Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 217 of 235
Found at i:73749543 original size:112 final size:112
Alignment explanation
Indices: 73749221--73749564 Score: 467
Period size: 112 Copynumber: 3.1 Consensus size: 112
73749211 ATCACAATAC
* * * *
73749221 ATGAATGTATGTATGACCATGAGGTTAAAACCAATGGCAAGATCTAATATGAATAAATGAATATA
1 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGCAAGATCTAATATGACTGAATGAATATA
* * * ** * * *
73749286 TGTAAGACCATGAGGTTAAGACCTATGGCAA-GATCCGATATGACTGA-
66 TGTAAGACCATGTGGTTAAGACCCATGG-AATTATATGAAATG-TTTAT
* * *
73749333 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGAAAGATCTGATATGACTGAATGAATGTA
1 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGCAAGATCTAATATGACTGAATGAATATA
* *
73749398 TGTAAAACCATGTGGTTAAGACCCATGGCATTATATGAAATGTTTAT
66 TGTAAGACCATGTGGTTAAGACCCATGGAATTATATGAAATGTTTAT
* * *
73749445 ATGAATGTATGTAAGACCCTGAGGTTAAAACCCATGGCAAGATCTTATATGTCTGAATGAATATA
1 ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGCAAGATCTAATATGACTGAATGAATATA
*
73749510 TGTAAGACCATGTGGTTAAGACCCATGGAATTATATGAAATGTTTGT
66 TGTAAGACCATGTGGTTAAGACCCATGGAATTATATGAAATGTTTAT
73749557 ATGAATGT
1 ATGAATGT
73749565 TCATGGCGTA
Statistics
Matches: 205, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
111 3 0.01
112 202 0.99
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.29
Consensus pattern (112 bp):
ATGAATGTATGTAAGACCATGAGGTTAAAACCCATGGCAAGATCTAATATGACTGAATGAATATA
TGTAAGACCATGTGGTTAAGACCCATGGAATTATATGAAATGTTTAT
Found at i:73751930 original size:22 final size:22
Alignment explanation
Indices: 73751887--73751931 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
73751877 ATATTTTTGC
* ***
73751887 ATACTAATAAATTTTGTTATAT
1 ATACTAATAAAATTTAAAATAT
73751909 ATACTAATAAAATTTAAAATAT
1 ATACTAATAAAATTTAAAATAT
73751931 A
1 A
73751932 AAGGACCACC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (22 bp):
ATACTAATAAAATTTAAAATAT
Found at i:73758760 original size:20 final size:20
Alignment explanation
Indices: 73758737--73758789 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
73758727 AAGGTAATAC
73758737 AAAAAAAATGAGGAAGTACA
1 AAAAAAAATGAGGAAGTACA
* * *
73758757 AAAAAAAATTAGAAAGTACC
1 AAAAAAAATGAGGAAGTACA
*
73758777 AAAAAATATGAGG
1 AAAAAAAATGAGG
73758790 GAATATAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.64, C:0.06, G:0.17, T:0.13
Consensus pattern (20 bp):
AAAAAAAATGAGGAAGTACA
Found at i:73759257 original size:20 final size:20
Alignment explanation
Indices: 73759039--73759258 Score: 61
Period size: 20 Copynumber: 10.8 Consensus size: 20
73759029 AAAAATAGGT
* * *
73759039 ATACTAAAAAATATCAGGAA
1 ATACCAAAAATTATGAGGAA
* * * *
73759059 GTAACAAAAATTGTGAGGGA
1 ATACCAAAAATTATGAGGAA
** *
73759079 ATATAAAAAATTATGAGAAA
1 ATACCAAAAATTATGAGGAA
* ** **
73759099 ATACAAAAAAATATAAAAAAAA
1 ATAC-CAAAAAT-TATGAGGAA
* *
73759121 AGTGCCAAAAA-AATGAGGAA
1 A-TACCAAAAATTATGAGGAA
** *
73759141 CCACCAAAAATTTTGAGGAA
1 ATACCAAAAATTATGAGGAA
* * *
73759161 ATATCAAAAA-AAT-A-TAA
1 ATACCAAAAATTATGAGGAA
* *
73759178 GTACCAAAAAATTTTGAGGAA
1 ATACC-AAAAATTATGAGGAA
* * * *
73759199 GTATCAAAAATTATAAGGGA
1 ATACCAAAAATTATGAGGAA
* **
73759219 ATACAAAAAAAAACCATGAGGAA
1 ATAC---CAAAAATTATGAGGAA
73759242 ATACCAAAAATTATGAG
1 ATACCAAAAATTATGAG
73759259 ATAATACTAA
Statistics
Matches: 135, Mismatches: 54, Indels: 22
0.64 0.26 0.10
Matches are distributed among these distances:
17 5 0.04
18 6 0.04
19 9 0.07
20 73 0.54
21 13 0.10
22 12 0.09
23 17 0.13
ACGTcount: A:0.58, C:0.09, G:0.14, T:0.19
Consensus pattern (20 bp):
ATACCAAAAATTATGAGGAA
Found at i:73759596 original size:20 final size:20
Alignment explanation
Indices: 73759564--73759678 Score: 106
Period size: 20 Copynumber: 5.8 Consensus size: 20
73759554 AAGAAAGCAT
*
73759564 CAAAAACTATGAGGAAGTAC
1 CAAAAATTATGAGGAAGTAC
* *
73759584 CAAGATTTATGAGGAAGTAC
1 CAAAAATTATGAGGAAGTAC
* * * *
73759604 CAAAACTTACGAGGATGTAT
1 CAAAAATTATGAGGAAGTAC
*
73759624 CAAAAATTATGAGGAAATAC
1 CAAAAATTATGAGGAAGTAC
* * * **
73759644 CAAAAAATACGAAGAAAAAC
1 CAAAAATTATGAGGAAGTAC
73759664 C-AAAATTATGAGGAA
1 CAAAAATTATGAGGAA
73759679 TTTCCAAAAC
Statistics
Matches: 75, Mismatches: 20, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
19 11 0.15
20 64 0.85
ACGTcount: A:0.51, C:0.12, G:0.18, T:0.18
Consensus pattern (20 bp):
CAAAAATTATGAGGAAGTAC
Found at i:73759608 original size:40 final size:41
Alignment explanation
Indices: 73759564--73759691 Score: 113
Period size: 40 Copynumber: 3.2 Consensus size: 41
73759554 AAGAAAGCAT
* * * *
73759564 CAAAAAC-TATGAGGAAGTACCAAGATTTATGAGGAAGTAC
1 CAAAAACTTACGAGGAAGTACCAAAAATTATGAGGAAATAC
* *
73759604 C-AAAACTTACGAGGATGTATCAAAAATTATGAGGAAATAC
1 CAAAAACTTACGAGGAAGTACCAAAAATTATGAGGAAATAC
* * ** * *
73759644 CAAAAA-ATACGAAGAAAAACC-AAAATTATGAGGAATTTC
1 CAAAAACTTACGAGGAAGTACCAAAAATTATGAGGAAATAC
73759683 C-AAAACTTA
1 CAAAAACTTA
73759692 GATGTATAAA
Statistics
Matches: 70, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
38 4 0.06
39 24 0.34
40 38 0.54
41 4 0.06
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.20
Consensus pattern (41 bp):
CAAAAACTTACGAGGAAGTACCAAAAATTATGAGGAAATAC
Found at i:73759984 original size:20 final size:21
Alignment explanation
Indices: 73759917--73759985 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 21
73759907 AATAAGGATT
*
73759917 TACCAAAAATTA-TA-AGAATG
1 TACCAAAAATTATTAGAGAA-C
* *
73759937 TACCAAAATTTATGAG-GAAC
1 TACCAAAAATTATTAGAGAAC
*
73759957 TACAAAAAATTATTAGAGAA-
1 TACCAAAAATTATTAGAGAAC
73759977 TACCAAAAA
1 TACCAAAAA
73759986 ATAGGAAGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
20 32 0.82
21 7 0.18
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.23
Consensus pattern (21 bp):
TACCAAAAATTATTAGAGAAC
Found at i:73760327 original size:9 final size:9
Alignment explanation
Indices: 73760305--73760352 Score: 89
Period size: 9 Copynumber: 5.4 Consensus size: 9
73760295 TGGTTAAAAA
73760305 TTAACCGA-
1 TTAACCGAT
73760313 TTAACCGAT
1 TTAACCGAT
73760322 TTAACCGAT
1 TTAACCGAT
73760331 TTAACCGAT
1 TTAACCGAT
73760340 TTAACCGAT
1 TTAACCGAT
73760349 TTAA
1 TTAA
73760353 ATCACTACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
8 8 0.21
9 31 0.79
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.33
Consensus pattern (9 bp):
TTAACCGAT
Found at i:73760437 original size:20 final size:20
Alignment explanation
Indices: 73760375--73760438 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
73760365 TTAAAAAAAT
73760375 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
* ** * *
73760395 TATATAA---TTAAAAACAT
1 TACATAAGTCTTTGAATCAC
73760412 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
73760432 TACATAA
1 TACATAA
73760439 TTAAAAACAT
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
17 12 0.39
20 19 0.61
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (20 bp):
TACATAAGTCTTTGAATCAC
Found at i:73760454 original size:17 final size:17
Alignment explanation
Indices: 73760398--73760492 Score: 64
Period size: 17 Copynumber: 5.2 Consensus size: 17
73760388 GAATCACTAT
73760398 ATAATTAAAAACATTAC
1 ATAATTAAAAACATTAC
** * *
73760415 ATAAGTCTTTGAATCACTAC
1 ATAA---TTAAAAACATTAC
73760435 ATAATTAAAAACATTAC
1 ATAATTAAAAACATTAC
* * * *
73760452 ATAAGCCTTTAAATCACTAT
1 ATAA---TTAAAAACATTAC
73760472 ATAATTAAAAACATTAC
1 ATAATTAAAAACATTAC
73760489 ATAA
1 ATAA
73760493 GTCTTAAAAT
Statistics
Matches: 56, Mismatches: 16, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
17 30 0.54
20 26 0.46
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.32
Consensus pattern (17 bp):
ATAATTAAAAACATTAC
Found at i:73760501 original size:20 final size:19
Alignment explanation
Indices: 73760402--73760501 Score: 73
Period size: 20 Copynumber: 5.3 Consensus size: 19
73760392 CACTATATAA
73760402 TTAAAAACATTACATAAGTC
1 TTAAAAACATTACATAAG-C
** * *
73760422 TTTGAATCACTACATAA--
1 TTAAAAACATTACATAAGC
73760439 TTAAAAACATTACATAAGCC
1 TTAAAAACATTACATAAG-C
* * * *
73760459 TTTAAATCACTATATAA--
1 TTAAAAACATTACATAAGC
73760476 TTAAAAACATTACATAAGTC
1 TTAAAAACATTACATAAG-C
73760496 TTAAAA
1 TTAAAA
73760502 TTAACACATA
Statistics
Matches: 58, Mismatches: 16, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
17 26 0.45
20 32 0.55
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (19 bp):
TTAAAAACATTACATAAGC
Found at i:73760513 original size:37 final size:37
Alignment explanation
Indices: 73760348--73760519 Score: 247
Period size: 37 Copynumber: 4.6 Consensus size: 37
73760338 ATTTAACCGA
*
73760348 TTTAAATCACTACATAATTAAAAAAATTACATAAGTC
1 TTTAAATCACTACATAATTAAAAACATTACATAAGTC
* *
73760385 TTTGAATCACTATATAATTAAAAACATTACATAAGTC
1 TTTAAATCACTACATAATTAAAAACATTACATAAGTC
* *
73760422 TTTGAATCACTACATAATTAAAAACATTACATAAGCC
1 TTTAAATCACTACATAATTAAAAACATTACATAAGTC
*
73760459 TTTAAATCACTATATAATTAAAAACATTACATAAGTC
1 TTTAAATCACTACATAATTAAAAACATTACATAAGTC
* * *
73760496 TTAAAATTAAC-ACATAATTGAAAA
1 TTTAAA-TCACTACATAATTAAAAA
73760520 GTAAGTCTTT
Statistics
Matches: 122, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
37 119 0.98
38 3 0.02
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (37 bp):
TTTAAATCACTACATAATTAAAAACATTACATAAGTC
Found at i:73763754 original size:21 final size:21
Alignment explanation
Indices: 73763730--73763773 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
73763720 AATGTCCAAG
73763730 TTGAAAAG-TAAAATAAAAAGT
1 TTGAAAAGCT-AAATAAAAAGT
*
73763751 TTGAACAGCTAAATAAAAAGT
1 TTGAAAAGCTAAATAAAAAGT
73763772 TT
1 TT
73763774 CAATCTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.55, C:0.05, G:0.14, T:0.27
Consensus pattern (21 bp):
TTGAAAAGCTAAATAAAAAGT
Found at i:73764143 original size:13 final size:13
Alignment explanation
Indices: 73764125--73764149 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73764115 GTTGGTAAAT
73764125 GGTAATTGGGTTG
1 GGTAATTGGGTTG
73764138 GGTAATTGGGTT
1 GGTAATTGGGTT
73764150 TATTAATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (13 bp):
GGTAATTGGGTTG
Found at i:73770673 original size:60 final size:60
Alignment explanation
Indices: 73770595--73770707 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 60
73770585 ATTTTTGGTC
* * **
73770595 CAATTTGGTACCTAAACTTGACACTTTTTCTTAAGTTGGTATTTAATCTTTTTGGGAGTT
1 CAATTTGGTACCTAAACTTAACACTTTTTCCTAAGTTGGTACCTAATCTTTTTGGGAGTT
* * * *
73770655 CAATTTGGTACTTGAACTTAACTCTTTTTCCTAATTTGGTACCTAATCTTTTT
1 CAATTTGGTACCTAAACTTAACACTTTTTCCTAAGTTGGTACCTAATCTTTTT
73770708 TTTGTTCGAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (60 bp):
CAATTTGGTACCTAAACTTAACACTTTTTCCTAAGTTGGTACCTAATCTTTTTGGGAGTT
Found at i:73771211 original size:61 final size:62
Alignment explanation
Indices: 73771087--73771261 Score: 198
Period size: 62 Copynumber: 2.9 Consensus size: 62
73771077 TTGAACCTAA
* * * ** *
73771087 AAAAAAAGCTTAGGTGCC-AAGTA-GAAAAAAAATTTCAAGTTCAAGTACCAAATTGGGCCC
1 AAAAAAAGTTTAGGTACCAAATTAGGAAAAAAAAAGTCAAGTTCAAGTACCAAATTGAGCCC
*
73771147 AAAAAAAGTTTAGGTACCAAATTAGGAAAAAAAAAGTCAATTTCAAGTACCAAATTGAG-CC
1 AAAAAAAGTTTAGGTACCAAATTAGGAAAAAAAAAGTCAAGTTCAAGTACCAAATTGAGCCC
* * ** *
73771208 AAAAAAAGGTTTAGGTACTAATTTAGG--AAAAAGTGTCAAGTTCAAGTATCAAAT
1 AAAAAAA-GTTTAGGTACCAAATTAGGAAAAAAAAAGTCAAGTTCAAGTACCAAAT
73771262 GTTATATTAA
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
60 39 0.39
61 13 0.13
62 47 0.47
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (62 bp):
AAAAAAAGTTTAGGTACCAAATTAGGAAAAAAAAAGTCAAGTTCAAGTACCAAATTGAGCCC
Found at i:73771212 original size:33 final size:33
Alignment explanation
Indices: 73771112--73771215 Score: 85
Period size: 33 Copynumber: 3.2 Consensus size: 33
73771102 GCCAAGTAGA
* * *
73771112 AAAAAAATTTCAAGTTCAAGTACCAAATTGGGCCC
1 AAAAAAA-GTCAATTTCAAGTACCAAATTGAG-CC
* **
73771147 AAAAAAAG----TTT-AGGTACCAAATT-AGGAA
1 AAAAAAAGTCAATTTCAAGTACCAAATTGA-GCC
73771175 AAAAAAAGTCAATTTCAAGTACCAAATTGAGCC
1 AAAAAAAGTCAATTTCAAGTACCAAATTGAGCC
73771208 AAAAAAAG
1 AAAAAAAG
73771216 GTTTAGGTAC
Statistics
Matches: 53, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
28 8 0.15
29 12 0.23
30 2 0.04
32 3 0.06
33 20 0.38
34 1 0.02
35 7 0.13
ACGTcount: A:0.51, C:0.14, G:0.14, T:0.20
Consensus pattern (33 bp):
AAAAAAAGTCAATTTCAAGTACCAAATTGAGCC
Found at i:73771252 original size:60 final size:61
Alignment explanation
Indices: 73771087--73771261 Score: 196
Period size: 60 Copynumber: 2.9 Consensus size: 61
73771077 TTGAACCTAA
* * * * *
73771087 AAAAAAAGCTTAGGTGCC-AAGTA-GAAAAAAAATTTCAAGTTCAAGTACCAAATTGGGCCC
1 AAAAAAAGTTTAGGTACCAAATTAGGAAAAAAAA-GTCAAGTTCAAGTACCAAATTGAGCCC
*
73771147 AAAAAAAGTTTAGGTACCAAATTAGGAAAAAAAAAGTCAATTTCAAGTACCAAATTGAG-CC
1 AAAAAAAGTTTAGGTACCAAATTAGG-AAAAAAAAGTCAAGTTCAAGTACCAAATTGAGCCC
* * ** *
73771208 AAAAAAAGGTTTAGGTACTAATTTAGG-AAAAAGTGTCAAGTTCAAGTATCAAAT
1 AAAAAAA-GTTTAGGTACCAAATTAGGAAAAAAAAGTCAAGTTCAAGTACCAAAT
73771262 GTTATATTAA
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
60 39 0.39
61 13 0.13
62 39 0.39
63 8 0.08
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (61 bp):
AAAAAAAGTTTAGGTACCAAATTAGGAAAAAAAAGTCAAGTTCAAGTACCAAATTGAGCCC
Found at i:73771988 original size:12 final size:13
Alignment explanation
Indices: 73771956--73771980 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73771946 TAAAAGAGAT
73771956 ATTAATTAAAAAG
1 ATTAATTAAAAAG
73771969 ATTAATTAAAAA
1 ATTAATTAAAAA
73771981 ATATATTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAG
Found at i:73781270 original size:20 final size:20
Alignment explanation
Indices: 73781227--73781273 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
73781217 ATCTCTCTCA
73781227 CAAAAAAATTTTAAAAAAAT
1 CAAAAAAATTTTAAAAAAAT
* * *
73781247 -AAAATAATTTTTAAAAATT
1 CAAAAAAATTTTAAAAAAAT
73781266 CAAAAAAA
1 CAAAAAAA
73781274 AATTAAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (20 bp):
CAAAAAAATTTTAAAAAAAT
Found at i:73783331 original size:29 final size:29
Alignment explanation
Indices: 73783298--73783357 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
73783288 GTTTATCTAC
73783298 AAGATAA-TCATTAAATTAAATTTAATATT
1 AAGATAAGT-ATTAAATTAAATTTAATATT
73783327 AAGATAAGTATTAAATTAAATTTAATATT
1 AAGATAAGTATTAAATTAAATTTAATATT
73783356 AA
1 AA
73783358 AATATGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 29 0.97
30 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (29 bp):
AAGATAAGTATTAAATTAAATTTAATATT
Found at i:73785767 original size:20 final size:20
Alignment explanation
Indices: 73785742--73785781 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
73785732 CGTAAAATGA
*
73785742 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
73785762 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
73785782 AGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:73785771 original size:34 final size:35
Alignment explanation
Indices: 73785727--73785793 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
73785717 TAGTAAAATA
* *
73785727 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
*
73785761 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
73785794 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:73785895 original size:20 final size:20
Alignment explanation
Indices: 73785870--73785922 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 20
73785860 CGAAAAAGTT
73785870 ATTTTTACATATATT-AATGA
1 ATTTTTACATATATTAAAT-A
* *
73785890 ATTTTT--ATATTTTAAATT
1 ATTTTTACATATATTAAATA
73785908 ATTTTTACATATATT
1 ATTTTTACATATATT
73785923 GCAATGATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 12 0.44
19 3 0.11
20 12 0.44
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (20 bp):
ATTTTTACATATATTAAATA
Found at i:73787721 original size:9 final size:9
Alignment explanation
Indices: 73787687--73787736 Score: 59
Period size: 9 Copynumber: 5.6 Consensus size: 9
73787677 TTTGTTTAAG
73787687 TTATATATAA
1 TTAT-TATAA
*
73787697 ATATTAT-A
1 TTATTATAA
73787705 TGTA-TATAA
1 T-TATTATAA
73787714 TTATTATAA
1 TTATTATAA
73787723 TTATTATAA
1 TTATTATAA
73787732 TTATT
1 TTATT
73787737 TATTCAAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
8 6 0.17
9 26 0.74
10 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
TTATTATAA
Found at i:73788093 original size:19 final size:19
Alignment explanation
Indices: 73788051--73788093 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
73788041 TAAATAAAAT
*
73788051 AAAATGAAATAAAAGAAGG
1 AAAATGAAATAAAAGAAAG
*
73788070 CAAATGAAATAAAAGAAAG
1 AAAATGAAATAAAAGAAAG
73788089 AAAAT
1 AAAAT
73788094 AGGCAAGTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.70, C:0.02, G:0.16, T:0.12
Consensus pattern (19 bp):
AAAATGAAATAAAAGAAAG
Found at i:73788830 original size:3 final size:3
Alignment explanation
Indices: 73788810--73788859 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
73788800 GTGAGGTAAG
* *
73788810 TAT TAA TAT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
73788858 TA
1 TA
73788860 GTGGGAATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:73789029 original size:24 final size:27
Alignment explanation
Indices: 73788992--73789056 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
73788982 AATTGCGGAT
*
73788992 TAATTATTG-ATTGAAAG-GTG-GAAA
1 TAATGATTGAATTGAAAGTGTGAGAAA
73789016 -AATGATTGAATTGAAAGTGTGAGAAA
1 TAATGATTGAATTGAAAGTGTGAGAAA
**
73789042 TTGTGATTGAATTGA
1 TAATGATTGAATTGA
73789057 GATTATATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 7 0.21
24 8 0.24
25 3 0.09
26 4 0.12
27 12 0.35
ACGTcount: A:0.40, C:0.00, G:0.26, T:0.34
Consensus pattern (27 bp):
TAATGATTGAATTGAAAGTGTGAGAAA
Found at i:73789259 original size:37 final size:39
Alignment explanation
Indices: 73789200--73789295 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
73789190 CGGATAGATT
* * * *
73789200 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
73789237 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
73789276 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
73789296 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:73791691 original size:44 final size:44
Alignment explanation
Indices: 73791628--73791718 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
73791618 GTAGGTCAAA
* *
73791628 TAATATTAAAATAACCTACACTAATTAGAGTTTAAATGGGAAAC
1 TAATATTAAAATAACCTACAATAATCAGAGTTTAAATGGGAAAC
* *
73791672 TAATATTAAAATAACCTACAATAATCAGAGTTTAAGTGGTAAAC
1 TAATATTAAAATAACCTACAATAATCAGAGTTTAAATGGGAAAC
73791716 TAA
1 TAA
73791719 AAATAAAGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (44 bp):
TAATATTAAAATAACCTACAATAATCAGAGTTTAAATGGGAAAC
Found at i:73793954 original size:19 final size:20
Alignment explanation
Indices: 73793913--73793956 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
73793903 CCTTTCTTTA
*
73793913 TTTCTTTGTATTTTTTCTTC
1 TTTCTTTGTATTTTTTCTCC
73793933 TTTCTTTG-ATTTTGTT-TCC
1 TTTCTTTGTATTTT-TTCTCC
73793952 TTTCT
1 TTTCT
73793957 CTCTGTTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.05, C:0.16, G:0.07, T:0.73
Consensus pattern (20 bp):
TTTCTTTGTATTTTTTCTCC
Found at i:73794448 original size:52 final size:51
Alignment explanation
Indices: 73794368--73794477 Score: 150
Period size: 52 Copynumber: 2.1 Consensus size: 51
73794358 AATAGTATGT
* *
73794368 TTTTTTTAATCGCTTCTATCTGATAGGCGCAAATTAATTTTTTATATTAAAA
1 TTTTTTTAATCGCTTCTATCTGACAGGCGCAAATCAATTTTTTATATT-AAA
* * *
73794420 TTTTTTTAATTGCGTT-TATTTGACAGGCGCGAATCAATTTTTTATATTAAA
1 TTTTTTTAATCGC-TTCTATCTGACAGGCGCAAATCAATTTTTTATATTAAA
73794471 TTTTTTT
1 TTTTTTT
73794478 CGTTTAATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
51 10 0.19
52 40 0.77
53 2 0.04
ACGTcount: A:0.27, C:0.10, G:0.11, T:0.52
Consensus pattern (51 bp):
TTTTTTTAATCGCTTCTATCTGACAGGCGCAAATCAATTTTTTATATTAAA
Found at i:73794636 original size:15 final size:15
Alignment explanation
Indices: 73794616--73794655 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
73794606 AAAAAATCAA
*
73794616 ATAAAATTACATTTT
1 ATAAAATTACATTAT
73794631 ATAAAAATTACATTAT
1 AT-AAAATTACATTAT
73794647 ATAAAATTA
1 ATAAAATTA
73794656 TCAATATCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAAATTACATTAT
Found at i:73794998 original size:39 final size:39
Alignment explanation
Indices: 73794934--73795099 Score: 241
Period size: 39 Copynumber: 4.3 Consensus size: 39
73794924 GATATCCAAG
*
73794934 TTGATAT-AAAAAAATTAAATAAGTTAACAGCAACTATA
1 TTGATATAAAAAAAATTAAATGAGTTAACAGCAACTATA
* *
73794972 TTGATATAAAAAAAATTAAATGAGTTAACAACAACTATG
1 TTGATATAAAAAAAATTAAATGAGTTAACAGCAACTATA
*
73795011 TTGATATAAAAATAAA-TAAATGAGTTAACAGCAACTATG
1 TTGATATAAAAA-AAATTAAATGAGTTAACAGCAACTATA
* *
73795050 TTGATATAAAAAAAATTAAATGAGTTAATAGCAATTATA
1 TTGATATAAAAAAAATTAAATGAGTTAACAGCAACTATA
73795089 -TGAT-TAAAAAA
1 TTGATATAAAAAA
73795100 GCTAGTTATG
Statistics
Matches: 118, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
37 7 0.06
38 14 0.12
39 94 0.80
40 3 0.03
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.30
Consensus pattern (39 bp):
TTGATATAAAAAAAATTAAATGAGTTAACAGCAACTATA
Found at i:73795244 original size:60 final size:60
Alignment explanation
Indices: 73795180--73795298 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
73795170 ATACTAAATT
* * *
73795180 AAACACAATAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
73795240 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
73795299 TAAAAAACAA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:73795335 original size:60 final size:60
Alignment explanation
Indices: 73795194--73795336 Score: 146
Period size: 60 Copynumber: 2.4 Consensus size: 60
73795184 ACAATAATTT
* * * * * * ***
73795194 ATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTACAAACACAAAAATTT
1 ATAACATAATACTAAAATACTAACAAATTAATTTTAAAATAATTAAAAAAACAAAAAAAA
* *
73795254 ATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTATAAAAAACAAAAAAAA
1 ATAACATAATACTAAAATACTAACAAATTAATTTTAAAATAATTA-AAAAAACAAAAAAAA
*
73795315 AT-ACATGCATAC-AAAATACTAA
1 ATAACAT-AATACTAAAATACTAA
73795337 TCCAAAATGA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
60 56 0.79
61 15 0.21
ACGTcount: A:0.57, C:0.12, G:0.01, T:0.30
Consensus pattern (60 bp):
ATAACATAATACTAAAATACTAACAAATTAATTTTAAAATAATTAAAAAAACAAAAAAAA
Found at i:73795464 original size:50 final size:51
Alignment explanation
Indices: 73795389--73795499 Score: 161
Period size: 50 Copynumber: 2.2 Consensus size: 51
73795379 TATTAAACAA
* **
73795389 AAAAAAAATTTAATATAAAAAATTGATT-CGCCTGTGAGATAGGCGGGATT
1 AAAAAAAATTTAATATAAAAAATTGATTCCGCCTGTCAGATAGGCGCAATT
* *
73795439 AAAAAAATTTTAATATAAAAAATTGATTCGCGCCTGTCAGATATGCGCAATT
1 AAAAAAAATTTAATATAAAAAATTGATTC-CGCCTGTCAGATAGGCGCAATT
73795491 AAAAAAAAT
1 AAAAAAAAT
73795500 ACCATTTCGA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 27 0.51
52 26 0.49
ACGTcount: A:0.47, C:0.10, G:0.15, T:0.28
Consensus pattern (51 bp):
AAAAAAAATTTAATATAAAAAATTGATTCCGCCTGTCAGATAGGCGCAATT
Found at i:73798093 original size:112 final size:113
Alignment explanation
Indices: 73797965--73798177 Score: 367
Period size: 113 Copynumber: 1.9 Consensus size: 113
73797955 GAAAAAAAAA
73797965 TTTTGGGTGCTGGCCTGTCAATGGCCGGCA-CCCAGTACACAGTACAAAAATT-TTTTTATTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCCA-TACACAGTACAAAAATTATTTTTATTTTT
73798028 TTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATTTTAAAAAATTT
65 TTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATTTTAAAAAATTT
* **
73798077 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCCATACAGAGTACAAATTTTATTTTTATTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCCATACACAGTACAAAAATTATTTTTATTTTTT
*
73798142 TCGTGTCAGAATCAGATTTAAAAATACGAAAAAAAT
66 TCGTGTCAGAATCAGATATAAAAATACGAAAAAAAT
73798178 GTAATGTGTA
Statistics
Matches: 95, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
112 44 0.46
113 51 0.54
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (113 bp):
TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCCATACACAGTACAAAAATTATTTTTATTTTTT
TCGTGTCAGAATCAGATATAAAAATACGAAAAAAATTTTAAAAAATTT
Found at i:73798317 original size:111 final size:108
Alignment explanation
Indices: 73798177--73798462 Score: 421
Period size: 111 Copynumber: 2.6 Consensus size: 108
73798167 ACGAAAAAAA
*
73798177 TGTAATGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTAAAATTTTTTTC
1 TGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTT-AAATTTTTTTC
*
73798242 GTATTTTTATATCTGATTCTGACACGAAAAAAAATAAAAATTTTTT
65 ATATTTTTATATCTGATTCTGACACG-AAAAAAAT-AAAATTTTTT
*
73798288 TGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAATTTTTTTTTTTAAATTTTTT
1 TGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA---TTTTTTTTAAATTTTTT
*
73798353 TCATATTTTTATATCTGATTCTGACATGAAAAAAATAAAATTTTTT
63 TCATATTTTTATATCTGATTCTGACACGAAAAAAATAAAATTTTTT
* * * * *
73798399 TGTACTGTATATTGGGTGTCGGCCATTGATAGGCCATCACCCAAAATTTTTTTT-AATTTTTTTC
1 TGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAATTTTTTTTAAATTTTTTTC
73798463 TTTTTCGTAT
Statistics
Matches: 161, Mismatches: 10, Indels: 11
0.88 0.05 0.06
Matches are distributed among these distances:
108 10 0.06
109 8 0.05
111 89 0.55
112 11 0.07
113 35 0.22
114 8 0.05
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (108 bp):
TGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTAAATTTTTTTCA
TATTTTTATATCTGATTCTGACACGAAAAAAATAAAATTTTTT
Found at i:73798936 original size:17 final size:17
Alignment explanation
Indices: 73798911--73798953 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
73798901 GCCACGCGGC
73798911 ATATATAAAATTTAAAA
1 ATATATAAAATTTAAAA
* *
73798928 ATTTATAAAATTTTAAA
1 ATATATAAAATTTAAAA
73798945 ATATATAAA
1 ATATATAAA
73798954 TTAATTAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATATAAAATTTAAAA
Found at i:73798939 original size:9 final size:9
Alignment explanation
Indices: 73798914--73798953 Score: 57
Period size: 8 Copynumber: 4.7 Consensus size: 9
73798904 ACGCGGCATA
73798914 TATAAAATT
1 TATAAAATT
73798923 TA-AAAATT
1 TATAAAATT
73798931 TATAAAATT
1 TATAAAATT
*
73798940 T-TAAAATA
1 TATAAAATT
73798948 TATAAA
1 TATAAA
73798954 TTAATTAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 15 0.54
9 13 0.46
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
TATAAAATT
Found at i:73812172 original size:20 final size:20
Alignment explanation
Indices: 73812147--73812186 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
73812137 GACCTATCTT
73812147 TTGCTTCA-TCATTCTTGTTC
1 TTGCTTCAGTCA-TCTTGTTC
*
73812167 TTGCTTGAGTCATCTTGTTC
1 TTGCTTCAGTCATCTTGTTC
73812187 CTTCCTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.10, C:0.23, G:0.15, T:0.53
Consensus pattern (20 bp):
TTGCTTCAGTCATCTTGTTC
Found at i:73816047 original size:23 final size:22
Alignment explanation
Indices: 73816004--73816047 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
73815994 TTTCAAGTCA
73816004 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
73816027 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
73816048 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:73816279 original size:51 final size:52
Alignment explanation
Indices: 73816211--73816407 Score: 206
Period size: 51 Copynumber: 3.9 Consensus size: 52
73816201 ATTAATTATA
* * * * *
73816211 CCGGTTCACATAGTAGCCTACACATAGTACTACACATGTGGCCATCA-CTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCAGCTAT
* *
73816262 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCAGCTAT
* * * * * * *
73816313 CCGGTACGCATAGTAGTCTGCACATAGTACTACACATGCGACC-T-ATCTTT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCAGCTAT
* *
73816363 CTGGTACACGTAGTAGCCTGCACATAGCACTACACACGTGACCAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
73816408 AACTTTCAAT
Statistics
Matches: 119, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
50 42 0.35
51 75 0.63
52 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (52 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCAGCTAT
Found at i:73816398 original size:101 final size:101
Alignment explanation
Indices: 73816219--73816403 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 101
73816209 TACCGGTTCA
* *
73816219 CATAGTAGCCTACACATAGTACTACACATGTGGCCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCAT-ACTATCCGATACACGTAGTAGCCTGCA
*
73816284 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
65 CATAGCACTACACACGTGATCGAAGCTATCCGGTACG
* * * * *
73816321 CATAGTAGTCTGCACATAGTACTACACATGCGACC-TATCTTTCTGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATA-CTATCCGATACACGTAGTAGCCTGCA
73816385 CATAGCACTACACACGTGA
65 CATAGCACTACACACGTGA
73816404 CCATAACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 1 0.01
101 42 0.57
102 31 0.42
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACTATCCGATACACGTAGTAGCCTGCAC
ATAGCACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:73816426 original size:101 final size:101
Alignment explanation
Indices: 73816214--73816441 Score: 262
Period size: 101 Copynumber: 2.2 Consensus size: 101
73816204 AATTATACCG
* *
73816214 GTTCACATAGTAGCCTACACATAGTACTACACATGTGGCCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCAT-ACTATCCGATACACGTAGTAGC
* * * **
73816279 CTGCACATAGTACTACACACGTGATCGAAGCTATCCG
65 CTGCACATAGCACTACACACGTGATCCAAACTATCAA
* * * * * * *
73816316 GTACGCATAGTAGTCTGCACATAGTACTACACATGCGACC-TATCTTTCTGGTACACGTAGTAGC
1 GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATA-CTATCCGATACACGTAGTAGC
*
73816380 CTGCACATAGCACTACACACGTGA-CCATAACTTTCAA
65 CTGCACATAGCACTACACACGTGATCCA-AACTATCAA
* *
73816417 TTTCACATAGTGGCCTACACATAGT
1 GTTCACATAGTAGCCTACACATAGT
73816442 TCATGCCACA
Statistics
Matches: 103, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
100 3 0.03
101 66 0.64
102 34 0.33
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (101 bp):
GTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATACTATCCGATACACGTAGTAGCC
TGCACATAGCACTACACACGTGATCCAAACTATCAA
Found at i:73820491 original size:39 final size:39
Alignment explanation
Indices: 73820437--73820519 Score: 166
Period size: 39 Copynumber: 2.1 Consensus size: 39
73820427 AGGCATATAC
73820437 TAAAATCAAAGAAGAAAGAAGTTAGTAAACGTAAATTAA
1 TAAAATCAAAGAAGAAAGAAGTTAGTAAACGTAAATTAA
73820476 TAAAATCAAAGAAGAAAGAAGTTAGTAAACGTAAATTAA
1 TAAAATCAAAGAAGAAAGAAGTTAGTAAACGTAAATTAA
73820515 TAAAA
1 TAAAA
73820520 ATAGAATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.60, C:0.05, G:0.14, T:0.20
Consensus pattern (39 bp):
TAAAATCAAAGAAGAAAGAAGTTAGTAAACGTAAATTAA
Found at i:73829554 original size:28 final size:28
Alignment explanation
Indices: 73829523--73829576 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
73829513 CCTTTGTTAT
73829523 ATGTAAAGGACACAAATTCCTTAGCTAC
1 ATGTAAAGGACACAAATTCCTTAGCTAC
73829551 ATGTAAAGGACACAAATTCCTTAGCT
1 ATGTAAAGGACACAAATTCCTTAGCT
73829577 TAGATTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (28 bp):
ATGTAAAGGACACAAATTCCTTAGCTAC
Found at i:73836287 original size:29 final size:29
Alignment explanation
Indices: 73836245--73836304 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
73836235 AAACCCGATT
73836245 TAGCTACAATTAAATATCATACATATTCA
1 TAGCTACAATTAAATATCATACATATTCA
73836274 TAGCTACAATTAAATATCATACATATTCA
1 TAGCTACAATTAAATATCATACATATTCA
73836303 TA
1 TA
73836305 CACTTTCGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.35
Consensus pattern (29 bp):
TAGCTACAATTAAATATCATACATATTCA
Found at i:73838332 original size:13 final size:14
Alignment explanation
Indices: 73838314--73838345 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
73838304 TCTAAATCCT
73838314 TTGATTGAA-AATC
1 TTGATTGAAGAATC
73838327 TTGATTGAAGAATC
1 TTGATTGAAGAATC
73838341 TTGAT
1 TTGAT
73838346 AAATTTCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (14 bp):
TTGATTGAAGAATC
Found at i:73847315 original size:104 final size:105
Alignment explanation
Indices: 73847131--73847337 Score: 335
Period size: 104 Copynumber: 2.0 Consensus size: 105
73847121 TCACTCATCT
* * *
73847131 CCATAAACAATCTGAGGTGAAGGTGAGGATCCTCAGTTGGAATTCTATTGAATTGGCCCATTGTA
1 CCATAAACAATCGGAGGTGAAGGTGAGGATCCTCAGTTGGAATTCTACTGAATTGGCCCACTGTA
* * *
73847196 TGAAGCATCAGGAACATGACTGGGTTTAGCTTGAATTGGC
66 TGAAGCATCAAGAACATGACTGGCTTTAGCTCGAATTGGC
* *
73847236 CCATAAACAATCGGAGGTGAAGGTGA-GATCCTTAGTTGGTATTCTACTGAATTGGCCCACTGTA
1 CCATAAACAATCGGAGGTGAAGGTGAGGATCCTCAGTTGGAATTCTACTGAATTGGCCCACTGTA
73847300 TGAAGCATCAAGAACATGACTGGCTTTAGCTCGAATTG
66 TGAAGCATCAAGAACATGACTGGCTTTAGCTCGAATTG
73847338 TTGTGCCTCG
Statistics
Matches: 94, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
104 69 0.73
105 25 0.27
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (105 bp):
CCATAAACAATCGGAGGTGAAGGTGAGGATCCTCAGTTGGAATTCTACTGAATTGGCCCACTGTA
TGAAGCATCAAGAACATGACTGGCTTTAGCTCGAATTGGC
Found at i:73850773 original size:31 final size:32
Alignment explanation
Indices: 73850735--73850796 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
73850725 TTTTAAAGTA
73850735 TATTGG-AAAAAATATCAAGACTATTAGGGCC
1 TATTGGAAAAAAATATCAAGACTATTAGGGCC
*
73850766 TATTGGAAAAAAAATATGAAGACTATTAGGG
1 TATTGG-AAAAAAATATCAAGACTATTAGGG
73850797 ACTACTGGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 6 0.21
33 22 0.79
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.26
Consensus pattern (32 bp):
TATTGGAAAAAAATATCAAGACTATTAGGGCC
Found at i:73860808 original size:21 final size:19
Alignment explanation
Indices: 73860784--73860831 Score: 51
Period size: 23 Copynumber: 2.3 Consensus size: 19
73860774 TAAATCTCTC
73860784 ACATAATCAAGTATATATAGA
1 ACATAATCAAGTA-ATATA-A
*
73860805 ACATTATATCAAGTAGTATAA
1 ACA-TA-ATCAAGTAATATAA
73860826 ACATAA
1 ACATAA
73860832 GTCATTCAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
20 2 0.08
21 7 0.29
22 6 0.25
23 8 0.33
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.29
Consensus pattern (19 bp):
ACATAATCAAGTAATATAA
Found at i:73861055 original size:22 final size:22
Alignment explanation
Indices: 73861015--73861296 Score: 171
Period size: 22 Copynumber: 12.8 Consensus size: 22
73861005 ACACCACACT
* *
73861015 AGTAGGCGCTGAAGTGCAAATC
1 AGTAGGCACCGAAGTGCAAATC
* * *
73861037 AGTGGGCACCGTAGTGCAAAGC
1 AGTAGGCACCGAAGTGCAAATC
* **
73861059 AATAGGCACCGAAAAGCAAATC
1 AGTAGGCACCGAAGTGCAAATC
* * **
73861081 GGTAGGCACCAAAGTTTAGAAT-
1 AGTAGGCACCGAAGTGCA-AATC
* **
73861103 AGTAGGCACTGTAA-TGCAAAAA
1 AGTAGGCACCG-AAGTGCAAATC
*
73861125 AGTAGGCACCAAAGTGCAAATC
1 AGTAGGCACCGAAGTGCAAATC
* * *
73861147 AGTAGGCACTGTAGTGCAAAGC
1 AGTAGGCACCGAAGTGCAAATC
* * *
73861169 AATAGGCACCAAAGTGTAGAAT-
1 AGTAGGCACCGAAGTGCA-AATC
*
73861191 AGTAGGC-CCCATAGTGCAAAGT-
1 AGTAGGCACCGA-AGTGCAAA-TC
* * * *
73861213 ACTAGGCATCGATGTGCAAATT
1 AGTAGGCACCGAAGTGCAAATC
* *
73861235 AGTAGGCACCGAAATGTAAAGT-
1 AGTAGGCACCGAAGTGCAAA-TC
* *
73861257 AGTATGCACCAAAGTGCAAATC
1 AGTAGGCACCGAAGTGCAAATC
* *
73861279 AGTAGGCACTGAATTGCA
1 AGTAGGCACCGAAGTGCA
73861297 GAACAATATA
Statistics
Matches: 191, Mismatches: 58, Indels: 22
0.70 0.21 0.08
Matches are distributed among these distances:
21 11 0.06
22 170 0.89
23 10 0.05
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (22 bp):
AGTAGGCACCGAAGTGCAAATC
Found at i:73861209 original size:88 final size:88
Alignment explanation
Indices: 73861083--73861287 Score: 214
Period size: 88 Copynumber: 2.3 Consensus size: 88
73861073 AGCAAATCGG
* ** *
73861083 TAGGCACCAAAGTTTAGAATAGTAGGCACTGTAATGCAAAAAAGTAGGCACCAAAGTGCAAATCA
1 TAGGCACCAAAGTGTAGAATAGTAGGCACCATAATGCAAAAAACTAGGCACCAAAGTGCAAATCA
73861148 GTAGGCACTGTAGTGCAAAGCAA
66 GTAGGCACTGTAGTGCAAAGCAA
* * ** * * * *
73861171 TAGGCACCAAAGTGTAGAATAGTAGGCCCCATAGTGCAAAGTACTAGGCATCGATGTGCAAATTA
1 TAGGCACCAAAGTGTAGAATAGTAGGCACCATAATGCAAAAAACTAGGCACCAAAGTGCAAATCA
* * * * * *
73861236 GTAGGCACCGAAATGTAAAGTAG
66 GTAGGCACTGTAGTGCAAAGCAA
* *
73861259 TATGCACCAAAGTGCA-AATCAGTAGGCAC
1 TAGGCACCAAAGTGTAGAAT-AGTAGGCAC
73861288 TGAATTGCAG
Statistics
Matches: 95, Mismatches: 21, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
87 3 0.03
88 92 0.97
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (88 bp):
TAGGCACCAAAGTGTAGAATAGTAGGCACCATAATGCAAAAAACTAGGCACCAAAGTGCAAATCA
GTAGGCACTGTAGTGCAAAGCAA
Found at i:73862653 original size:30 final size:30
Alignment explanation
Indices: 73862619--73862781 Score: 120
Period size: 30 Copynumber: 5.3 Consensus size: 30
73862609 TAAAGTTAAT
73862619 TACATAATATAAATAGTAATATACATAACA
1 TACATAATATAAATAGTAATATACATAACA
*
73862649 TACATGATATAAACT-GTAATATACATAACA
1 TACATAATATAAA-TAGTAATATACATAACA
* * * *
73862679 TACATGATATAAACAATAAAATACAT-ACA
1 TACATAATATAAATAGTAATATACATAACA
* * *
73862708 TGACATCCATACATAATA-TAA-AGAACAATATACA
1 T-ACAT-AATATA-AATAGTAATA-TAC-ATA-ACA
* * *
73862742 TAACAT-ATATAAACAGTAATGTACCTAACA
1 T-ACATAATATAAATAGTAATATACATAACA
73862772 TACATAATAT
1 TACATAATAT
73862782 CCATACTATT
Statistics
Matches: 107, Mismatches: 14, Indels: 24
0.74 0.10 0.17
Matches are distributed among these distances:
29 8 0.07
30 62 0.58
31 15 0.14
32 14 0.13
34 8 0.07
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (30 bp):
TACATAATATAAATAGTAATATACATAACA
Found at i:73862799 original size:25 final size:25
Alignment explanation
Indices: 73862771--73862819 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
73862761 TGTACCTAAC
** *
73862771 ATACATAATATCCATACTATTATAA
1 ATACATAATAGACATACTAATATAA
73862796 ATACATAATAGACATACTAATATA
1 ATACATAATAGACATACTAATATA
73862820 TCAATTGATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (25 bp):
ATACATAATAGACATACTAATATAA
Found at i:73869824 original size:18 final size:18
Alignment explanation
Indices: 73869801--73869838 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
73869791 TAATCGATTG
73869801 AACCAAACAACTTCAGTT
1 AACCAAACAACTTCAGTT
*
73869819 AACCAAACAACTTTAGTT
1 AACCAAACAACTTCAGTT
73869837 AA
1 AA
73869839 TCGGTCGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.24, G:0.05, T:0.24
Consensus pattern (18 bp):
AACCAAACAACTTCAGTT
Found at i:73870086 original size:14 final size:14
Alignment explanation
Indices: 73870067--73870101 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
73870057 AAAAATCTGC
*
73870067 AACCCATTAACCCT
1 AACCCAATAACCCT
*
73870081 AACCCAATAACCTT
1 AACCCAATAACCCT
73870095 AACCCAA
1 AACCCAA
73870102 CTCAAAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (14 bp):
AACCCAATAACCCT
Found at i:73871480 original size:13 final size:13
Alignment explanation
Indices: 73871462--73871486 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73871452 TAAGATAAAT
73871462 TTGCTTGTGTTTG
1 TTGCTTGTGTTTG
73871475 TTGCTTGTGTTT
1 TTGCTTGTGTTT
73871487 TAGATCCTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.28, T:0.64
Consensus pattern (13 bp):
TTGCTTGTGTTTG
Found at i:73872240 original size:19 final size:20
Alignment explanation
Indices: 73872207--73872249 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
73872197 AAAGACTTAA
73872207 AATTTCAGTTAATTTTGGAT
1 AATTTCAGTTAATTTTGGAT
* *
73872227 AATTT-AGTTGATTTTGGTT
1 AATTTCAGTTAATTTTGGAT
73872246 AATT
1 AATT
73872250 CGGTTAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.28, C:0.02, G:0.16, T:0.53
Consensus pattern (20 bp):
AATTTCAGTTAATTTTGGAT
Found at i:73872655 original size:4 final size:4
Alignment explanation
Indices: 73872646--73872675 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
73872636 TAAAAATTGC
73872646 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
73872676 AACAGCGGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:73879184 original size:79 final size:81
Alignment explanation
Indices: 73879075--73879257 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
73879065 TACTCGTTCA
* *
73879075 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
73879138 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* * **
73879155 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACTAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
73879218 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
73879234 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
73879258 CATCATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:73879190 original size:39 final size:40
Alignment explanation
Indices: 73879073--73879257 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
73879063 GCTACTCGTT
*
73879073 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
73879113 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
73879153 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
73879192 CTAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
73879233 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
73879258 CATCATTCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:73885400 original size:22 final size:22
Alignment explanation
Indices: 73885372--73885429 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
73885362 GAGAGACAGC
73885372 TTCAGTGTTGCGACACCATGGG
1 TTCAGTGTTGCGACACCATGGG
*
73885394 TTCAGTGTTGCGACACCATTGG
1 TTCAGTGTTGCGACACCATGGG
*
73885416 TTTAGTGTTGCGAC
1 TTCAGTGTTGCGAC
73885430 CTGGAGGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (22 bp):
TTCAGTGTTGCGACACCATGGG
Found at i:73886538 original size:12 final size:13
Alignment explanation
Indices: 73886513--73886546 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
73886503 AAATCTAACT
73886513 TTTTTAAAATATA
1 TTTTTAAAATATA
73886526 TTTTTCAAAATAT-
1 TTTTT-AAAATATA
73886539 TTTTTAAA
1 TTTTTAAA
73886547 GGAAACGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.15
13 10 0.50
14 7 0.35
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTAAAATATA
Found at i:73889221 original size:41 final size:40
Alignment explanation
Indices: 73889129--73889264 Score: 132
Period size: 41 Copynumber: 3.4 Consensus size: 40
73889119 AAGCTAAATT
* *
73889129 CATTAGCGGCGCTTAGACAAAAGCGCCAC-TAAAGCCCGAG
1 CATTAGCGGCGCATAGACAAAA-CGCCACTTAAGGCCCGAG
* *
73889169 CAATAGTGGCGCATAGACATAAACGCCACTTAAGGCCCGAG
1 CATTAGCGGCGCATAGACA-AAACGCCACTTAAGGCCCGAG
* * * * *
73889210 CATTAGCGGCGCTTA-ACTAAAAACGCCGCTAAAGGTCCGAC
1 CATTAGCGGCGCATAGAC--AAAACGCCACTTAAGGCCCGAG
*
73889251 CATTAGCGTCGCAT
1 CATTAGCGGCGCAT
73889265 CCGTAAAAAC
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
40 24 0.30
41 54 0.68
42 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.24, T:0.16
Consensus pattern (40 bp):
CATTAGCGGCGCATAGACAAAACGCCACTTAAGGCCCGAG
Found at i:73889376 original size:40 final size:40
Alignment explanation
Indices: 73889329--73889424 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
73889319 GATTCCTATT
* * * * *
73889329 TTTAGCGGCGGTTTTGGAAATACGCCGCTGATGTTCGATC
1 TTTAGCGGCGCTTTTGCAAAAACGCCGCTAATGCTCGATC
*
73889369 TTTAGCGGCGCTTTTGCAAAAACGCCGCTAATGCTCGATT
1 TTTAGCGGCGCTTTTGCAAAAACGCCGCTAATGCTCGATC
*
73889409 TTTAGTGGCGCTTTTG
1 TTTAGCGGCGCTTTTG
73889425 TTCCAAACGC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.18, C:0.21, G:0.27, T:0.34
Consensus pattern (40 bp):
TTTAGCGGCGCTTTTGCAAAAACGCCGCTAATGCTCGATC
Found at i:73889877 original size:88 final size:88
Alignment explanation
Indices: 73889728--73889901 Score: 276
Period size: 88 Copynumber: 2.0 Consensus size: 88
73889718 GGGAATTAAC
* * * *
73889728 TGAGTCGAATTTATGCTTAAAAGCTGGAAGATTTCTAGCCTTTGACTTGTGTACTGCCAAATCAA
1 TGAGTCGAATCTATGCTTAAAAGCTGGAAGACTTCTAGCCTTCGACTTGTGCACTGCCAAATCAA
* *
73889793 TACTAACTCGGGTCTAATTTTTA
66 AACTAACCCGGGTCTAATTTTTA
*
73889816 TGAGTCGAATCTATGCTTAGAAGCTGGAAGACTTCTAGCCTTCGACTTGTGCACTGCCAAATCAA
1 TGAGTCGAATCTATGCTTAAAAGCTGGAAGACTTCTAGCCTTCGACTTGTGCACTGCCAAATCAA
*
73889881 AACTAACCCGGGTCTGATTTT
66 AACTAACCCGGGTCTAATTTT
73889902 CACGAATACA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 78 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (88 bp):
TGAGTCGAATCTATGCTTAAAAGCTGGAAGACTTCTAGCCTTCGACTTGTGCACTGCCAAATCAA
AACTAACCCGGGTCTAATTTTTA
Found at i:73891596 original size:24 final size:24
Alignment explanation
Indices: 73891568--73891619 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
73891558 TTAGTAAGTC
* *
73891568 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
73891592 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
73891616 AAAT
1 AAAT
73891620 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:73896750 original size:18 final size:18
Alignment explanation
Indices: 73896704--73896750 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 18
73896694 TACATTTCTC
73896704 TATATATCTTTTTAATTTT
1 TATATA-CTTTTTAATTTT
73896723 TCATA-A-TTTTTAATTTT
1 T-ATATACTTTTTAATTTT
73896740 TATATACTTTT
1 TATATACTTTT
73896751 GACTTCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 3 0.12
17 13 0.52
18 4 0.16
19 2 0.08
20 3 0.12
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (18 bp):
TATATACTTTTTAATTTT
Found at i:73899470 original size:45 final size:45
Alignment explanation
Indices: 73899383--73899483 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 45
73899373 ATCTGTATTA
* * * * * * *
73899383 TTTTGTTGTGTACCCACAGCCCTAGGTAGATTCTATCTGCGGTGT
1 TTTTGTTGTGTACCCACAACCATAAGCAAATTCCATCCGCGGTGT
*
73899428 TTTTGTTGTGTACTCACAACCATAAGCAAATTCCATCCGCGGTGT
1 TTTTGTTGTGTACCCACAACCATAAGCAAATTCCATCCGCGGTGT
*
73899473 TTTTGCTGTGT
1 TTTTGTTGTGT
73899484 GTCCACAGCC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (45 bp):
TTTTGTTGTGTACCCACAACCATAAGCAAATTCCATCCGCGGTGT
Found at i:73900998 original size:27 final size:27
Alignment explanation
Indices: 73900981--73901187 Score: 207
Period size: 27 Copynumber: 7.6 Consensus size: 27
73900971 ATATTAAGTC
73900981 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
73901008 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
73901036 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
73901063 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
73901091 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
73901118 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
73901146 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
73901173 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
73901188 GCACAATTTA
Statistics
Matches: 171, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
27 92 0.54
28 79 0.46
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:73901065 original size:55 final size:55
Alignment explanation
Indices: 73900981--73901187 Score: 360
Period size: 55 Copynumber: 3.8 Consensus size: 55
73900971 ATATTAAGTC
* * * *
73900981 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
73901036 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
73901091 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
73901146 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
73901188 GCACAATTTA
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 147 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:73905610 original size:23 final size:23
Alignment explanation
Indices: 73905565--73905616 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
73905555 ATTGACTACA
* *
73905565 TTTTTTTACTTTAATCATTGAAT
1 TTTTTTTACATTAATCATCGAAT
*
73905588 GTTTTTTTACATTAGTC-TCGAAT
1 -TTTTTTTACATTAATCATCGAAT
73905611 TTTTTT
1 TTTTTT
73905617 CAATTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.24
23 5 0.20
24 14 0.56
ACGTcount: A:0.21, C:0.10, G:0.08, T:0.62
Consensus pattern (23 bp):
TTTTTTTACATTAATCATCGAAT
Found at i:73905720 original size:11 final size:10
Alignment explanation
Indices: 73905679--73905717 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
73905669 AAAATGTTAT
73905679 AATTTGTTTAA
1 AATTT-TTTAA
73905690 AATTTTTTAA
1 AATTTTTTAA
73905700 AATTTTTTAA
1 AATTTTTTAA
73905710 AATTTTTT
1 AATTTTTT
73905718 TAAGTTCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 23 0.82
11 5 0.18
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:73918396 original size:14 final size:16
Alignment explanation
Indices: 73918377--73918409 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
73918367 TTTTTATTAA
73918377 TTTATC-CA-TTTATT
1 TTTATCGCATTTTATT
73918391 TTTATCGCATTTTATT
1 TTTATCGCATTTTATT
73918407 TTT
1 TTT
73918410 GTTTTTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 2 0.12
16 9 0.53
ACGTcount: A:0.18, C:0.12, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTATCGCATTTTATT
Found at i:73922450 original size:15 final size:15
Alignment explanation
Indices: 73922425--73922466 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
73922415 CCTCTTTGTC
*
73922425 CTTATTTTTTTATTT
1 CTTAATTTTTTATTT
**
73922440 CTTTGTTTTTTA-TT
1 CTTAATTTTTTATTT
73922454 CTTAATTTTTTAT
1 CTTAATTTTTTAT
73922467 CATTTATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.76
Consensus pattern (15 bp):
CTTAATTTTTTATTT
Found at i:73932943 original size:2 final size:2
Alignment explanation
Indices: 73932936--73932974 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
73932926 CTTTTTAGCA
* *
73932936 AG AG AG AG AG AG AG AG AG AG AA AG AG AT AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
73932975 ATGAGTACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.44, T:0.03
Consensus pattern (2 bp):
AG
Found at i:73941603 original size:48 final size:48
Alignment explanation
Indices: 73941510--73941605 Score: 111
Period size: 48 Copynumber: 2.0 Consensus size: 48
73941500 ATCAGCAATT
* ** *
73941510 ATACATAACATATGACACATACAAAGTCATATTTGCTTCCCCTTTTCA
1 ATACATAACATATAACACATACAAAGTCATATTAACTTACCCTTTTCA
* * ** *
73941558 ATACATAACATATAACATATTCGGAGTCATATTAACTTACTCTTTTCA
1 ATACATAACATATAACACATACAAAGTCATATTAACTTACCCTTTTCA
73941606 TATCCTTCCT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.35
Consensus pattern (48 bp):
ATACATAACATATAACACATACAAAGTCATATTAACTTACCCTTTTCA
Found at i:73941915 original size:49 final size:49
Alignment explanation
Indices: 73941853--73941978 Score: 162
Period size: 49 Copynumber: 2.6 Consensus size: 49
73941843 GGCCCACCAG
* * *
73941853 CCTGGTTAACAACTAACATGTCTTACCAGTGGCCCATCATACACGCCTA
1 CCTGGTTAGCAACTAACATGCCTTACCAGTGGCCCATCATACACGCCCA
* * * * * *
73941902 TCTGGTTAGCAACTAATATGCCCTACCAGTGGCCTATCATATACTCCCA
1 CCTGGTTAGCAACTAACATGCCTTACCAGTGGCCCATCATACACGCCCA
*
73941951 CCTGGTTAGCAACTAGCATGCCTTACCA
1 CCTGGTTAGCAACTAACATGCCTTACCA
73941979 ATGGTCAAGC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 64 1.00
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (49 bp):
CCTGGTTAGCAACTAACATGCCTTACCAGTGGCCCATCATACACGCCCA
Found at i:73948815 original size:51 final size:51
Alignment explanation
Indices: 73948751--73948936 Score: 250
Period size: 51 Copynumber: 3.6 Consensus size: 51
73948741 AAAGTGATGG
*
73948751 TCACTTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
73948802 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
** * * * * * *
73948853 TCACGTGTACAGTACTATATGCAGGCTACTAAGTGTATCAGATAG-TGAT-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT--TCGA
*
73948904 TCACATGTGTAGTACTATGTGCAGGCTACTATG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATG
73948937 TGAACCAGTA
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
50 1 0.01
51 117 0.98
52 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:73952442 original size:16 final size:16
Alignment explanation
Indices: 73952421--73952452 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
73952411 TGATTGAAAG
*
73952421 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
73952437 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
73952453 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:73955777 original size:23 final size:23
Alignment explanation
Indices: 73955751--73955816 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
73955741 AAATTTTTAT
*
73955751 AGAATACACCATACAGGCTTGAA
1 AGAATACACCACACAGGCTTGAA
* * * *
73955774 AGAATATACCACACAGGTTTTAC
1 AGAATACACCACACAGGCTTGAA
73955797 AGAATATC-CCACACAGGCTT
1 AGAATA-CACCACACAGGCTT
73955817 CTCCCGTAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.21
Consensus pattern (23 bp):
AGAATACACCACACAGGCTTGAA
Found at i:73964007 original size:36 final size:36
Alignment explanation
Indices: 73963960--73964034 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
73963950 CATAATGCTA
73963960 AATTATGCATAAAAA-AGCTTATTTTGCTAATTATTG
1 AATTATGCATAAAAATA-CTTATTTTGCTAATTATTG
73963996 AATTATGCATAAAAATACTTATTTTGCTAATTATTG
1 AATTATGCATAAAAATACTTATTTTGCTAATTATTG
73964032 AAT
1 AAT
73964035 CTAAATTACT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 37 0.97
37 1 0.03
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (36 bp):
AATTATGCATAAAAATACTTATTTTGCTAATTATTG
Found at i:73968383 original size:11 final size:11
Alignment explanation
Indices: 73968359--73968410 Score: 70
Period size: 11 Copynumber: 4.6 Consensus size: 11
73968349 TAAATGACAC
73968359 TAACA-AAATAT
1 TAACATAAAT-T
*
73968370 TAACAGAAATT
1 TAACATAAATT
73968381 TAACATAAATT
1 TAACATAAATT
73968392 TAACATAAATT
1 TAACATAAATT
73968403 TAAACATA
1 T-AACATA
73968411 TAATAGTTGC
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
11 28 0.74
12 10 0.26
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.31
Consensus pattern (11 bp):
TAACATAAATT
Found at i:73977477 original size:29 final size:30
Alignment explanation
Indices: 73977420--73977494 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 30
73977410 TCCTTACAAA
*
73977420 TAGATAGCCACAAAGGCAGCCACATAACAT
1 TAGATAGCCACAAAGGCAGCCACACAACAT
*
73977450 TAGATAGCCAC-AAGGC-TCTCACACAACAT
1 TAGATAGCCACAAAGGCAGC-CACACAACAT
* *
73977479 TAGATATCCATAAAGG
1 TAGATAGCCACAAAGG
73977495 TGCCTACATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 1 0.03
29 23 0.59
30 15 0.38
ACGTcount: A:0.41, C:0.25, G:0.16, T:0.17
Consensus pattern (30 bp):
TAGATAGCCACAAAGGCAGCCACACAACAT
Found at i:73978842 original size:24 final size:23
Alignment explanation
Indices: 73978798--73978843 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
73978788 AAAGCTGCAT
*
73978798 TAATGCTCTCGAATCGATCAAAG
1 TAATGCTCTCGAAACGATCAAAG
*
73978821 TAATGCTACTCGAAACGGTCAAA
1 TAATGCT-CTCGAAACGATCAAA
73978844 CTACGCTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (23 bp):
TAATGCTCTCGAAACGATCAAAG
Found at i:73978870 original size:324 final size:324
Alignment explanation
Indices: 73978266--73979237 Score: 1615
Period size: 324 Copynumber: 3.0 Consensus size: 324
73978256 CTTAACTCAT
73978266 TTCTTTTTAACTTTGAACATCATAATCACATAGCAGAACCTTGTCATAATTGCTTCAATAAGCTC
1 TTCTTTTTAACTTTGAACATCATAATCACATAGCAGAACCTTGTCATAATTGCTTCAATAAGCTC
73978331 AACGTAA-TTGCTCTTAGGCAGCATCTCATGCAAGGCTACAAATCTTACCTTTCCAAGGGTATTT
66 AACGTAACTT-CTCTTAGGCAGCATCTCATGCAAGGCTACAAATCTTACCTTTCCAAGGGTATTT
* *
73978395 CAAAGTTGA-CCTCTCATTCCCGGCTCATAATCGGGTGGAGAGATATGGAGATGCTGATGAATCT
130 CAAATTTGATCCTCTCATTCTCGGCTCATAATCGGGTGGAGAGATATGGAGATGCTGATGAATCT
73978459 GATGCAAAGCTGCGTTAATGCTATCGAATCGATCAAAGCAGCGCTGCTCGAAACGGTCAAACTGT
195 GATGCAAAGCTGCGTTAATGCTATCGAATCGATCAAAGCAGCGCTGCTCGAAACGGTCAAACTGT
*
73978524 GCTGTAAGGTTCTCGAGTGTAATAGTAGGAGCAGCGGTAAGGTAACTCGGTAGTGGAAAATGAGG
260 GCTGTAAGGTTCTCGAGTGTAATAGTAGGAGCAGCGGTAAGGTGACTCGGTAGTGGAAAATGAGG
* *
73978589 TTCTTTTTAACTTTGAGCATCATAATCACATAGCAGAACGTTGTCATAATTGCTTCAATAAGCTC
1 TTCTTTTTAACTTTGAACATCATAATCACATAGCAGAACCTTGTCATAATTGCTTCAATAAGCTC
*
73978654 AACGTAACTTCTCTTAGGCAGCATCTCATGCAAGGCTACAAATCTTATCTTTCCAAGGGTATTTC
66 AACGTAACTTCTCTTAGGCAGCATCTCATGCAAGGCTACAAATCTTACCTTTCCAAGGGTATTTC
* * *
73978719 AAATTTGATCCTCTCATTCTCGGCTCATAATCGGGTGAAGAGATACGGAGATGCTGATGAATCTA
131 AAATTTGATCCTCTCATTCTCGGCTCATAATCGGGTGGAGAGATATGGAGATGCTGATGAATCTG
* * * ** * **
73978784 ATGCAAAGCTGCATTAATGCTCTCGAATCGATCAAAGTAATGCTACTCGAAACGGTCAAACTACG
196 ATGCAAAGCTGCGTTAATGCTATCGAATCGATCAAAGCAGCGCTGCTCGAAACGGTCAAACTGTG
* *
73978849 CTGTAAGGTTCTCGAGTGTAATAGTAGGAGTAGCGGTAAGATGACTCGGTAGTGGAAAATGAGG
261 CTGTAAGGTTCTCGAGTGTAATAGTAGGAGCAGCGGTAAGGTGACTCGGTAGTGGAAAATGAGG
* * *
73978913 TTCTTTTTAACTTTGAACATCATAATCATATAGCAAAACCTTGTCATAATTTCTTCAATAAGCTC
1 TTCTTTTTAACTTTGAACATCATAATCACATAGCAGAACCTTGTCATAATTGCTTCAATAAGCTC
*
73978978 AACGTAACTGCTCTTAGGCAGCATCTCATGCAAGGCTACAAATCTTACCTTTCCAAGGGTATTTC
66 AACGTAACTTCTCTTAGGCAGCATCTCATGCAAGGCTACAAATCTTACCTTTCCAAGGGTATTTC
73979043 AAATTTGATCCTCTCATTCTCGGCTCATAATCGGGTGGAGAGATATGGAGATGCTGATGAATCTG
131 AAATTTGATCCTCTCATTCTCGGCTCATAATCGGGTGGAGAGATATGGAGATGCTGATGAATCTG
* * * *
73979108 ATGCAAAGCTGCGTTAATGCTATCGAATCGATCAAAGGAGCGTTGCTCGAAATGATCAAACTGTG
196 ATGCAAAGCTGCGTTAATGCTATCGAATCGATCAAAGCAGCGCTGCTCGAAACGGTCAAACTGTG
* * * * * * *
73979173 TTGTAAAGTTCTCGAGTGTAATAGTATGAACAGCGATAAGGTGACTCGATAGTGAAAAATGAGG
261 CTGTAAGGTTCTCGAGTGTAATAGTAGGAGCAGCGGTAAGGTGACTCGGTAGTGGAAAATGAGG
73979237 T
1 T
73979238 GGGTTTGCAT
Statistics
Matches: 598, Mismatches: 49, Indels: 3
0.92 0.08 0.00
Matches are distributed among these distances:
323 131 0.22
324 467 0.78
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (324 bp):
TTCTTTTTAACTTTGAACATCATAATCACATAGCAGAACCTTGTCATAATTGCTTCAATAAGCTC
AACGTAACTTCTCTTAGGCAGCATCTCATGCAAGGCTACAAATCTTACCTTTCCAAGGGTATTTC
AAATTTGATCCTCTCATTCTCGGCTCATAATCGGGTGGAGAGATATGGAGATGCTGATGAATCTG
ATGCAAAGCTGCGTTAATGCTATCGAATCGATCAAAGCAGCGCTGCTCGAAACGGTCAAACTGTG
CTGTAAGGTTCTCGAGTGTAATAGTAGGAGCAGCGGTAAGGTGACTCGGTAGTGGAAAATGAGG
Found at i:73980159 original size:18 final size:18
Alignment explanation
Indices: 73980136--73980173 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
73980126 GTCTAGCAAT
73980136 TGAGGTGGGGACTGAAGA
1 TGAGGTGGGGACTGAAGA
* *
73980154 TGAGGTTGTGACTGAAGA
1 TGAGGTGGGGACTGAAGA
73980172 TG
1 TG
73980174 CGGTTGCGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.45, T:0.24
Consensus pattern (18 bp):
TGAGGTGGGGACTGAAGA
Found at i:73980178 original size:18 final size:18
Alignment explanation
Indices: 73980145--73980179 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
73980135 TTGAGGTGGG
73980145 GACTGAAGATGAGGTTGT
1 GACTGAAGATGAGGTTGT
*
73980163 GACTGAAGATGCGGTTG
1 GACTGAAGATGAGGTTG
73980180 CGCCCGGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.09, G:0.40, T:0.26
Consensus pattern (18 bp):
GACTGAAGATGAGGTTGT
Found at i:73980595 original size:5 final size:5
Alignment explanation
Indices: 73980571--73980669 Score: 53
Period size: 5 Copynumber: 18.6 Consensus size: 5
73980561 ATAGTAATAA
*
73980571 AAAAT AAATAT AAAAT -AAAT AAAAT AAAAT AAAA- AGAGCAAT AAGA-
1 AAAAT AAA-AT AAAAT AAAAT AAAAT AAAAT AAAAT A-A--AAT AAAAT
* *
73980617 ACAAT ATAAAT -AAAT AAAAGG AAAAT AATAAAT AAAAATT AAAAT AAAAT
1 AAAAT A-AAAT AAAAT AAAA-T AAAAT -A-AAAT -AAAA-T AAAAT AAAAT
73980667 AAA
1 AAA
73980670 TGATAAACAA
Statistics
Matches: 75, Mismatches: 6, Indels: 26
0.70 0.06 0.24
Matches are distributed among these distances:
4 11 0.15
5 33 0.44
6 20 0.27
7 10 0.13
8 1 0.01
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:73993569 original size:23 final size:23
Alignment explanation
Indices: 73993542--73993588 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
73993532 TTATTATATC
73993542 TCATAACTTACAATTTCATTGCT
1 TCATAACTTACAATTTCATTGCT
73993565 TCATAACTTACAATTTCATTGCT
1 TCATAACTTACAATTTCATTGCT
73993588 T
1 T
73993589 ACACTGTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.04, T:0.45
Consensus pattern (23 bp):
TCATAACTTACAATTTCATTGCT
Found at i:73993851 original size:41 final size:41
Alignment explanation
Indices: 73993794--73993878 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
73993784 AACAAAAAGA
73993794 TAACCAAATTATTTTCTGATAACCTCTCCCCCATTATCTCC
1 TAACCAAATTATTTTCTGATAACCTCTCCCCCATTATCTCC
73993835 TAACCAAATTATTTTCTGATAACCTCTCCCCCATTATCTCC
1 TAACCAAATTATTTTCTGATAACCTCTCCCCCATTATCTCC
73993876 TAA
1 TAA
73993879 AATCACTCCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.28, C:0.33, G:0.02, T:0.36
Consensus pattern (41 bp):
TAACCAAATTATTTTCTGATAACCTCTCCCCCATTATCTCC
Found at i:74000413 original size:39 final size:39
Alignment explanation
Indices: 74000355--74000468 Score: 115
Period size: 39 Copynumber: 2.9 Consensus size: 39
74000345 AGAAAATCTT
*
74000355 ATTCACTATAATCAATGGATAATGCTTGTTTGAGCAAGC
1 ATTCACTATAATCAATGGATAATGCTCGTTTGAGCAAGC
* * * *
74000394 ATTCAGTATAATTAGTGGATATTGCTCGTTTGAGCAA-C
1 ATTCACTATAATCAATGGATAATGCTCGTTTGAGCAAGC
* * * *
74000432 TATTCGA-TAGAATCAGTAGATATTGCTCGTTTGAGCA
1 -ATTC-ACTATAATCAATGGATAATGCTCGTTTGAGCA
74000469 CTTTAGTAGA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
38 1 0.02
39 63 0.97
40 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (39 bp):
ATTCACTATAATCAATGGATAATGCTCGTTTGAGCAAGC
Found at i:74000493 original size:36 final size:36
Alignment explanation
Indices: 74000411--74000814 Score: 481
Period size: 36 Copynumber: 11.0 Consensus size: 36
74000401 ATAATTAGTG
*
74000411 GATATTGCTCGTTTGAGCAACTATTCGATAGAATCAGTA
1 GATATTGCTCGTTTGAGC-ACT-TTAG-TAGAATCAGTA
*
74000450 GATATTGCTCGTTTGAGCACTTTAGTAGAATCAATA
1 GATATTGCTCGTTTGAGCACTTTAGTAGAATCAGTA
* * * * *
74000486 GACATTGCTCGTTTTAGAAAATTTAGTAGGATCAGTA
1 GATATTGCTCGTTTGAG-CACTTTAGTAGAATCAGTA
* * *
74000523 GATATTGCTTG-TTGAGCACGTTCAGTAGAATCATTA
1 GATATTGCTCGTTTGAGCAC-TTTAGTAGAATCAGTA
*
74000559 GATATTGCTCGTTTGAGCACTTCAGTAGAATCAGTA
1 GATATTGCTCGTTTGAGCACTTTAGTAGAATCAGTA
* * * *
74000595 AACATTGCTCGTTTGAGCACATTTAGTAGGATTAGTA
1 GATATTGCTCGTTTGAGCAC-TTTAGTAGAATCAGTA
*
74000632 GATAATGCTCG-TTGAGCACTTTTAGTAGAATCAGTA
1 GATATTGCTCGTTTGAGCAC-TTTAGTAGAATCAGTA
* *
74000668 GATATTTCTCGTTTGAGCACTTTCATTAGAATCAGTA
1 GATATTGCTCGTTTGAGCACTTT-AGTAGAATCAGTA
* * * *
74000705 GACATTGCTC-ATTGAGCACTTTTAGTAGTATCAATA
1 GATATTGCTCGTTTGAGCAC-TTTAGTAGAATCAGTA
*
74000741 GATATTGCTCGTTTGAGCACTTTCAGTAGAATAAGTA
1 GATATTGCTCGTTTGAGCACTTT-AGTAGAATCAGTA
74000778 GATATTGCTCGTTTGAGCACTTTTAGTAGAATCAGTA
1 GATATTGCTCGTTTGAGCAC-TTTAGTAGAATCAGTA
74000815 TTCCATTTTT
Statistics
Matches: 311, Mismatches: 44, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
35 1 0.00
36 149 0.48
37 137 0.44
38 6 0.02
39 18 0.06
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (36 bp):
GATATTGCTCGTTTGAGCACTTTAGTAGAATCAGTA
Found at i:74000526 original size:73 final size:73
Alignment explanation
Indices: 74000411--74000814 Score: 485
Period size: 73 Copynumber: 5.5 Consensus size: 73
74000401 ATAATTAGTG
* *
74000411 GATATTGCTCGTTTGAGCAACTATTCGATAGAATCAGTAGATATTGCTCGTTTGAGCACTTTAGT
1 GATATTGCTCGTTTGAGC-ACTTTTAG-TAGAATCAGTAGATATTGCTCGTTTGAGCACTTTAGT
74000476 AGAATCAATA
64 AGAATCAATA
* * * ** * * *
74000486 GACATTGCTCGTTTTAGAAAATTTAGTAGGATCAGTAGATATTGCTTG-TTGAGCACGTTCAGTA
1 GATATTGCTCGTTTGAGCACTTTTAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTTAGTA
*
74000550 GAATCATTA
65 GAATCAATA
* * *
74000559 GATATTGCTCGTTTGAGCAC-TTCAGTAGAATCAGTAAACATTGCTCGTTTGAGCACATTTAGTA
1 GATATTGCTCGTTTGAGCACTTTTAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTTAGTA
* * *
74000623 GGATTAGTA
65 GAATCAATA
* * *
74000632 GATAATGCTCG-TTGAGCACTTTTAGTAGAATCAGTAGATATTTCTCGTTTGAGCACTTTCATTA
1 GATATTGCTCGTTTGAGCACTTTTAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTT-AGTA
*
74000696 GAATCAGTA
65 GAATCAATA
* * * *
74000705 GACATTGCTC-ATTGAGCACTTTTAGTAGTATCAATAGATATTGCTCGTTTGAGCACTTTCAGTA
1 GATATTGCTCGTTTGAGCACTTTTAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTT-AGTA
74000769 GAAT-AAGTA
65 GAATCAA-TA
74000778 GATATTGCTCGTTTGAGCACTTTTAGTAGAATCAGTA
1 GATATTGCTCGTTTGAGCACTTTTAGTAGAATCAGTA
74000815 TTCCATTTTT
Statistics
Matches: 278, Mismatches: 44, Indels: 15
0.82 0.13 0.04
Matches are distributed among these distances:
72 42 0.15
73 194 0.70
74 27 0.10
75 15 0.05
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (73 bp):
GATATTGCTCGTTTGAGCACTTTTAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTAGTAG
AATCAATA
Found at i:74000568 original size:109 final size:109
Alignment explanation
Indices: 74000411--74000814 Score: 560
Period size: 109 Copynumber: 3.7 Consensus size: 109
74000401 ATAATTAGTG
74000411 GATATTGCTCGTTTGAGCAACTATTC-GATAGAATCAGTAGATATTGCTCGTTTGAGCACTTTAG
1 GATATTGCTCG-TTGAGC-ACT-TTCAG-TAGAATCAGTAGATATTGCTCGTTTGAGCACTTTAG
* * * *
74000475 TAGAATCAATAGACATTGCTCGTTTTAGAAAATTTAGTAGGATCAGTA
62 TAGAATCAGTAGACATTGCTCGTTTGAGCACATTTAGTAGGATCAGTA
* * * *
74000523 GATATTGCTTGTTGAGCACGTTCAGTAGAATCATTAGATATTGCTCGTTTGAGCACTTCAGTAGA
1 GATATTGCTCGTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTAGTAGA
* *
74000588 ATCAGTAAACATTGCTCGTTTGAGCACATTTAGTAGGATTAGTA
66 ATCAGTAGACATTGCTCGTTTGAGCACATTTAGTAGGATCAGTA
* * * *
74000632 GATAATGCTCGTTGAGCACTTTTAGTAGAATCAGTAGATATTTCTCGTTTGAGCACTTTCATTAG
1 GATATTGCTCGTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTT-AGTAG
* * * *
74000697 AATCAGTAGACATTGCTC-ATTGAGCACTTTTAGTAGTATCAATA
65 AATCAGTAGACATTGCTCGTTTGAGCACATTTAGTAGGATCAGTA
*
74000741 GATATTGCTCGTTTGAGCACTTTCAGTAGAATAAGTAGATATTGCTCGTTTGAGCACTTTTAGTA
1 GATATTGCTCG-TTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTTAGTA
74000806 GAATCAGTA
64 GAATCAGTA
74000815 TTCCATTTTT
Statistics
Matches: 259, Mismatches: 29, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
109 162 0.63
110 78 0.30
111 9 0.03
112 10 0.04
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (109 bp):
GATATTGCTCGTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTAGTAGA
ATCAGTAGACATTGCTCGTTTGAGCACATTTAGTAGGATCAGTA
Found at i:74008758 original size:25 final size:23
Alignment explanation
Indices: 74008724--74008770 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
74008714 GTTAGGTAAA
74008724 TTTAAATTGTTGTGAAATTGTTATG
1 TTTAAATTGTT-TG-AATTGTTATG
*
74008749 TTTAATTTGTTTGAATTGTTAT
1 TTTAAATTGTTTGAATTGTTAT
74008771 TTAACTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
24 2 0.10
25 10 0.48
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (23 bp):
TTTAAATTGTTTGAATTGTTATG
Found at i:74008953 original size:17 final size:17
Alignment explanation
Indices: 74008922--74008955 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
74008912 GGAAAATGTT
* *
74008922 AAATTTGAGTTTTCTAC
1 AAATTTGAATATTCTAC
74008939 AAATTTGAATATTCTAC
1 AAATTTGAATATTCTAC
74008956 TAATAATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (17 bp):
AAATTTGAATATTCTAC
Found at i:74009342 original size:15 final size:15
Alignment explanation
Indices: 74009308--74009344 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
74009298 TTTTAAACAA
*
74009308 ATTTTATATGTTTTT
1 ATTTTATATGTTTGT
74009323 A-TTTATATGTTTGT
1 ATTTTATATGTTTGT
74009337 ATTTTATA
1 ATTTTATA
74009345 ATTCTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (15 bp):
ATTTTATATGTTTGT
Found at i:74020079 original size:43 final size:43
Alignment explanation
Indices: 74019901--74020097 Score: 184
Period size: 43 Copynumber: 4.6 Consensus size: 43
74019891 ACGTTTGCGG
* * * * *
74019901 CGCTTCTTC-CACAAACACCGTTATAGATCAGGACCTTTAGCGG
1 CGCTT-TTCTCACAAACGCCGCTAAAGATCAAGACCTTTAGCGA
* * * *
74019944 TGCTTTTTTTACAAACGCCGCTATAAG-TCAAGACCTTTAGCGG
1 CGCTTTTCTCACAAACGCCGCTA-AAGATCAAGACCTTTAGCGA
* * *
74019987 CGCTTTTTTCGCAAACGCCACTAAAGATCAAGACCTTTAGC-A
1 CGCTTTTCTCACAAACGCCGCTAAAGATCAAGACCTTTAGCGA
* * *
74020029 GCTCTTTTCCCACAAACGCTGCTAAAGATCAAGACCTTTAGCGA
1 -CGCTTTTCTCACAAACGCCGCTAAAGATCAAGACCTTTAGCGA
* * *
74020073 CGCTTTTCACAAAAACGCCACTAAA
1 CGCTTTTCTCACAAACGCCGCTAAA
74020098 AACAAAACAT
Statistics
Matches: 126, Mismatches: 23, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
42 5 0.04
43 118 0.94
44 3 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (43 bp):
CGCTTTTCTCACAAACGCCGCTAAAGATCAAGACCTTTAGCGA
Found at i:74025163 original size:21 final size:21
Alignment explanation
Indices: 74025138--74025190 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
74025128 ACCATAAATT
74025138 ATAAAACATAACCCCTAAACA
1 ATAAAACATAACCCCTAAACA
* * ** *
74025159 TTAAATCCCAACCCTTAAACA
1 ATAAAACATAACCCCTAAACA
*
74025180 ATAAACCATAA
1 ATAAAACATAA
74025191 ACCGTAATCC
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (21 bp):
ATAAAACATAACCCCTAAACA
Found at i:74025190 original size:7 final size:7
Alignment explanation
Indices: 74025174--74025283 Score: 53
Period size: 7 Copynumber: 15.4 Consensus size: 7
74025164 TCCCAACCCT
*
74025174 TAAACAA
1 TAAACCA
74025181 TAAACCA
1 TAAACCA
*
74025188 TAAACCG
1 TAAACCA
* *
74025195 TAATCCC
1 TAAACCA
74025202 TAAACCCA
1 TAAA-CCA
*
74025210 TAATCCA
1 TAAACCA
*
74025217 TAAACCT
1 TAAACCA
74025224 TAAA--A
1 TAAACCA
*
74025229 TAGTAACTCT
1 TA--AAC-CA
*
74025239 TAAACCT
1 TAAACCA
*
74025246 TAAACCC
1 TAAACCA
**
74025253 TACCCCA
1 TAAACCA
*
74025260 TATACCA
1 TAAACCA
74025267 TAAACCA
1 TAAACCA
*
74025274 TAAACTA
1 TAAACCA
74025281 TAA
1 TAA
74025284 TCATAATTAA
Statistics
Matches: 78, Mismatches: 19, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
5 2 0.03
7 66 0.85
8 8 0.10
10 2 0.03
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.23
Consensus pattern (7 bp):
TAAACCA
Found at i:74025803 original size:22 final size:22
Alignment explanation
Indices: 74025776--74025820 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
74025766 CTGACCCTTG
74025776 AATCCCTAAATCATAAACCCTA
1 AATCCCTAAATCATAAACCCTA
* * *
74025798 AATCCCTAACTCTTAACCCCTA
1 AATCCCTAAATCATAAACCCTA
74025820 A
1 A
74025821 CCCCTAACCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (22 bp):
AATCCCTAAATCATAAACCCTA
Found at i:74025818 original size:14 final size:14
Alignment explanation
Indices: 74025801--74025848 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
74025791 AACCCTAAAT
*
74025801 CCCTAACTCTTAAC
1 CCCTAACTCCTAAC
*
74025815 CCCTAACCCCTAAC
1 CCCTAACTCCTAAC
74025829 CCCTAACTCCTAAC
1 CCCTAACTCCTAAC
74025843 CCCTAA
1 CCCTAA
74025849 ACCTTAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.29, C:0.50, G:0.00, T:0.21
Consensus pattern (14 bp):
CCCTAACTCCTAAC
Found at i:74025825 original size:21 final size:21
Alignment explanation
Indices: 74025801--74025848 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
74025791 AACCCTAAAT
* *
74025801 CCCTAACTCTTAACCCCTAAC
1 CCCTAACCCCTAACCCCTAAC
*
74025822 CCCTAACCCCTAACTCCTAAC
1 CCCTAACCCCTAACCCCTAAC
74025843 CCCTAA
1 CCCTAA
74025849 ACCTTAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.50, G:0.00, T:0.21
Consensus pattern (21 bp):
CCCTAACCCCTAACCCCTAAC
Found at i:74026148 original size:7 final size:7
Alignment explanation
Indices: 74026136--74026313 Score: 56
Period size: 7 Copynumber: 24.9 Consensus size: 7
74026126 ACTAGTTAAT
74026136 CTAAACC
1 CTAAACC
74026143 CTAAACC
1 CTAAACC
*
74026150 ATAAACC
1 CTAAACC
74026157 CTAAAACC
1 CT-AAACC
*
74026165 ATAAACC
1 CTAAACC
* *
74026172 CTTAACA
1 CTAAACC
74026179 C-ATAACC
1 CTA-AACC
74026186 TCTAAACC
1 -CTAAACC
*
74026194 TTAAACC
1 CTAAACC
* *
74026201 C-CAGCC
1 CTAAACC
*
74026207 TTTAAACC
1 -CTAAACC
*
74026215 ATAAACC
1 CTAAACC
* *
74026222 ATAACCC
1 CTAAACC
74026229 CTAAACC
1 CTAAACC
*
74026236 CATAATCC
1 C-TAAACC
*
74026244 ATAAACC
1 CTAAACC
* **
74026251 TTAAAATG
1 CT-AAACC
*
74026259 GT-AACAC
1 CTAAAC-C
*
74026266 CTAAACT
1 CTAAACC
* *
74026273 TTAAACT
1 CTAAACC
74026280 CTAAACC
1 CTAAACC
* *
74026287 ATATACC
1 CTAAACC
74026294 CTAAACC
1 CTAAACC
**
74026301 AAAAACC
1 CTAAACC
74026308 CTAAAC
1 CTAAAC
74026314 TATAGTGATA
Statistics
Matches: 120, Mismatches: 41, Indels: 20
0.66 0.23 0.11
Matches are distributed among these distances:
6 5 0.04
7 88 0.73
8 26 0.22
9 1 0.01
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:74026165 original size:15 final size:14
Alignment explanation
Indices: 74026137--74026313 Score: 90
Period size: 14 Copynumber: 11.9 Consensus size: 14
74026127 CTAGTTAATC
74026137 TAAACCCTAAACCA
1 TAAACCCTAAACCA
74026151 TAAACCCTAAAACCA
1 TAAACCCT-AAACCA
*
74026166 TAAACCCTTAACACA
1 TAAACCCTAAAC-CA
*
74026181 T-AACCTCTAAACCT
1 TAAACC-CTAAACCA
74026195 TAAACCCCAGCCTTTAAACCA
1 TAAA---C--CC--TAAACCA
* * *
74026216 TAAACCATAACCCC
1 TAAACCCTAAACCA
*
74026230 TAAACCCATAATCCA
1 TAAACCC-TAAACCA
*
74026245 TAAACCTTAAA--A
1 TAAACCCTAAACCA
* **
74026257 TGGTAACACCTAAACTT
1 T--AAAC-CCTAAACCA
*
74026274 TAAACTCTAAACCA
1 TAAACCCTAAACCA
*
74026288 TATACCCTAAACCA
1 TAAACCCTAAACCA
*
74026302 AAAACCCTAAAC
1 TAAACCCTAAAC
74026314 TATAGTGATA
Statistics
Matches: 123, Mismatches: 23, Indels: 34
0.68 0.13 0.19
Matches are distributed among these distances:
12 2 0.02
14 62 0.50
15 43 0.35
16 1 0.01
17 1 0.01
18 2 0.02
19 1 0.01
20 1 0.01
21 10 0.08
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:74026185 original size:29 final size:29
Alignment explanation
Indices: 74026137--74026313 Score: 82
Period size: 29 Copynumber: 5.9 Consensus size: 29
74026127 CTAGTTAATC
74026137 TAAACCCTAAACCATAAACC-CTAAAACCA
1 TAAACCCTAAACCATAAACCTCT-AAACCA
* *
74026166 TAAACCCTTAACACAT-AACCTCTAAACCT
1 TAAACCCTAAAC-CATAAACCTCTAAACCA
* * *
74026195 TAAACCCCAGCCTTTAAACCATAAACC-ATAACCCC
1 TAAA---C--CC--TAAACCATAAACCTCTAAACCA
*
74026230 TAAACCCATAATCCATAAACCT-TAAA--A
1 TAAACCC-TAAACCATAAACCTCTAAACCA
* **
74026257 TGGTAACACCTAAACTTTAAA-CTCTAAACCA
1 T--AAAC-CCTAAACCATAAACCTCTAAACCA
* *
74026288 TATACCCTAAACCAAAAACC-CTAAAC
1 TAAACCCTAAACCATAAACCTCTAAAC
74026314 TATAGTGATA
Statistics
Matches: 111, Mismatches: 19, Indels: 37
0.66 0.11 0.22
Matches are distributed among these distances:
27 1 0.01
28 18 0.16
29 57 0.51
30 9 0.08
31 2 0.02
32 2 0.02
34 2 0.02
35 12 0.11
36 8 0.07
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.20
Consensus pattern (29 bp):
TAAACCCTAAACCATAAACCTCTAAACCA
Found at i:74026255 original size:22 final size:21
Alignment explanation
Indices: 74026208--74026313 Score: 63
Period size: 21 Copynumber: 5.0 Consensus size: 21
74026198 ACCCCAGCCT
*
74026208 TTAAACCATAAACCATAACCC
1 TTAAACCATAAACCATAAACC
* *
74026229 CTAAACCCATAATCCATAAACC
1 TTAAA-CCATAAACCATAAACC
*** *
74026251 TTAAAATGGTAACACC-TAAACT
1 TT-AAACCATAA-ACCATAAACC
*
74026273 TTAAACTC-TAAACCATATACC
1 TTAAAC-CATAAACCATAAACC
* * *
74026294 CTAAACCAAAAACCCTAAAC
1 TTAAACCATAAACCATAAAC
74026314 TATAGTGATA
Statistics
Matches: 62, Mismatches: 17, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
20 4 0.06
21 28 0.45
22 25 0.40
23 5 0.08
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (21 bp):
TTAAACCATAAACCATAAACC
Found at i:74026895 original size:22 final size:22
Alignment explanation
Indices: 74026868--74026912 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
74026858 CTGACCCTTG
74026868 AATCCCTAAATCATAAACCCTA
1 AATCCCTAAATCATAAACCCTA
* * *
74026890 AATCCCTAACTCTTAACCCCTA
1 AATCCCTAAATCATAAACCCTA
74026912 A
1 A
74026913 CCCCTAACCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (22 bp):
AATCCCTAAATCATAAACCCTA
Found at i:74026910 original size:14 final size:14
Alignment explanation
Indices: 74026893--74026940 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
74026883 AACCCTAAAT
*
74026893 CCCTAACTCTTAAC
1 CCCTAACTCCTAAC
*
74026907 CCCTAACCCCTAAC
1 CCCTAACTCCTAAC
74026921 CCCTAACTCCTAAC
1 CCCTAACTCCTAAC
74026935 CCCTAA
1 CCCTAA
74026941 ACCTTAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.29, C:0.50, G:0.00, T:0.21
Consensus pattern (14 bp):
CCCTAACTCCTAAC
Found at i:74026917 original size:21 final size:21
Alignment explanation
Indices: 74026893--74026940 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
74026883 AACCCTAAAT
* *
74026893 CCCTAACTCTTAACCCCTAAC
1 CCCTAACCCCTAACCCCTAAC
*
74026914 CCCTAACCCCTAACTCCTAAC
1 CCCTAACCCCTAACCCCTAAC
74026935 CCCTAA
1 CCCTAA
74026941 ACCTTAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.50, G:0.00, T:0.21
Consensus pattern (21 bp):
CCCTAACCCCTAACCCCTAAC
Found at i:74027240 original size:7 final size:7
Alignment explanation
Indices: 74027228--74027405 Score: 56
Period size: 7 Copynumber: 24.9 Consensus size: 7
74027218 ACTAGTTAAT
74027228 CTAAACC
1 CTAAACC
74027235 CTAAACC
1 CTAAACC
*
74027242 ATAAACC
1 CTAAACC
74027249 CTAAAACC
1 CT-AAACC
*
74027257 ATAAACC
1 CTAAACC
* *
74027264 CTTAACA
1 CTAAACC
74027271 C-ATAACC
1 CTA-AACC
74027278 TCTAAACC
1 -CTAAACC
*
74027286 TTAAACC
1 CTAAACC
* *
74027293 C-CAGCC
1 CTAAACC
*
74027299 TTTAAACC
1 -CTAAACC
*
74027307 ATAAACC
1 CTAAACC
* *
74027314 ATAACCC
1 CTAAACC
74027321 CTAAACC
1 CTAAACC
*
74027328 CATAATCC
1 C-TAAACC
*
74027336 ATAAACC
1 CTAAACC
* **
74027343 TTAAAATG
1 CT-AAACC
*
74027351 GT-AACAC
1 CTAAAC-C
*
74027358 CTAAACT
1 CTAAACC
* *
74027365 TTAAACT
1 CTAAACC
74027372 CTAAACC
1 CTAAACC
* *
74027379 ATATACC
1 CTAAACC
74027386 CTAAACC
1 CTAAACC
**
74027393 AAAAACC
1 CTAAACC
74027400 CTAAAC
1 CTAAAC
74027406 TATAGTGATA
Statistics
Matches: 120, Mismatches: 41, Indels: 20
0.66 0.23 0.11
Matches are distributed among these distances:
6 5 0.04
7 88 0.73
8 26 0.22
9 1 0.01
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:74027257 original size:15 final size:14
Alignment explanation
Indices: 74027229--74027405 Score: 90
Period size: 14 Copynumber: 11.9 Consensus size: 14
74027219 CTAGTTAATC
74027229 TAAACCCTAAACCA
1 TAAACCCTAAACCA
74027243 TAAACCCTAAAACCA
1 TAAACCCT-AAACCA
*
74027258 TAAACCCTTAACACA
1 TAAACCCTAAAC-CA
*
74027273 T-AACCTCTAAACCT
1 TAAACC-CTAAACCA
74027287 TAAACCCCAGCCTTTAAACCA
1 TAAA---C--CC--TAAACCA
* * *
74027308 TAAACCATAACCCC
1 TAAACCCTAAACCA
*
74027322 TAAACCCATAATCCA
1 TAAACCC-TAAACCA
*
74027337 TAAACCTTAAA--A
1 TAAACCCTAAACCA
* **
74027349 TGGTAACACCTAAACTT
1 T--AAAC-CCTAAACCA
*
74027366 TAAACTCTAAACCA
1 TAAACCCTAAACCA
*
74027380 TATACCCTAAACCA
1 TAAACCCTAAACCA
*
74027394 AAAACCCTAAAC
1 TAAACCCTAAAC
74027406 TATAGTGATA
Statistics
Matches: 123, Mismatches: 23, Indels: 34
0.68 0.13 0.19
Matches are distributed among these distances:
12 2 0.02
14 62 0.50
15 43 0.35
16 1 0.01
17 1 0.01
18 2 0.02
19 1 0.01
20 1 0.01
21 10 0.08
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:74027277 original size:29 final size:29
Alignment explanation
Indices: 74027229--74027405 Score: 82
Period size: 29 Copynumber: 5.9 Consensus size: 29
74027219 CTAGTTAATC
74027229 TAAACCCTAAACCATAAACC-CTAAAACCA
1 TAAACCCTAAACCATAAACCTCT-AAACCA
* *
74027258 TAAACCCTTAACACAT-AACCTCTAAACCT
1 TAAACCCTAAAC-CATAAACCTCTAAACCA
* * *
74027287 TAAACCCCAGCCTTTAAACCATAAACC-ATAACCCC
1 TAAA---C--CC--TAAACCATAAACCTCTAAACCA
*
74027322 TAAACCCATAATCCATAAACCT-TAAA--A
1 TAAACCC-TAAACCATAAACCTCTAAACCA
* **
74027349 TGGTAACACCTAAACTTTAAA-CTCTAAACCA
1 T--AAAC-CCTAAACCATAAACCTCTAAACCA
* *
74027380 TATACCCTAAACCAAAAACC-CTAAAC
1 TAAACCCTAAACCATAAACCTCTAAAC
74027406 TATAGTGATA
Statistics
Matches: 111, Mismatches: 19, Indels: 37
0.66 0.11 0.22
Matches are distributed among these distances:
27 1 0.01
28 18 0.16
29 57 0.51
30 9 0.08
31 2 0.02
32 2 0.02
34 2 0.02
35 12 0.11
36 8 0.07
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.20
Consensus pattern (29 bp):
TAAACCCTAAACCATAAACCTCTAAACCA
Found at i:74027347 original size:22 final size:21
Alignment explanation
Indices: 74027300--74027405 Score: 63
Period size: 21 Copynumber: 5.0 Consensus size: 21
74027290 ACCCCAGCCT
*
74027300 TTAAACCATAAACCATAACCC
1 TTAAACCATAAACCATAAACC
* *
74027321 CTAAACCCATAATCCATAAACC
1 TTAAA-CCATAAACCATAAACC
*** *
74027343 TTAAAATGGTAACACC-TAAACT
1 TT-AAACCATAA-ACCATAAACC
*
74027365 TTAAACTC-TAAACCATATACC
1 TTAAAC-CATAAACCATAAACC
* * *
74027386 CTAAACCAAAAACCCTAAAC
1 TTAAACCATAAACCATAAAC
74027406 TATAGTGATA
Statistics
Matches: 62, Mismatches: 17, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
20 4 0.06
21 28 0.45
22 25 0.40
23 5 0.08
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (21 bp):
TTAAACCATAAACCATAAACC
Found at i:74027697 original size:41 final size:41
Alignment explanation
Indices: 74027637--74027784 Score: 219
Period size: 41 Copynumber: 3.6 Consensus size: 41
74027627 TAGAGAATTC
* *
74027637 GCGGCGCTTT-CTCAAAAACGCCACTAAAGCCCTAAGCATTA
1 GCGGCGCTTTCCT-AAAAACGCCGCTAAAGCCCTGAGCATTA
**
74027678 GCGGTACTTTCCTAAAAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTCCTAAAAACGCCGCTAAAGCCCTGAGCATTA
*
74027719 GCGGCGCTTTCCTAAAAATGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTCCTAAAAACGCCGCTAAAGCCCTGAGCATTA
*
74027760 GCGGCGCTTTCC-CAAAACGCCGCTA
1 GCGGCGCTTTCCTAAAAACGCCGCTA
74027785 CAGCTGCGCT
Statistics
Matches: 97, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
40 11 0.11
41 84 0.87
42 2 0.02
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.20
Consensus pattern (41 bp):
GCGGCGCTTTCCTAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:74027831 original size:68 final size:69
Alignment explanation
Indices: 74027722--74027853 Score: 221
Period size: 68 Copynumber: 1.9 Consensus size: 69
74027712 AGCATTAGCG
* *
74027722 GCGCTTTCCTAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCCA-AAACGCCGCTAC
1 GCGCTTTCCTAAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTTTCCCAGAAACGCCGCTAC
74027786 AGCT
66 AGCT
* *
74027790 GCGCTTTCTTAAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTTTCTCAGAAACGCCGCTA
1 GCGCTTTCCTAAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTTTCCCAGAAACGCCGCTA
74027854 AAGCCCACGA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
68 48 0.81
69 11 0.19
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (69 bp):
GCGCTTTCCTAAAAACGCCACTAAAGCCCTGAGCATTAGCGGCGCTTTCCCAGAAACGCCGCTAC
AGCT
Done.