Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 155 of 172
Found at i:45148150 original size:153 final size:150
Alignment explanation
Indices: 45147840--45148417 Score: 689
Period size: 153 Copynumber: 3.8 Consensus size: 150
45147830 TTATTTACTG
* * * * * *
45147840 TATTTTAATTCATTAGGTTTAAAATGTATTAATTTACTGTATTTTTTAAATAAGTTTTAAAAAAA
1 TATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTT-AAAAAA
* * * * *
45147905 TCTTTATTTCGGCCTTTTGTTCGTATTTTTTCCCTAGATTTTATTACTTTAAAAAAA-ATATTAT
65 -CCTTATTTCGACCCTTTGTTCGTATTTTTTTCCGA-ATTTTATTACTTTAAAAAAATATATTAT
45147969 TTTCTAATTTTATTATTTTACAT
128 TTTCTAATTTTATTATTTTACAT
* * *
45147992 TATTTTAGTACATTTTGTTTGAAATGTATTCATTTAGTGTG-TTTTTAAATAAATTTTTAAAAAA
1 TATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAA-TTTTAAAAAA
* *
45148056 TCCTTATTTCGACCCTTTATTCGTATTTTTTTCCGAATTTTTTTACTTTCAATAAAAATATATTA
65 -CCTTATTTCGACCCTTTGTTCGTATTTTTTTCCGAATTTTATTACTTT-AA-AAAAATATATTA
*
45148121 TTTTCGT-ATTTTATTATTTTATAT
127 TTTTC-TAATTTTATTATTTTACAT
*
45148145 TATTTTAGCACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTTAAAAAAC
1 TATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTTAAAAAAC
* * * *
45148210 CATTATTTCGGCCCTTTGTTCGTATTTTTTTTCTCGGATTTTATTACTTTTAAAAAATATAATAT
66 C-TTATTTCGACCCTTTGTTCGTA-TTTTTTTC-CGAATTTTATTACTTTAAAAAAATATATTAT
* *
45148275 TTTATGATTTTATTATTTTACAT
128 TTTCTAATTTTATTATTTTACAT
* * * *
45148298 TATTTTAGTACATTATGTTTGAAATGTAATCATTTAGTGTGTTTTTTAAATAAA--TTAAAAAAA
1 TATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTTAAAAAAC
* * * * * *
45148361 ATTATTTTGACCCTTTGTTCATATTTTTTTATCGGACTTTATTACTTTCAATAAAAA
66 CTTATTTCGACCCTTTGTTCGTATTTTTTT-CCGAATTTTATTACTTT-AA-AAAAA
45148418 AACACACTAA
Statistics
Matches: 372, Mismatches: 41, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
149 22 0.06
150 32 0.09
151 62 0.17
152 45 0.12
153 175 0.47
154 22 0.06
155 14 0.04
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.52
Consensus pattern (150 bp):
TATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTTAAAAAAC
CTTATTTCGACCCTTTGTTCGTATTTTTTTCCGAATTTTATTACTTTAAAAAAATATATTATTTT
CTAATTTTATTATTTTACAT
Found at i:45149796 original size:18 final size:20
Alignment explanation
Indices: 45149755--45149803 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
45149745 GAACTTTATT
45149755 TAATATTGTTATCAAATTTAA
1 TAATATT-TTATCAAATTTAA
45149776 TAATATTTTA-CAAATTT-A
1 TAATATTTTATCAAATTTAA
*
45149794 TAATTTTTTA
1 TAATATTTTA
45149804 AAAGAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 10 0.37
19 7 0.26
20 3 0.11
21 7 0.26
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (20 bp):
TAATATTTTATCAAATTTAA
Found at i:45155338 original size:23 final size:23
Alignment explanation
Indices: 45155308--45155359 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
45155298 GACTCTCGAG
*
45155308 CTGTAATATCCCGAAAATTACTA
1 CTGTAATATCCCAAAAATTACTA
*
45155331 CTGTAATATCTCAAAAATTACTA
1 CTGTAATATCCCAAAAATTACTA
*
45155354 CAGTAA
1 CTGTAA
45155360 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (23 bp):
CTGTAATATCCCAAAAATTACTA
Found at i:45169721 original size:102 final size:102
Alignment explanation
Indices: 45169545--45169827 Score: 408
Period size: 102 Copynumber: 2.8 Consensus size: 102
45169535 TATCGATGAA
* * *
45169545 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTCTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
*
45169610 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
*
45169647 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
* * **
45169712 TAAGTGAAGGCTACTATGTGTATCGAAAATTTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
* * * *
45169749 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-AACTTGATCACGTGTGTAGT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA--TGGTCACATGTGTAGT
*
45169812 ACTATGTGAAGGCTAC
64 ACTAAGTGAAGGCTAC
45169828 TACGTGAACT
Statistics
Matches: 164, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
100 1 0.01
101 4 0.02
102 159 0.97
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
Found at i:45169827 original size:153 final size:145
Alignment explanation
Indices: 45169549--45169972 Score: 447
Period size: 153 Copynumber: 2.9 Consensus size: 145
45169539 GATGAACACG
* * *
45169549 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATT-GTCACATGTCTAGTACTAA
1 TGTGTAGTAC--TGTGAAGGCTACTACGTGTATCGA-AAATAATTGGTCACGTGTGTAGTACTAT
* * * * * * *
45169613 GTGAAGGCTACAATGTGTACCG-AGAAGCTTTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTA
63 GTGAAGGCTACTACGTGAACCGTAAAAAC-TTGATCACGTGTGTAGTACTATGTGAAGGCTACTA
*
45169677 CGTGAATCGATAAATGATGGTCAC-A
127 CGTGAA-C--TAAA-G--GCT-ACTA
* **
45169702 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGAAAATTTTTGGTCACGTGTGTAGTACTATG
1 TGTGTAGTACT--GTGAAGGCTACTACGTGTATCGAAAATAATTGGTCACGTGTGTAGTACTATG
45169767 TGAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACG
64 TGAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACG
*
45169832 TGAACTGAAGGCTACTA
129 TGAACTAAAGGCTACTA
* * * * * *
45169849 CGTG-A--AC--CGAAGGCTACTACGTGAACCGTAAAA-ACTTGATCACGTGTGTAGTACTATGT
1 TGTGTAGTACTGTGAAGGCTACTACGTGTATCG-AAAATAATTGGTCACGTGTGTAGTACTATGT
45169908 GAAGGCTACTACGTGAACCGT-AAAACTTGATCACGTGTGTAGTACTATGT-AGAGGCTACTACG
65 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGA-AGGCTACTACG
45169971 TG
129 TG
45169973 TATTGAATGA
Statistics
Matches: 241, Mismatches: 23, Indels: 28
0.83 0.08 0.10
Matches are distributed among these distances:
138 1 0.00
139 42 0.17
140 61 0.25
141 4 0.02
144 2 0.01
146 3 0.01
147 6 0.02
149 1 0.00
150 3 0.01
151 1 0.00
152 7 0.03
153 106 0.44
154 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (145 bp):
TGTGTAGTACTGTGAAGGCTACTACGTGTATCGAAAATAATTGGTCACGTGTGTAGTACTATGTG
AAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
AACTAAAGGCTACTA
Found at i:45169828 original size:102 final size:99
Alignment explanation
Indices: 45169545--45169972 Score: 400
Period size: 102 Copynumber: 4.3 Consensus size: 99
45169535 TATCGATGAA
* * * *
45169545 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTG-TCACATGTCTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-AATTGATCACATGTGTAGTA
* * *
45169609 CTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
64 CTAAGTGAAGGCTACTACGTGTACCGA-AA-ATTTGGT
* * * *
45169647 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCG-ATAAATGATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAAT--TGATCACATGTGTAGTA
* *
45169711 CTAAGTGAAGGCTACTATGTGTATCGAAAATTTTTGGT
64 CTAAGTGAAGGCTACTACGTGTACCGAAAA--TTTGGT
*
45169749 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAA-TTGATCACATGTGTAGTAC
* * *
45169814 TATGTGAAGGCTACTACGTGAACTG--AA---GG-
65 TAAGTGAAGGCTACTACGTGTACCGAAAATTTGGT
** ** *
45169843 CTAC-TACGT-G-A--A-CCGAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTA
1 C-ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAA-TTGATCACATGTGTAGTA
* * * *
45169902 CTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
64 CTAAGTGAAGGCTACTACGTGTACCG-AAAATTTGGT
45169939 CACGTGTGTAGTACTATGT-AGAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGA-AGGCTACTACGTG
45169973 TATTGAATGA
Statistics
Matches: 278, Mismatches: 26, Indels: 45
0.80 0.07 0.13
Matches are distributed among these distances:
89 70 0.25
90 1 0.00
92 3 0.01
93 1 0.00
94 4 0.01
95 7 0.03
96 4 0.01
97 1 0.00
98 1 0.00
99 3 0.01
100 6 0.02
101 17 0.06
102 155 0.56
103 4 0.01
104 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (99 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAATTGATCACATGTGTAGTACT
AAGTGAAGGCTACTACGTGTACCGAAAATTTGGT
Found at i:45169834 original size:51 final size:49
Alignment explanation
Indices: 45169545--45169972 Score: 353
Period size: 51 Copynumber: 8.7 Consensus size: 49
45169535 TATCGATGAA
* * *
45169545 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATT-GT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG--AAA-AATTGGT
* * * * * * **
45169596 CACATGTCTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGA-AA-AATTGGT
* * *
45169647 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAAAT--TGGT
* * * * * *
45169698 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGAAAATTTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAA--ATTGGT
*
45169749 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAAA-TTGGT
*
45169800 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG---AA--GG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAAATTGGT
** ** *
45169843 CTAC-TACGT-G-A--A-CCGAAGGCTACTACGTGAACCGTAAAAACTTGAT
1 C-ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAAA-TTGGT
* *
45169889 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AAAAATTGGT
45169939 CACGTGTGTAGTACTATGT-AGAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGA-AGGCTACTACGTG
45169973 TATTGAATGA
Statistics
Matches: 305, Mismatches: 48, Indels: 49
0.76 0.12 0.12
Matches are distributed among these distances:
38 19 0.06
39 1 0.00
41 1 0.00
42 3 0.01
43 4 0.01
44 3 0.01
45 3 0.01
46 4 0.01
47 3 0.01
48 1 0.00
49 3 0.01
50 43 0.14
51 212 0.70
52 4 0.01
53 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (49 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAAAAATTGGT
Found at i:45169875 original size:19 final size:19
Alignment explanation
Indices: 45169819--45169876 Score: 107
Period size: 19 Copynumber: 3.1 Consensus size: 19
45169809 AGTACTATGT
*
45169819 GAAGGCTACTACGTGAACT
1 GAAGGCTACTACGTGAACC
45169838 GAAGGCTACTACGTGAACC
1 GAAGGCTACTACGTGAACC
45169857 GAAGGCTACTACGTGAACC
1 GAAGGCTACTACGTGAACC
45169876 G
1 G
45169877 TAAAAACTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.31, C:0.24, G:0.28, T:0.17
Consensus pattern (19 bp):
GAAGGCTACTACGTGAACC
Found at i:45169954 original size:50 final size:51
Alignment explanation
Indices: 45169857--45169972 Score: 209
Period size: 50 Copynumber: 2.3 Consensus size: 51
45169847 TACGTGAACC
45169857 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGT
1 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGT
45169908 GAAGGCTACTACGTGAACCGT-AAAACTTGATCACGTGTGTAGTACTATGT
1 GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGT
45169958 -AGAGGCTACTACGTG
1 GA-AGGCTACTACGTG
45169973 TATTGAATGA
Statistics
Matches: 64, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
49 1 0.02
50 42 0.66
51 21 0.33
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (51 bp):
GAAGGCTACTACGTGAACCGTAAAAACTTGATCACGTGTGTAGTACTATGT
Found at i:45176973 original size:18 final size:19
Alignment explanation
Indices: 45176950--45176993 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
45176940 TTTCTTCATA
45176950 TATAAAT-TCTGGAATTTT
1 TATAAATATCTGGAATTTT
* *
45176968 TATAAATATTTTGAATTTT
1 TATAAATATCTGGAATTTT
*
45176987 TAAAAAT
1 TATAAAT
45176994 GATTTTGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (19 bp):
TATAAATATCTGGAATTTT
Found at i:45176985 original size:19 final size:20
Alignment explanation
Indices: 45176961--45177008 Score: 71
Period size: 19 Copynumber: 2.4 Consensus size: 20
45176951 ATAAATTCTG
*
45176961 GAATTTTTATAAAT-ATTTT
1 GAATTTTTAAAAATGATTTT
45176980 GAATTTTTAAAAATGATTTT
1 GAATTTTTAAAAATGATTTT
45177000 GAATATTTT
1 GAAT-TTTT
45177009 TTTTAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 13 0.50
20 9 0.35
21 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (20 bp):
GAATTTTTAAAAATGATTTT
Found at i:45183159 original size:16 final size:17
Alignment explanation
Indices: 45183129--45183161 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
45183119 ATATAATTAA
*
45183129 AATATATTAATTTATTT
1 AATATATTAAATTATTT
45183146 AATA-ATTAAATTATTT
1 AATATATTAAATTATTT
45183162 GTACAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AATATATTAAATTATTT
Found at i:45183512 original size:21 final size:20
Alignment explanation
Indices: 45183486--45183536 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
45183476 TTTAATTTTA
45183486 ACTTAAATTTAATACTTAATT
1 ACTTAAATTTAATAC-TAATT
*
45183507 ACTTAATTTTTTAATACTAATT
1 ACTTAA--ATTTAATACTAATT
45183529 AC-TAAATT
1 ACTTAAATT
45183537 ATTGTGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 2 0.08
21 9 0.35
22 7 0.27
23 8 0.31
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (20 bp):
ACTTAAATTTAATACTAATT
Found at i:45183530 original size:22 final size:23
Alignment explanation
Indices: 45183493--45183536 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
45183483 TTAACTTAAA
*
45183493 TTTAATACTTAATTACTTAATTT
1 TTTAATACTTAATTACTAAATTT
45183516 TTTAATAC-TAATTACTAAATT
1 TTTAATACTTAATTACTAAATT
45183537 ATTGTGTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTAATACTTAATTACTAAATTT
Found at i:45186077 original size:112 final size:112
Alignment explanation
Indices: 45185880--45186104 Score: 432
Period size: 112 Copynumber: 2.0 Consensus size: 112
45185870 TATACAAACA
45185880 TATCACTATATATTTAACACAAATTATTATTAACATGCCATATTTTATATAAAAATATACAACCT
1 TATCACTATATATTTAACACAAATTATTATTAACATGCCATATTTTATATAAAAATATACAACCT
*
45185945 TCAATATCAGCTATTGAGTCAAACCGTGAAATGAATCTATAAATCGG
66 TCAATACCAGCTATTGAGTCAAACCGTGAAATGAATCTATAAATCGG
*
45185992 TATCACTATATATTTAACACAAATTTTTATTAACATGCCATATTTTATATAAAAATATACAACCT
1 TATCACTATATATTTAACACAAATTATTATTAACATGCCATATTTTATATAAAAATATACAACCT
45186057 TCAATACCAGCTATTGAGTCAAACCGTGAAATGAATCTATAAATCGG
66 TCAATACCAGCTATTGAGTCAAACCGTGAAATGAATCTATAAATCGG
45186104 T
1 T
45186105 TTTGGGTATA
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 111 1.00
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.34
Consensus pattern (112 bp):
TATCACTATATATTTAACACAAATTATTATTAACATGCCATATTTTATATAAAAATATACAACCT
TCAATACCAGCTATTGAGTCAAACCGTGAAATGAATCTATAAATCGG
Found at i:45190366 original size:5 final size:5
Alignment explanation
Indices: 45190356--45190380 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
45190346 GAGACGAACA
45190356 GTTTT GTTTT GTTTT GTTTT GTTTT
1 GTTTT GTTTT GTTTT GTTTT GTTTT
45190381 AAATATTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
GTTTT
Found at i:45201896 original size:86 final size:86
Alignment explanation
Indices: 45201751--45201922 Score: 292
Period size: 86 Copynumber: 2.0 Consensus size: 86
45201741 AAAAGCTCAA
45201751 CTATTAACCCTCCTTTGTAATCACTCATTCCGAAATAACAAAATACTTTAAAAACAATTACTCAA
1 CTATTAACCCTCCTTTGTAATCACTCATTCCGAAATAACAAAATACTTTAAAAACAATTACTCAA
*
45201816 AAGTTCTATTATTTTCTTGTG
66 AAATTCTATTATTTTCTTGTG
* * *
45201837 CTATTAACCC-CCATTTGTAATCACTCATTCTGGAATAACAAAATACTTTCAAAACAATTACTCA
1 CTATTAACCCTCC-TTTGTAATCACTCATTCCGAAATAACAAAATACTTTAAAAACAATTACTCA
45201901 AAAATTCTATTATTTTCTTGTG
65 AAAATTCTATTATTTTCTTGTG
45201923 ATTTTTCTGT
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
85 2 0.02
86 79 0.98
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.37
Consensus pattern (86 bp):
CTATTAACCCTCCTTTGTAATCACTCATTCCGAAATAACAAAATACTTTAAAAACAATTACTCAA
AAATTCTATTATTTTCTTGTG
Found at i:45207660 original size:56 final size:56
Alignment explanation
Indices: 45207595--45207702 Score: 207
Period size: 56 Copynumber: 1.9 Consensus size: 56
45207585 CTTTAAATAT
*
45207595 GTATAATTAAATATGTATTTAAATTTAATTTGAAATTTCTCCCTTTAAAATATTAC
1 GTATAATTAAATATATATTTAAATTTAATTTGAAATTTCTCCCTTTAAAATATTAC
45207651 GTATAATTAAATATATATTTAAATTTAATTTGAAATTTCTCCCTTTAAAATA
1 GTATAATTAAATATATATTTAAATTTAATTTGAAATTTCTCCCTTTAAAATA
45207703 CTAACATTTC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (56 bp):
GTATAATTAAATATATATTTAAATTTAATTTGAAATTTCTCCCTTTAAAATATTAC
Found at i:45211604 original size:44 final size:44
Alignment explanation
Indices: 45211541--45211632 Score: 157
Period size: 44 Copynumber: 2.1 Consensus size: 44
45211531 GCATCACAGG
45211541 GGTTCGAAGGGTATGACGACTCTTGAAAACTGAAGGAGAATGGT
1 GGTTCGAAGGGTATGACGACTCTTGAAAACTGAAGGAGAATGGT
* * *
45211585 GGTTCGAGGGGTATGACGACTCTTGAGAACTGCAGGAGAATGGT
1 GGTTCGAAGGGTATGACGACTCTTGAAAACTGAAGGAGAATGGT
45211629 GGTT
1 GGTT
45211633 GCGACATATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.27, C:0.12, G:0.37, T:0.24
Consensus pattern (44 bp):
GGTTCGAAGGGTATGACGACTCTTGAAAACTGAAGGAGAATGGT
Found at i:45218821 original size:14 final size:14
Alignment explanation
Indices: 45218804--45218838 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
45218794 CTCACATTTC
45218804 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
45218818 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
45218832 TATTTCT
1 T-TTTCT
45218839 GCTTCTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:45218822 original size:19 final size:18
Alignment explanation
Indices: 45218783--45218828 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
45218773 GTACGGTACG
45218783 TTTCTTTTC-TTCTCACA
1 TTTCTTTTCTTTCTCACA
45218800 TTTCTTTTCTTTTCTC-CA
1 TTTCTTTTC-TTTCTCACA
45218818 TTTTCTTTTCT
1 -TTTCTTTTCT
45218829 CCATATTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.35
18 3 0.12
19 14 0.54
ACGTcount: A:0.07, C:0.26, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTCTTTTCTTTCTCACA
Found at i:45219542 original size:20 final size:19
Alignment explanation
Indices: 45219519--45219578 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
45219509 TGAGTATTTG
45219519 TAGTAGGTCGA-AGTTGTAAT
1 TAGTAGGT-GACA-TTGTAAT
*
45219539 TAGTAGGTTACATTGTAAT
1 TAGTAGGTGACATTGTAAT
*
45219558 TAGTAGGTTACATTGTGAAT
1 TAGTAGGTGACATTGT-AAT
45219578 T
1 T
45219579 TGTGTAGTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 24 0.65
20 13 0.35
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.40
Consensus pattern (19 bp):
TAGTAGGTGACATTGTAAT
Found at i:45219556 original size:19 final size:19
Alignment explanation
Indices: 45219532--45219578 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 19
45219522 TAGGTCGAAG
45219532 TTGTAATTAGTAGGTTACA
1 TTGTAATTAGTAGGTTACA
45219551 TTGTAATTAGTAGGTTACA
1 TTGTAATTAGTAGGTTACA
45219570 TTGTGAATT
1 TTGT-AATT
45219579 TGTGTAGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (19 bp):
TTGTAATTAGTAGGTTACA
Found at i:45221367 original size:16 final size:17
Alignment explanation
Indices: 45221348--45221379 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
45221338 TTATTAAATC
45221348 ATATATTTAA-ATTAAA
1 ATATATTTAATATTAAA
45221364 ATATATTTAATATTAA
1 ATATATTTAATATTAA
45221380 TTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTTAATATTAAA
Found at i:45221442 original size:66 final size:62
Alignment explanation
Indices: 45221372--45221594 Score: 203
Period size: 61 Copynumber: 3.6 Consensus size: 62
45221362 AAATATATTT
45221372 AATATTAATTATTTAA-AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTA-TTAAGAATTTTA--TTA-A-TATCATATATTATGATTTGAGTAAATTCATATA
45221436 AG
61 AG
* * * * * * *
45221438 AATATTAATTATTAAGAATTTTATTAA-ATTATATATTTTAATTAT-AATATATTTA-ATAAT
1 AATATTAATTATTAAGAATTTTATTAATATCATATATTATGATT-TGAGTAAATTCATATAAG
* * * *
45221498 AATTATGTTATT-TT-A-TATTTTA-CAATATCATATATTATGGTTTGAGTAAATTCATATAAG
1 AA-TAT-TAATTATTAAGAATTTTATTAATATCATATATTATGATTTGAGTAAATTCATATAAG
*
45221558 AATATTAATTATTAAGAATTTTATTAA-ATTATATATT
1 AATATTAATTATTAAGAATTTTATTAATATCATATATT
45221595 TTAATTAAAA
Statistics
Matches: 124, Mismatches: 22, Indels: 27
0.72 0.13 0.16
Matches are distributed among these distances:
58 7 0.06
59 30 0.24
60 14 0.11
61 40 0.32
62 7 0.06
63 1 0.01
64 3 0.02
65 4 0.03
66 18 0.15
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (62 bp):
AATATTAATTATTAAGAATTTTATTAATATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:45221458 original size:120 final size:120
Alignment explanation
Indices: 45221334--45221626 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
45221324 AATTATTTTA
* * *
45221334 AATTTTATTAAATCATATATTTAAATTAAAATATATTTAATATTAATTAT-TTAAAATTT-TATT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
* *
45221397 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAATATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
45221454 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTATTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
45221519 ACAATATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAATATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
45221574 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
45221627 TAAATATGAT
Statistics
Matches: 162, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
119 4 0.02
120 156 0.96
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAATATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:45221494 original size:15 final size:15
Alignment explanation
Indices: 45221459--45221500 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45221449 TTAAGAATTT
*
45221459 TATTAAATTAT-ATA
1 TATTTAATTATAATA
45221473 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
45221487 TATTTAATAATAAT
1 TATTTAATTATAAT
45221501 TATGTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:45221603 original size:18 final size:17
Alignment explanation
Indices: 45221575--45221609 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45221565 ATTATTAAGA
*
45221575 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
45221592 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
45221610 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:45221723 original size:147 final size:149
Alignment explanation
Indices: 45221563--45221837 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
45221553 ATAAGAATAT
*
45221563 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
45221628 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
45221691 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
*
45221710 TAATTATTAAGAATTTTATTAAATTATATGTTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
45221775 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
45221838 CAATAATCAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 90 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:45221750 original size:18 final size:17
Alignment explanation
Indices: 45221723--45221756 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
45221713 TTATTAAGAA
*
45221723 TTTTATTAAATTATATG
1 TTTTATTAAAATATATG
45221740 TTTTAATTAAAATATAT
1 TTTT-ATTAAAATATAT
45221757 TAAATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTTATTAAAATATATG
Found at i:45222012 original size:16 final size:16
Alignment explanation
Indices: 45221993--45222060 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
45221983 GATTTGCTAT
* *
45221993 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
45222009 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45222025 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45222041 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45222057 TACA
1 TACA
45222061 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:45230095 original size:27 final size:27
Alignment explanation
Indices: 45230065--45230153 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
45230055 AAAGAAGAGA
45230065 AATGATAATAATTAAAGGTAAAGTAAG
1 AATGATAATAATTAAAGGTAAAGTAAG
** ** * **
45230092 AATGATTCTCTTTTTAAATGTAAACAAAG
1 AATGA-T-AATAATTAAAGGTAAAGTAAG
*
45230121 ACTGATAATAATTAAAGGTAAAGTAAG
1 AATGATAATAATTAAAGGTAAAGTAAG
45230148 AATGAT
1 AATGAT
45230154 TCTCTTTTTA
Statistics
Matches: 44, Mismatches: 16, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
27 24 0.55
28 2 0.05
29 18 0.41
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.30
Consensus pattern (27 bp):
AATGATAATAATTAAAGGTAAAGTAAG
Found at i:45230108 original size:29 final size:29
Alignment explanation
Indices: 45230076--45230171 Score: 97
Period size: 29 Copynumber: 3.4 Consensus size: 29
45230066 ATGATAATAA
45230076 TTAAAGGTAAAGTAAGAATGATTCTCTTT
1 TTAAAGGTAAAGTAAGAATGATTCTCTTT
* ** * ** **
45230105 TTAAATGTAAACAAAGACTGA-T-AATAA
1 TTAAAGGTAAAGTAAGAATGATTCTCTTT
45230132 TTAAAGGTAAAGTAAGAATGATTCTCTTT
1 TTAAAGGTAAAGTAAGAATGATTCTCTTT
*
45230161 TTAAATGTAAA
1 TTAAAGGTAAA
45230172 CAAAGACTAA
Statistics
Matches: 48, Mismatches: 17, Indels: 4
0.70 0.25 0.06
Matches are distributed among these distances:
27 18 0.38
28 2 0.04
29 28 0.58
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (29 bp):
TTAAAGGTAAAGTAAGAATGATTCTCTTT
Found at i:45230129 original size:56 final size:56
Alignment explanation
Indices: 45230067--45230179 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
45230057 AGAAGAGAAA
45230067 TGATAATAATTAAAGGTAAAGTAAGAATGATTCTCTTTTTAAATGTAAACAAAGAC
1 TGATAATAATTAAAGGTAAAGTAAGAATGATTCTCTTTTTAAATGTAAACAAAGAC
45230123 TGATAATAATTAAAGGTAAAGTAAGAATGATTCTCTTTTTAAATGTAAACAAAGAC
1 TGATAATAATTAAAGGTAAAGTAAGAATGATTCTCTTTTTAAATGTAAACAAAGAC
45230179 T
1 T
45230180 AAAGTAAGAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.33
Consensus pattern (56 bp):
TGATAATAATTAAAGGTAAAGTAAGAATGATTCTCTTTTTAAATGTAAACAAAGAC
Found at i:45242432 original size:20 final size:20
Alignment explanation
Indices: 45242396--45242433 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45242386 TATATATAGA
*
45242396 TATGTAAACAAATTATAAAC
1 TATGTAAACAAAATATAAAC
45242416 TATGTATAA-AAAATATAA
1 TATGTA-AACAAAATATAA
45242434 GGGTGCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (20 bp):
TATGTAAACAAAATATAAAC
Found at i:45242511 original size:37 final size:37
Alignment explanation
Indices: 45242465--45242535 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
45242455 AAATATGTAC
*
45242465 GTATCTATGTATATATATATGTATAAATTACAAAAAT
1 GTATCTATGTATATATATATATATAAATTACAAAAAT
* *
45242502 GTATGTATGTATATATGTATATATAAATTACAAA
1 GTATCTATGTATATATATATATATAAATTACAAA
45242536 GTATAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (37 bp):
GTATCTATGTATATATATATATATAAATTACAAAAAT
Found at i:45242649 original size:3 final size:3
Alignment explanation
Indices: 45242643--45242671 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
45242633 TAATGATAAT
45242643 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
45242672 TAATAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:45242676 original size:3 final size:3
Alignment explanation
Indices: 45242670--45242715 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
45242660 CAACAACAAC
45242670 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
45242716 CAAGATTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:45244509 original size:17 final size:17
Alignment explanation
Indices: 45244487--45244522 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
45244477 ATGAGATTTC
45244487 TCAATTACAAAAGGACT
1 TCAATTACAAAAGGACT
45244504 TCAATTACAAAAGGACT
1 TCAATTACAAAAGGACT
45244521 TC
1 TC
45244523 GAAGGTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.25
Consensus pattern (17 bp):
TCAATTACAAAAGGACT
Found at i:45245973 original size:25 final size:25
Alignment explanation
Indices: 45245924--45245973 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
45245914 CACAAATTGC
**
45245924 AAGTCTGCTTCTAATAGCATGTTTT
1 AAGTCTGCTTCTAATAGCACATTTT
*
45245949 AAGTCTGCTTCTGATAGCACATTTT
1 AAGTCTGCTTCTAATAGCACATTTT
45245974 TGAATCAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (25 bp):
AAGTCTGCTTCTAATAGCACATTTT
Found at i:45248873 original size:30 final size:30
Alignment explanation
Indices: 45248837--45248896 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
45248827 TTGTTGCCTA
* *
45248837 AGTTTCTTCCCTATTCATCTATGGAACATG
1 AGTTTCTTCCATATTCATCTATGAAACATG
*
45248867 AGTTTCTTCCATATTCATGTATGAAACATG
1 AGTTTCTTCCATATTCATCTATGAAACATG
45248897 TTCCTTGTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (30 bp):
AGTTTCTTCCATATTCATCTATGAAACATG
Found at i:45255692 original size:37 final size:37
Alignment explanation
Indices: 45255642--45255729 Score: 167
Period size: 37 Copynumber: 2.4 Consensus size: 37
45255632 AAAGATATCC
*
45255642 CATAAATCCCTCAATTTTCTCCCACTTACCCACTACT
1 CATAACTCCCTCAATTTTCTCCCACTTACCCACTACT
45255679 CATAACTCCCTCAATTTTCTCCCACTTACCCACTACT
1 CATAACTCCCTCAATTTTCTCCCACTTACCCACTACT
45255716 CATAACTCCCTCAA
1 CATAACTCCCTCAA
45255730 AATTTTGGCT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.27, C:0.42, G:0.00, T:0.31
Consensus pattern (37 bp):
CATAACTCCCTCAATTTTCTCCCACTTACCCACTACT
Found at i:45269028 original size:103 final size:104
Alignment explanation
Indices: 45268801--45269067 Score: 423
Period size: 103 Copynumber: 2.6 Consensus size: 104
45268791 TTGTATATAA
** *
45268801 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
45268865 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAA-GTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
**
45268906 AGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACTGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
45268970 TTGAAA-TGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAAGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
45269009 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
45269068 ATAACGGTTA
Statistics
Matches: 150, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
103 86 0.57
104 2 0.01
105 61 0.41
106 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAAGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:45274917 original size:19 final size:20
Alignment explanation
Indices: 45274893--45274938 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
45274883 AATATGATGC
45274893 AAAGAAGAG-GAACGAAA-AG
1 AAAGAAGAGAGAA-GAAATAG
45274912 AAAGAA-AGAGAAGAAATAG
1 AAAGAAGAGAGAAGAAATAG
*
45274931 AGAGAAGA
1 AAAGAAGA
45274939 AGGTAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 6 0.26
19 16 0.70
20 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.30, T:0.02
Consensus pattern (20 bp):
AAAGAAGAGAGAAGAAATAG
Found at i:45275371 original size:23 final size:22
Alignment explanation
Indices: 45275345--45275389 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
45275335 GCCCACTACC
*
45275345 CAAACTTAACCCTAAACCCAAAA
1 CAAACATAACCCT-AACCCAAAA
* *
45275368 CAAACATAATCCTAGCCCAAAA
1 CAAACATAACCCTAACCCAAAA
45275390 TTAACCCTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.51, C:0.33, G:0.02, T:0.13
Consensus pattern (22 bp):
CAAACATAACCCTAACCCAAAA
Found at i:45276086 original size:10 final size:10
Alignment explanation
Indices: 45276071--45276096 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
45276061 AAGGGAGCCC
45276071 CTTTCTTTTT
1 CTTTCTTTTT
45276081 CTTTCTTTTT
1 CTTTCTTTTT
45276091 CTTTCT
1 CTTTCT
45276097 GTTCTTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:45278892 original size:7 final size:7
Alignment explanation
Indices: 45278876--45278923 Score: 87
Period size: 7 Copynumber: 6.9 Consensus size: 7
45278866 AAAATAATTG
*
45278876 ATTTGGA
1 ATTTGAA
45278883 ATTTGAA
1 ATTTGAA
45278890 ATTTGAA
1 ATTTGAA
45278897 ATTTGAA
1 ATTTGAA
45278904 ATTTGAA
1 ATTTGAA
45278911 ATTTGAA
1 ATTTGAA
45278918 ATTTGA
1 ATTTGA
45278924 GTCAGTCAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.44
Consensus pattern (7 bp):
ATTTGAA
Found at i:45279992 original size:17 final size:17
Alignment explanation
Indices: 45279970--45280004 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
45279960 ATGTGATTTA
*
45279970 TAAAATTTTAAAAATAT
1 TAAAATTTCAAAAATAT
*
45279987 TAAAATTTCAAATATAT
1 TAAAATTTCAAAAATAT
45280004 T
1 T
45280005 TTAAATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATTTCAAAAATAT
Found at i:45280047 original size:18 final size:20
Alignment explanation
Indices: 45280002--45280047 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
45279992 TTTCAAATAT
* *
45280002 ATTTTAAATTTTTTTAGTGA
1 ATTTTATATGTTTTTAGTGA
*
45280022 ATTGTATATGTTTTT-GT-A
1 ATTTTATATGTTTTTAGTGA
45280040 ATTTTATA
1 ATTTTATA
45280048 ATTTTTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 8 0.36
19 2 0.09
20 12 0.55
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (20 bp):
ATTTTATATGTTTTTAGTGA
Found at i:45280731 original size:19 final size:21
Alignment explanation
Indices: 45280686--45280745 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 21
45280676 TTTTTAAAAA
**
45280686 TATAAATTTTTTTGAA-TTTT
1 TATAAATCATTTTGAATTTTT
45280706 TATAAAT-ATTTTGAATTTTT
1 TATAAATCATTTTGAATTTTT
*
45280726 TA-AAATCAATTT-AATTTTT
1 TATAAATCATTTTGAATTTTT
45280745 T
1 T
45280746 TGTAATTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
19 19 0.53
20 17 0.47
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (21 bp):
TATAAATCATTTTGAATTTTT
Found at i:45281207 original size:19 final size:21
Alignment explanation
Indices: 45281179--45281222 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
45281169 TTTTTGAAAA
* *
45281179 TTTTATAAAT-ATTTTGAATT
1 TTTTATAAATCAATTTAAATT
45281199 TTTTA-AAATCAATTTAAATT
1 TTTTATAAATCAATTTAAATT
45281219 TTTT
1 TTTT
45281223 TGTAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTATAAATCAATTTAAATT
Found at i:45284107 original size:35 final size:35
Alignment explanation
Indices: 45284067--45284139 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
45284057 AATTTAACTG
45284067 AATTAATTTATAAAAGGTTTAATCCAAAAATTGAT
1 AATTAATTTATAAAAGGTTTAATCCAAAAATTGAT
45284102 AATTAATTTATAAAAGGTTTAATCCAAAAATTGAT
1 AATTAATTTATAAAAGGTTTAATCCAAAAATTGAT
45284137 AAT
1 AAT
45284140 ACTTTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.37
Consensus pattern (35 bp):
AATTAATTTATAAAAGGTTTAATCCAAAAATTGAT
Found at i:45285388 original size:9 final size:9
Alignment explanation
Indices: 45285374--45285445 Score: 72
Period size: 9 Copynumber: 7.6 Consensus size: 9
45285364 TTTGGTTAAA
45285374 AATTACCCG
1 AATTACCCG
45285383 AATTACCCG
1 AATTACCCG
*
45285392 AAAATTACCCA
1 --AATTACCCG
*
45285403 AATTACCTG
1 AATTACCCG
*
45285412 AATTGCCCG
1 AATTACCCG
*
45285421 AAAATTACCCA
1 --AATTACCCG
45285432 AATTACCCG
1 AATTACCCG
45285441 AATTA
1 AATTA
45285446 AATCACTACA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
9 36 0.71
11 15 0.29
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:45285397 original size:20 final size:19
Alignment explanation
Indices: 45285373--45285445 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
45285363 TTTTGGTTAA
45285373 AAATTACCCGAATTACCCG
1 AAATTACCCGAATTACCCG
* *
45285392 AAAATTACCCAAATTACCTG
1 -AAATTACCCGAATTACCCG
*
45285412 -AATTGCCCGAAAATTACCC-
1 AAATTACCCG--AATTACCCG
45285431 AAATTACCCGAATTA
1 AAATTACCCGAATTA
45285446 AATCACTACA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
18 12 0.27
20 32 0.73
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.23
Consensus pattern (19 bp):
AAATTACCCGAATTACCCG
Found at i:45285415 original size:29 final size:29
Alignment explanation
Indices: 45285373--45285445 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
45285363 TTTTGGTTAA
45285373 AAATTACCCGAATTACCCGAAAATTACCC
1 AAATTACCCGAATTACCCGAAAATTACCC
* *
45285402 AAATTACCTGAATTGCCCGAAAATTACCC
1 AAATTACCCGAATTACCCGAAAATTACCC
45285431 AAATTACCCGAATTA
1 AAATTACCCGAATTA
45285446 AATCACTACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.23
Consensus pattern (29 bp):
AAATTACCCGAATTACCCGAAAATTACCC
Found at i:45285487 original size:37 final size:37
Alignment explanation
Indices: 45285446--45285558 Score: 192
Period size: 37 Copynumber: 3.1 Consensus size: 37
45285436 ACCCGAATTA
* *
45285446 AATCACTACATGATTAAAAACATTACATAAATCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
*
45285483 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
45285520 AATCACTACATAATTAAAAACATTACATAAGTC-TTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
45285556 AAT
1 AAT
45285559 TAACACATAA
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
36 6 0.08
37 66 0.92
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (37 bp):
AATCACTACATAATTAAAAACATTACATAAGTCTTTG
Found at i:45285494 original size:20 final size:20
Alignment explanation
Indices: 45285469--45285532 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
45285459 TTAAAAACAT
45285469 TACATAAATCTTTGAATCAC
1 TACATAAATCTTTGAATCAC
*** *
45285489 TACAT-AAT-TAAAAAT-AT
1 TACATAAATCTTTGAATCAC
*
45285506 TACATAAGTCTTTGAATCAC
1 TACATAAATCTTTGAATCAC
45285526 TACATAA
1 TACATAA
45285533 TTAAAAACAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 6 0.19
18 6 0.19
19 7 0.22
20 13 0.41
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (20 bp):
TACATAAATCTTTGAATCAC
Found at i:45285511 original size:17 final size:17
Alignment explanation
Indices: 45285489--45285549 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
45285479 TTTGAATCAC
45285489 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
45285506 TACATAAGTCTTTGAATCAC
1 TACATAA-T-TAAAAAT-AT
*
45285526 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
45285543 TACATAA
1 TACATAA
45285550 GTCTTGAATT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 15 0.47
18 4 0.12
19 5 0.16
20 8 0.25
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:45296526 original size:27 final size:27
Alignment explanation
Indices: 45296469--45296528 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
45296459 TTTCTCTTTT
**
45296469 AAAAAATACCTATTATCATAAATATAA
1 AAAAAATACCTAAAATCATAAATATAA
* *
45296496 AAAAAA-ACCTAAAATCCTAAATATTA
1 AAAAAATACCTAAAATCATAAATATAA
*
45296522 GAAAAAT
1 AAAAAAT
45296529 GGCATATACT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.25
Consensus pattern (27 bp):
AAAAAATACCTAAAATCATAAATATAA
Found at i:45297605 original size:2 final size:2
Alignment explanation
Indices: 45297600--45297634 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
45297590 AGCTATCTCT
*
45297600 CA CA CA CA CT CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
45297635 TCTCTCTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.51, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:45299198 original size:17 final size:17
Alignment explanation
Indices: 45299160--45299210 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
45299150 GGACAAAGAA
*
45299160 AGAAAATTTTGGAACTT
1 AGAAAATTTTGAAACTT
*
45299177 AGAAAATTTTGAAATTT
1 AGAAAATTTTGAAACTT
* * *
45299194 GGAAAACTTGGAAACTT
1 AGAAAATTTTGAAACTT
45299211 TAAAAAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.33
Consensus pattern (17 bp):
AGAAAATTTTGAAACTT
Found at i:45299843 original size:152 final size:152
Alignment explanation
Indices: 45299579--45299894 Score: 454
Period size: 152 Copynumber: 2.1 Consensus size: 152
45299569 ACGGCTTGGC
* * *
45299579 ACACGGGCATGTGAGGCCATTTCAAAGGGAACACGACCCGGCACACGAGCGTGTAGTCTGGCCGT
1 ACACGGGCGTGTAAGGCCATTTCAAAGGGAACACGACCCAGCACACGAGCGTGTAGTCTGGCCGT
* *
45299644 GTGACCCAAGTCAGTGAGTTACACAGGGTAGGACACGGGCTGGGACACGACCGTGTGTCTTAAAT
66 GTGACCCAAGTCAGTGAGTTACACAGGGTAGGACACGGGCTGAGACACGACCGTGTGTCCTAAAT
* *
45299709 TTGAATGCCTACACGGCCTGAG
131 TTGAATGCCCACACGACCTGAG
* * * * * *
45299731 ACACGGGCGTGTAAGGCCATTTCGAAGGGAACACGGCCTAGCACAC-AGGCGTGTGGTTTGGTCG
1 ACACGGGCGTGTAAGGCCATTTCAAAGGGAACACGACCCAGCACACGA-GCGTGTAGTCTGGCCG
* * * *
45299795 TGTGACCCAATTCAGTGAGTTACACGGGGTAGGACACGGGCTGAGACACGACCGTGTGTCCTCAT
65 TGTGACCCAAGTCAGTGAGTTACACAGGGTAGGACACGGGCTGAGACACGACCGTGTGTCCTAAA
45299860 TTTGAATGCCCACACGACCTGAG
130 TTTGAATGCCCACACGACCTGAG
*
45299883 ACACAGGCGTGT
1 ACACGGGCGTGT
45299895 CACTTGGCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
151 1 0.01
152 144 0.99
ACGTcount: A:0.24, C:0.25, G:0.32, T:0.19
Consensus pattern (152 bp):
ACACGGGCGTGTAAGGCCATTTCAAAGGGAACACGACCCAGCACACGAGCGTGTAGTCTGGCCGT
GTGACCCAAGTCAGTGAGTTACACAGGGTAGGACACGGGCTGAGACACGACCGTGTGTCCTAAAT
TTGAATGCCCACACGACCTGAG
Found at i:45305564 original size:61 final size:62
Alignment explanation
Indices: 45305484--45305614 Score: 201
Period size: 61 Copynumber: 2.1 Consensus size: 62
45305474 TTGTCCTACT
* * **
45305484 AATTGATTTTCTGTATTATTTCAACGGATTCTTCGCAAGTATTATATATTTATAA-TTTTTA
1 AATTTATTTTCTGTATTATTTCAACAGATTCTTCGCAAGTATTATATATACATAATTTTTTA
* *
45305545 AATTTATTTTCTGTATTATTTCAACAGATTCTTCGTAAGTATTATATGTACATAATTTTTTA
1 AATTTATTTTCTGTATTATTTCAACAGATTCTTCGCAAGTATTATATATACATAATTTTTTA
45305607 AATTTATT
1 AATTTATT
45305615 CAAAAACAAG
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
61 49 0.78
62 14 0.22
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.52
Consensus pattern (62 bp):
AATTTATTTTCTGTATTATTTCAACAGATTCTTCGCAAGTATTATATATACATAATTTTTTA
Found at i:45308926 original size:61 final size:61
Alignment explanation
Indices: 45308795--45308929 Score: 145
Period size: 61 Copynumber: 2.2 Consensus size: 61
45308785 TGAGTAATAT
* * *
45308795 ATTTATAAATTTAGAAACATTTAAATAGTATCTAAAAAAATTAATTTTAAATAGACTTAAAA
1 ATTTATAAATTTAGAAACATGTAAATAGTATATAAAAAAATTAACTTT-AATAGACTTAAAA
* *
45308857 ATTT-TAAATTTAGAAACGTGTAATATA-TTTATAAAAAAACTT-ACTTT-ATAGA-TTAAATTA
1 ATTTATAAATTTAGAAACATGTAA-ATAGTATATAAAAAAA-TTAACTTTAATAGACTTAAA--A
45308917 ATTTATAAATTTA
1 ATTTATAAATTTA
45308930 AAATTTAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
58 5 0.08
59 5 0.08
60 5 0.08
61 39 0.62
62 9 0.14
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.41
Consensus pattern (61 bp):
ATTTATAAATTTAGAAACATGTAAATAGTATATAAAAAAATTAACTTTAATAGACTTAAAA
Found at i:45308935 original size:7 final size:7
Alignment explanation
Indices: 45308916--45308953 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
45308906 AGATTAAATT
45308916 AATTTATA
1 AATTTA-A
45308924 AATTTAA
1 AATTTAA
45308931 AATTTAA
1 AATTTAA
45308938 AATTTAA
1 AATTTAA
*
45308945 AATATAA
1 AATTTAA
45308952 AA
1 AA
45308954 ATAACATGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AATTTAA
Found at i:45309914 original size:17 final size:17
Alignment explanation
Indices: 45309892--45309925 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45309882 ATCCACTAAT
*
45309892 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
45309909 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
45309926 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:45314553 original size:17 final size:17
Alignment explanation
Indices: 45314531--45314564 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45314521 ATCCACTAAT
*
45314531 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
45314548 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
45314565 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:45322929 original size:22 final size:23
Alignment explanation
Indices: 45322886--45322943 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 23
45322876 TCAAAAAATA
*
45322886 TTAAAAATATTTTTATATAATTT
1 TTAAAAATAATTTTATATAATTT
45322909 TTAAAAATAAATTTT-TA-AATTT
1 TTAAAAAT-AATTTTATATAATTT
45322931 TTAAAAATGAATT
1 TTAAAAAT-AATT
45322944 AAATGCTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 17 0.53
23 10 0.31
24 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAAAAATAATTTTATATAATTT
Found at i:45328345 original size:24 final size:24
Alignment explanation
Indices: 45328318--45328365 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
45328308 TATATATATA
*
45328318 TATTA-GTAATAAAATGTTTGATTC
1 TATTATGTAACAAAAT-TTTGATTC
*
45328342 TATTATTTAACAAAATTTTGATTC
1 TATTATGTAACAAAATTTTGATTC
45328366 AAAAACATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (24 bp):
TATTATGTAACAAAATTTTGATTC
Found at i:45344990 original size:19 final size:18
Alignment explanation
Indices: 45344955--45345006 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
45344945 AAAATTTACT
* *
45344955 TATAAAAAAATAAATATG
1 TATAAAAAAACAAATATA
*
45344973 TATATAAAAACAACATATA
1 TATAAAAAAACAA-ATATA
*
45344992 TATAAATAAA-AAATA
1 TATAAAAAAACAAATA
45345007 ATTACAGATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 3 0.11
18 13 0.46
19 12 0.43
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (18 bp):
TATAAAAAAACAAATATA
Found at i:45344992 original size:21 final size:20
Alignment explanation
Indices: 45344929--45345004 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
45344919 AATATACGTG
*
45344929 TATATATATGAATAAAA-AAA
1 TATATATAT-AAAAAAACAAA
* *
45344949 TTTACT-TATAAAAAAATAAA
1 TATA-TATATAAAAAAACAAA
* *
45344969 TATGTATATAAAAACAACATA
1 TATATATATAAAAA-AACAAA
*
45344990 TATATAAATAAAAAA
1 TATATATATAAAAAA
45345005 TAATTACAGA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
19 7 0.16
20 20 0.45
21 17 0.39
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (20 bp):
TATATATATAAAAAAACAAA
Found at i:45354439 original size:51 final size:51
Alignment explanation
Indices: 45354363--45354461 Score: 189
Period size: 51 Copynumber: 1.9 Consensus size: 51
45354353 AAAGTACAAC
45354363 CTTGCAAATGTGATAATCACAGTTTGGAACCAAAAAACTATTAGGGATGTA
1 CTTGCAAATGTGATAATCACAGTTTGGAACCAAAAAACTATTAGGGATGTA
*
45354414 CTTGCAAATGTGATAATCACAGTTTGGAACCAAAAAATTATTAGGGAT
1 CTTGCAAATGTGATAATCACAGTTTGGAACCAAAAAACTATTAGGGAT
45354462 TGGAAGTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.28
Consensus pattern (51 bp):
CTTGCAAATGTGATAATCACAGTTTGGAACCAAAAAACTATTAGGGATGTA
Found at i:45355398 original size:277 final size:275
Alignment explanation
Indices: 45354904--45355457 Score: 1090
Period size: 277 Copynumber: 2.0 Consensus size: 275
45354894 CGACTTAAAT
45354904 TGTTAATTATGAGTTATAAATATGTATAGATATAAATTAGAAACGCGAGTAATTAGATCTTAACC
1 TGTTAATTATGAGTTATAAATATGTATAGATATAAATTAGAAACGCGAGTAATTAGATCTTAACC
45354969 CGAAACCCTATCAAATTAATATTCCCTAAAACCCAACCCTGAAATCCAAAGCCCTATTAGATCTA
66 CGAAACCCTATCAAATTAATATTCCCTAAAACCCAACCCTGAAATCCAAAGCCCTATTAGATCTA
45355034 AAACCCTATGAAAAACAATTTGTCCCTTTGGATCAAATATTTAATAAATAACTTTTTAAAGTTTT
131 AAACCCTATGAAAAACAATTTGTCCCTTTGGATCAAATATTTAATAAATAACTTTTTAAAGTTTT
45355099 GAAATAGAATTTAGTTTAGAATGGCGACCACCACTCCCTCGGCTTTTTGCTAACCCTGTTCTGGT
196 GAAATAGAATTTAGTTTAGAATGGCGACCA-CAC-CCCTCGGCTTTTTGCTAACCCTGTTCTGGT
45355164 TTTGGTTATCATCCTAA
259 TTTGGTTATCATCCTAA
45355181 TGTTAATTATGAGTTATAAATATGTATAGATATAAATTAGAAACGCGAGTAATTAGATCTTAACC
1 TGTTAATTATGAGTTATAAATATGTATAGATATAAATTAGAAACGCGAGTAATTAGATCTTAACC
45355246 CGAAACCCTATCAAATTAATATTCCCTAAAACCCAACCCTGAAATCCAAAGCCCTATTAGATCTA
66 CGAAACCCTATCAAATTAATATTCCCTAAAACCCAACCCTGAAATCCAAAGCCCTATTAGATCTA
45355311 AAACCCTATGAAAAACAATTTGTCCCTTTGGATCAAATATTTAATAAATAACTTTTTAAAGTTTT
131 AAACCCTATGAAAAACAATTTGTCCCTTTGGATCAAATATTTAATAAATAACTTTTTAAAGTTTT
45355376 GAAATAGAATTTAGTTTAGAATGGCGACCACACCCCTCGGCTTTTTGCTAACCCTGTTCTGGTTT
196 GAAATAGAATTTAGTTTAGAATGGCGACCACACCCCTCGGCTTTTTGCTAACCCTGTTCTGGTTT
45355441 TGGTTATCATCCTAA
261 TGGTTATCATCCTAA
45355456 TG
1 TG
45355458 AACCTTACTC
Statistics
Matches: 277, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
275 49 0.18
276 3 0.01
277 225 0.81
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (275 bp):
TGTTAATTATGAGTTATAAATATGTATAGATATAAATTAGAAACGCGAGTAATTAGATCTTAACC
CGAAACCCTATCAAATTAATATTCCCTAAAACCCAACCCTGAAATCCAAAGCCCTATTAGATCTA
AAACCCTATGAAAAACAATTTGTCCCTTTGGATCAAATATTTAATAAATAACTTTTTAAAGTTTT
GAAATAGAATTTAGTTTAGAATGGCGACCACACCCCTCGGCTTTTTGCTAACCCTGTTCTGGTTT
TGGTTATCATCCTAA
Found at i:45355681 original size:20 final size:20
Alignment explanation
Indices: 45355656--45355695 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45355646 CGTAAAATGA
*
45355656 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
45355676 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
45355696 GGAAAATATT
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:45355685 original size:34 final size:35
Alignment explanation
Indices: 45355641--45355707 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
45355631 CAGTAAAATA
*
45355641 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
45355675 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
45355708 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:45355711 original size:14 final size:15
Alignment explanation
Indices: 45355635--45355711 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
45355625 GATTGCCAGT
* *
45355635 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
45355649 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
45355663 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
45355683 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
45355698 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
45355712 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:45355739 original size:33 final size:32
Alignment explanation
Indices: 45355697--45355776 Score: 90
Period size: 33 Copynumber: 2.5 Consensus size: 32
45355687 TGATTTACTG
**
45355697 GAAAATATTTTCTGGTGTTTGATTGAATCT-AT
1 GAAAATATTTTCTGGTGTTTGACAG-ATCTCAT
** *
45355729 GTAAAATATTTTCTACTGTTTGACAGATCTCCT
1 G-AAAATATTTTCTGGTGTTTGACAGATCTCAT
45355762 GAAAATATTTTCTGG
1 GAAAATATTTTCTGG
45355777 AAAAGTTATT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 17 0.44
33 22 0.56
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.44
Consensus pattern (32 bp):
GAAAATATTTTCTGGTGTTTGACAGATCTCAT
Found at i:45356147 original size:13 final size:13
Alignment explanation
Indices: 45356129--45356156 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
45356119 ATTGTTTCTC
45356129 TATTTATGAAGTT
1 TATTTATGAAGTT
45356142 TATTTATGAAGTT
1 TATTTATGAAGTT
45356155 TA
1 TA
45356157 CTTGTACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (13 bp):
TATTTATGAAGTT
Found at i:45360687 original size:18 final size:18
Alignment explanation
Indices: 45360666--45360716 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
45360656 AGGAATGAAG
45360666 GAAGGGAGAAGAATGGAT
1 GAAGGGAGAAGAATGGAT
*** *
45360684 GAAGGGAGCTTACTGGAT
1 GAAGGGAGAAGAATGGAT
45360702 GAAGGGAGAAGAATG
1 GAAGGGAGAAGAATG
45360717 CCTGAGAGCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.43, T:0.14
Consensus pattern (18 bp):
GAAGGGAGAAGAATGGAT
Found at i:45361171 original size:29 final size:28
Alignment explanation
Indices: 45361119--45361173 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
45361109 TTATGTAATT
* *
45361119 ATTTTTTAAATTTTTAATAAAATTTTGA
1 ATTTTTTAAAATTATAATAAAATTTTGA
*
45361147 ATTTTTTAAAATTATATATATAATTTT
1 ATTTTTTAAAATTATA-ATAAAATTTT
45361174 TTCAAACAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (28 bp):
ATTTTTTAAAATTATAATAAAATTTTGA
Found at i:45362401 original size:22 final size:22
Alignment explanation
Indices: 45362373--45362416 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
45362363 GTAATTTGGT
45362373 GAGATTTATTATTATAGATACC
1 GAGATTTATTATTATAGATACC
45362395 GAGATTTATTATTATAGATACC
1 GAGATTTATTATTATAGATACC
45362417 ACGACTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (22 bp):
GAGATTTATTATTATAGATACC
Found at i:45363801 original size:21 final size:21
Alignment explanation
Indices: 45363777--45363822 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
45363767 CTTTTTAGGT
*
45363777 TTTTAAAT-TTGTTTTTCTTTA
1 TTTTAAATATTCTTTTT-TTTA
*
45363798 TTTTCAATATTCTTTTTTTTA
1 TTTTAAATATTCTTTTTTTTA
45363819 TTTT
1 TTTT
45363823 TATTTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTAAATATTCTTTTTTTTA
Found at i:45365396 original size:17 final size:18
Alignment explanation
Indices: 45365370--45365403 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
45365360 TAACAAGAGT
*
45365370 TTAATTTAAA-TTATTTG
1 TTAATATAAACTTATTTG
45365387 TTAATATAAACTTATTT
1 TTAATATAAACTTATTT
45365404 AATTTGTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
TTAATATAAACTTATTTG
Found at i:45373462 original size:7 final size:7
Alignment explanation
Indices: 45373450--45373474 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
45373440 TTTATTAATT
45373450 AAAAATA
1 AAAAATA
45373457 AAAAATA
1 AAAAATA
45373464 AAAAATA
1 AAAAATA
45373471 AAAA
1 AAAA
45373475 TATGCTTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:45379023 original size:29 final size:28
Alignment explanation
Indices: 45378983--45379043 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
45378973 GATTTCGCGG
45378983 AAAATGGACCATTCCGGTAAATAATT-AA
1 AAAATGGACCATTCCGGTAAAT-ATTGAA
* *
45379011 AAAACTGGCCCATTTCGGTAAATATTGAA
1 AAAA-TGGACCATTCCGGTAAATATTGAA
45379040 AAAA
1 AAAA
45379044 AGGGACTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 7 0.24
29 22 0.76
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.25
Consensus pattern (28 bp):
AAAATGGACCATTCCGGTAAATATTGAA
Found at i:45383646 original size:40 final size:40
Alignment explanation
Indices: 45383523--45383654 Score: 110
Period size: 40 Copynumber: 3.4 Consensus size: 40
45383513 GAACGTGATA
* * * * *
45383523 TTAAATCAAGCGAATTGTTTGGATATCGAAGGTCGCAATC
1 TTAAATCAAGCAAACTGTTAGAATATCGAAGGTCGCGATC
* ** * *
45383563 TTAAATCAAGCGAAC-CATA-AAAAT-GACA-GTCGCGATA
1 TTAAATCAAGCAAACTGTTAGAATATCGA-AGGTCGCGATC
* *
45383600 TCAAATCAAGCAAACTGTTAGAATATCGAAGGTTGCGATC
1 TTAAATCAAGCAAACTGTTAGAATATCGAAGGTCGCGATC
*
45383640 TTAAATCAAGTAAAC
1 TTAAATCAAGCAAAC
45383655 CATAAAAATG
Statistics
Matches: 70, Mismatches: 17, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
37 22 0.31
38 6 0.09
39 6 0.09
40 36 0.51
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (40 bp):
TTAAATCAAGCAAACTGTTAGAATATCGAAGGTCGCGATC
Found at i:45383646 original size:77 final size:77
Alignment explanation
Indices: 45383519--45383745 Score: 211
Period size: 77 Copynumber: 2.9 Consensus size: 77
45383509 CATAGAACGT
* * * * * *
45383519 GATATTAAATCAAGCGAATTGTTTGGATATCGAAGGTCGCAATCTTAAATCAAGCGAACCATAAA
1 GATATCAAATCAAGCAAACTGTTAGAATATCGAAGGTCGCAATCTTAAATCAAGCAAACCATAAA
45383584 AATGACAGTCGC
66 AATGACAGTCGC
* * *
45383596 GATATCAAATCAAGCAAACTGTTAGAATATCGAAGGTTGCGATCTTAAATCAAGTAAACCATAAA
1 GATATCAAATCAAGCAAACTGTTAGAATATCGAAGGTCGCAATCTTAAATCAAGCAAACCATAAA
** * **
45383661 AATGTTATTCAT
66 AATGACAGTCGC
* * * * * * * * * * ** *
45383673 GTTGTTAAATCAAGCGAACTGTTAGAAGACCGAATGCCGCAATTTTAAACCAAGTGAACCGTAAA
1 GATATCAAATCAAGCAAACTGTTAGAATATCGAAGGTCGCAATCTTAAATCAAGCAAACCATAAA
45383738 AATGACAG
66 AATGACAG
45383746 CTACGATCTT
Statistics
Matches: 119, Mismatches: 31, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
77 119 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (77 bp):
GATATCAAATCAAGCAAACTGTTAGAATATCGAAGGTCGCAATCTTAAATCAAGCAAACCATAAA
AATGACAGTCGC
Found at i:45384145 original size:23 final size:22
Alignment explanation
Indices: 45384097--45384153 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
45384087 CCTCGGGTAA
*
45384097 ATTTTT-TTATTAAATATATAT
1 ATTTTTATTTTTAAATATATAT
45384118 ATTTTTATTTTTAAA-ATATACT
1 ATTTTTATTTTTAAATATATA-T
* *
45384140 ACTTTTAGTTTTAA
1 ATTTTTATTTTTAA
45384154 GTTTTAAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.35
22 20 0.65
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTTTTATTTTTAAATATATAT
Found at i:45384880 original size:23 final size:22
Alignment explanation
Indices: 45384823--45384880 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
45384813 TTTTAATTTA
*
45384823 CTTAATTTT-CGTTGTATTTTG
1 CTTAATTTTGCGTCGTATTTTG
*
45384844 CTTAATTGTAGCGTCGTATTTTG
1 CTTAATT-TTGCGTCGTATTTTG
45384867 CTTAATTTTCGCGT
1 CTTAATTTT-GCGT
45384881 TTGAATCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 7 0.23
22 2 0.06
23 22 0.71
ACGTcount: A:0.16, C:0.14, G:0.17, T:0.53
Consensus pattern (22 bp):
CTTAATTTTGCGTCGTATTTTG
Found at i:45394856 original size:21 final size:22
Alignment explanation
Indices: 45394832--45394884 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
45394822 TTTTAATTTA
45394832 CTTAATTTTCG-TTGTATTTTG
1 CTTAATTTTCGATTGTATTTTG
*
45394853 CTTAATTGTCGCATTGTATTTTG
1 CTTAATTTTCG-ATTGTATTTTG
*
45394876 ATTAATTTT
1 CTTAATTTT
45394885 GGCGTTTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 10 0.37
23 17 0.63
ACGTcount: A:0.19, C:0.09, G:0.13, T:0.58
Consensus pattern (22 bp):
CTTAATTTTCGATTGTATTTTG
Found at i:45411577 original size:3 final size:3
Alignment explanation
Indices: 45411562--45411615 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
45411552 AGTAAATGAC
* * *
45411562 AAT AAT GAT AAT AAT AAT AAT AAT AAT AACT AATT AGT TA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AA-T AAT AAT AAT AAT
45411608 AAT AAT AA
1 AAT AAT AA
45411616 AAAGGGACTA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
2 1 0.02
3 36 0.86
4 5 0.12
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:45418496 original size:37 final size:40
Alignment explanation
Indices: 45418437--45418571 Score: 125
Period size: 41 Copynumber: 3.4 Consensus size: 40
45418427 AACTTCAAGT
* *
45418437 CGATGAGGCACTGGGTGCCAATTTA-T-TTCGG-TTTAAC
1 CGATGAGACACTGGGTGTCAATTTACTATTCGGATTTAAC
* * **
45418474 CGATGAGACACTGAGTGTCAATTTACTACTTTGGATTTATT
1 CGATGAGACACTGGGTGTCAATTTACTA-TTCGGATTTAAC
* * *
45418515 CGATGAGACACTGGGTGTTAATTTACTACTTC-GAATTATC
1 CGATGAGACACTGGGTGTCAATTTACTA-TTCGGATTTAAC
* *
45418555 CAATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
45418572 CCAAATTGGT
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
37 22 0.27
38 1 0.01
40 25 0.31
41 33 0.41
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAATTTACTATTCGGATTTAAC
Found at i:45431694 original size:5 final size:5
Alignment explanation
Indices: 45431678--45431727 Score: 82
Period size: 5 Copynumber: 9.6 Consensus size: 5
45431668 AAGTAATGAT
45431678 TATTA TTATTA TATTA TATTA TATTA TATTA TATTA TATTA TATATA TAT
1 TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT-TA TAT
45431728 AACAAAAGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 33 0.77
6 10 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:45432349 original size:29 final size:30
Alignment explanation
Indices: 45432290--45432347 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
45432280 TCCGAGCCTT
*
45432290 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
45432320 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
45432348 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:45432577 original size:13 final size:13
Alignment explanation
Indices: 45432559--45432590 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
45432549 TTTCCAGCAA
45432559 TTATGAATTTATT
1 TTATGAATTTATT
45432572 TTATGAATTTATT
1 TTATGAATTTATT
*
45432585 TGATGA
1 TTATGA
45432591 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:45432798 original size:50 final size:50
Alignment explanation
Indices: 45432685--45432926 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
45432675 ATTTGGGTAA
* * * *
45432685 AGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
45432741 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
45432791 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
45432841 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
45432891 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
45432927 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:45432873 original size:100 final size:103
Alignment explanation
Indices: 45432685--45432934 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
45432675 ATTTGGGTAA
*
45432685 AGAGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
45432750 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
45432791 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
45432853 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
45432891 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
45432935 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.39
101 39 0.30
105 2 0.02
106 39 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:45436639 original size:15 final size:15
Alignment explanation
Indices: 45436619--45436651 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
45436609 TTTGCCATAA
45436619 TGTCATAACATGCTC
1 TGTCATAACATGCTC
45436634 TGTCATAACATGCTC
1 TGTCATAACATGCTC
45436649 TGT
1 TGT
45436652 TAGAATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.36
Consensus pattern (15 bp):
TGTCATAACATGCTC
Found at i:45443497 original size:20 final size:20
Alignment explanation
Indices: 45443472--45443521 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
45443462 TGGCTTAAAA
45443472 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
45443492 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
45443509 GTGGTAGTGGATT
1 TTGGTAGTGGATT
45443522 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:45448136 original size:20 final size:20
Alignment explanation
Indices: 45448111--45448160 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
45448101 TGGCTTAAAA
45448111 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
45448131 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
45448148 GTGGTAGTGGATT
1 TTGGTAGTGGATT
45448161 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:45461528 original size:3 final size:3
Alignment explanation
Indices: 45461520--45461552 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
45461510 GAGTTATGTA
45461520 AGG AGG AGG AGG AGG AGG AGG AGG AGG A-G AGG A
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG A
45461553 AGAAGGAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:45461557 original size:3 final size:3
Alignment explanation
Indices: 45461551--45461611 Score: 72
Period size: 3 Copynumber: 20.3 Consensus size: 3
45461541 AGGAGGAGAG
*
45461551 GAA GAA GGA -AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GACA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA-A
*
45461596 GAGA GAA -AT GAA GAA G
1 GA-A GAA GAA GAA GAA G
45461612 GGGATAAAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.62, C:0.02, G:0.34, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:45467136 original size:44 final size:44
Alignment explanation
Indices: 45467079--45467162 Score: 150
Period size: 44 Copynumber: 1.9 Consensus size: 44
45467069 AACCTTCCTT
* *
45467079 TTTATCTTTTAACAAAAATCACTTGCAACGTAAATTAACTACTC
1 TTTATCTTCTAACAAAAATCACTTACAACGTAAATTAACTACTC
45467123 TTTATCTTCTAACAAAAATCACTTACAACGTAAATTAACT
1 TTTATCTTCTAACAAAAATCACTTACAACGTAAATTAACT
45467163 TTCTTTCTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (44 bp):
TTTATCTTCTAACAAAAATCACTTACAACGTAAATTAACTACTC
Found at i:45468724 original size:93 final size:87
Alignment explanation
Indices: 45468551--45468812 Score: 272
Period size: 88 Copynumber: 2.9 Consensus size: 87
45468541 ATAAAAATTA
* * * *
45468551 GTTTTTTGTATGTTTGGAAATGTATTCTATTATTAATGACACTGTTAAGAAAAAAAAAGGTAAAG
1 GTTTTTTTTATGTTTGGAAATGTATTCTATTATTAAT--CAC-ATT---AATAAAAAAGGTGAAG
45468616 TAACGTAATTTTATTTAATACCTAAAAAGTTTT
60 TAACGTAATTTTATTTAATACCT-AAAA----T
* * * *
45468649 TTTTTTTTTTTGTTTGGAAATATATTCTATTATTAATCACATTAATAAAAAATGGTGGAGTAACG
1 GTTTTTTTTATGTTTGGAAATGTATTCTATTATTAATCACATTAATAAAAAA-GGTGAAGTAACG
*
45468714 TAATTTTATTTAATACCTACAAT
65 TAATTTTATTTAATACCTAAAAT
* * * * * *
45468737 GTTTTTTTTATGTTTGGAAATGTATTTTATTATTAATGACACTATTAAAAAAAGTGAAGTAAAGT
1 GTTTTTTTTATGTTTGGAAATGTATTCTATTATTAATCACATTAATAAAAAAGGTGAAGTAACGT
*
45468802 AGTTTTATTTA
66 AATTTTATTTA
45468813 TCTTTGGAAA
Statistics
Matches: 143, Mismatches: 20, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
87 20 0.14
88 46 0.32
92 11 0.08
93 28 0.20
95 2 0.01
96 3 0.02
98 33 0.23
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.45
Consensus pattern (87 bp):
GTTTTTTTTATGTTTGGAAATGTATTCTATTATTAATCACATTAATAAAAAAGGTGAAGTAACGT
AATTTTATTTAATACCTAAAAT
Found at i:45476510 original size:14 final size:15
Alignment explanation
Indices: 45476491--45476523 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
45476481 TTTATTTACT
*
45476491 AAAATAATACA-AAA
1 AAAATAAAACAGAAA
45476505 AAAATAAAACAGAAA
1 AAAATAAAACAGAAA
45476520 AAAA
1 AAAA
45476524 AGTTACGACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.82, C:0.06, G:0.03, T:0.09
Consensus pattern (15 bp):
AAAATAAAACAGAAA
Found at i:45476596 original size:27 final size:27
Alignment explanation
Indices: 45476559--45476628 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
45476549 GATGGAGGGG
* *
45476559 CTGCCATAGGCGGCACC-AGTTGTGCCA
1 CTGCCACAGGCGGCACCGA-TGGTGCCA
* * *
45476586 GTGGCAGAGGCGGCACCGATGGTGCCA
1 CTGCCACAGGCGGCACCGATGGTGCCA
45476613 CTGCCACAGGCGGCAC
1 CTGCCACAGGCGGCAC
45476629 TGCCCTTATA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.19, C:0.33, G:0.36, T:0.13
Consensus pattern (27 bp):
CTGCCACAGGCGGCACCGATGGTGCCA
Found at i:45476699 original size:4 final size:4
Alignment explanation
Indices: 45476690--45476815 Score: 52
Period size: 4 Copynumber: 31.8 Consensus size: 4
45476680 GGGAAAGGAG
* *
45476690 AAGA AAGA AAGA AAG- AA-A AAGA AAG- AA-A AAGA GAGGA GAGGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA -AAGA -AAGA AAGA
* * *
45476736 AAG- AA-A AAGA AGGA AAGAA AAGGA AGGA GAAGA AA-A AAAA AAGA AAGA
1 AAGA AAGA AAGA AAGA AAG-A AA-GA AAGA -AAGA AAGA AAGA AAGA AAGA
* * * *
45476784 AGAGGG AAGG AAGG AA-A AAGA AAGA AAAA AAG
1 A-A-GA AAGA AAGA AAGA AAGA AAGA AAGA AAG
45476816 GTGATCTTTT
Statistics
Matches: 97, Mismatches: 11, Indels: 28
0.71 0.08 0.21
Matches are distributed among these distances:
3 17 0.18
4 59 0.61
5 18 0.19
6 3 0.03
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:45476710 original size:10 final size:10
Alignment explanation
Indices: 45476697--45476812 Score: 60
Period size: 10 Copynumber: 11.3 Consensus size: 10
45476687 GAGAAGAAAG
45476697 AAAGAAAGAA
1 AAAGAAAGAA
45476707 AAAGAAAGAA
1 AAAGAAAGAA
*
45476717 AAAGAGAGGAGAGG
1 AAAGA-A--AGA-A
45476731 AAAGAAAGAA
1 AAAGAAAGAA
*
45476741 AAAGAAGGAA
1 AAAGAAAGAA
* *
45476751 AGA-AAAG-G
1 AAAGAAAGAA
*
45476759 AAGGAGAAGAA
1 AAAGA-AAGAA
45476770 AAA-AAA-AA
1 AAAGAAAGAA
**
45476778 GAAAGAAGAGGG
1 -AAAGAA-AGAA
* *
45476790 AAGGAAGGAA
1 AAAGAAAGAA
45476800 AAAGAAAGAA
1 AAAGAAAGAA
45476810 AAA
1 AAA
45476813 AAGGTGATCT
Statistics
Matches: 77, Mismatches: 18, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
8 3 0.04
9 9 0.12
10 44 0.57
11 12 0.16
13 4 0.05
14 5 0.06
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:45476710 original size:14 final size:14
Alignment explanation
Indices: 45476688--45476814 Score: 76
Period size: 14 Copynumber: 8.4 Consensus size: 14
45476678 GAGGGAAAGG
45476688 AGAAGAAAGAAAGAA
1 AGAA-AAAGAAAGAA
45476703 AGAAAAAGAAAGAAAA
1 AGAAAAAGAAAG--AA
*
45476719 AGAGAGGAGAGGAAAGAA
1 AGA-A--A-AAGAAAGAA
*
45476737 AGAAAAAGAAGGAA
1 AGAAAAAGAAAGAA
* *
45476751 AGAAAAGGAAGGAGA
1 AGAAAAAGAAAGA-A
*
45476766 AGAAAAAAAAAAGAA
1 AG-AAAAAGAAAGAA
** *
45476781 AGAAGAGGGAAGGAA
1 AGAA-AAAGAAAGAA
*
45476796 GGAAAAAGAAAGAA
1 AGAAAAAGAAAGAA
45476810 A-AAAA
1 AGAAAA
45476815 GGTGATCTTT
Statistics
Matches: 87, Mismatches: 16, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
13 4 0.05
14 36 0.41
15 20 0.23
16 13 0.15
17 2 0.02
18 5 0.06
19 1 0.01
20 6 0.07
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (14 bp):
AGAAAAAGAAAGAA
Found at i:45476736 original size:30 final size:29
Alignment explanation
Indices: 45476700--45476812 Score: 113
Period size: 30 Copynumber: 3.7 Consensus size: 29
45476690 AAGAAAGAAA
45476700 GAAAGAAAAAGAAAGAAAAAGAGAGGAGAG
1 GAAAGAAAAAGAAAGAAAAAGAGAGGA-AG
*
45476730 GAAAGAAAGAA-AAAGAAGGAAAGAAAAGGAAG
1 GAAAGAAA-AAGAAAGAA--AAAG-AGAGGAAG
*
45476762 GAGAAGAAAAAAAAAAGAAAGAAGAG-GGAAG
1 GA-AAG-AAAAAGAAAGAAA-AAGAGAGGAAG
*
45476793 GAAGGAAAAAGAAAGAAAAA
1 GAAAGAAAAAGAAAGAAAAA
45476813 AAGGTGATCT
Statistics
Matches: 71, Mismatches: 4, Indels: 18
0.76 0.04 0.19
Matches are distributed among these distances:
28 2 0.03
29 12 0.17
30 16 0.23
31 9 0.13
32 10 0.14
33 13 0.18
34 9 0.13
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (29 bp):
GAAAGAAAAAGAAAGAAAAAGAGAGGAAG
Found at i:45476736 original size:38 final size:37
Alignment explanation
Indices: 45476684--45476786 Score: 129
Period size: 38 Copynumber: 2.8 Consensus size: 37
45476674 AGGAGAGGGA
45476684 AAGGAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAAAG
1 AAGGAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAAAG
* * *
45476721 AGAGGAGAGGAAAGAAAGAAA-AAGAAGGAAAGAAAAGG
1 A-AGGAGAAGAAAGAAAGAAAGAA-AAAGAAAGAAAAAG
*
45476759 AAGGAGAAGAAA-AAAAAAAGAAAGAAGA
1 AAGGAGAAGAAAGAAAGAAAGAAA-AAGA
45476787 GGGAAGGAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
36 7 0.12
37 18 0.32
38 31 0.55
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (37 bp):
AAGGAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAAAG
Found at i:45476739 original size:34 final size:33
Alignment explanation
Indices: 45476687--45476815 Score: 126
Period size: 34 Copynumber: 3.9 Consensus size: 33
45476677 AGAGGGAAAG
* *
45476687 GAGAAGAAAGAAAGAAAGAAAAAGAAAGAAA-AA
1 GAGAGGAAGGAAAGAAA-AAAAAGAAAGAAAGAA
*
45476720 GAGAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAA
1 GAGAGGA-AGGAAAGAAA-AAAAAGAAAGAAAGAA
45476755 -A-AGGAAGGAGAAG-AAAAAAA-AAAGAAAGAA
1 GAGAGGAAGGA-AAGAAAAAAAAGAAAGAAAGAA
* *
45476785 GAG-GGAAGGAAGGAAAAAGAAAGAAAAAAAG
1 GAGAGGAAGGAAAGAAAAA-AAAGAAAGAAAG
45476816 GTGATCTTTT
Statistics
Matches: 82, Mismatches: 6, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
30 11 0.13
31 17 0.21
32 9 0.11
33 20 0.24
34 23 0.28
35 2 0.02
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (33 bp):
GAGAGGAAGGAAAGAAAAAAAAGAAAGAAAGAA
Found at i:45479076 original size:12 final size:12
Alignment explanation
Indices: 45479061--45479091 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
45479051 ACAAGTCCCG
45479061 AGCCAGAACCCC
1 AGCCAGAACCCC
*
45479073 AGCCAGAGCCCC
1 AGCCAGAACCCC
45479085 AGCCAGA
1 AGCCAGA
45479092 TCCCGAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.45, G:0.23, T:0.00
Consensus pattern (12 bp):
AGCCAGAACCCC
Found at i:45487521 original size:15 final size:15
Alignment explanation
Indices: 45487472--45487522 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
45487462 TTACTTTAGA
45487472 TTATATTTTAGTCAT
1 TTATATTTTAGTCAT
* **
45487487 TTGTA-TTT-GAAAT
1 TTATATTTTAGTCAT
45487500 GTTATATTTTAGTCAT
1 -TTATATTTTAGTCAT
45487516 TTATATT
1 TTATATT
45487523 ATCGTATTGT
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
13 3 0.11
14 7 0.26
15 14 0.52
16 3 0.11
ACGTcount: A:0.27, C:0.04, G:0.10, T:0.59
Consensus pattern (15 bp):
TTATATTTTAGTCAT
Found at i:45497980 original size:9 final size:9
Alignment explanation
Indices: 45497960--45498027 Score: 55
Period size: 9 Copynumber: 7.2 Consensus size: 9
45497950 TTACAAAAAG
*
45497960 AAAATTTAA
1 AAAATATAA
45497969 AAAACTATAA
1 AAAA-TATAA
* *
45497979 AAATTACAA
1 AAAATATAA
45497988 AATAATATAA
1 AA-AATATAA
*
45497998 AAAATTTAA
1 AAAATATAA
* *
45498007 AAATTACAA
1 AAAATATAA
45498016 AATAATATAA
1 AA-AATATAA
45498026 AA
1 AA
45498028 CAGTAAAGAA
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
9 24 0.53
10 21 0.47
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.26
Consensus pattern (9 bp):
AAAATATAA
Found at i:45498000 original size:28 final size:28
Alignment explanation
Indices: 45497966--45498027 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
45497956 AAAGAAAATT
45497966 TAAAAAACTATAAAAATTACAAAATAATA
1 TAAAAAA-TATAAAAATTACAAAATAATA
*
45497995 TAAAAAATTTAAAAATTACAAAATAATA
1 TAAAAAATATAAAAATTACAAAATAATA
45498023 TAAAA
1 TAAAA
45498028 CAGTAAAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 25 0.78
29 7 0.22
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (28 bp):
TAAAAAATATAAAAATTACAAAATAATA
Found at i:45498008 original size:19 final size:18
Alignment explanation
Indices: 45497960--45498009 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
45497950 TTACAAAAAG
45497960 AAAATTTAAAAAACTATA
1 AAAATTTAAAAAACTATA
*
45497978 AAAA-TTACAAAATAATATAA
1 AAAATTTA-AAAA-ACTAT-A
45497998 AAAATTTAAAAA
1 AAAATTTAAAAA
45498010 TTACAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 3 0.11
18 8 0.30
19 4 0.15
20 9 0.33
21 3 0.11
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAATTTAAAAAACTATA
Found at i:45500887 original size:13 final size:13
Alignment explanation
Indices: 45500855--45500890 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
45500845 AAATGATTTT
45500855 AAAATTAAAA-AA
1 AAAATTAAAATAA
*
45500867 AAATTTAAAATAA
1 AAAATTAAAATAA
45500880 AAAATTAAAAT
1 AAAATTAAAAT
45500891 TATAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAATTAAAATAA
Found at i:45500899 original size:18 final size:18
Alignment explanation
Indices: 45500853--45500901 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 18
45500843 ATAAATGATT
45500853 TTAAAATTA-AAAAAAAA
1 TTAAAATTATAAAAAAAA
*
45500870 TTTAAA--AT--AAAAAA
1 TTAAAATTATAAAAAAAA
45500884 TTAAAATTATAAAAAAAA
1 TTAAAATTATAAAAAAAA
45500902 GTTCATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 9
0.69 0.06 0.25
Matches are distributed among these distances:
14 11 0.44
15 1 0.04
16 2 0.08
17 5 0.20
18 6 0.24
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
TTAAAATTATAAAAAAAA
Found at i:45504604 original size:18 final size:20
Alignment explanation
Indices: 45504566--45504625 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
45504556 TCAAAAAACA
*
45504566 AAAATATTTTTATATTTTTT
1 AAAATAATTTTATATTTTTT
*
45504586 AAAATAATTTTA-ATTTTTA
1 AAAATAATTTTATATTTTTT
*
45504605 AAAATAAATTTCATAATTTTT
1 AAAAT-AATTTTAT-ATTTTT
45504626 GAGCATTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.32
20 17 0.50
22 6 0.18
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
AAAATAATTTTATATTTTTT
Done.