567 TTTTTTT
1 TTTTTTT
4616574 ATAATTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 5 0.23
19 9 0.41
20 8 0.36
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTTTACATTTTAAAT
Found at i:4616582 original size:20 final size:20
Alignment explanation
Indices: 4616537--4616581 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
4616527 AGTTTTTTTC
4616537 ACATTTT-AATTTTTTATAT
1 ACATTTTAAATTTTTTATAT
*
4616556 ACATTTTAAATTTTTTTTAT
1 ACATTTTAAATTTTTTATAT
4616576 A-ATTTT
1 ACATTTT
4616582 TGAAGTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (20 bp):
ACATTTTAAATTTTTTATAT
Found at i:4622607 original size:6 final size:6
Alignment explanation
Indices: 4622598--4622626 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
4622588 AATCAGAATT
4622598 GGAAGC GGAAGC GGAAGC GGAAGC GGAAG
1 GGAAGC GGAAGC GGAAGC GGAAGC GGAAG
4622627 AGGAGAGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.52, T:0.00
Consensus pattern (6 bp):
GGAAGC
Found at i:4632580 original size:58 final size:59
Alignment explanation
Indices: 4632483--4632601 Score: 213
Period size: 58 Copynumber: 2.0 Consensus size: 59
4632473 ACATACAAGT
*
4632483 ACTTTCTTGATTAATAAAAAAATATAGAAGTAATATGTGTAACTATTACCAAAAATATA
1 ACTTTCTTGATTAATAAAAAAATATAGAAGTAATATGTGTAACTACTACCAAAAATATA
*
4632542 ACTTTCTTGATTAAT-AAAAAATATAGAAGTAATGTGTGTAACTACTACCAAAAATATA
1 ACTTTCTTGATTAATAAAAAAATATAGAAGTAATATGTGTAACTACTACCAAAAATATA
4632600 AC
1 AC
4632602 GTATTAGTTA
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
58 43 0.74
59 15 0.26
ACGTcount: A:0.48, C:0.10, G:0.09, T:0.33
Consensus pattern (59 bp):
ACTTTCTTGATTAATAAAAAAATATAGAAGTAATATGTGTAACTACTACCAAAAATATA
Found at i:4646210 original size:24 final size:24
Alignment explanation
Indices: 4646166--4646212 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
4646156 CATCAACCAA
* *
4646166 TGAAAAATATTCAGAGAAAAAAAT
1 TGAAAAATATTCACAAAAAAAAAT
*
4646190 TGAAAAATA-TCACAAATAAAAAT
1 TGAAAAATATTCACAAAAAAAAAT
4646213 ATTTTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.64, C:0.06, G:0.09, T:0.21
Consensus pattern (24 bp):
TGAAAAATATTCACAAAAAAAAAT
Found at i:4646680 original size:20 final size:20
Alignment explanation
Indices: 4646655--4646726 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 20
4646645 TTACATTTAT
4646655 TAAATTCAAAAATACTAAAG
1 TAAATTCAAAAATACTAAAG
* ** *
4646675 TAAATTTAATTATCAATTACATTTAT
1 TAAATTCAA--A--AA-TAC-TAAAG
4646701 TAAATTCAAAAATACTAAAG
1 TAAATTCAAAAATACTAAAG
4646721 TAAATT
1 TAAATT
4646727 TAATTATCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
20 16 0.42
21 3 0.08
22 3 0.08
24 3 0.08
25 3 0.08
26 10 0.26
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.36
Consensus pattern (20 bp):
TAAATTCAAAAATACTAAAG
Found at i:4646712 original size:46 final size:46
Alignment explanation
Indices: 4646645--4646736 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
4646635 TATTACACTT
4646645 TTACATTTATTAAATTCAAAAATACTAAAGTAAATTTAATTATCAA
1 TTACATTTATTAAATTCAAAAATACTAAAGTAAATTTAATTATCAA
4646691 TTACATTTATTAAATTCAAAAATACTAAAGTAAATTTAATTATCAA
1 TTACATTTATTAAATTCAAAAATACTAAAGTAAATTTAATTATCAA
4646737 GTTTAGGACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (46 bp):
TTACATTTATTAAATTCAAAAATACTAAAGTAAATTTAATTATCAA
Found at i:4655184 original size:96 final size:91
Alignment explanation
Indices: 4655064--4655290 Score: 242
Period size: 96 Copynumber: 2.4 Consensus size: 91
4655054 AATTTTAGGG
* * ** *
4655064 TTTTAAGGAAAAAAAATTAAATAAATTAGGGTTTAGTGTTTGTTAATTAAATTAATTACT-AATT
1 TTTTAAGG--AAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA-TAAATT
* * *
4655128 T-TAAAAAATTAGATTATGGTTTAGTGTTTACGAT
63 TAAAAAAAAATAGATTA-GG---A-T-TTTAAGAT
*
4655162 TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAGTTATAAATTTAA
1 TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTAA
*
4655227 AAAAAAATAGATTAGGATTTTAAGGT
66 AAAAAAATAGATTAGGATTTTAAGAT
* * *
4655253 ATTTAAGAAAAAAATCAAATAAATTAGGGTTTGGGGTT
1 TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTT
4655291 TAGAGTAACT
Statistics
Matches: 114, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
91 41 0.36
92 1 0.01
93 1 0.01
95 1 0.01
96 49 0.43
97 13 0.11
98 8 0.07
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.38
Consensus pattern (91 bp):
TTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTAA
AAAAAAATAGATTAGGATTTTAAGAT
Found at i:4655552 original size:126 final size:126
Alignment explanation
Indices: 4655335--4655872 Score: 812
Period size: 126 Copynumber: 4.3 Consensus size: 126
4655325 AAAAGCTTCT
* * * *
4655335 ACGTGGACGTTCTTTTGCTACAGTAATCTCTGAAAAAATAAATTTGAGAAGATGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
4655400 ACT-GTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAACAAAAGTACTGAAAGAAGCTCCC
66 A-TAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAACAAAAGTACTGAAAGAAGCTCCC
* * *
4655461 ACGTGGACACTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * *
4655526 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAACAAAAGTACTGAAAGAAGCTCCC
4655587 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTG-AAAAATAATTTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * * * *
4655651 ATAGTGGT-AAAAACGCTTCAAGAAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTGTCAACAAAAGTACTGAAAGAAGCTCCC
* * * **
4655712 ACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGATGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* *
4655777 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAACAAAAGTACTGAAAGAAGTTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAACAAAAGTACTGAAAGAAGCTCCC
* * *
4655838 ACGTGGACGCTCCTTTGCTACAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
4655873 TAACTTGGGC
Statistics
Matches: 377, Mismatches: 31, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
125 117 0.31
126 260 0.69
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAACAAAAGTACTGAAAGAAGCTCCC
Found at i:4655771 original size:251 final size:251
Alignment explanation
Indices: 4655327--4655872 Score: 819
Period size: 251 Copynumber: 2.2 Consensus size: 251
4655317 TAATCTAAAA
* * * *
4655327 AAGCTTCTACGTGGACGTTCTTTTGCTACAGTAATCTCTGAAAAAATAAATTTGAGAAGATGTGT
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTG-AAAAATAAATTTGAGAAGACGTGT
*
4655392 CTGCGCAAACTGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAACAAAAGTACTGAAAGAAGC
65 CTGCGCAAACTGTGTCAAAAACGCTTCAAGAAGGATGCATTGTCAACAAAAGTACTGAAAGAAGC
*
4655457 TCCCACGTGGACACTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGT
130 TCCCACGTGGACACTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGC
* *
4655522 GCAAATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAG
195 ACAAATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAACAAAAGTACTGAAAG
*
4655579 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAATAATTTTGAGAAGACGTGTC
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAATAAATTTGAGAAGACGTGTC
* * * *
4655644 TGCGCAAA-TAGTGGT-AAAAACGCTTCAAGAAGGATGCATTTTCAGCAAAATTACTGGAAGAAG
66 TGCGCAAACT-GT-GTCAAAAACGCTTCAAGAAGGATGCATTGTCAACAAAAGTACTGAAAGAAG
** * * *
4655707 CTCCCACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGATGTGTCTG
129 CTCCCACGTGGACACTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTG
* * *
4655772 CATAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAACAAAAGTACTGAAAG
194 CACAAATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAACAAAAGTACTGAAAG
* * *
4655830 AAG-TTCCCACGTGGACGCTCCTTTGCTACAGTGGTTTCTGAAA
1 AAGCTT-CCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
4655873 TAACTTGGGC
Statistics
Matches: 267, Mismatches: 24, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
250 3 0.01
251 225 0.84
252 39 0.15
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (251 bp):
AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAATAAATTTGAGAAGACGTGTC
TGCGCAAACTGTGTCAAAAACGCTTCAAGAAGGATGCATTGTCAACAAAAGTACTGAAAGAAGCT
CCCACGTGGACACTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGCA
CAAATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAACAAAAGTACTGAAAG
Found at i:4658200 original size:11 final size:11
Alignment explanation
Indices: 4658161--4658212 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
4658151 TAACGAGAGT
*
4658161 TTTGAGAGGAA
1 TTTGAGAGAAA
* *
4658172 TTTAAGATAAA
1 TTTGAGAGAAA
4658183 TTTGAGAG--A
1 TTTGAGAGAAA
4658192 TTTGAGAGAAA
1 TTTGAGAGAAA
4658203 TTTGAGAGAA
1 TTTGAGAGAA
4658213 TATTGAAAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 9 0.26
11 25 0.74
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:4658203 original size:20 final size:20
Alignment explanation
Indices: 4658161--4658211 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
4658151 TAACGAGAGT
*
4658161 TTTGAGAGGAATTTAAGATAAA
1 TTTGAGA-G-ATTTAAGAGAAA
*
4658183 TTTGAGAGATTTGAGAGAAA
1 TTTGAGAGATTTAAGAGAAA
4658203 TTTGAGAGA
1 TTTGAGAGA
4658212 ATATTGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 19 0.70
21 1 0.04
22 7 0.26
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.31
Consensus pattern (20 bp):
TTTGAGAGATTTAAGAGAAA
Found at i:4658224 original size:31 final size:31
Alignment explanation
Indices: 4658161--4658224 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
4658151 TAACGAGAGT
* * *
4658161 TTTGAGAGGAATTTAAGATAAATTTGAGAGA
1 TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
*
4658192 TTTGAGAGAAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGAAATTTAAGAGAAAT-TTGAAAGA
4658223 TT
1 TT
4658225 GAAGATTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 3 0.11
31 25 0.89
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (31 bp):
TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
Found at i:4698980 original size:111 final size:111
Alignment explanation
Indices: 4698690--4699151 Score: 611
Period size: 111 Copynumber: 4.1 Consensus size: 111
4698680 GTAAGTGGGC
* * *
4698690 CTGCTGCTGCCGAACCAGCTGGCCATTCCAGGCAGGACCTGTGCCTTGAGCACATGACTGCTCAT
1 CTGCTGCTGCTGAACCAGCTGGCCATTCCAGGCAGGACCTGTCCCTTGAGCATATGACTGCTCAT
* * * *
4698755 ATCGAGGCGAGCCCATGTTTGATACACTTCCATTTC-CATAAAAGTTATT
66 ATCGAGGTGATCCCATGTTTGATACAGTTCCA-TTCGCATGAAA---ATT
* * * *
4698804 CTGATGATGCTGCTGAACCAGCTGACCATTCCAGGCAGGACCTGTGCCTTGAGCATATGTCTGCT
1 C---TGCTGCTGCTGAACCAGCTGGCCATTCCAGGCAGGACCTGTCCCTTGAGCATATGACTGCT
* * *
4698869 CATATCGAGGTGATCCCATGTTCGATACAGTTCCGTTCACATGAAAATT
63 CATATCGAGGTGATCCCATGTTTGATACAGTTCCATTCGCATGAAAATT
* ** *
4698918 CTGCTGCTGCTGAACCATCTGGCCATTCCAGGCAGGACCTGTCCCTTGAGCATACAAATGCTCAT
1 CTGCTGCTGCTGAACCAGCTGGCCATTCCAGGCAGGACCTGTCCCTTGAGCATATGACTGCTCAT
*
4698983 ATCGAGGTGATCCCATGTTTGGTACAGTTCCATTCGCATGAAAATT
66 ATCGAGGTGATCCCATGTTTGATACAGTTCCATTCGCATGAAAATT
* * * ** *
4699029 CTGCTGCTGCTGAGCCATCTGGCCATTCCAGGCATGACCCATCCCTTGAACATATGACTGCTCAT
1 CTGCTGCTGCTGAACCAGCTGGCCATTCCAGGCAGGACCTGTCCCTTGAGCATATGACTGCTCAT
* *
4699094 ATCGAGGTGATCCCATGTTAGATACAGTTCCATTCGCATGAAACTT
66 ATCGAGGTGATCCCATGTTTGATACAGTTCCATTCGCATGAAAATT
4699140 CTGCTGCTGCTG
1 CTGCTGCTGCTG
4699152 CTGAATTTGA
Statistics
Matches: 310, Mismatches: 34, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
111 210 0.68
114 5 0.02
116 3 0.01
117 92 0.30
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (111 bp):
CTGCTGCTGCTGAACCAGCTGGCCATTCCAGGCAGGACCTGTCCCTTGAGCATATGACTGCTCAT
ATCGAGGTGATCCCATGTTTGATACAGTTCCATTCGCATGAAAATT
Found at i:4705103 original size:29 final size:31
Alignment explanation
Indices: 4705044--4705103 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
4705034 TTATTGGGGA
* * *
4705044 ATGAATAACAAACACGAATATAAATTATTTC
1 ATGAAAAAAAAACACGAATATAAAATATTTC
4705075 ATGAAAAAAAAACAC-AA-ATAAAATATTTC
1 ATGAAAAAAAAACACGAATATAAAATATTTC
4705104 CACCCGCTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 11 0.42
30 2 0.08
31 13 0.50
ACGTcount: A:0.58, C:0.12, G:0.05, T:0.25
Consensus pattern (31 bp):
ATGAAAAAAAAACACGAATATAAAATATTTC
Found at i:4713922 original size:29 final size:29
Alignment explanation
Indices: 4713890--4713947 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
4713880 ACAAATTCCG
*
4713890 ATTATCAGGAACCGTGAACAAGAAGTTTA
1 ATTATAAGGAACCGTGAACAAGAAGTTTA
4713919 ATTATAAGGAACCGTGAACAAGAAGTTTA
1 ATTATAAGGAACCGTGAACAAGAAGTTTA
4713948 GGTGTTCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (29 bp):
ATTATAAGGAACCGTGAACAAGAAGTTTA
Found at i:4720395 original size:114 final size:114
Alignment explanation
Indices: 4720251--4720483 Score: 403
Period size: 114 Copynumber: 2.0 Consensus size: 114
4720241 TAAACTCCAG
* *
4720251 TATTCTCTCTCAGCATCACCTAAACATATTACCCGGCACTTTATCAGTTGCTCATCTAATATATC
1 TATTCTCTCTCAGCATCAACTAAACATATTACCCAGCACTTTATCAGTTGCTCATCTAATATATC
4720316 ACGTTCATATCATTGACCTAAAGTCATTAGTTCCTCTTGTATTACATAA
66 ACGTTCATATCATTGACCTAAAGTCATTAGTTCCTCTTGTATTACATAA
*
4720365 TATTCTCTCTCGGCATCAACTAAACATATTACCCAGCACTTTATCAGTTGCTCATCTAATATATC
1 TATTCTCTCTCAGCATCAACTAAACATATTACCCAGCACTTTATCAGTTGCTCATCTAATATATC
* * * *
4720430 AGGTTCATATTATTGACCTAAAGTCATTAGTTTCTCTTGTATTACATAT
66 ACGTTCATATCATTGACCTAAAGTCATTAGTTCCTCTTGTATTACATAA
4720479 TATTC
1 TATTC
4720484 CTTATATGCA
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 112 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.39
Consensus pattern (114 bp):
TATTCTCTCTCAGCATCAACTAAACATATTACCCAGCACTTTATCAGTTGCTCATCTAATATATC
ACGTTCATATCATTGACCTAAAGTCATTAGTTCCTCTTGTATTACATAA
Found at i:4723173 original size:17 final size:17
Alignment explanation
Indices: 4723151--4723187 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
4723141 GATTGAAAAT
* *
4723151 TTTATTGTAATCATATC
1 TTTATTGAAATCACATC
4723168 TTTATTGAAATCACATC
1 TTTATTGAAATCACATC
4723185 TTT
1 TTT
4723188 GAAGTAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.51
Consensus pattern (17 bp):
TTTATTGAAATCACATC
Found at i:4726971 original size:14 final size:14
Alignment explanation
Indices: 4726952--4726981 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4726942 TTAAATCTAG
4726952 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
4726966 ACCAATCCAATTCA
1 ACCAATCCAAATCA
4726980 AC
1 AC
4726982 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:4729834 original size:31 final size:31
Alignment explanation
Indices: 4729775--4729850 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
4729765 ACACACATAT
*
4729775 ATATACTAAATAAAATAATAAAATAATAATAA
1 ATAT-CTAATTAAAATAATAAAATAATAATAA
* *
4729807 ATATCTTATTAAAAT-ATTAAATAAATAATAA
1 ATATCTAATTAAAATAATAAAAT-AATAATAA
*
4729838 TTATCTAATTAAA
1 ATATCTAATTAAA
4729851 TAACTACAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 6 0.16
31 28 0.74
32 4 0.11
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
ATATCTAATTAAAATAATAAAATAATAATAA
Found at i:4729840 original size:23 final size:23
Alignment explanation
Indices: 4729781--4729840 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
4729771 ATATATATAC
4729781 TAAAT-AA-AATAA-TAAAATAA
1 TAAATAAATAATAATTAAAATAA
* * *
4729801 T-AATAAATATCTTATTAAAATAT
1 TAAATAAATA-ATAATTAAAATAA
4729824 TAAATAAATAATAATTA
1 TAAATAAATAATAATTA
4729841 TCTAATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.10
20 3 0.10
21 1 0.03
22 2 0.07
23 13 0.43
24 8 0.27
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAATAAATAATAATTAAAATAA
Found at i:4731424 original size:26 final size:26
Alignment explanation
Indices: 4731395--4731476 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
4731385 TGTCCCAGAC
4731395 ATGGTCTTACATGGGATGTTCTCGTG
1 ATGGTCTTACATGGGATGTTCTCGTG
* ** * **
4731421 ATGGTGC--CCATGCCATG-TCCCAGAC
1 ATGGT-CTTACATGGGATGTTCTC-GTG
4731446 ATGGTCTTACATGGGATGTTCTCGTG
1 ATGGTCTTACATGGGATGTTCTCGTG
4731472 ATGGT
1 ATGGT
4731477 GCCCATGCCA
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
24 4 0.10
25 13 0.33
26 18 0.46
27 4 0.10
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (26 bp):
ATGGTCTTACATGGGATGTTCTCGTG
Found at i:4731438 original size:25 final size:25
Alignment explanation
Indices: 4731410--4731489 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
4731400 CTTACATGGG
4731410 ATGTTCTCGTGATGGTGCCCATGCC
1 ATGTTCTCGTGATGGTGCCCATGCC
* ** * **
4731435 ATG-TCCCAGACATGGT-CTTACATGGG
1 ATGTTCTC-GTGATGGTGC--CCATGCC
4731461 ATGTTCTCGTGATGGTGCCCATGCC
1 ATGTTCTCGTGATGGTGCCCATGCC
4731486 ATGT
1 ATGT
4731490 CCCAGACATG
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
24 4 0.11
25 17 0.45
26 13 0.34
27 4 0.11
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (25 bp):
ATGTTCTCGTGATGGTGCCCATGCC
Found at i:4731453 original size:51 final size:51
Alignment explanation
Indices: 4731381--4731673 Score: 342
Period size: 50 Copynumber: 5.7 Consensus size: 51
4731371 ACATGCCAAA
**
4731381 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATAGGTGCCCAT
**
4731432 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATAGGTGCCCAT
* * * * * * *
4731483 GCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCAT-CTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATAGGTGCCCAT
* *
4731533 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATAGGTGCCCAT
* * *
4731583 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGA---T-AGG-TGCCCAT
*
4731639 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4731674 TTACCCAAAT
Statistics
Matches: 215, Mismatches: 20, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
49 1 0.00
50 93 0.43
51 79 0.37
54 1 0.00
55 2 0.01
56 39 0.18
ACGTcount: A:0.19, C:0.29, G:0.25, T:0.27
Consensus pattern (51 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATAGGTGCCCAT
Found at i:4731500 original size:25 final size:25
Alignment explanation
Indices: 4731421--4731501 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
4731411 TGTTCTCGTG
4731421 ATGGTGCCCATGCCATGTCCCAGAC
1 ATGGTGCCCATGCCATGTCCCAGAC
* ** * **
4731446 ATGGT-CTTACATGGGATGTTCTC-GTG
1 ATGGTGC--CCATGCCATG-TCCCAGAC
4731472 ATGGTGCCCATGCCATGTCCCAGAC
1 ATGGTGCCCATGCCATGTCCCAGAC
4731497 ATGGT
1 ATGGT
4731502 CTTATAGGGG
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
24 4 0.10
25 18 0.46
26 13 0.33
27 4 0.10
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (25 bp):
ATGGTGCCCATGCCATGTCCCAGAC
Found at i:4731789 original size:13 final size:13
Alignment explanation
Indices: 4731768--4731799 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4731758 GCTTGGATCA
*
4731768 TCATCAAATAAAT
1 TCATAAAATAAAT
4731781 TCATAAAATAAAT
1 TCATAAAATAAAT
4731794 TCATAA
1 TCATAA
4731800 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:4732046 original size:30 final size:30
Alignment explanation
Indices: 4732011--4732068 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4732001 CCTCGACTCT
*
4732011 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
4732041 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
4732069 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:4733154 original size:37 final size:37
Alignment explanation
Indices: 4733097--4733322 Score: 294
Period size: 37 Copynumber: 5.9 Consensus size: 37
4733087 TATGATCACT
*
4733097 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
4733132 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
4733169 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* * *
4733206 TATCACTTTGTTTCTTGATCAGATAAGTGTAGTCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
4733243 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
4733288 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
4733323 GAAGCTATCA
Statistics
Matches: 168, Mismatches: 12, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
35 6 0.04
36 4 0.02
37 122 0.73
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 32 0.19
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:4733198 original size:74 final size:74
Alignment explanation
Indices: 4733093--4733275 Score: 334
Period size: 74 Copynumber: 2.5 Consensus size: 74
4733083 TACGTATGAT
*
4733093 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGAT
4733156 AAGTGTAGC
66 AAGTGTAGC
4733165 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGAT
*
4733230 AAGTGTAGT
66 AAGTGTAGC
4733239 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
4733276 TAAAGCTATC
Statistics
Matches: 107, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
72 10 0.09
73 5 0.05
74 92 0.86
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (74 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCTTGATCAGAT
AAGTGTAGC
Found at i:4733305 original size:46 final size:46
Alignment explanation
Indices: 4733238--4733507 Score: 342
Period size: 46 Copynumber: 5.6 Consensus size: 46
4733228 ATAAGTGTAG
* **
4733238 TCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTA
1 TCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
* *
4733284 TCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTA
1 TCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
4733330 TCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
1 TCACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
*
4733382 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTA
1 TCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
* **
4733428 TTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
1 TCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
*
4733480 CCACTTATCACTTTGTCACTTGATCAGA
1 TCACTTATCACTTTGTCACTTGATCAGA
4733508 AGTACTCAAA
Statistics
Matches: 200, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 113 0.56
48 1 0.00
49 2 0.01
50 1 0.00
52 83 0.41
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
TCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
Found at i:4733358 original size:52 final size:52
Alignment explanation
Indices: 4733282--4733501 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
4733272 TAGCTAAAGC
* *
4733282 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
4733335 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
4733387 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
4733433 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
4733485 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
4733502 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:4733404 original size:98 final size:98
Alignment explanation
Indices: 4733238--4733507 Score: 459
Period size: 98 Copynumber: 2.7 Consensus size: 98
4733228 ATAAGTGTAG
* * *
4733238 TCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTC
1 TCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCAC
4733303 TTGATCAGATAAGTATAGCCGAAGCTATCACTTA
65 TTGATCAGATAAGTATAGCCGAAGCTATCACTTA
**
4733337 TCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACT
1 TCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
*
4733402 TGATCAGATAAGTATAGCCGAAGCTATTACTTA
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTA
* *
4733435 TCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
1 TCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
4733500 TGATCAGA
66 TGATCAGA
4733508 AGTACTCAAA
Statistics
Matches: 161, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 10 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
TCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTA
Found at i:4739909 original size:44 final size:44
Alignment explanation
Indices: 4739846--4740006 Score: 214
Period size: 44 Copynumber: 3.5 Consensus size: 44
4739836 TTTGAGTACT
4739846 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
4739890 TCTGATTAGTGACAAGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAA--G-----TGATAAGTGGTAGCTTTAGCTACACTTA
* * *
4739941 TCTAATCAATGACAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
4739985 TCTGATCAGTAACAAGTGATAA
1 TCTGATCAGTGACAAGTGATAA
4740007 ATGTGATCAG
Statistics
Matches: 102, Mismatches: 8, Indels: 14
0.82 0.06 0.11
Matches are distributed among these distances:
44 60 0.59
46 1 0.01
49 1 0.01
51 40 0.39
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (44 bp):
TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:4739929 original size:51 final size:49
Alignment explanation
Indices: 4739853--4740009 Score: 198
Period size: 51 Copynumber: 3.2 Consensus size: 49
4739843 ACTTCTGATC
*
4739853 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAGTGACA
1 AGTGACAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGA-TAGT-ACA
*
4739904 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCT-A-A-T-CA
1 AGTGACAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATAGTACA
* *
4739949 A-TGACAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTAACA
1 AGTGACAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGAT-AGT-ACA
*
4739999 AGTGATAAATG
1 AGTGACAAATG
4740010 TGATCAGTGT
Statistics
Matches: 92, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
44 35 0.38
45 4 0.04
47 2 0.02
48 2 0.02
50 4 0.04
51 45 0.49
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (49 bp):
AGTGACAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATAGTACA
Found at i:4741509 original size:15 final size:15
Alignment explanation
Indices: 4741489--4741532 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
4741479 ATTTATTTAG
4741489 AAAATTCAATTAATT
1 AAAATTCAATTAATT
*
4741504 AAAATT-ATTTAATT
1 AAAATTCAATTAATT
*
4741518 AAAAATCAATTAATT
1 AAAATTCAATTAATT
4741533 TACTTGGCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAATTCAATTAATT
Found at i:4745070 original size:2 final size:2
Alignment explanation
Indices: 4745065--4745103 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4745055 ACATATATAC
4745065 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4745104 CTGATAAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4747372 original size:16 final size:16
Alignment explanation
Indices: 4747348--4747378 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4747338 GATTAATATT
*
4747348 ATTTTACATTTACTTA
1 ATTTGACATTTACTTA
4747364 ATTTGACATTTACTT
1 ATTTGACATTTACTT
4747379 GATGGCAATA
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:0.13, G:0.03, T:0.55
Consensus pattern (16 bp):
ATTTGACATTTACTTA
Found at i:4748416 original size:17 final size:18
Alignment explanation
Indices: 4748390--4748423 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4748380 TTTATTTGAT
4748390 TCTTAAT-AAATATTAAC
1 TCTTAATAAAATATTAAC
*
4748407 TCTTACTAAAATATTAA
1 TCTTAATAAAATATTAA
4748424 TGGTAAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (18 bp):
TCTTAATAAAATATTAAC
Found at i:4769449 original size:17 final size:18
Alignment explanation
Indices: 4769417--4769450 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4769407 TTAAGCAATG
4769417 CAAACAAATAAATGCACA
1 CAAACAAATAAATGCACA
*
4769435 CAAACACAT-AATGCAC
1 CAAACAAATAAATGCAC
4769451 GTTCAGCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.26, G:0.06, T:0.12
Consensus pattern (18 bp):
CAAACAAATAAATGCACA
Found at i:4770181 original size:43 final size:43
Alignment explanation
Indices: 4770120--4770273 Score: 263
Period size: 43 Copynumber: 3.6 Consensus size: 43
4770110 TCGGCTAAAC
*
4770120 CCTGCTAGGCACGAAGGCCCGAATACACGTCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* * *
4770163 CCTGCTAGGCACGAAGGCCCAAATACACATCTCTGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
*
4770206 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
4770249 CCTGCTAGGCACGAAGGCCCGAATA
1 CCTGCTAGGCACGAAGGCCCGAATA
4770274 TAATACCAGC
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.29, C:0.34, G:0.25, T:0.12
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
Found at i:4773717 original size:16 final size:16
Alignment explanation
Indices: 4773666--4773733 Score: 64
Period size: 16 Copynumber: 4.1 Consensus size: 16
4773656 TGGGAATGGG
* *
4773666 AATGAAAATGAAATTAG
1 AATG-AAATAAAATTAA
* *
4773683 AATGAAATAAAGTTGA
1 AATGAAATAAAATTAA
4773699 AATGAAATAAAATTAA
1 AATGAAATAAAATTAA
* *
4773715 AATAAAATGAAAATGAA
1 AATGAAAT-AAAATTAA
4773732 AA
1 AA
4773734 GAAGTGAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
16 29 0.69
17 13 0.31
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.22
Consensus pattern (16 bp):
AATGAAATAAAATTAA
Found at i:4773743 original size:27 final size:27
Alignment explanation
Indices: 4773666--4773748 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
4773656 TGGGAATGGG
4773666 AATGAAAATGAAATTAGAATG-AAATAA
1 AATGAAAATGAAA-TAGAATGAAAATAA
* * *
4773693 AGTTG-AAATGAAATAAAATTAAAATAA
1 A-ATGAAAATGAAATAGAATGAAAATAA
*
4773720 AATGAAAATGAAA-AGAAGTGAAAAAAA
1 AATGAAAATGAAATAGAA-TGAAAATAA
4773747 AA
1 AA
4773749 AGGGTTGGCA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
26 10 0.22
27 33 0.73
28 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.19
Consensus pattern (27 bp):
AATGAAAATGAAATAGAATGAAAATAA
Found at i:4774340 original size:24 final size:26
Alignment explanation
Indices: 4774290--4774354 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 26
4774280 AAATATAAAA
4774290 TGAATT-AAAAAAATTAATATGAGGAA-
1 TGAATTGAAAAAAATTAATAT--GGAAT
4774316 T-AATATGAAAAAAATTAATAT-GAAT
1 TGAAT-TGAAAAAAATTAATATGGAAT
4774341 TGAATTGAAAAAAA
1 TGAATTGAAAAAAA
4774355 AATAATTGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
24 3 0.09
25 13 0.37
26 5 0.14
27 14 0.40
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (26 bp):
TGAATTGAAAAAAATTAATATGGAAT
Done.