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 155 of 378
Found at i:44758774 original size:49 final size:45
Alignment explanation
Indices: 44758702--44758825 Score: 135
Period size: 49 Copynumber: 2.7 Consensus size: 45
44758692 TAAGTTGCCA
* * *
44758702 ATGCCATGTACCAAACATGGTCTTACACTAGCTCTCATCATCGAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-AT--AGCT-G
* *
44758751 ATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTATAGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAGCTG
* *
44758796 ATG-TATGTCCCGGACAT-GTCTTACACTAGC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC
44758826 ACAACTCTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
43 12 0.18
44 12 0.18
45 4 0.06
46 3 0.04
48 2 0.03
49 34 0.51
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (45 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATAGCTG
Found at i:44762041 original size:34 final size:34
Alignment explanation
Indices: 44761994--44762084 Score: 92
Period size: 34 Copynumber: 2.6 Consensus size: 34
44761984 TTGCATATTG
* * *
44761994 TACTGAAATGGGCTAAGGCCCAGACTGCCACTGT
1 TACTGAAACGGGCTAAGGCCCAGAATGCCACTGC
* * **
44762028 TACTGAAACGGGCTCAGGCCCGGAATGCTTCTGC
1 TACTGAAACGGGCTAAGGCCCAGAATGCCACTGC
*
44762062 TACTGAAAGAGGGGCTAAGGCCC
1 TACTG-AA-ACGGGCTAAGGCCC
44762085 CTAATTGAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
34 32 0.70
35 2 0.04
36 12 0.26
ACGTcount: A:0.25, C:0.26, G:0.30, T:0.19
Consensus pattern (34 bp):
TACTGAAACGGGCTAAGGCCCAGAATGCCACTGC
Found at i:44762335 original size:11 final size:11
Alignment explanation
Indices: 44762315--44762344 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
44762305 ATAAGGCCTC
44762315 TTTAATTTTAT
1 TTTAATTTTAT
*
44762326 TTTTATTTTAT
1 TTTAATTTTAT
44762337 TTTAATTT
1 TTTAATTT
44762345 GGGAATTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTAATTTTAT
Found at i:44768082 original size:13 final size:14
Alignment explanation
Indices: 44768064--44768096 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
44768054 ATCCCAAGTC
44768064 AAAATGA-TGATGA
1 AAAATGATTGATGA
44768077 AAAATGATTTGATGA
1 AAAATGA-TTGATGA
44768092 AAAAT
1 AAAAT
44768097 TATATGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
15 11 0.61
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (14 bp):
AAAATGATTGATGA
Found at i:44768104 original size:15 final size:15
Alignment explanation
Indices: 44768070--44768104 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
44768060 AGTCAAAATG
44768070 ATGATGAAAAATGAT
1 ATGATGAAAAATGAT
* *
44768085 TTGATGAAAAATTAT
1 ATGATGAAAAATGAT
44768100 ATGAT
1 ATGAT
44768105 TTTATTCAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (15 bp):
ATGATGAAAAATGAT
Found at i:44770719 original size:50 final size:49
Alignment explanation
Indices: 44770548--44770784 Score: 264
Period size: 49 Copynumber: 4.8 Consensus size: 49
44770538 TGAGGTCACA
*
44770548 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATTGGTAGCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGT--CATG
* * * * *
44770599 -G-GTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCATG
* **
44770648 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCATG
* ***
44770698 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCATG
* * *
44770747 TGTGTAGTACTAAGGGCAGG-TACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
44770785 GCTTCGGCTA
Statistics
Matches: 156, Mismatches: 26, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
48 15 0.10
49 59 0.38
50 49 0.31
51 33 0.21
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCATG
Found at i:44770802 original size:101 final size:102
Alignment explanation
Indices: 44770541--44770802 Score: 297
Period size: 100 Copynumber: 2.6 Consensus size: 102
44770531 GCTATTGTGA
* *
44770541 GGTCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATA-ATTGGTAGC-A-TGGGTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGATTGGTA-CAAGTGTGTA
* *
44770603 GTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTC
65 GTACTAAGTGCAGGCTACTACGCGTACCGGATAACTTC
* * * * *
44770641 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GGTTAGGT-CATGTGTGTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGATT-GGTACAAGTGTGTA
*
44770704 GTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-
65 GTACTAAGTGCAGGCTACTACGCGTACCGGATAACTTC
* * * * *
44770740 GGTCGCATGTGTAGTACTAAGGGCAGG-TACTATGCGTACCAGATAGCTTCGGCTACAAGTGTG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGATT-GG-TACAAGTGTG
44770803 GAAATGAGAA
Statistics
Matches: 135, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
98 14 0.10
99 29 0.21
100 46 0.34
101 46 0.34
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (102 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGATTGGTACAAGTGTGTAG
TACTAAGTGCAGGCTACTACGCGTACCGGATAACTTC
Found at i:44772193 original size:12 final size:13
Alignment explanation
Indices: 44772176--44772204 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
44772166 TAAGAAACTT
44772176 AAATACCAAT-CA
1 AAATACCAATCCA
44772188 AAATACCAATCCA
1 AAATACCAATCCA
44772201 AAAT
1 AAAT
44772205 GACAATAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.17
Consensus pattern (13 bp):
AAATACCAATCCA
Found at i:44776922 original size:30 final size:30
Alignment explanation
Indices: 44776888--44776948 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
44776878 TCCTTAACTC
44776888 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
44776918 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
44776948 A
1 A
44776949 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:44780695 original size:36 final size:36
Alignment explanation
Indices: 44780655--44780735 Score: 137
Period size: 36 Copynumber: 2.2 Consensus size: 36
44780645 GGTGGTTACT
*
44780655 CATGAAGAGACCCAAGGCATAATTTTTTATATAACC
1 CATGAAGAGACCCAAGGCATAATTTTTTATAAAACC
44780691 CATGAAGAGACCCAAGGCATAATTTTTTATAAAACC
1 CATGAAGAGACCCAAGGCATAATTTTTTATAAAACC
44780727 C-TAGAAGAG
1 CAT-GAAGAG
44780736 GTTCAGGTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
35 1 0.02
36 42 0.98
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.25
Consensus pattern (36 bp):
CATGAAGAGACCCAAGGCATAATTTTTTATAAAACC
Found at i:44793995 original size:5 final size:5
Alignment explanation
Indices: 44793985--44794029 Score: 72
Period size: 5 Copynumber: 8.6 Consensus size: 5
44793975 TTTTTACATT
44793985 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTTA TCTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA T-TTTA TTT
44794030 ATATGTTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 28 0.74
6 10 0.26
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:44801263 original size:78 final size:81
Alignment explanation
Indices: 44801127--44801309 Score: 223
Period size: 78 Copynumber: 2.3 Consensus size: 81
44801117 CGAATGATGT
* * *
44801127 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
*
44801191 GTGCGAGTTAATA-AA
66 GTGCGAGTCAATATAA
* * **
44801206 TCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
*
44801268 CGTGCGAGTCACTATAA
65 CGTGCGAGTCAATATAA
**
44801285 CCGGGCTTCGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44801310 AGCAGTCGTT
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 48 0.55
79 25 0.28
80 14 0.16
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTCAATATAA
Found at i:44801265 original size:40 final size:39
Alignment explanation
Indices: 44801127--44801309 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 39
44801117 CGAATGATGT
* *
44801127 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTA-AA
* * * * *
44801167 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAAA
*
44801206 TCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
* * * *
44801244 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-AA
**
44801285 CCGGGCTTCGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
44801310 AGCAGTCGTT
Statistics
Matches: 115, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
38 24 0.21
39 16 0.14
40 66 0.57
41 9 0.08
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
Found at i:44801339 original size:78 final size:78
Alignment explanation
Indices: 44801178--44801341 Score: 179
Period size: 78 Copynumber: 2.1 Consensus size: 78
44801168 CGGACTAGGA
* * * *
44801178 TCCGAAGGCATTCGTGCGAGTTAATAAATCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAA
1 TCCGAAGGCATTCGTGCGAGTCAATAAACCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAA
*
44801243 ACCCGGGTTAAGT
66 ACCCGGGTTAAAT
* * ** **
44801256 CCCGAAGGCATTCGTGCGAGTCACTATAACCGGGCTTCGTCCCGAAGGCATTTGAGC-AGTCGTT
1 TCCGAAGGCATTCGTGCGAGTCAATA-AACCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACT
* *
44801320 ATATCC-GGTTAAAT
64 AAACCCGGGTTAAAT
44801334 TCCGAAGG
1 TCCGAAGG
44801342 TACGTGATTC
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
78 37 0.53
79 17 0.24
80 16 0.23
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (78 bp):
TCCGAAGGCATTCGTGCGAGTCAATAAACCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAA
ACCCGGGTTAAAT
Found at i:44808345 original size:40 final size:39
Alignment explanation
Indices: 44808207--44808373 Score: 178
Period size: 38 Copynumber: 4.3 Consensus size: 39
44808197 GGACTAAGAT
* * *
44808207 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAA-A
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGTTAAGC
* * * *
44808245 CTGAAGGCATTTGTGTGAGTTAATAAATCCGGGTTAAG-
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGTTAAGC
* *
44808283 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGTTAAG-C
* * *
44808323 CCGAAGGCATTCGTGCGAGTTACTATAACCGGGGTT-TGTC
1 CCGAAGGCATTCGTGCGAGTTAATA-AACCCGGGTTAAG-C
44808363 CCGAAGGCATT
1 CCGAAGGCATT
44808374 TGAGCTAGTC
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
38 67 0.59
40 38 0.33
41 9 0.08
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGTTAAGC
Found at i:44811943 original size:79 final size:82
Alignment explanation
Indices: 44811803--44811987 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
44811793 TCGAATGATG
* * *
44811803 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
44811867 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
44811883 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
44811945 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
44811963 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44811988 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:44811995 original size:40 final size:40
Alignment explanation
Indices: 44811804--44811995 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
44811794 CGAATGATGT
* * * * *
44811804 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
44811844 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
44811884 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
44811923 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
44811963 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
44811996 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:44812018 original size:79 final size:79
Alignment explanation
Indices: 44811803--44812020 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
44811793 TCGAATGATG
* * * * ** *
44811803 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
44811866 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
44811883 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
44811948 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
44811963 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
44812021 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:44815176 original size:45 final size:45
Alignment explanation
Indices: 44815112--44815244 Score: 221
Period size: 45 Copynumber: 3.0 Consensus size: 45
44815102 TATCGTACAG
* * * *
44815112 TACTATTCAGACCTTTGAGCCTAGCAGGTTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
44815157 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
*
44815202 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGA
44815245 AATGATATCG
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 83 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
Found at i:44818780 original size:46 final size:46
Alignment explanation
Indices: 44818730--44818905 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
44818720 TGGTTGAGCA
44818730 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44818776 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44818821 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
44818869 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44818906 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44818886 original size:93 final size:93
Alignment explanation
Indices: 44818727--44818897 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
44818717 GGATGGTTGA
* *
44818727 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44818792 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
44818820 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44818885 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
44818898 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44821892 original size:15 final size:15
Alignment explanation
Indices: 44821853--44821931 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
44821843 GTATCTTGGG
*
44821853 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
44821868 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
44821883 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
44821897 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
44821912 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
44821926 TTTCTT
1 TTTCTT
44821932 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:44821916 original size:29 final size:29
Alignment explanation
Indices: 44821844--44821930 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
44821834 CATAGTATCG
* * * *
44821844 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
44821874 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
44821903 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
44821931 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:44824344 original size:46 final size:46
Alignment explanation
Indices: 44824294--44824469 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
44824284 TGGTTGAGCA
44824294 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44824340 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44824385 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
44824433 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44824470 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44824450 original size:93 final size:93
Alignment explanation
Indices: 44824291--44824461 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
44824281 GGATGGTTGA
* *
44824291 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44824356 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
44824384 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
44824449 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
44824462 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44831519 original size:46 final size:46
Alignment explanation
Indices: 44831450--44831553 Score: 145
Period size: 46 Copynumber: 2.3 Consensus size: 46
44831440 TGTGATAAAT
* *
44831450 GTGTATGAGTTGGATATGAGGTAAAGCCGAATGGCTAATGCGAAAC
1 GTGTATGAGATGGATATGAGGTAAAGCCAAATGGCTAATGCGAAAC
* * * *
44831496 GTGTATGAGATGGATATGTGGTAAAGCCAAATGGCTAATGTGAGAT
1 GTGTATGAGATGGATATGAGGTAAAGCCAAATGGCTAATGCGAAAC
*
44831542 ATGTATGAGATG
1 GTGTATGAGATG
44831554 TGTGTATATA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.33, C:0.08, G:0.33, T:0.27
Consensus pattern (46 bp):
GTGTATGAGATGGATATGAGGTAAAGCCAAATGGCTAATGCGAAAC
Found at i:44837931 original size:35 final size:35
Alignment explanation
Indices: 44837887--44837959 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
44837877 TCTTTTGTAA
44837887 GTAAGTCATTCAGAAGGTTATTCTTGATGAGTTTT
1 GTAAGTCATTCAGAAGGTTATTCTTGATGAGTTTT
* *
44837922 GTAAGTCATTTAGAAGGTTATTCTTGATGATTTTT
1 GTAAGTCATTCAGAAGGTTATTCTTGATGAGTTTT
44837957 GTA
1 GTA
44837960 TTTTTGGACC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.45
Consensus pattern (35 bp):
GTAAGTCATTCAGAAGGTTATTCTTGATGAGTTTT
Found at i:44844352 original size:39 final size:40
Alignment explanation
Indices: 44844252--44844397 Score: 165
Period size: 40 Copynumber: 3.7 Consensus size: 40
44844242 TCGAATGATG
* * *
44844252 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTG-TAAGTTACTAAA
* * * *
44844292 TCCGGACTAGGAT-CCGAAGGCATTCGTGTGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGTAAGTTACTAAA
44844332 TCCGGGCTAAG-CCCGAAGGCATT-GTGTAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGTAAGTTACTAAA
* *
44844370 CCCGGGTTAAGTCCCGAAGGCATTCGTG
1 TCCGGGCTAAGTCCCGAAGGCATTCGTG
44844398 CGAGTCGCTA
Statistics
Matches: 88, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
38 22 0.25
39 23 0.26
40 37 0.42
41 6 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGTAAGTTACTAAA
Found at i:44844391 original size:78 final size:80
Alignment explanation
Indices: 44844252--44844402 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 80
44844242 TCGAATGATG
* * * *
44844252 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
*
44844317 GTGTGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
44844332 TCCGGGCTAAG-CCCGAAGGCATTGTG-TAAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
44844394 CGTGCGAGT
65 CGTGCGAGT
44844403 CGCTATAACC
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 36 0.58
79 14 0.23
80 11 0.18
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:44848009 original size:34 final size:34
Alignment explanation
Indices: 44847966--44848036 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
44847956 CCCAAATAGG
44847966 TAAGTACGAATCATGAACCTCGTGTGCCATATCC
1 TAAGTACGAATCATGAACCTCGTGTGCCATATCC
44848000 TAAGTACGAATCATGAACCTCGTGTGCCATATCC
1 TAAGTACGAATCATGAACCTCGTGTGCCATATCC
44848034 TAA
1 TAA
44848037 AGCGATGACG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (34 bp):
TAAGTACGAATCATGAACCTCGTGTGCCATATCC
Found at i:44849941 original size:14 final size:14
Alignment explanation
Indices: 44849922--44849949 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
44849912 TTTGAAAGTG
44849922 TATATATATACATA
1 TATATATATACATA
44849936 TATATATATACATA
1 TATATATATACATA
44849950 AGTATGCCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TATATATATACATA
Found at i:44850480 original size:27 final size:28
Alignment explanation
Indices: 44850424--44850494 Score: 126
Period size: 27 Copynumber: 2.6 Consensus size: 28
44850414 AAATTGGTAC
44850424 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
44850452 AGCACTAACTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
44850479 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
44850495 AATCACTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 25 0.61
28 16 0.39
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:44854262 original size:16 final size:16
Alignment explanation
Indices: 44854241--44854286 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
44854231 ACTCCTATTT
44854241 TTTTTATTTATTCTTA
1 TTTTTATTTATTCTTA
44854257 TTTTTATTTTATT-TTA
1 TTTTTA-TTTATTCTTA
*
44854273 -TTTTATTTTTTCTT
1 TTTTTATTTATTCTT
44854287 TTGATTCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 5 0.19
15 7 0.26
16 9 0.33
17 6 0.22
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTATTTATTCTTA
Found at i:44854268 original size:5 final size:5
Alignment explanation
Indices: 44854236--44854330 Score: 76
Period size: 5 Copynumber: 19.2 Consensus size: 5
44854226 CATTGACTCC
*
44854236 TATTT T-TTT TA-TT TATTCT TATTTT TATTT TATTT TATTT TATTT T-TTC
1 TATTT TATTT TATTT TATT-T TA-TTT TATTT TATTT TATTT TATTT TATTT
* *
44854285 T-TTT GATTCT TATTT TCATTT CAATTT TA--T TATTT TATTT TATTT
1 TATTT TATT-T TATTT T-ATTT -TATTT TATTT TATTT TATTT TATTT
44854330 T
1 T
44854331 GAAAGACATA
Statistics
Matches: 74, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
3 3 0.04
4 13 0.18
5 38 0.51
6 18 0.24
7 2 0.03
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:44854294 original size:40 final size:41
Alignment explanation
Indices: 44854236--44854332 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 41
44854226 CATTGACTCC
* * *
44854236 TATTTTTTTTATTTATTCTTATTTTTATTT-TATTTTATT-T
1 TATTTTTTTT-TTGATTCTTATTTTCATTTCAATTTTATTAT
44854276 TATTTTTTCTTTTGATTCTTATTTTCATTTCAATTTTATTAT
1 TATTTTTT-TTTTGATTCTTATTTTCATTTCAATTTTATTAT
44854318 T-TTATTTTATTTTGA
1 TATT-TTTT-TTTTGA
44854333 AAGACATATC
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
40 25 0.51
41 12 0.24
42 12 0.24
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (41 bp):
TATTTTTTTTTTGATTCTTATTTTCATTTCAATTTTATTAT
Found at i:44869046 original size:6 final size:6
Alignment explanation
Indices: 44869035--44869069 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
44869025 TAATTTCTCT
44869035 TTTTTC TTTTTC TTTTCTCC TTTTTC TTTTTC TTT
1 TTTTTC TTTTTC TTTT-T-C TTTTTC TTTTTC TTT
44869070 CTATTTCGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.74
7 2 0.07
8 5 0.19
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:44869053 original size:20 final size:20
Alignment explanation
Indices: 44869028--44869069 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
44869018 CAAATCCTAA
*
44869028 TTTCTCTTTTTTCTTTTTCT
1 TTTCTCCTTTTTCTTTTTCT
44869048 TTTCTCCTTTTTCTTTTTCT
1 TTTCTCCTTTTTCTTTTTCT
44869068 TT
1 TT
44869070 CTATTTCGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTCTCCTTTTTCTTTTTCT
Found at i:44871679 original size:30 final size:31
Alignment explanation
Indices: 44871645--44871703 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
44871635 ATTCAATCAA
44871645 AATTCAAATTAATA-AATAATTTCACTTTTC
1 AATTCAAATTAATATAATAATTTCACTTTTC
* * *
44871675 AATTCTAATTGATATCATAATTTCACTTT
1 AATTCAAATTAATATAATAATTTCACTTT
44871704 CTATACATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.46
Consensus pattern (31 bp):
AATTCAAATTAATATAATAATTTCACTTTTC
Found at i:44872388 original size:22 final size:20
Alignment explanation
Indices: 44872363--44872417 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 20
44872353 TCCCCTATTC
*
44872363 TTCTCTGTTTCGTTTGCTTTGT
1 TTCTCTGTTTCATTT-C-TTGT
*
44872385 TTCTCTTTTTCATTTCTTGT
1 TTCTCTGTTTCATTTCTTGT
44872405 TTCT-T-TTTCATTT
1 TTCTCTGTTTCATTT
44872418 ATTATTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.26
19 1 0.03
20 8 0.26
21 1 0.03
22 13 0.42
ACGTcount: A:0.04, C:0.18, G:0.09, T:0.69
Consensus pattern (20 bp):
TTCTCTGTTTCATTTCTTGT
Found at i:44874703 original size:21 final size:22
Alignment explanation
Indices: 44874662--44874703 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
44874652 GTCAAGAAGG
*
44874662 CCACACGGGTGTGTCGCCCCTC
1 CCACACGGGCGTGTCGCCCCTC
44874684 CCACACGGGCGTGT-GCCCCT
1 CCACACGGGCGTGTCGCCCCT
44874704 ATTTCAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.10, C:0.45, G:0.29, T:0.17
Consensus pattern (22 bp):
CCACACGGGCGTGTCGCCCCTC
Found at i:44876622 original size:42 final size:41
Alignment explanation
Indices: 44876554--44876649 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 41
44876544 TAAATATTTG
* * *
44876554 ATTGTTGATAATATTT--TTAATCTAAAATTTTGACATTTTT
1 ATTGTTAATAACATTTCATTAATATAAAATTTT-ACATTTTT
* *
44876594 ATTTTTAATAACATTTCATTAATATAAAATTTTATATTTTT
1 ATTGTTAATAACATTTCATTAATATAAAATTTTACATTTTT
44876635 ATTGTTAATAACATT
1 ATTGTTAATAACATT
44876650 AATACATTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 13 0.27
41 21 0.44
42 14 0.29
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.54
Consensus pattern (41 bp):
ATTGTTAATAACATTTCATTAATATAAAATTTTACATTTTT
Found at i:44880157 original size:57 final size:57
Alignment explanation
Indices: 44880071--44880187 Score: 155
Period size: 57 Copynumber: 2.1 Consensus size: 57
44880061 GAAATGGTGT
* * *
44880071 AAATAGAGAATTGGTAACATTGGGAAATGATTATAGTTTTCTCCAAAATGAAAATGA
1 AAATAGAGAAATGGTAACATTGGGAAATGAATACAGTTTTCTCCAAAATGAAAATGA
* * * *
44880128 AAATGGAGAAATGG-AACCATTTGGAAATGAATGCGGTTTTCTCCAAAATGAAAATGA
1 AAATAGAGAAATGGTAA-CATTGGGAAATGAATACAGTTTTCTCCAAAATGAAAATGA
44880185 AAA
1 AAA
44880188 ATGAAAAAGA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
56 2 0.04
57 50 0.96
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (57 bp):
AAATAGAGAAATGGTAACATTGGGAAATGAATACAGTTTTCTCCAAAATGAAAATGA
Found at i:44883579 original size:27 final size:27
Alignment explanation
Indices: 44883539--44883650 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
44883529 AGGAAGCGTC
*
44883539 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
44883566 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
44883593 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * ** *
44883621 CTAGTGACTCTATCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
44883647 CTGG
1 CTGG
44883651 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.10
27 49 0.68
28 16 0.22
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:44883645 original size:54 final size:54
Alignment explanation
Indices: 44883539--44883650 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
44883529 AGGAAGCGTC
* * * *
44883539 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTACCACATATATCTGTT
* * *
44883593 CTGGTGGCTCTGCCACGATTATCTGTATCTAGTGACTCTATCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTAGTGACTCTACCACATATATCTGTT
44883647 CTGG
1 CTGG
44883651 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 34 0.68
55 16 0.32
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTACCACATATATCTGTT
Found at i:44889340 original size:27 final size:27
Alignment explanation
Indices: 44889300--44889411 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
44889290 AGGAAACGTC
*
44889300 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
44889327 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
* *
44889354 CTGGTGGCTCTGCCACGATGATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * * *
44889382 CTAGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
44889408 CTGG
1 CTGG
44889412 CTGCCATGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.08
27 48 0.68
28 17 0.24
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:44889406 original size:54 final size:54
Alignment explanation
Indices: 44889300--44889411 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
44889290 AGGAAACGTC
* * * *
44889300 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATGATCTGATCTAGTGACTCTGCCACATATATCTGTT
* * *
44889354 CTGGTGGCTCTGCCACGATGATCTGTATCTAGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATGATCTG-ATCTAGTGACTCTGCCACATATATCTGTT
44889408 CTGG
1 CTGG
44889412 CTGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATGATCTGATCTAGTGACTCTGCCACATATATCTGTT
Found at i:44892019 original size:30 final size:30
Alignment explanation
Indices: 44891951--44892020 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
44891941 TTTTACTTTT
* *
44891951 ATGACCGTGTGTCACACACAGTCGTGTACC
1 ATGACCGTGTGTCACACACAGCCGAGTACC
*
44891981 ATGACCGTGTGTCACACACGGCCGAG-ACAC
1 ATGACCGTGTGTCACACACAGCCGAGTAC-C
*
44892011 ATGCCCGTGT
1 ATGACCGTGT
44892021 CTCTGCCCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 2 0.06
30 33 0.94
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.20
Consensus pattern (30 bp):
ATGACCGTGTGTCACACACAGCCGAGTACC
Found at i:44893067 original size:24 final size:25
Alignment explanation
Indices: 44893025--44893093 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 25
44893015 TCAGCTGATG
44893025 AACAGTAAGCTC-CATCGAGCTGGA
1 AACAGTAAGCTCTCATCGAGCTGGA
* * *
44893049 AACAGTAAGCTCTGA-CGAGTTGGG
1 AACAGTAAGCTCTCATCGAGCTGGA
* *
44893073 AACAATAAGCTCTTAT-GAGCT
1 AACAGTAAGCTCTCATCGAGCT
44893094 AATATATCAG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
24 36 0.97
25 1 0.03
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (25 bp):
AACAGTAAGCTCTCATCGAGCTGGA
Found at i:44893279 original size:17 final size:19
Alignment explanation
Indices: 44893248--44893293 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
44893238 ATAAGGCATT
44893248 TTTATTTCAAGTACAT-CA
1 TTTATTTCAAGTACATACA
*
44893266 TTTA-TTCAATTACATACA
1 TTTATTTCAAGTACATACA
*
44893284 TTCATTTCAA
1 TTTATTTCAA
44893294 ATAATTACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.42
18 9 0.38
19 5 0.21
ACGTcount: A:0.35, C:0.17, G:0.02, T:0.46
Consensus pattern (19 bp):
TTTATTTCAAGTACATACA
Found at i:44899467 original size:24 final size:24
Alignment explanation
Indices: 44899432--44899490 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
44899422 TAAGCTGATG
*
44899432 AACAGTAAGCTCTATCGAGCTAGA
1 AACAGTAAGCTCTAACGAGCTAGA
* *
44899456 AATAGTAAGCTCTAACGAGCTGGA
1 AACAGTAAGCTCTAACGAGCTAGA
44899480 AACAGTAAGCT
1 AACAGTAAGCT
44899491 TTTATGAGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (24 bp):
AACAGTAAGCTCTAACGAGCTAGA
Found at i:44899499 original size:24 final size:24
Alignment explanation
Indices: 44899432--44899501 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
44899422 TAAGCTGATG
* *
44899432 AACAGTAAGC-TCTATCGAGCTAGA
1 AACAGTAAGCTTTTAT-GAGCTGGA
* * * *
44899456 AATAGTAAGCTCTAACGAGCTGGA
1 AACAGTAAGCTTTTATGAGCTGGA
44899480 AACAGTAAGCTTTTATGAGCTG
1 AACAGTAAGCTTTTATGAGCTG
44899502 ATATATTGGT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
24 34 0.97
25 1 0.03
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (24 bp):
AACAGTAAGCTTTTATGAGCTGGA
Found at i:44905465 original size:26 final size:26
Alignment explanation
Indices: 44905429--44905538 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
44905419 TGATACAAAT
44905429 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
44905455 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
44905481 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
44905507 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
44905533 TGATAA
1 TGATAA
44905539 GAATTTCATA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:44907032 original size:26 final size:26
Alignment explanation
Indices: 44907003--44907055 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
44906993 TTTACAGTTT
44907003 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
44907029 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
44907055 T
1 T
44907056 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:44911241 original size:26 final size:26
Alignment explanation
Indices: 44911205--44911314 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
44911195 TGATACAAAT
44911205 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
44911231 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
44911257 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
44911283 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
44911309 TGATAA
1 TGATAA
44911315 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:44912807 original size:26 final size:26
Alignment explanation
Indices: 44912778--44912830 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
44912768 TTTACAGTTT
44912778 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
44912804 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
44912830 T
1 T
44912831 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:44921286 original size:39 final size:40
Alignment explanation
Indices: 44921186--44921367 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
44921176 TCGAATGATG
* * *
44921186 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
44921226 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
44921266 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
44921304 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
44921345 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
44921368 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:44921331 original size:78 final size:80
Alignment explanation
Indices: 44921186--44921367 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
44921176 TCGAATGATG
* * * *
44921186 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
44921251 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
44921266 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
44921328 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
44921345 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
44921368 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:44929207 original size:24 final size:24
Alignment explanation
Indices: 44929177--44929419 Score: 423
Period size: 24 Copynumber: 10.1 Consensus size: 24
44929167 GAATGTGACT
* *
44929177 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
44929201 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
44929225 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
44929249 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
44929273 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
44929297 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
44929321 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
44929345 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
44929369 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
44929393 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
44929417 ATA
1 ATA
44929420 TGGTCTTTGC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 213 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:44937217 original size:24 final size:24
Alignment explanation
Indices: 44937187--44937451 Score: 435
Period size: 24 Copynumber: 11.1 Consensus size: 24
44937177 GAATGTGACT
* *
44937187 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
* *
44937211 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
44937235 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
44937259 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
44937283 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
44937307 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
44937331 ATAGTGAATCGCACAC-TAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
44937354 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
44937378 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
44937402 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
44937426 ATAGTAAA-CGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
44937449 ATA
1 ATA
44937452 TGGTCTTTGC
Statistics
Matches: 234, Mismatches: 6, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
23 40 0.17
24 194 0.83
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.20
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:44937392 original size:95 final size:95
Alignment explanation
Indices: 44937187--44937451 Score: 433
Period size: 95 Copynumber: 2.8 Consensus size: 95
44937177 GAATGTGACT
* * ** * *
44937187 ATAGCAAATCGCACACATAGTGCTATAGCAAATCGCACACATAGTGCTATAGCAAATCGCACACA
1 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAG-TAATCGCACACA
44937252 TAGTGCCATAGTAAATCGCACACATAGTGCC
65 TAGTGCCATAGTAAATCGCACACATAGTGCC
44937283 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTGAATCGCACAC-
1 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGT-AATCGCACACA
44937347 TAGTGCCATAGTAAATCGCACACATAGTGCC
65 TAGTGCCATAGTAAATCGCACACATAGTGCC
* *
44937378 ATAGTGAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAACGCACACAT
1 ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAATCGCACACAT
44937443 AGTGCCATA
66 AGTGCCATA
44937452 TGGTCTTTGC
Statistics
Matches: 159, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
94 9 0.06
95 93 0.58
96 57 0.36
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.20
Consensus pattern (95 bp):
ATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAATCGCACACAT
AGTGCCATAGTAAATCGCACACATAGTGCC
Found at i:44942469 original size:2 final size:2
Alignment explanation
Indices: 44942462--44942492 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
44942452 ATAGGGAAAA
*
44942462 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44942493 AAAGTATTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:44944852 original size:60 final size:60
Alignment explanation
Indices: 44944752--44944888 Score: 145
Period size: 60 Copynumber: 2.3 Consensus size: 60
44944742 AACTGTGTTG
* ** * *
44944752 ATATGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCTATGGCCCAGATTGATACTA
1 ATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTATCACCCAAATTAATACTA
* * *
44944812 ATATGGGCTAGGCCCAATATA-CTCTGA-TACTGTAA-GGGGCTATCACCCAAATTAATATTG
1 ATATGGGCTAGGCCCAATATATCTC-GACT--TGTAATAGGGCTATCACCCAAATTAATACTA
44944872 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
44944889 GTTAACACTA
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 4 0.06
60 49 0.75
61 12 0.18
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTATCACCCAAATTAATACTA
Found at i:44946925 original size:11 final size:11
Alignment explanation
Indices: 44946909--44946934 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
44946899 AAGATTGGCA
44946909 TAAAAATTGGG
1 TAAAAATTGGG
44946920 TAAAAATTGGG
1 TAAAAATTGGG
44946931 TAAA
1 TAAA
44946935 TTTTATGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (11 bp):
TAAAAATTGGG
Found at i:44960283 original size:27 final size:26
Alignment explanation
Indices: 44960246--44960360 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
44960236 AGCATGGCTG
* *
44960246 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
44960272 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
44960300 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
44960327 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
44960354 CCAGAAC
1 CCAGAAC
44960361 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:44960305 original size:54 final size:54
Alignment explanation
Indices: 44960246--44960360 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
44960236 AGCATGGCTG
*
44960246 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
44960300 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
44960354 CCAGAAC
1 CCAGAAC
44960361 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:44960492 original size:26 final size:27
Alignment explanation
Indices: 44960463--44960538 Score: 91
Period size: 26 Copynumber: 2.8 Consensus size: 27
44960453 CAAAATTAAC
*
44960463 CCTACGGGTATAACAGTAATTTTGC-A
1 CCTACGGGTATAACAGTAATTTTCCAA
*
44960489 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTACGGGTATAACAGTAATTTTCCA-A
* * *
44960517 CATACGGGTATTATAGTAATTT
1 CCTACGGGTATAACAGTAATTT
44960539 AGCTACTTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.55
28 19 0.45
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (27 bp):
CCTACGGGTATAACAGTAATTTTCCAA
Found at i:44962006 original size:26 final size:26
Alignment explanation
Indices: 44961970--44962079 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
44961960 CATGAAATTC
44961970 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
44961996 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
44962022 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
44962048 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
44962074 TTATCA
1 TTATCA
44962080 AATTGTACCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:44964387 original size:2 final size:2
Alignment explanation
Indices: 44964382--44964417 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
44964372 GAATGTGAGA
44964382 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44964418 GAAAGCACTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44967017 original size:18 final size:17
Alignment explanation
Indices: 44966994--44967039 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
44966984 GTACTGTTTC
44966994 TAAAAAATATTTTTGAAG
1 TAAAAAATATTTTTG-AG
*
44967012 TAAAAAATACTTTTGAG
1 TAAAAAATATTTTTGAG
44967029 -ATAAAAATATT
1 TA-AAAAATATT
44967040 ATTAAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 1 0.04
17 10 0.40
18 14 0.56
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (17 bp):
TAAAAAATATTTTTGAG
Found at i:44967490 original size:178 final size:176
Alignment explanation
Indices: 44967173--44967529 Score: 547
Period size: 178 Copynumber: 2.0 Consensus size: 176
44967163 TTTTTGAACC
*
44967173 AAAAGCACTTTTGAGAAGTAATGCTAAACTAAGCCTTAAATGAGAACGATAACATAAGTGCATTT
1 AAAAGCACTTTTGAGAAGTAATGCTAAACTAAGCCTTAAATGAGAACGATAACATAAGTGCATCT
* * *
44967238 AGTGTTATGGTGCATTTAAGGGGTAAGAAAAAAGGGATTGAGACAAAATTTTGGAATCAATAATA
66 AGTGTTATGGTGCATTTAAGGAGTAAGAAAAAAAGGATTGAGACAAAATTTTGGAATCAACAATA
*
44967303 A-CGAAAAA-AAGAAGAAAGGCTCAAAGGGAATCAGTGCAAAAGTGAA
131 ACCAAAAAAGAAGAAGAAAGGCTCAAAGGG--TCAGTGCAAAAGTGAA
* * *
44967349 AAAAGTCACCTTTTGAGAAGTAATGCTACACTAAGCCTTAAATGAGAACGATAACGTAAGTGCGT
1 AAAAG-CA-CTTTTGAGAAGTAATGCTAAACTAAGCCTTAAATGAGAACGATAACATAAGTGCAT
* *
44967414 CTAGTGTTATGGTGCATTTAAGGAGTAAGAAAAAAAGGATTGAGATAGAATTTTGGAATCAACAA
64 CTAGTGTTATGGTGCATTTAAGGAGTAAGAAAAAAAGGATTGAGACAAAATTTTGGAATCAACAA
44967479 TAACCAAAAAAAAAGAAGAAGAAAGGCTCAAAGGGTCAGTGCAAAAGTGAA
129 TAACC---AAAAAAGAAGAAGAAAGGCTCAAAGGGTCAGTGCAAAAGTGAA
44967530 GAAGCCATTC
Statistics
Matches: 164, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
176 5 0.03
177 2 0.01
178 115 0.70
179 1 0.01
181 16 0.10
182 5 0.03
183 20 0.12
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.22
Consensus pattern (176 bp):
AAAAGCACTTTTGAGAAGTAATGCTAAACTAAGCCTTAAATGAGAACGATAACATAAGTGCATCT
AGTGTTATGGTGCATTTAAGGAGTAAGAAAAAAAGGATTGAGACAAAATTTTGGAATCAACAATA
ACCAAAAAAGAAGAAGAAAGGCTCAAAGGGTCAGTGCAAAAGTGAA
Found at i:44978511 original size:43 final size:45
Alignment explanation
Indices: 44978446--44978564 Score: 147
Period size: 45 Copynumber: 2.7 Consensus size: 45
44978436 TTTTCTCAAA
* *
44978446 TCACCGGCATT-TCGCCTGCTAGGCTCG-AGGCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-ATC
*
44978488 TCACCAGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
* * *
44978533 TCACCGGCATTATAGTCTGCTAAGCTCAAAGG
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGG
44978565 GCTGAATAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
42 10 0.15
43 15 0.23
44 7 0.11
45 33 0.50
46 1 0.02
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
Found at i:44978952 original size:43 final size:43
Alignment explanation
Indices: 44978900--44979075 Score: 230
Period size: 43 Copynumber: 4.1 Consensus size: 43
44978890 CCGGCATTAC
*
44978900 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
* * * *
44978943 GCCTACTAGGCACGGAGGCCCGAACACATATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
* **
44978986 GCCTGCTAGGCACGAAGGCCTGAATACAGGTCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
* * * *
44979029 GCCTGCTAGGCACGAAAGCCCGAATATA-AT-ACCAGCACTAG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
44979070 GCCTGC
1 GCCTGC
44979076 AGGATTTATC
Statistics
Matches: 116, Mismatches: 17, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
41 15 0.13
42 1 0.01
43 100 0.86
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
Found at i:44979143 original size:40 final size:40
Alignment explanation
Indices: 44979052--44979181 Score: 160
Period size: 38 Copynumber: 3.4 Consensus size: 40
44979042 GAAAGCCCGA
* * * * * *
44979052 ATATAATACCAGCACTAGGCCTGCAGGATTTATCCTGGAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
44979092 ATA-A-TACCAGCACGAAGCCTGCGGGTTTTAACCCGGAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
44979130 ATATATTACCAGCATGAAGCCTGCGGGATTTAACCCGGAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
44979170 AT-T-TTACCAGCA
1 ATATATTACCAGCA
44979182 TATAGCCTGT
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
38 40 0.50
39 3 0.04
40 37 0.46
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (40 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:44979189 original size:78 final size:80
Alignment explanation
Indices: 44979044--44979206 Score: 185
Period size: 78 Copynumber: 2.1 Consensus size: 80
44979034 CTAGGCACGA
* * *
44979044 AAGCCC-GA-ATATAATACCAGCACTAGGCCTGCAGGATTTATCCTGGATATAATACCAGCACGA
1 AAGCCCGGATATATAATACCAGCACTAAGCCTGCAGGATTTAACCCGGATATAATACCAGCACGA
44979107 AGCCTGCGGGT-TTT
66 AGCCTGCGGGTCTTT
* * ** *
44979121 AA-CCCGGATATATATTACCAGCA-TGAAGCCTGCGGGATTTAACCCGGATATTTTACCAGCA-T
1 AAGCCCGGATATATAATACCAGCACT-AAGCCTGCAGGATTTAACCCGGATATAATACCAGCACG
*
44979183 ATAGCCTGTGGGTCTTT
65 A-AGCCTGCGGGTCTTT
44979200 AAGCCCG
1 AAGCCCG
44979207 AATACACATC
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
76 3 0.04
77 6 0.08
78 53 0.75
79 5 0.07
80 4 0.06
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (80 bp):
AAGCCCGGATATATAATACCAGCACTAAGCCTGCAGGATTTAACCCGGATATAATACCAGCACGA
AGCCTGCGGGTCTTT
Found at i:44981336 original size:3 final size:3
Alignment explanation
Indices: 44981330--44981368 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
44981320 TATATAAAAA
44981330 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
44981369 GCCGAATGCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:44983209 original size:28 final size:27
Alignment explanation
Indices: 44983146--44983215 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
44983136 ATAGTGAGTC
44983146 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
44983173 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
44983201 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44983216 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:44996133 original size:28 final size:27
Alignment explanation
Indices: 44996070--44996139 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
44996060 ATAGTGAGTC
44996070 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
44996097 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
44996125 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44996140 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:45004165 original size:28 final size:27
Alignment explanation
Indices: 45004102--45004171 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
45004092 ATAGTGAGTC
45004102 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
45004129 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
45004157 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45004172 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:45008961 original size:45 final size:44
Alignment explanation
Indices: 45008862--45008982 Score: 131
Period size: 45 Copynumber: 2.8 Consensus size: 44
45008852 TTTTCTCAAA
* * *
45008862 TCACCGGCATT-TCGCCTGCTAGGGTCG-AGGCCCGATATCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGATATCATC
* *
45008904 TCACCAGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-ATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCG-ATA-TCATC
* * *
45008949 TCACCGGCATTATAGTCTGCTAAGCTCAAAGGCC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCC
45008983 TAAATAATCA
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
42 9 0.14
43 14 0.22
44 7 0.11
45 34 0.52
46 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGATATCATC
Found at i:45009794 original size:2 final size:2
Alignment explanation
Indices: 45009787--45009826 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
45009777 CACTTTCAGA
*
45009787 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45009827 TCGACTTTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45010888 original size:3 final size:3
Alignment explanation
Indices: 45010882--45010911 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
45010872 AAAAAAAAAA
45010882 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
45010912 GCCGAATGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:45015550 original size:28 final size:28
Alignment explanation
Indices: 45015518--45015644 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
45015508 ATAATAAGCC
* *
45015518 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATCAAACT
45015546 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
45015574 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** *
45015602 CGCACACTTAGTGCTATACAATTTGAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
45015631 CGCACACTTAGTGC
1 CGCACACTTAGTGC
45015645 CAATTCATGA
Statistics
Matches: 91, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
28 72 0.79
29 19 0.21
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:45045130 original size:50 final size:50
Alignment explanation
Indices: 45045055--45045154 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
45045045 TTTCCCGTGC
45045055 GTAGGTTAGGTACATTTCAGTTTATTGATGACTCAACATCCAACAACAAT
1 GTAGGTTAGGTACATTTCAGTTTATTGATGACTCAACATCCAACAACAAT
45045105 GTAGGTTAGGTACATTTCAGTTTATTGATGACTCAACATCCAACAACAAT
1 GTAGGTTAGGTACATTTCAGTTTATTGATGACTCAACATCCAACAACAAT
45045155 CCCGGACTCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (50 bp):
GTAGGTTAGGTACATTTCAGTTTATTGATGACTCAACATCCAACAACAAT
Found at i:45045300 original size:39 final size:39
Alignment explanation
Indices: 45045257--45045334 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
45045247 GTTTTCAAGT
*
45045257 GAAATAATGGTTATTTGTATATATGGTTGTGGTTGAGGC
1 GAAATAATGGTTATTTGTATATATGGTTATGGTTGAGGC
45045296 GAAATAATGGTTATTTGTATATATGGTTATGGTTGAGGC
1 GAAATAATGGTTATTTGTATATATGGTTATGGTTGAGGC
45045335 TATGTTTGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.27, C:0.03, G:0.29, T:0.41
Consensus pattern (39 bp):
GAAATAATGGTTATTTGTATATATGGTTATGGTTGAGGC
Found at i:45046817 original size:19 final size:19
Alignment explanation
Indices: 45046792--45046843 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
45046782 TCAAATACAT
45046792 TTTTAACATGATTGAAA-A
1 TTTTAACATGATTGAAACA
*
45046810 TGTTTAAC-TCAATTGAAACCA
1 T-TTTAACAT-GATTGAAA-CA
45046831 TTTTAACATGATT
1 TTTTAACATGATT
45046844 TTATCAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
18 2 0.07
19 13 0.48
20 9 0.33
21 3 0.11
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (19 bp):
TTTTAACATGATTGAAACA
Found at i:45048567 original size:26 final size:27
Alignment explanation
Indices: 45048536--45048609 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 27
45048526 AACGGATTAT
*
45048536 TATTAAAGATAATTTAATAATAAATAA
1 TATTAAACATAATTTAATAATAAATAA
* * * *
45048563 T-TTAATCATATTTTAAT-ATAATTAT
1 TATTAAACATAATTTAATAATAAATAA
*
45048588 TATTAAATATAATTTAATAATA
1 TATTAAACATAATTTAATAATA
45048610 TTTTTAATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 7 0.19
26 26 0.70
27 4 0.11
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (27 bp):
TATTAAACATAATTTAATAATAAATAA
Found at i:45049285 original size:28 final size:29
Alignment explanation
Indices: 45049236--45049296 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
45049226 AAGAAAATTT
* **
45049236 AATAAATAATATAAATTTAAAAGTTA-AA
1 AATAAAAAATATAAATAAAAAAGTTATAA
*
45049264 AATAAAAAATATAAATAAAAAATTTATAA
1 AATAAAAAATATAAATAAAAAAGTTATAA
45049293 AATA
1 AATA
45049297 TAAGATCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (29 bp):
AATAAAAAATATAAATAAAAAAGTTATAA
Found at i:45051583 original size:16 final size:16
Alignment explanation
Indices: 45051544--45051602 Score: 84
Period size: 16 Copynumber: 3.6 Consensus size: 16
45051534 CTCCTCCACT
45051544 TCTTCTT-TTTCATTTTC
1 TCTTCTTCTTTC--TTTC
45051561 TTCTTCTTCTTTCTTTC
1 -TCTTCTTCTTTCTTTC
45051578 TCTTCTTCTTTCTTTC
1 TCTTCTTCTTTCTTTC
45051594 TCTTCTTCT
1 TCTTCTTCT
45051603 CTGTTCTCTG
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
16 25 0.62
17 4 0.10
18 7 0.17
19 4 0.10
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (16 bp):
TCTTCTTCTTTCTTTC
Found at i:45053225 original size:42 final size:42
Alignment explanation
Indices: 45053175--45053278 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 42
45053165 GATGCCTCTA
*
45053175 TCCCAGACAGGGTCTTACACG-AAA-TCAAGTACGA-TACCGATG
1 TCCCAGACACGGTCTTACACGTAAACTCAA-T-CGAGT-CCGATG
* * *
45053217 TCCCAGACATGGTCTTATACGTAAATCTCAATCGAGTCCTATG
1 TCCCAGACACGGTCTTACACGTAAA-CTCAATCGAGTCCGATG
45053260 TCCCAGACACGGTCTTACA
1 TCCCAGACACGGTCTTACA
45053279 TGATATCTCA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
42 19 0.36
43 28 0.53
44 2 0.04
45 4 0.08
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (42 bp):
TCCCAGACACGGTCTTACACGTAAACTCAATCGAGTCCGATG
Found at i:45053534 original size:15 final size:15
Alignment explanation
Indices: 45053514--45053543 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
45053504 ACTTTCCCCG
45053514 ATCTAAGTCTGATTT
1 ATCTAAGTCTGATTT
45053529 ATCTAAGTCTGATTT
1 ATCTAAGTCTGATTT
45053544 TCTTTGTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (15 bp):
ATCTAAGTCTGATTT
Found at i:45056040 original size:10 final size:10
Alignment explanation
Indices: 45056025--45056054 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
45056015 TCGTTCCTTT
45056025 TGCTCTCCTA
1 TGCTCTCCTA
45056035 TGCTCTCCTA
1 TGCTCTCCTA
45056045 TGCTCTCCTA
1 TGCTCTCCTA
45056055 AGTATAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.10, C:0.40, G:0.10, T:0.40
Consensus pattern (10 bp):
TGCTCTCCTA
Found at i:45062631 original size:34 final size:34
Alignment explanation
Indices: 45062588--45062668 Score: 117
Period size: 34 Copynumber: 2.4 Consensus size: 34
45062578 GCATGACTAC
45062588 TACTGATACTGTGATAGGCTAAGGCCCTAATGCA
1 TACTGATACTGTGATAGGCTAAGGCCCTAATGCA
* * *
45062622 TACTGATACTATGATGGGCTAAGGCCCTACTGCA
1 TACTGATACTGTGATAGGCTAAGGCCCTAATGCA
*
45062656 TATTTGATACTGT
1 TA-CTGATACTGT
45062669 ACTGAGATGG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 33 0.80
35 8 0.20
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (34 bp):
TACTGATACTGTGATAGGCTAAGGCCCTAATGCA
Found at i:45064066 original size:26 final size:26
Alignment explanation
Indices: 45064037--45064118 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
45064027 TGATACAAAT
*
45064037 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
45064063 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
45064089 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
45064115 TGAT
1 TGAT
45064119 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:45065762 original size:27 final size:27
Alignment explanation
Indices: 45065722--45065808 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
45065712 AGGAAGCTTC
*
45065722 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
45065749 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
45065776 CTGGTGGCTCTACCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
45065803 CTGGTG
1 CTGGTG
45065809 ACTTCGTCAC
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.15
27 44 0.83
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:45065819 original size:27 final size:26
Alignment explanation
Indices: 45065735--45065826 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 26
45065725 GTGGCTATGC
*
45065735 CACAATTATCTG-ATCTGGTGGCTCTGC
1 CACAA-TATCTGTATCTGGTGGCTC-GT
45065762 CACATATATCTGT-TCTGGTGGCTC-T
1 CACA-ATATCTGTATCTGGTGGCTCGT
*
45065787 ACCACAATATCTGTATCTGGTGACTTCGT
1 --CACAATATCTGTATCTGGTGGC-TCGT
45065816 CACAATATCTG
1 CACAATATCTG
45065827 GCAGCCTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
26 8 0.14
27 44 0.79
28 3 0.05
29 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (26 bp):
CACAATATCTGTATCTGGTGGCTCGT
Found at i:45070731 original size:18 final size:18
Alignment explanation
Indices: 45070708--45070747 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
45070698 AAAGTTCTAC
45070708 AAAATTAAGAAAATA-ATA
1 AAAATTAA-AAAATATATA
45070726 AAAATTAAAAAATATATA
1 AAAATTAAAAAATATATA
45070744 AAAA
1 AAAA
45070748 ATCAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AAAATTAAAAAATATATA
Found at i:45070754 original size:19 final size:17
Alignment explanation
Indices: 45070717--45070768 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
45070707 CAAAATTAAG
*
45070717 AAAATAATAAAAATTAA
1 AAAATAATAAAAATCAA
45070734 AAAATATATAAAAAATCAA
1 AAAATA-AT-AAAAATCAA
**
45070753 AATTTTAATAAAAATC
1 AA-AATAATAAAAATC
45070769 TAACATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 6 0.21
18 9 0.31
19 12 0.41
20 2 0.07
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAATAATAAAAATCAA
Found at i:45071136 original size:16 final size:16
Alignment explanation
Indices: 45071091--45071137 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
45071081 ATTTATATTG
45071091 AATTT-TAATTTTTTA
1 AATTTCTAATTTTTTA
* **
45071106 ATTTTCTAAAATTTTA
1 AATTTCTAATTTTTTA
*
45071122 AATTTCTTATTTTTTA
1 AATTTCTAATTTTTTA
45071138 TAAGTTTTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (16 bp):
AATTTCTAATTTTTTA
Found at i:45073702 original size:4 final size:4
Alignment explanation
Indices: 45073685--45073717 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
45073675 TATATCATGC
*
45073685 AAGA AAGG AAGA AAGA AAGA AAGA AAGA AAGA A
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA A
45073718 GATGGATGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:45085452 original size:14 final size:17
Alignment explanation
Indices: 45085419--45085451 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
45085409 AATGTTGATG
45085419 AATGTACTACGATGAAA
1 AATGTACTACGATGAAA
45085436 AATGTACT-C-ATGAAA
1 AATGTACTACGATGAAA
45085451 A
1 A
45085452 TTCTTCAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (17 bp):
AATGTACTACGATGAAA
Found at i:45092947 original size:36 final size:36
Alignment explanation
Indices: 45092900--45092970 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
45092890 AATATCCCAT
*
45092900 AATAATATCCTATAATATCCCATTAGGAATCAAATC
1 AATAATATCCTATAACATCCCATTAGGAATCAAATC
**
45092936 AATAATATCCTATAACATCGTATTAGGAATCAAAT
1 AATAATATCCTATAACATCCCATTAGGAATCAAAT
45092971 TGCTAAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (36 bp):
AATAATATCCTATAACATCCCATTAGGAATCAAATC
Found at i:45098954 original size:13 final size:13
Alignment explanation
Indices: 45098936--45098975 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
45098926 TTGCTAAAAG
45098936 ATAATATCTCATA
1 ATAATATCTCATA
45098949 ATAATATCTCATA
1 ATAATATCTCATA
* *
45098962 ATAACATCACATA
1 ATAATATCTCATA
45098975 A
1 A
45098976 GGAATCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAATATCTCATA
Found at i:45099035 original size:56 final size:58
Alignment explanation
Indices: 45098915--45099074 Score: 225
Period size: 59 Copynumber: 2.8 Consensus size: 58
45098905 AGTAGTTACG
*
45098915 TAGGAATTAAATTGCTAAAAGATAATATCTCATAATAATATCTCATAATAACATCACAT
1 TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATC-CATAATAACATCACAT
* * * *
45098974 AAGGAATCAAATTTCTAAGAGATAATATCTCATAATAATATCC-T-ATAACATCTCAT
1 TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATCCATAATAACATCACAT
* *
45099030 TAGGAATCAAATTGCTAAAATATAATATCCCCATAATAATATCCA
1 TAGGAATCAAATTGCTAAAAGATAATAT-CTCATAATAATATCCA
45099075 AACAATATGG
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
56 35 0.39
57 15 0.17
58 1 0.01
59 38 0.43
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.31
Consensus pattern (58 bp):
TAGGAATCAAATTGCTAAAAGATAATATCTCATAATAATATCCATAATAACATCACAT
Found at i:45101000 original size:27 final size:27
Alignment explanation
Indices: 45100970--45101021 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
45100960 AACATATGTT
* * *
45100970 TAAATAATTTTTAAAAGAAATGAATAC
1 TAAATAAATTTAAAAAGAAAAGAATAC
*
45100997 TAAATAAATTTAAAAATAAAAGAAT
1 TAAATAAATTTAAAAAGAAAAGAAT
45101022 TATATATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.31
Consensus pattern (27 bp):
TAAATAAATTTAAAAAGAAAAGAATAC
Found at i:45103513 original size:11 final size:11
Alignment explanation
Indices: 45103474--45103552 Score: 53
Period size: 11 Copynumber: 7.5 Consensus size: 11
45103464 ACAAATTATT
45103474 AAATT-TTAATA
1 AAATTATTAA-A
*
45103485 AAAATA-TAAA
1 AAATTATTAAA
*
45103495 AAGA-TATTTAA
1 AA-ATTATTAAA
45103506 AAATTATTAAA
1 AAATTATTAAA
45103517 AAATTA-TAAA
1 AAATTATTAAA
*
45103527 ATATTA-T-AA
1 AAATTATTAAA
* *
45103536 AAATCATAAAA
1 AAATTATTAAA
45103547 AAATTA
1 AAATTA
45103553 CAAAATGCAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 6 0.11
10 16 0.30
11 32 0.59
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (11 bp):
AAATTATTAAA
Found at i:45103517 original size:21 final size:20
Alignment explanation
Indices: 45103482--45103538 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
45103472 TTAAATTTTA
45103482 ATAAAAA-TATAAAAAGATATT
1 ATAAAAATTATAAAAA-A-ATT
*
45103503 -TAAAAATTATTAAAAAATT
1 ATAAAAATTATAAAAAAATT
45103522 ATAAAATATTATAAAAA
1 ATAAAA-ATTATAAAAA
45103539 TCATAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 3 0.10
20 12 0.39
21 16 0.52
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
ATAAAAATTATAAAAAAATT
Found at i:45103537 original size:19 final size:18
Alignment explanation
Indices: 45103448--45103547 Score: 67
Period size: 19 Copynumber: 5.2 Consensus size: 18
45103438 GTTGCAAAAG
* *
45103448 AAATTATAAAAGTTATAC
1 AAATTATAAAAATTATAA
**
45103466 AAATTATTAAATTTTAATAA
1 AAATTA-TAAAAATT-ATAA
*
45103486 AAA-TATAAAAAGATATTTAA
1 AAATTAT-AAAA-AT-TATAA
45103506 AAATTATTAAAAAATTATAA
1 AAATTA-T-AAAAATTATAA
*
45103526 AATATTATAAAAATCATAA
1 AA-ATTATAAAAATTATAA
45103545 AAA
1 AAA
45103548 AATTACAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
18 8 0.12
19 23 0.35
20 20 0.30
21 9 0.14
22 6 0.09
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
AAATTATAAAAATTATAA
Found at i:45103549 original size:30 final size:29
Alignment explanation
Indices: 45103484--45103558 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
45103474 AAATTTTAAT
* *
45103484 AAAAATATAAAAAGATATTTAAAAATTATTA
1 AAAAAT-TAAAAA-ATATTTAAAAATCATAA
*
45103515 AAAAATTATAAAATATTATAAAAATCATAA
1 AAAAATTAAAAAATATT-TAAAAATCATAA
*
45103545 AAAAATTACAAAAT
1 AAAAATTAAAAAAT
45103559 GCATCAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
29 5 0.13
30 28 0.72
31 6 0.15
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (29 bp):
AAAAATTAAAAAATATTTAAAAATCATAA
Found at i:45103844 original size:22 final size:22
Alignment explanation
Indices: 45103814--45103855 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
45103804 TCATAAAATC
*
45103814 TTATAATTTTTTTACAATTTTT
1 TTATAATTTTTTTAAAATTTTT
*
45103836 TTATGATTTTTTTAAAATTT
1 TTATAATTTTTTTAAAATTT
45103856 CTAAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATAATTTTTTTAAAATTTTT
Found at i:45104424 original size:13 final size:14
Alignment explanation
Indices: 45104408--45104439 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
45104398 ATCTACATTT
45104408 AAAAAATCTGAAA-
1 AAAAAATCTGAAAC
45104421 AAAAAATCTGAAAC
1 AAAAAATCTGAAAC
45104435 AAAAA
1 AAAAA
45104440 GAAAGCTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.72, C:0.09, G:0.06, T:0.12
Consensus pattern (14 bp):
AAAAAATCTGAAAC
Found at i:45104456 original size:18 final size:17
Alignment explanation
Indices: 45104418--45104457 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
45104408 AAAAAATCTG
*
45104418 AAAAAAAAATCTGAAAC
1 AAAAAAAAAGCTGAAAC
* *
45104435 AAAAAGAAAGCTGTAAC
1 AAAAAAAAAGCTGAAAC
45104452 AAAAAA
1 AAAAAA
45104458 CAAGAAATGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.70, C:0.10, G:0.10, T:0.10
Consensus pattern (17 bp):
AAAAAAAAAGCTGAAAC
Found at i:45104679 original size:25 final size:28
Alignment explanation
Indices: 45104645--45104720 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 28
45104635 TTTCGGCTAG
45104645 GAAGA-AAGAAGGAAAAGAA-AA-AAAA
1 GAAGAGAAGAAGGAAAAGAAGAAGAAAA
*
45104670 -AAGAGAAGAA-GAAGGAGAAGAAGAAAA
1 GAAGAGAAGAAGGAA-AAGAAGAAGAAAA
* *
45104697 GAAGAGAAAAAGGAAAAGGAGAAG
1 GAAGAGAAGAAGGAAAAGAAGAAG
45104721 GAGGCGGCAC
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
24 7 0.17
25 9 0.22
26 2 0.05
27 4 0.10
28 16 0.39
29 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (28 bp):
GAAGAGAAGAAGGAAAAGAAGAAGAAAA
Found at i:45104685 original size:28 final size:29
Alignment explanation
Indices: 45104645--45104708 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 29
45104635 TTTCGGCTAG
45104645 GAAGAAAGAAGGAAAAGAAAAAAAAAAGA
1 GAAGAAAGAAGGAAAAGAAAAAAAAAAGA
* * *
45104674 GAAG-AAGAAGGAGAAGAAGAAAAGAAGA
1 GAAGAAAGAAGGAAAAGAAAAAAAAAAGA
45104702 GAA-AAAG
1 GAAGAAAG
45104709 GAAAAGGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 27 0.87
29 4 0.13
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (29 bp):
GAAGAAAGAAGGAAAAGAAAAAAAAAAGA
Found at i:45105425 original size:147 final size:149
Alignment explanation
Indices: 45105166--45106128 Score: 1149
Period size: 147 Copynumber: 6.6 Consensus size: 149
45105156 ATGGGTTTTT
* * ** *
45105166 TACTAAAATAATATAAAAAAGAAAATACGAAAATAGTATATTTTAAAAAATAAAAT-ATAAAAT-
1 TACTAAAATAATATAAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATCCGAGAATA
* * * *
45105229 ACAAATACAAATAAAAGGCCAAAATCAGTG-TTTTTCACTAAATTAATATAAAAAA-ACTAAAAT
66 AAAAATACAAACAAAGGGCCAAAATCAG-GATTTTTTACTAAATTAATATAAAAAACACTAAAAT
*
45105292 AATACTTTTGAAACATTATG
130 AATACATTTGAAACATTATG
45105312 TACTAAAATAATATAAAAAATAAAATAAGAAAATAGTATA-TTTAAAAAATAAAATCCGAGAATA
1 TACTAAAATAATATAAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATCCGAGAATA
* * *
45105376 AAAAATACAAACAAATGGTCAAAATCAAGATTTTTTACTAAATTAATATAAAAAA-ACTAAAATA
66 AAAAATACAAACAAAGGGCCAAAATCAGGATTTTTTACTAAATTAATATAAAAAACACTAAAATA
*
45105440 ATACTTTTGAAACATTATG
131 ATACATTTGAAACATTATG
*
45105459 TACTAAAATAATATAAAAAATAAAATACA-AAAATAGTATATTTTAAAAAATAAAATACGAGAAT
1 TACTAAAATAATATAAAAAATAAAATA-AGAAAATAGTATATTTTAAAAAATAAAATCCGAGAAT
*
45105523 AAAAAAATAC-AA-AAAGGGCCAAAATTCAGGATTTTTTACCAAATTAATATAAAAAAACACTAA
65 -AAAAAATACAAACAAAGGGCCAAAA-TCAGGATTTTTTACTAAATTAATAT-AAAAAACACTAA
45105586 AATAATACATTT---A-A--A--
127 AATAATACATTTGAAACATTATG
* * *
45105601 -ACTAAAATAATAT-AAAAATAAAATAA-AAAATAGTATAATTGAGAAAATAAAATCC--G-A-A
1 TACTAAAATAATATAAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATCCGAGAATA
* *
45105659 AAAAATACAAATAAAGGGCCAAAATCAGGATTTTTTACTAAATTAATATAAAAAATACTAAAATA
66 AAAAATACAAACAAAGGGCCAAAATCAGGATTTTTTACTAAATTAATATAAAAAACACTAAAATA
45105724 ATACATTTGAAACATTATG
131 ATACATTTGAAACATTATG
* * *
45105743 TATTAAAATAATATAAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCTGAGAAT
1 TACTAAAATAATAT-AAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATCCGAGAAT
* * * * * * *
45105808 AAAAATTACAAATAAATGGCCAAAATTCAGGGTTTTTTTACTAAATTAATATATATATATA-TAA
65 AAAAAATACAAACAAAGGGCCAAAA-TCA-GGATTTTTTACTAAATTAATATA-AAAAACACT-A
* *
45105872 AAACTAAAACA----ATACATT-TG
126 AAA-TAATACATTTGAAACATTATG
* * * *
45105892 AAACTAAAATAATATAAAAAAATAAAATATGAAAATAGTATATTTTAGAAAATAAAAT-C-TG--
1 -TACTAAAATAATAT-AAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATCCGAGAA
*
45105953 -AAAAAATACAAACAAAGAGCCAAAATCAGGATTTTTTACTAAATTAATATAAAAAACACTAAAA
64 TAAAAAATACAAACAAAGGGCCAAAATCAGGATTTTTTACTAAATTAATATAAAAAACACTAAAA
45106017 TAATACATTTGAAACATTAT-
129 TAATACATTTGAAACATTATG
* *
45106037 TGACTAAAATAATATAAAAAAATAAAAT-ATAAAATAGTATA-TTT-AAAAATAAAATCCAAGAA
1 T-ACTAAAATAATAT-AAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATCCGAGAA
45106099 TAAAAAAATACAAACAAAGGGCCAAAATCA
64 T-AAAAAATACAAACAAAGGGCCAAAATCA
45106129 CCGAACAAAA
Statistics
Matches: 714, Mismatches: 57, Indels: 90
0.83 0.07 0.10
Matches are distributed among these distances:
134 32 0.04
135 26 0.04
136 13 0.02
137 2 0.00
138 1 0.00
139 26 0.04
140 13 0.02
141 19 0.03
142 18 0.03
143 39 0.05
144 16 0.02
145 80 0.11
146 70 0.10
147 124 0.17
148 77 0.11
149 18 0.03
150 99 0.14
151 3 0.00
152 23 0.03
153 9 0.01
154 6 0.01
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (149 bp):
TACTAAAATAATATAAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATCCGAGAATA
AAAAATACAAACAAAGGGCCAAAATCAGGATTTTTTACTAAATTAATATAAAAAACACTAAAATA
ATACATTTGAAACATTATG
Found at i:45105491 original size:25 final size:27
Alignment explanation
Indices: 45105463--45105516 Score: 67
Period size: 30 Copynumber: 2.0 Consensus size: 27
45105453 ATTATGTACT
45105463 AAAATA-ATA-TAAAAAATAAAATACA
1 AAAATAGATATTAAAAAATAAAATACA
45105488 AAAATAGTATATTTTAAAAAATAAAATAC
1 AAAATAG-ATA--TTAAAAAATAAAATAC
45105517 GAGAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 6 0.25
27 3 0.12
30 15 0.62
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.26
Consensus pattern (27 bp):
AAAATAGATATTAAAAAATAAAATACA
Found at i:45105997 original size:295 final size:287
Alignment explanation
Indices: 45105166--45106126 Score: 1208
Period size: 295 Copynumber: 3.3 Consensus size: 287
45105156 ATGGGTTTTT
* *
45105166 TACTAAAATAATATAAAAAAGAAAATACGAAAATAGTATATTTTAAAAAATAAAATAT-A-AA-A
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAGAATA
* * * * *
45105228 TACAAATACAAATAAAAGGCCAAAA-TCAGTGTTTTTCACTAAATTAATATA-AAA-AAACTAAA
66 AAAAAATACAAATAAAGGGCCAAAATTCAGGGTTTTTTACTAAATTAATATATAAATAAA--AAA
* * *
45105290 ATAATACTTTTGAA-ACATTATG-TACTAAAATAATATAAAAAATAAAATAAGAAAATAGTATAT
129 CTAAAAC-----AATACATT-TGAAACTAAAATAATATAAAAAATAAAAT-AGAAAATAGTATAT
* * *
45105353 TTAAAAAATAAAATCCGAGAATAAAAAATACAAACAAATGGTCAAAATCAAGATTTTTTACTAAA
187 TTAGAAAATAAAAT-C-AG-A-AAAAAATACAAACAAA-GGCCAAAATCAGGATTTTTTACTAAA
*
45105418 TTAATATAAAAAAACTAAAATAATACTTTTGAAACATTATG
247 TTAATATAAAAAAACTAAAATAATACATTTGAAACATTATG
*
45105459 TACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATAC-GAGAAT
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAAT-CTGAGAAT
* * *
45105523 AAAAAAATAC-AA-AAAGGGCCAAAATTCAGGATTTTTTACCAAATT-A-ATATAAA-AAAACAC
65 AAAAAAATACAAATAAAGGGCCAAAATTCAGGGTTTTTTACTAAATTAATATATAAATAAAAAAC
* * * *
45105583 TAAAATAATACATTTAAAACTAAAATAATAT-AAAAATAAAATAAAAAATAGTATAATTGAGAAA
130 TAAAACAATACATTTGAAACTAAAATAATATAAAAAATAAAATAGAAAATAGTAT-ATTTAGAAA
* *
45105647 ATAAAATCCGAAAAAAATACAAATAAAGGGCCAAAATCAGGATTTTTTACTAAATTAATATAAAA
194 ATAAAATCAGAAAAAAATACAAACAAA-GGCCAAAATCAGGATTTTTTACTAAATTAATATAAAA
45105712 AATACTAAAATAATACATTTGAAACATTATG
258 AA-ACTAAAATAATACATTTGAAACATTATG
* *
45105743 TATTAAAATAATATAAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCTGAGAAT
1 TACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAGAAT
* *
45105808 -AAAAATTACAAATAAATGGCCAAAATTCAGGGTTTTTTTACTAAATTAATATATATATATATAA
65 AAAAAAATACAAATAAAGGGCCAAAATTCAGGG-TTTTTTACTAAATTAATATATA-A-ATA-AA
45105872 AAACTAAAACAATACATTTGAAACTAAAATAATATAAAAAAATAAAATATGAAAATAGTATATTT
126 AAACTAAAACAATACATTTGAAACTAAAATAATAT-AAAAAATAAAATA-GAAAATAGTATA-TT
*
45105937 TAGAAAATAAAATCTG-AAAAAATACAAACAAAGAGCCAAAATCAGGATTTTTTACTAAATTAAT
188 TAGAAAATAAAATCAGAAAAAAATACAAACAAAG-GCCAAAATCAGGATTTTTTACTAAATTAAT
45106001 ATAAAAAACACTAAAATAATACATTTGAAACATTAT-
252 ATAAAAAA-ACTAAAATAATACATTTGAAACATTATG
* **
45106037 TGACTAAAATAATATAAAAAAATAAAATA-TAAAATAGTATA-TTT-AAAAATAAAATCCAAGAA
1 T-ACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAGAA
*
45106099 TAAAAAAATACAAACAAAGGGCCAAAAT
64 TAAAAAAATACAAATAAAGGGCCAAAAT
45106127 CACCGAACAA
Statistics
Matches: 593, Mismatches: 47, Indels: 56
0.85 0.07 0.08
Matches are distributed among these distances:
283 52 0.09
284 50 0.08
285 49 0.08
286 29 0.05
287 41 0.07
288 19 0.03
289 5 0.01
290 1 0.00
291 1 0.00
292 24 0.04
293 117 0.20
294 32 0.05
295 139 0.23
296 34 0.06
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (287 bp):
TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAGAATA
AAAAAATACAAATAAAGGGCCAAAATTCAGGGTTTTTTACTAAATTAATATATAAATAAAAAACT
AAAACAATACATTTGAAACTAAAATAATATAAAAAATAAAATAGAAAATAGTATATTTAGAAAAT
AAAATCAGAAAAAAATACAAACAAAGGCCAAAATCAGGATTTTTTACTAAATTAATATAAAAAAA
CTAAAATAATACATTTGAAACATTATG
Found at i:45108851 original size:26 final size:26
Alignment explanation
Indices: 45108817--45108900 Score: 91
Period size: 26 Copynumber: 3.1 Consensus size: 26
45108807 GGAACAAAAT
45108817 TTAAATACATTACAACATTAATCTAA
1 TTAAATACATTACAACATTAATCTAA
*
45108843 TTAAATACATTA-ATCTAATTGGAA-CATTAA
1 TTAAATACATTACAAC--ATT--AATC--TAA
45108873 TTAAATACATTACAACATTAATCTAA
1 TTAAATACATTACAACATTAATCTAA
45108899 TT
1 TT
45108901 GGAACAAACT
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
25 2 0.04
26 17 0.35
27 5 0.10
28 2 0.04
29 5 0.10
30 15 0.31
31 2 0.04
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (26 bp):
TTAAATACATTACAACATTAATCTAA
Found at i:45108906 original size:17 final size:17
Alignment explanation
Indices: 45108825--45108906 Score: 65
Period size: 17 Copynumber: 4.5 Consensus size: 17
45108815 ATTTAAATAC
*
45108825 ATTACAACATTAATCTA
1 ATTAGAACATTAATCTA
*
45108842 ATTAAATACATTAATCTA
1 ATTAGA-ACATTAATCTA
* *
45108860 ATTGGAACATTAATTAAATA
1 ATTAGAACATTAA-T--CTA
*
45108880 CATTACAACATTAATCTA
1 -ATTAGAACATTAATCTA
*
45108898 ATTGGAACA
1 ATTAGAACA
45108907 AACTTTGTAA
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
17 19 0.37
18 18 0.35
20 3 0.06
21 11 0.22
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (17 bp):
ATTAGAACATTAATCTA
Found at i:45116378 original size:21 final size:21
Alignment explanation
Indices: 45116352--45116406 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
45116342 ACAGCGGTGA
* *
45116352 CGGTGATATTAGTTACTGTAG
1 CGGTGAGATTAGATACTGTAG
*
45116373 CGGTGAGATTGGATACTGTAG
1 CGGTGAGATTAGATACTGTAG
45116394 CGGTGAGATTAGA
1 CGGTGAGATTAGA
45116407 AACAGCGGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.09, G:0.35, T:0.31
Consensus pattern (21 bp):
CGGTGAGATTAGATACTGTAG
Found at i:45117654 original size:24 final size:24
Alignment explanation
Indices: 45117627--45117674 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
45117617 GCTTTCAATG
45117627 TAAGGTTTTGAAAAATCTTTAAAA
1 TAAGGTTTTGAAAAATCTTTAAAA
45117651 TAAGGTTTTGAAAAATCTTTAAAA
1 TAAGGTTTTGAAAAATCTTTAAAA
45117675 AAAAAGTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (24 bp):
TAAGGTTTTGAAAAATCTTTAAAA
Done.