Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold64
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: 7997333
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 95991 characters in sequence are not A, C, G, or T
File 7 of 45
Found at i:1354049 original size:4 final size:4
Alignment explanation
Indices: 1354040--1354069 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
1354030 CATTTACTAG
1354040 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
1354070 TTATGAGCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:1354506 original size:3 final size:3
Alignment explanation
Indices: 1354498--1354553 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
1354488 TGTTTCTTTG
*
1354498 ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1354546 ATT ATT AT
1 ATT ATT AT
1354554 AAGCTTACAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1355414 original size:2 final size:2
Alignment explanation
Indices: 1355407--1355437 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1355397 CTAATTGGTG
1355407 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1355438 TTTTAAAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1355602 original size:2 final size:2
Alignment explanation
Indices: 1355595--1355636 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1355585 ACAGTTAACA
1355595 AT AT AT 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 AT AT AT
1355637 CAAACCCCTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1356394 original size:17 final size:20
Alignment explanation
Indices: 1356381--1356443 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
1356371 AATTAAAAAT
1356381 ATTTTAATATTAAATATATA
1 ATTTTAATATTAAATATATA
* *
1356401 ATTTTAATTTTAAATAAAT-
1 ATTTTAATATTAAATATATA
*
1356420 A-TTTAAT-TTAATTATA-A
1 ATTTTAATATTAAATATATA
1356437 ATTTTAA
1 ATTTTAA
1356444 AAAAATAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
17 8 0.22
18 11 0.30
19 1 0.03
20 17 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTTAATATTAAATATATA
Found at i:1356406 original size:20 final size:19
Alignment explanation
Indices: 1356381--1356443 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 19
1356371 AATTAAAAAT
1356381 ATTTTAATATTAAATATATA
1 ATTTTAAT-TTAAATATATA
*
1356401 ATTTTAATTTTAA-ATA-A
1 ATTTTAATTTAAATATATA
*
1356418 ATATTTAATTTAATTATA-A
1 AT-TTTAATTTAAATATATA
1356437 ATTTTAA
1 ATTTTAA
1356444 AAAAATAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
17 3 0.08
18 17 0.45
19 10 0.26
20 8 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTTAATTTAAATATATA
Found at i:1356421 original size:31 final size:30
Alignment explanation
Indices: 1356386--1356450 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
1356376 AAAATATTTT
* *
1356386 AATATTAAATATATAATT-TTAATTTTAAATA
1 AATATTAAAT-T-TAATTATAAATTTTAAAAA
*
1356417 AATATTTAATTTAATTATAAATTTTAAAAA
1 AATATTAAATTTAATTATAAATTTTAAAAA
1356447 AATA
1 AATA
1356451 AATTTTACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 5 0.17
30 16 0.53
31 9 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
AATATTAAATTTAATTATAAATTTTAAAAA
Found at i:1356437 original size:23 final size:24
Alignment explanation
Indices: 1356391--1356438 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
1356381 ATTTTAATAT
*
1356391 TAAATATATAATTTTAATTTTAAA
1 TAAATATATAATTTTAATTATAAA
*
1356415 TAAATATTTAA-TTTAATTATAAA
1 TAAATATATAATTTTAATTATAAA
1356438 T
1 T
1356439 TTTAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TAAATATATAATTTTAATTATAAA
Found at i:1356485 original size:3 final size:3
Alignment explanation
Indices: 1356477--1356503 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1356467 AAATAAAATT
1356477 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1356504 ATTTTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1356488 original size:21 final size:21
Alignment explanation
Indices: 1356445--1356494 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1356435 AAATTTTAAA
* * * *
1356445 AAAATAAATTTTACTATTTAT
1 AAAATAAAATTTAATAATAAT
1356466 AAAATAAAATTTAATAATAAT
1 AAAATAAAATTTAATAATAAT
1356487 AATAATAA
1 AA-AATAA
1356495 TAATAATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATAAAATTTAATAATAAT
Found at i:1366867 original size:11 final size:11
Alignment explanation
Indices: 1366851--1366876 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1366841 ACTCCAAGAC
1366851 AAAAATAAAAT
1 AAAAATAAAAT
1366862 AAAAATAAAAT
1 AAAAATAAAAT
1366873 AAAA
1 AAAA
1366877 CTTGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:1369309 original size:2 final size:2
Alignment explanation
Indices: 1369302--1369342 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1369292 AGGCAATCCA
1369302 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1369343 GAGTTAAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1371211 original size:18 final size:17
Alignment explanation
Indices: 1371170--1371213 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
1371160 TATATTTAAC
*
1371170 ATTTAAATGTTTATTTT
1 ATTTAAATGATTATTTT
*
1371187 TTGTTAAATGATTATATTT
1 AT-TTAAATGATTAT-TTT
1371206 ATTTAAAT
1 ATTTAAAT
1371214 TATAAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 17 0.77
19 4 0.18
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (17 bp):
ATTTAAATGATTATTTT
Found at i:1371239 original size:14 final size:14
Alignment explanation
Indices: 1371215--1371253 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
1371205 TATTTAAATT
*
1371215 ATAAAAATTTAAAA
1 ATAAAATTTTAAAA
*
1371229 TTAAAATTTTAAAA
1 ATAAAATTTTAAAA
*
1371243 ATATAATTTTA
1 ATAAAATTTTA
1371254 CTTGTAGAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAAAATTTTAAAA
Found at i:1371943 original size:17 final size:17
Alignment explanation
Indices: 1371895--1371944 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
1371885 GGATTATATA
*
1371895 AATAT-AATAT-TAAAA
1 AATATAAATATATAAAT
*
1371910 AATATTAAA-ATAAAAAT
1 AATA-TAAATATATAAAT
1371927 AATATAAATATATAAAT
1 AATATAAATATATAAAT
1371944 A
1 A
1371945 TTTTAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 4 0.14
16 7 0.25
17 17 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AATATAAATATATAAAT
Found at i:1371999 original size:32 final size:33
Alignment explanation
Indices: 1371925--1372002 Score: 97
Period size: 32 Copynumber: 2.4 Consensus size: 33
1371915 TAAAATAAAA
* *
1371925 ATAATATAAATATATAAATATTTTAAAATTTAT
1 ATAATATAAATATATAAATATATCAAAATTTAT
* *
1371958 ATAACATAAAT-TATTAATATATCAAAATTTAT
1 ATAATATAAATATATAAATATATCAAAATTTAT
1371990 A-ATATATAAATAT
1 ATA-ATATAAATAT
1372003 GATATAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
31 1 0.03
32 26 0.68
33 11 0.29
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (33 bp):
ATAATATAAATATATAAATATATCAAAATTTAT
Found at i:1376314 original size:34 final size:34
Alignment explanation
Indices: 1376268--1376485 Score: 282
Period size: 34 Copynumber: 6.5 Consensus size: 34
1376258 GTAAAAACCA
*
1376268 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
1376302 CCATTTAGTCAACAATGGTAAGCC-ACCAAATCAC
1 CCATTTAATCAACAATGGTAA-CCTACCAAATCTC
* *
1376336 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
*
1376370 CCATTTAATCAACAATGGTAAGCTACCAAATCT-
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
1376403 CCATTTAGTCAACAATGGCAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGG-TAACCTACCAAATCTC
* * *
1376437 CCATTTAATCAACAATGGTAAACTACTAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
1376470 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
1376486 TCTCCCACTT
Statistics
Matches: 162, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
33 45 0.28
34 115 0.71
35 2 0.01
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:1376382 original size:68 final size:67
Alignment explanation
Indices: 1376266--1376485 Score: 323
Period size: 67 Copynumber: 3.3 Consensus size: 67
1376256 TGGTAAAAAC
* * *
1376266 CACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
1376331 AT
66 AT
* * *
1376333 CACCCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAATCAACAATGGTAAGCTACCA
1 CA-CCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCA
1376398 AAT
65 AAT
* * * * * *
1376401 CTCCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACTAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
1376466 AT
66 AT
1376468 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
1376486 TCTCCCACTT
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
67 75 0.55
68 61 0.45
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (67 bp):
CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
AT
Found at i:1380578 original size:19 final size:19
Alignment explanation
Indices: 1380551--1380613 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
1380541 TCACGTGTAC
* *
1380551 AGTAACCGTATACTTGAAT
1 AGTACCCGTATACGTGAAT
1380570 AGTACCCGTATACGTGAAT
1 AGTACCCGTATACGTGAAT
**
1380589 AGTACCTATATACGTGAAT
1 AGTACCCGTATACGTGAAT
1380608 AGTACC
1 AGTACC
1380614 TCGACAACCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (19 bp):
AGTACCCGTATACGTGAAT
Found at i:1380962 original size:34 final size:34
Alignment explanation
Indices: 1380916--1381131 Score: 278
Period size: 34 Copynumber: 6.4 Consensus size: 34
1380906 GTAAAAACCA
*
1380916 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
1380950 CCATTTAGTCAACAATGGTAAGCC-ACCAAATCAC
1 CCATTTAATCAACAATGGTAA-CCTACCAAATCTC
* *
1380984 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
*
1381018 CCATTTAATCAACAATGGTAAGCTACCAAATCT-
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
1381051 CCATTTAGTCAACAATGGCAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGG-TAACCTACCAAATCTC
* * *
1381085 CCATTTAATCAACAATGGTAAACTACTAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
1381118 CCATTTAATCAACA
1 CCATTTAATCAACA
1381132 CTTCTTTAAT
Statistics
Matches: 160, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
33 43 0.27
34 115 0.72
35 2 0.01
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:1381030 original size:68 final size:67
Alignment explanation
Indices: 1380914--1381131 Score: 319
Period size: 67 Copynumber: 3.2 Consensus size: 67
1380904 TGGTAAAAAC
* * *
1380914 CACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
1380979 AT
66 AT
* * *
1380981 CACCCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAATCAACAATGGTAAGCTACCA
1 CA-CCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCA
1381046 AAT
65 AAT
* * * * * *
1381049 CTCCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACTAA
1 CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
1381114 AT
66 AT
1381116 CACCATTTAATCAACA
1 CACCATTTAATCAACA
1381132 CTTCTTTAAT
Statistics
Matches: 134, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
67 73 0.54
68 61 0.46
ACGTcount: A:0.40, C:0.28, G:0.08, T:0.24
Consensus pattern (67 bp):
CACCATTTAATCAACAATGGCAAACTACCAAATCTCCCATTTAATCAACAATGGTAAGCTACCAA
AT
Found at i:1381795 original size:12 final size:12
Alignment explanation
Indices: 1381766--1381810 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
1381756 AGCCGTTTTG
*
1381766 TTTTTTTTCATT
1 TTTTTTTTAATT
*
1381778 ACTTTTTTTAATT
1 -TTTTTTTTAATT
1381791 TTTTTTTTAATT
1 TTTTTTTTAATT
1381803 TTTTTTTT
1 TTTTTTTT
1381811 TTTGCTTTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 19 0.66
13 10 0.34
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTTTTAATT
Found at i:1381796 original size:13 final size:13
Alignment explanation
Indices: 1381766--1381811 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
1381756 AGCCGTTTTG
* *
1381766 TTTTTTTTCATTA
1 TTTTTTTTAATTT
*
1381779 CTTTTTTTAA-TT
1 TTTTTTTTAATTT
1381791 TTTTTTTTAATTT
1 TTTTTTTTAATTT
1381804 TTTTTTTT
1 TTTTTTTT
1381812 TTGCTTTGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTTTAATTT
Found at i:1387956 original size:5 final size:5
Alignment explanation
Indices: 1387936--1387991 Score: 62
Period size: 5 Copynumber: 11.4 Consensus size: 5
1387926 TTTAAATATT
* * *
1387936 TTATA TAATA TT-TA TTATA TTATT TTATA TTA-A ATATA TTATCA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTAT-A TTATA
1387985 TTATA TT
1 TTATA TT
1387992 TAAAATTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
4 7 0.17
5 30 0.71
6 5 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:1388308 original size:5 final size:5
Alignment explanation
Indices: 1388298--1388322 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1388288 TTAAGGTAAT
1388298 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
1388323 ATATAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:1388385 original size:31 final size:32
Alignment explanation
Indices: 1388323--1388395 Score: 80
Period size: 31 Copynumber: 2.3 Consensus size: 32
1388313 TAAAATAAAA
* **
1388323 ATATAATTTAAATATATAAATATTTTTAATTT
1 ATATAATATAAATATATAAATATTTAAAATTT
*
1388355 -TATAATATAAAT-TATTAATATATTAAAATTT
1 ATATAATATAAATATATAAATAT-TTAAAATTT
1388386 ATATAA-ATAA
1 ATATAATATAA
1388396 TTTTATTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 8 0.23
31 22 0.63
32 5 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
ATATAATATAAATATATAAATATTTAAAATTT
Found at i:1394957 original size:43 final size:43
Alignment explanation
Indices: 1394881--1394964 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
1394871 GTTGAATTTA
*
1394881 AATATTATAATATTTAATTTAATTAAAAAAAATATTTTTAATT
1 AATATTATAATATTTAATTTAATTAAAAAAAATAATTTTAATT
*
1394924 AATATTA-AA-ATTTAAGTTTAATTATAAATAAATAATTTTAA
1 AATATTATAATATTTAA-TTTAATTA-AAAAAAATAATTTTAA
1394965 AGTTAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
41 6 0.16
42 10 0.27
43 21 0.57
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (43 bp):
AATATTATAATATTTAATTTAATTAAAAAAAATAATTTTAATT
Found at i:1394986 original size:26 final size:26
Alignment explanation
Indices: 1394927--1394999 Score: 62
Period size: 26 Copynumber: 2.8 Consensus size: 26
1394917 TTTAATTAAT
* *
1394927 ATTAAAATTTAAGTTTAATTATAAATA
1 ATTAAATTTTAAG-TTAAATATAAATA
*
1394954 AAT-AATTTTAAAGTTAAATATAAA-A
1 ATTAAATTTT-AAGTTAAATATAAATA
1394979 ATTAAATTATTTAA-TTAAATA
1 ATTAAA-T-TTTAAGTTAAATA
1395000 AATGATTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
25 3 0.08
26 24 0.63
27 8 0.21
28 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (26 bp):
ATTAAATTTTAAGTTAAATATAAATA
Found at i:1395021 original size:15 final size:16
Alignment explanation
Indices: 1394981--1395022 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
1394971 ATATAAAAAT
*
1394981 TAAATTATTTAATTAAA
1 TAAATGATTTAATT-AA
1394998 TAAATGATTTAATT-A
1 TAAATGATTTAATTAA
*
1395013 TATATGATTT
1 TAAATGATTT
1395023 TTATTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
17 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (16 bp):
TAAATGATTTAATTAA
Found at i:1395974 original size:33 final size:33
Alignment explanation
Indices: 1395911--1395974 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
1395901 GACAAACATA
***
1395911 TTTATTGGTAAAAAATATTTTTTTCCTTTAATC
1 TTTATTGGTAAAAAATATTTCCATCCTTTAATC
* *
1395944 TTTATTGGTAAAACATATTTCCATCTTTTAA
1 TTTATTGGTAAAAAATATTTCCATCCTTTAA
1395975 ACCTTTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.52
Consensus pattern (33 bp):
TTTATTGGTAAAAAATATTTCCATCCTTTAATC
Found at i:1400591 original size:91 final size:91
Alignment explanation
Indices: 1400432--1400610 Score: 254
Period size: 91 Copynumber: 2.0 Consensus size: 91
1400422 CCAAGCATCT
*
1400432 GGTCTAACTGTTATGCTAAGGTAGCTTCTATCTTCTGCTTGTATGCAGGTTGCAGCTAGTATGCT
1 GGTCTAACTGTTATGCTAAGGTAGCTTCTATCTTCTGCTTGTATGCAGGTTGCAGCTAGTAAGCT
*
1400497 ACTTAGTTCCCTCCATTTTATTCTTG
66 ACTTAGTTCCCTCCATTGTATTCTTG
* *
1400523 GGTCTAAGTGTTATAG-TAAGGCT-GCTTCTATCTTCTGCTTGTATGCAGGTTGCGGCTAGTAAG
1 GGTCTAACTGTTAT-GCTAAGG-TAGCTTCTATCTTCTGCTTGTATGCAGGTTGCAGCTAGTAAG
* * * *
1400586 TTACTTCGTTCTCTCCCTTGTATTC
64 CTACTTAGTTCCCTCCATTGTATTC
1400611 ATTGTCTATG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
91 76 0.97
92 2 0.03
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (91 bp):
GGTCTAACTGTTATGCTAAGGTAGCTTCTATCTTCTGCTTGTATGCAGGTTGCAGCTAGTAAGCT
ACTTAGTTCCCTCCATTGTATTCTTG
Found at i:1403474 original size:2 final size:2
Alignment explanation
Indices: 1403467--1403491 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1403457 TAGCCCAACT
1403467 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1403492 CGTTAGATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1404441 original size:5 final size:5
Alignment explanation
Indices: 1404431--1404464 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
1404421 AAAAATGAAA
*
1404431 AAAAG AAAAG AAGAG AAAAG AAAAG -AAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
1404465 CTTTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:1404449 original size:15 final size:14
Alignment explanation
Indices: 1404422--1404464 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 14
1404412 AAATAAATAA
1404422 AAAATGAAA-AAAAG
1 AAAA-GAAAGAAAAG
1404436 AAAAGAAGAGAAAAG
1 AAAAGAA-AGAAAAG
1404451 AAAAGAAAGAAAAG
1 AAAAGAAAGAAAAG
1404465 CTTTAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.11
14 12 0.44
15 12 0.44
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (14 bp):
AAAAGAAAGAAAAG
Found at i:1408989 original size:2 final size:2
Alignment explanation
Indices: 1408982--1409011 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1408972 AAGTCGTTCA
1408982 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
1409012 TGCAAGATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1410244 original size:21 final size:21
Alignment explanation
Indices: 1410220--1410270 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
1410210 ATATCAAAAG
*
1410220 TTATTAAAAGTATAT-CAATGA
1 TTATTAAAAGTATATAAAAT-A
* * *
1410241 TTATCAAGATTATATAAAATA
1 TTATTAAAAGTATATAAAATA
1410262 TTATTAAAA
1 TTATTAAAA
1410271 ATTAAAGATT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (21 bp):
TTATTAAAAGTATATAAAATA
Found at i:1410253 original size:54 final size:51
Alignment explanation
Indices: 1410153--1410270 Score: 132
Period size: 54 Copynumber: 2.3 Consensus size: 51
1410143 AAATTTTACA
*
1410153 AATATTATTAAAATTATAAAATATATATCAATGATTATTGAAATTATCTTG
1 AATATTATTAAAATTATAAAATATATATCAATGATTATTCAAATTATCTTG
* * **
1410204 AATATTATATCAAAAGTTATTAAAA-GTATATCAATGATTA-TCAAGATTATATAA
1 AATATTAT-T-AAAA-TTA-TAAAATATATATCAATGATTATTCAA-ATTATCTTG
1410258 AATATTATTAAAA
1 AATATTATTAAAA
1410271 ATTAAAGATT
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
51 8 0.14
52 5 0.09
53 8 0.14
54 31 0.54
55 5 0.09
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (51 bp):
AATATTATTAAAATTATAAAATATATATCAATGATTATTCAAATTATCTTG
Found at i:1413556 original size:20 final size:21
Alignment explanation
Indices: 1413531--1413569 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1413521 CTAATAAATT
*
1413531 AAATAATATTATTT-TATTAA
1 AAATAAAATTATTTATATTAA
1413551 AAATAAAATTATTTATATT
1 AAATAAAATTATTTATATT
1413570 TATTTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATAAAATTATTTATATTAA
Found at i:1413559 original size:25 final size:25
Alignment explanation
Indices: 1413526--1413573 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1413516 TAAACCTAAT
*
1413526 AAATTAAATAATATTAT-TTTATTAA
1 AAATAAAATAAT-TTATATTTATTAA
*
1413551 AAATAAAATTATTTATATTTATT
1 AAATAAAATAATTTATATTTATT
1413574 TTAAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
AAATAAAATAATTTATATTTATTAA
Found at i:1413579 original size:25 final size:25
Alignment explanation
Indices: 1413524--1413579 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
1413514 TATAAACCTA
*
1413524 ATAAATTAAATAATATTATTTTATT
1 ATAAATAAAATAATATTATTTTATT
* *
1413549 AAAAATAAAATTAT-TTATATTTATT
1 ATAAATAAAATAATATTAT-TTTATT
*
1413574 TTAAAT
1 ATAAAT
1413580 TTTTTTAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
ATAAATAAAATAATATTATTTTATT
Found at i:1413634 original size:23 final size:25
Alignment explanation
Indices: 1413607--1413660 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
1413597 TTCATTTGAT
*
1413607 ATATTAATTT-TATA-TAAATATAA
1 ATATTAATTTATATATTAAAAATAA
1413630 ATATT-ATTTATATATTAAAAATAA
1 ATATTAATTTATATATTAAAAATAA
*
1413654 ATTTTAA
1 ATATTAA
1413661 AACTATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 4 0.15
23 9 0.35
24 12 0.46
25 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
ATATTAATTTATATATTAAAAATAA
Found at i:1414644 original size:21 final size:22
Alignment explanation
Indices: 1414601--1414644 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
1414591 ATTGTATTTA
* **
1414601 TTTTTTAGTATTGTATTTTAAT
1 TTTTTTAGTATTATATTCAAAT
1414623 TTTTTTA-TATTATATTCAAAT
1 TTTTTTAGTATTATATTCAAAT
1414644 T
1 T
1414645 GAGTTTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (22 bp):
TTTTTTAGTATTATATTCAAAT
Found at i:1416261 original size:13 final size:13
Alignment explanation
Indices: 1416245--1416271 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1416235 AGTATCTAGA
1416245 AAGATGGAGGTAG
1 AAGATGGAGGTAG
1416258 AAGATGGAGGTAG
1 AAGATGGAGGTAG
1416271 A
1 A
1416272 TGGTCAAGGA
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:0.41, C:0.00, G:0.44, T:0.15
Consensus pattern (13 bp):
AAGATGGAGGTAG
Found at i:1419908 original size:31 final size:31
Alignment explanation
Indices: 1419850--1419909 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
1419840 GACCTTAAAC
* *
1419850 AAATTTAATTTAATTAATTTATGTAATTATA
1 AAATTTAATTTAATTAAATTATCTAATTATA
*
1419881 AAATTTAATTTAATTAAATTGTCTAATTA
1 AAATTTAATTTAATTAAATTATCTAATTA
1419910 CCTTTATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (31 bp):
AAATTTAATTTAATTAAATTATCTAATTATA
Found at i:1426039 original size:2 final size:2
Alignment explanation
Indices: 1425956--1426021 Score: 73
Period size: 2 Copynumber: 33.5 Consensus size: 2
1425946 CAAAGTATGC
* * * *
1425956 AT AT AT AT AT AT AT AT AT AT A- AT CT TT TT AT AT GT -T CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
1425997 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1426022 AAGAGTTTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
1 2 0.04
2 54 0.95
3 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1426765 original size:14 final size:13
Alignment explanation
Indices: 1426721--1426767 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
1426711 ATATATACAT
1426721 ATATTATATATTTA
1 ATATT-TATATTTA
1426735 ATAATTTATATTT-
1 AT-ATTTATATTTA
1426748 -TATTTATATTTA
1 ATATTTATATTTA
1426760 CATATTTA
1 -ATATTTA
1426768 ATATAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 10 0.34
12 1 0.03
14 15 0.52
15 3 0.10
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (13 bp):
ATATTTATATTTA
Found at i:1426798 original size:2 final size:2
Alignment explanation
Indices: 1426791--1426818 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1426781 AAATAATAAA
1426791 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
1426819 CATAGGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1428955 original size:2 final size:2
Alignment explanation
Indices: 1428948--1428977 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1428938 CAATAAGATG
1428948 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1428978 ATAAATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1430942 original size:17 final size:17
Alignment explanation
Indices: 1430920--1430958 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
1430910 CTTTTGGACC
1430920 TTAAATATTTTACTGTT
1 TTAAATATTTTACTGTT
*
1430937 TTAAATTTTTTACTGTT
1 TTAAATATTTTACTGTT
1430954 TTAAA
1 TTAAA
1430959 GAGAAATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (17 bp):
TTAAATATTTTACTGTT
Found at i:1434020 original size:27 final size:27
Alignment explanation
Indices: 1433946--1434014 Score: 129
Period size: 27 Copynumber: 2.6 Consensus size: 27
1433936 TGCATTAGCA
1433946 TATATTTTTCTAAATTTTAAATATTTT
1 TATATTTTTCTAAATTTTAAATATTTT
*
1433973 TATATTTTTCTAAATTTTAAATGTTTT
1 TATATTTTTCTAAATTTTAAATATTTT
1434000 TATATTTTTCTAAAT
1 TATATTTTTCTAAAT
1434015 ACTAAAATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (27 bp):
TATATTTTTCTAAATTTTAAATATTTT
Found at i:1434872 original size:62 final size:62
Alignment explanation
Indices: 1434702--1434875 Score: 213
Period size: 62 Copynumber: 2.8 Consensus size: 62
1434692 TGCCACCAGT
* * * ** * * *
1434702 TAAGAATAGTAGTTCTTGTCGTGCCACCGGATAAGAATAGTAGTTTGCGCCGTGCCATCGAA
1 TAAGAATAATAGTTTTTGTCGTGCCACCGGATAAGAATAGTGGTTTTTGTCATGCCACCGAA
*** *
1434764 TAAGAATAATAGTTTTCACCGTGCCACCAGATAAGAATAGTGGTTTTTGTCATGCCACCGAA
1 TAAGAATAATAGTTTTTGTCGTGCCACCGGATAAGAATAGTGGTTTTTGTCATGCCACCGAA
* * *
1434826 TAAGAATAATGGTTTTTGTCATGCCACCGGATAATAATAGTGGTTTTTGT
1 TAAGAATAATAGTTTTTGTCGTGCCACCGGATAAGAATAGTGGTTTTTGT
1434876 TCTAACCTAT
Statistics
Matches: 93, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
62 93 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (62 bp):
TAAGAATAATAGTTTTTGTCGTGCCACCGGATAAGAATAGTGGTTTTTGTCATGCCACCGAA
Found at i:1434872 original size:93 final size:93
Alignment explanation
Indices: 1434688--1434864 Score: 228
Period size: 93 Copynumber: 1.9 Consensus size: 93
1434678 TCGATTTCAA
* * * *
1434688 ACCGTGCCACCAGTTAAGAATAGTAGTTCTTGTCGTGCCACCGGATAAGAATAGTAGTTTGCGCC
1 ACCGTGCCACCAGATAAGAATAGTAGTTCTTGTCATGCCACCGAATAAGAATAATAGTTTGCGCC
* *
1434753 GTGCCATCGAATAAGAATAATAGTTTTC
66 ATGCCACCGAATAAGAATAATAGTTTTC
* * * ** *
1434781 ACCGTGCCACCAGATAAGAATAGTGGTTTTTGTCATGCCACCGAATAAGAATAATGGTTTTTGTC
1 ACCGTGCCACCAGATAAGAATAGTAGTTCTTGTCATGCCACCGAATAAGAATAATAGTTTGCGCC
* *
1434846 ATGCCACCGGATAATAATA
66 ATGCCACCGAATAAGAATA
1434865 GTGGTTTTTG
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (93 bp):
ACCGTGCCACCAGATAAGAATAGTAGTTCTTGTCATGCCACCGAATAAGAATAATAGTTTGCGCC
ATGCCACCGAATAAGAATAATAGTTTTC
Found at i:1434873 original size:31 final size:31
Alignment explanation
Indices: 1434692--1434875 Score: 170
Period size: 31 Copynumber: 5.9 Consensus size: 31
1434682 TTTCAAACCG
* * * * *
1434692 TGCCACCAGTTAAGAATAGTAGTTCTTGTCG
1 TGCCACCGGATAAGAATAGTGGTTTTTGTCA
* ** * *
1434723 TGCCACCGGATAAGAATAGTAGTTTGCGCCG
1 TGCCACCGGATAAGAATAGTGGTTTTTGTCA
* * * * *** *
1434754 TGCCATCGAATAAGAATAATAGTTTTCACCG
1 TGCCACCGGATAAGAATAGTGGTTTTTGTCA
*
1434785 TGCCACCAGATAAGAATAGTGGTTTTTGTCA
1 TGCCACCGGATAAGAATAGTGGTTTTTGTCA
* *
1434816 TGCCACCGAATAAGAATAATGGTTTTTGTCA
1 TGCCACCGGATAAGAATAGTGGTTTTTGTCA
*
1434847 TGCCACCGGATAATAATAGTGGTTTTTGT
1 TGCCACCGGATAAGAATAGTGGTTTTTGT
1434876 TCTAACCTAT
Statistics
Matches: 127, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 127 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (31 bp):
TGCCACCGGATAAGAATAGTGGTTTTTGTCA
Found at i:1435751 original size:3 final size:3
Alignment explanation
Indices: 1435743--1435771 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1435733 GGACGGTGTT
1435743 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1435772 TGTTTTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1438834 original size:25 final size:24
Alignment explanation
Indices: 1438785--1438843 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
1438775 TATTTTATGT
1438785 ATAAAATT-TTATATTATTAATAAA
1 ATAAAATTATTATATTATTAA-AAA
*
1438809 TTAAATATTATTAT-TTATTAAAAA
1 ATAAA-ATTATTATATTATTAAAAA
1438833 ATAAAATTATT
1 ATAAAATTATT
1438844 TTATAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 6 0.19
24 11 0.35
25 10 0.32
26 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
ATAAAATTATTATATTATTAAAAA
Found at i:1438847 original size:25 final size:25
Alignment explanation
Indices: 1438790--1438848 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
1438780 TATGTATAAA
* *
1438790 ATTTTATATTATTAATAAATTAAAT
1 ATTTTATATTATTAAAAAATAAAAT
1438815 ATTATTAT-TTATTAAAAAATAAAATT
1 ATT-TTATATTATTAAAAAATAAAA-T
1438841 ATTTTATA
1 ATTTTATA
1438849 ATATAATATC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 21 0.72
26 8 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTTTATATTATTAAAAAATAAAAT
Found at i:1440880 original size:21 final size:21
Alignment explanation
Indices: 1440856--1440927 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
1440846 TTATAATTTC
*
1440856 ATATATGATTATTATTTTAAT
1 ATATATAATTATTATTTTAAT
*
1440877 ATAT-TAATTATTAAATTTAAT
1 ATATATAATTATT-ATTTTAAT
*
1440898 A-ATATAATTA-TATTTATTAT
1 ATATATAATTATTATTT-TAAT
1440918 ATATATAATT
1 ATATATAATT
1440928 TTTTAATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 3 0.07
20 14 0.33
21 26 0.60
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (21 bp):
ATATATAATTATTATTTTAAT
Found at i:1440912 original size:18 final size:20
Alignment explanation
Indices: 1440886--1440927 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 20
1440876 TATATTAATT
1440886 ATTAAATTTA-ATA-ATATA
1 ATTAAATTTATATATATATA
*
1440904 ATTATATTTATTATATATATA
1 ATTAAATTTA-TATATATATA
1440925 ATT
1 ATT
1440928 TTTTAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 9 0.45
20 3 0.15
21 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTAAATTTATATATATATA
Found at i:1440960 original size:17 final size:17
Alignment explanation
Indices: 1440940--1440976 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
1440930 TTAATTTAAT
*
1440940 TTAATATTTATATTATA
1 TTAATATTTAAATTATA
*
1440957 TTAATATTTAAATTTTA
1 TTAATATTTAAATTATA
1440974 TTA
1 TTA
1440977 TATAAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTAATATTTAAATTATA
Found at i:1440961 original size:22 final size:22
Alignment explanation
Indices: 1440935--1440994 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
1440925 ATTTTTTAAT
1440935 TTAATTTAATATTTATATTATA
1 TTAATTTAATATTTATATTATA
1440957 TTAATATTTAA-ATTT-TATTATA
1 TT-A-ATTTAATATTTATATTATA
* *
1440979 TAAAATTAATGATTTA
1 TTAATTTAAT-ATTTA
1440995 AATTTTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
20 5 0.16
21 1 0.03
22 14 0.45
23 5 0.16
24 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTAATTTAATATTTATATTATA
Found at i:1440994 original size:28 final size:26
Alignment explanation
Indices: 1440946--1441033 Score: 86
Period size: 28 Copynumber: 3.2 Consensus size: 26
1440936 TAATTTAATA
* *
1440946 TTTATATTATATTAATATTTAAATTT
1 TTTATATAAAATTAATATTTAAATTT
1440972 TATTATATAAAATTAATGATTTAAATTT
1 T-TTATATAAAATTAAT-ATTTAAATTT
* * *
1441000 TTTAATATCAAATAAATAATTTAATATGT
1 TTT-ATATAAAATTAAT-ATTTAA-ATTT
1441029 TTTAT
1 TTTAT
1441034 TTATTTAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 15 0.29
28 30 0.58
29 6 0.12
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (26 bp):
TTTATATAAAATTAATATTTAAATTT
Found at i:1441566 original size:27 final size:29
Alignment explanation
Indices: 1441530--1441606 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 29
1441520 ATTCATATTT
*
1441530 ATTAAATTAAATTATAATATT-TTTAA-A
1 ATTAATTTAAATTATAATATTATTTAATA
*
1441557 ATTAATTTAATTTA-AATTATTATTTAATTA
1 ATTAATTTAAATTATAA-TATTATTTAA-TA
*
1441587 A-TAATTATAAATTTTAATAT
1 ATTAATT-TAAATTATAATAT
1441607 ATAAATAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
26 2 0.05
27 16 0.40
28 5 0.12
29 5 0.12
30 10 0.25
31 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
ATTAATTTAAATTATAATATTATTTAATA
Found at i:1441578 original size:18 final size:19
Alignment explanation
Indices: 1441557--1441600 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
1441547 TATTTTTAAA
*
1441557 ATTAATTTAATTTA-AATT
1 ATTAATTTAATTAATAATT
1441575 ATT-ATTTAATTAATAATT
1 ATTAATTTAATTAATAATT
*
1441593 ATAAATTT
1 ATTAATTT
1441601 TAATATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 9 0.41
18 9 0.41
19 4 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTAATTTAATTAATAATT
Found at i:1444052 original size:14 final size:15
Alignment explanation
Indices: 1444028--1444061 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
1444018 TTAAATTAAA
1444028 TTTATAATATAATTT
1 TTTATAATATAATTT
1444043 TTTA-AATATAATTT
1 TTTATAATATAATTT
1444057 TTTAT
1 TTTAT
1444062 TTAATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTATAATATAATTT
Found at i:1444081 original size:21 final size:23
Alignment explanation
Indices: 1444043--1444087 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
1444033 AATATAATTT
* *
1444043 TTTAAATATAATTTTTTATTTAA
1 TTTAAATATAATTATTTAATTAA
1444066 TTTAAAT-T-ATTATTTAATTAA
1 TTTAAATATAATTATTTAATTAA
1444087 T
1 T
1444088 AATATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 1 0.05
23 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTAAATATAATTATTTAATTAA
Found at i:1444180 original size:5 final size:5
Alignment explanation
Indices: 1444157--1444208 Score: 79
Period size: 5 Copynumber: 10.4 Consensus size: 5
1444147 TAATATATTT
*
1444157 TTTAA TTTTAA -TAAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
1 TTTAA -TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
1444207 TT
1 TT
1444209 CATAAATATA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
4 3 0.07
5 35 0.81
6 5 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:1444270 original size:2 final size:2
Alignment explanation
Indices: 1444263--1444292 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1444253 TACATATCTT
*
1444263 TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1444293 AAAGTAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1444274 original size:10 final size:10
Alignment explanation
Indices: 1444256--1444291 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
1444246 TAAAGTATAC
*
1444256 ATATCTTTAT
1 ATATATTTAT
1444266 ATATATTTAT
1 ATATATTTAT
*
1444276 ATATATATAT
1 ATATATTTAT
1444286 ATATAT
1 ATATAT
1444292 AAAAGTAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (10 bp):
ATATATTTAT
Found at i:1444987 original size:27 final size:27
Alignment explanation
Indices: 1444963--1445029 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 27
1444953 TCAATTTTAG
1444963 AATAAATTTT-A-TTTTTATCATTTTT
1 AATAAATTTTAATTTTTTATCATTTTT
*
1444988 AATAACTTTTAATTTTTTATCAATATTTT
1 AATAAATTTTAATTTTTTATC-AT-TTTT
1445017 AAT-AATTTATAAT
1 AATAAATTT-TAAT
1445030 CTATTTAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 9 0.26
26 1 0.03
27 8 0.23
28 6 0.17
29 11 0.31
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.58
Consensus pattern (27 bp):
AATAAATTTTAATTTTTTATCATTTTT
Found at i:1445021 original size:29 final size:27
Alignment explanation
Indices: 1444974--1445029 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 27
1444964 ATAAATTTTA
1444974 TTTTTATCATTTTTAATAACTTT-TAAT
1 TTTTTATCATTTTTAATAA-TTTATAAT
1445001 TTTTTATCAATATTTTAATAATTTATAAT
1 TTTTTATC-AT-TTTTAATAATTTATAAT
1445030 CTATTTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 8 0.31
28 5 0.19
29 13 0.50
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTTTATCATTTTTAATAATTTATAAT
Found at i:1446594 original size:23 final size:22
Alignment explanation
Indices: 1446541--1446594 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
1446531 GATAAATAAA
**
1446541 ATTAATTATTATTATATTTAAT
1 ATTAATTATTATTATATAAAAT
* *
1446563 ATAATATTATTATTTTATAAAAGT
1 ATTA-ATTATTATTATATAAAA-T
1446587 ATTAATTA
1 ATTAATTA
1446595 AGAGTTTCGT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 3 0.12
23 18 0.72
24 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
ATTAATTATTATTATATAAAAT
Found at i:1448757 original size:19 final size:19
Alignment explanation
Indices: 1448728--1448764 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
1448718 TGTGAGGTAT
1448728 ATTTTATAATAAA-AATAA
1 ATTTTATAATAAATAATAA
1448746 ATTTTGATAATAAATAATA
1 ATTTT-ATAATAAATAATA
1448765 GAAGAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
ATTTTATAATAAATAATAA
Found at i:1450321 original size:6 final size:6
Alignment explanation
Indices: 1450312--1450359 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
1450302 CCTTTATCTT
* * * *
1450312 TCTCTC TCTCTC TCTCCC TCTCCC TCTCCC TTTCCC TCTCCT TCTCCC
1 TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC
1450360 CCTTAATCCT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (6 bp):
TCTCCC
Found at i:1451350 original size:2 final size:2
Alignment explanation
Indices: 1451343--1451368 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1451333 TAAGATAAAC
1451343 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
1451369 CAGCTGGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1452165 original size:2 final size:2
Alignment explanation
Indices: 1452158--1452229 Score: 108
Period size: 2 Copynumber: 36.0 Consensus size: 2
1452148 AAGTAAAAAT
* * *
1452158 TA TA TA TA TA GA TA TA TA TA TA TA TA TA TA TT TA TA TA GA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1452200 TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1452230 GAGAGAGAGA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1452234 original size:2 final size:2
Alignment explanation
Indices: 1452229--1452266 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1452219 ATATATATAT
*
1452229 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1452267 TGTGTGTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1457362 original size:27 final size:25
Alignment explanation
Indices: 1457331--1457380 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
1457321 TCGACCACAC
1457331 ATAATTTTAAACAAGTTTAATATAAAA
1 ATAATTTTAAA-AAGTTTAA-ATAAAA
*
1457358 ATAATTTTAAAAATTTTAAATAA
1 ATAATTTTAAAAAGTTTAAATAA
1457381 CACAAATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 7 0.32
27 11 0.50
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
ATAATTTTAAAAAGTTTAAATAAAA
Found at i:1458062 original size:19 final size:18
Alignment explanation
Indices: 1458038--1458109 Score: 85
Period size: 18 Copynumber: 4.0 Consensus size: 18
1458028 AAAAATATCA
1458038 TAAATAAAATATAAATATT
1 TAAATAAAATATAAAT-TT
*
1458057 TAAATATAATA-AAATTT
1 TAAATAAAATATAAATTT
* *
1458074 T-TATAAATATATAATTTT
1 TAAATAAA-ATATAAATTT
1458092 TAAATAAAATATAAATTT
1 TAAATAAAATATAAATTT
1458110 GCGAATTACA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
16 4 0.09
17 6 0.14
18 19 0.43
19 15 0.34
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAATAAAATATAAATTT
Found at i:1460732 original size:12 final size:12
Alignment explanation
Indices: 1460707--1460749 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 12
1460697 GTTAGTTAAA
*
1460707 TTTAAATTATTAT
1 TTTAAA-TAATAT
1460720 TTTAAATAATAT
1 TTTAAATAATAT
1460732 TTTAAAAATAATAT
1 TTT--AAATAATAT
1460746 TTTA
1 TTTA
1460750 TTTAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 9 0.33
13 6 0.22
14 12 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TTTAAATAATAT
Found at i:1460742 original size:14 final size:14
Alignment explanation
Indices: 1460723--1460749 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1460713 TTATTATTTT
1460723 AAATAATATTTTAA
1 AAATAATATTTTAA
1460737 AAATAATATTTTA
1 AAATAATATTTTA
1460750 TTTAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATAATATTTTAA
Found at i:1460787 original size:14 final size:14
Alignment explanation
Indices: 1460763--1460810 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
1460753 AAAATTAATT
*
1460763 ATAAAAATATATAA
1 ATAATAATATATAA
* *
1460777 ATATTAATATAAAA
1 ATAATAATATATAA
*
1460791 ATAAT-ATAAATAA
1 ATAATAATATATAA
1460804 ATAATAA
1 ATAATAA
1460811 AATCAACTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
ATAATAATATATAA
Found at i:1460787 original size:22 final size:24
Alignment explanation
Indices: 1460752--1460802 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
1460742 ATATTTTATT
1460752 TAAA-ATTAATTATAAAAAT-ATA
1 TAAATATTAATTATAAAAATAATA
1460774 TAAATATTAA-TATAAAAATAATA
1 TAAATATTAATTATAAAAATAATA
1460797 TAAATA
1 TAAATA
1460803 AATAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
TAAATATTAATTATAAAAATAATA
Found at i:1460813 original size:21 final size:21
Alignment explanation
Indices: 1460754--1460812 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 21
1460744 ATTTTATTTA
1460754 AAAT-TAATTATAAAAATATAT
1 AAATATAA-TATAAAAATATAT
1460775 AAATATTAATATAAAAATAATAT
1 AAATA-TAATATAAAAAT-ATAT
1460798 AAATA-AATAATAAAA
1 AAATATAAT-ATAAAA
1460813 TCAACTTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
21 7 0.21
22 15 0.44
23 12 0.35
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATATAATATAAAAATATAT
Found at i:1461289 original size:2 final size:2
Alignment explanation
Indices: 1461282--1461315 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1461272 AATGATAAAC
1461282 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
1461316 CTTATGGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1469908 original size:121 final size:120
Alignment explanation
Indices: 1469678--1469918 Score: 401
Period size: 120 Copynumber: 2.0 Consensus size: 120
1469668 TTGCCAACTG
* * *
1469678 CCTGCTTTAAAGACAAGTAAACCGGCTCTTGAAAGAACTTACTAAAAAAAAGAAAATAAGCTGAA
1 CCTGCTTTAAACACAAGTAAACCGGCTCTAGAAAGAACTTACTAAAAAAAAGAAAATAAGCTAAA
*
1469743 TTGCTGCTGAATCACCTATTTTGCTTTAACATGCACATAGAATCCAGTTCTTGGT
66 TTGCTGCTGAATCAACTATTTTGCTTTAACATGCACATAGAATCCAGTTCTTGGT
* * *
1469798 CCTGTTTTAAACACAAGTAAACCGGCTCTAGAAAGAACTTATTACAAAAAAGAAAATAAGCTTAA
1 CCTGCTTTAAACACAAGTAAACCGGCTCTAGAAAGAACTTACTAAAAAAAAGAAAATAAGC-TAA
*
1469863 ATTGCTGCTGAATCAACTATTTTGCTTTAACATGCACATGGAATCCAGTTCTTGGT
65 ATTGCTGCTGAATCAACTATTTTGCTTTAACATGCACATAGAATCCAGTTCTTGGT
1469919 ATTGACAAGA
Statistics
Matches: 112, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
120 56 0.50
121 56 0.50
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (120 bp):
CCTGCTTTAAACACAAGTAAACCGGCTCTAGAAAGAACTTACTAAAAAAAAGAAAATAAGCTAAA
TTGCTGCTGAATCAACTATTTTGCTTTAACATGCACATAGAATCCAGTTCTTGGT
Found at i:1475435 original size:18 final size:18
Alignment explanation
Indices: 1475394--1475435 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
1475384 AATTGGATGA
*
1475394 AATAAAAATAATAATTAT
1 AATAAAAATAATAATAAT
1475412 AATAAAAA-AATTAATAAT
1 AATAAAAATAA-TAATAAT
*
1475430 ATTAAA
1 AATAAA
1475436 GATGAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AATAAAAATAATAATAAT
Found at i:1476671 original size:2 final size:2
Alignment explanation
Indices: 1476664--1476705 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
1476654 TTAGATGTCC
1476664 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1476705 A
1 A
1476706 ATGTAAAGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1477806 original size:21 final size:21
Alignment explanation
Indices: 1477780--1477831 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
1477770 GTTGTGCCCC
1477780 TTTTTTATTTATTTATTA-TTA
1 TTTTTTATTTATTT-TTATTTA
**
1477801 TTTTTTGA-GAATTTTTATTTA
1 TTTTTT-ATTTATTTTTATTTA
1477822 TTTTTTATTT
1 TTTTTTATTT
1477832 TTTGAGAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
20 4 0.17
21 19 0.79
22 1 0.04
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (21 bp):
TTTTTTATTTATTTTTATTTA
Found at i:1477838 original size:28 final size:31
Alignment explanation
Indices: 1477781--1477841 Score: 101
Period size: 28 Copynumber: 2.1 Consensus size: 31
1477771 TTGTGCCCCT
1477781 TTTTTATTTATTTATTATTATTTTTTGAGAA
1 TTTTTATTTATTTATTATTATTTTTTGAGAA
1477812 TTTTTATTTA-TT-TT-TTATTTTTTGAGAA
1 TTTTTATTTATTTATTATTATTTTTTGAGAA
1477840 TT
1 TT
1477842 AATGCAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
28 16 0.53
29 2 0.07
30 2 0.07
31 10 0.33
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (31 bp):
TTTTTATTTATTTATTATTATTTTTTGAGAA
Found at i:1479908 original size:8 final size:8
Alignment explanation
Indices: 1479895--1479931 Score: 60
Period size: 7 Copynumber: 4.9 Consensus size: 8
1479885 ATCTCTTTGT
1479895 ATAAAAAA
1 ATAAAAAA
1479903 AT-AAAAA
1 ATAAAAAA
1479910 AT-AAAAA
1 ATAAAAAA
1479917 ATAAAAAA
1 ATAAAAAA
1479925 ATAAAAA
1 ATAAAAA
1479932 GTAGTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 14 0.50
8 14 0.50
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
ATAAAAAA
Found at i:1479917 original size:14 final size:15
Alignment explanation
Indices: 1479898--1479931 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1479888 TCTTTGTATA
1479898 AAAAAAT-AAAAAAT
1 AAAAAATAAAAAAAT
1479912 AAAAAATAAAAAAAT
1 AAAAAATAAAAAAAT
1479927 AAAAA
1 AAAAA
1479932 GTAGTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAAAATAAAAAAAT
Found at i:1483992 original size:2 final size:2
Alignment explanation
Indices: 1483985--1484016 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1483975 CCGATTTATA
1483985 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1484017 GTCTTTCCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1484710 original size:18 final size:18
Alignment explanation
Indices: 1484673--1484709 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
1484663 TAGAAAAAAC
1484673 TTAATAATTAATAAAGTT
1 TTAATAATTAATAAAGTT
*
1484691 TTAA-AATTAATTAAGTT
1 TTAATAATTAATAAAGTT
1484708 TT
1 TT
1484710 TTAAGATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (18 bp):
TTAATAATTAATAAAGTT
Found at i:1485833 original size:6 final size:6
Alignment explanation
Indices: 1485822--1485855 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
1485812 TCTTTCAGCT
1485822 ATGTCC ATGTCC ATGTCC ATGTCC ATGTCC ATGT
1 ATGTCC ATGTCC ATGTCC ATGTCC ATGTCC ATGT
1485856 ATGAAGGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (6 bp):
ATGTCC
Found at i:1486873 original size:20 final size:20
Alignment explanation
Indices: 1486850--1486911 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
1486840 TGGCTCAACA
1486850 ATATTATAATTGT-TAATTTT
1 ATATTATAATT-TATAATTTT
* *
1486870 ATATTTTTATTTATAATTTT
1 ATATTATAATTTATAATTTT
1486890 ATAACTTATAATATTATAATTT
1 AT-A-TTATAAT-TTATAATTT
1486912 AAAAGAGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
19 1 0.03
20 18 0.53
21 1 0.03
22 5 0.15
23 9 0.26
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
ATATTATAATTTATAATTTT
Found at i:1487130 original size:19 final size:19
Alignment explanation
Indices: 1487108--1487155 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
1487098 TTATCTTTTA
1487108 ATATAAATATATTAAAATT
1 ATATAAATATATTAAAATT
**
1487127 ATATAAA-AT-TTTTAATT
1 ATATAAATATATTAAAATT
1487144 ATATATAATATA
1 ATATA-AATATA
1487156 ACAAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 11 0.46
18 4 0.17
19 9 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAAATATATTAAAATT
Found at i:1495947 original size:15 final size:14
Alignment explanation
Indices: 1495922--1495961 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
1495912 AAATATCACG
1495922 TTAAAAATTATTTA
1 TTAAAAATTATTTA
*
1495936 TTAAATAATTATTTT
1 TTAAA-AATTATTTA
1495951 TTAAAATATTA
1 TTAAAA-ATTA
1495962 AATTATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTAAAAATTATTTA
Found at i:1495979 original size:23 final size:23
Alignment explanation
Indices: 1495934--1495979 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1495924 AAAAATTATT
* * *
1495934 TATTAAATAATTATTTTTTAAAA
1 TATTAAATAATAATATTTAAAAA
*
1495957 TATTAAATTATAATATTTAAAAA
1 TATTAAATAATAATATTTAAAAA
1495980 AGATAATTCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTAAATAATAATATTTAAAAA
Found at i:1496149 original size:2 final size:2
Alignment explanation
Indices: 1496144--1496169 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1496134 CCTAAGAAGT
1496144 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1496170 ATTTAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1496687 original size:20 final size:21
Alignment explanation
Indices: 1496651--1496689 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1496641 TAAAAAATAA
1496651 TAATATAAATATATTAAATTT
1 TAATATAAATATATTAAATTT
*
1496672 TAATAT-AATATTTTAAAT
1 TAATATAAATATATTAAAT
1496690 AAAATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAATATAAATATATTAAATTT
Found at i:1496714 original size:19 final size:19
Alignment explanation
Indices: 1496692--1496730 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1496682 TTTTAAATAA
*
1496692 AATTAAAATACATAAAAAT
1 AATTAAAATAAATAAAAAT
* *
1496711 AATTAATATAAATATAAAT
1 AATTAAAATAAATAAAAAT
1496730 A
1 A
1496731 CGTTAATTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
AATTAAAATAAATAAAAAT
Found at i:1496946 original size:24 final size:23
Alignment explanation
Indices: 1496891--1496953 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 23
1496881 AAATATTTTA
*
1496891 ATTAATTAAAATTAATAAAATATAT
1 ATTAA-TAAAAATAA-AAAATATAT
1496916 ATT--TAAAAATAAAAAATTATAT
1 ATTAATAAAAATAAAAAA-TATAT
*
1496938 ATTAATAAATATAAAA
1 ATTAATAAAAATAAAA
1496954 GGATAAGAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
21 4 0.12
22 16 0.48
24 10 0.30
25 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
ATTAATAAAAATAAAAAATATAT
Found at i:1497109 original size:39 final size:35
Alignment explanation
Indices: 1497066--1497137 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 35
1497056 TAAACATGTA
1497066 ATTTATTATAAATTTTATAATTAAAATTAATAAAATATT
1 ATTTATTATAAA--TTATAATTAAAA-TAA-AAAATATT
* *
1497105 ATTTATTTTAAATTATATTTAAAATAAAAAATA
1 ATTTATTATAAATTATAATTAAAATAAAAAATA
1497138 ATATATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 6 0.19
36 3 0.10
37 11 0.35
39 11 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (35 bp):
ATTTATTATAAATTATAATTAAAATAAAAAATATT
Found at i:1499235 original size:27 final size:26
Alignment explanation
Indices: 1499191--1499250 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
1499181 TATTATATTT
*
1499191 TTTATATTTTATTTTATTAAAATAATA
1 TTTA-ATTTTATTTTATTAAAATAAAA
* * *
1499218 TTTAATTTTTTTTATATTTATATAAAA
1 TTTAATTTTATTT-TATTAAAATAAAA
1499245 TTTAAT
1 TTTAAT
1499251 ATATTAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTAATTTTATTTTATTAAAATAAAA
Found at i:1499244 original size:32 final size:32
Alignment explanation
Indices: 1499194--1499282 Score: 98
Period size: 32 Copynumber: 2.8 Consensus size: 32
1499184 TATATTTTTT
1499194 ATATTTTAT-TTTAT-TAAAA-TAATAT-TTA
1 ATATTTTATATTTATATAAAATTAATATATTA
*
1499222 ATTTTTTTTATATTTATATAAAATTTAATATATTA
1 A--TATTTTATATTTATATAAAA-TTAATATATTA
*
1499257 ATATTTTATA-TTATATAAATTTAATA
1 ATATTTTATATTTATATAAAATTAATA
1499283 CATATATTCA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
28 1 0.02
30 7 0.14
31 11 0.22
32 14 0.27
33 8 0.16
34 6 0.12
35 4 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (32 bp):
ATATTTTATATTTATATAAAATTAATATATTA
Found at i:1499287 original size:15 final size:15
Alignment explanation
Indices: 1499236--1499288 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
1499226 TTTTTATATT
1499236 TATATA-AAATTTAA
1 TATATATAAATTTAA
*
1499250 TATAT-TAATATTTTA
1 TATATATAA-ATTTAA
1499265 TATTATATAAATTTAA
1 TA-TATATAAATTTAA
*
1499281 TACATATA
1 TATATATA
1499289 TTCATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 7 0.22
15 12 0.38
16 10 0.31
17 3 0.09
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TATATATAAATTTAA
Found at i:1500122 original size:3 final size:3
Alignment explanation
Indices: 1500114--1500149 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
1500104 ATTTAATAGG
*
1500114 AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1500150 TAAAAAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1503639 original size:58 final size:58
Alignment explanation
Indices: 1503563--1503678 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 58
1503553 ATATTTCTAA
*
1503563 ACTGGATGAAAAACCATCAGAAATTTCCATAATGTTTGAAGCATGACTTACGTAGTCT
1 ACTGGATGAAAAACCATCAGAAATTACCATAATGTTTGAAGCATGACTTACGTAGTCT
* *
1503621 ACTGGATGAAAAATCATCAGAAATTACCATAATGTTTGAAGCATGACTTAGGTAGTCT
1 ACTGGATGAAAAACCATCAGAAATTACCATAATGTTTGAAGCATGACTTACGTAGTCT
1503679 TGGACACCAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (58 bp):
ACTGGATGAAAAACCATCAGAAATTACCATAATGTTTGAAGCATGACTTACGTAGTCT
Found at i:1505609 original size:17 final size:17
Alignment explanation
Indices: 1505589--1505628 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 17
1505579 TAAATAATAT
1505589 TTAAATTTAATTATTAA
1 TTAAATTTAATTATTAA
*
1505606 TTAAA--T-ATTATTAT
1 TTAAATTTAATTATTAA
1505620 TTAAATTTA
1 TTAAATTTA
1505629 TTTTAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 6
0.73 0.04 0.23
Matches are distributed among these distances:
14 12 0.63
15 1 0.05
16 1 0.05
17 5 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAAATTTAATTATTAA
Found at i:1505615 original size:14 final size:13
Alignment explanation
Indices: 1505598--1505638 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
1505588 TTTAAATTTA
1505598 ATTATTAATTAAAT
1 ATTATT-ATTAAAT
1505612 ATTATTATTTAAAT
1 ATTATTA-TTAAAT
1505626 -TTATT-TTAAAT
1 ATTATTATTAAAT
1505637 AT
1 AT
1505639 CAAAATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 6 0.24
12 1 0.04
13 6 0.24
14 12 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTATTATTAAAT
Found at i:1505647 original size:31 final size:32
Alignment explanation
Indices: 1505585--1505652 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
1505575 TTTTTAAATA
1505585 ATATTTAAATTTAATTATTAATTAAATATTAT
1 ATATTTAAATTTAATTATTAATTAAATATTAT
1505617 -TATTTAAATTT-ATT-TTAAATATCAAA-ATTAT
1 ATATTTAAATTTAATTATT-AAT-T-AAATATTAT
1505648 ATATT
1 ATATT
1505653 ATATATTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
29 2 0.06
30 6 0.19
31 17 0.53
32 7 0.22
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (32 bp):
ATATTTAAATTTAATTATTAATTAAATATTAT
Found at i:1516387 original size:65 final size:65
Alignment explanation
Indices: 1516306--1516433 Score: 204
Period size: 65 Copynumber: 2.0 Consensus size: 65
1516296 CTGTAGCACT
* *
1516306 TATGGTCCACGGTTCCCACAAAGAAAGACA-TAGTAAAGCTGAGAAAGCCTAATCCCAATCCCAT
1 TATGGTCCACGGTTCCCACAAAGAAAGA-ATTAGAAAAGCTAAGAAAGCCTAATCCCAATCCCAT
1516370 A
65 A
* *
1516371 TATGGTCCACGGTTCCCACATAGAAAGAATTGGAAAAGCTAAGAAAGCCTAATCCCAATCCCA
1 TATGGTCCACGGTTCCCACAAAGAAAGAATTAGAAAAGCTAAGAAAGCCTAATCCCAATCCCA
1516434 AATCCAATTT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
64 1 0.02
65 57 0.98
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (65 bp):
TATGGTCCACGGTTCCCACAAAGAAAGAATTAGAAAAGCTAAGAAAGCCTAATCCCAATCCCATA
Found at i:1516665 original size:27 final size:27
Alignment explanation
Indices: 1516635--1516686 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
1516625 TTTATTTTAT
1516635 ATTTTATATTT-ATTTTCTAAAACATAG
1 ATTTTATATTTGATTTTC-AAAACATAG
* *
1516662 ATTTTATTTTTGCTTTTCAAAACAT
1 ATTTTATATTTGATTTTCAAAACAT
1516687 GTGTTTCGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.54
Consensus pattern (27 bp):
ATTTTATATTTGATTTTCAAAACATAG
Found at i:1516924 original size:21 final size:21
Alignment explanation
Indices: 1516894--1516933 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1516884 TAAATAATTA
*
1516894 AAAATTAAATTATAATTTTAT
1 AAAATAAAATTATAATTTTAT
*
1516915 AAAATAAAATTATATTTTT
1 AAAATAAAATTATAATTTT
1516934 TACCGATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AAAATAAAATTATAATTTTAT
Found at i:1518360 original size:50 final size:51
Alignment explanation
Indices: 1518303--1518494 Score: 178
Period size: 50 Copynumber: 3.8 Consensus size: 51
1518293 CACCATTTTT
* * *
1518303 TATTGTCAAAGGTTTG-TTAAGAATAGTCAATAATTACGATCACCTCTCTC
1 TATTGTCAAAAGTTTGATGAAGAATAGTCAACAATTACGATCACCTCTCTC
* * * * *
1518353 TACTGTCAAAAG-TTGATGAGGAATAGTTAACAAGTACGGTCACCTCTCT-
1 TATTGTCAAAAGTTTGATGAAGAATAGTCAACAATTACGATCACCTCTCTC
* * ** *
1518402 TGATTGTCAAAAGTTT-ATGAGGAATTGTCAACAATTACGATCATATATCTC
1 T-ATTGTCAAAAGTTTGATGAAGAATAGTCAACAATTACGATCACCTCTCTC
* * * * *
1518453 AATTATC-AAAGATTGATGAAAAATAGTCAATAATTACGATCA
1 TATTGTCAAAAGTTTGATGAAGAATAGTCAACAATTACGATCA
1518495 TTTTTCTTGA
Statistics
Matches: 114, Mismatches: 23, Indels: 10
0.78 0.16 0.07
Matches are distributed among these distances:
49 10 0.09
50 102 0.89
51 2 0.02
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (51 bp):
TATTGTCAAAAGTTTGATGAAGAATAGTCAACAATTACGATCACCTCTCTC
Found at i:1518495 original size:50 final size:50
Alignment explanation
Indices: 1518428--1518542 Score: 158
Period size: 50 Copynumber: 2.3 Consensus size: 50
1518418 ATGAGGAATT
* *
1518428 GTCAACAATTACGATCATATATCTCAATTATCAAAGATTGATGAAAAATA
1 GTCAATAATTACGATCATATATCTCAATTATCAAAGATTGATAAAAAATA
* * ** *
1518478 GTCAATAATTACGATCATTTTTCTTGATTATCAAATATTGATAAAAAATA
1 GTCAATAATTACGATCATATATCTCAATTATCAAAGATTGATAAAAAATA
*
1518528 ATCAATAATTACGAT
1 GTCAATAATTACGAT
1518543 TACTTTTTTG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (50 bp):
GTCAATAATTACGATCATATATCTCAATTATCAAAGATTGATAAAAAATA
Found at i:1518793 original size:2 final size:2
Alignment explanation
Indices: 1518788--1518812 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1518778 TTTAACACAC
1518788 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1518813 AGTAAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1519789 original size:32 final size:34
Alignment explanation
Indices: 1519753--1519834 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 34
1519743 TATATATTGC
*
1519753 TATTGATATATTTT-AATATATTAT-TTTA-AGTT-
1 TATTGATAT-TTTTAAATA-ATTATATATACAGTTA
*
1519785 TATTGATATTTTTTAAATAATTATATATACATTTA
1 TATTGATA-TTTTTAAATAATTATATATACAGTTA
1519820 TATTGATATTTTTAA
1 TATTGATATTTTTAA
1519835 GTTTCTTACA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
32 17 0.40
33 8 0.19
34 10 0.23
35 8 0.19
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (34 bp):
TATTGATATTTTTAAATAATTATATATACAGTTA
Found at i:1519914 original size:23 final size:22
Alignment explanation
Indices: 1519858--1519914 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
1519848 TATTTATATG
1519858 TAAATATAAAT-TTTAAAATTA
1 TAAATATAAATATTTAAAATTA
* *
1519879 TAAATATTTAATATTTAAAATTTT
1 TAAATA-TAAATATTTAAAA-TTA
*
1519903 TAAATATCAATA
1 TAAATATAAATA
1519915 CATATTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 6 0.20
22 4 0.13
23 12 0.40
24 8 0.27
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAATATAAATATTTAAAATTA
Found at i:1520035 original size:15 final size:16
Alignment explanation
Indices: 1520015--1520060 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
1520005 TATATGTAAA
1520015 TATAAAATTTAAAAT-
1 TATAAAATTTAAAATC
*
1520030 TATAAATATTTAATATC
1 TATAAA-ATTTAAAATC
*
1520047 TA-AAATTTTAAAAT
1 TATAAAATTTAAAAT
1520061 ACCAAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 13 0.50
16 11 0.42
17 2 0.08
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
TATAAAATTTAAAATC
Done.