Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 148 of 378
Found at i:42460736 original size:8 final size:8
Alignment explanation
Indices: 42460723--42460757 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
42460713 GTAGATCGGC
42460723 AAAAGCCG
1 AAAAGCCG
42460731 AAAAGCCG
1 AAAAGCCG
*
42460739 AAATGCCG
1 AAAAGCCG
42460747 AAAAGCC-
1 AAAAGCCG
42460754 AAAA
1 AAAA
42460758 CTTTTGGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 4 0.16
8 21 0.84
ACGTcount: A:0.54, C:0.23, G:0.20, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:42460909 original size:17 final size:17
Alignment explanation
Indices: 42460887--42460927 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
42460877 ATAGGCTTAA
42460887 TGGGCCCGATGGGCTAT
1 TGGGCCCGATGGGCTAT
42460904 TGGGCCCGATGGGCTAT
1 TGGGCCCGATGGGCTAT
42460921 TGGGCCC
1 TGGGCCC
42460928 ATAATAGGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.10, C:0.27, G:0.41, T:0.22
Consensus pattern (17 bp):
TGGGCCCGATGGGCTAT
Found at i:42461028 original size:29 final size:29
Alignment explanation
Indices: 42460987--42461074 Score: 117
Period size: 29 Copynumber: 3.1 Consensus size: 29
42460977 GTGAGCATGA
* *
42460987 ATAT-AATGTGATTTGGGTCTAAAGGGTC
1 ATATAAATGTGATTTGGGCCTAAAGGGCC
*
42461015 ATATAAATGTGATTTGGACCTAAAGGGCC
1 ATATAAATGTGATTTGGGCCTAAAGGGCC
*
42461044 ATAAAAATGTGATTTGGGCCTAATA-GGCC
1 ATATAAATGTGATTTGGGCCTAA-AGGGCC
42461073 AT
1 AT
42461075 GTGAATATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
28 4 0.08
29 48 0.91
30 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAAAGGGCC
Found at i:42466236 original size:40 final size:40
Alignment explanation
Indices: 42466076--42466242 Score: 203
Period size: 40 Copynumber: 4.2 Consensus size: 40
42466066 CAATTGAATG
* * **
42466076 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGGTT
* *
42466116 ATATCC-GGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTT
* * * *
42466155 ATATCCGGGCTAATATCCGAAGGCATTTGTGCGAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTT
* *
42466195 ATATCCGGGCTAAGACCCGAAGGCATTCGTGTGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTT
42466235 ATATCCGG
1 ATATCCGG
42466243 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
38 3 0.03
39 30 0.28
40 76 0.70
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTT
Found at i:42466255 original size:79 final size:79
Alignment explanation
Indices: 42466076--42466242 Score: 219
Period size: 79 Copynumber: 2.1 Consensus size: 79
42466066 CAATTGAATG
* * * *
42466076 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTATATCCGGCTAAGACCCGAAGGCAT
1 ATATCCGGGCTAATATCCGAAGGCAATTGTGCGAGTGACTATATCCGGCTAAGACCCGAAGGCAT
*
42466141 TCGTGCAAGTTGTT
66 TCGTGCAAGTGGTT
* *
42466155 ATATCCGGGCTAATATCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAATATCCGAAGGCAATTGTGCGAGT-GACTATATCC-GGCTAAGACCCGAAGGC
***
42466219 ATTCGTGTGTGTGGTT
64 ATTCGTGCAAGTGGTT
42466235 ATATCCGG
1 ATATCCGG
42466243 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
79 38 0.50
80 38 0.50
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAATATCCGAAGGCAATTGTGCGAGTGACTATATCCGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:42474369 original size:80 final size:80
Alignment explanation
Indices: 42474236--42474386 Score: 232
Period size: 80 Copynumber: 1.9 Consensus size: 80
42474226 CAATTGAATG
* *
42474236 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACTATATCCGGGCTAAGACCCGAAGGCA
42474301 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTGTT
* * * *
42474316 ATATCCGGGCTAATATCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GACTATATCCGGGCTAAGACCCGAAGGC
42474380 ATTCGTG
65 ATTCGTG
42474387 TGTGTGGTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
80 63 0.98
81 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTGTT
Found at i:42474381 original size:40 final size:39
Alignment explanation
Indices: 42474236--42474403 Score: 203
Period size: 40 Copynumber: 4.2 Consensus size: 39
42474226 CAATTGAATG
* * *
42474236 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTG-TT
*
42474276 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG-TGTT
* * *
42474316 ATATCCGGGCTAATATCCGAAGGCATTTGTGCGAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-GTT
* *
42474356 ATATCCGGGCTAAGACCCGAAGGCATTCGTGTGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-GTT
42474396 ATATCCGG
1 ATATCCGG
42474404 TTGTATTCCG
Statistics
Matches: 112, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 106 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGTT
Found at i:42474397 original size:80 final size:80
Alignment explanation
Indices: 42474236--42474403 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 80
42474226 CAATTGAATG
* *
42474236 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
42474301 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTGGTT
* * * *
42474316 ATATCCGGGCTAATATCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GACTATATCCGGGCTAAGACCCGAAGGC
***
42474380 ATTCGTGTGTGTGGTT
65 ATTCGTGCAAGTGGTT
42474396 ATATCCGG
1 ATATCCGG
42474404 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 76 0.99
81 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTGGTT
Found at i:42483552 original size:28 final size:28
Alignment explanation
Indices: 42483521--42483625 Score: 129
Period size: 28 Copynumber: 3.7 Consensus size: 28
42483511 GAAGTAGTTA
42483521 GGCCTAATGGGCCATATGAAAGTGATTG
1 GGCCTAATGGGCCATATGAAAGTGATTG
42483549 GGCCTAATGGGCCATATGAAAGTGATTG
1 GGCCTAATGGGCCATATGAAAGTGATTG
* * * * * *
42483577 GGCCTGATGGGCAATGTGAACGAGATTC
1 GGCCTAATGGGCCATATGAAAGTGATTG
* *
42483605 GGCCTAAAGGGGCCAAATGAA
1 GGCCT-AATGGGCCATATGAA
42483626 TAAGTGTGGA
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
28 55 0.85
29 10 0.15
ACGTcount: A:0.30, C:0.16, G:0.33, T:0.21
Consensus pattern (28 bp):
GGCCTAATGGGCCATATGAAAGTGATTG
Found at i:42484000 original size:27 final size:27
Alignment explanation
Indices: 42483926--42484289 Score: 368
Period size: 27 Copynumber: 13.7 Consensus size: 27
42483916 TAATAAAGAG
42483926 AAATTACCGAAATACCCTCGATTATG--
1 AAATTACCGAAATACCCTCGATT-TGTA
* * *
42483952 AAATTA-CTAAAAACTCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
42483978 AAATTACCGACATATCCTCGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
*
42484004 AAATTACTGAAATACCCTAC-ATTTGTA
1 AAATTACCGAAATACCCT-CGATTTGTA
* *
42484031 AAATTACCAAAATACCCTCGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
** *
42484057 AAATTAATGAAAAACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
42484084 AAATTATCGAAATACCC-CTGATTTGTA
1 AAATTACCGAAATACCCTC-GATTTGTA
*
42484111 AAATTACTGAAATACCCTCGA-TTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
42484137 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
42484164 AAATTATCAAAATACCCTCGATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
42484191 TAATTATCGAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
42484218 AAATTATCGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
42484245 AAATTATCAAAATACCCT-TATAGTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
*
42484272 AAATTACCAAAATACCCT
1 AAATTACCGAAATACCCT
42484290 TGTAGTGTAA
Statistics
Matches: 283, Mismatches: 44, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
24 2 0.01
25 13 0.05
26 82 0.29
27 185 0.65
28 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:42484050 original size:53 final size:54
Alignment explanation
Indices: 42483926--42484289 Score: 381
Period size: 53 Copynumber: 6.8 Consensus size: 54
42483916 TAATAAAGAG
* *
42483926 AAATTACCGAAATACCCTCGATTATG--AAATTACT-AAAAACTCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATT-TGTAAAATTACTGAAATACCCTCGATTTGTA
* * *
42483978 AAATTACCGACATATCCTCGA-TTGTGAAATTACTGAAATACCCTAC-ATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCT-CGATTTGTA
* * * *
42484031 AAATTACCAAAATACCCTCGA-TTGTGAAATTAATGAAAAACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
*
42484084 AAATTATCGAAATACCC-CTGATTTGTAAAATTACTGAAATACCCTCGA-TTGTA
1 AAATTACCGAAATACCCTC-GATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * * *
42484137 AAATTACTGAAATACCCTTGATTTGTAAAATTA-TCAAAATACCCTCGATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACT-GAAATACCCTCGATTTGTA
* * * *
42484191 TAATTATCGAAATACCCTCAATTTGTAAAATTA-TCGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACT-GAAATACCCTCGATTTGTA
* * * * **
42484245 AAATTATCAAAATACCCT-TATAGTGTAAAATTACCAAAATACCCT
1 AAATTACCGAAATACCCTCGAT-TTGTAAAATTACTGAAATACCCT
42484290 TGTAGTGTAA
Statistics
Matches: 266, Mismatches: 34, Indels: 22
0.83 0.11 0.07
Matches are distributed among these distances:
50 2 0.01
51 1 0.00
52 30 0.11
53 125 0.47
54 108 0.41
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (54 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
Found at i:42484099 original size:80 final size:79
Alignment explanation
Indices: 42483926--42484289 Score: 353
Period size: 80 Copynumber: 4.6 Consensus size: 79
42483916 TAATAAAGAG
* * * * **
42483926 AAATTACCGAAATACCCTCGATTATG--AAATTACTAAAA-ACTCTCGATTTGTAAAATTACCGA
1 AAATTATCAAAATACCCTC-ATT-TGTAAAATTACCAAAATACCCTCGA-TTGTAAAATTAATGA
* * * *
42483988 CATATCCTCGA-TTGTG
63 AAAACCCTCGATTTGTA
* *
42484004 AAATTA-CTGAAATACCCTACATTTGTAAAATTACCAAAATACCCTCGATTGTGAAATTAATGAA
1 AAATTATC-AAAATACCCT-CATTTGTAAAATTACCAAAATACCCTCGATTGTAAAATTAATGAA
42484068 AAACCCTCGATTTGTA
64 AAACCCTCGATTTGTA
* * ** *
42484084 AAATTATCGAAATACCCCTGATTTGTAAAATTACTGAAATACCCTCGATTGTAAAATTACTGAAA
1 AAATTATCAAAATA-CCCTCATTTGTAAAATTACCAAAATACCCTCGATTGTAAAATTAATGAAA
* *
42484149 TACCCTTGATTTGTA
65 AACCCTCGATTTGTA
** * * *
42484164 AAATTATCAAAATACCCTCGATTTGTGTAATTATCGAAATACCCTCAATTTGTAAAATT-ATCGA
1 AAATTATCAAAATACCCTC-ATTTGTAAAATTACCAAAATACCCTCGA-TTGTAAAATTAAT-GA
*
42484228 AACACCCTCGATTTGTA
63 AAAACCCTCGATTTGTA
* *
42484245 AAATTATCAAAATACCCTTATAGTGTAAAATTACCAAAATACCCT
1 AAATTATCAAAATACCCTCAT-TTGTAAAATTACCAAAATACCCT
42484290 TGTAGTGTAA
Statistics
Matches: 242, Mismatches: 32, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
77 3 0.01
78 19 0.08
79 36 0.15
80 116 0.48
81 68 0.28
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (79 bp):
AAATTATCAAAATACCCTCATTTGTAAAATTACCAAAATACCCTCGATTGTAAAATTAATGAAAA
ACCCTCGATTTGTA
Found at i:42487154 original size:28 final size:28
Alignment explanation
Indices: 42487114--42487174 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
42487104 GTAGTAGTTA
* *
42487114 GGCCTGATGGGCCATATGAATGTGATTG
1 GGCCTGATGGGCCATATGAACGAGATTG
*
42487142 GGCCTGATGGGCCATGTGAACGAGATTG
1 GGCCTGATGGGCCATATGAACGAGATTG
42487170 GGCCT
1 GGCCT
42487175 AAAGGGGCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.20, C:0.18, G:0.38, T:0.25
Consensus pattern (28 bp):
GGCCTGATGGGCCATATGAACGAGATTG
Found at i:42487520 original size:27 final size:27
Alignment explanation
Indices: 42487490--42487827 Score: 365
Period size: 27 Copynumber: 12.7 Consensus size: 27
42487480 TAATGAAGAG
*
42487490 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
42487517 AAATTATTGAAATACCCCCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
42487544 AAACTACCGAAATGCCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
42487570 AAATTACTGAAA-ACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
42487596 AAATTACTGAAATACCCAT-AATTTGTA
1 AAATTACTGAAATACCC-TCGATTTGTA
* *
42487623 AAA-TA-TCAAAATACCCTCGA-TTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
*
42487648 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
42487675 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
42487702 AAATTA-TCGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
** * *
42487729 AAATTACCAAAATACCTTCTATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
42487756 AAATTA-TCGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
42487783 AAATTA-TCAAAATACCCTTG-TAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
42487810 AAATTA-TCGAAATACCCT
1 AAATTACT-GAAATACCCT
42487828 TATAGTGTAA
Statistics
Matches: 264, Mismatches: 35, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
25 16 0.06
26 56 0.21
27 191 0.72
28 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:42487621 original size:79 final size:79
Alignment explanation
Indices: 42487489--42487800 Score: 414
Period size: 79 Copynumber: 3.9 Consensus size: 79
42487479 ATAATGAAGA
* * *
42487489 GAAATTACTAAAATACCCTCGATTTGTAAAATTATTGAAATACCCCCGATTTGTAAAACTACCGA
1 GAAATTACTAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAA-TATCGA
*
42487554 AATGCCCTCGATTGT
65 AATACCCTCGATTGT
* * *
42487569 GAAATTACTGAAA-ACCCTCGATTTGTAAAATTACTGAAATACCCAT-AATTTGTAAAATATCAA
1 GAAATTACTAAAATACCCTCGATTTGTAAAATTACTGAAATACCC-TCGATTTGTAAAATATCGA
42487632 AATACCCTCGATTGT
65 AATACCCTCGATTGT
* * *
42487647 GAAATTACTGAAATACCCTTGATTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATCGA
1 GAAATTACTAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAA-TATCGA
42487712 AATACCCTCGATTTGT
65 AATACCCTCGA-TTGT
* * * * *
42487728 AAAATTACCAAAATACCTTCTATTTGTAAAATTA-TCGAAATACCCTCGATTTGTAAAATTATCA
1 GAAATTACTAAAATACCCTCGATTTGTAAAATTACT-GAAATACCCTCGATTTGTAAAA-TATCG
42487792 AAATACCCT
64 AAATACCCT
42487801 TGTAGTGTAA
Statistics
Matches: 207, Mismatches: 19, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
78 32 0.15
79 79 0.38
80 29 0.14
81 67 0.32
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (79 bp):
GAAATTACTAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATATCGAA
ATACCCTCGATTGT
Found at i:42487810 original size:81 final size:80
Alignment explanation
Indices: 42487490--42487854 Score: 411
Period size: 81 Copynumber: 4.6 Consensus size: 80
42487480 TAATGAAGAG
* * * * * *
42487490 AAATTACTAAAATACCCTCGATTTGTAAAATTATTGAAATACCCCCGATTTGTAAAACTACCGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCAAA
* *
42487555 ATGCCCTCGATTGTG
66 ATACCCTCGATTGTA
*
42487570 AAATTACTGAAA-ACCCTCGATTTGTAAAATTA-CTGAAATACCCAT-AATTTGTAAAA-TATCA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATC-GAAATACCC-TCGATTTGTAAAATTATCA
*
42487631 AAATACCCTCGATTGTG
64 AAATACCCTCGATTGTA
* * *
42487648 AAATTACTGAAATACCCTTGATTTGTAAAATTA-CTAAAATACCCTCGATTTGTAAAATTATCGA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATC-GAAATACCCTCGATTTGTAAAATTATCAA
42487712 AATACCCTCGATTTGTA
65 AATACCCTCGA-TTGTA
** * *
42487729 AAATTACCAAAATACCTTCTATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCAAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCAAA
* *
42487794 ATACCCTTGTAGTGTA
66 ATACCCTCG-ATTGTA
* * * *
42487810 AAATTA-TCGAAATACCCT-TATAGTGTAAAATGATCGACATACCCT
1 AAATTACT-GAAATACCCTCGAT-TTGTAAAATTATCGAAATACCCT
42487855 TGTAGGGTAA
Statistics
Matches: 248, Mismatches: 27, Indels: 19
0.84 0.09 0.06
Matches are distributed among these distances:
78 32 0.13
79 78 0.31
80 30 0.12
81 106 0.43
82 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (80 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTATCAAA
ATACCCTCGATTGTA
Found at i:42487859 original size:54 final size:54
Alignment explanation
Indices: 42487499--42487865 Score: 294
Period size: 54 Copynumber: 6.9 Consensus size: 54
42487489 GAAATTACTA
** ** * * *
42487499 AAATACCCTCGATTTGTAAAATTATTGAAATACCCCCG-ATTTGTAAAACTACCG
1 AAATACCCTCGATTTGTAAAATTATCAAAATACCCTTGTA-GTGTAAAATTATCG
* * * * *
42487553 AAATGCCCTCGA-TTGTGAAATTA-CTGAAA-ACCCTCG-ATTTGTAAAATTA-CTG
1 AAATACCCTCGATTTGTAAAATTATC-AAAATACCCTTGTA-GTGTAAAATTATC-G
* * * *
42487605 AAATACCCAT-AATTTGTAAAA-TATCAAAATACCCTCG-ATTGTGAAATTA-CTG
1 AAATACCC-TCGATTTGTAAAATTATCAAAATACCCTTGTAGTGTAAAATTATC-G
* * *
42487657 AAATACCCTTGATTTGTAAAATTA-CTAAAATACCCTCG-ATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTATC-AAAATACCCTTGTA-GTGTAAAATTATCG
* * *
42487711 AAATACCCTCGATTTGTAAAATTACCAAAATA-CCTTCTATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTATCAAAATACCCTTGTA-GTGTAAAATTATCG
42487765 AAATACCCTCGATTTGTAAAATTATCAAAATACCCTTGTAGTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTATCAAAATACCCTTGTAGTGTAAAATTATCG
* * * * * *
42487819 AAATACCCT-TATAGTGTAAAATGATCGACATACCCTTGTAGGGTAAA
1 AAATACCCTCGAT-TTGTAAAATTATCAAAATACCCTTGTAGTGTAAA
42487866 TTGACTATTT
Statistics
Matches: 274, Mismatches: 24, Indels: 30
0.84 0.07 0.09
Matches are distributed among these distances:
51 2 0.01
52 64 0.23
53 51 0.19
54 149 0.54
55 8 0.03
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.32
Consensus pattern (54 bp):
AAATACCCTCGATTTGTAAAATTATCAAAATACCCTTGTAGTGTAAAATTATCG
Found at i:42487864 original size:27 final size:27
Alignment explanation
Indices: 42487619--42487865 Score: 179
Period size: 27 Copynumber: 9.2 Consensus size: 27
42487609 ACCCATAATT
* * *
42487619 TGTAAAA-TATCAAAATACCCTCG-AT
1 TGTAAAATTATCGAAATACCCTTGTAG
* *
42487644 TGTGAAATTA-CTGAAATACCCTTG-ATT
1 TGTAAAATTATC-GAAATACCCTTGTA-G
* * *
42487671 TGTAAAATTA-CTAAAATACCCTCG-ATT
1 TGTAAAATTATC-GAAATACCCTTGTA-G
* *
42487698 TGTAAAATTATCGAAATACCCTCG-ATT
1 TGTAAAATTATCGAAATACCCTTGTA-G
* * * *
42487725 TGTAAAATTACCAAAATA-CCTTCTATT
1 TGTAAAATTATCGAAATACCCTTGTA-G
* *
42487752 TGTAAAATTATCGAAATACCCTCG-ATT
1 TGTAAAATTATCGAAATACCCTTGTA-G
*
42487779 TGTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
*
42487806 TGTAAAATTATCGAAATACCCTTATAG
1 TGTAAAATTATCGAAATACCCTTGTAG
* *
42487833 TGTAAAATGATCGACATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
*
42487860 GGTAAA
1 TGTAAA
42487866 TTGACTATTT
Statistics
Matches: 191, Mismatches: 24, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
25 7 0.04
26 16 0.08
27 163 0.85
28 5 0.03
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTGTAG
Found at i:42489618 original size:2 final size:2
Alignment explanation
Indices: 42489611--42489639 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
42489601 TTGACTAGTC
42489611 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
42489640 CATGTCATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42493755 original size:13 final size:15
Alignment explanation
Indices: 42493732--42493763 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
42493722 AAGTTGTGAA
42493732 TTTAATATTTG-TAT
1 TTTAATATTTGTTAT
42493746 TTTAAT-TTTGTTAT
1 TTTAATATTTGTTAT
42493760 TTTA
1 TTTA
42493764 TTCTTTCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (15 bp):
TTTAATATTTGTTAT
Found at i:42495484 original size:16 final size:16
Alignment explanation
Indices: 42495463--42495525 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
42495453 CACTGGAATG
*
42495463 GAATAGGGCTGTAATA
1 GAATAGAGCTGTAATA
*
42495479 GAATAGAGCTGTAATG
1 GAATAGAGCTGTAATA
* ** *
42495495 GAATAAAATTGTAATG
1 GAATAGAGCTGTAATA
*
42495511 GAATAGAGTTGTAAT
1 GAATAGAGCTGTAAT
42495526 TAGTAATTCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.41, C:0.03, G:0.27, T:0.29
Consensus pattern (16 bp):
GAATAGAGCTGTAATA
Found at i:42499728 original size:119 final size:119
Alignment explanation
Indices: 42499516--42499886 Score: 469
Period size: 119 Copynumber: 3.1 Consensus size: 119
42499506 CATTGGATAG
* * * * * * *
42499516 GAAAGCCTTTGTAGTGAGTACTAAATTTTAAGGAATGCCTTTGCGGTAAAACTTATGAAAGGTAA
1 GAAAGCCTTTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGAAAAACTCATGAAAGGTAA
* * ** * *
42499581 GCCTACGTGGCAAACCTATGAAAGGAAATGAATCTATGTTAAAACTCTGGACAA
66 GCCTATGTGGCGAACCTATGAAAGGAAATGCCTCTATGATAAAACTCTAGACAA
* * *
42499635 GAAAGCCTTTGTGGCAAGTACTGAATGTTAAGGAACGCCTTTGTGGAAAAACTCAATAAAAGGTA
1 GAAAGCCTTTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGAAAAACTC-ATGAAAGGTA
* * * * *
42499700 AACCTATGTTGTGAACCTTTGAAA-GAAATGCCTTTATGGA-AAAACTCTAGA-AA
65 AGCCTATGTGGCGAACCTATGAAAGGAAATGCCTCTAT-GATAAAACTCTAGACAA
42499753 GGAAAGCCTTTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGAAAAACTCATGAAAGGTA
1 -GAAAGCCTTTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGAAAAACTCATGAAAGGTA
* * * *
42499818 AGCCTATGTGGCGAACCTCTGAAAGGAAATGCCTCTGTCATAAAACTCTAGACAC
65 AGCCTATGTGGCGAACCTATGAAAGGAAATGCCTCTATGATAAAACTCTAGACAA
42499873 GAAAGCCTTTGTGG
1 GAAAGCCTTTGTGG
42499887 TTATCTCTGA
Statistics
Matches: 214, Mismatches: 32, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
118 32 0.15
119 153 0.71
120 29 0.14
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (119 bp):
GAAAGCCTTTGTGGCGAGTACTGAATGTTAAGGAATGCCTTTGTGGAAAAACTCATGAAAGGTAA
GCCTATGTGGCGAACCTATGAAAGGAAATGCCTCTATGATAAAACTCTAGACAA
Found at i:42499851 original size:29 final size:29
Alignment explanation
Indices: 42499783--42499851 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
42499773 ACTGAATGTT
*
42499783 AAGGAATGCCTTTGTGGAAAAACTCATGA
1 AAGGAATGCCTATGTGGAAAAACTCATGA
** *
42499812 AAGGTAA-GCCTATGTGGCGAACCTC-TGA
1 AAGG-AATGCCTATGTGGAAAAACTCATGA
42499840 AAGGAAATGCCT
1 AAGG-AATGCCT
42499852 CTGTCATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
28 9 0.27
29 22 0.67
30 2 0.06
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (29 bp):
AAGGAATGCCTATGTGGAAAAACTCATGA
Found at i:42505260 original size:43 final size:42
Alignment explanation
Indices: 42505194--42505641 Score: 444
Period size: 43 Copynumber: 10.4 Consensus size: 42
42505184 ATTTTTGAGT
42505194 TGGCATCGATATGTGATTACGTGTAAGACCCTGTCTGGGACAG
1 TGGCATCGATATGTGATTACGTGTAAGACCC-GTCTGGGACAG
* * * *
42505237 TGGTATCGATATGTG-TTCTCGTGTAAGACCACATCTGGGA-TG
1 TGGCATCGATATGTGATT-ACGTGTAAGACC-CGTCTGGGACAG
* * * **
42505279 TTGTCATCGATATGTGATTACGTGTATGACCACGTCTAGGACTT
1 -TGGCATCGATATGTGATTACGTGTAAGACC-CGTCTGGGACAG
* *
42505323 TGGCATCGATATGTGATTACGTGTAAGACCATGTCTGGGACAT
1 TGGCATCGATATGTGATTACGTGTAAGACC-CGTCTGGGACAG
* *
42505366 TGGTATCGATATGTGATTATGTGTAAGACCACGTCTGGGAC-G
1 TGGCATCGATATGTGATTACGTGTAAGACC-CGTCTGGGACAG
* * *
42505408 TTGGCATCAATATGTGATTACGTGTAAGACCCTGTCTAGGATAG
1 -TGGCATCGATATGTGATTACGTGTAAGACCC-GTCTGGGACAG
* *
42505452 TGGCATCGATATGTG-TTCTCGTGTAAGACTACGTCTGGGAC-G
1 TGGCATCGATATGTGATT-ACGTGTAAGAC-CCGTCTGGGACAG
42505494 TTGGCATCGATATGTGATTACGTGTAAGACCCTGTCTGGGACAG
1 -TGGCATCGATATGTGATTACGTGTAAGACCC-GTCTGGGACAG
* *
42505538 TGGCATCGATATGTG-TTCACGTGTAAAACCACGTCTGGGA-TG
1 TGGCATCGATATGTGATT-ACGTGTAAGACC-CGTCTGGGACAG
* * * ***
42505580 TTGACATCGATATGTGATTATGTGTAAGACCACGTTTAATAC-G
1 -TGGCATCGATATGTGATTACGTGTAAGACC-CGTCTGGGACAG
42505623 TTGGCATCGATATGTGATT
1 -TGGCATCGATATGTGATT
42505642 CCAATATGTG
Statistics
Matches: 344, Mismatches: 42, Indels: 38
0.81 0.10 0.09
Matches are distributed among these distances:
42 11 0.03
43 321 0.93
44 12 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
TGGCATCGATATGTGATTACGTGTAAGACCCGTCTGGGACAG
Found at i:42505346 original size:86 final size:87
Alignment explanation
Indices: 42505192--42505641 Score: 528
Period size: 86 Copynumber: 5.2 Consensus size: 87
42505182 ACATTTTTGA
*
42505192 GTTGGCATCGATATGTGATTACGTGTAAGACC-CTGTCTGGGACAG-TGGTATCGATATGTG-TT
1 GTTGGCATCGATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATT
* *
42505254 CTCGTGTAAGACCAC-ATCTGGGAT
64 -ACGTGTAAGACCACTGTCTGGGAT
* * * *
42505278 GTTGTCATCGATATGTGATTACGTGTATGACCACGTCTAGGACTTTGGCATCGATATGTGATTAC
1 GTTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAC
*
42505343 GTGTAAGACCA-TGTCTGGGAC
66 GTGTAAGACCACTGTCTGGGAT
* * * *
42505364 ATTGGTATCGATATGTGATTATGTGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTAC
1 GTTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAC
*
42505429 GTGTAAGACC-CTGTCTAGGAT
66 GTGTAAGACCACTGTCTGGGAT
* *
42505450 AG-TGGCATCGATATGTG-TTCTCGTGTAAGACTACGTCTGGGACGTTGGCATCGATATGTGATT
1 -GTTGGCATCGATATGTGATT-ACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATT
*
42505513 ACGTGTAAGACC-CTGTCTGGGACA
64 ACGTGTAAGACCACTGTCTGGGA-T
* * *
42505537 G-TGGCATCGATATGTG-TTCACGTGTAAAACCACGTCTGGGATGTTGACATCGATATGTGATTA
1 GTTGGCATCGATATGTGATT-ACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTA
* * *** *
42505600 TGTGTAAGACCAC-GTTTAATAC
65 CGTGTAAGACCACTGTCTGGGAT
42505622 GTTGGCATCGATATGTGATT
1 GTTGGCATCGATATGTGATT
42505642 CCAATATGTG
Statistics
Matches: 316, Mismatches: 37, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
85 3 0.01
86 307 0.97
87 6 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (87 bp):
GTTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAC
GTGTAAGACCACTGTCTGGGAT
Found at i:42505624 original size:129 final size:129
Alignment explanation
Indices: 42505192--42505641 Score: 551
Period size: 129 Copynumber: 3.5 Consensus size: 129
42505182 ACATTTTTGA
*
42505192 GTTGGCATCGATATGTGATTACGTGTAAGACC-CTGTCTGGGACAG-TGGTATCGATATGTG-TT
1 GTTGGCATCGATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATT
* * * * *
42505254 CTCGTGTAAGACCACATCTGGGATGTTGTCATCGATATGTGATTACGTGTATGACCACGTCTAGG
64 -ACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCACGTCTAGG
42505319 ACT
128 A-T
* * * *
42505322 -TTGGCATCGATATGTGATTACGTGTAAGACCATGTCTGGGACATTGGTATCGATATGTGATTAT
1 GTTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAC
*
42505386 GTGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTACGTGTAAGACC-CTGTCTAGGAT
66 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCAC-GTCTAGGAT
* *
42505450 AG-TGGCATCGATATGTG-TTCTCGTGTAAGACTACGTCTGGGACGTTGGCATCGATATGTGATT
1 -GTTGGCATCGATATGTGATT-ACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATT
* *
42505513 ACGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTG-TTCACGTGTAAAACCACGTCTG
64 ACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATT-ACGTGTAAGACCACGTCTA
42505575 GGAT
126 GGAT
* * * ***
42505579 GTTGACATCGATATGTGATTATGTGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
1 GTTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATT
42505642 CCAATATGTG
Statistics
Matches: 281, Mismatches: 26, Indels: 27
0.84 0.08 0.08
Matches are distributed among these distances:
128 8 0.03
129 267 0.95
130 6 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.32
Consensus pattern (129 bp):
GTTGGCATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAC
GTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCACGTCTAGGAT
Found at i:42505651 original size:56 final size:56
Alignment explanation
Indices: 42505589--42505723 Score: 152
Period size: 56 Copynumber: 2.4 Consensus size: 56
42505579 GTTGACATCG
* *
42505589 ATATGTGATTATGTGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCA
1 ATATGTGATTATGAGTAAGACCACGTTTAATACGTTAGCATCGATATGTGATTCCA
* * *
42505645 ATATGTG--TGTGCAAGTAA-ATCCACGTTTAATATGTTAGCATCGATATGTGATTCCG
1 ATATGTGATTATG--AGTAAGA-CCACGTTTAATACGTTAGCATCGATATGTGATTCCA
*
42505701 ATATGT-ATTTACGAGTAAGACCA
1 ATATGTGA-TTATGAGTAAGACCA
42505724 TGTCTGGGAC
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
54 3 0.05
55 1 0.02
56 58 0.89
57 1 0.02
58 2 0.03
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (56 bp):
ATATGTGATTATGAGTAAGACCACGTTTAATACGTTAGCATCGATATGTGATTCCA
Found at i:42510224 original size:43 final size:43
Alignment explanation
Indices: 42510163--42510486 Score: 488
Period size: 43 Copynumber: 7.5 Consensus size: 43
42510153 CAATAAACTT
* * * * * *
42510163 GCACATTTAGTGCTAATTAATTAACCGAAGTTATAATGGTTTC
1 GCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATC
* * * *
42510206 GCACACTTAGTGCCAATTAATTAACCGAAGTTATAATTATATT
1 GCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATC
* *
42510249 GCACACTTAGTGCCAATTAATTAGCAGAAGCTATAATTGTATT
1 GCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATC
*
42510292 ACACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATC
1 GCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATC
*
42510335 GCACACTTAGTCCCAATTAATTAGCCGAAGCTATAATTGTATC
1 GCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATC
*
42510378 GCACACTTAGTCCCAATTAATTAGCCGAAGCTATAATTGTATC
1 GCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATC
*
42510421 GCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTATATC
1 GCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATC
42510464 GCACACTTAGTGCC-ATTACATTA
1 GCACACTTAGTGCCAATTA-ATTA
42510487 AACCAAACTT
Statistics
Matches: 263, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
42 4 0.02
43 259 0.98
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (43 bp):
GCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATC
Found at i:42524554 original size:27 final size:26
Alignment explanation
Indices: 42524506--42524565 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
42524496 GCGAGGCTGC
*
42524506 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
42524533 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
42524559 CAAATAT
1 CAGATAT
42524566 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:42525272 original size:27 final size:27
Alignment explanation
Indices: 42525242--42525491 Score: 349
Period size: 27 Copynumber: 9.3 Consensus size: 27
42525232 GCAAAATGGA
* * * *
42525242 AATTTTACCCCACAAGGGTATCTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
*
42525269 AATTCTACCCTATAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
*
42525296 AATTCTACCCTACAGGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCGGT
**
42525323 AATTCTACCCTACAGGGGTATTTCAAT
1 AATTCTACCCTACAGGGGTATTTCGGT
42525350 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* * *
42525377 AATTCTAACCTATAGGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* *
42525404 AATTCTACCCTACAGGAGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* *
42525431 AATTCTACCTTACAGGGGTATTTCGAT
1 AATTCTACCCTACAGGGGTATTTCGGT
*
42525458 AATTCTA-CCTACAAGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
42525484 AATTCTAC
1 AATTCTAC
42525492 AACTTATCCA
Statistics
Matches: 199, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 23 0.12
27 176 0.88
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCGGT
Found at i:42531559 original size:27 final size:27
Alignment explanation
Indices: 42531521--42531579 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
42531511 CACGATGGGC
* *
42531521 AAAATAGTCATTTAACACCCTAGGGGA
1 AAAATAGACATTTAACACCCTAAGGGA
*
42531548 AAAATAGACATTTAACACCCTAAGGGC
1 AAAATAGACATTTAACACCCTAAGGGA
42531575 AAAAT
1 AAAAT
42531580 GGTAATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.20
Consensus pattern (27 bp):
AAAATAGACATTTAACACCCTAAGGGA
Found at i:42531589 original size:28 final size:27
Alignment explanation
Indices: 42531517--42531587 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
42531507 TACGCACGAT
* *
42531517 GGGCAAAATAGTCATTTAACACCCTAG
1 GGGCAAAATAGTAATTTAACACCCTAA
*
42531544 GGGAAAAATAG-ACATTTAACACCCTAA
1 GGGCAAAATAGTA-ATTTAACACCCTAA
*
42531571 GGGCAAAATGGTAATTT
1 GGGCAAAATAGTAATTT
42531588 TACCCCACAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.23
Consensus pattern (27 bp):
GGGCAAAATAGTAATTTAACACCCTAA
Found at i:42531612 original size:27 final size:27
Alignment explanation
Indices: 42531581--42531859 Score: 409
Period size: 27 Copynumber: 10.4 Consensus size: 27
42531571 GGGCAAAATG
* * * *
42531581 GTAATTTTACCCCACAAGGGTATCTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
42531607 GATAATTCTATCCTGCAGAGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
42531635 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
42531662 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
42531689 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
42531716 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
42531743 GTAATTTTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
42531770 ATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
42531797 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
42531824 GTAATTCTA-CCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
42531850 GTAATTCTAC
1 GTAATTCTAC
42531860 AACTTATCCA
Statistics
Matches: 228, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
26 26 0.11
27 201 0.88
28 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:42536203 original size:31 final size:32
Alignment explanation
Indices: 42536146--42536207 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
42536136 ACGAAGTCAC
* *
42536146 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCGAAGCCACCAGAA
*
42536178 CAGATATATATA-TGTGGCGAAGCCACCAGA
1 CAGATATAGATATTGTGGCGAAGCCACCAGA
42536208 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.21
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAAGCCACCAGAA
Found at i:42536549 original size:16 final size:16
Alignment explanation
Indices: 42536528--42536559 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
42536518 TACCAAAGTG
42536528 GGCCCGTTGGCCCATT
1 GGCCCGTTGGCCCATT
42536544 GGCCCGTTGGCCCATT
1 GGCCCGTTGGCCCATT
42536560 AAGCCTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.38, G:0.31, T:0.25
Consensus pattern (16 bp):
GGCCCGTTGGCCCATT
Found at i:42536974 original size:27 final size:27
Alignment explanation
Indices: 42536924--42537176 Score: 337
Period size: 27 Copynumber: 9.4 Consensus size: 27
42536914 GGGGCAAAAT
* ** * *
42536924 GGTAATTTTACCCCCCAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
42536951 GGTAATTTTACCCTACAGGAGTATTTG
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42536978 GGTAATTCTACCCTAAAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42537005 AGTAATTCTACCCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
42537031 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
42537058 AATAACTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
42537085 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
42537112 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
42537139 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
42537166 GGTAATTCTAC
1 GGTAATTCTAC
42537177 AACTTATCCA
Statistics
Matches: 205, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
26 25 0.12
27 180 0.88
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:42537117 original size:107 final size:108
Alignment explanation
Indices: 42536959--42537165 Score: 335
Period size: 107 Copynumber: 1.9 Consensus size: 108
42536949 TCGGTAATTT
**
42536959 TACCCTACAGGAGTATTTGGGTAATTCTACCCTAAAGGGGTATTTCAGTAATTCTACCCTACA-G
1 TACCCTACAGGAGTATTTCAGTAATTCTACCCTAAAGGGGTATTTCAGTAATTCTACCCTACAGG
42537023 GGTATTTCAATAATTCTACCCTACAGGGGTATTTCAATAACTC
66 GGTATTTCAATAATTCTACCCTACAGGGGTATTTCAATAACTC
* * *
42537066 TACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGG
1 TACCCTACAGGAGTATTTCAGTAATTCTACCCTAAAGGGGTATTTCAGTAATTCTACCCTACAGG
** *
42537131 GGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
66 GGTATTTCAATAATTCTACCCTACAGGGGTATTTC
42537166 GGTAATTCTA
Statistics
Matches: 91, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
107 58 0.64
108 33 0.36
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (108 bp):
TACCCTACAGGAGTATTTCAGTAATTCTACCCTAAAGGGGTATTTCAGTAATTCTACCCTACAGG
GGTATTTCAATAATTCTACCCTACAGGGGTATTTCAATAACTC
Found at i:42539450 original size:42 final size:43
Alignment explanation
Indices: 42539396--42539497 Score: 154
Period size: 44 Copynumber: 2.4 Consensus size: 43
42539386 GTACTTAAAA
42539396 TTTT-AAGTCAGTGTTGTACACA-GGCATGTGCCATGGCCGTG
1 TTTTAAAGTCAGTGTTGTACACACGGCATGTGCCATGGCCGTG
* **
42539437 TTTTAAAGACAGTGTTGTACACACGGGTGTGTGCCATGGCCGTG
1 TTTTAAAGTCAGTGTTGTACACAC-GGCATGTGCCATGGCCGTG
42539481 TTTTAAAGTCAGTGTTG
1 TTTTAAAGTCAGTGTTG
42539498 CACCCGAACT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
41 4 0.07
42 17 0.31
44 33 0.61
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (43 bp):
TTTTAAAGTCAGTGTTGTACACACGGCATGTGCCATGGCCGTG
Found at i:42542804 original size:40 final size:39
Alignment explanation
Indices: 42542760--42542893 Score: 146
Period size: 40 Copynumber: 3.4 Consensus size: 39
42542750 TCATTCAAAC
* *
42542760 GCCTTCGAGACATAGCCGGGTTATAGTAACTCGCGTAAAT
1 GCCTTCGAGACTTAGCCGGGTT-TAGTAACTCGCATAAAT
* * *
42542800 GCCTTCGGGACTTAAACCGGATTTAGTAACTCGCATAAAT
1 GCCTTCGAGACTT-AGCCGGGTTTAGTAACTCGCATAAAT
* * *
42542840 GCCTTC-AGGCTTAGCCCGGGATTAGTAACTCGCACAAAT
1 GCCTTCGAGACTTAG-CCGGGTTTAGTAACTCGCATAAAT
42542879 GCCTTCG-GATCTTAG
1 GCCTTCGAGA-CTTAG
42542894 TCTGGATATA
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 32 0.41
40 38 0.49
41 7 0.09
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (39 bp):
GCCTTCGAGACTTAGCCGGGTTTAGTAACTCGCATAAAT
Found at i:42550215 original size:46 final size:46
Alignment explanation
Indices: 42550162--42550337 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
42550152 TATTTGGGCA
42550162 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
42550208 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATG---CGA-GCG
* *
42550255 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAGGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
42550301 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42550338 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 4 0.04
43 4 0.04
45 1 0.01
46 64 0.58
47 30 0.27
48 1 0.01
50 3 0.03
51 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:42550317 original size:93 final size:93
Alignment explanation
Indices: 42550158--42550328 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
42550148 GGGATATTTG
* * *
42550158 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAGGCGAACGCCCGAACTCGTTGAG
42550223 TTGAGTCCGAGTTTGTGAGATGTAACTA
66 TTGAGTCCGAGTTTGTGAGATGTAACTA
*
42550251 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAGGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAGGCGAACGCCCGAACTCGTTGAG
42550316 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
42550329 CACTTATGGG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAGGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTTGTGAGATGTAACTA
Found at i:42553720 original size:40 final size:39
Alignment explanation
Indices: 42553653--42553775 Score: 110
Period size: 39 Copynumber: 3.1 Consensus size: 39
42553643 TCGTTCAAAC
* * * *
42553653 GCCTTCGGGACATATCCCGGTTATAGTAACTCGCGTAAAT
1 GCCTTCGGGACTTAACCCGATT-TAGTAACTCGCATAAAT
*
42553693 GCCTTCGGGACTTAACCCAGATTTAGTAA-TTGCATAAAT
1 GCCTTCGGGACTTAACCC-GATTTAGTAACTCGCATAAAT
* *
42553732 GCATTCGGG-CTT-ACCTCGGGA-TTAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAACC-C--GATTTAGTAACTCGCATAAAT
42553771 GCCTT
1 GCCTT
42553776 TGGATCTTAG
Statistics
Matches: 69, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
37 3 0.04
38 11 0.16
39 30 0.43
40 22 0.32
41 3 0.04
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (39 bp):
GCCTTCGGGACTTAACCCGATTTAGTAACTCGCATAAAT
Found at i:42555502 original size:41 final size:42
Alignment explanation
Indices: 42555423--42555521 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 42
42555413 AGCTATTAAC
* * * ** *
42555423 GGGTCTGCTTACACAAGCTGACGGTTAAGATGTTGCTACAT-
1 GGGTCTGCTCACACAAGCTAACGGTCAAGACATAGCTACATA
*
42555464 GGGTCTGCTCACAGAAGCTAACGGTCAAGACATAGCTACATA
1 GGGTCTGCTCACACAAGCTAACGGTCAAGACATAGCTACATA
*
42555506 GTGT-TGCTCACACAAG
1 GGGTCTGCTCACACAAG
42555522 GTGACGAGAA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
41 45 0.94
42 3 0.06
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.24
Consensus pattern (42 bp):
GGGTCTGCTCACACAAGCTAACGGTCAAGACATAGCTACATA
Found at i:42558254 original size:22 final size:23
Alignment explanation
Indices: 42558215--42558323 Score: 111
Period size: 23 Copynumber: 4.8 Consensus size: 23
42558205 CAACTCATTG
42558215 GAGCTTACTGTTTCAGCT-GTTAT
1 GAGCTTACTGTTTCAGCTCG-TAT
*
42558238 GAGCTTATTG-TTCAGCTCG-AT
1 GAGCTTACTGTTTCAGCTCGTAT
*
42558259 AGAGCTTACCGTTTCAGCTCGTAT
1 -GAGCTTACTGTTTCAGCTCGTAT
* *
42558283 GAGCTTATTGTTT-AGCTC-AAT
1 GAGCTTACTGTTTCAGCTCGTAT
*
42558304 AAAGCTTACTGTTTCAGCTC
1 -GAGCTTACTGTTTCAGCTC
42558324 AAAATGTAAC
Statistics
Matches: 72, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
21 4 0.06
22 31 0.43
23 35 0.49
24 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTCGTAT
Found at i:42558265 original size:45 final size:45
Alignment explanation
Indices: 42558215--42558323 Score: 166
Period size: 45 Copynumber: 2.4 Consensus size: 45
42558205 CAACTCATTG
*
42558215 GAGCTTACTGTTTCAGCT-GTTATGAGCTTATTGTTCAGCTCGATA
1 GAGCTTACTGTTTCAGCTCG-TATGAGCTTATTGTTCAGCTCAATA
* *
42558260 GAGCTTACCGTTTCAGCTCGTATGAGCTTATTGTTTAGCTCAATA
1 GAGCTTACTGTTTCAGCTCGTATGAGCTTATTGTTCAGCTCAATA
*
42558305 AAGCTTACTGTTTCAGCTC
1 GAGCTTACTGTTTCAGCTC
42558324 AAAATGTAAC
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 57 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (45 bp):
GAGCTTACTGTTTCAGCTCGTATGAGCTTATTGTTCAGCTCAATA
Found at i:42570013 original size:2 final size:2
Alignment explanation
Indices: 42570006--42570036 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
42569996 AAGTAACAAG
42570006 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
42570037 CTGTATTCGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42572141 original size:18 final size:19
Alignment explanation
Indices: 42572115--42572158 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
42572105 GAACTTTTCT
*
42572115 ATACTTGTA-ATTATTGAA
1 ATACTTGTATATAATTGAA
*
42572133 ATGCTTGTATATAATTGAA
1 ATACTTGTATATAATTGAA
42572152 ATACTTG
1 ATACTTG
42572159 AAGTATGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (19 bp):
ATACTTGTATATAATTGAA
Found at i:42572382 original size:23 final size:23
Alignment explanation
Indices: 42572356--42572472 Score: 143
Period size: 23 Copynumber: 5.2 Consensus size: 23
42572346 CTCATTGGAA
42572356 TTACCGTTTCAGCTCGCAT-GAGC
1 TTACCGTTTCAGCTCG-ATAGAGC
**
42572379 TTACTATTT-AGCTCGATAGAGC
1 TTACCGTTTCAGCTCGATAGAGC
*
42572401 TTACCATTTCAGCTC-ATATGAGC
1 TTACCGTTTCAGCTCGATA-GAGC
*
42572424 TTACTG-TTCAGCTCGATAGAGC
1 TTACCGTTTCAGCTCGATAGAGC
*
42572446 TTACCGTTTCAGCTCAATAGAGC
1 TTACCGTTTCAGCTCGATAGAGC
42572469 TTAC
1 TTAC
42572473 TGTTCATCAG
Statistics
Matches: 82, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.02
22 38 0.46
23 42 0.51
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (23 bp):
TTACCGTTTCAGCTCGATAGAGC
Found at i:42572391 original size:22 final size:22
Alignment explanation
Indices: 42572366--42572473 Score: 112
Period size: 22 Copynumber: 4.8 Consensus size: 22
42572356 TTACCGTTTC
42572366 AGCTCGCAT-GAGCTTACTATTT
1 AGCTCG-ATAGAGCTTACTATTT
*
42572388 AGCTCGATAGAGCTTACCATTT
1 AGCTCGATAGAGCTTACTATTT
* *
42572410 CAGCTC-ATATGAGCTTACTGTTC
1 -AGCTCGATA-GAGCTTACTATTT
**
42572433 AGCTCGATAGAGCTTACCGTTT
1 AGCTCGATAGAGCTTACTATTT
*
42572455 CAGCTCAATAGAGCTTACT
1 -AGCTCGATAGAGCTTACT
42572474 GTTCATCAGC
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
21 2 0.03
22 37 0.51
23 34 0.47
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (22 bp):
AGCTCGATAGAGCTTACTATTT
Found at i:42572413 original size:45 final size:44
Alignment explanation
Indices: 42572356--42572478 Score: 174
Period size: 45 Copynumber: 2.7 Consensus size: 44
42572346 CTCATTGGAA
* *
42572356 TTACCGTTTCAGCTCGCATGAGCTTACTATTTAGCTCGATAGAGC
1 TTACCGTTTCAGCTC-AATGAGCTTACTATTCAGCTCGATAGAGC
* *
42572401 TTACCATTTCAGCTCATATGAGCTTACTGTTCAGCTCGATAGAGC
1 TTACCGTTTCAGCTCA-ATGAGCTTACTATTCAGCTCGATAGAGC
*
42572446 TTACCGTTTCAGCTCAATAGAGCTTACTGTTCA
1 TTACCGTTTCAGCTCAAT-GAGCTTACTATTCA
42572479 TCAGCTTAGG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
44 2 0.03
45 69 0.97
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (44 bp):
TTACCGTTTCAGCTCAATGAGCTTACTATTCAGCTCGATAGAGC
Found at i:42573589 original size:66 final size:65
Alignment explanation
Indices: 42573474--42573656 Score: 176
Period size: 65 Copynumber: 2.8 Consensus size: 65
42573464 CAGTTTGCTC
* * *
42573474 CACACGGCCT-CACACATGGGCGTGTGGC-TGGCCGTGTGGTAGAAGTTAGTATACCCCTTAAAT
1 CACACGGCCTGCACACA--GGCGTGTGACTTGGCCGTGTGGCAGAAGTTAGTATA-CCCTCAAAT
42573537 TGT
63 TGT
* * * * *
42573540 -ACACGGCCTAGCACACAGGCGTGTGACTTGGCCGTGTTGCATAAGTTAGTATACTCTCAAGTTT
1 CACACGGCCT-GCACACAGGCGTGTGACTTGGCCGTGTGGCAGAAGTTAGTATACCCTCAAATTG
42573604 T
65 T
* * * * *
42573605 CACACGGCCTGGCACACGGGCGTGT-CCTTGGCCGTGTGACACAAGTCAGTAT
1 CACACGGCCT-GCACACAGGCGTGTGACTTGGCCGTGTGGCAGAAGTTAGTAT
42573657 GTATGCCCTA
Statistics
Matches: 98, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
65 48 0.49
66 44 0.45
67 6 0.06
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.25
Consensus pattern (65 bp):
CACACGGCCTGCACACAGGCGTGTGACTTGGCCGTGTGGCAGAAGTTAGTATACCCTCAAATTGT
Found at i:42576647 original size:342 final size:343
Alignment explanation
Indices: 42576016--42576697 Score: 1123
Period size: 342 Copynumber: 2.0 Consensus size: 343
42576006 TATGTTTTTG
* *
42576016 AAAATAGTAATTGGTTTGAAAACTCATCTATTCCTAATCTAGCAGCTTAAGGTAAGAAATCAAAG
1 AAAACAGTAATTGGTTTGAAAACTCATATATTCCTAATCTAGCAGCTTAAGGTAAGAAATCAAAG
*
42576081 CCCAAATAGAAGTTAAAAACCTCAAATGCCCTTATTACATAACAAAAAATCAAATATGAAATTTG
66 CCCAAATAAAAGTTAAAAACCTCAAATGCCCTTATTACATAACAAAAAATCAAATATGAAATTTG
* * * * *
42576146 AGTAATTAAAATCAAAAGTATAACATCAGCAATTGTTTGGCCACCTCCGAGTCCCTCGCGACTCC
131 AGTAATTAAAATCAAAAATAGAACATCAGCAATCGTGTAGCCACCTCCGAGTCCCTCGCGACTCC
*
42576211 AAACCGTCAAAGGCTGAGGATTACATGTACAGTTAAAAGAAAGGGTGAGTTTGCGAAAACTCAGT
196 AAACCGTCAAAGGATGAGGATTACATGTACAGTTAAAAGAAAGGGTGAGTTTGCGAAAACTCAGT
* *
42576276 GTGTAATCCCCTACTAGTCAAACAGTAAACAATGAATGCAGTAACAGTCT-GGCCTGGGCCCTAT
261 ATGTAATCCCCTACTAGTCAAACAGTAAACAATGAATGCAGTAACAGTATGGGCCTGGGCCCTAT
42576340 TCAGTATCAGTACAGCCT
326 TCAGTATCAGTACAGCCT
*
42576358 AAAACAGTAATTGGTTTGAAAACTCATATATTCCTAGTCTAGCAGCTTAAGGTAAGAAATCAAAG
1 AAAACAGTAATTGGTTTGAAAACTCATATATTCCTAATCTAGCAGCTTAAGGTAAGAAATCAAAG
** * * * *
42576423 CCTTAATAAAAGTTAAAAACCTCAAATGGCCTTATTACATAACCAAAAATCTAATATGAAGTTTG
66 CCCAAATAAAAGTTAAAAACCTCAAATGCCCTTATTACATAACAAAAAATCAAATATGAAATTTG
* * * *
42576488 AGTAATTAAAGTCAAAAATAGAACATCAGCAATCGTGTAGCCACCTCTGAGTCCCTCGCGGCTTC
131 AGTAATTAAAATCAAAAATAGAACATCAGCAATCGTGTAGCCACCTCCGAGTCCCTCGCGACTCC
* * *
42576553 AAACCGTCTAAGGATGAGGATTACCTGTACAGTTAAAAGAAAGGGTGAGTTTGTGAAAACTCAGT
196 AAACCGTCAAAGGATGAGGATTACATGTACAGTTAAAAGAAAGGGTGAGTTTGCGAAAACTCAGT
*
42576618 ATGTAATCCCCTACTAGTCAAATAGTAAACAATGAATGCAGTAACAGTATGGGCCTGGGCCCTAT
261 ATGTAATCCCCTACTAGTCAAACAGTAAACAATGAATGCAGTAACAGTATGGGCCTGGGCCCTAT
42576683 TCAGTATCAGTACAG
326 TCAGTATCAGTACAG
42576698 TCTGGGCCTT
Statistics
Matches: 313, Mismatches: 26, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
342 284 0.91
343 29 0.09
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (343 bp):
AAAACAGTAATTGGTTTGAAAACTCATATATTCCTAATCTAGCAGCTTAAGGTAAGAAATCAAAG
CCCAAATAAAAGTTAAAAACCTCAAATGCCCTTATTACATAACAAAAAATCAAATATGAAATTTG
AGTAATTAAAATCAAAAATAGAACATCAGCAATCGTGTAGCCACCTCCGAGTCCCTCGCGACTCC
AAACCGTCAAAGGATGAGGATTACATGTACAGTTAAAAGAAAGGGTGAGTTTGCGAAAACTCAGT
ATGTAATCCCCTACTAGTCAAACAGTAAACAATGAATGCAGTAACAGTATGGGCCTGGGCCCTAT
TCAGTATCAGTACAGCCT
Found at i:42576721 original size:33 final size:34
Alignment explanation
Indices: 42576656--42576721 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 34
42576646 ACAATGAATG
* *
42576656 CAGTAACAGTATGGGCCTGGGCCCTATTCAGTAT
1 CAGTAACAGTATGGGCCTGAGCCCTATACAGTAT
* * *
42576690 CAGT-ACAGTCTGGGCCTTAGCCGTATACAGTA
1 CAGTAACAGTATGGGCCTGAGCCCTATACAGTA
42576722 ATAGTGTAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 23 0.85
34 4 0.15
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (34 bp):
CAGTAACAGTATGGGCCTGAGCCCTATACAGTAT
Found at i:42581344 original size:44 final size:44
Alignment explanation
Indices: 42581281--42581402 Score: 114
Period size: 40 Copynumber: 2.9 Consensus size: 44
42581271 TCATAACATT
* * *
42581281 TTTTATAT-TTTATATTTTTTAT-ATTTTTTATAAATTTTAAAAAA
1 TTTTATATATATATATTTTTTATAAATTTTAAT-AATTTT-AAAAA
* *
42581325 TTTTATATATATAT-TTTTTTATAAATTTTAATGATTTTTAAAA
1 TTTTATATATATATATTTTTTATAAATTTTAATAATTTTAAAAA
* *
42581368 -TTT-TATATAT-T-CTTTTTATAAATTTTAATGATTTT
1 TTTTATATATATATATTTTTTATAAATTTTAATAATTTT
42581403 TATATTTTTT
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
40 24 0.34
41 7 0.10
42 3 0.04
43 4 0.06
44 21 0.30
45 11 0.16
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (44 bp):
TTTTATATATATATATTTTTTATAAATTTTAATAATTTTAAAAA
Found at i:42581394 original size:30 final size:30
Alignment explanation
Indices: 42581358--42581515 Score: 126
Period size: 29 Copynumber: 5.2 Consensus size: 30
42581348 AATTTTAATG
42581358 ATTTTTAA-AATTTTATATATTCTTTTTATA
1 ATTTTTAATAATTTT-TATATTCTTTTTATA
* *
42581388 AATTTTAATGATTTTTATATT-TTTTCTAT-
1 ATTTTTAATAATTTTTATATTCTTTT-TATA
* *
42581417 ATTTTTAAT-ATTTTTATATACTTTTAATA
1 ATTTTTAATAATTTTTATATTCTTTTTATA
* * **
42581446 ATTTTTAATAATTTTTTTCTAAATTTTTAATA
1 ATTTTTAATAATTTTTATAT-TCTTTTT-ATA
* * *
42581478 ATTTTTTAATAAATTTTAAATACTTTTCTATA
1 A-TTTTTAATAATTTTTATATTCTTTT-TATA
*
42581510 TTTTTT
1 ATTTTT
42581516 TTTCTAAATT
Statistics
Matches: 104, Mismatches: 15, Indels: 17
0.76 0.11 0.12
Matches are distributed among these distances:
28 12 0.12
29 25 0.24
30 24 0.23
31 15 0.14
32 12 0.12
33 16 0.15
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (30 bp):
ATTTTTAATAATTTTTATATTCTTTTTATA
Found at i:42581412 original size:19 final size:18
Alignment explanation
Indices: 42581278--42581461 Score: 90
Period size: 19 Copynumber: 9.8 Consensus size: 18
42581268 ATTTCATAAC
*
42581278 ATTTTTTATA-TTTTAT-
1 ATTTTTAATATTTTTATA
*
42581294 ATTTTTTATATTTTTTATAA
1 ATTTTTAATA-TTTTTAT-A
* * *
42581314 ATTTTAAAAAATTTTAT-
1 ATTTTTAATATTTTTATA
* * *
42581331 ATATAT-ATTTTTTTATA
1 ATTTTTAATATTTTTATA
* *
42581348 AATTTTAATGATTTTTAAA
1 ATTTTTAAT-ATTTTTATA
*
42581367 ATTTTATATATTCTTTTTATA
1 ATTTT-TA-A-TATTTTTATA
*
42581388 AATTTTAATGATTTTTATA
1 ATTTTTAAT-ATTTTTATA
* *
42581407 TTTTTTCTATATTTTTA-A
1 ATTTTT-AATATTTTTATA
*
42581425 TATTTTTATATACTTTTAATA
1 -ATTTTTA-ATA-TTTTTATA
42581446 ATTTTTAATAATTTTT
1 ATTTTTAAT-ATTTTT
42581462 TTCTAAATTT
Statistics
Matches: 124, Mismatches: 27, Indels: 31
0.68 0.15 0.17
Matches are distributed among these distances:
16 17 0.14
17 6 0.05
18 10 0.08
19 51 0.41
20 26 0.21
21 13 0.10
22 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (18 bp):
ATTTTTAATATTTTTATA
Found at i:42581495 original size:10 final size:10
Alignment explanation
Indices: 42581294--42581496 Score: 96
Period size: 10 Copynumber: 19.8 Consensus size: 10
42581284 TATATTTTAT
*
42581294 ATTTTTTAT-
1 ATTTTTAATA
*
42581303 ATTTTTTATAA
1 ATTTTTAAT-A
* *
42581314 ATTTTAAAAA
1 ATTTTTAATA
42581324 ATTTTATATATA
1 ATTTT-TA-ATA
*
42581336 TATTTTTTTATA
1 -A-TTTTTAATA
* *
42581348 AATTTTAATG
1 ATTTTTAATA
42581358 ATTTTTAA-A
1 ATTTTTAATA
42581367 A-TTTTATATA
1 ATTTTTA-ATA
* *
42581377 TTCTTTTTATA
1 AT-TTTTAATA
* *
42581388 AATTTTAATG
1 ATTTTTAATA
42581398 ATTTTT-AT-
1 ATTTTTAATA
**
42581406 ATTTTTTCTA
1 ATTTTTAATA
42581416 TATTTTTAAT-
1 -ATTTTTAATA
42581426 ATTTTT-ATA
1 ATTTTTAATA
*
42581435 TACTTTTAATA
1 -ATTTTTAATA
42581446 ATTTTTAATA
1 ATTTTTAATA
**
42581456 ATTTTTTTCTAA
1 A-TTTTTAAT-A
42581468 ATTTTTAATA
1 ATTTTTAATA
42581478 ATTTTTTAATA
1 A-TTTTTAATA
*
42581489 AATTTTAA
1 ATTTTTAA
42581497 ATACTTTTCT
Statistics
Matches: 147, Mismatches: 28, Indels: 37
0.69 0.13 0.17
Matches are distributed among these distances:
8 13 0.09
9 20 0.14
10 54 0.37
11 43 0.29
12 11 0.07
13 2 0.01
14 4 0.03
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:42581499 original size:11 final size:11
Alignment explanation
Indices: 42581417--42581499 Score: 75
Period size: 11 Copynumber: 7.9 Consensus size: 11
42581407 TTTTTTCTAT
42581417 ATTTTTAAT--
1 ATTTTTAATAA
*
42581426 ATTTTT-ATAT
1 ATTTTTAATAA
*
42581436 ACTTTTAAT-A
1 ATTTTTAATAA
42581446 ATTTTTAATAA
1 ATTTTTAATAA
* **
42581457 TTTTTTTCTAA
1 ATTTTTAATAA
42581468 ATTTTTAATAA
1 ATTTTTAATAA
*
42581479 TTTTTTAATAA
1 ATTTTTAATAA
*
42581490 ATTTTAAATA
1 ATTTTTAATA
42581500 CTTTTCTATA
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
8 2 0.03
9 6 0.10
10 13 0.22
11 37 0.64
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTTTTAATAA
Found at i:42581499 original size:22 final size:22
Alignment explanation
Indices: 42581315--42581504 Score: 84
Period size: 22 Copynumber: 9.1 Consensus size: 22
42581305 TTTTTATAAA
*
42581315 TTTTAAAAAATTTTATATATATATT
1 TTTTAATAAATTTTA-A-ATA-ATT
* *
42581340 TTTTTATAAATTTT-AATGA-T
1 TTTTAATAAATTTTAAATAATT
*
42581360 TTTT-A-AAATTTTATAT-ATT
1 TTTTAATAAATTTTAAATAATT
* *
42581379 CTTTTTATAAATTTT-AATGA-T
1 -TTTTAATAAATTTTAAATAATT
** **
42581400 TTTT-ATATTTTTTCTAT-A-T
1 TTTTAATAAATTTTAAATAATT
* * *
42581419 TTTTAAT-ATTTTTATAT-A-C
1 TTTTAATAAATTTTAAATAATT
*
42581438 TTTTAAT-AATTTTTAATAATT
1 TTTTAATAAATTTTAAATAATT
** *
42581459 TTTTTCTAAATTTTTAATAATT
1 TTTTAATAAATTTTAAATAATT
*
42581481 TTTTAATAAATTTTAAATACTT
1 TTTTAATAAATTTTAAATAATT
42581503 TT
1 TT
42581505 CTATATTTTT
Statistics
Matches: 133, Mismatches: 21, Indels: 25
0.74 0.12 0.14
Matches are distributed among these distances:
18 8 0.06
19 40 0.30
20 18 0.14
21 10 0.08
22 44 0.33
23 1 0.01
25 12 0.09
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.62
Consensus pattern (22 bp):
TTTTAATAAATTTTAAATAATT
Found at i:42584082 original size:8 final size:7
Alignment explanation
Indices: 42584068--42584111 Score: 52
Period size: 8 Copynumber: 5.7 Consensus size: 7
42584058 GCACATAATA
42584068 TTTTTAT
1 TTTTTAT
42584075 TGTTTTAT
1 T-TTTTAT
42584083 TTTTATATT
1 TTTT-TA-T
42584092 TTTTATAT
1 TTTT-TAT
42584100 TTTTTAT
1 TTTTTAT
42584107 TTTTT
1 TTTTT
42584112 TTACTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 12 0.35
8 14 0.41
9 8 0.24
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (7 bp):
TTTTTAT
Found at i:42584102 original size:16 final size:15
Alignment explanation
Indices: 42584065--42584111 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 15
42584055 CAAGCACATA
42584065 ATATTTTTATTGTTTT
1 ATATTTTTATT-TTTT
42584081 AT-TTTTATATTTTTT
1 ATATTTT-TATTTTTT
42584096 ATATTTTTTATTTTTT
1 ATA-TTTTTATTTTTT
42584112 TTACTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.36
16 14 0.50
17 4 0.14
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (15 bp):
ATATTTTTATTTTTT
Found at i:42584119 original size:9 final size:8
Alignment explanation
Indices: 42584068--42584122 Score: 58
Period size: 9 Copynumber: 6.6 Consensus size: 8
42584058 GCACATAATA
42584068 TTTTTATT
1 TTTTTATT
*
42584076 GTTTTATT
1 TTTTTATT
*
42584084 TTTATA-T
1 TTTTTATT
42584091 TTTTTATAT
1 TTTTTAT-T
42584100 TTTTTATTT
1 TTTTTA-TT
42584109 TTTTTACTT
1 TTTTTA-TT
42584118 TTTTT
1 TTTTT
42584123 GAGAGAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
7 6 0.15
8 11 0.28
9 21 0.54
10 1 0.03
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.82
Consensus pattern (8 bp):
TTTTTATT
Found at i:42584119 original size:16 final size:15
Alignment explanation
Indices: 42584066--42584120 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
42584056 AAGCACATAA
*
42584066 TATTTTTA-TTGTTT
1 TATTTTTATTTTTTT
42584080 TATTTTTATATTTTTT
1 TATTTTTAT-TTTTTT
42584096 ATATTTTTTATTTTTTT
1 -TA-TTTTTATTTTTTT
42584113 TACTTTTT
1 TA-TTTTT
42584121 TTGAGAGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 8 0.23
16 12 0.34
17 8 0.23
18 7 0.20
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (15 bp):
TATTTTTATTTTTTT
Found at i:42592854 original size:16 final size:15
Alignment explanation
Indices: 42592820--42592862 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
42592810 ATTCTATGCA
*
42592820 AAAT-TAATAATAAT
1 AAATATAATTATAAT
*
42592834 TAATATATATTATAAT
1 AAATATA-ATTATAAT
42592850 AAATATAATTATA
1 AAATATAATTATA
42592863 TACTAGTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 3 0.12
15 8 0.33
16 13 0.54
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAATATAATTATAAT
Found at i:42595838 original size:49 final size:49
Alignment explanation
Indices: 42595738--42596054 Score: 185
Period size: 48 Copynumber: 6.7 Consensus size: 49
42595728 AGATGCCGGC
*
42595738 GCCATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGCGAGGCCGAT
1 GCCATGTCCCAGACAT-GTCTTACACTGGCTCTCATATAGCGAGGCCGAT
* * **
42595788 GCCATGTCCCAGACATGTCTTACACTGGCTCTCATCTATCG-GTGTTGAT
1 GCCATGTCCCAGACATGTCTTACACTGGCTCTCATATAGCGAG-GCCGAT
* * ** * ** * ** *
42595837 GCCATGTCCCAAACAGGTCTTACACT--AACACA-CCA-C-AAGTTGAC
1 GCCATGTCCCAGACATGTCTTACACTGGCTCTCATATAGCGAGGCCGAT
* * * * * *
42595881 GCCATGTCCCAAACAGGTCTTACACTAGCT-TGTATATCGCGAGCCCGAT
1 GCCATGTCCCAGACATGTCTTACACTGGCTCT-CATATAGCGAGGCCGAT
* * * * *
42595930 G-CATGTCCCAGACATGTCTTACACTAGCTCTCGTCT--CAATGCCGAT
1 GCCATGTCCCAGACATGTCTTACACTGGCTCTCATATAGCGAGGCCGAT
* * * * * *
42595976 G-CATGTCCCAAACATGTCTTACACTAGCT-T-AAATATCTTAAGGCTGAT
1 GCCATGTCCCAGACATGTCTTACACTGGCTCTCATATAGC--GAGGCCGAT
*
42596024 G-CATGTCCTAGACATGTCTTACACTGGCTCT
1 GCCATGTCCCAGACATGTCTTACACTGGCTCT
42596055 AATGTTGTGG
Statistics
Matches: 211, Mismatches: 42, Indels: 29
0.75 0.15 0.10
Matches are distributed among these distances:
44 32 0.15
45 2 0.01
46 39 0.18
47 3 0.01
48 63 0.30
49 56 0.27
50 16 0.08
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACATGTCTTACACTGGCTCTCATATAGCGAGGCCGAT
Found at i:42595954 original size:48 final size:47
Alignment explanation
Indices: 42595883--42596106 Score: 186
Period size: 46 Copynumber: 4.8 Consensus size: 47
42595873 AAGTTGACGC
* * * *
42595883 CATGTCCCAAACAGGTCTTACACTAGCTTGTATATCGCGAGCCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTATATATCTCAAG-CCGATG
* * **
42595931 CATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAATGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTATATATCTCAA-GCCGATG
* * *
42595977 CATGTCCCAAACATGTCTTACACTAGCTTAAATATCTTAAGGCTGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTATATATCTCAA-GCCGATG
* * * * *** *
42596025 CATGTCCTAGACATGTCTTACACTGGCTCTA-ATGT-TGTGGCTGATG
1 CATGTCCCAAACATGTCTTACACTAGCT-TATATATCTCAAGCCGATG
* **
42596071 CATGTTCCAAACATGTCTTACACTAGCACATATATC
1 CATGTCCCAAACATGTCTTACACTAGCTTATATATC
42596107 ACCCATTATC
Statistics
Matches: 141, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 69 0.49
47 5 0.04
48 64 0.45
49 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (47 bp):
CATGTCCCAAACATGTCTTACACTAGCTTATATATCTCAAGCCGATG
Found at i:42595997 original size:94 final size:94
Alignment explanation
Indices: 42595883--42596097 Score: 261
Period size: 94 Copynumber: 2.3 Consensus size: 94
42595873 AAGTTGACGC
* ** *
42595883 CATGTCCCAAACAGGTCTTACACTAGCTTGTATATCGCGAGCCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAAACATGTCTTACACTAGCTTAAATATCGCAAGCCCGATGCATGTCCCAGACATGTC
**
42595948 TTACACTAGCTCTCGTCTCAAT-GCCGATG
66 TTACACTAGCTCTAATCT-AATGGCCGATG
** * * *
42595977 CATGTCCCAAACATGTCTTACACTAGCTTAAATATCTTAAGGCTGATGCATGTCCTAGACATGTC
1 CATGTCCCAAACATGTCTTACACTAGCTTAAATATCGCAAGCCCGATGCATGTCCCAGACATGTC
* * ** *
42596042 TTACACTGGCTCTAATGTTGTGGCTGATG
66 TTACACTAGCTCTAATCTAATGGCCGATG
*
42596071 CATGTTCCAAACATGTCTTACACTAGC
1 CATGTCCCAAACATGTCTTACACTAGC
42596098 ACATATATCA
Statistics
Matches: 103, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
93 1 0.01
94 102 0.99
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (94 bp):
CATGTCCCAAACATGTCTTACACTAGCTTAAATATCGCAAGCCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTAATCTAATGGCCGATG
Found at i:42596031 original size:142 final size:141
Alignment explanation
Indices: 42595737--42596001 Score: 358
Period size: 141 Copynumber: 1.9 Consensus size: 141
42595727 AAGATGCCGG
* *
42595737 CGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGCGAGGCCGATGCCATGTCCCAGAC
1 CGCCATGTCCCAGACA-GGTCTTACACTAGCTTTCATATAGCGAGCCCGATGCCATGTCCCAGAC
* ** **
42595802 ATGTCTTACACTGGCTCTCATCTATCGGTGTTGATGCCATGTCCCAAACAGGTCTTACACTAACA
65 ATGTCTTACACTAGCTCTCATC-ATCAATGCCGATGCCATGTCCCAAACAGGTCTTACACTAACA
* *
42595867 CACCACAAGTTGA
129 CAACACAAGCTGA
* *
42595880 CGCCATGTCCCAAACAGGTCTTACACTAGCTTGT-ATATCGCGAGCCCGATG-CATGTCCCAGAC
1 CGCCATGTCCCAGACAGGTCTTACACTAGCTT-TCATATAGCGAGCCCGATGCCATGTCCCAGAC
* *
42595943 ATGTCTTACACTAGCTCTCGTC-TCAATGCCGATG-CATGTCCCAAACATGTCTTACACTA
65 ATGTCTTACACTAGCTCTCATCATCAATGCCGATGCCATGTCCCAAACAGGTCTTACACTA
42596002 GCTTAAATAT
Statistics
Matches: 110, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
138 24 0.22
139 8 0.07
141 32 0.29
142 30 0.27
143 16 0.15
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (141 bp):
CGCCATGTCCCAGACAGGTCTTACACTAGCTTTCATATAGCGAGCCCGATGCCATGTCCCAGACA
TGTCTTACACTAGCTCTCATCATCAATGCCGATGCCATGTCCCAAACAGGTCTTACACTAACACA
ACACAAGCTGA
Found at i:42607101 original size:48 final size:48
Alignment explanation
Indices: 42607035--42607203 Score: 189
Period size: 48 Copynumber: 3.6 Consensus size: 48
42607025 AAGCTGACAC
* ** * *
42607035 CATGTCCCAGACGGGTCTTACACTAGCTTGTATATCGCGAGGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTATATATCTCGAGGCCGATG
* * ** * *
42607083 CATGTCCCAAACATGTCTTACATTAGC-TCT-CGTCTCAATGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTATATATCTCGAGGCCGATG
* * * *
42607129 CATGTCTCAAACATGTCTTACACTGGCTTAAATATCTCGAGGCCAATG
1 CATGTCCCAAACATGTCTTACACTAGCTTATATATCTCGAGGCCGATG
42607177 CATGTCCCAAACATGTCTTACACTAGC
1 CATGTCCCAAACATGTCTTACACTAGC
42607204 ATACATATGA
Statistics
Matches: 97, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
46 35 0.36
47 3 0.03
48 59 0.61
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (48 bp):
CATGTCCCAAACATGTCTTACACTAGCTTATATATCTCGAGGCCGATG
Found at i:42611642 original size:2 final size:2
Alignment explanation
Indices: 42611637--42611681 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
42611627 TTTTTTATTT
* *
42611637 TA TA TA TG TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
42611679 TA T
1 TA T
42611682 TTGTGTGCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (2 bp):
TA
Found at i:42621682 original size:2 final size:2
Alignment explanation
Indices: 42621675--42621713 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
42621665 ATGTATTTAG
42621675 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
42621714 ATAATTTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:42622019 original size:22 final size:23
Alignment explanation
Indices: 42621974--42622025 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
42621964 TGTTTTCTCC
42621974 TTATT-TTGCTACTATTTTACTA
1 TTATTGTTGCTACTATTTTACTA
* **
42621996 TT-TTGTTGCTGCTATTTTGTTA
1 TTATTGTTGCTACTATTTTACTA
42622018 TTATTGTT
1 TTATTGTT
42622026 TAGATATTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 18 0.72
23 5 0.20
ACGTcount: A:0.15, C:0.10, G:0.12, T:0.63
Consensus pattern (23 bp):
TTATTGTTGCTACTATTTTACTA
Found at i:42622088 original size:30 final size:30
Alignment explanation
Indices: 42622054--42622113 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
42622044 TATTTTATTA
*
42622054 TTAATTTTGTTATTATTTTAAAGACATTTG
1 TTAATTTTATTATTATTTTAAAGACATTTG
* *
42622084 TTAATTTTATTATTATTTTAGAGATATTTG
1 TTAATTTTATTATTATTTTAAAGACATTTG
42622114 CTTGATAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGACATTTG
Found at i:42625374 original size:14 final size:13
Alignment explanation
Indices: 42625349--42625403 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 13
42625339 TGTAGGTGTC
42625349 TGAAAAAA-AAAA
1 TGAAAAAATAAAA
42625361 TGAAAAAATCAAAA
1 TGAAAAAAT-AAAA
42625375 T-AAATCAAATAAAA
1 TGAAA--AAATAAAA
*
42625389 TTAAAAAATTAAAA
1 TGAAAAAA-TAAAA
42625403 T
1 T
42625404 TTTTCCGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
12 8 0.22
13 6 0.16
14 16 0.43
15 7 0.19
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.20
Consensus pattern (13 bp):
TGAAAAAATAAAA
Found at i:42629537 original size:37 final size:37
Alignment explanation
Indices: 42629487--42629577 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
42629477 TTATTACGAA
42629487 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
42629524 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
42629561 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
42629578 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:42629675 original size:48 final size:48
Alignment explanation
Indices: 42629617--42629816 Score: 373
Period size: 48 Copynumber: 4.2 Consensus size: 48
42629607 TGTTACAACA
*
42629617 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
42629665 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
42629713 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
42629761 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
42629809 TTCACATT
1 TTCACATT
42629817 CATCGCATCG
Statistics
Matches: 148, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 148 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:42629908 original size:96 final size:97
Alignment explanation
Indices: 42629808--42630047 Score: 383
Period size: 96 Copynumber: 2.5 Consensus size: 97
42629798 CACACATATG
* *
42629808 TTTCACATTCATCGCATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
*
42629873 TCGGCCATTAGGCCTTATCAC-ATATATACTC
66 TCGGCCATTAGGCCTTATCACAATATATACAC
* *
42629904 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
*
42629969 TTGGCCATTAGGCCTTATCACATATATATATACAC
66 TCGGCCATTAGGCCTTATCAC--A-ATATATACAC
*
42630004 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
42630048 CATCTCATAC
Statistics
Matches: 132, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
96 81 0.61
100 51 0.39
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.34
Consensus pattern (97 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACAATATATACAC
Found at i:42630020 original size:51 final size:49
Alignment explanation
Indices: 42629808--42630047 Score: 385
Period size: 49 Copynumber: 4.9 Consensus size: 49
42629798 CACACATATG
* *
42629808 TTTCACATTCATCGCATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
42629857 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
42629904 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
42629953 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATATACAC
*
42630004 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
42630048 CATCTCATAC
Statistics
Matches: 178, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
47 44 0.25
49 87 0.49
51 47 0.26
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:42633583 original size:22 final size:23
Alignment explanation
Indices: 42633556--42633601 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
42633546 TTAGATTAGT
*
42633556 GAAATTAAAA-TAAAATTAAAAA
1 GAAATTAAAAGAAAAATTAAAAA
42633578 GAAATTAAAAGGAAAAATTAAAAA
1 GAAATTAAAA-GAAAAATTAAAAA
42633602 TTTTGTATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
24 11 0.52
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.20
Consensus pattern (23 bp):
GAAATTAAAAGAAAAATTAAAAA
Found at i:42636896 original size:23 final size:23
Alignment explanation
Indices: 42636870--42636940 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 23
42636860 TCAATGATTG
*
42636870 TTTAGACTTGATCTAAAATTGGT
1 TTTAGACTTGATCTAAAATTTGT
* * ** *
42636893 TTTATA-ATGAGATAAGATTTG-
1 TTTAGACTTGATCTAAAATTTGT
42636914 TTTAGACTTGATCTAAAATTTGT
1 TTTAGACTTGATCTAAAATTTGT
42636937 TTTA
1 TTTA
42636941 TAATGAGATA
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
21 5 0.14
22 21 0.60
23 9 0.26
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.46
Consensus pattern (23 bp):
TTTAGACTTGATCTAAAATTTGT
Found at i:42636919 original size:44 final size:44
Alignment explanation
Indices: 42636867--42636955 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
42636857 ACTTCAATGA
42636867 TTGTTTAGACTTGATCTAAAATTGGTTTTATAATGAGATAAGAT
1 TTGTTTAGACTTGATCTAAAATTGGTTTTATAATGAGATAAGAT
*
42636911 TTGTTTAGACTTGATCTAAAATTTGTTTTATAATGAGATAAGAT
1 TTGTTTAGACTTGATCTAAAATTGGTTTTATAATGAGATAAGAT
42636955 T
1 T
42636956 GAAGATACTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.17, T:0.45
Consensus pattern (44 bp):
TTGTTTAGACTTGATCTAAAATTGGTTTTATAATGAGATAAGAT
Found at i:42645666 original size:27 final size:27
Alignment explanation
Indices: 42645082--42645665 Score: 710
Period size: 27 Copynumber: 21.6 Consensus size: 27
42645072 AAAGTACTCC
42645082 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
42645109 C-AGTTTATAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
42645136 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
42645163 CGATTTATAGAATTACCGTTTTACTCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
42645190 CGATTTGTAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
42645217 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
***
42645244 C-AGTTTACAGAATTAATATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
42645271 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
42645298 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
42645325 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
42645352 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
42645379 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
42645406 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
42645433 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
42645460 CGATTTATAGAATTATCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
42645486 CTAATTTACATAATTACCATTTTACCCC
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
42645514 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
42645541 CGATTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
42645569 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
42645596 CGATTTATAGAATTATTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
42645623 TGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
42645650 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
42645666 TAAAATACCC
Statistics
Matches: 483, Mismatches: 63, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.01
27 448 0.93
28 30 0.06
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:42647006 original size:9 final size:9
Alignment explanation
Indices: 42646994--42647070 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
42646984 TTTGATAAAC
42646994 ATGATATGT
1 ATGATATGT
*
42647003 ATGATATGCAC
1 ATGATATG--T
42647014 ATGATATGT
1 ATGATATGT
*
42647023 ATGATATGCAC
1 ATGATATG--T
*
42647034 ATGACATGT
1 ATGATATGT
*
42647043 ATGATATGCAC
1 ATGATATG--T
42647054 ATGATATGT
1 ATGATATGT
42647063 ATGATATG
1 ATGATATG
42647071 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:42647019 original size:11 final size:11
Alignment explanation
Indices: 42647003--42647074 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
42646993 CATGATATGT
42647003 ATGATATGCAC
1 ATGATATGCAC
*
42647014 ATGATATG--T
1 ATGATATGCAC
42647023 ATGATATGCAC
1 ATGATATGCAC
* *
42647034 ATGACATG--T
1 ATGATATGCAC
42647043 ATGATATGCAC
1 ATGATATGCAC
*
42647054 ATGATATG--T
1 ATGATATGCAC
42647063 ATGATATGCAC
1 ATGATATGCAC
42647074 A
1 A
42647075 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:42647082 original size:20 final size:20
Alignment explanation
Indices: 42646992--42647074 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
42646982 ATTTTGATAA
42646992 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
42647012 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
42647032 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
42647052 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
42647072 ACA
1 ACA
42647075 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:42647156 original size:24 final size:24
Alignment explanation
Indices: 42647129--42647294 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
42647119 GAGGAAGTGA
42647129 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
42647153 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
42647177 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
42647201 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
42647224 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
42647248 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
42647272 AAAAGAGGC-TA-GCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
42647295 ATGATAAAGC
Statistics
Matches: 132, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
23 24 0.18
24 105 0.80
25 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:42647246 original size:71 final size:71
Alignment explanation
Indices: 42647129--42647294 Score: 246
Period size: 71 Copynumber: 2.3 Consensus size: 71
42647119 GAGGAAGTGA
*
42647129 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAGGGCTTA-GCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
42647194 AGTTATC
65 AGTTATC
* *
42647201 AAAAGGGCTTACGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCC
1 AAAAGGGCTTA-GCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCC
*
42647265 AGTTATT
65 AGTTATC
42647272 AAAAGAGGC-TAGCCTCCAGTTAT
1 AAAAG-GGCTTAGCC-CCAGTTAT
42647295 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
70 3 0.03
71 59 0.68
72 25 0.29
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTAGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:42647522 original size:31 final size:31
Alignment explanation
Indices: 42647487--42647550 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
42647477 CGTTTACCGT
*
42647487 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
42647518 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
42647549 AA
1 AA
42647551 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:42650707 original size:134 final size:135
Alignment explanation
Indices: 42650400--42650981 Score: 711
Period size: 134 Copynumber: 4.3 Consensus size: 135
42650390 AAAGTACTCC
* ** *
42650400 CGATTTACAGAATTACCGTTTTACCCTC-AGTTTATAGAATTACTGTTTTACCCTCGATTTGTAA
1 CGATTTACAGAATTACCGTTTTACCCTCGA-TTTATAAAATTACTGTTTTACCCTCGATTTACAG
* * * *
42650464 AATTACCGTTTTACCCTCGATTTATA-AATTAC--GTTTACCCTCGATTTGTAAAATTACCGTTT
65 AATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTT
42650526 TACCCT
130 TACCCT
** * * *
42650532 CGATTTGTAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCGATTTACAG
1 CGATTTACAGAATTACCGTTTTACCCTCGA-TTTATAAAATTACTGTTTTACCCTCGATTTACAG
* * * *
42650596 AATTACCGTTTAACCCTC-AGTTTACAGAATTA-TAGTTTTACCCTTGA-TTACAGAATTACGGT
65 AATTACCGTTTTACCCTCGA-TTTACAGAATTACTA-TTTTACCCTCGATTTATAGAATTACCGT
42650658 TTTACCCT
128 TTTACCCT
* * *
42650666 CGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGA
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACTGTTTTACCCTCGATTTACAGA
42650731 ATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTT
66 ATTACCGTTTTACCCTCGA-TTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTT
42650795 TACCC-
130 TACCCT
* * * * * *
42650800 CTAATTTACATAATTACC-ATTTACCCCCGATTTACATAATTA-TCGTTTTACCCTCGATTTACA
1 C-GATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACT-GTTTTACCCTCGATTTACA
* *
42650863 GAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAATAGAATTACT
64 GAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGA-TT-T-ATAGAATTACC
42650928 GTTTTACCCT
126 GTTTTACCCT
* * *
42650938 TGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACT
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACT
42650982 AAAATACCCT
Statistics
Matches: 390, Mismatches: 43, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
131 1 0.00
132 79 0.20
133 5 0.01
134 201 0.52
135 49 0.13
136 1 0.00
137 32 0.08
138 21 0.05
139 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (135 bp):
CGATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACTGTTTTACCCTCGATTTACAGA
ATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTT
ACCCT
Found at i:42650981 original size:27 final size:27
Alignment explanation
Indices: 42650400--42650980 Score: 687
Period size: 27 Copynumber: 21.6 Consensus size: 27
42650390 AAAGTACTCC
42650400 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
42650427 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
42650454 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
42650481 CGATTTATA-AATTA-CG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
42650505 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
42650532 CGATTTGTAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
42650559 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
42650586 CGATTTACAGAATTACCGTTTAACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
42650613 C-AGTTTACAGAATTATAGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
42650640 TGA-TTACAGAATTACGGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
42650666 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
42650693 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
42650720 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
42650747 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
42650774 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
42650800 CTAATTTACATAATTACC-ATTTACCCC
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
42650827 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
42650854 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
42650881 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
42650908 CGATTTATAATAGAATTACTGTTTTACCCT
1 CGA-TT-T-ACAGAATTACCGTTTTACCCT
* *
42650938 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
42650965 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
42650981 TAAAATACCC
Statistics
Matches: 484, Mismatches: 52, Indels: 36
0.85 0.09 0.06
Matches are distributed among these distances:
24 16 0.03
25 7 0.01
26 56 0.12
27 375 0.77
28 7 0.01
29 3 0.01
30 20 0.04
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:42650989 original size:27 final size:27
Alignment explanation
Indices: 42650932--42650991 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
42650922 ATTACTGTTT
* * ****
42650932 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
42650959 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
42650986 TACCCT
1 TACCCT
42650992 TGGTTTGTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:42652335 original size:20 final size:20
Alignment explanation
Indices: 42652305--42652387 Score: 141
Period size: 20 Copynumber: 4.2 Consensus size: 20
42652295 ATTTTGATAA
42652305 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
42652325 ACAT-ATAATGTATGATATGC
1 ACATGAT-ATGTATGATATGC
*
42652345 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
42652365 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
42652385 ACA
1 ACA
42652388 CGAGATGTTC
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
19 2 0.03
20 56 0.95
21 1 0.02
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:42652498 original size:24 final size:24
Alignment explanation
Indices: 42652442--42652630 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
42652432 GAGGAAGTGA
42652442 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
42652465 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
42652489 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
42652513 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
42652537 AAAAGGGCTT-CGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
42652559 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
42652583 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
42652607 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
42652631 ATGATAAAGC
Statistics
Matches: 151, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
22 9 0.06
23 44 0.29
24 87 0.58
25 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:42652511 original size:47 final size:47
Alignment explanation
Indices: 42652442--42652609 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
42652432 GAGGAAGTGA
42652442 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
42652489 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
* *
42652537 AAAAGGGCTT-CGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
42652583 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
42652610 AGAGGCTAGG
Statistics
Matches: 114, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
46 32 0.28
47 49 0.43
48 33 0.29
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:42652568 original size:94 final size:96
Alignment explanation
Indices: 42652442--42652630 Score: 303
Period size: 94 Copynumber: 2.0 Consensus size: 96
42652432 GAGGAAGTGA
* *
42652442 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
42652507 GTTATCAAAAG-GGCTTATGCC-CCAGTTATC
66 GTTATCAAAAGAGGC-TAGGCCTCCAGTTATC
*
42652537 AAAAGGGCTT-CGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
42652601 GTTATTAAAAGAGGCTAGGCCTCCAGTTAT
66 GTTATCAAAAGAGGCTAGGCCTCCAGTTAT
42652631 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
94 66 0.76
95 21 0.24
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (96 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATCAAAAGAGGCTAGGCCTCCAGTTATC
Found at i:42652858 original size:31 final size:31
Alignment explanation
Indices: 42652823--42652886 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
42652813 CGTTTACCGT
*
42652823 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
42652854 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
42652885 AA
1 AA
42652887 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:42653807 original size:14 final size:14
Alignment explanation
Indices: 42653756--42653807 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
42653746 AGTTTTTCTA
42653756 TTTTAAATCAAGAGT
1 TTTTAAATCAA-AGT
**
42653771 TTCAAAAT-AAAGT
1 TTTTAAATCAAAGT
42653784 GTTTTCAAATCAAAGT
1 -TTTT-AAATCAAAGT
42653800 TTTTAAAT
1 TTTTAAAT
42653808 TTCTATTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
13 3 0.10
14 8 0.27
15 14 0.47
16 5 0.17
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (14 bp):
TTTTAAATCAAAGT
Found at i:42656313 original size:27 final size:27
Alignment explanation
Indices: 42655730--42656312 Score: 735
Period size: 27 Copynumber: 21.6 Consensus size: 27
42655720 AAAGTACTCC
42655730 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
42655757 C-ACTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
42655784 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
42655811 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
42655838 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
42655865 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
42655892 CGATTTACACAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
42655919 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
42655946 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
42655973 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
42656000 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
42656027 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
42656054 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
42656081 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
42656108 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
42656134 CTAATTTACATAATTACCATTTTACCC-
1 C-GATTTACAGAATTACCGTTTTACCCT
* * *
42656161 CTGATTTACATAATTATCATTTTACCCT
1 C-GATTTACAGAATTACCGTTTTACCCT
*
42656189 CGATTTACAGAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
42656216 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
42656243 CGATTTATAGACTTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
42656270 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
42656297 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
42656313 TAAAATACCC
Statistics
Matches: 490, Mismatches: 58, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
26 4 0.01
27 482 0.98
28 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:42656321 original size:27 final size:27
Alignment explanation
Indices: 42656264--42656323 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
42656254 CTTACTGTTT
* * ****
42656264 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
42656291 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
42656318 TACCCT
1 TACCCT
42656324 TGGTTTCTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:42657653 original size:9 final size:9
Alignment explanation
Indices: 42657641--42657717 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
42657631 TTTGATAAAC
42657641 ATGATATGT
1 ATGATATGT
*
42657650 ATGATATGCAC
1 ATGATATG--T
42657661 ATGATATGT
1 ATGATATGT
*
42657670 ATGATATGCAC
1 ATGATATG--T
*
42657681 ATGACATGT
1 ATGATATGT
*
42657690 ATGATATGCAC
1 ATGATATG--T
42657701 ATGATATGT
1 ATGATATGT
42657710 ATGATATG
1 ATGATATG
42657718 CACACGAGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:42657666 original size:11 final size:11
Alignment explanation
Indices: 42657650--42657721 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
42657640 CATGATATGT
42657650 ATGATATGCAC
1 ATGATATGCAC
*
42657661 ATGATATG--T
1 ATGATATGCAC
42657670 ATGATATGCAC
1 ATGATATGCAC
* *
42657681 ATGACATG--T
1 ATGATATGCAC
42657690 ATGATATGCAC
1 ATGATATGCAC
*
42657701 ATGATATG--T
1 ATGATATGCAC
42657710 ATGATATGCAC
1 ATGATATGCAC
42657721 A
1 A
42657722 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:42657729 original size:20 final size:20
Alignment explanation
Indices: 42657639--42657721 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
42657629 ATTTTGATAA
42657639 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
42657659 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
42657679 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
42657699 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
42657719 ACA
1 ACA
42657722 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:42657832 original size:24 final size:24
Alignment explanation
Indices: 42657776--42657965 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
42657766 GAGGAAGTGA
42657776 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
42657799 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
42657823 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
42657847 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
42657871 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
42657894 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
42657918 AAAAGGGCTTTTGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
42657942 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
42657966 ATGATAAAGC
Statistics
Matches: 151, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
23 43 0.28
24 98 0.65
25 10 0.07
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:42657845 original size:47 final size:47
Alignment explanation
Indices: 42657776--42657944 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
42657766 GAGGAAGTGA
42657776 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
42657823 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
* *
42657871 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
* *
42657918 AAAAGGGCTTTTGCCCCAATTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
42657945 AGAGGCTAGG
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
47 69 0.61
48 45 0.39
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:42657899 original size:71 final size:71
Alignment explanation
Indices: 42657775--42657965 Score: 269
Period size: 71 Copynumber: 2.7 Consensus size: 71
42657765 GGAGGAAGTG
* *
42657775 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
42657840 AGTTAT
66 AGTTAT
* *
42657846 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT-TAAAGGGCTTATGCCC
1 AAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCC
42657910 CAGTTAT
65 CAGTTAT
* * *
42657917 AAAAAGGGCTTTTGCCCCAATTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTACGCC-CCAGTTAT
42657966 ATGATAAAGC
Statistics
Matches: 108, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
71 75 0.69
72 33 0.31
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (71 bp):
AAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:42658194 original size:31 final size:31
Alignment explanation
Indices: 42658159--42658222 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
42658149 CGTTTACTGT
*
42658159 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
42658190 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
42658221 AA
1 AA
42658223 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:42667508 original size:43 final size:44
Alignment explanation
Indices: 42667363--42667507 Score: 124
Period size: 43 Copynumber: 3.4 Consensus size: 44
42667353 TCTCGGACGT
* ** *
42667363 GGTCTTACATG-TAATTCAGTATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACATGATAATTCAATATCGATGCCGATGTCCCAGACAC
* * * * *
42667406 GGTCTTATACGA-AA-TCAGATAT-GATGCCGATGTTCCGGACAT
1 GGTCTTACATGATAATTCA-ATATCGATGCCGATGTCCCAGACAC
*
42667448 GGTCTTACA-CATAAATTTCAAT-TCGATGCC-ATGTCCCAGACAC
1 GGTCTTACATGAT-AA-TTCAATATCGATGCCGATGTCCCAGACAC
42667491 GGTCTTACATGATAATT
1 GGTCTTACATGATAATT
42667508 TAGATCAATA
Statistics
Matches: 80, Mismatches: 14, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
41 1 0.01
42 28 0.35
43 38 0.47
44 10 0.12
45 3 0.04
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
GGTCTTACATGATAATTCAATATCGATGCCGATGTCCCAGACAC
Found at i:42668888 original size:17 final size:17
Alignment explanation
Indices: 42668866--42668916 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
42668856 GCATATCTGA
*
42668866 ACTGTTATTGTTACTGC
1 ACTGTTACTGTTACTGC
*
42668883 ACTGTTACTGTTGCTGC
1 ACTGTTACTGTTACTGC
*
42668900 ATTGTTTACTGTTACTG
1 ACTG-TTACTGTTACTG
42668917 TAATGGGCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 18 0.62
18 11 0.38
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.47
Consensus pattern (17 bp):
ACTGTTACTGTTACTGC
Found at i:42670099 original size:20 final size:20
Alignment explanation
Indices: 42670058--42670099 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
42670048 AGCACATGTA
* *
42670058 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
42670078 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
42670098 TT
1 TT
42670100 TTATTTTAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:42681505 original size:56 final size:56
Alignment explanation
Indices: 42681414--42681627 Score: 286
Period size: 56 Copynumber: 3.8 Consensus size: 56
42681404 TCTTACATGT
** * * * * * *
42681414 AATCACATATCGATGCC-ACTGTCCTAGACAGGGTCTTACTCGGACACATAAATCAA
1 AATCACATATCGATGCCAAC-GTATTAAACATGGTCTTACTCGCACACATATACCAG
* *
42681470 AATCACATATCAATGCCAACGTATTAAACATGGTCTTACTCGCACACATATACCGG
1 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATACCAG
** *
42681526 AATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCACACACATATACCAG
1 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATACCAG
*
42681582 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCACACA
1 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACA
42681628 TCACATATCA
Statistics
Matches: 140, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
56 138 0.99
57 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATACCAG
Found at i:42687105 original size:7 final size:7
Alignment explanation
Indices: 42687095--42687125 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
42687085 AATGATGGAA
42687095 GATGAGG
1 GATGAGG
42687102 GATGAGG
1 GATGAGG
*
42687109 GATGATG
1 GATGAGG
42687116 GATGAGG
1 GATGAGG
42687123 GAT
1 GAT
42687126 CAAATGAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.52, T:0.19
Consensus pattern (7 bp):
GATGAGG
Found at i:42692075 original size:56 final size:56
Alignment explanation
Indices: 42692015--42692151 Score: 211
Period size: 56 Copynumber: 2.4 Consensus size: 56
42692005 TCCCAAATAG
* * *
42692015 GGTCTTACTCACACACATATATCGGAATCACATATCGATGCCAACATATTAAACGT
1 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACATATTAAACAT
* * * *
42692071 GGTCTTACTCGCATACATATGTCAAAATCACATATCGATGCCAACGTATTAAACAT
1 GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACATATTAAACAT
42692127 GGTCTTACTCGCACACATATATCGA
1 GGTCTTACTCGCACACATATATCGA
42692152 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 71 1.00
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAATCACATATCGATGCCAACATATTAAACAT
Found at i:42693776 original size:12 final size:12
Alignment explanation
Indices: 42693755--42693783 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
42693745 AGTATGAGCT
42693755 TCAT-TTGAAAA
1 TCATCTTGAAAA
42693766 TCATCTTGAAAA
1 TCATCTTGAAAA
42693778 TCATCT
1 TCATCT
42693784 AAATCAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (12 bp):
TCATCTTGAAAA
Found at i:42695090 original size:30 final size:30
Alignment explanation
Indices: 42695038--42695095 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
42695028 CACGGCCATG
* * *
42695038 ACACACGGGCGTGTGGTCTACCCTTGTGTC
1 ACACACGAGCATGTGGTCTACCCGTGTGTC
42695068 ACACACGAGCATGTGGAT-TACCCGTGTG
1 ACACACGAGCATGTGG-TCTACCCGTGTG
42695096 GAAGCGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.19, C:0.28, G:0.29, T:0.24
Consensus pattern (30 bp):
ACACACGAGCATGTGGTCTACCCGTGTGTC
Found at i:42713060 original size:56 final size:51
Alignment explanation
Indices: 42713000--42713131 Score: 138
Period size: 56 Copynumber: 2.5 Consensus size: 51
42712990 TCTCAGACAA
* *
42713000 GGTCTTACTCGCACACATATATCGGAATCATATATCAATGCCAACGAATTAAATGT
1 GGTCTTACTCGCACACATATATCGAAATCACATATCAATGCCAACG--TT---TGT
* * * * *
42713056 GGTCTTACCCTCACACATAAATCCAAATCACATATCGATGCCAACGTTTGT
1 GGTCTTACTCGCACACATATATCGAAATCACATATCAATGCCAACGTTTGT
* *
42713107 GCTCTTACTCGCATACATATATCGA
1 GGTCTTACTCGCACACATATATCGA
42713132 TGCCATGGTC
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
51 22 0.35
54 2 0.03
56 39 0.62
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.29
Consensus pattern (51 bp):
GGTCTTACTCGCACACATATATCGAAATCACATATCAATGCCAACGTTTGT
Found at i:42717812 original size:48 final size:48
Alignment explanation
Indices: 42717760--42717940 Score: 200
Period size: 48 Copynumber: 3.8 Consensus size: 48
42717750 GGGTTGATGA
* * **
42717760 GATCCCTTATAAGACCATATCTGGGATATGGCATCAGCATCGATATGT
1 GATCCCATATAAGACCATATCTGGGACATGGCATTGGCATCGATATGT
* * * * *
42717808 GATCCCATGTAAGACCATGTTTGGGACATGGAATTGGCATCGTTATGT
1 GATCCCATATAAGACCATATCTGGGACATGGCATTGGCATCGATATGT
* * * **
42717856 GATCCCATGTAATACCATGTCTGGGACATGGCATTGGCATCGATAAAT
1 GATCCCATATAAGACCATATCTGGGACATGGCATTGGCATCGATATGT
* * * *
42717904 GGTCCCATATAAGACCATATTTGGGATATGACATTGG
1 GATCCCATATAAGACCATATCTGGGACATGGCATTGG
42717941 GACTCTATTA
Statistics
Matches: 111, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 111 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (48 bp):
GATCCCATATAAGACCATATCTGGGACATGGCATTGGCATCGATATGT
Found at i:42720468 original size:19 final size:20
Alignment explanation
Indices: 42720444--42720481 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
42720434 GGTACCACCA
42720444 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
42720463 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
42720482 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:42722980 original size:80 final size:80
Alignment explanation
Indices: 42722896--42723044 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
42722886 TATGGTAACC
* * * *
42722896 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
42722960 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
42722976 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
42723041 CCGG
66 CCGG
42723045 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:42722986 original size:40 final size:38
Alignment explanation
Indices: 42722937--42723044 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
42722927 ATCACGATTT
*
42722937 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
42722977 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
42723017 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
42723045 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:42733158 original size:19 final size:20
Alignment explanation
Indices: 42733134--42733171 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
42733124 GGTACCACCA
42733134 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
42733153 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
42733172 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Done.