Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 215 of 328
Found at i:64570709 original size:40 final size:38
Alignment explanation
Indices: 64570660--64570767 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
64570650 ATCACGATTT
*
64570660 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
64570700 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
64570740 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
64570768 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:64578818 original size:80 final size:80
Alignment explanation
Indices: 64578734--64578882 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
64578724 TATGGTAACC
* * * *
64578734 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
64578798 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
64578814 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
64578879 CCGG
66 CCGG
64578883 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:64578824 original size:40 final size:38
Alignment explanation
Indices: 64578775--64578882 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
64578765 ATCACGATTT
*
64578775 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
64578815 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
64578855 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
64578883 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:64582190 original size:40 final size:40
Alignment explanation
Indices: 64581949--64582178 Score: 356
Period size: 40 Copynumber: 5.8 Consensus size: 40
64581939 GATGATAACG
* * *
64581949 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
64581989 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
64582029 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
64582069 GGGCTAAGTCCAGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* **
64582109 GGGCTAAGTCCCGAAGGCATTTGTGCTAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
64582149 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
64582179 AGCTTTATCC
Statistics
Matches: 175, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 1 0.01
40 172 0.98
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:64586008 original size:13 final size:14
Alignment explanation
Indices: 64585992--64586027 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
64585982 CAATCTCATA
64585992 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
64586005 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
64586018 TCTC-ATTTCA
1 TCTCAATTTCA
64586028 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:64586017 original size:18 final size:19
Alignment explanation
Indices: 64585979--64586019 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
64585969 TGGTTCATGT
64585979 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
64585998 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
64586016 TTTC
1 TTTC
64586020 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:64586209 original size:39 final size:38
Alignment explanation
Indices: 64586142--64586276 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
64586132 ACCAATATGG
* * *
64586142 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
64586181 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
64586219 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
64586260 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
64586277 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:64586541 original size:18 final size:18
Alignment explanation
Indices: 64586515--64586602 Score: 61
Period size: 18 Copynumber: 4.6 Consensus size: 18
64586505 TTTCAATTCA
64586515 ATTCAAATAATCAATATAT
1 ATTC-AATAATCAATATAT
*
64586534 ATTCAATATTCAATATAT
1 ATTCAATAATCAATATAT
*
64586552 ATATCTATATAT-ATATATAT
1 AT-TCAATA-ATCA-ATATAT
** *
64586572 ACGCCAATTCAATCAATATAA
1 A-TTCAA-T-AATCAATATAT
64586593 ATTCAATAAT
1 ATTCAATAAT
64586603 TCATCACATA
Statistics
Matches: 53, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
18 18 0.34
19 11 0.21
20 13 0.25
21 9 0.17
22 2 0.04
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (18 bp):
ATTCAATAATCAATATAT
Found at i:64587892 original size:5 final size:5
Alignment explanation
Indices: 64587873--64587924 Score: 68
Period size: 5 Copynumber: 10.0 Consensus size: 5
64587863 TTACTTATTT
* *
64587873 ATATA ATATA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA ATATA
1 ATATA ATATA -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA
64587925 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
5 31 0.76
6 10 0.24
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:64587905 original size:26 final size:26
Alignment explanation
Indices: 64587874--64587924 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
64587864 TACTTATTTA
64587874 TATAATAT-ATATATAATATAATATAC
1 TATAATATAATA-ATAATATAATATAC
*
64587900 TATAATATAATAATAATTTAATATA
1 TATAATATAATAATAATATAATATA
64587925 TATTTTAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TATAATATAATAATAATATAATATAC
Found at i:64589716 original size:1 final size:1
Alignment explanation
Indices: 64589710--64589740 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
64589700 CATTACTTCA
*
64589710 TTTTTTTTTTTTTTTTTTTTTTTTATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
64589741 GCATCAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.03, C:0.00, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:64592459 original size:13 final size:14
Alignment explanation
Indices: 64592443--64592478 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
64592433 CAATCTCATA
64592443 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
64592456 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
64592469 TCTC-ATTTCA
1 TCTCAATTTCA
64592479 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:64592468 original size:18 final size:19
Alignment explanation
Indices: 64592430--64592470 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
64592420 TGGTTCATGT
64592430 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
64592449 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
64592467 TTTC
1 TTTC
64592471 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:64592660 original size:39 final size:38
Alignment explanation
Indices: 64592593--64592727 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
64592583 ACCAATATGG
* * *
64592593 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
64592632 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
64592670 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
64592711 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
64592728 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:64592992 original size:18 final size:19
Alignment explanation
Indices: 64592966--64593004 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
64592956 TTTCAATTCA
64592966 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
64592985 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
64593003 AT
1 AT
64593005 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:64594332 original size:5 final size:5
Alignment explanation
Indices: 64594322--64594378 Score: 62
Period size: 5 Copynumber: 11.0 Consensus size: 5
64594312 TTACTTATTT
* *
64594322 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
64594370 ATAT- ATATA
1 ATATA ATATA
64594379 TTTAACACAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 7 0.16
7 4 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:64594338 original size:12 final size:12
Alignment explanation
Indices: 64594321--64594376 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
64594311 TTTACTTATT
64594321 TATATAATATAA
1 TATATAATATAA
64594333 TATATAATATAATA
1 TATATAATAT-A-A
64594347 TACTATAATATAA
1 TA-TATAATATAA
*
64594360 TA-ATAATTTAA
1 TATATAATATAA
64594371 TATATA
1 TATATA
64594377 TATTTAACAC
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:64594371 original size:11 final size:12
Alignment explanation
Indices: 64594321--64594383 Score: 56
Period size: 12 Copynumber: 5.0 Consensus size: 12
64594311 TTTACTTATT
*
64594321 TATATAATATAA
1 TATATAATTTAA
*
64594333 TATATAATATAATA
1 TATATAAT-TTA-A
*
64594347 TACTATAATATAA
1 TA-TATAATTTAA
64594360 TA-ATAATTTAA
1 TATATAATTTAA
64594371 TATATATATTTAA
1 TATATA-ATTTAA
64594384 CACATAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
11 10 0.24
12 11 0.27
13 10 0.24
14 4 0.10
15 6 0.15
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATAATTTAA
Found at i:64596539 original size:2 final size:2
Alignment explanation
Indices: 64596532--64596567 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
64596522 GTTCCGGTAC
64596532 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
64596568 GAACAGAAGG
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:64600195 original size:27 final size:27
Alignment explanation
Indices: 64600171--64600349 Score: 229
Period size: 27 Copynumber: 6.6 Consensus size: 27
64600161 TACCCTACAG
*
64600171 GGGTATTTCGATAATTTTAC-ACTACAA
1 GGGTATTTCGATAATTTTACAAAT-CAA
* *
64600198 GGGTATTTCGGTAATTTTACAAATAAA
1 GGGTATTTCGATAATTTTACAAATCAA
*
64600225 GGGTATTTC-ATTAATTTTACAAATCGA
1 GGGTATTTCGA-TAATTTTACAAATCAA
* * *
64600252 GTGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGATAATTTTACAAATCAA
64600279 GGGTATTTCGATAATTTTACAAATCAA
1 GGGTATTTCGATAATTTTACAAATCAA
* *
64600306 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGATAATTTTACAAATCAA
64600333 GGGTATTTC-AGTAATTT
1 GGGTATTTCGA-TAATTT
64600350 CTCTTTATTA
Statistics
Matches: 134, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
27 132 0.99
28 2 0.01
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAATCAA
Found at i:64600282 original size:81 final size:81
Alignment explanation
Indices: 64600171--64600349 Score: 261
Period size: 81 Copynumber: 2.2 Consensus size: 81
64600161 TACCCTACAG
* * * *
64600171 GGGTATTTCGATAATTTTACACTACAAGGGTATTTCGGTAATTTTACAAATAAAGGGTATTTCAT
1 GGGTATTTCGGTAATTTTACAATACAAGGGTATTTCGATAATTTTACAAATAAAGGGTATTTCAG
64600236 TAATTTTACAAATCGA
66 TAATTTTACAAATCGA
* * * *
64600252 GTGTATTTCGGTAATTTTACAA-ATCGAGGGTATTTCGATAATTTTACAAATCAAGGGTATTTCG
1 GGGTATTTCGGTAATTTTACAATA-CAAGGGTATTTCGATAATTTTACAAATAAAGGGTATTTCA
64600316 GTAATTTTACAAATCGA
65 GTAATTTTACAAATCGA
*
64600333 GGGTATTTCAGTAATTT
1 GGGTATTTCGGTAATTT
64600350 CTCTTTATTA
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 86 0.99
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (81 bp):
GGGTATTTCGGTAATTTTACAATACAAGGGTATTTCGATAATTTTACAAATAAAGGGTATTTCAG
TAATTTTACAAATCGA
Found at i:64600326 original size:54 final size:54
Alignment explanation
Indices: 64600171--64600349 Score: 256
Period size: 54 Copynumber: 3.3 Consensus size: 54
64600161 TACCCTACAG
* **
64600171 GGGTATTTC-GATAATTTTAC-ACTACAAGGGTATTTCGGTAATTTTACAAATAAA
1 GGGTATTTCAG-TAATTTTACAAAT-CAAGGGTATTTCGGTAATTTTACAAATCGA
* * *
64600225 GGGTATTTCATTAATTTTACAAATCGAGTGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCGA
64600279 GGGTATTTC-GATAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCAG-TAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCGA
64600333 GGGTATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
64600350 CTCTTTATTA
Statistics
Matches: 112, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
54 109 0.97
55 3 0.03
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAATCGA
Found at i:64600728 original size:28 final size:27
Alignment explanation
Indices: 64600647--64600728 Score: 65
Period size: 28 Copynumber: 2.9 Consensus size: 27
64600637 GATCCACACT
* * *
64600647 TATTCATTTGGCCCCTTTAGGCTCAATC
1 TATTCATATGG-CCCATTAGGCCCAATC
* * * * *
64600675 TCGTTCACATGGCGCATCAGGTCCAATC
1 T-ATTCATATGGCCCATTAGGCCCAATC
64600703 ATATTCATATGGCCCATTAGGCCCAA
1 -TATTCATATGGCCCATTAGGCCCAA
64600729 CTACTTTCCA
Statistics
Matches: 39, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
28 31 0.79
29 8 0.21
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.30
Consensus pattern (27 bp):
TATTCATATGGCCCATTAGGCCCAATC
Found at i:64604020 original size:37 final size:37
Alignment explanation
Indices: 64603961--64604106 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
64603951 AGCTCAGATG
* * *
64603961 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
64603998 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
64604035 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
64604072 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
64604107 ATATATTTCC
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:64604377 original size:48 final size:48
Alignment explanation
Indices: 64604253--64604636 Score: 662
Period size: 48 Copynumber: 8.0 Consensus size: 48
64604243 ACACATCGCC
*
64604253 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
64604303 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCACATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
64604351 TACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
64604399 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
64604447 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
64604495 TACATATTTCACATTAGCCATTCGGCTTTACCACTTATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
64604543 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
64604591 TACATATTTCACATTAGCCATTCCGCTTTACCACGTATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
64604637 TATGCATCAA
Statistics
Matches: 321, Mismatches: 11, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
48 278 0.87
49 2 0.01
50 41 0.13
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:64609221 original size:46 final size:48
Alignment explanation
Indices: 64608996--64609309 Score: 226
Period size: 46 Copynumber: 6.6 Consensus size: 48
64608986 AATGTTGATA
* * * * *
64608996 CCATGTCCCAAACATGTTCTTACACTGGC-T-CATCCATC-AAGTCAATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTTACAT-C-TCGAGGCCGATG
* ** * * *
64609043 CCATGTCCCAGACATGGTCTTACACTGAC-TATCAAAATCAAGGTCGACG
1 CCATGTCCCAGACATGGTCTTACACTGGCTTA-C-ATCTCGAGGCCGATG
* * * *
64609092 CCATG-CCCTAGACACGGTCTTACACTAGCTCTCACATATCCG-TGCCGATG
1 CCATGTCCC-AGACATGGTCTTACACTGGCT-T-ACATCT-CGAGGCCGATG
*
64609142 CCATGTCCCACG-CATGGTCTTACACTGAC--ACATCTCGTA-GCCGATG
1 CCATGTCCCA-GACATGGTCTTACACTGGCTTACATCTCG-AGGCCGATG
*
64609188 -CATGTCCCAGACAT-GTCTTACATTGGCTTACATCTCGAGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCCGATG
* * * * *
64609234 -CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCAATGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGAGGCCGATG
64609280 CCATGTCCCAGACATGGTCTTACACTGGCT
1 CCATGTCCCAGACATGGTCTTACACTGGCT
64609310 CTCAAATAAC
Statistics
Matches: 218, Mismatches: 29, Indels: 39
0.76 0.10 0.14
Matches are distributed among these distances:
44 12 0.06
45 15 0.07
46 65 0.30
47 42 0.19
48 18 0.08
49 29 0.13
50 29 0.13
51 7 0.03
52 1 0.00
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCCGATG
Found at i:64612701 original size:50 final size:49
Alignment explanation
Indices: 64612577--64612750 Score: 142
Period size: 49 Copynumber: 3.6 Consensus size: 49
64612567 ATGTGTCAGG
* *
64612577 GTAAGGCCTGTTTGGGACATGGCATCGACACCGATAGATGAGAGCCAGT
1 GTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGT
* * * * *
64612626 GTAAGACCTATCTAGGACATGGCATCGGC-CTCGATATATGTA-AGTCAGT
1 GTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATG-AGAGCCAGT
* ** *
64612675 GTTAAGACCTGTCTGGGACGTGGCATCGA-ATAAGAT-G-TGTGAGCCAGT
1 G-TAAGACCTGTCTGGGACATGGCATCGACA-CCGATAGATGAGAGCCAGT
* * *
64612723 GTAAGACCATGTTTGGAACATGGAATCG
1 GTAAGACC-TGTCTGGGACATGGCATCG
64612751 GCATCGTACC
Statistics
Matches: 98, Mismatches: 20, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
47 7 0.07
48 25 0.26
49 39 0.40
50 27 0.28
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (49 bp):
GTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGT
Found at i:64612951 original size:109 final size:109
Alignment explanation
Indices: 64612760--64612958 Score: 337
Period size: 109 Copynumber: 1.8 Consensus size: 109
64612750 GGCATCGTAC
* * *
64612760 CCTATGTTTGAGGCTTAGTGATTATCCTGTGGTAGTCCAAATTGTTCAACTGGAAATTTAAGTTT
1 CCTATGTTTGAGGCTTAGTGATTATCCTGTGGTAGTCCAAATGGTTCAACTGGAAAATTAAGGTT
*
64612825 TAAGTCGCAAAGATAGAATTTATGGCTATGTTGTGAATGAATAT
66 TAAGTCGCAAAGATAGAACTTATGGCTATGTTGTGAATGAATAT
*
64612869 CCTATGTTTGATGCTTAGTGATTATCCTGTGGTAGTCCAAATGGTTCAAC-GAGAAAATTAAGGT
1 CCTATGTTTGAGGCTTAGTGATTATCCTGTGGTAGTCCAAATGGTTCAACTG-GAAAATTAAGGT
64612933 TTAAGTCGCAAAGATAGAACTTATGG
65 TTAAGTCGCAAAGATAGAACTTATGG
64612959 TACAGGTATA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
108 1 0.01
109 83 0.99
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (109 bp):
CCTATGTTTGAGGCTTAGTGATTATCCTGTGGTAGTCCAAATGGTTCAACTGGAAAATTAAGGTT
TAAGTCGCAAAGATAGAACTTATGGCTATGTTGTGAATGAATAT
Found at i:64624639 original size:28 final size:29
Alignment explanation
Indices: 64624608--64624662 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
64624598 ATCTGAAATT
*
64624608 CTGATAT-CATGGCCTGAAGCCAAATCTG
1 CTGATATGCATGGCCCGAAGCCAAATCTG
64624636 CTGATATGCATGGCCCGAAGCCAAATC
1 CTGATATGCATGGCCCGAAGCCAAATC
64624663 GATTTATCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (29 bp):
CTGATATGCATGGCCCGAAGCCAAATCTG
Found at i:64628677 original size:25 final size:25
Alignment explanation
Indices: 64628643--64628694 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
64628633 ATCCGGGTAT
*
64628643 TCACGAACTATAGGCACTGATTCAA
1 TCACGAACTATAAGCACTGATTCAA
64628668 TCACGAACTATAAGCACTGATTCAA
1 TCACGAACTATAAGCACTGATTCAA
64628693 TC
1 TC
64628695 TTCCTTTCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (25 bp):
TCACGAACTATAAGCACTGATTCAA
Found at i:64630020 original size:50 final size:49
Alignment explanation
Indices: 64629945--64630168 Score: 213
Period size: 50 Copynumber: 4.5 Consensus size: 49
64629935 TGAGTACACG
* * *
64629945 TGTGTAGTACTAAGTTCAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTTAAGTCACA
* * * * *
64629995 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATCACTT-CGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGAT--GTTAAG-TCACA
* * * *
64630046 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GTTAAGTCACA
** * * *
64630096 TGTGTAGTACTAAGTGCAGGCTACTATTTGTACCGGA-GTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTTAAGTCACA
64630143 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
64630169 TGCGTATCAG
Statistics
Matches: 147, Mismatches: 21, Indels: 15
0.80 0.11 0.08
Matches are distributed among these distances:
47 31 0.21
48 2 0.01
49 1 0.01
50 73 0.50
51 40 0.27
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTTAAGTCACA
Found at i:64630116 original size:101 final size:101
Alignment explanation
Indices: 64629941--64630122 Score: 285
Period size: 101 Copynumber: 1.8 Consensus size: 101
64629931 ATTGTGAGTA
* * * *
64629941 CACGTGTGTAGTACTAAGTTCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTGAAGTCACATGTGTAGTACT
64630006 AAGTGCAGGCTACTATGCGTACTCAATCACTTCGAT
66 AAGTGCAGGCTACTATGCGTACTCAATCACTTCGAT
* * *
64630042 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGTCACGTGTGTAGTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTGAAGTCACATGTGTAGTAC
64630106 TAAGTGCAGGCTACTAT
65 TAAGTGCAGGCTACTAT
64630123 TTGTACCGGA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
100 1 0.01
101 72 0.99
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTGAAGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACTCAATCACTTCGAT
Found at i:64633806 original size:26 final size:27
Alignment explanation
Indices: 64633770--64633822 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
64633760 TGTCAACTAG
* *
64633770 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
64633796 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
64633823 CAAAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:64635154 original size:48 final size:48
Alignment explanation
Indices: 64635090--64635237 Score: 226
Period size: 48 Copynumber: 3.1 Consensus size: 48
64635080 TTGATGTACA
*
64635090 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
64635138 AGATATATATATGTGGTAAAGTCGAAAGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
** *
64635186 AGCCATGA-ATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATG
1 AGATAT-ATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
64635234 AGAT
1 AGAT
64635238 GCGTATATAT
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
48 88 0.99
49 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (48 bp):
AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:64643364 original size:16 final size:17
Alignment explanation
Indices: 64643345--64643376 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
64643335 TAAGGATTTC
64643345 ACTCAT-ATTATTTTTA
1 ACTCATAATTATTTTTA
64643361 ACTCATAATTATTTTT
1 ACTCATAATTATTTTT
64643377 TTACAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.56
Consensus pattern (17 bp):
ACTCATAATTATTTTTA
Found at i:64645241 original size:40 final size:39
Alignment explanation
Indices: 64645196--64645403 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 39
64645186 CGGAATACAA
*
64645196 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
64645236 CCGGATAGAACGACTTGCACAAATGCATTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
64645276 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
64645316 CCGGATGTAGTCGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
64645356 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
64645396 CCGGATAT
1 CCGGATAT
64645404 CATTCAATTG
Statistics
Matches: 138, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 1 0.01
40 137 0.99
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:64645336 original size:80 final size:81
Alignment explanation
Indices: 64645196--64645401 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 81
64645186 CGGAATACAA
* * *
64645196 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
64645260 GCATTCGGGTATTAGC
66 GCATTCGGGTATTAAC
* * *
64645276 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TCG-CTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
* *
64645339 TGCCTTCGGGTCTTAAC
65 TGCATTCGGGTATTAAC
** * ** * *
64645356 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
64645402 ATCATTCAAT
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 102 0.95
81 2 0.02
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCATTCGGGTATTAAC
Found at i:64647833 original size:27 final size:27
Alignment explanation
Indices: 64647793--64647846 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
64647783 AGGTACAACC
* *
64647793 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
64647820 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
64647847 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:64651156 original size:40 final size:40
Alignment explanation
Indices: 64651086--64651229 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
64651076 CCGCACCAAG
* * *
64651086 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATCACGATTTGCACAAAT
64651126 GCCTTCGGGTCTTAGCCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATCACGATTTGCACAAAT
* * * * *
64651166 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATCACGATTTGCACAAAT
64651206 GCCTTCGGGTCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
64651230 AGCCACTAGT
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 95 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATCACGATTTGCACAAAT
Found at i:64651249 original size:40 final size:39
Alignment explanation
Indices: 64651086--64651270 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 39
64651076 CCGCACCAAG
* * * * *
64651086 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATAT-ACAACTTGCACAAAT
* *
64651126 GCCTTCGGGTCTTAGCCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATAT-ACAACTTGCACAAAT
* *
64651166 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATAT-ACAACTTGCACAAAT
* * * *
64651206 GCCTTCGGGTCTTAGCCCGGATATAGCCACTAGTACAATT
1 GCCTTCGGGTCTTAGCCCGGATATA-CAACTTGCACAAAT
* * *
64651246 GCCTTCAGGTCTTAACCCGGTTATA
1 GCCTTCGGGTCTTAGCCCGGATATA
64651271 ATTTCCAGCA
Statistics
Matches: 127, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
39 1 0.01
40 126 0.99
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATACAACTTGCACAAAT
Found at i:64651249 original size:80 final size:80
Alignment explanation
Indices: 64651096--64651265 Score: 216
Period size: 80 Copynumber: 2.1 Consensus size: 80
64651086 GCCTACGGGA
* * * * * * *
64651096 CTTAACCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATCACGATTTGCA
1 CTTAACCCGGATTTAACAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATCACCACTAGCA
*
64651161 CAAATGCCTTCGGGT
66 CAAATGCCTTCAGGT
* * *
64651176 CTTAGCCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT-AGCCACTAGT
1 CTTAACCCGGATTTAACAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATCA-CCACTAGC
*
64651240 ACAATTGCCTTCAGGT
65 ACAAATGCCTTCAGGT
64651256 CTTAACCCGG
1 CTTAACCCGG
64651266 TTATAATTTC
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
79 1 0.01
80 75 0.99
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (80 bp):
CTTAACCCGGATTTAACAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATATCACCACTAGCA
CAAATGCCTTCAGGT
Found at i:64653623 original size:42 final size:42
Alignment explanation
Indices: 64653555--64653657 Score: 138
Period size: 42 Copynumber: 2.4 Consensus size: 42
64653545 AACAAGGGAC
*
64653555 ACACACCCGTGTGGC-CAGGTCATGTGTCTCACATGGCTACCAG
1 ACACACCCGTGT--CACAGGTCATGTGTCTCACACGGCTACCAG
*
64653598 ACA-AGCCCGTGTCACAGGTCGTGTGTCTCACACGGCTACCAG
1 ACACA-CCCGTGTCACAGGTCATGTGTCTCACACGGCTACCAG
*
64653640 ACACACCTGTGTCACAGG
1 ACACACCCGTGTCACAGG
64653658 CTGTATGGAC
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
41 1 0.02
42 42 0.78
43 11 0.20
ACGTcount: A:0.22, C:0.33, G:0.25, T:0.19
Consensus pattern (42 bp):
ACACACCCGTGTCACAGGTCATGTGTCTCACACGGCTACCAG
Found at i:64655237 original size:39 final size:39
Alignment explanation
Indices: 64655183--64655261 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
64655173 GATCTACCTA
64655183 AGGATTACCTACGCAGATAAGCAGAAGGGTGAGTTTATG
1 AGGATTACCTACGCAGATAAGCAGAAGGGTGAGTTTATG
64655222 AGGATTACCTACGCAGATAAGCAGAAGGGTGAGTTTATG
1 AGGATTACCTACGCAGATAAGCAGAAGGGTGAGTTTATG
64655261 A
1 A
64655262 AACTCAGTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.23
Consensus pattern (39 bp):
AGGATTACCTACGCAGATAAGCAGAAGGGTGAGTTTATG
Found at i:64656933 original size:27 final size:27
Alignment explanation
Indices: 64656894--64656969 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
64656884 CTCATATCTA
* * *
64656894 TAGGCTAGTATTACTGAAATACCCCTG
1 TAGGATAGAATTACTGAAATACCCATG
*
64656921 TAAGG-TAGAATTACTGAAATGCCCATG
1 T-AGGATAGAATTACTGAAATACCCATG
*
64656948 TAGGATAGAATTACTAAAATAC
1 TAGGATAGAATTACTGAAATAC
64656970 ACTTGGTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 3 0.07
27 36 0.86
28 3 0.07
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (27 bp):
TAGGATAGAATTACTGAAATACCCATG
Found at i:64657192 original size:54 final size:54
Alignment explanation
Indices: 64656956--64657271 Score: 260
Period size: 54 Copynumber: 5.9 Consensus size: 54
64656946 TGTAGGATAG
* * * * * * *
64656956 AATTACTAAAATACACTTGGTTTACAAAATTACCAAAATACCCTCGA-TTAGCA
1 AATTACCAAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTGATTTGGAA
* * * * * **
64657009 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAATTTTTAA
1 AATTACCAAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTGATTTGGAA
* ** * * * ** *
64657063 AATTACCGAAATACCCTCAACTTGTAAAATTATCAAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTGATTTGGAA
* * *
64657117 AATTACCAAAATACCCCTGATTTGGAAAATTACTAAAATACCCTTGATTTGGAA
1 AATTACCAAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTGATTTGGAA
* * **
64657171 AATTACAAAAATACCCTTGATTTACAAAATTA-CAGAAATACCCTTGACTTTCAAA
1 AATTACCAAAATACCCTTGATTTGCAAAATTACCA-AAATACCCTTGA-TTTGGAA
* * * * * *
64657226 AATTA-TAGAAATACCCTTGGTTTGTATATTTACCAAAACACCCTTG
1 AATTACCA-AAATACCCTTGATTTGCAAAATTACCAAAATACCCTTG
64657272 TAGGGTGAAA
Statistics
Matches: 212, Mismatches: 46, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
53 40 0.19
54 131 0.62
55 39 0.18
56 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTGATTTGGAA
Found at i:64657215 original size:27 final size:26
Alignment explanation
Indices: 64656956--64657249 Score: 223
Period size: 27 Copynumber: 10.9 Consensus size: 26
64656946 TGTAGGATAG
* * *
64656956 AATTACTAAAATACACTTGGTTTACAA
1 AATTAC-AAAATACCCTTGATTTGCAA
* *
64656983 AATTACCAAAATACCCTCGATTAGC-A
1 AATTA-CAAAATACCCTTGATTTGCAA
* * *
64657009 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTA-CAAAATACCCTTGATTTGCAA
* * **
64657036 AATTACCAAAATACCCCTAATTTTTAA
1 AATTA-CAAAATACCCTTGATTTGCAA
* ** * *
64657063 AATTACCGAAATACCCTCAACTTGTAA
1 AATTA-CAAAATACCCTTGATTTGCAA
** *
64657090 AATTATCAAAATACCCTCAATTTGTAA
1 AATTA-CAAAATACCCTTGATTTGCAA
* *
64657117 AATTACCAAAATACCCCTGATTTGGAA
1 AATTA-CAAAATACCCTTGATTTGCAA
*
64657144 AATTACTAAAATACCCTTGATTTGGAA
1 AATTAC-AAAATACCCTTGATTTGCAA
*
64657171 AATTACAAAAATACCCTTGATTTACAA
1 AATTAC-AAAATACCCTTGATTTGCAA
64657198 AATTACAGAAATACCCTTGACTTT-CAAA
1 AATTACA-AAATACCCTTGA-TTTGC-AA
* *
64657226 AATTATAGAAATACCCTTGGTTTG
1 AATTACA-AAATACCCTTGATTTG
64657250 TATATTTACC
Statistics
Matches: 228, Mismatches: 32, Indels: 13
0.84 0.12 0.05
Matches are distributed among these distances:
26 23 0.10
27 181 0.79
28 24 0.11
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (26 bp):
AATTACAAAATACCCTTGATTTGCAA
Found at i:64657611 original size:41 final size:41
Alignment explanation
Indices: 64657516--64657633 Score: 114
Period size: 41 Copynumber: 2.9 Consensus size: 41
64657506 GAAGAAATTG
* * * *
64657516 AGGATCGCACGGTTGCTTGA-AGACCTTGGATCCACCGATTG
1 AGGATTGCATGGTTGCTTGACA-ACCGTGGATCCACCGATTA
* ** *
64657557 AGAATTGTGTGGTTACTTGACAACCGTGGATCCACCGATTA
1 AGGATTGCATGGTTGCTTGACAACCGTGGATCCACCGATTA
* * *
64657598 AGGATTGCATGGTTGCTTAACGA-TGTGGATCCACCG
1 AGGATTGCATGGTTGCTTGACAACCGTGGATCCACCG
64657634 GTGGCTTTTA
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
40 12 0.20
41 48 0.79
42 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (41 bp):
AGGATTGCATGGTTGCTTGACAACCGTGGATCCACCGATTA
Found at i:64657826 original size:22 final size:22
Alignment explanation
Indices: 64657775--64657838 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
64657765 CCAATTATTT
* *
64657775 TGATTATGGCTTTGCGCCAACC
1 TGATTATGGCTCTGTGCCAACC
*
64657797 T-ACATATGGCTCTGTGCCAACC
1 TGA-TTATGGCTCTGTGCCAACC
* *
64657819 TGATTATGGTTGTGTGCCAA
1 TGATTATGGCTCTGTGCCAA
64657839 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (22 bp):
TGATTATGGCTCTGTGCCAACC
Found at i:64658066 original size:22 final size:22
Alignment explanation
Indices: 64658041--64658094 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
64658031 GTTGTTGCGA
*
64658041 TGTTTACGGCTATGTGCTGTCC
1 TGTTTACGGCTATGTGCTATCC
**
64658063 TGTTTACAACTATGTGCTATCC
1 TGTTTACGGCTATGTGCTATCC
*
64658085 TGTCTACGGC
1 TGTTTACGGC
64658095 GTTGAGCCGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (22 bp):
TGTTTACGGCTATGTGCTATCC
Found at i:64660359 original size:27 final size:27
Alignment explanation
Indices: 64660337--64660397 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
64660327 GTATTATTGG
*
64660337 AATACCCCTGTAGGATAGAATTACTAA
1 AATACCCCTGTAGGATAGAATTACTGA
* * *
64660364 AATGCTCCTGTAGGGTAGAATTACTGA
1 AATACCCCTGTAGGATAGAATTACTGA
64660391 AATACCC
1 AATACCC
64660398 TCGGTTTACA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (27 bp):
AATACCCCTGTAGGATAGAATTACTGA
Found at i:64660429 original size:26 final size:27
Alignment explanation
Indices: 64660382--64660453 Score: 101
Period size: 26 Copynumber: 2.7 Consensus size: 27
64660372 TGTAGGGTAG
64660382 AATTACTGAAATACCCTCGGTTTACAA
1 AATTACTGAAATACCCTCGGTTTACAA
* *
64660409 AATTACTG-AATACCTTTGGTTTACAA
1 AATTACTGAAATACCCTCGGTTTACAA
**
64660435 AATTACCAAAATACCCTCG
1 AATTACTGAAATACCCTCG
64660454 ATTAGTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 22 0.58
27 16 0.42
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACTGAAATACCCTCGGTTTACAA
Found at i:64660599 original size:81 final size:80
Alignment explanation
Indices: 64660409--64660695 Score: 224
Period size: 81 Copynumber: 3.5 Consensus size: 80
64660399 CGGTTTACAA
* *
64660409 AATTACTG-AATACCTTTGGTTTACAAAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAA
1 AATTACTGAAATACCTTTGATTTGCAAAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAA
64660473 TACCCCTAATTTTTGG
66 TACCCCTAA-TTTTGG
* * ** * * * * * *
64660489 TATTACTGAAATACCCTCAACTTGTAAAATTATCGAAATACCCTCGATTTGTAAATTTACCAAAA
1 AATTACTGAAATACCTTTGATTTGCAAAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAA
*
64660554 TACCCCTGA-TTTGG
66 TACCCCTAATTTTGG
* * * *
64660568 AAAATTA-TCGAAATACCTTTGATTTGGAAAATTACAAAAATACCC-CTGATTTA-AAAAATTTC
1 --AATTACT-GAAATACCTTTGATTTGCAAAATTACCAAAATACCCTC-GA-TTAGTAAAATTAC
* * * **
64660630 AAAAATACCCTTGACTTTTAAA
61 CAAAATACCCCT-AATTTT-GG
** * * *
64660652 AATTACAAAAATACCATTGGTTTGCAAAATTACTAAAATACCCT
1 AATTACTGAAATACCTTTGATTTGCAAAATTACCAAAATACCCT
64660696 TGGTTATTAC
Statistics
Matches: 158, Mismatches: 38, Indels: 19
0.73 0.18 0.09
Matches are distributed among these distances:
79 5 0.03
80 9 0.06
81 103 0.65
82 38 0.24
83 3 0.02
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (80 bp):
AATTACTGAAATACCTTTGATTTGCAAAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAA
TACCCCTAATTTTGG
Found at i:64660700 original size:27 final size:27
Alignment explanation
Indices: 64660382--64660697 Score: 181
Period size: 27 Copynumber: 11.7 Consensus size: 27
64660372 TGTAGGGTAG
* * * **
64660382 AATTACTGAAATACCCTCGGTTTACAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * * **
64660409 AATTACT-GAATACCTTTGGTTTACAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * *
64660435 AATTACCAAAATACCCTCGATTAGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * * * **
64660462 AATTACCAAAATACCCCTAATTTTTGG
1 AATTACTAAAATACCCTTGATTTGTAA
* * ** *
64660489 TATTACTGAAATACCCTCAACTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* *
64660516 AATTA-TCGAAATACCCTCGATTTGTAA
1 AATTACT-AAAATACCCTTGATTTGTAA
* * * *
64660543 ATTTACCAAAATACCCCTGATTTGGAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * *
64660570 AATTA-TCGAAATACCTTTGATTTGGAA
1 AATTACT-AAAATACCCTTGATTTGTAA
* * **
64660597 AATTACAAAAATACCCCTGATTTAAAA
1 AATTACTAAAATACCCTTGATTTGTAA
* *
64660624 AATTTCAAAAATACCCTTGACTTT-TAAA
1 AATTACTAAAATACCCTTGA-TTTGT-AA
* * * *
64660652 AATTACAAAAATACCATTGGTTTGCAA
1 AATTACTAAAATACCCTTGATTTGTAA
64660679 AATTACTAAAATACCCTTG
1 AATTACTAAAATACCCTTG
64660698 GTTATTACCT
Statistics
Matches: 225, Mismatches: 56, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
26 23 0.10
27 180 0.80
28 22 0.10
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGATTTGTAA
Found at i:64661510 original size:13 final size:13
Alignment explanation
Indices: 64661492--64661516 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64661482 TATAAACACC
64661492 AAAAATATTTTTA
1 AAAAATATTTTTA
64661505 AAAAATATTTTT
1 AAAAATATTTTT
64661517 CTATCTCGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAAAATATTTTTA
Found at i:64671402 original size:27 final size:27
Alignment explanation
Indices: 64671353--64671404 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
64671343 AAAATAACCA
*
64671353 TAATGCCCTTGTAGGGTAAAATGACTG
1 TAATACCCTTGTAGGGTAAAATGACTG
*
64671380 TAATACCCTTGTATGGTAAAATGAC
1 TAATACCCTTGTAGGGTAAAATGAC
64671405 GATTATGGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (27 bp):
TAATACCCTTGTAGGGTAAAATGACTG
Found at i:64671416 original size:27 final size:27
Alignment explanation
Indices: 64671341--64671416 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
64671331 CCTAAAATAA
* *
64671341 GTAAAATAACCATAATGCCCTTGTAGG
1 GTAAAATGACGATAATGCCCTTGTAGG
* *
64671368 GTAAAATGACTG-TAATACCCTTGTATG
1 GTAAAATGAC-GATAATGCCCTTGTAGG
* *
64671395 GTAAAATGACGATTATGGCCTT
1 GTAAAATGACGATAATGCCCTT
64671417 ATATTTAGTA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.03
27 39 0.98
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (27 bp):
GTAAAATGACGATAATGCCCTTGTAGG
Found at i:64671597 original size:27 final size:27
Alignment explanation
Indices: 64671545--64671623 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
64671535 GGAAATACAG
* * *
64671545 TACTGGTGACTATGTCAC-ATTCACTGT
1 TACTGGTGGCTATGCCACAATT-ACTGA
*
64671572 TGCTGGTGGCTATGCCACAATTACTGA
1 TACTGGTGGCTATGCCACAATTACTGA
* * *
64671599 TACTGGTGGCTTTCCCACACTTACT
1 TACTGGTGGCTATGCCACAATTACT
64671624 ATTTTGGCAG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 40 0.93
28 3 0.07
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (27 bp):
TACTGGTGGCTATGCCACAATTACTGA
Found at i:64671854 original size:33 final size:32
Alignment explanation
Indices: 64671812--64671912 Score: 132
Period size: 33 Copynumber: 3.0 Consensus size: 32
64671802 GCCGCACTAT
*
64671812 TACTATATAGGGCTAAGACCCAGACTGTGCTGA
1 TACTATATAGGGCTAAG-CCCAGACTGTACTGA
64671845 TACTATATAGGGCTAAGGCCCAGACTGTACTGA
1 TACTATATAGGGCTAA-GCCCAGACTGTACTGA
*
64671878 TACTGA-ATAGGGCTCAAGCCTAGACTGTTACTGA
1 TACT-ATATAGGGCT-AAGCCCAGACTG-TACTGA
64671912 T
1 T
64671913 CTAGGCTTAG
Statistics
Matches: 62, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
33 51 0.82
34 11 0.18
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (32 bp):
TACTATATAGGGCTAAGCCCAGACTGTACTGA
Found at i:64674096 original size:43 final size:43
Alignment explanation
Indices: 64674049--64674141 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
64674039 CCAAACGTGA
64674049 TCTTACATGTAATCACATAT-CGATACC-ATTGTCCCAGACAGGG
1 TCTTACATG-AATCACATATACGATACCGATT-TCCCAGACAGGG
* *
64674092 TCTTACATGAATCACATATACGATGCCGATTTCCCAGACATGG
1 TCTTACATGAATCACATATACGATACCGATTTCCCAGACAGGG
*
64674135 ACTTACA
1 TCTTACA
64674142 CACAATCGCA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
42 10 0.22
43 32 0.71
44 3 0.07
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (43 bp):
TCTTACATGAATCACATATACGATACCGATTTCCCAGACAGGG
Found at i:64677377 original size:27 final size:27
Alignment explanation
Indices: 64677316--64677425 Score: 147
Period size: 27 Copynumber: 4.1 Consensus size: 27
64677306 CAGCATGGCT
* *
64677316 ACCAGAACAGATA-TTGT-G-ACAGTC
1 ACCAGAACAGATATTTGTGGCAGAGCC
64677340 ACCAGATACAGATA-TTGTGGCAGAGCC
1 ACCAGA-ACAGATATTTGTGGCAGAGCC
64677367 ACCAGAAACAGATATTTGTGGCAGAGCC
1 ACCAG-AACAGATATTTGTGGCAGAGCC
*
64677395 ACCAGATCAGATATTTGTGGCAGAGCC
1 ACCAGAACAGATATTTGTGGCAGAGCC
64677422 ACCA
1 ACCA
64677426 AAATGCTTCC
Statistics
Matches: 78, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
24 6 0.08
25 11 0.14
26 1 0.01
27 41 0.53
28 19 0.24
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (27 bp):
ACCAGAACAGATATTTGTGGCAGAGCC
Found at i:64677413 original size:55 final size:51
Alignment explanation
Indices: 64677316--64677425 Score: 150
Period size: 55 Copynumber: 2.1 Consensus size: 51
64677306 CAGCATGGCT
*
64677316 ACCAGAACAGATATTGTGACAGTCACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGAACAGATATTGTGACAGCCACCAGATACAGATATTGTGGCAGAGCC
*
64677367 ACCAGAAACAGATATTTGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCC
1 ACCAG-AACAGATA-TTGT-G-ACAGCCACCAGATACAGATA-TTGTGGCAGAGCC
64677422 ACCA
1 ACCA
64677426 AAATGCTTCC
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
51 5 0.10
52 8 0.15
53 4 0.08
54 7 0.13
55 28 0.54
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (51 bp):
ACCAGAACAGATATTGTGACAGCCACCAGATACAGATATTGTGGCAGAGCC
Found at i:64681542 original size:39 final size:39
Alignment explanation
Indices: 64681488--64681605 Score: 164
Period size: 39 Copynumber: 3.0 Consensus size: 39
64681478 GATGTGTATG
64681488 AATGTGCGAATTGTGATAACCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATAACCGGGCTAAGCCCGAAGGCA
* * *
64681527 AATGTGCGAATTGTGATATCCGGGCTAAGTCCAAAGGCA
1 AATGTGCGAATTGTGATAACCGGGCTAAGCCCGAAGGCA
* * * *
64681566 ATTGTGCGAGTTGTGATACCCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGAATTGTGATAACCGGGCTAAG-CCCGAAGGCA
64681606 TTTGTGCGGG
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
39 61 0.88
40 8 0.12
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (39 bp):
AATGTGCGAATTGTGATAACCGGGCTAAGCCCGAAGGCA
Found at i:64685123 original size:26 final size:28
Alignment explanation
Indices: 64685069--64685137 Score: 97
Period size: 26 Copynumber: 2.5 Consensus size: 28
64685059 AAATTTGTAC
**
64685069 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
64685097 AGCACTATGTGTGCG-AGCTGATT-TAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
64685123 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
64685138 GACTTATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 17 0.46
27 6 0.16
28 14 0.38
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:64693183 original size:26 final size:28
Alignment explanation
Indices: 64693129--64693197 Score: 97
Period size: 26 Copynumber: 2.5 Consensus size: 28
64693119 AAATTTGTAC
**
64693129 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
64693157 AGCACTATGTGTGCG-AGCTGATT-TAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
64693183 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
64693198 GACTTATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 17 0.46
27 6 0.16
28 14 0.38
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:64700886 original size:39 final size:39
Alignment explanation
Indices: 64700832--64700988 Score: 269
Period size: 39 Copynumber: 4.0 Consensus size: 39
64700822 GATGTGTATG
64700832 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
64700871 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
64700910 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * * *
64700949 ATTGTGCGAGTTGTGATACCCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
64700989 TTTGTGCGGG
Statistics
Matches: 113, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 103 0.91
40 10 0.09
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (39 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
Found at i:64703321 original size:20 final size:20
Alignment explanation
Indices: 64703293--64703331 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
64703283 TTTGATAAAC
*
64703293 ATGATATGTATGATATGCAA
1 ATGACATGTATGATATGCAA
64703313 ATGACATGTATGATATGCA
1 ATGACATGTATGATATGCA
64703332 CACGAGATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGACATGTATGATATGCAA
Found at i:64703341 original size:20 final size:20
Alignment explanation
Indices: 64703298--64703341 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
64703288 TAAACATGAT
*
64703298 ATGTATGATATGCAAATGAC
1 ATGTATGATATGCAAACGAC
* *
64703318 ATGTATGATATGCACACGAG
1 ATGTATGATATGCAAACGAC
64703338 ATGT
1 ATGT
64703342 TCATAAATGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (20 bp):
ATGTATGATATGCAAACGAC
Found at i:64703418 original size:23 final size:22
Alignment explanation
Indices: 64703388--64703507 Score: 134
Period size: 23 Copynumber: 5.1 Consensus size: 22
64703378 AGGAAGTGCA
64703388 AAAGGGCTTATGCCCCGTTTATT
1 AAAGGGCTTATGCCCCG-TTATT
64703411 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCC-GTTATT
*
64703434 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCC-CGTTATT
* *
64703457 AAAGGGCTTTTGCCCTAGTTATT
1 AAAGGGCTTATGCCC-CGTTATT
64703480 AAAAAAGGGCTT-TGCCCCAGTTATT
1 ---AAAGGGCTTATGCCCC-GTTATT
64703505 AAA
1 AAA
64703508 AGAGGCTAGG
Statistics
Matches: 88, Mismatches: 3, Indels: 13
0.85 0.03 0.12
Matches are distributed among these distances:
22 3 0.03
23 64 0.73
24 1 0.01
25 11 0.12
26 9 0.10
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (22 bp):
AAAGGGCTTATGCCCCGTTATT
Found at i:64703456 original size:46 final size:46
Alignment explanation
Indices: 64703387--64703507 Score: 156
Period size: 46 Copynumber: 2.6 Consensus size: 46
64703377 AAGGAAGTGC
*
64703387 AAAAGGGCTTATGCCCCGTTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCAG-TTATTAAAGGGCTTATGCCCCAGTTATT
* *
64703434 -AAAGGGCTTATGCCCTAGTTATTAAAGGGCTTTTGCCCTAGTTATT
1 AAAAGGGCTTATGCCC-AGTTATTAAAGGGCTTATGCCCCAGTTATT
64703480 AAAAAAGGGCTT-TGCCCCAGTTATTAAA
1 --AAAAGGGCTTATG-CCCAGTTATTAAA
64703508 AGAGGCTAGG
Statistics
Matches: 66, Mismatches: 3, Indels: 9
0.85 0.04 0.12
Matches are distributed among these distances:
46 41 0.62
47 1 0.02
48 12 0.18
49 12 0.18
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:64703524 original size:25 final size:25
Alignment explanation
Indices: 64703411--64703528 Score: 70
Period size: 23 Copynumber: 4.8 Consensus size: 25
64703401 CCCGTTTATT
*
64703411 AAAGGGCTTATGCCCCAGTTATT---
1 AAAGGGC-TAGGCCCCAGTTATTAAA
* *
64703434 AAAGGGCTTATGCCCTAGTTATT---
1 AAAGGGC-TAGGCCCCAGTTATTAAA
** *
64703457 AAAGGGCTTTTGCCCTAGTTATTAAA
1 AAAGGGC-TAGGCCCCAGTTATTAAA
**
64703483 AAAGGGCTTTGCCCCAGTTATTAAA
1 AAAGGGCTAGGCCCCAGTTATTAAA
*
64703508 AGA-GGCTAGGCCTCCAGTTAT
1 AAAGGGCTAGGCC-CCAGTTAT
64703529 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
23 44 0.52
24 7 0.08
25 27 0.32
26 7 0.08
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (25 bp):
AAAGGGCTAGGCCCCAGTTATTAAA
Found at i:64703757 original size:31 final size:31
Alignment explanation
Indices: 64703722--64703785 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
64703712 CGTTTACAGT
64703722 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
64703753 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
64703784 AA
1 AA
64703786 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:64711392 original size:20 final size:20
Alignment explanation
Indices: 64711367--64711409 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
64711357 ATTTTGGTAA
*
64711367 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
*
64711387 ACATGACATGTATGATATTC
1 ACATGACATGTATGATATGC
64711407 ACA
1 ACA
64711410 CGAGATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:64711417 original size:20 final size:20
Alignment explanation
Indices: 64711374--64711417 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
64711364 TAAACATGAT
*
64711374 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACACGAC
* *
64711394 ATGTATGATATTCACACGAG
1 ATGTATGATATGCACACGAC
64711414 ATGT
1 ATGT
64711418 TCATAAATGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACACGAC
Found at i:64711517 original size:23 final size:24
Alignment explanation
Indices: 64711462--64711628 Score: 227
Period size: 23 Copynumber: 7.0 Consensus size: 24
64711452 GAGGAAGTGC
64711462 AAAAGGGCTTATGCCCC-GTTTATT
1 AAAAGGGCTTATGCCCCAG-TTATT
64711486 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
64711510 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
64711533 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
64711557 -AAAGGGCTTATGCCCGAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
64711580 AAAAAAGGGCTT-TGCCTCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
64711605 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
64711629 ATAATAAAGT
Statistics
Matches: 130, Mismatches: 5, Indels: 15
0.87 0.03 0.10
Matches are distributed among these distances:
23 51 0.39
24 51 0.39
25 19 0.15
26 9 0.07
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:64711532 original size:47 final size:47
Alignment explanation
Indices: 64711463--64711607 Score: 231
Period size: 47 Copynumber: 3.1 Consensus size: 47
64711453 AGGAAGTGCA
64711463 AAAGGGCTTATGCCCC-GTTTATTAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAG-TTATTAAAAGGGCTTATGCCCCAGTTATT
64711510 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
* *
64711557 AAAGGGCTTATGCCCGAGTTATTAAAAAAGGGCTT-TGCCTCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT--AAAAGGGCTTATGCCCCAGTTATT
64711605 AAA
1 AAA
64711608 AGAGGCTAGG
Statistics
Matches: 93, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
47 67 0.72
48 16 0.17
49 10 0.11
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:64718768 original size:27 final size:28
Alignment explanation
Indices: 64718731--64718843 Score: 135
Period size: 27 Copynumber: 4.2 Consensus size: 28
64718721 AGCATGGCTG
** *
64718731 CCAGA-ACAGATA-TTGTGATAGAGTCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
*
64718757 CCAGATACAGATA-CTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* *
64718784 CCAGAAATAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
*
64718812 CCAAAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
64718839 CCAGA
1 CCAGA
64718844 ACGCTTCCTC
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
26 5 0.07
27 52 0.70
28 17 0.23
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATTTGTGGCAGAGCCA
Found at i:64723804 original size:41 final size:41
Alignment explanation
Indices: 64723759--64723876 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
64723749 TGAAAGATAA
64723759 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
64723800 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
64723830 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
64723871 ATGTAG
1 ATGTAG
64723877 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:64723815 original size:71 final size:71
Alignment explanation
Indices: 64723727--64723890 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
64723717 GAGATGTATC
64723727 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
64723792 AGGACA
66 AGGACA
64723798 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
64723863 AGGACA
66 AGGACA
64723869 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
64723891 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:64731379 original size:41 final size:41
Alignment explanation
Indices: 64731334--64731451 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
64731324 TGAAAGATAA
64731334 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
64731375 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
64731405 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
64731446 ATGTAG
1 ATGTAG
64731452 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:64731390 original size:71 final size:71
Alignment explanation
Indices: 64731302--64731465 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
64731292 GAGATGTATC
64731302 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
64731367 AGGACA
66 AGGACA
64731373 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
64731438 AGGACA
66 AGGACA
64731444 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
64731466 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:64733952 original size:13 final size:13
Alignment explanation
Indices: 64733934--64733960 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
64733924 TCACAATTTT
64733934 GGAAGAAATTGCA
1 GGAAGAAATTGCA
64733947 GGAAGAAATTGCA
1 GGAAGAAATTGCA
64733960 G
1 G
64733961 AAAGCTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.33, T:0.15
Consensus pattern (13 bp):
GGAAGAAATTGCA
Found at i:64735957 original size:17 final size:18
Alignment explanation
Indices: 64735932--64735971 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
64735922 AGCCTTGGCC
* *
64735932 CAGTGCAGTAACAGT-AA
1 CAGTACAGTAACAATAAA
64735949 CAGTACAGTAACAATAAA
1 CAGTACAGTAACAATAAA
64735967 CAGTA
1 CAGTA
64735972 TGCAAAGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.17
Consensus pattern (18 bp):
CAGTACAGTAACAATAAA
Found at i:64736317 original size:27 final size:27
Alignment explanation
Indices: 64736273--64736431 Score: 158
Period size: 27 Copynumber: 5.9 Consensus size: 27
64736263 ACATACATCA
* * *
64736273 CATAGGGGTAAAACAGTCATCTTACCAT
1 CATAAGGGCAAAACAGTCATTTTACC-T
* *
64736301 CA-AAGGGCAAAATAGTCATTTTACCA
1 CATAAGGGCAAAACAGTCATTTTACCT
* **
64736327 CATAAAGGCAAAACAACCATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
* * * *
64736354 CATAAGGGCAGAATATTTATTTTACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
* * *
64736381 CATAAGGGAAAAACAATCATTTCACCT
1 CATAAGGGCAAAACAGTCATTTTACCT
*
64736408 CACAAGGGCAAAACAGTCATTTTA
1 CATAAGGGCAAAACAGTCATTTTA
64736432 TGTAACATCT
Statistics
Matches: 104, Mismatches: 26, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
26 2 0.02
27 100 0.96
28 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.25
Consensus pattern (27 bp):
CATAAGGGCAAAACAGTCATTTTACCT
Found at i:64737421 original size:38 final size:38
Alignment explanation
Indices: 64737372--64737617 Score: 150
Period size: 47 Copynumber: 5.7 Consensus size: 38
64737362 AATGTGGTAA
* *
64737372 TAAGTGAATATACCACGGTTATACGTGTAACGTGGTGC
1 TAAGTGGATATACCACGGTTATACATGTAACGTGGTGC
*
64737410 TAAGTGGATATACCACGATTACACATATTGATACATGTAACGTGGTGC
1 TAAGTGGATATACCACG---------GTT-ATACATGTAACGTGGTGC
* * *
64737458 TAAGTGGATATGCCATGGTTACATATATTGATTCATTAACGTGGTGC
1 TAAGTGGATATACCACGGTT--ATACA-TG------TAACGTGGTGC
*
64737505 TAAGTGGATATACCACGGTTAAACATGTAACGTGGTGC
1 TAAGTGGATATACCACGGTTATACATGTAACGTGGTGC
* *
64737543 TAAGTGGATATGCCACGGTTACATATATTGAGTCATTAACGTGGTGC
1 TAAGTGGATATACCACGGTT--ATACA-T--G----TAACGTGGTGC
*
64737590 TAAGTGGATATGCCACGGTTATACATGT
1 TAAGTGGATATACCACGGTTATACATGT
64737618 TAATTTGAAA
Statistics
Matches: 165, Mismatches: 16, Indels: 54
0.70 0.07 0.23
Matches are distributed among these distances:
38 47 0.28
39 2 0.01
40 7 0.04
41 3 0.02
42 1 0.01
43 1 0.01
44 3 0.02
45 7 0.04
47 62 0.38
48 32 0.19
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (38 bp):
TAAGTGGATATACCACGGTTATACATGTAACGTGGTGC
Found at i:64737525 original size:47 final size:47
Alignment explanation
Indices: 64737399--64737610 Score: 280
Period size: 47 Copynumber: 4.7 Consensus size: 47
64737389 GTTATACGTG
* * * *
64737399 TAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
1 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
*
64737446 GTAACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCAT
1 -TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
* *
64737494 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------
1 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
*
64737532 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGAGTCAT
1 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
64737579 TAACGTGGTGCTAAGTGGATATGCCACGGTTA
1 TAACGTGGTGCTAAGTGGATATGCCACGGTTA
64737611 TACATGTTAA
Statistics
Matches: 145, Mismatches: 10, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
38 31 0.21
39 1 0.01
40 2 0.01
41 2 0.01
44 2 0.01
45 2 0.01
46 1 0.01
47 62 0.43
48 42 0.29
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
Found at i:64737546 original size:85 final size:85
Alignment explanation
Indices: 64737442--64737617 Score: 316
Period size: 85 Copynumber: 2.1 Consensus size: 85
64737432 ACATATTGAT
* *
64737442 ACATGTAACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGAGTCATTAACGTGGTGCTA
64737507 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
64737527 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGAGTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGAGTCATTAACGTGGTGCTA
* *
64737592 AGTGGATATGCCACGGTTAT
66 AGTGGATATACCACGGTTAA
64737612 ACATGT
1 ACATGT
64737618 TAATTTGAAA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGAGTCATTAACGTGGTGCTA
AGTGGATATACCACGGTTAA
Found at i:64739285 original size:29 final size:29
Alignment explanation
Indices: 64739251--64739353 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
64739241 TAATCAGCCG
** *
64739251 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
64739280 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
64739309 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
64739338 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
64739354 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:64747363 original size:29 final size:29
Alignment explanation
Indices: 64747329--64747431 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
64747319 TAATCAGCCG
** *
64747329 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
64747358 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
64747387 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
64747416 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
64747432 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:64752073 original size:26 final size:27
Alignment explanation
Indices: 64752037--64752089 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
64752027 TGTCAGCTAG
* *
64752037 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
64752063 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
64752090 CAGAATTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:64753959 original size:45 final size:45
Alignment explanation
Indices: 64753907--64754159 Score: 382
Period size: 45 Copynumber: 5.6 Consensus size: 45
64753897 CGGGCTTCGG
64753907 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
* * *
64753952 GCCTAGCAGGCTATGATGCCAGTGAGATATTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
64753997 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTT-A
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
* * *
64754041 TGCCTAGTAGGCTATGATGCAGGTGAAATATTATTCGGGCCTTTGA
1 -GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
* * * * *
64754087 GCCTAGCAGGCTATAATGCCGATGAGATACTATTCAGGCTTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
*
64754132 GCCTAGCAGGCTATAATGCCGGTGAAAT
1 GCCTAGCAGGCTATGATGCCGGTGAAAT
64754160 GATATCGGGC
Statistics
Matches: 187, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
44 1 0.01
45 185 0.99
46 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (45 bp):
GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
Found at i:64756463 original size:15 final size:15
Alignment explanation
Indices: 64756443--64756484 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
64756433 GATGTAAATG
64756443 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
64756458 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
64756473 GGATTTCCTTAT
1 GGATTTCCTTAT
64756485 TCTAGGCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:64758785 original size:38 final size:38
Alignment explanation
Indices: 64758734--64759016 Score: 138
Period size: 38 Copynumber: 6.7 Consensus size: 38
64758724 ATGAAAAAAT
64758734 GTGGTGCTAAGTGGATATACCACGGTTATACGTGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTATACGTGTAAC
*
64758772 GTGGTGCTAAGTGGATATACCACGATTACACATATTGATACGTGTAAC
1 GTGGTGCTAAGTGGATATACCACG---------GTT-ATACGTGTAAC
* ** * *
64758820 GTGGTGCTAAGTGGATATGCCACATTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCAC-GGT---TATA-CG--T--GTAAC
* * *
64758867 GTGGTGCTAAGTGGATATACCATC-GTTAAACATGTAAT
1 GTGGTGCTAAGTGGATATACCA-CGGTTATACGTGTAAC
* *
64758905 GTGGTGCTAAGTGGATATGA-CACGGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATAT-ACCACGG-T---TATA-CG--T--GTAAC
* * *
64758952 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAT
1 GTGGTGCTAAGTGGATATACCACGGTTATACGTGTAAC
* *
64758990 GTGGTGATAAGTGGATATGCCACGGTT
1 GTGGTGCTAAGTGGATATACCACGGTT
64759017 GTACATGTTA
Statistics
Matches: 188, Mismatches: 25, Indels: 64
0.68 0.09 0.23
Matches are distributed among these distances:
37 1 0.01
38 76 0.40
39 2 0.01
40 3 0.02
42 6 0.03
43 8 0.04
45 2 0.01
46 3 0.02
47 53 0.28
48 34 0.18
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCACGGTTATACGTGTAAC
Found at i:64758832 original size:48 final size:48
Alignment explanation
Indices: 64758761--64758984 Score: 217
Period size: 47 Copynumber: 4.9 Consensus size: 48
64758751 TACCACGGTT
*
64758761 ATACGTGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
* * *
64758809 ATACGTGTAACGTGGTGCTAAGTGGATATGCCAC-ATTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGA-TTACACATATTG
*
64758857 ATTCAT-TAACGTGGTGCTAAGTGGATATACCATCG--T-----TA---
1 ATACATGTAACGTGGTGCTAAGTGGATATACCA-CGATTACACATATTG
* * *
64758895 A-ACATGTAATGTGGTGCTAAGTGGATATGA-CACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATAT-ACCACGATTACACATATTG
* * *
64758942 ATTCAT-TAACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACAT
64758985 GTAATGTGGT
Statistics
Matches: 148, Mismatches: 11, Indels: 35
0.76 0.06 0.18
Matches are distributed among these distances:
37 5 0.03
38 24 0.16
39 2 0.01
41 2 0.01
44 2 0.01
46 2 0.01
47 59 0.40
48 52 0.35
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.32
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
Found at i:64759014 original size:85 final size:85
Alignment explanation
Indices: 64758814--64759016 Score: 345
Period size: 85 Copynumber: 2.4 Consensus size: 85
64758804 TATTGATACG
* **
64758814 TGTAACGTGGTGCTAAGTGGATATGCCACATTTACATATATTGATTCATTAACGTGGTGCTAAGT
1 TGTAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGT
64758879 GGATATACCATCGTTAAACA
66 GGATATACCATCGTTAAACA
*
64758899 TGTAATGTGGTGCTAAGTGGATATGACACGGTTACATATATTGATTCATTAACGTGGTGCTAAGT
1 TGTAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGT
64758964 GGATATACCA-CGGTTAAACA
66 GGATATACCATC-GTTAAACA
*
64758984 TGTAATGTGGTGATAAGTGGATATGCCACGGTT
1 TGTAATGTGGTGCTAAGTGGATATGCCACGGTT
64759017 GTACATGTTA
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
84 1 0.01
85 110 0.99
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.33
Consensus pattern (85 bp):
TGTAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGT
GGATATACCATCGTTAAACA
Found at i:64759391 original size:12 final size:12
Alignment explanation
Indices: 64759374--64759411 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
64759364 CCAAAAATAG
64759374 TAGAAGTGGAAT
1 TAGAAGTGGAAT
64759386 TAGAAGTGGAAT
1 TAGAAGTGGAAT
*
64759398 GAGATA-TGGAAT
1 TAGA-AGTGGAAT
64759410 TA
1 TA
64759412 AAGCTTATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 22 0.96
13 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.26
Consensus pattern (12 bp):
TAGAAGTGGAAT
Found at i:64766117 original size:29 final size:29
Alignment explanation
Indices: 64766077--64766179 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 29
64766067 TAATCGATCA
* *
64766077 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATATAATTTAAGCT
* *
64766106 CGTACACATAGTGCCATATAATTTAAGCT
1 CGCACACTTAGTGCCATATAATTTAAGCT
*
64766135 CGCACACTTAGTGCCATA-CATTTCAAGCT
1 CGCACACTTAGTGCCATATAATTT-AAGCT
*
64766164 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
64766180 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
28 4 0.06
29 61 0.94
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATAATTTAAGCT
Found at i:64771099 original size:43 final size:42
Alignment explanation
Indices: 64771052--64771172 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 42
64771042 CAATGCCAAC
*
64771052 GTCCCAGACGTGGTCTTACATGTAATCACATATCGATG-CCATT
1 GTCCCAGACGTGGTCTTACACG-AATCACATATCGATGTCCA-T
* * *
64771095 GTCCCAAATAG-GGTCTTACACGAATCACATATACGATGTCGAT
1 GTCCCAGA-CGTGGTCTTACACGAATCACATAT-CGATGTCCAT
* *
64771138 GTCCTAGACATGGTCTTACACGCAATCACATATCG
1 GTCCCAGACGTGGTCTTACACG-AATCACATATCG
64771173 TAAATCCTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
42 10 0.15
43 42 0.65
44 13 0.20
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (42 bp):
GTCCCAGACGTGGTCTTACACGAATCACATATCGATGTCCAT
Found at i:64772351 original size:13 final size:13
Alignment explanation
Indices: 64772333--64772357 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64772323 TATAAACACC
64772333 AAAAATATTTTTA
1 AAAAATATTTTTA
64772346 AAAAATATTTTT
1 AAAAATATTTTT
64772358 CTATCTCAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAAAATATTTTTA
Found at i:64776114 original size:39 final size:39
Alignment explanation
Indices: 64776039--64776160 Score: 217
Period size: 39 Copynumber: 3.1 Consensus size: 39
64776029 TGGTAGCCCA
* *
64776039 CACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCG
1 CACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCG
64776079 CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCG
1 CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCG
64776118 CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCG
1 CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCG
64776157 CACA
1 CACA
64776161 TTTATACACA
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
39 65 0.81
40 15 0.19
ACGTcount: A:0.26, C:0.34, G:0.19, T:0.21
Consensus pattern (39 bp):
CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCG
Found at i:64780331 original size:39 final size:39
Alignment explanation
Indices: 64780249--64780411 Score: 281
Period size: 39 Copynumber: 4.2 Consensus size: 39
64780239 TATGGTAGCC
* * *
64780249 CGCACAAATGCCTTCGGGACTTAACCCAGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
64780289 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
64780328 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACG
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
64780367 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
64780406 CGCACA
1 CGCACA
64780412 TTTATACACA
Statistics
Matches: 118, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 101 0.86
40 17 0.14
ACGTcount: A:0.26, C:0.34, G:0.20, T:0.21
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:64789708 original size:27 final size:27
Alignment explanation
Indices: 64789656--64789737 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
64789646 GGAAATACAG
* *
64789656 TACTGGTGACTATGTCAC-ATTCACTGT
1 TACTGGTGGCTATGCCACAATT-ACTGT
* *
64789683 TGCTGGTGGCTATGCCACAATTACTGA
1 TACTGGTGGCTATGCCACAATTACTGT
* *
64789710 TACTGGTGGCTTTGCCACACTTACTGT
1 TACTGGTGGCTATGCCACAATTACTGT
64789737 T
1 T
64789738 TTGGCAGCTA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 43 0.93
28 3 0.07
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (27 bp):
TACTGGTGGCTATGCCACAATTACTGT
Found at i:64789965 original size:33 final size:33
Alignment explanation
Indices: 64789923--64790023 Score: 141
Period size: 33 Copynumber: 3.0 Consensus size: 33
64789913 GCGACACTAT
*
64789923 TACTATATAGGGCTAAGGCCCAGACTGTGCTGA
1 TACTATATAGGGCTAAGGCCCAGACTGTACTGA
*
64789956 TACTATATAGGGCTAAGGCCCAGATTGTACTGA
1 TACTATATAGGGCTAAGGCCCAGACTGTACTGA
* *
64789989 TACTGA-ATAGGGCTTAGGCCTAGACTGTTACTGA
1 TACT-ATATAGGGCTAAGGCCCAGACTG-TACTGA
64790023 T
1 T
64790024 CTAGACTTAG
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
33 53 0.87
34 8 0.13
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (33 bp):
TACTATATAGGGCTAAGGCCCAGACTGTACTGA
Found at i:64792252 original size:43 final size:43
Alignment explanation
Indices: 64792162--64792253 Score: 107
Period size: 43 Copynumber: 2.1 Consensus size: 43
64792152 CAAACGTGAT
*
64792162 CTTACATGTAATCACATATCGATACCATTGTCCCAGACAGGGT
1 CTTACATGTAATCACATATCGATACCATTGTCCCAGACAGGGA
* * * *
64792205 CTTACATG-AATCACATATACGATGTCGATT-TCCCGGACATGGA
1 CTTACATGTAATCACATAT-CGAT-ACCATTGTCCCAGACAGGGA
64792248 CTTACA
1 CTTACA
64792254 CACAATCGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 10 0.24
43 28 0.67
44 4 0.10
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
CTTACATGTAATCACATATCGATACCATTGTCCCAGACAGGGA
Found at i:64795565 original size:25 final size:27
Alignment explanation
Indices: 64795529--64795638 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
64795519 CAGCATGGCT
* *
64795529 ACCAGA-ACAGATATTGT-G-ACAGTC
1 ACCAGATACAGATATTGTGGCAGAGCC
64795553 ACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGATACAGATATTGTGGCAGAGCC
*
64795580 ACCAGAAACAGATATTTGTGGCAGAGCC
1 ACCAGATACAGATA-TTGTGGCAGAGCC
*
64795608 ACCAGAT-CAGATATTTGTGGTAGAGCC
1 ACCAGATACAGATA-TTGTGGCAGAGCC
64795635 ACCA
1 ACCA
64795639 AAACGCTTCC
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
24 6 0.08
25 11 0.14
26 1 0.01
27 40 0.52
28 19 0.25
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
ACCAGATACAGATATTGTGGCAGAGCC
Found at i:64795626 original size:55 final size:52
Alignment explanation
Indices: 64795529--64795642 Score: 144
Period size: 55 Copynumber: 2.2 Consensus size: 52
64795519 CAGCATGGCT
*
64795529 ACCAG-AACAGATATTGTGACAGTCACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGAAACAGATATTGTGACAGCCACCAGATACAGATATTGTGGCAGAGCC
* *
64795580 ACCAGAAACAGATATTTGTGGCAGAGCCACCAGAT-CAGATATTTGTGGTAGAGCC
1 ACCAGAAACAGATA-TTGT-G-ACAGCCACCAGATACAGATA-TTGTGGCAGAGCC
64795635 ACCA-AAAC
1 ACCAGAAAC
64795643 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
51 5 0.09
52 8 0.15
53 4 0.07
54 11 0.20
55 27 0.49
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (52 bp):
ACCAGAAACAGATATTGTGACAGCCACCAGATACAGATATTGTGGCAGAGCC
Found at i:64796889 original size:25 final size:22
Alignment explanation
Indices: 64796835--64796889 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 22
64796825 TTTTGGCCAG
64796835 AGAAGAAAAGAAGGAGAAAAGA
1 AGAAGAAAAGAAGGAGAAAAGA
* *
64796857 AAATAGAAGAAGAGAGGAGAAGAGA
1 AGA-AGAA-AAGA-AGGAGAAAAGA
64796882 AGGAAGAA
1 A-GAAGAA
64796890 TTCGACACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 4 0.15
24 4 0.15
25 15 0.58
26 1 0.04
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.02
Consensus pattern (22 bp):
AGAAGAAAAGAAGGAGAAAAGA
Found at i:64802699 original size:30 final size:30
Alignment explanation
Indices: 64802644--64802774 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
64802634 ATAGTGAATC
*
64802644 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
64802673 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
64802703 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
64802731 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
64802761 CGCACACTTAGTGC
1 CGCACACTTAGTGC
64802775 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:64802754 original size:58 final size:58
Alignment explanation
Indices: 64802643--64802774 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
64802633 TATAGTGAAT
* * * * *
64802643 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
64802702 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
64802760 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
64802775 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:64810653 original size:30 final size:30
Alignment explanation
Indices: 64810598--64810728 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
64810588 ATAGTGAATC
*
64810598 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
64810627 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
64810657 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
64810685 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
64810715 CGCACACTTAGTGC
1 CGCACACTTAGTGC
64810729 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:64810708 original size:58 final size:58
Alignment explanation
Indices: 64810597--64810728 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
64810587 TATAGTGAAT
* * * * *
64810597 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
64810656 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
64810714 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
64810729 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:64813855 original size:40 final size:41
Alignment explanation
Indices: 64813800--64813991 Score: 275
Period size: 40 Copynumber: 4.8 Consensus size: 41
64813790 CGGATGATAA
* *
64813800 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
64813840 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
*
64813880 CCGTGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
* * **
64813920 CCGGGCTAAGTACCGAAGGCATTTGTGAGAACTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
* *
64813960 CCGGGCTAAGTCTCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
64813992 GGCTATATCC
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 2 0.01
40 135 0.99
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
Found at i:64817466 original size:40 final size:40
Alignment explanation
Indices: 64817409--64817589 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
64817399 CCGTATCGTT
* *
64817409 ATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGC
1 ATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGC
*
64817449 ATTTCTGCGAGTTACTA-ATTCCGGGCTAAGTCCCGAAGGC
1 ATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGC
*
64817489 ATTTGTGCGAGTCACTATATCCGGGCTAAGTCCCGAAGGC
1 ATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGC
**
64817529 ATTTGTGCGAACTACTATATCCGGGCTAAGTCCCGAAGGC
1 ATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGC
* **
64817569 ATTTGAGCGAGTGGCTATATC
1 ATTTGTGCGAGTTACTATATC
64817590 TGGTTAAAGC
Statistics
Matches: 127, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
40 126 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGC
Found at i:64821361 original size:27 final size:28
Alignment explanation
Indices: 64821319--64821419 Score: 136
Period size: 27 Copynumber: 3.7 Consensus size: 28
64821309 AGAACAAATA
* *
64821319 TTGTGACAGAGTCACCAAATACAGATA-
1 TTGTGGCAGAGCCACCAAATACAGATAT
*
64821346 CTGTGGCAGAGCCACCAGAA-ACAGATAT
1 TTGTGGCAGAGCCACCA-AATACAGATAT
*
64821374 TTGTGGCAGAGCCACCAGAT-CAGATAT
1 TTGTGGCAGAGCCACCAAATACAGATAT
64821401 TTGTGGCAGAGCCACCAAA
1 TTGTGGCAGAGCCACCAAA
64821420 ACGCTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
27 47 0.72
28 18 0.28
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (28 bp):
TTGTGGCAGAGCCACCAAATACAGATAT
Found at i:64821386 original size:28 final size:27
Alignment explanation
Indices: 64821307--64821421 Score: 130
Period size: 27 Copynumber: 4.3 Consensus size: 27
64821297 AGCATGGCTG
* * *
64821307 CCAG-AACAAATATTGTGACAGAGTCA
1 CCAGAAACAGATATTGTGGCAGAGCCA
*
64821333 CCA-AATACAGATACTGTGGCAGAGCCA
1 CCAGAA-ACAGATATTGTGGCAGAGCCA
64821360 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATA-TTGTGGCAGAGCCA
*
64821388 CCAG-ATCAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATA-TTGTGGCAGAGCCA
64821415 CCA-AAAC
1 CCAGAAAC
64821422 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
26 4 0.05
27 54 0.70
28 19 0.25
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGAAACAGATATTGTGGCAGAGCCA
Found at i:64821390 original size:55 final size:54
Alignment explanation
Indices: 64821307--64821421 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 54
64821297 AGCATGGCTG
*
64821307 CCAG-AACAAATATTGTGACAGAGTCACCAAATACAGATA-CTGTGGCAGAGCCA
1 CCAGAAACAAATATTGTGACAGAGCCACCAAAT-CAGATATCTGTGGCAGAGCCA
* * * *
64821360 CCAGAAACAGATATTTGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAAACAAATA-TTGTGACAGAGCCACCAAATCAGATATCTGTGGCAGAGCCA
64821415 CCA-AAAC
1 CCAGAAAC
64821422 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
53 4 0.07
54 17 0.31
55 33 0.61
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.17
Consensus pattern (54 bp):
CCAGAAACAAATATTGTGACAGAGCCACCAAATCAGATATCTGTGGCAGAGCCA
Found at i:64827588 original size:40 final size:40
Alignment explanation
Indices: 64827539--64827746 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 40
64827529 TCTTCGGAAT
* * *
64827539 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
64827578 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
64827618 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCAGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
64827658 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
64827698 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
64827738 TTAGCCCGG
1 TTAGCCCGG
64827747 GTATCATTCA
Statistics
Matches: 143, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 3 0.02
40 139 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:64833769 original size:71 final size:71
Alignment explanation
Indices: 64833683--64833846 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
64833673 CGATTTGTCT
64833683 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
64833748 CTTTCA
66 CTTTCA
64833754 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
64833819 CTTTCA
66 CTTTCA
64833825 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
64833847 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:64841348 original size:71 final size:71
Alignment explanation
Indices: 64841262--64841425 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
64841252 CGATTTGTCT
64841262 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
64841327 CTTTCA
66 CTTTCA
64841333 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
64841398 CTTTCA
66 CTTTCA
64841404 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
64841426 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:64841463 original size:71 final size:70
Alignment explanation
Indices: 64841262--64841459 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
64841252 CGATTTGTCT
* * * *
64841262 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
64841327 CTTTCA
65 CTTTCA
* * * *
64841333 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
64841398 CTTTCA
65 CTTTCA
* *
64841404 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
64841460 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:64842914 original size:17 final size:17
Alignment explanation
Indices: 64842892--64842924 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
64842882 AATTATTATT
64842892 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
64842909 AAATATAATTTAATAA
1 AAATATAATTTAATAA
64842925 CATTCTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Done.